Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold36
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: 4808052
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18886 characters in sequence are not A, C, G, or T
File 4 of 28
Found at i:542294 original size:170 final size:170
Alignment explanation
Indices: 542002--542337 Score: 528
Period size: 170 Copynumber: 2.0 Consensus size: 170
541992 TCAAAAGGCG
* * * *
542002 ATTTCTCAACACCACTTACTAATCGCCATTTCAATTAATAATTTTATATTTTATAATACATTTTA
1 ATTTCTCAACACCACTTACAAATCACCATTTCAATTAATAATTTCATATTTCATAATACATTTTA
* * *
542067 AGATATAGAGTTTAGGGTTAATTGAAATTTAAAACATATGACTAATGCACAAATTTTTTATTAGA
66 AGATATAGAGTTTAGGGTTAATTGAAATCTAAAACACATGACTAATGCACAAATTTTTTATAAGA
542132 TTTTGAAAGATATTAGTAATTTATAAATTATTTATTGGTA
131 TTTTGAAAGATATTAGTAATTTATAAATTATTTATTGGTA
* * *
542172 ATTTCTTAACACCACTTACAAATCATCATTTCAATTAATAATTTCATATTTCATAATAGATTTTA
1 ATTTCTCAACACCACTTACAAATCACCATTTCAATTAATAATTTCATATTTCATAATACATTTTA
* * * * **
542237 GGATATAGGGTTTAGGGTTAATTGAAATCTAAAAGACATGATTAATGCATTAATTTTTTATAAGA
66 AGATATAGAGTTTAGGGTTAATTGAAATCTAAAACACATGACTAATGCACAAATTTTTTATAAGA
542302 TTTTGAAAGATATTAGTAATTTATAAATTATTTATT
131 TTTTGAAAGATATTAGTAATTTATAAATTATTTATT
542338 AAAGTCTAAA
Statistics
Matches: 150, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
170 150 1.00
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (170 bp):
ATTTCTCAACACCACTTACAAATCACCATTTCAATTAATAATTTCATATTTCATAATACATTTTA
AGATATAGAGTTTAGGGTTAATTGAAATCTAAAACACATGACTAATGCACAAATTTTTTATAAGA
TTTTGAAAGATATTAGTAATTTATAAATTATTTATTGGTA
Found at i:542616 original size:133 final size:133
Alignment explanation
Indices: 542399--542640 Score: 328
Period size: 133 Copynumber: 1.8 Consensus size: 133
542389 ATGAGACTGA
* **
542399 TGCATGGATTCTGTTGTTGAATAAATATGATAAATGCATATATTCTTAATAGGAATCAATTTTTT
1 TGCATGGATTCTGTTGTTGAATAAATATGATAAATGCATAAATTCTTAATAGGAATCAATTCCTT
*
542464 TTTATATGAAAGAAGTTGATAAGA-CTAAT-TCATGGATTGTAAATATTAAACTGTAAGGAATAG
66 TTTATATGAAAGAAATTGATAA-ATCTAATGT-ATGGATTGTAAATATTAAACTGTAAGGAATAG
542527 ACTAG
129 ACTAG
* * * * * * * *
542532 TGCATGGATTTTTTTTTTTAATAAATATGATGAATGTATAAATTCTTAATGGGAATTAGATTCCT
1 TGCATGGATTCTGTTGTTGAATAAATATGATAAATGCATAAATTCTTAATAGGAATCA-ATTCCT
542597 TTTTATATGAAA-AAATTGATAAATCTAATGTATGGATTGTAAAT
65 TTTTATATGAAAGAAATTGATAAATCTAATGTATGGATTGTAAAT
542641 GTTAGACAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
132 1 0.01
133 76 0.81
134 17 0.18
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (133 bp):
TGCATGGATTCTGTTGTTGAATAAATATGATAAATGCATAAATTCTTAATAGGAATCAATTCCTT
TTTATATGAAAGAAATTGATAAATCTAATGTATGGATTGTAAATATTAAACTGTAAGGAATAGAC
TAG
Found at i:543939 original size:21 final size:21
Alignment explanation
Indices: 543910--543965 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
543900 AAATTATCCA
543910 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
543931 AATGCATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
543952 AATGTATCGATACA
1 AATGTATCGATACA
543966 ATCTACAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:544096 original size:13 final size:13
Alignment explanation
Indices: 544078--544103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
544068 CATTTTTTTG
544078 TGTATCGATACAT
1 TGTATCGATACAT
544091 TGTATCGATACAT
1 TGTATCGATACAT
544104 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:546669 original size:79 final size:79
Alignment explanation
Indices: 546508--546799 Score: 367
Period size: 79 Copynumber: 3.7 Consensus size: 79
546498 AAACACTAAT
* * *
546508 TTTCT-ATCATCGGGGATACTTCAACCCCGTTAATTTCGAGGGGATACTCCAACCCTCA-GCTTT
1 TTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CC-CAGGCTTT
*
546571 ATTCCTAAAATATTGA
64 ATTTCTAAAATATTGA
546587 TTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCAGGCTTTAT
1 TTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCAGGCTTTAT
*
546652 TTCTAAAATATTAA
66 TTCTAAAATATTGA
* * * * * * *
546666 TTTCTCATAATCGGGGATACTCCATCCCCATTATCTCCGGGGGGATACTCCAACCCCGGTTTTAT
1 TTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCAGGCTTTAT
* *
546731 TT-TCAAATCATCGA
66 TTCTAAAAT-ATTGA
* * * *
546745 TTTTTCACAATCGGGGATACTCCAA-CCCGTTGTTTTCAAGGGGATACTCCAACCC
1 TTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
546800 CATTACTATC
Statistics
Matches: 186, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
78 31 0.17
79 111 0.60
80 44 0.24
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (79 bp):
TTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCAGGCTTTAT
TTCTAAAATATTGA
Found at i:549558 original size:11 final size:11
Alignment explanation
Indices: 549538--549572 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
549528 CGAAAACCAT
*
549538 CTTTTTAAACA
1 CTTTTCAAACA
549549 CTTTTCAAACA
1 CTTTTCAAACA
549560 CTTTTCAAACA
1 CTTTTCAAACA
549571 CT
1 CT
549573 CAAATTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (11 bp):
CTTTTCAAACA
Found at i:550988 original size:20 final size:20
Alignment explanation
Indices: 550963--551020 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
550953 TGTTCATAAT
*
550963 TAAATTGTATTGATACATGG
1 TAAATTGTATCGATACATGG
550983 TAAATTGTATCGATACATGG
1 TAAATTGTATCGATACATGG
551003 TAAATTGTATCGATACAT
1 TAAATTGTATCGATACAT
551021 TGAGCCCAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (20 bp):
TAAATTGTATCGATACATGG
Found at i:551513 original size:35 final size:34
Alignment explanation
Indices: 551462--551527 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
551452 TAAGTGATTG
*
551462 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTCG-AAAAGATAGGGA
*
551497 AGAGGTTCTATTTTAGCCTTCGAAAAGATAG
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAG
551528 TGTTGTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTCGAAAAGATAGGGA
Found at i:560276 original size:34 final size:34
Alignment explanation
Indices: 560226--560441 Score: 292
Period size: 34 Copynumber: 6.4 Consensus size: 34
560216 ATGATATTCG
* * *
560226 TGTTGATTAAAT-GGTGATTTAGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
560259 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
560293 TGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
560326 TGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
560360 TGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
560394 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
560428 TGTTGATTAAATGG
1 TGTTGATTAAATGG
560442 TGGTTTTTAC
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 40 0.25
34 122 0.75
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:560407 original size:68 final size:67
Alignment explanation
Indices: 560226--560443 Score: 319
Period size: 67 Copynumber: 3.2 Consensus size: 67
560216 ATGATATTCG
* * * * *
560226 TGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
560291 AT
66 AT
* * * *
560293 TGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
560358 AT
66 AT
* * *
560360 TGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGC
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGC
560425 CAT
65 CAT
560428 TGTTGATTAAATGGTG
1 TGTTGATTAAATGGTG
560444 GTTTTTACCA
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 73 0.54
68 61 0.46
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (67 bp):
TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
AT
Found at i:560799 original size:19 final size:19
Alignment explanation
Indices: 560743--560805 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
560733 TGGTTGTCGA
**
560743 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
560762 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
560781 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
560800 GTTACT
1 GGTACT
560806 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:564940 original size:34 final size:34
Alignment explanation
Indices: 564871--565088 Score: 296
Period size: 34 Copynumber: 6.5 Consensus size: 34
564861 AAGTGGGAGA
* * *
564871 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
564904 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
564938 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
564971 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
565005 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
565039 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
565073 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
565089 TGGTTTTTAC
Statistics
Matches: 164, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 42 0.26
34 122 0.74
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:565054 original size:68 final size:67
Alignment explanation
Indices: 564871--565090 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
564861 AAGTGGGAGA
* * * * *
564871 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
564936 CC
66 CC
* * * *
564938 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
565003 CC
66 CC
* * *
565005 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTT
565070 GCC
65 GCC
565073 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
565091 GTTTTTACCA
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (67 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
CC
Found at i:565848 original size:13 final size:13
Alignment explanation
Indices: 565832--565857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
565822 GATTTATGTT
565832 AACTATTTTTTTA
1 AACTATTTTTTTA
565845 AACTATTTTTTTA
1 AACTATTTTTTTA
565858 GCAATACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
AACTATTTTTTTA
Found at i:567298 original size:17 final size:17
Alignment explanation
Indices: 567276--567312 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
567266 GTGTTGTGAC
567276 TTCTTTTCATTTTTCTT
1 TTCTTTTCATTTTTCTT
* *
567293 TTCTTTTCTTTTTTGTT
1 TTCTTTTCATTTTTCTT
567310 TTC
1 TTC
567313 GTGGAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (17 bp):
TTCTTTTCATTTTTCTT
Found at i:570230 original size:3 final size:3
Alignment explanation
Indices: 570222--570251 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
570212 AAATAAAAAA
570222 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
570252 CATAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:570452 original size:5 final size:5
Alignment explanation
Indices: 570438--570476 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
570428 AGGGTAATGA
570438 AAGA- AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG -AGAG A
1 AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG A
570477 CCTGTGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 8 0.24
5 25 0.76
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:570928 original size:2 final size:2
Alignment explanation
Indices: 570921--570945 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
570911 AGTCAAGTTC
570921 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 A
570946 ACATTTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:571791 original size:2 final size:2
Alignment explanation
Indices: 571784--571812 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
571774 GTATATTGAA
571784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
571813 CATGATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:572720 original size:2 final size:2
Alignment explanation
Indices: 572678--572711 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
572668 AGTTGACTTA
572678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
572712 GAGATATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:573298 original size:22 final size:21
Alignment explanation
