Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 307 of 320
Found at i:97904018 original size:13 final size:14
Alignment explanation
Indices: 97904000--97904028 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
97903990 AAATCTATTT
97904000 TTAATTTAAT-CAA
1 TTAATTTAATCCAA
97904013 TTAATTTAATCCAA
1 TTAATTTAATCCAA
97904027 TT
1 TT
97904029 CAGATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATTTAATCCAA
Found at i:97908553 original size:47 final size:47
Alignment explanation
Indices: 97908489--97908599 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
97908479 GACATTGAGT
* *
97908489 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
97908536 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
97908583 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
97908600 CTTATCCCAG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:97917650 original size:21 final size:21
Alignment explanation
Indices: 97917609--97917650 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
97917599 CACTACAATA
*
97917609 TTTCCTATCACTCCCATTTAT
1 TTTCCTATCACTACCATTTAT
*
97917630 TTTCCT-TCACTATCATATTAT
1 TTTCCTATCACTACCAT-TTAT
97917651 GAACATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTCCTATCACTACCATTTAT
Found at i:97918559 original size:40 final size:40
Alignment explanation
Indices: 97918475--97918585 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
97918465 TGAGTTACCA
* * * *
97918475 TAGTGAATTAAGAAAAAATCCTATCCACTTTATATATTTC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTATATATTTC
* *
97918515 TAGTGAATCAGGAATAAATCCTATTCACTTTA-ATTTCTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTATATAT-TTC
*
97918555 TAGTGAATCAGGAATAGATCCTATTCACTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTT
97918586 TTATTCTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
39 3 0.05
40 60 0.95
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTATATATTTC
Found at i:97919008 original size:22 final size:24
Alignment explanation
Indices: 97918982--97919026 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
97918972 ATTTCTCCCT
97918982 TTTCTTTCTTTC-CCCTT-TTTCC
1 TTTCTTTCTTTCTCCCTTGTTTCC
97919004 TTTCTTTCTTTCTCCCTTGTTTC
1 TTTCTTTCTTTCTCCCTTGTTTC
97919027 TATTCTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.57
23 5 0.24
24 4 0.19
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTCTTTCTTTCTCCCTTGTTTCC
Found at i:97919246 original size:8 final size:8
Alignment explanation
Indices: 97919233--97919271 Score: 78
Period size: 8 Copynumber: 4.9 Consensus size: 8
97919223 TTTAATTAAT
97919233 ATAATATA
1 ATAATATA
97919241 ATAATATA
1 ATAATATA
97919249 ATAATATA
1 ATAATATA
97919257 ATAATATA
1 ATAATATA
97919265 ATAATAT
1 ATAATAT
97919272 TTACTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:97930727 original size:35 final size:35
Alignment explanation
Indices: 97930681--97930751 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
97930671 TACAGATGAG
*
97930681 ATATTTGGCAAAAGAGAAAACACTTCTATGGGGGA
1 ATATTTGGCAAAAGAGAAAACACTCCTATGGGGGA
97930716 ATATTTGGCAAAAGAGAAAACACTCCTATGGGGGA
1 ATATTTGGCAAAAGAGAAAACACTCCTATGGGGGA
97930751 A
1 A
97930752 ATAATCACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (35 bp):
ATATTTGGCAAAAGAGAAAACACTCCTATGGGGGA
Found at i:97930821 original size:29 final size:29
Alignment explanation
Indices: 97930788--97930846 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
97930778 GAGCACAAGG
97930788 TACGTTGGGACCATTAACACAATAATCTC
1 TACGTTGGGACCATTAACACAATAATCTC
97930817 TACGTTGGGACCATTAACACAATAATCTC
1 TACGTTGGGACCATTAACACAATAATCTC
97930846 T
1 T
97930847 CTTTCGTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (29 bp):
TACGTTGGGACCATTAACACAATAATCTC
Found at i:97932455 original size:34 final size:35
Alignment explanation
Indices: 97932396--97932462 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
97932386 CAAACACCAG
* * *
97932396 AAAATATTTTCTAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
97932431 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
97932463 TATTTTACTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:97934444 original size:16 final size:17