Indices: 573238--573299 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
573228 TGAAGTGCAT
* *
573238 AATTTTTTTAGAAAAATAATA
1 AATTTTTATAAAAAAATAATA
*
573259 AGTTTTTCA-AAAACAAATAAGTA
1 AATTTTT-ATAAAA-AAATAA-TA
573282 AATTTTTATAAAAAAATA
1 AATTTTTATAAAAAAATA
573300 TTATAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 9 0.27
22 12 0.36
23 12 0.36
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (21 bp):
AATTTTTATAAAAAAATAATA
Found at i:574613 original size:16 final size:16
Alignment explanation
Indices: 574590--574630 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
574580 AGCGTTCCCT
574590 GCAGCAACACTCCT-TA
1 GCAGCAACACT-CTGTA
*
574606 GGAGCAACACTCTGTA
1 GCAGCAACACTCTGTA
574622 GCAGCAACA
1 GCAGCAACA
574631 TTTTGGCGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.34, C:0.32, G:0.20, T:0.15
Consensus pattern (16 bp):
GCAGCAACACTCTGTA
Found at i:575922 original size:15 final size:13
Alignment explanation
Indices: 575905--575943 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
575895 AATTACATAA
*
575905 TATATAATATTTT
1 TATATATTATTTT
575918 TATAT-TTATTTAT
1 TATATATTATTT-T
575931 TATATATTATTTT
1 TATATATTATTTT
575944 ATAAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 5 0.22
13 12 0.52
14 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATATATTATTTT
Found at i:575958 original size:23 final size:24
Alignment explanation
Indices: 575932--575998 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
575922 TTTATTTATT
575932 ATATATTATTTTATAAATA-ATAA
1 ATATATTATTTTATAAATATATAA
**
575955 ATATATTATAATATAAATATTATAA
1 ATATATTATTTTATAAATA-TATAA
* *
575980 ATATTTATATTTTAAAAAT
1 ATATAT-TATTTTATAAAT
575999 TAACAAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 17 0.49
25 9 0.26
26 9 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATATTATTTTATAAATATATAA
Found at i:575959 original size:25 final size:25
Alignment explanation
Indices: 575901--575998 Score: 67
Period size: 26 Copynumber: 3.9 Consensus size: 25
575891 TTCTAATTAC
* **
575901 ATAATATATAATATTTTTATATTTAT
1 ATAATATATATTA-TTTTATAAATAT
* *
575927 TTATTATATATTATTTTATAAATA-
1 ATAATATATATTATTTTATAAATAT
**
575951 ATAA-ATATATTATAATATAAATATT
1 ATAATATATATTATTTTATAAATA-T
* *
575976 ATAA-ATATTTATATTTTAAAAAT
1 ATAATATATAT-TATTTTATAAAT
575999 TAACAAAATA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
23 17 0.30
24 2 0.04
25 18 0.32
26 19 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATAATATATATTATTTTATAAATAT
Found at i:576696 original size:21 final size:20
Alignment explanation
Indices: 576668--576711 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
576658 TAAAGTTTAT
*
576668 AAAAAAAT-TATTAAATATAA
1 AAAAAAATAAATTAAA-ATAA
576688 AAAATAAATAAATTAAAATAA
1 AAAA-AAATAAATTAAAATAA
576709 AAA
1 AAA
576712 TTTTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAAAATAAATTAAAATAA
Found at i:576866 original size:50 final size:50
Alignment explanation
Indices: 576810--576939 Score: 215
Period size: 50 Copynumber: 2.6 Consensus size: 50
576800 CACGTAACAT
*
576810 TTCATGCATGCATTTTTATTTCATGCATGCATTTCATAAAAATTTCAAGC
1 TTCATGCATGCATTTTCATTTCATGCATGCATTTCATAAAAATTTCAAGC
* *
576860 TTCATGCATGCATTTTCATTTCATGCATGCATTTCATAAACATTTCATGC
1 TTCATGCATGCATTTTCATTTCATGCATGCATTTCATAAAAATTTCAAGC
576910 TTCATGCATGCAAATTTTCATTTCATGCAT
1 TTCATGCATGC--ATTTTCATTTCATGCAT
576940 ACATGCATTT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
50 58 0.77
52 17 0.23
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (50 bp):
TTCATGCATGCATTTTCATTTCATGCATGCATTTCATAAAAATTTCAAGC
Found at i:577553 original size:19 final size:19
Alignment explanation
Indices: 577529--577596 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
577519 AATTCAACAA
577529 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
577548 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
577563 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
577580 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
577597 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:577568 original size:13 final size:13
Alignment explanation
Indices: 577550--577574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
577540 ACATAAGTTT
577550 TGTATCGATACAA
1 TGTATCGATACAA
577563 TGTATCGATACA
1 TGTATCGATACA
577575 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:577572 original size:32 final size:32
Alignment explanation
Indices: 577531--577593 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
577521 TTCAACAATT
*
577531 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
577563 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
577594 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:577654 original size:13 final size:13
Alignment explanation
Indices: 577636--577661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
577626 CATTTTTCTG
577636 TGTATCGATACAT
1 TGTATCGATACAT
577649 TGTATCGATACAT
1 TGTATCGATACAT
577662 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:577658 original size:33 final size:33
Alignment explanation
Indices: 577616--577682 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
577606 GCCAAAGAAA
***
577616 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
577649 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
577682 T
1 T
577683 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:580091 original size:51 final size:52
Alignment explanation
Indices: 580035--580203 Score: 234
Period size: 52 Copynumber: 3.3 Consensus size: 52
580025 AATTCTCCAC
* *
580035 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCCTAT
* * * *
580086 AATCGGGGATACTCAAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCCTAT
* *
580138 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTC-AC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACCAATTTTCCTAT
*
580190 AATCGAGGATACTC
1 AATCGGGGATACTC
580204 TAACCTCGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
51 42 0.41
52 46 0.45
53 15 0.15
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCCTAT
Found at i:580370 original size:79 final size:79
Alignment explanation
Indices: 580224--580425 Score: 208
Period size: 79 Copynumber: 2.6 Consensus size: 79
580214 ATTTTATCGG
* * * * *
580224 GGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATGTTGA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATCGA
* **
580289 TTTCTCATAATTGA
66 TTTCTCACAACCGA
* * * * ** *
580303 GGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCATCG
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-ATCG
*
580367 ATTTCTCACAACCGG
65 ATTTCTCACAACCGA
* * * *
580382 GGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
580426 TTATTATCTC
Statistics
Matches: 100, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
78 3 0.03
79 97 0.97
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATCGA
TTTCTCACAACCGA
Found at i:592838 original size:10 final size:10
Alignment explanation
Indices: 592823--592884 Score: 63
Period size: 10 Copynumber: 6.0 Consensus size: 10
592813 ACCTTCTCTT
592823 AAAAAAAGAA
1 AAAAAAAGAA
*
592833 AAAAAAACAA
1 AAAAAAAGAA
592843 AAAAAAA-AA
1 AAAAAAAGAA
592852 CAAAACAAAGAA
1 -AAAA-AAAGAA
* *
592864 AAAGAGAGAA
1 AAAAAAAGAA
592874 AAGAAAAAGAA
1 AA-AAAAAGAA
592885 CCTACTTAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 2 0.05
10 27 0.63
11 12 0.28
12 2 0.05
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:592846 original size:12 final size:12
Alignment explanation
Indices: 592831--592856 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
592821 TTAAAAAAAG
592831 AAAAAAAAACAA
1 AAAAAAAAACAA
592843 AAAAAAAAACAA
1 AAAAAAAAACAA
592855 AA
1 AA
592857 CAAAGAAAAA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:592846 original size:17 final size:17
Alignment explanation
Indices: 592823--592866 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
592813 ACCTTCTCTT
*
592823 AAAAAAAGAAAAAAAAAC
1 AAAAAAA-AAAACAAAAC
592841 AAAAAAAAAAACAAAAC
1 AAAAAAAAAAACAAAAC
592858 AAAGAAAAA
1 AAA-AAAAA
592867 GAGAGAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.89, C:0.07, G:0.05, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAACAAAAC
Found at i:593981 original size:59 final size:59
Alignment explanation
Indices: 593851--594626 Score: 878
Period size: 59 Copynumber: 13.3 Consensus size: 59
593841 TCCGCTTTTT
* * * * **
593851 AGTCCTTAGAGAGCAGGATGCCTTTTCCTTTTAAAAGCCC-CACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATG-CTTTTTCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-C
*
593912 AGTCCTCAAAGAGCATGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
593971 AGTCCTCAAAGAGCGGGACGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
** *
594030 AGTCCTCAAAGAGCAGGACACCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
594089 AGTCCTCAAATAGTAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * *
594148 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
594207 AGTCCTCAAAGAGCAGGATGCTTTTGC-CTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTC-TT-AAAGCCCACACAAGTTGGTGGCACCTTC
*
594267 AGTCCTCAAAGAGCAGGATGCTTTTGC-CTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTC-TT-AAAGCCCACACAAGTTGGTGGCACCTTC
*
594327 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* *** **
594388 AGTCCCCAAAGAGCAGGA--CCCCTT-TC--AAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCA-CCTTC
* *** **
594443 AGTCCTCAAAGAGTAGGA--CACCTT-TC--AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT-C
** *
594498 AGTCCTCAAAGAGCAGGA--C---ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * * *
594553 AGTCCTCAAAGAGCAGGACGC--CTT-TC--AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
594608 AGTCCTCAAAGAGCAGGAT
1 AGTCCTCAAAGAGCAGGAT
594627 ACACTTTATT
Statistics
Matches: 648, Mismatches: 52, Indels: 36
0.88 0.07 0.05
Matches are distributed among these distances:
53 2 0.00
54 4 0.01
55 176 0.27
56 2 0.00
57 3 0.00
58 1 0.00
59 256 0.40
60 167 0.26
61 37 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:594694 original size:42 final size:42
Alignment explanation
Indices: 594609--594695 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
594599 GCACTTTTTA
* * *
594609 GTCCTCAAAGAGCAGGATACACTTTATTTTCCTCTTTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCCCTCTTTCCTTT
* * *
594651 GTCCTCAGAGAGCAGGACATA-TTTCATTTCCCTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTT-ATTTCCCTCTTTCCTTT
594693 GTC
1 GTC
594696 TTTGGAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACACTTTATTTCCCTCTTTCCTTT
Found at i:595435 original size:19 final size:19
Alignment explanation
Indices: 595411--595465 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
595401 AATTCAACAA
595411 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
595430 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
595449 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
595466 TTAGCTACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:598020 original size:52 final size:51
Alignment explanation
Indices: 597889--598060 Score: 222
Period size: 52 Copynumber: 3.4 Consensus size: 51
597879 AATTCTCCAC
* *
597889 AATCGGGGATATTCCAACTCCGATTTTATTTTTAAAACACTAATTTTCTAT
1 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTAT
* * * *
597940 AATC-GGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACCAATTTT-CTAT
*
597991 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAAACACCAATTTT-TCAC
1 AATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACCAATTTTCT-AT
* *
598043 AATCGAGGATACTCCAAC
1 AATCGGGGATATTCCAAC
598061 CTCGTTATTT
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
50 37 0.36