Alignment explanation
Indices: 97934423--97934465 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
97934413 ATGTTAGTAA
*
97934423 TAATAAAT-TAATGAAT
1 TAATAAATAAAATGAAT
97934439 TAAT-AATAAAATGAAT
1 TAATAAATAAAATGAAT
*
97934455 AAATAAATAAA
1 TAATAAATAAA
97934466 CACAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 14 0.61
17 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
TAATAAATAAAATGAAT
Found at i:97934703 original size:3 final size:3
Alignment explanation
Indices: 97934155--97934690 Score: 206
Period size: 3 Copynumber: 174.7 Consensus size: 3
97934145 AGATAGTAAG
* * * * * * *
97934155 TAA TAA TAA AAA TAA TAA TAA CAG TAA TAA -AA AAA TGA TAA TAG TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
97934202 TAT TAG TAA TAA TAA TGA TAA TAGGA -AA TAA TAA TAA CAA TATA TAC
1 TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TA-A TAA
* * * * * * * * *
97934249 TAA CAA CAG CAA TAA T-A TGAA AAA TAA GAAA TAA CAA TACA CGAA TAG
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA -TAA TAA TAA TA-A -TAA TAA
* * *
97934297 TAA -ATA TAG TAA TAA TAA TAA TAA TAA TAA TGA TAA -ATA TAG TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* * * *
97934342 TAA TAA TAG TAA TAA -AA AAA TAGA GCAA CAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A -TAA -TAA TAA TAA TAA TAA TAA
* * ** * *
97934389 TACA GTAA TAA AAA TAA TAA CAA T-A TGT TAG TAA TAA TAA -AT TAA
1 TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
97934434 TGAA TTAA TAA TAA -AA TGAA TAAA TAAA TAA -ACA CAA AAA TAA -AA
1 T-AA -TAA TAA TAA TAA T-AA T-AA T-AA TAA TA-A TAA TAA TAA TAA
* * * * * * * *
97934479 T-A TAA TTA TAA TAG TAA TAT TAA CCAA AAA AAA GAA TCA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
* * *
97934524 TAA TAA TAA TAA TAA TGA TAA CAA TAA TAA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
97934572 TAA GTAA TAA TAA -AA GGAA TAA AAA TAA TAG TAA TAA TAA GAA TATT
1 TAA -TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* *
97934619 TAA TAA TAG TAA TAA TAA CAA TAA T-A TAAA TAA TAA TATA TACA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A T-AA
97934667 -AA -AA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TA
97934691 GCAAAAATAA
Statistics
Matches: 398, Mismatches: 94, Indels: 82
0.69 0.16 0.14
Matches are distributed among these distances:
2 29 0.07
3 311 0.78
4 51 0.13
5 7 0.02
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:97943184 original size:32 final size:29
Alignment explanation
Indices: 97943107--97943190 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 29
97943097 TGAAAATTAA
97943107 ATTAAATTACAAATTTATATATAAAAATAT
1 ATTAAATTA-AAATTTATATATAAAAATAT
* * *
97943137 A-CAAACTAAAATTTATATATAAATATTAT
1 ATTAAATTAAAATTTATATATAAA-AATAT
97943166 GCATTAAATTAAAATTTATATATAA
1 --ATTAAATTAAAATTTATATATAA
97943191 TTTTAATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 15 0.33
29 9 0.20
30 1 0.02
31 1 0.02
32 19 0.42
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (29 bp):
ATTAAATTAAAATTTATATATAAAAATAT
Found at i:97947212 original size:21 final size:21
Alignment explanation
Indices: 97947187--97947251 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
97947177 TAGCCTTCGG
97947187 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
97947208 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
*
97947226 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
97947247 GCTTC
1 GCTTC
97947252 AATTAGACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 10 0.28
21 11 0.31
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:97947215 original size:39 final size:39
Alignment explanation
Indices: 97947169--97947269 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
97947159 GCTCTGGTGA
*
97947169 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
97947208 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
97947247 GCTTCAATTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
97947270 AGATCACGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:97947377 original size:3 final size:3
Alignment explanation
Indices: 97947364--97947395 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
97947354 GTAAGTAATG
*
97947364 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
97947396 GAGCTCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:97948993 original size:23 final size:23
Alignment explanation
Indices: 97948911--97948997 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
97948901 CCTGATCAGT
*
97948911 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
97948933 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
97948953 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
97948976 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
97948998 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:97949448 original size:15 final size:16
Alignment explanation
Indices: 97949425--97949454 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
97949415 ATTCTCCCTT
97949425 TTTCTTTTCTTTCTTC
1 TTTCTTTTCTTTCTTC
97949441 TTTC-TTTCTTTCTT
1 TTTCTTTTCTTTCTT
97949455 TCCATCCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTTCTTTCTTC
Found at i:97950578 original size:3 final size:3
Alignment explanation
Indices: 97950564--97950686 Score: 60
Period size: 3 Copynumber: 41.0 Consensus size: 3
97950554 TAGTGCCATT
* * * * * * *
97950564 ATA ATA AAA ATA ATA ATA ACA AAA ATA ACA AT- ATG TTA CTA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * *
97950612 ATAA ATA ATG GTA ATA A-A TATA TATA A-A ATA ATA GTA A-A AGTA ATA
1 AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA A-TA ATA
97950658 A-A ATAA ATA A-A ATA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
97950687 CTCTCCCCCT
Statistics
Matches: 93, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
2 11 0.12
3 65 0.70
4 17 0.18
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:97950631 original size:24 final size:23
Alignment explanation
Indices: 97950604--97950681 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
97950594 ATATGTTACT
*
97950604 AATAATAAATAAATAATGGTAATA
1 AATAATAAATAAATAATAGTAA-A
*
97950628 AAT-ATATATAAAATAATAGTAAA
1 AATAATAAAT-AAATAATAGTAAA
* * *
97950651 AGTAATAAAATAAATAA-AATAAT
1 AATAAT-AAATAAATAATAGTAAA
97950674 AATAATAA
1 AATAATAA
97950682 TAATACTCTC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
22 2 0.05
23 17 0.39
24 22 0.50
25 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (23 bp):
AATAATAAATAAATAATAGTAAA
Found at i:97950643 original size:35 final size:31
Alignment explanation
Indices: 97950604--97950682 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 31
97950594 ATATGTTACT
*
97950604 AATAATAAATAAATAATGGTAATAAATATATATAA
1 AATAAT-AAT-AATAAT-GTAATAAA-ATAAATAA
*
97950639 AATAATAGTAA-AA-GTAATAAAATAAATAA
1 AATAATAATAATAATGTAATAAAATAAATAA
97950668 AATAATAATAATAAT
1 AATAATAATAATAAT
97950683 AATACTCTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 17 0.44
30 10 0.26
32 2 0.05
33 2 0.05
34 2 0.05
35 6 0.15
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (31 bp):
AATAATAATAATAATGTAATAAAATAAATAA
Found at i:97951091 original size:17 final size:16
Alignment explanation
Indices: 97951045--97951096 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
97951035 GTGGCAAGTA
97951045 GGGTAATGGAGTTAGTG
1 GGGT-ATGGAGTTAGTG
*
97951062 GGGTA--G-CTTAGTG
1 GGGTATGGAGTTAGTG
97951075 GGGTGATGGAGTTAGTG
1 GGGT-ATGGAGTTAGTG
97951092 GGGTA
1 GGGTA
97951097 GTTTAAGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 10 0.34
14 2 0.07
16 3 0.10
17 14 0.48
ACGTcount: A:0.19, C:0.02, G:0.50, T:0.29
Consensus pattern (16 bp):
GGGTATGGAGTTAGTG
Found at i:97951587 original size:133 final size:132
Alignment explanation
Indices: 97951353--97951901 Score: 751
Period size: 133 Copynumber: 4.1 Consensus size: 132
97951343 GATCTGCTGT
** * * *
97951353 AATTTGATCTGCTTTACTCCTGCTCAG-TAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTC
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAA-ATAAGATCTAGTA--TATAGCCTGCTCCACTC
** * *
97951417 CTGCTCAGTGAAGATAAGGCTGATGATTGGAACCTGCTCCATTGCCGATACATGGAGATAAGATT
63 CTGCTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
97951482 CATCAA
128 CA-CAA
* * *