51 12 0.12
52 41 0.39
53 14 0.13
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.35
Consensus pattern (51 bp):
AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTAT
Found at i:598080 original size:28 final size:28
Alignment explanation
Indices: 598044--598120 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
598034 ATTTTTCACA
* *
598044 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
*
598072 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
***
598100 CGAGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
598121 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:598298 original size:79 final size:77
Alignment explanation
Indices: 598074--598307 Score: 234
Period size: 79 Copynumber: 2.9 Consensus size: 77
598064 GTTATTTCAT
* * * * *
598074 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-CCGTTTTATT-CCAAAACAT
* * *
598139 TGATTTCTCATAAT
64 TAATTTCTCACAAC
* * * * * *
598153 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG--TTTTATTCCAAAACAT
598218 TAATTTCTCACAAC
64 TAATTTCTCACAAC
* * * * *
598232 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCGTTATTATCTCCGAAACAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTT-TTAT-TCCAAAACAT
598297 TAAATTTCTCA
64 T-AATTTCTCA
598308 TCGGGAAATA
Statistics
Matches: 126, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
77 2 0.02
78 5 0.04
79 105 0.83
80 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTTTTATTCCAAAACATTA
ATTTCTCACAAC
Found at i:599367 original size:22 final size:22
Alignment explanation
Indices: 599337--599378 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
599327 GTTTTTTTCC
*
599337 AGCTTCCACGGACAG-CTCCAGT
1 AGCTCCCACGGA-AGCCTCCAGT
599359 AGCTCCCACGGAAGCCTCCA
1 AGCTCCCACGGAAGCCTCCA
599379 ATCCACGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.24, C:0.40, G:0.21, T:0.14
Consensus pattern (22 bp):
AGCTCCCACGGAAGCCTCCAGT
Found at i:607339 original size:273 final size:270
Alignment explanation
Indices: 606822--607364 Score: 802
Period size: 273 Copynumber: 2.0 Consensus size: 270
606812 TGGGTCATAC
* *
606822 TGAAAGCTCAAGGAATAATGAACTAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTGCAAATTT
1 TGAAAGCTCAAGGAATAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTCCAAATTT
** * * *
606887 TGAAAGAATTGGTGCAAAATAATTCGAAGGACAAGAGGAAGAAATAATCGACACAAAGGTTTATA
66 TGAAAGAATTGGTGCAAAATAATTCGAAAAACAAGAAGAAAAAACAATCGACACAAAGGTTTATA
* * ** * *
606952 GAGGTTCGATCCAAATTGGTACCTACATCCTTATCCTCCACACTTTCTTGTCGAGTGGTTATCCA
131 AAGGTTCGATCCAAATTGGCACCTACATCCTTATCCTCCACACTCCCTTATCGAGTGGTTACCCA
**
607017 ATTCACTACTAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCTTATCTCTTAAAG
196 ATTCACTAAAAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCTTATCTCTTAAAG
607082 GCTAAGATAA
261 GCTAAGATAA
*
607092 TGAAAGCTCAAGGAATAATGAACCAAGAGGGGGGGTGAATTGGTTCTTTTCGAATTTTTCCTAA-
1 TGAAAGCTCAAGGAATAATGAACCAAGA-GGGGGGTGAATTGGTTCTTTTCGAA-TTTTCCAAAT
* * * *
607156 TTTGAAAGGATTGGTGCGAAGTAATTCGAAAAACAA-AAGAAAAAAGCAATTGACACAAAAGGTT
64 TTTGAAAGAATTGGTGCAAAATAATTCGAAAAACAAGAAGAAAAAA-CAATCGACAC-AAAGGTT
* * **
607220 TATAAAGGTTCGGTCCAAATTGGCACCTACATCCTCTCTCCTTGACACTCCCTTATCGAGTGGTT
127 TATAAAGGTTCGATCCAAATTGGCACCTACATCCT-TATCCTCCACACTCCCTTATCGAGTGGTT
*
607285 ACCCAATTCACTAAAAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCTTATCTTT
191 ACCCAATTCACTAAAAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCTTATCTCT
607350 TAAAGGCTAAGATAA
256 TAAAGGCTAAGATAA
607365 CAACCTCTTA
Statistics
Matches: 243, Mismatches: 25, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
270 34 0.14
271 64 0.26
272 46 0.19
273 99 0.41
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (270 bp):
TGAAAGCTCAAGGAATAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTCCAAATTT
TGAAAGAATTGGTGCAAAATAATTCGAAAAACAAGAAGAAAAAACAATCGACACAAAGGTTTATA
AAGGTTCGATCCAAATTGGCACCTACATCCTTATCCTCCACACTCCCTTATCGAGTGGTTACCCA
ATTCACTAAAAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCTTATCTCTTAAAG
GCTAAGATAA
Found at i:607853 original size:20 final size:20
Alignment explanation
Indices: 607828--607880 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
607818 GTTACATGCT
607828 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
607848 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
607868 ATGTATCGATACA
1 ATGTATCGATACA
607881 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:608548 original size:22 final size:20
Alignment explanation
Indices: 608499--608552 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
608489 TTAAAAAAAA
* *
608499 ATTCTCCCTCTTAAACGATT
1 ATTCTCCCCCTTAAACAATT
608519 A-TCTCCCCCTTAAACAATT
1 ATTCTCCCCCTTAAACAATT
608538 ATCTTCTCCCCCTTA
1 A--TTCTCCCCCTTA
608553 TGTAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 17 0.59
20 1 0.03
22 11 0.38
ACGTcount: A:0.24, C:0.37, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTCTCCCCCTTAAACAATT
Found at i:610276 original size:21 final size:21
Alignment explanation
Indices: 610238--610278 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
610228 ATGATTTTGA
610238 TGAAAAAAGAAAGTATTTGTAG
1 TGAAAAAAGAAAG-ATTTGTAG
610260 TGAAAAACAGAAA-ATTTGT
1 TGAAAAA-AGAAAGATTTGT
610279 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.51, C:0.02, G:0.20, T:0.27
Consensus pattern (21 bp):
TGAAAAAAGAAAGATTTGTAG
Found at i:610417 original size:13 final size:13
Alignment explanation
Indices: 610396--610437 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
610386 AAATAGTACC
*
610396 CAATGTATCGGTA
1 CAATGTATCGATA
*
610409 CATTGTATCGATA
1 CAATGTATCGATA
*
610422 CAATGTATTGATA
1 CAATGTATCGATA
610435 CAA
1 CAA
610438 GGAATGTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:616555 original size:33 final size:34
Alignment explanation
Indices: 616513--616581 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
616503 GTTACATGCT
616513 ATGTATCGATACATT-T-CTTCATGTATCGATA-AA
1 ATGTATCGATACATTGTAC--CATGTATCGATATAA
616546 ATGTATCGATACATTGTACCATGTATCGATATAA
1 ATGTATCGATACATTGTACCATGTATCGATATAA
616580 AT
1 AT
616582 AGTGATAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
33 27 0.82
34 5 0.15
35 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (34 bp):
ATGTATCGATACATTGTACCATGTATCGATATAA
Found at i:617457 original size:13 final size:13
Alignment explanation
Indices: 617439--617469 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
617429 ATATTTCATC
617439 ATGTATCGATACA
1 ATGTATCGATACA
617452 ATGTATCGATACA
1 ATGTATCGATACA
*
617465 TTGTA
1 ATGTA
617470 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:617457 original size:33 final size:33
Alignment explanation
Indices: 617419--617482 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
617409 GTTACAAGCT
* *
617419 ATGTATCGATATATT-TCATCATGTATCGATACA
1 ATGTATCGATACATTGT-ACCATGTATCGATACA
617452 ATGTATCGATACATTGTACCATGTATCGATA
1 ATGTATCGATACATTGTACCATGTATCGATA
617483 AAATAGTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:617557 original size:19 final size:20
Alignment explanation
Indices: 617513--617563 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
617503 CTGCCAATTT
* **
617513 CATGTATCGATACAATTGTT
1 CATGTATCGATACAAGTGAG
617533 CATGTATCGATAC-AGTGAG
1 CATGTATCGATACAAGTGAG
617552 CATGTATCGATA
1 CATGTATCGATA
617564 TAATGTATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAAGTGAG
Found at i:646026 original size:32 final size:32
Alignment explanation
Indices: 645942--647025 Score: 1297
Period size: 32 Copynumber: 35.2 Consensus size: 32
645932 AATATGGTGA
* * * **
645942 TTTGAAAAGGGTTGCCACTGAATTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
645974 TTTTAAATGGTGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
*
646007 TTTGAAATGAGTTGCCACCGACTTGTGT-GGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
646038 -TTGGAATGGGTTGCCA-CGACTTGTGTGGGTT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGG-C
646069 TTTG-AATGGGTTG-CACCGACTTGTGT--GC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
646097 TTTGAAATGGGTTGCCACCGACTTGTGT-GGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646128 TTTGAAATGAG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646159 TTTGGAATGGGTTGCCACCG-CTTGTGTGGG-
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646189 TTTGAAATGGTTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
646221 TTTGAAATGGGTTGCCACCGACCTTGT-TGTGGC
1 TTTGAAATGGGTTGCCACCGA-CTTGTGTG-GGC
646254 TTTGAAATGGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAT-GGGTTGCCACCGACTTGTGTGGGC
*
646287 -TTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
646318 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
646350 TTTGAAAT-GGTTGCCACCGGACTTTGTGTGGGC
1 TTTGAAATGGGTTGCCACC-GAC-TTGTGTGGGC
* *
646383 TTTGGAATGGGTTGCCACCGCCTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646415 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
646447 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
646479 TTTTGAAATGGGTTGCCACCGAC-T-TGTGGGC
1 -TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
646510 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646542 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGG-C
*
646575 TTTGGAATGGGTTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TTGCCACCGACTTGTGTGGGC
646608 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
646640 TTTGAAATGGGTTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* **
646670 TCTGAAA-GGG-TGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * * *
646698 TCTGAAAAGAG-TGCCACTGGC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646727 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
* ** *
646756 TTTGAAA--GGATGCCAATGA-GT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646784 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646812 TTTGAAAT-GG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
646840 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646872 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
646904 TTTGGAATGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646933 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
646961 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646990 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
647019 TTTGAAA
1 TTTGAAA
647026 GGGATGAACA
Statistics
Matches: 967, Mismatches: 45, Indels: 83
0.88 0.04 0.08
Matches are distributed among these distances:
27 1 0.00
28 131 0.14
29 140 0.14
30 110 0.11
31 119 0.12
32 307 0.32
33 114 0.12
34 45 0.05
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:646301 original size:97 final size:96
Alignment explanation
Indices: 645942--647022 Score: 1246
Period size: 97 Copynumber: 11.7 Consensus size: 96
645932 AATATGGTGA
* * * ** *
645942 TTTGAAAAGGGTTGCCACTGAATTGCATGGGCTTTTAAATGGTGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
* *
646007 TTTGAAATGAGTTGCCACCGACTTGTGT-GGC
65 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* *
646038 -TTGGAATGGGTTGCCA-CGACTTGTGTGGGTTTTTG-AATGGGTTG-CACCGACTTGTGT--GC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGG-CTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
646097 TTTGAAATGGGTTGCCACCGACTTGTGT-GGC
65 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* *
646128 TTTGAAATGAG-TGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCG-CTTGTGTGGG-T
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
* *
646190 TTGAAATGGTTTGCCACCGACTTGTGTGGGC
66 TTGGAATGGGTTGCCACCGACTTGTGTGGGC
646221 TTTGAAATGGGTTGCCACCGACCTTGT-TGTGGCTTTGAAATGGGGTTGCCACCGACTTGTGTGG