97951488 AATTTGATCTGCTCCGCTCCTACTCAGCGAAAATAAGATCTAGTATATAGCCTGCTCCACTTCTG
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAAATAAGATCTAGTATATAGCCTGCTCCACTCCTG
97951553 CTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA-
97951618 CAA
130 CAA
* * *
97951621 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAAATAAGATCTAGTATATAGCCTGCTCCACTCCTG
* * *
97951686 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTTCTTTGCCGATACATGGAGATAAGACTTGC
66 CTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT-C
97951751 -CAA
129 ACAA
* * *
97951754 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAAATAAGATCTAGTATATAGCCTGCTCCACTCCTG
* * * * * *
97951819 CTCAGTGAAGATAAGGCTGGTGGTTGAAATCTGCTCCATTGTCGATACATGGAGATGAGACTCGC
66 CTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
*
97951884 TA
131 AA
**
97951886 TCTTTGATCTGCTCCA
1 AATTTGATCTGCTCCA
97951902 TAGCCAATAC
Statistics
Matches: 376, Mismatches: 34, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
131 1 0.00
132 16 0.04
133 318 0.85
134 2 0.01
135 36 0.10
136 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (132 bp):
AATTTGATCTGCTCCACTCCTGCTCAGCGAAAATAAGATCTAGTATATAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
AA
Found at i:97951934 original size:45 final size:45
Alignment explanation
Indices: 97951847--97951934 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 45
97951837 GGTGGTTGAA
* * * * * **
97951847 ATCTGCTCCATTGTCGATACATGGAGATGAGACTCGCTATCTTTG
1 ATCTGCTCCATAGCCAATACATAGAGATAAGACTCGAAATCTTTG
*
97951892 ATCTGCTCCATAGCCAATACATAGAGATAAGATTCGAAATCTT
1 ATCTGCTCCATAGCCAATACATAGAGATAAGACTCGAAATCTT
97951935 CGGTCAGCTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCATAGCCAATACATAGAGATAAGACTCGAAATCTTTG
Found at i:97951965 original size:176 final size:174
Alignment explanation
Indices: 97951827--97952507 Score: 837
Period size: 176 Copynumber: 3.9 Consensus size: 174
97951817 TGCTCAGTGA
* * * * * * * * *
97951827 AGATAAGGCTGGTGGTTGAAATCTGCTCCATTGTCGATACATGGAGATGAGACTCGCTATCTTTG
1 AGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTTG
*
97951892 ATCTGCTCCATAGCCAATACATAGAGATAAGATTCGAAATCTTCGGTC-AGCTTCCTGCAACTTC
66 ATCTGCTCCATAGCCGATACATAGAGATAAGATTCGAAAT-TTCGGTCTA-CTTCCTGCAACTTC
* * *
97951956 AGAAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAG
129 AGAAAGATAAGACCTGTATCTTCAACCTGCTCACT-CTACTTCAGAG
* * * * * * * *
97952003 AGATAAGACTGATGGTTAAAATCTGCTCCATAGCCAATTCATGGAGGTAAAACTCGCCATTTTTT
1 AGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTTG
* * * * * *
97952068 ATCTGCTCAATAGCCGATATATAAAGATAA-AATCTGTAAATTTTGGTCTGCTT-CTAGCAACTT
66 ATCTGCTCCATAGCCGATACATAGAGATAAGATTC-G-AAATTTCGGTCTACTTCCT-GCAACTT
* * *
97952131 CAGACAGATAAGACCTGTATCTTCAACCTGCTCTCTATAACTTCAGAG
128 CAGAAAGATAAGACCTGTATCTTCAACCTGCTCACTCT-ACTTCAGAG
* *
97952179 AGATAAAGCTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCTG
1 AGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTTG
* * **
97952244 ATCTGCTCCATAGCCGATATATGGAGATAAGATCTATAAATTTCGGTCTACTTCCTGCAACTTCA
66 ATCTGCTCCATAGCCGATACATAGAGATAAGAT-TCGAAATTTCGGTCTACTTCCTGCAACTTCA
* * *
97952309 GAAAGATAATACCTGTATCTTCAACCTGCTCTCTGTAACTTCAGAG
130 GAAAGATAAGACCTGTATCTTCAACCTGCTCACTCT-ACTTCAGAG
* *
97952355 AGATAAGGTTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGTTAAGACTCGCCATTTTTG
1 AGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTTG
* * * *
97952420 ATCTGCTCCATAGCCGATACATGGAGATAAGATTTGAAATCTTCGGCCTACTTCCTACAACTTCA
66 ATCTGCTCCATAGCCGATACATAGAGATAAGATTCGAAAT-TTCGGTCTACTTCCTGCAACTTCA
*
97952485 GAAAGACAAGACCTGTATCTTCA
130 GAAAGATAAGACCTGTATCTTCA
97952508 CTGATGTCGC
Statistics
Matches: 440, Mismatches: 56, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
175 10 0.02
176 422 0.96
177 7 0.02
178 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (174 bp):
AGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTTG
ATCTGCTCCATAGCCGATACATAGAGATAAGATTCGAAATTTCGGTCTACTTCCTGCAACTTCAG
AAAGATAAGACCTGTATCTTCAACCTGCTCACTCTACTTCAGAG
Found at i:97952209 original size:352 final size:352
Alignment explanation
Indices: 97951827--97952507 Score: 949
Period size: 352 Copynumber: 1.9 Consensus size: 352
97951817 TGCTCAGTGA
* * * * * * * * *
97951827 AGATAAGGCTGGTGGTTGAAATCTGCTCCATTGTCGATACATGGAGATGAGACTCGCTATCTT-T
1 AGATAAAGCTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCAT-TTCT
*
97951891 GATCTGCTCCATAGCCAATACATAGAGATAAGAT-TCGAAATCTTCGGTC-AGCTTCCTGCAACT
65 GATCTGCTCCATAGCCAATACATAGAGATAAGATCTAGAAAT-TTCGGTCTA-CTTCCTGCAACT
* *
97951954 TCAGAAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGACTGATGGT
128 TCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGACTGATGGC
* * *
97952019 TAAAATCTGCTCCATAGCCAATTCATGGAGGTAAAACTCGCCATTTTTTATCTGCTCAATAGCCG
193 TAAAATCTGCTCCATAGCCAATACATAGAGGTAAAACTCGCCATTTTTGATCTGCTCAATAGCCG
* * * * * *
97952084 ATATATAAAGATAAAATCTGTAAAT-TTTGGTCTGCTT-CTAGCAACTTCAGACAGATAAGACCT
258 ATACATAAAGATAAAATCTG-AAATCTTCGGCCTACTTCCTA-CAACTTCAGAAAGACAAGACCT
97952147 GTATCTTCAACCTGCTCTCTATAACTTCAGAG
321 GTATCTTCAACCTGCTCTCTATAACTTCAGAG
97952179 AGATAAAGCTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCTG
1 AGATAAAGCTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCTG
* * * *
97952244 ATCTGCTCCATAGCCGATATATGGAGATAAGATCTATAAATTTCGGTCTACTTCCTGCAACTTCA
66 ATCTGCTCCATAGCCAATACATAGAGATAAGATCTAGAAATTTCGGTCTACTTCCTGCAACTTCA
* * **
97952309 GAAAGATAATACCTGTATCTTCAACCTGCTCTCTGTAACTTCAGAGAGATAAGGTTGATGGCTAA
131 GAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGACTGATGGCTAA
* * * *
97952374 AATCTGCTCCATAGCCGATACATAGAGTTAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATA
196 AATCTGCTCCATAGCCAATACATAGAGGTAAAACTCGCCATTTTTGATCTGCTCAATAGCCGATA
** * *
97952439 CATGGAGATAAGATTTGAAATCTTCGGCCTACTTCCTACAACTTCAGAAAGACAAGACCTGTATC
261 CATAAAGATAAAATCTGAAATCTTCGGCCTACTTCCTACAACTTCAGAAAGACAAGACCTGTATC
97952504 TTCA
326 TTCA
97952508 CTGATGTCGC
Statistics
Matches: 287, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
351 6 0.02
352 272 0.95
353 9 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (352 bp):
AGATAAAGCTGATGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCTG
ATCTGCTCCATAGCCAATACATAGAGATAAGATCTAGAAATTTCGGTCTACTTCCTGCAACTTCA
GAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGACTGATGGCTAA
AATCTGCTCCATAGCCAATACATAGAGGTAAAACTCGCCATTTTTGATCTGCTCAATAGCCGATA
CATAAAGATAAAATCTGAAATCTTCGGCCTACTTCCTACAACTTCAGAAAGACAAGACCTGTATC
TTCAACCTGCTCTCTATAACTTCAGAG
Found at i:97953854 original size:18 final size:18
Alignment explanation
Indices: 97953833--97953875 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
97953823 TATTTTTTTA
*
97953833 TTTTTTT-TATTTTTCCC
1 TTTTTTTGTATTTTCCCC
97953850 TTTTTTTGTATTTTCCCC
1 TTTTTTTGTATTTTCCCC
97953868 TTTTTTTG
1 TTTTTTTG
97953876 AAACTGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTTTGTATTTTCCCC
Found at i:97956622 original size:27 final size:29
Alignment explanation
Indices: 97956587--97956644 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
97956577 ATTTTATGAA
97956587 AATAAAATGCAAATG-ATGCAATG-ATGC
1 AATAAAATGCAAATGCATGCAATGAATGC
* *
97956614 AATATAATGCAAATGCATGGAATGAATGC
1 AATAAAATGCAAATGCATGCAATGAATGC
97956643 AA
1 AA
97956645 AAGAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 14 0.52
28 7 0.26
29 6 0.22
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (29 bp):
AATAAAATGCAAATGCATGCAATGAATGC
Found at i:97958655 original size:3 final size:3
Alignment explanation
Indices: 97958647--97958754 Score: 59
Period size: 3 Copynumber: 37.0 Consensus size: 3
97958637 TAGTGCCATT
* * * * * *
97958647 ATA ATA ATA AAA ATA ACA AT- ATG TTA CTA ATA ATAA ATAA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A ATA ATA
* *
97958693 GTA AT- ATA TATA A-A ATA ATA GTA A-A AGTA ATA A-A ATA A-A ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
97958735 A-A ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
97958755 CTCTCCCCCT
Statistics
Matches: 81, Mismatches: 14, Indels: 20
0.70 0.12 0.17
Matches are distributed among these distances:
2 14 0.17
3 55 0.68
4 12 0.15
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:97958697 original size:20 final size:20
Alignment explanation
Indices: 97958674--97958751 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 20