1 TTTGAAATGGGTTGCCACCGA-CTTGTGTG-GGCTTTGAAAT-GGGTTGCCACCGACTTGTGTGG
646285 GC-TTGGAATGGGTTGCCACCGACTTGTGTGGGC
63 GCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
646318 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCGGACTTTGTGTGGG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC-GAC-TTGTGTGGG
*
646382 CTTTGGAATGGGTTGCCACCGCCTTGTGTGGGC
64 CTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
646415 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC-
*
646480 TTTGAAATGGGTTGCCACCGAC-T-TGTGGGC
65 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
646510 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGG-C
646575 TTTGGAATGGGTTTGCCACCGACTTGTGTGGGC
65 TTTGGAATGGG-TTGCCACCGACTTGTGTGGGC
646608 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGAC-T-TGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
* * **
646671 CT-GAAAGGG-TGCCACTAAC-T-TGTGGGC
66 TTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * * * * *
646698 TCTGAAAAGAG-TGCCACTGGC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
* * ** *
646756 TTT-GAA-AGGATGCCAATGA-GT-TGTGGGC
65 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* *
646784 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGAAAT-GG-TGCCACTGAC-T-TGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
*
646841 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
646872 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGAG-TGCCACTGAC-T-TGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
* *
646934 TT-GAAAGGG-TGCCACTGAC-T-TGTGGGC
66 TTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
646961 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
647019 TTTG
65 TTTG
647023 AAAGGGATGA
Statistics
Matches: 885, Mismatches: 61, Indels: 87
0.86 0.06 0.08
Matches are distributed among these distances:
84 22 0.02
85 32 0.04
86 89 0.10
87 18 0.02
88 22 0.02
89 26 0.03
90 66 0.07
91 48 0.05
92 72 0.08
93 40 0.05
94 41 0.05
95 116 0.13
96 67 0.08
97 156 0.18
98 70 0.08
ACGTcount: A:0.16, C:0.18, G:0.34, T:0.31
Consensus pattern (96 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
TTGGAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:646355 original size:129 final size:127
Alignment explanation
Indices: 645942--647022 Score: 1317
Period size: 129 Copynumber: 8.8 Consensus size: 127
645932 AATATGGTGA
* * * ** *
645942 TTTGAAAAGGGTTGCCACTGAATTGCATGGGCTTTTAAATGGTGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGT-GGC
* *
646007 TTTGAAATGAGTTGCCACCGACTTGTGT-GGC-TTGGAATGGGTTGCCA-CGACTTGTGTGGGTT
64 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGG-C
646069 TTTG-AATGGGTTG-CACCGACTTGTGT--GCTTTGAAATGGGTTGCCACCGACTTGTGTGGCTT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGCTT
*
646130 TGAAATGAG-TGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCG-CTTGTGTGGG-
66 TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
646189 TTTGAAATGGTTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACCTTGTTGTGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGA-CTTG-TGTGGC
646254 TTTGAAATGGGGTTGCCACCGACTTGTGTGGGC-TTGGAATGGGTTGCCACCGACTTGTGTGGGC
64 TTTGAAAT-GGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
646318 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCGGACTTTGTGTGGG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC-GAC-TTGTGT-GG
* *
646382 CTTTGGAATGGGTTGCCACCGCCTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
63 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
646447 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTTGAAATGGGTTGCCACCGACTTGTG-GGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC-TTTGAAATGGGTTGCCACCGACTTGTGTGGCT
646511 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCC
65 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGG-C
*
646575 TTTGGAATGGGTTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGT-GGC
* * **
646640 TTTGAAATGGGTTGCCACCGAC-T-TGTGGGCTCT-GAAAGGG-TGCCACTAAC-T-TGTGGGC
64 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * * * * *
646698 TCTGAAAAGAG-TGCCACTGGC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTGACTTGTG-GGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGTGGCT
* ** * * *
646757 TTGAAA--GGATGCCAATGA-GT-TGTGGGCTTT-GAAAGGG-TGCCACTGAC-T-TGTGGGC
65 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
646812 TTTGAAAT-GG-TGCCACTGAC-T-TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGT-GGCT
* * *
646873 TTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGAG-TGCCACTGAC-T-TGTGGGC
65 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * * * *
646933 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGATTTGTG-GGCTT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGCTT
*
646992 TGAAA-GGAG-TGCCACTGAC-T-TGTGGGCTTTG
66 TGAAATGG-GTTGCCACCGACTTGTGTGGGCTTTG
647023 AAAGGGATGA
Statistics
Matches: 870, Mismatches: 48, Indels: 84
0.87 0.05 0.08
Matches are distributed among these distances:
113 26 0.03
114 65 0.07
115 11 0.01
116 20 0.02
117 11 0.01
118 35 0.04
119 16 0.02
120 44 0.05
121 92 0.11
122 57 0.07
123 21 0.02
124 29 0.03
125 14 0.02
126 30 0.03
127 95 0.11
128 114 0.13
129 144 0.17
130 36 0.04
131 10 0.01
ACGTcount: A:0.16, C:0.18, G:0.34, T:0.31
Consensus pattern (127 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGCTT
TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:648276 original size:13 final size:13
Alignment explanation
Indices: 648260--648293 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
648250 TTTTTGCTAA
648260 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
*
648273 TTTTTGTTTTGTT
1 TTTTTTTTTTGTT
648286 TTTTTTTT
1 TTTTTTTT
648294 GGGGTGTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:662349 original size:20 final size:20
Alignment explanation
Indices: 662302--662376 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
662292 AAAAAGACAT
*
662302 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
662321 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
662342 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
662362 AATGTATCGATACAT
1 AATGTATCGATACAT
662377 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:662370 original size:40 final size:39
Alignment explanation
Indices: 662299--662376 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
662289 GGTAAAAAGA
* *
662299 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
662338 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
662377 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:663581 original size:2 final size:2
Alignment explanation
Indices: 663574--663617 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
663564 CTTCATTTAA
* *
663574 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
663616 AT
1 AT
663618 TATTTCTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:663618 original size:8 final size:8
Alignment explanation
Indices: 663568--663618 Score: 66
Period size: 8 Copynumber: 6.4 Consensus size: 8
663558 TAGCTGCTTC
*
663568 ATTTAAAT
1 ATTTATAT
*
663576 ATATATAT
1 ATTTATAT
*
663584 ATATATAT
1 ATTTATAT
*
663592 ATATATAT
1 ATTTATAT
663600 ATTTATAT
1 ATTTATAT
663608 ATTTATAT
1 ATTTATAT
663616 ATT
1 ATT
663619 ATTTCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTTATAT
Found at i:668455 original size:13 final size:13
Alignment explanation
Indices: 668437--668461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
668427 CAAAGATCAT
668437 TGTATCGATACAA
1 TGTATCGATACAA
668450 TGTATCGATACA
1 TGTATCGATACA
668462 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:668521 original size:13 final size:13
Alignment explanation
Indices: 668499--668588 Score: 63
Period size: 13 Copynumber: 6.0 Consensus size: 13
668489 GGCAGTAGCT
*
668499 TTGTAACGATACA
1 TTGTATCGATACA
668512 TTGTATCGATACAAAA
1 TTGTATCGATAC---A
668528 CTTATGTATCGATACA
1 --T-TGTATCGATACA
668544 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
668560 CTTATGTATCGATACA
1 --T-TGTATCGATACA
668576 TTGTATCGATACA
1 TTGTATCGATACA
668589 ACACTTTATG
Statistics
Matches: 64, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 32 0.50
14 2 0.03
16 8 0.12
18 2 0.03
19 20 0.31
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:668537 original size:19 final size:18
Alignment explanation
Indices: 668513--668610 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
668503 AACGATACAT
668513 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
668532 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
668545 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
668564 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
668577 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
668597 TGTATCGATACAAA
1 TGTATCGATACAAA
668611 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:668546 original size:32 final size:32
Alignment explanation
Indices: 668500--668608 Score: 191
Period size: 32 Copynumber: 3.4 Consensus size: 32
668490 GCAGTAGCTT
* *
668500 TGTAACGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
668532 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
668564 TGTATCGATACATTGTATCGATACAACACTTTA
1 TGTATCGATACATTGTATCGATACAACAC-TTA
668597 TGTATCGATACA
1 TGTATCGATACA
668609 AATCGTTGAA
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 59 0.80
33 15 0.20
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:675707 original size:52 final size:52
Alignment explanation
Indices: 675507--675687 Score: 308
Period size: 52 Copynumber: 3.5 Consensus size: 52
675497 CGAAATATGA
675507 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
675559 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
675611 AAATTTGCCTGCATGTATTGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
675663 AAATTTGCCTGCATGTATTGATACA
1 AAATTTGCCTACATGTATCGATACA
675688 AAGATCAGTG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:675714 original size:13 final size:13
Alignment explanation
Indices: 675696--675720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
675686 CAAAGATCAG
675696 TGTATCGATACAA
1 TGTATCGATACAA
675709 TGTATCGATACA
1 TGTATCGATACA
675721 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:675799 original size:32 final size:32
Alignment explanation
Indices: 675758--675858 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
675748 GGCAGTAGCT
* *
675758 TACATTGTATCGATACAAAACTTATGTATTGA
1 TACATTGTATCGATACAACACTTATGTATCGA
675790 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
675822 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
675855 TACA
1 TACA
675859 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 51 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:675804 original size:13 final size:13
Alignment explanation
Indices: 675782--675838 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
675772 ACAAAACTTA
*
675782 TGTATTGATACAT
1 TGTATCGATACAT
675795 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
675813 ATGTATCGATACAT
1 -TGTATCGATACAT
675827 TGTATCGATACA
1 TGTATCGATACA
675839 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:675819 original size:19 final size:19
Alignment explanation
Indices: 675763--675859 Score: 83
Period size: 19 Copynumber: 5.7 Consensus size: 19
675753 TAGCTTACAT
*
675763 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
675782 TGTATTGAT---ACA--T-
1 TGTATCGATACAACACTTA
675795 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
675814 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
675827 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
675847 TGTATCGATACAA
1 TGTATCGATACAA