97958664 AATATGTTAC
*
97958674 TAATAATAAAT-AAATAATGG
1 TAAT-ATAAATAAAATAATAG
*
97958694 TAATATATATAAAATAATAG
1 TAATATAAATAAAATAATAG
* *
97958714 TAAAAGT-AATAAAATAA-AA
1 TAATA-TAAATAAAATAATAG
*
97958733 TAAAAT-AATAATAATAATA
1 TAATATAAATAA-AATAATA
97958752 ATACTCTCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 6 0.12
19 16 0.33
20 26 0.53
21 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TAATATAAATAAAATAATAG
Found at i:97959140 original size:30 final size:30
Alignment explanation
Indices: 97959104--97959195 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
97959094 CATGGTGGCA
* *
97959104 AGTAGGGTAATGGAGTTAGTGGGGTAGCTT
1 AGTAGGGTGATGAAGTTAGTGGGGTAGCTT
*
97959134 AGTAGGGTGATGAAGTTAGTGGGGTGGCTT
1 AGTAGGGTGATGAAGTTAGTGGGGTAGCTT
* *
97959164 AGTGGGGTGATGAAGTTAGTGGGGTAGTTT
1 AGTAGGGTGATGAAGTTAGTGGGGTAGCTT
97959194 AG
1 AG
97959196 GAGTTAGTGG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.22, C:0.02, G:0.46, T:0.30
Consensus pattern (30 bp):
AGTAGGGTGATGAAGTTAGTGGGGTAGCTT
Found at i:97959158 original size:17 final size:17
Alignment explanation
Indices: 97959132--97959188 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
97959122 GTGGGGTAGC
*
97959132 TTAGTAGGGTGATGAAG
1 TTAGTGGGGTGATGAAG
*
97959149 TTAGTGGGGTG--G--C
1 TTAGTGGGGTGATGAAG
97959162 TTAGTGGGGTGATGAAG
1 TTAGTGGGGTGATGAAG
97959179 TTAGTGGGGT
1 TTAGTGGGGT
97959189 AGTTTAGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 11 0.33
15 2 0.06
17 20 0.61
ACGTcount: A:0.19, C:0.02, G:0.47, T:0.32
Consensus pattern (17 bp):
TTAGTGGGGTGATGAAG
Found at i:97968722 original size:16 final size:16
Alignment explanation
Indices: 97968689--97968722 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
97968679 TACATATGTT
* *
97968689 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
97968705 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
97968721 AA
1 AA
97968723 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:97971549 original size:21 final size:21
Alignment explanation
Indices: 97971523--97971563 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97971513 AGACGAGCAA
* *
97971523 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
97971544 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
97971564 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:97973502 original size:16 final size:16
Alignment explanation
Indices: 97973469--97973502 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
97973459 GGAGATTGTT
* *
97973469 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
97973485 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
97973501 AA
1 AA
97973503 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:97981644 original size:33 final size:33
Alignment explanation
Indices: 97981577--97981644 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
97981567 GCATGATCAA
* * *
97981577 GAATTTGATATTCCTTAACAAAGTCTCCTGTTT
1 GAATTCGATATTCCTTAACAAAATCTCCTATTT
*
97981610 GAATTCGATATTCCTTGAA-AAAATCTCTTATTT
1 GAATTCGATATTCCTT-AACAAAATCTCCTATTT
97981643 GA
1 GA
97981645 GTTCAATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (33 bp):
GAATTCGATATTCCTTAACAAAATCTCCTATTT
Found at i:97987621 original size:114 final size:114
Alignment explanation
Indices: 97987421--97987647 Score: 382
Period size: 114 Copynumber: 2.0 Consensus size: 114
97987411 CAAGAATTAC
* ** *
97987421 TATTATCAAATCGAGTAAGGAACAACTGGCATCAAGTTGGCATACAACATTTTACTTATTTCCTT
1 TATTATCAAATCGAGTAAGGAACAACTCGCATCAAGTTAACATACAACATTTTACTTATTGCCTT
* *
97987486 TAACATATGTGATAAGCTAAAATCTTGAATATGATCATATTTGATTTGG
66 TAACATATGTGACAAGCTAAAATCTTGAATATGATCATATTCGATTTGG
*
97987535 TATTATCAAATCGAGTAAGGAACAACTCGCATCAAGTTAATATACAACATTTTACTTATTGCCTT
1 TATTATCAAATCGAGTAAGGAACAACTCGCATCAAGTTAACATACAACATTTTACTTATTGCCTT
*
97987600 TAACATATGTGACAAGCTAAAATCTTGAATCTGATCATATTCGATTTG
66 TAACATATGTGACAAGCTAAAATCTTGAATATGATCATATTCGATTTG
97987648 ATCCATATGT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (114 bp):
TATTATCAAATCGAGTAAGGAACAACTCGCATCAAGTTAACATACAACATTTTACTTATTGCCTT
TAACATATGTGACAAGCTAAAATCTTGAATATGATCATATTCGATTTGG
Found at i:97996850 original size:13 final size:13
Alignment explanation
Indices: 97996832--97996857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97996822 TATAAATACC
97996832 CTGACTTGAGACG
1 CTGACTTGAGACG
97996845 CTGACTTGAGACG
1 CTGACTTGAGACG
97996858 AGACAGGTTT
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:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
CTGACTTGAGACG
Found at i:97999544 original size:31 final size:31
Alignment explanation
Indices: 97999509--97999569 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
97999499 CTAAATCCAA
97999509 CTTATTAGCATAATAATATAGATAGGTGGGG
1 CTTATTAGCATAATAATATAGATAGGTGGGG
97999540 CTTATTAGCATAATAATATAGATAGGTGGG
1 CTTATTAGCATAATAATATAGATAGGTGGG
97999570 AAGGGAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.33
Consensus pattern (31 bp):
CTTATTAGCATAATAATATAGATAGGTGGGG
Found at i:98021228 original size:7 final size:7
Alignment explanation
Indices: 98021218--98021242 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
98021208 ACAAAAATAA
98021218 AAATTTT
1 AAATTTT
98021225 AAATTTT
1 AAATTTT
98021232 AAATTTT
1 AAATTTT
98021239 AAAT
1 AAAT
98021243 GGAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:98023088 original size:35 final size:35
Alignment explanation
Indices: 98023013--98023090 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
98023003 CATGTATATG
*
98023013 CTATAA-ATATAATTAAAATATTTAAAAAAATCAAT
1 CTATAATATATAAATAAAATATTTAAAAAAA-CAAT
*
98023048 C-ATAATATATAAATAAAATATTGTATAAAAA-AAT
1 CTATAATATATAAATAAAATATT-TAAAAAAACAAT
98023082 CTATAATAT
1 CTATAATAT
98023091 GGATTAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
34 8 0.21
35 23 0.61
36 7 0.18
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (35 bp):
CTATAATATATAAATAAAATATTTAAAAAAACAAT
Found at i:98024402 original size:14 final size:15
Alignment explanation
Indices: 98024378--98024418 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
98024368 TTGTTATTAA
98024378 ATCTA-TTTAATTT-
1 ATCTATTTTAATTTG
98024391 ATCTATTTTAATTTG
1 ATCTATTTTAATTTG
*
98024406 GTC-ATTTTAATTT
1 ATCTATTTTAATTT
98024419 TTATATTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 18 0.72
15 2 0.08
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (15 bp):
ATCTATTTTAATTTG
Found at i:98031885 original size:18 final size:19
Alignment explanation
Indices: 98031837--98031886 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
98031827 ATCAGAACAT
98031837 ATAATAAAATTAT-TAAAAA
1 ATAAT-AAATTATATAAAAA
* * *
98031856 ATGATTATTTATAT-AAAA
1 ATAATAAATTATATAAAAA
98031874 ATAATAAATTATA
1 ATAATAAATTATA
98031887 GGGTAAATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
ATAATAAATTATATAAAAA
Found at i:98031916 original size:23 final size:23
Alignment explanation
Indices: 98031890--98031938 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
98031880 AATTATAGGG
*
98031890 TAAATTTTTATTTAAATA-TAATT
1 TAAA-TTTGATTTAAATATTAATT
*
98031913 TAAATTTGATTTAATTATTAATT
1 TAAATTTGATTTAAATATTAATT
98031936 TAA
1 TAA
98031939 TTTATCATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TAAATTTGATTTAAATATTAATT
Found at i:98035147 original size:15 final size:15
Alignment explanation
Indices: 98035127--98035156 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98035117 ATAATATGTC
*
98035127 AAAATATTTATAAAA
1 AAAATAATTATAAAA
98035142 AAAATAATTATAAAA
1 AAAATAATTATAAAA
98035157 TTAAATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATAATTATAAAA
Found at i:98035164 original size:16 final size:16
Alignment explanation
Indices: 98035128--98035177 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
98035118 TAATATGTCA
* *
98035128 AAATATTTATAAAA-A
1 AAATAATTATAAAATT
98035143 AAATAATTATAAAATT
1 AAATAATTATAAAATT
*
98035159 AAATAAATTA-ATAATT
1 AAAT-AATTATAAAATT
98035175 AAA
1 AAA
98035178 ATATATCCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATAATTATAAAATT
Found at i:98035170 original size:21 final size:22
Alignment explanation
Indices: 98035137--98035179 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
98035127 AAAATATTTA
*
98035137 TAAAAAAAATAATTA-TAAAAT
1 TAAAAAAAATAATAATTAAAAT
* *
98035158 TAAATAAATTAATAATTAAAAT