675860 ATCGTTGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 25
0.69 0.03 0.28
Matches are distributed among these distances:
13 17 0.27
14 2 0.03
16 11 0.18
18 1 0.02
19 18 0.29
20 13 0.21
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:675937 original size:21 final size:21
Alignment explanation
Indices: 675896--675937 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
675886 GTTGGGACCT
* *
675896 TGTATCGATGCATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
675917 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
675938 AAATGTGATT
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:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:676654 original size:49 final size:48
Alignment explanation
Indices: 676484--676771 Score: 326
Period size: 43 Copynumber: 6.0 Consensus size: 48
676474 AAAGATGAGA
* * *
676484 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--G
*
676537 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
676581 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
676628 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----
1 AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* *
676673 -AAAGGTGCCAATGTGCAGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * * *
676720 ATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAGAAG
1 A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA-AAG
676770 AA
1 AA
676772 TATGCCACCA
Statistics
Matches: 204, Mismatches: 18, Indels: 30
0.81 0.07 0.12
Matches are distributed among these distances:
43 80 0.39
44 1 0.00
48 1 0.00
49 78 0.38
50 4 0.02
52 34 0.17
53 6 0.03
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (48 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
Found at i:676669 original size:92 final size:92
Alignment explanation
Indices: 676485--676765 Score: 463
Period size: 92 Copynumber: 3.0 Consensus size: 92
676475 AAGATGAGAA
* * *
676485 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
676550 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
676581 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
676646 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
676673 AAAGGTGCCAATGTGCAGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
676738 TGATTCAAGGCCAACGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
676765 A
1 A
676766 GAAGAATATG
Statistics
Matches: 178, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
92 132 0.74
95 41 0.23
96 5 0.03
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:676856 original size:57 final size:58
Alignment explanation
Indices: 676787--677034 Score: 314
Period size: 57 Copynumber: 4.3 Consensus size: 58
676777 CACCAACTTG
** * * *
676787 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTTTGTGCTTTTG-AAAGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTTGCCACTGACTTATGGGC-TTTGAAAAGATGCCACTGACT
* * *
676844 TGTGGGCTTTTGAAAAGAG-TGCCACTGAGTTGTGGGCTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAAGGGTTGCCACTGACTTATGGGCTTTG-AAAAGATGCCACTGACT
676903 TGTGGGCTTTTG-AA-GGTTGCCACTGACTTATGGGCTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTTGCCACTGACTTATGGGCTTTG-AAAAGATGCCACTGACT
*
676960 TGTGGGCTTTT-AAA-GGTTGCCACTGACTTATGGGCTTTGAAAAAGATGCTACTGACT
1 TGTGGGCTTTTGAAAGGGTTGCCACTGACTTATGGGCTTTG-AAAAGATGCCACTGACT
677017 TGTGGGCTTTTG-AAGGGT
1 TGTGGGCTTTTGAAAGGGT
677035 GAGGAATATC
Statistics
Matches: 172, Mismatches: 11, Indels: 15
0.87 0.06 0.08
Matches are distributed among these distances:
56 1 0.01
57 126 0.73
58 18 0.10
59 27 0.16
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (58 bp):
TGTGGGCTTTTGAAAGGGTTGCCACTGACTTATGGGCTTTGAAAAGATGCCACTGACT
Found at i:676885 original size:29 final size:29
Alignment explanation
Indices: 676828--677026 Score: 253
Period size: 29 Copynumber: 6.9 Consensus size: 29
676818 TGTGCTTTTG
*
676828 AAAGTTGCCACTGACTTGTGGGCTTTTG-A
1 AAAGATGCCACTGACTTGTGGGC-TTTGAA
*
676857 AAAGAGTGCCACTGAGTTGTGGGCTTTGAA
1 AAAGA-TGCCACTGACTTGTGGGCTTTGAA
676887 AAAGATGCCACTGACTTGTGGGCTTTTG--
1 AAAGATGCCACTGACTTGTGGGC-TTTGAA
* * *
676915 AAGGTTGCCACTGACTTATGGGCTTTGAA
1 AAAGATGCCACTGACTTGTGGGCTTTGAA
*
676944 AAAGATGCCACTGACTTGTGGGCTTT-TA
1 AAAGATGCCACTGACTTGTGGGCTTTGAA
* * *
676972 AAGGTTGCCACTGACTTATGGGCTTTGAA
1 AAAGATGCCACTGACTTGTGGGCTTTGAA
*
677001 AAAGATGCTACTGACTTGTGGGCTTT
1 AAAGATGCCACTGACTTGTGGGCTTT
677027 TGAAGGGTGA
Statistics
Matches: 146, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.03
28 44 0.30
29 71 0.49
30 27 0.18
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (29 bp):
AAAGATGCCACTGACTTGTGGGCTTTGAA
Found at i:692413 original size:52 final size:52
Alignment explanation
Indices: 692335--692515 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
692325 CGAAATATAA
* *
692335 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
692387 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
692439 AAATTTGCTTGCATATATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
692491 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
692516 AAGATCAATG
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 121 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:692539 original size:13 final size:13
Alignment explanation
Indices: 692521--692546 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
692511 ATACAAAGAT
692521 CAATGTATCGATA
1 CAATGTATCGATA
692534 CAATGTATCGATA
1 CAATGTATCGATA
692547 GATTTGAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:692615 original size:19 final size:18
Alignment explanation
Indices: 692591--692688 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
692581 TAGCTTACAT
692591 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
692610 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
692623 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
692642 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
692655 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
692675 TGTATCGATACAAA
1 TGTATCGATACAAA
692689 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:692627 original size:32 final size:32
Alignment explanation
Indices: 692586--692686 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
692576 GGCAGTAGCT
*
692586 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
692618 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
692650 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
692683 TACA
1 TACA
692687 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:692628 original size:13 final size:13
Alignment explanation
Indices: 692610--692666 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
692600 ACAAAACTTA
692610 TGTATCGATACAT
1 TGTATCGATACAT
692623 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
692641 ATGTATCGATACAT
1 -TGTATCGATACAT
692655 TGTATCGATACA
1 TGTATCGATACA
692667 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:695051 original size:158 final size:158
Alignment explanation
Indices: 694753--695091 Score: 450
Period size: 158 Copynumber: 2.1 Consensus size: 158
694743 AACTAAGTTT
* * *
694753 GTTAAACTAAGTCTTTTTATTTTTGACATATTAAACATATTTTGACATATCAAACAAATATGCTA
1 GTTAAACTAAGTCTTTTTATTTTTGACATATTAAACATATTTGGACATATCAAACAAACATGCAA
* * * * *
694818 TTAAAAATTAATAATATCATAAATCGCAAACAATATCAAGAGGCATCTAAATGAGCATTTTATAT
66 TAAAAAATTAATAATATAAAAAATCGCAAACAACATCAAGAGGCATCTAAACGAGCATTTTATAT
* *
694883 TAAATAAAAAATTATAA-TCCAAAA-TTAC
131 TAAATAAAAAAATATAACT-CAAAACCT-C
* *
694911 GTTAAACTAAGTCTTTTTATTTTTGACATATTAAACATATTTGGACATATTAAACAAGCATGCAA
1 GTTAAACTAAGTCTTTTTATTTTTGACATATTAAACATATTTGGACATATCAAACAAACATGCAA
* * * * * *
694976 TAAAAAAATTAATAATGTAAAAAATCTCAAATAACATTAAGAGGTATTTAAACGAGCATTTTATA
66 T-AAAAAATTAATAATATAAAAAATCGCAAACAACATCAAGAGGCATCTAAACGAGCATTTTATA
695041 TTAAAT-AAAAAATATAACTCAAAACCTC
130 TTAAATAAAAAAATATAACTCAAAACCTC
* *
695069 GTCAAACTAAGTCTTCTTATTTT
1 GTTAAACTAAGTCTTTTTATTTT
695092 CTTGGCTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
158 98 0.62
159 60 0.38
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (158 bp):
GTTAAACTAAGTCTTTTTATTTTTGACATATTAAACATATTTGGACATATCAAACAAACATGCAA
TAAAAAATTAATAATATAAAAAATCGCAAACAACATCAAGAGGCATCTAAACGAGCATTTTATAT
TAAATAAAAAAATATAACTCAAAACCTC
Found at i:698207 original size:80 final size:79
Alignment explanation
Indices: 697952--698215 Score: 363
Period size: 79 Copynumber: 3.3 Consensus size: 79
697942 TTTTGGAGAT
* * * * * * *
697952 AATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATCGATGA-TTT-GGAAAAAAAACCAAGGTT
1 AATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTTAGG-AATAAAGCCAGGGTT
698015 GGAGTATCCCCTCGGA
64 GGAGTATCCCCTCGGA
* * * *
698031 GATAACGGGGTTGGAGTATTCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCAGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCAGGGTTGG
698096 AGTATCCCCTCGGA
66 AGTATCCCCTCGGA
*
698110 AATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGGTTG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCC-AGGGTTG
698175 GAGTATCCCCTC-GA
65 GAGTATCCCCTCGGA
698189 CAATAACGGGGTTGGAGTATCCCCGAT
1 -AATAACGGGGTTGGAGTATCCCCGAT
698216 GATTAACGGG
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 119 0.72
80 45 0.27
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCAGGGTTGG
AGTATCCCCTCGGA
Found at i:698230 original size:27 final size:27
Alignment explanation
Indices: 698168--698242 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
698158 AATAAAGCCG
698168 GGGGTTGGAGTATCCCCTCGA-CAATAAC
1 GGGGTTGGAGTAT-CCC-CGATCAATAAC
* *
698196 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATCAATAAC
698223 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
698243 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.64
28 13 0.30
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATCAATAAC
Found at i:698282 original size:107 final size:108
Alignment explanation
Indices: 698089--698291 Score: 266
Period size: 107 Copynumber: 1.9 Consensus size: 108
698079 AATAAAGCCA
** *
698089 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCGAGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTT
* *
698154 TAGGAATAAAGCCGGGGGTTGGAGTATCCCCTCGACAATAACG
66 TAGGAATAAAACCGGGAGTTGGAGTATCCCCTCGACAATAACG
* * * * * *
698197 GGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTT
1 GGGTTGGAGTATCCCCGAGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTT
* *
698261 TTGGAAATAAAATC-GGAGTTGGAGTATCCCC
66 TAGG-AATAAAACCGGGAGTTGGAGTATCCCC
698292 GATTAAAGGA
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
107 57 0.70
108 24 0.30
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (108 bp):
GGGTTGGAGTATCCCCGAGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTT
TAGGAATAAAACCGGGAGTTGGAGTATCCCCTCGACAATAACG
Found at i:698315 original size:52 final size:50
Alignment explanation
Indices: 698220--698408 Score: 252
Period size: 51 Copynumber: 3.7 Consensus size: 50
698210 CCCGATGATT
* *
698220 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTGGAAATAA
1 AACGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTTGGAAATAA
* * * *
698271 AATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAA
1 AA-CGGGGTTGGAGTATCCCCGATT-ATGGAAAATTAGTGTTTTGGAAATAA
* *
698323 AACAGGGGTTGGAGTATCCCCGATTATGGAAAATTAATGTTTTAGAAATAA
1 AAC-GGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAA
*
698374 AACCGGGGTTGGAGTATCCCCGATTATGAAAAATT
1 AA-CGGGGTTGGAGTATCCCCGATTATGGAAAATT
698409 GAGAAACTTA
Statistics
Matches: 121, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
51 56 0.46
52 55 0.45
53 10 0.08
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (50 bp):
AACGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAA
Found at i:701679 original size:42 final size:42
Alignment explanation
Indices: 701646--701730 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
701636 AGGACAAGGG
* *
701646 AAAAAG-GGAAACGAAA-TACATCCTGCTCTTTGAGGACGAA
1 AAAAAGAGGAAAAGAAAGTACATCCTACTCTTTGAGGACGAA
* * *
701686 AAAAAGAGGAAAATAAAGTGCATCCTACTCTTTGAGGACTAA
1 AAAAAGAGGAAAAGAAAGTACATCCTACTCTTTGAGGACGAA
701728 AAA
1 AAA
701731 GTGCCACCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 6 0.16
41 8 0.21
42 24 0.63
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (42 bp):
AAAAAGAGGAAAAGAAAGTACATCCTACTCTTTGAGGACGAA
Found at i:702080 original size:61 final size:55
Alignment explanation
Indices: 701708--704208 Score: 2761
Period size: 55 Copynumber: 43.5 Consensus size: 55
701698 ATAAAGTGCA
* * *
701708 TCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTG-AAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* * * *
701763 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
*
701818 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* * * * * *
701873 TCCTGCTCTTTGGGGACTGAAAGCTGCCACCAACATATGTGGGCTTTGAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT----GAAAAGGCG
* *
701933 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
*
701988 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCG
702049 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAA--AG---GCG
** *
702110 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* * *
702164 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTG-----AAAAGGCG
*
702225 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCG
*
702286 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTG--A--A-AAGGCG
* ** *
702347 TCCGGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* *
702401 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCG
* *
702462 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCG
702523 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTG--A---AAAGGCG
* ** *
702584 TCCTGCTTTTTGAGGACTAGAAGGTACCACCAACTTGTGTGGGCTTTGCAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG---A--AAAGGCG
**
702645 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* * * *
702700 TCCTACTCTTTGAGGACTGGAAAATGCCACCAAATCGTGTGGGCTTT-AAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
*
702755 TCATGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* **
702810 TCCTGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* *
702865 TCCTGCTCTTTGATGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCG
702926 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAA--AG---GCG
**
702987 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* *
703041 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* *
703096 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT------G-AAAAGGCG
* *
703159 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTAGGCTTT-AAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* * * *
703214 TCTTGCTCTTTGAAGACTGGAAAATGCCACCGACTTATGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
*
703269 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
703324 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* * **
703380 TCCTGCTCTTTGAGGACTGAAAGGTGCCTCCAACTTGTGTGGGCTTT-AAAAGGTA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* *
703435 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT------G-AAAAGGCG
*
703498 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTT-----GAAAAGGCG
* * *
703559 TCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTG-AAAGGCA
1 TCCTGCTCTTTGAGGACTGA-AAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* * *
703614 TCCTGCTCTTTGAGGACTGGAAAATGCCGCCGACTTATGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
703669 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* *
703724 TCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* * *
703780 TCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* *
703835 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT------G-AAAAGGCG
*
703898 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTT-----GAAAAGGCG
* * *
703959 TCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTG-AAAGGTG
1 TCCTGCTCTTTGAGGACTGA-AAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* * *
704014 TCCTACTCTTTGAGGACTGGAAAATGCCACCGACTTATGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
*
704069 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTTTGTGGGCTTTGAAAA-GCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* *
704124 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGACG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
*
704180 TCATGCTCTTTGAGGACTGAAAAGTGCCA
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCA
704209 AAAGAGGTGC
Statistics
Matches: 2171, Mismatches: 157, Indels: 235
0.85 0.06 0.09
Matches are distributed among these distances:
53 4 0.00
54 82 0.04
55 1031 0.47
56 162 0.07
57 12 0.01
59 7 0.00
60 120 0.06
61 566 0.26
62 26 0.01
63 153 0.07
65 1 0.00
66 7 0.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
Found at i:703653 original size:400 final size:395
Alignment explanation
Indices: 701708--704208 Score: 3235
Period size: 400 Copynumber: 6.2 Consensus size: 395
701698 ATAAAGTGCA
* * *
701708 TCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTG-AAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
* * *
701772 TTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT-
* * * * *
701837 GAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAGGTGTCCTGCTCTTTGGGGACTGAAAGCTGC
130 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGC
* * * * * *
701900 CACCAACATATGTGGGCTTTGAAA-GAAAAAGCATCCTGCTCTTTGAGGACTAAAAAATGCCACC
195 CACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACC
* *
701964 AACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTG
260 AACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTG
*
702029 GGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCT
325 GGCTTT-AAAAG-----GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCT
702094 TTGAAAGGAGAAAGCG
384 TTGAAA--AG--AGCG
* * *
702110 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGACGTCCTACTCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
** * *
702173 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGCATCCTGCTCTTTGA
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCTGCTCTTTGA
* * *
702238 GGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTACTCTTTGAGGA
125 GGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCGTCCTGCTCTTTGAGGA
* * * * *
702302 CTGAAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCGGCTCTTTGAGGACTG
184 CT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTG
* * * * *
702366 -AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTACTCTTTGAGGACTGAAAAATGCCA
248 AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCA
* * **
702430 CCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAA
313 CCAACTTATGTGGGCTTT-AAAAG-----GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
*
702495 CTTGTGTGGGCTTTGAAAAGAAAAAGCA
372 CTTGTGTGGGCTTTGAAAAG----AGCG
*
702523 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG--A---AAAGGCGTCCT
* *
702588 GCTTTTTGAGGACT-AGAAGGTACCACCAACTTGTGTGGGCTTTGCAAAGGAAAGGCGTCCTGCT
61 GCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT----A--AAAGGCGTCCTGCT
* *
702652 CTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTACTCTTTGAGGA
119 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGA
* * *
702716 CTGGAAAA--TGCCACCAAATCGTGTGGGCTTT------AAAAGGCATCATGCTCTTTGAGGACT
184 CT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACT
* * **
702773 -AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAGGACTGGAAGGTGC
247 GAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGC
* *
702837 CACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGATGACTGGAAAATGCCACCAACTTG
311 CACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG
*
702902 TGTGGGCTTTGAAAAGAAAAAGCA
376 TGTGGGCTTTGAAAAG----AGCG
702926 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCC
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA--AG---GCGTCC
*
702990 TGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGA
60 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
*
703054 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTCTTTGAGGACTGAAA
125 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACTAAAA
* **
703118 GGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAAGGTGTCCTGCTCTTTGAGGACT-AAAAG
190 GGTGCCACCAACTTGTGTGGGCTTT-AAAAGG-AAAAGGCATCCTGCTCTTTGAGGACTGAAAA-
* * * *
703182 GTGCCACCAACTTGTGTAGGCTTTAAAAGGCATCTTGCTCTTTGAAGACTGGAAAATGCCACCGA
252 GTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
703247 CTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGG
317 CTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGG
*
703312 CTTTG-AAAG-GTG
382 CTTTGAAAAGAGCG
703324 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
* **
703389 TTGAGGACTGAAAGGTGCCTCCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTG
*
703454 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAAGGTGTCCTGCTCTTTGAGGACTAAA
131 AAAGGTGCCACCAACTTGTGTGGGCTTT------G-AAAAGGCGTCCTGCTCTTTGAGGACTAAA
*
703519 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAGAAGT
189 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGT
* * * *
703584 GCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCGCCGACT
254 GCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACT
703649 TATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCT
319 TATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCT
703714 TTG-AAAG-GCG
384 TTGAAAAGAGCG
* * *
703724 TCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTACTCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
*
703789 TTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTG
*
703854 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAAGGTGTCCTGCTCTTTGAGGACTAAA
131 AAAGGTGCCACCAACTTGTGTGGGCTTT------G-AAAAGGCGTCCTGCTCTTTGAGGACTAAA
*
703919 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAGAAGT
189 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGT
* * ** * *
703984 GCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAAAATGCCACCGACT
254 GCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACT
* *
704049 TATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTTTGTGGGCT
319 TATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCT
704114 TTG-AAA-AGCG
384 TTGAAAAGAGCG
* * *
704124 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGACGTCATGCTCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
*
704189 TTGAGGACTGAAAAGTGCCA
66 TTGAGGACTGAAAGGTGCCA
704209 AAAGAGGTGC
Statistics
Matches: 1911, Mismatches: 128, Indels: 122
0.88 0.06 0.06
Matches are distributed among these distances:
393 22 0.01
394 81 0.04
396 100 0.05
397 5 0.00
398 49 0.03
400 626 0.33
401 83 0.04
402 96 0.05
403 126 0.07
404 158 0.08
407 51 0.03
408 33 0.02
409 73 0.04
411 2 0.00
413 204 0.11
414 92 0.05
415 5 0.00
417 1 0.00
418 3 0.00
419 9 0.00
420 92 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (395 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTG
AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCC
ACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCA
ACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGG
GCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA
GAGCG
Found at i:704135 original size:28 final size:29
Alignment explanation
Indices: 704051--704135 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 29
704041 CACCGACTTA
704051 TGTGGGCTTT-AAAAGGCGTCCTGCTCTT
1 TGTGGGCTTTGAAAAGGCGTCCTGCTCTT
* * * * ** **
704079 TGAGGAC-TAGAAAATGCCACCAACT-TT
1 TGTGGGCTTTGAAAAGGCGTCCTGCTCTT
704106 TGTGGGCTTTGAAAA-GCGTCCTGCTCTT
1 TGTGGGCTTTGAAAAGGCGTCCTGCTCTT
704134 TG
1 TG
704136 AGGACTGAAA
Statistics
Matches: 39, Mismatches: 15, Indels: 6
0.65 0.25 0.10
Matches are distributed among these distances:
27 14 0.36
28 25 0.64
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGCGTCCTGCTCTT
Found at i:704246 original size:234 final size:227
Alignment explanation
Indices: 701708--704211 Score: 1904
Period size: 237 Copynumber: 10.9 Consensus size: 227
701698 ATAAAGTGCA
* * ** *
701708 TCCTACTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTACTCTTTAAGGACTGAAAGA-TGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCT
* * * *
701772 TTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT---AAGAGGTGTCCTGCTCTTTGAGGA
65 TTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAGAAAAAGGCGTCCTGCTCTTTGAGGA
*** * *
701834 CTGGAAAA--TGCCACCAACTTGTGTGGGCTTT-G-AAAGGTGTCCTGCTCTTTGGGGACTG-AA
130 CT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGACATCATGCTCTTTGAGGACTGAAA
** * * **
701894 AGCTGCCACCAACAT-ATGTGGGCTTTGAAAGAAAAAGCA
193 AG-TGCCAAAAAC-TCGTGTGGGCTTTG--AG-AAAGGTG
* * * * * * *
701933 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
1 TCCTACTCTTTAAGGACTGAAAGATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTT
*
701998 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA-GCATCCTGCTCTTTG
66 TGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTT----AGAAAAAGGCGTCCTGCTCTTTG
* *
702061 AGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTT-GAAAGGAGAAAGCGTCCTGCTCTTTGA
126 AGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAA--AG--A-CATCATGCTCTTTGA
* ** * **
702123 GGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-A-AAAGACG
184 GGACTGAAAAGTGCCAAAAACTCGTGTGGGCTTTGAGAAAGGTG
* * * * *
702164 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGCATCCT
1 TCCTACTCTTTAAGGACTGAAAGATGCCACCAACTTATGTGGGCTTT------AAAAGGCGTCCT
* *
702229 GCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA-GCATCCTAC
60 GCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTT----AGAAAAAGGCGTCCTGC
* * **
702292 TCTTTGAGGACTGAAAA-ATGCCACCAACTTGTGTGGGCTTT-GAAAGGAGAAGGCGTCCGGCTC
120 TCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAA--AG-A--CATCATGCTC
* ** * **
702355 TTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-A-AAAGACG
179 TTTGAGGACTGAAAAGTGCCAAAAACTCGTGTGGGCTTTGAGAAAGGTG
* * * *
702401 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTACTCTTTAAGGACTGAAAGATGCCACCAACTTATGTGGGCTTT-AAAAG-----GCGTCCT
* * *
702466 GCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA-GCATCCTGCT
60 GCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTT----AGAAAAAGGCGTCCTGCT
* * * * * *
702530 CTTTGAGGACTGAAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAGGCGTCCTGCTTTT
121 CTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGACATCATGCTCTT
* * ** * *
702594 TGAGGACT-AGAAGGTACCACCAACTTGTGTGGGCTTTGCAAAGGAAAGGCG
181 TGAGGACTGA-AAAGTGCCAAAAACTCGTGTGGGCTTTG---A-GAAAGGTG
* * * * * *
702645 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
1 TCCTACTCTTTAAGGACTGAAAGATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTT
* * * *
702710 TGAGGACTGGAAA-ATGCCACCAAATCGTGTGGGCTTT---AAAAGGCATCATGCTCTTTGAGGA
66 TGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTAGAAAAAGGCGTCCTGCTCTTTGAGGA
* * * * * *
702771 CTAAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAGGCGTCCTGCTTTTTGAGGACTGGAAGG
130 CTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGACATCATGCTCTTTGAGGACTGAAAAG
** * *
702834 TGCCACCAACTTGTGTGGGCTTT-A-AAAGGCG
195 TGCCAAAAACTCGTGTGGGCTTTGAGAAAGGTG
* * * * *
702865 TCCTGCTCTTTGATGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
1 TCCTACTCTTTAAGGACT-GAAAGATGCCACCAACTTATGTGGGCTTT-AAAAG-----GCGTCC
*
702929 TGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-GAAAGGAGAAAGCGTCCTG
59 TGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTAG-AA--A-AAGGCGTCCTG
* * * * *
702992 CTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAGGCGTCCTACTCTTTGA
119 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGACATCATGCTCTTTGA
* ** * *
703054 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-A-AAAGGCG
184 GGACTGAAAAGTGCCAAAAACTCGTGTGGGCTTTGAGAAAGGTG
* * * * *
703096 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAAGGTGTC
1 TCCTACTCTTTAAGGACTGAAAGATGCCACCAACTTATGTGGGCTTT--------AAAAGGCGTC
* * * * *
703161 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTT---AAAAGGCATCTTGCTCT
58 CTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAGAAAAAGGCGTCCTGCTCT
* * * * * *
703223 TTGAAGACTGGAAAA--TGCCACCGACTTATGTGGGCTTT--AAAAGGCGTCCTGCTCTTTGAGG
123 TTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGACATCATGCTCTTTGAGG
** *
703284 ACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT--GAAAGGTG
186 ACT-GAAAAGTGCCAAAAACTCGTGTGGGCTTTGAGAAAGGTG
* * *
703324 TCCTGCTCTTTGAGGACTGAAA-AGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTC
1 TCCTACTCTTTAAGGACTGAAAGA-TGCCACCAACTTATGTGGGCTTT-AAAAGGCGTCCTGCTC
* * **
703388 TTTGAGGACTGAAAGGTGCCTCCAACTTGTGTGGGCTTT---AAAAGGTATCCTGCTCTTTGAGG
64 TTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAGAAAAAGGCGTCCTGCTCTTTGAGG
* *** *
703450 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAAGGTGTCCTGCTCTTTGAGGAC
129 ACTAAAAGGTGCCACCAACTTGTGTGGGCTTT---A--G-AAAAGACATCATGCTCTTTGAGGAC
** * * **
703515 T-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
188 TGAAAA-GTGCCAAAAACTCGTGTGGGCTTT--GA-G-AAAGGTG
* * ** * *
703559 TCCTGCTCTTTGAGGACTGAGAAG-TGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCT
1 TCCTACTCTTTAAGGACTGA-AAGATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCT
* * *
703623 TTGAGGACTGGAAA-ATGCCGCCGACTTATGTGGGCTTT---AAAAGGCGTCCTGCTCTTTGAGG
65 TTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTAGAAAAAGGCGTCCTGCTCTTTGAGG
* * *
703684 ACTGGAAAA--TGCCACCAACTTGTGTGGGCTTT-G-AAAGGCGTCTTGCTCTTTGAGGACTGAA
129 ACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGACATCATGCTCTTTGAGGACTGAA
* ** * *
703745 AGGTGCCACCAACTTGTGTGGGCTTTGA-AAAGGCG
192 AAGTGCCAAAAACTCGTGTGGGCTTTGAGAAAGGTG
* *
703780 TCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTACTCTTTAAGGACTGAAAGATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTT
* *
703845 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAAGGTGTCCTGCTCTTTG
66 TGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTT---A--GAAAAAGGCGTCCTGCTCTTTG
* *
703910 AGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGA
126 AGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGACATCATGCTCTTTGAGGA
* **
703975 CTGAGAAGTGCCACCAACTCGTGTGGGCTTT--GAAAGGTG
187 CTGAAAAGTGCCAAAAACTCGTGTGGGCTTTGAGAAAGGTG
* *
704014 TCCTACTCTTTGAGGACTGGAAA-ATGCCACCGACTTATGTGGGCTTTAAAAGGCGTCCTGCTCT
1 TCCTACTCTTTAAGGACT-GAAAGATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCT
*
704078 TTGAGGACTAGAAA-ATGCCACCAACTTTTGTGGGCTTT-G-AAAA-GCGTCCTGCTCTTTGAGG
65 TTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTAGAAAAAGGCGTCCTGCTCTTTGAGG
* *
704139 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAAGACGTCATGCTCTTTGAGGACTGAAAA
129 ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGACATCATGCTCTTTGAGGACTGAAAA
704203 GTGCCAAAA
194 GTGCCAAAA
704212 GAGGTGCTAC
Statistics
Matches: 2020, Mismatches: 139, Indels: 244
0.84 0.06 0.10
Matches are distributed among these distances:
219 3 0.00
220 54 0.03
221 228 0.11
222 1 0.00
224 1 0.00
225 86 0.04
226 201 0.10
227 35 0.02
228 123 0.06
229 101 0.05
230 7 0.00
231 234 0.12
232 76 0.04
233 42 0.02
234 187 0.09
235 109 0.05
236 35 0.02
237 362 0.18
238 72 0.04
239 3 0.00
240 2 0.00
242 4 0.00
243 5 0.00
244 49 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (227 bp):
TCCTACTCTTTAAGGACTGAAAGATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTT
TGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAGAAAAAGGCGTCCTGCTCTTTGAGGAC
TAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGACATCATGCTCTTTGAGGACTGAAAAGT
GCCAAAAACTCGTGTGGGCTTTGAGAAAGGTG
Found at i:705202 original size:13 final size:13
Alignment explanation
Indices: 705184--705208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
705174 ATACAGTGTC
705184 ATGTATCGATACA
1 ATGTATCGATACA
705197 ATGTATCGATAC
1 ATGTATCGATAC
705209 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:705226 original size:33 final size:31
Alignment explanation
Indices: 705168--705229 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 31
705158 ATCTTTGCAA
705168 GTATCGATACAGTGTCATGTATCGATACAAT
1 GTATCGATACAGTGTCATGTATCGATACAAT
* *
705199 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG--TCATGTATCGATACA
705230 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 13 0.48
33 14 0.52
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (31 bp):
GTATCGATACAGTGTCATGTATCGATACAAT
Found at i:707706 original size:13 final size:13
Alignment explanation
Indices: 707688--707725 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
707678 ATAAACCCTT
*
707688 TGTATCGATACAC
1 TGTATCGATACAA
707701 TGTATCGATACAA
1 TGTATCGATACAA
707714 TGTATCGATACA
1 TGTATCGATACA
707726 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:713931 original size:33 final size:32
Alignment explanation
Indices: 713889--713952 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
713879 GTTACAAGCC
713889 AATGTATCGATACAT-TTGGTCATGTATCGATAT
1 AATGTATCGATACATCTT-GT-ATGTATCGATAT
713922 AATGTATCGATACATCTTGTATGTATCGATA
1 AATGTATCGATACATCTTGTATGTATCGATA
713953 CAAACAGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 11 0.37
33 17 0.57
34 2 0.07
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (32 bp):
AATGTATCGATACATCTTGTATGTATCGATAT
Found at i:715457 original size:18 final size:18
Alignment explanation
Indices: 715431--715472 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
715421 TATGATAAAA
*
715431 TTATTTAATAAATTGATT
1 TTATATAATAAATTGATT
*
715449 TTATATAATAAATTTATT
1 TTATATAATAAATTGATT
715467 TTATAT
1 TTATAT
715473 CTTTTTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTATATAATAAATTGATT
Found at i:716603 original size:16 final size:17
Alignment explanation
Indices: 716584--716625 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
716574 TTGTGCTTTT
*
716584 TTTTCTTTTTTA-CATC
1 TTTTCTTTTTCATCATC
716600 TTTT-TTTTTCATCATC
1 TTTTCTTTTTCATCATC
716616 TTTTCTTTTT
1 TTTTCTTTTT
716626 ATTATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 12 0.52
17 5 0.22
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCTTTTTCATCATC
Found at i:718114 original size:20 final size:21
Alignment explanation
Indices: 718089--718127 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
718079 TAATGTCACT
718089 ATATTCTT-AAATTTGATGAG
1 ATATTCTTAAAATTTGATGAG
718109 ATATTCTTAAAATTTGATG
1 ATATTCTTAAAATTTGATG
718128 CCATACCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (21 bp):
ATATTCTTAAAATTTGATGAG
Found at i:720775 original size:31 final size:32
Alignment explanation
Indices: 720717--720780 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
720707 TTTGATTACT
* * *
720717 ATTTATTTAATAAAATAATAATTTTTATTTAA
1 ATTTAATTAATAAAATAATAATATTTATATAA
720749 ATTTAATT-ATAAAAT-ATAAATATTTATATAA
1 ATTTAATTAATAAAATAAT-AATATTTATATAA
720780 A
1 A
720781 AATATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 2 0.07
31 19 0.68
32 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
ATTTAATTAATAAAATAATAATATTTATATAA
Found at i:728876 original size:20 final size:23
Alignment explanation
Indices: 728832--728879 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 23
728822 TTTGAACTAT
*
728832 ATATTATATCTAAAAACATTAAA
1 ATATTATATATAAAAACATTAAA
728855 ATATTA-ATATAAAAA-A-TAAA
1 ATATTATATATAAAAACATTAAA
728875 ATATT
1 ATATT
728880 TTTAAAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 1 0.04
22 8 0.33
23 6 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATTATATATAAAAACATTAAA
Found at i:730945 original size:20 final size:20
Alignment explanation
Indices: 730920--730959 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
730910 AATAAAAATA
730920 GGTATTTGACAAAATAGCAT
1 GGTATTTGACAAAATAGCAT
730940 GGTATTTGACAAAATAGCAT
1 GGTATTTGACAAAATAGCAT
730960 ATGATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
GGTATTTGACAAAATAGCAT
Found at i:731789 original size:19 final size:19
Alignment explanation
Indices: 731765--731801 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
731755 TATTAAGAAT
731765 AAAAAAATAA-AAAAATAGG
1 AAAAAAA-AAGAAAAATAGG
731784 AAAAAAAAAGAAAAATAG
1 AAAAAAAAAGAAAAATAG
731802 TTATAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (19 bp):
AAAAAAAAAGAAAAATAGG
Found at i:733599 original size:33 final size:33
Alignment explanation
Indices: 733562--733628 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
733552 TTCAACGATT
733562 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
733595 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
733628 T
1 T
733629 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:733600 original size:13 final size:13
Alignment explanation
Indices: 733582--733606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
733572 CATAAAATGT
733582 TGTATCGATACAA
1 TGTATCGATACAA
733595 TGTATCGATACA
1 TGTATCGATACA
733607 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:733689 original size:13 final size:13
Alignment explanation
Indices: 733671--733695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
733661 ATTACTCACA
733671 TGTATCGATACAT
1 TGTATCGATACAT
733684 TGTATCGATACA
1 TGTATCGATACA
733696 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:733760 original size:52 final size:52
Alignment explanation
Indices: 733704--733834 Score: 217
Period size: 52 Copynumber: 2.5 Consensus size: 52
733694 CACTGATCTT
*
733704 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
* *
733756 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
**
733808 TGTATCGATACATGCAGATAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
733835 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
Found at i:740089 original size:2 final size:2
Alignment explanation
Indices: 740082--740126 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
740072 GTATTGATGT
* *
740082 TA TA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
740124 TA T
1 TA T
740127 TATGAATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:744612 original size:2 final size:2
Alignment explanation
Indices: 744605--744669 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
744595 TTGCCATTGC
744605 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
744647 CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT C
744670 CGATTAGGGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:744947 original size:20 final size:20
Alignment explanation
Indices: 744911--744948 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
744901 TATATATATA
*
744911 TAAAATATGTATCAAATAAT
1 TAAAATATATATCAAATAAT
744931 TAAAATATAATAT-AAATA
1 TAAAATAT-ATATCAAATA
744949 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
TAAAATATATATCAAATAAT
Found at i:745834 original size:37 final size:37
Alignment explanation
Indices: 745784--745856 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
745774 GAAGGATGCC
*
745784 CTTCAAGTTATCCTTAGCCTGAGCATCAACAATATTT
1 CTTCAAGTTATCCTTAGCCTGAGCAGCAACAATATTT
745821 CTTCAAGTTATCCTTAGCCTGAGCAGCAACAATATT
1 CTTCAAGTTATCCTTAGCCTGAGCAGCAACAATATT
745857 CTTATTGAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (37 bp):
CTTCAAGTTATCCTTAGCCTGAGCAGCAACAATATTT
Found at i:752846 original size:2 final size:2
Alignment explanation
Indices: 752839--752864 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
752829 AAAAGAAAGA
752839 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
752865 TTTTTCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:754867 original size:15 final size:16
Alignment explanation
Indices: 754847--754878 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
754837 GAAAGAACAT
754847 AGAAGGAGAA-GAAGG
1 AGAAGGAGAAGGAAGG
754862 AGAAGGAGAAGGAAGG
1 AGAAGGAGAAGGAAGG
754878 A
1 A
754879 AGTAGATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (16 bp):
AGAAGGAGAAGGAAGG
Found at i:755977 original size:93 final size:91
Alignment explanation
Indices: 755867--756046 Score: 207
Period size: 93 Copynumber: 2.0 Consensus size: 91
755857 AAATCTTTTT
* * * * * * *
755867 TTTATTATCAAATTAATTTATTCAAAGAAAGTATTTTATTGAAGTTAAACTTTTTATTTATAAAT
1 TTTACTATCAAACTAATTCATTCAAAGAAAGTATTTTAATGAAATTAAACATTTTA--CATAAAT
* * *
755932 TAGATATATCTTTTTAAAAATAAAAATA
64 TAGATAAATATTATTAAAAATAAAAATA
* * * *
755960 TTTACTATCAAACTAATTCATTTAATGAAAGTGTTTTAATGAAATTTAACATTTTACATAAATTA
1 TTTACTATCAAACTAATTCATTCAAAGAAAGTATTTTAATGAAATTAAACATTTTACATAAATTA
*
756025 GATAAATATTATTAATAATAAA
66 GATAAATATTATTAAAAATAAA
756047 TATTTATAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
91 26 0.36
93 46 0.64
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (91 bp):
TTTACTATCAAACTAATTCATTCAAAGAAAGTATTTTAATGAAATTAAACATTTTACATAAATTA
GATAAATATTATTAAAAATAAAAATA
Found at i:756275 original size:60 final size:60
Alignment explanation
Indices: 756175--756299 Score: 207
Period size: 60 Copynumber: 2.1 Consensus size: 60
756165 TGATTTTACT
756175 TATTTAATGAATGTATAGTAAACATTAATCAAAATTTTGAAATAATTAAAATATATATAA
1 TATTTAATGAATGTATAGTAAACATTAATCAAAATTTTGAAATAATTAAAATATATATAA
* * *
756235 TATTTAATTAATGTATGGTAAACATTACTC-AAATTGTTGAAATAATTAAAATATATATAA
1 TATTTAATGAATGTATAGTAAACATTAATCAAAATT-TTGAAATAATTAAAATATATATAA
756295 TATTT
1 TATTT
756300 TGGTAATTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 5 0.08
60 56 0.92
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (60 bp):
TATTTAATGAATGTATAGTAAACATTAATCAAAATTTTGAAATAATTAAAATATATATAA
Found at i:757610 original size:16 final size:17
Alignment explanation
Indices: 757591--757624 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
757581 AAAATTTATT
*
757591 AAAAAA-GTAATTTGAA
1 AAAAAAGGTAAATTGAA
757607 AAAAAAGGTAAATTGAA
1 AAAAAAGGTAAATTGAA
757624 A
1 A
757625 GTTAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (17 bp):
AAAAAAGGTAAATTGAA
Found at i:758456 original size:106 final size:103
Alignment explanation
Indices: 758261--758467 Score: 281
Period size: 106 Copynumber: 2.0 Consensus size: 103
758251 TCAATATATA
* * * *
758261 TAATTATAATTCTCAATATATAATTTAAAATAAAATTATCTATTTTTTAATTGTTAGTTTTAATC
1 TAATTATAATTATCAATATATAATTTAAAATAAAATCATCTATTTTTTAATTCTTAGTTTAAATC
*
758326 TTGTTATATAATTAACAATAAAATATTATTATAATACC
66 TTATTATATAATTAACAATAAAATATTATTATAATACC
*
758364 TAATTATCAATGTATCAATATATAAAATTTAAAATAAAATCATCTA-TTTTTAGTTCTTAGTTTA
1 TAATTAT-AAT-TATCAATATAT--AATTTAAAATAAAATCATCTATTTTTTAATTCTTAGTTTA
* * * *
758428 AATCTTATTTTATAATTAATAATTAAATATTATTTTAATA
62 AATCTTATTATATAATTAACAATAAAATATTATTATAATA
758468 TAATTTTAGT
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
103 7 0.08
104 3 0.03
105 10 0.11
106 50 0.56
107 20 0.22
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (103 bp):
TAATTATAATTATCAATATATAATTTAAAATAAAATCATCTATTTTTTAATTCTTAGTTTAAATC
TTATTATATAATTAACAATAAAATATTATTATAATACC
Found at i:759313 original size:27 final size:27
Alignment explanation
Indices: 759270--759441 Score: 231
Period size: 27 Copynumber: 6.1 Consensus size: 27
759260 ACACGGGATG
759270 ATGGGCATGGAAT-AAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
759296 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
759323 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
* *
759350 ATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAA---ATGA-A--GG--C
759385 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
*
759412 ATGGGCATGGAAT-AAGAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
759438 ATGG
1 ATGG
759442 AATGATTTTC
Statistics
Matches: 132, Mismatches: 5, Indels: 18
0.85 0.03 0.12
Matches are distributed among these distances:
26 29 0.22
27 72 0.55
29 2 0.02
30 3 0.02
31 2 0.02
32 3 0.02
33 2 0.02
35 19 0.14
ACGTcount: A:0.46, C:0.07, G:0.31, T:0.16
Consensus pattern (27 bp):
ATGGGCATGGAATAAAAAAATGAAGGC
Found at i:759391 original size:35 final size:35
Alignment explanation
Indices: 759350--759416 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
759340 AAATGAAGGC
*
759350 ATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAAATGAAGACATGGGATA
*
759385 ATGGGCATGGAATAAAAAAATGAAGGCATGGG
1 ATGGGCATGGAATAAAAAAATGAAGACATGGG
759417 CATGGAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.45, C:0.06, G:0.31, T:0.18
Consensus pattern (35 bp):
ATGGGCATGGAATAAAAAAATGAAGACATGGGATA
Found at i:759397 original size:62 final size:61
Alignment explanation
Indices: 759323--759441 Score: 211
Period size: 62 Copynumber: 1.9 Consensus size: 61
759313 AAATGAAGGC
759323 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAA-TGAAGACATGGGATA
* *
759385 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAGAAATGAAGGCATGG
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGACATGG
759442 AATGATTTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 10 0.18
62 45 0.82
ACGTcount: A:0.45, C:0.07, G:0.31, T:0.17
Consensus pattern (61 bp):
ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGACATGGGATA
Found at i:760783 original size:53 final size:52
Alignment explanation
Indices: 760679--760800 Score: 144
Period size: 53 Copynumber: 2.3 Consensus size: 52
760669 GCTCGTAATC
*
760679 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGA
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTCAATCGA
* **
760732 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCACAATCGA
1 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--CAATCGA
760785 --GGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
760801 TTATTTTCGA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
51 18 0.29
52 4 0.06
53 40 0.65
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTCAATCGA
Found at i:760949 original size:79 final size:79
Alignment explanation
Indices: 760729--761036 Score: 483
Period size: 79 Copynumber: 3.9 Consensus size: 79
760719 TTCCTTTAAT
* * *
760729 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGAGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
*
760794 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
760808 CGAGGGGATACTCCAA-CCCGGTTTTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
760872 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* *
760886 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
760951 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* * * **
760965 CGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCCGGGATACTTT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
761030 AACCCCG
66 AACCCCG
761037 ATTTTATTTT
Statistics
Matches: 215, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 75 0.35
79 140 0.65
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
AACCCCGTTATTTC
Done.