1 TAAAAAAAATAATAATTAAAAT
98035180 ATATCCGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAAAAATAATAATTAAAAT
Found at i:98035179 original size:17 final size:18
Alignment explanation
Indices: 98035134--98035180 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 18
98035124 GTCAAAATAT
98035134 TTATAAAA--AAAAT-AA
1 TTATAAAATTAAAATAAA
98035149 TTATAAAATT-AAATAAA
1 TTATAAAATTAAAATAAA
*
98035166 TTA-ATAATTAAAATA
1 TTATAAAATTAAAATA
98035181 TATCCGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 8 0.30
16 9 0.33
17 10 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TTATAAAATTAAAATAAA
Found at i:98041045 original size:18 final size:18
Alignment explanation
Indices: 98041018--98041110 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
98041008 TACGACCGTT
98041018 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
98041036 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
98041054 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
98041072 TACGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
98041090 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
98041108 TAC
1 TAC
98041111 AGTAGTTGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:98054700 original size:20 final size:21
Alignment explanation
Indices: 98054655--98054702 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
98054645 CGTTATTAAT
98054655 ATTTT-AATATATGTAATATA
1 ATTTTAAATATATGTAATATA
* *
98054675 AGTTTTAAATATTTGTAA-GTA
1 A-TTTTAAATATATGTAATATA
98054696 ATTTTAA
1 ATTTTAA
98054703 TTTAAGTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (21 bp):
ATTTTAAATATATGTAATATA
Found at i:98070444 original size:14 final size:14
Alignment explanation
Indices: 98070425--98070454 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
98070415 AAATCAACTC
98070425 AACAATGATAGAAA
1 AACAATGATAGAAA
98070439 AACAATGATAGAAA
1 AACAATGATAGAAA
98070453 AA
1 AA
98070455 GCAGTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (14 bp):
AACAATGATAGAAA
Found at i:98071485 original size:69 final size:68
Alignment explanation
Indices: 98071375--98071506 Score: 246
Period size: 69 Copynumber: 1.9 Consensus size: 68
98071365 TAAGAGAAAT
98071375 ATCGCTTTGTATTTGATTAATGTATAAGGATTGTCCATTCCTTGAGTAAAGGGGCAAAATGTGAT
1 ATCGCTTTGTATTTGATTAATGTATAAGGATTGTCCATTCCTTGAGTAAAGGGGCAAAATGTGAT
98071440 CTG
66 CTG
*
98071443 ATCGCTTTGTATTTGATTTAATGTATAAGGATTGTCCATTCCTTGAGTAAAGGGGCAAACTGTG
1 ATCGCTTTGTATTTGA-TTAATGTATAAGGATTGTCCATTCCTTGAGTAAAGGGGCAAAATGTG
98071507 TAACACCCCT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
68 16 0.26
69 46 0.74
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.37
Consensus pattern (68 bp):
ATCGCTTTGTATTTGATTAATGTATAAGGATTGTCCATTCCTTGAGTAAAGGGGCAAAATGTGAT
CTG
Found at i:98072800 original size:43 final size:43
Alignment explanation
Indices: 98072735--98072889 Score: 258
Period size: 43 Copynumber: 3.6 Consensus size: 43
98072725 CCGGCATTAC
* *
98072735 GCCTGCTAGGCACGAAGACCCGAATACGCATCA-CTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATC-GGCACGAA
98072778 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
* *
98072821 GCCTACTAGGCACGAATGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
98072864 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
98072890 TAATACCAAC
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 104 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
Found at i:98072935 original size:38 final size:38
Alignment explanation
Indices: 98072882--98072956 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
98072872 GGCACGAAGG
* *
98072882 CCCGAATATAATACCAACACTAGGCCTGCGGGATTTAA
1 CCCGAATATAATACCAACACGAAGCCTGCGGGATTTAA
* * *
98072920 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTA
1 CCCGAATATAATACCAACACGAAGCCTGCGGGATTTA
98072957 TTACAGCACG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAACACGAAGCCTGCGGGATTTAA
Found at i:98072969 original size:26 final size:27
Alignment explanation
Indices: 98072923--98072982 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
98072913 GATTTAACCC
*
98072923 GGATATATTACCAGCACGAAGCCTGCG
1 GGATTTATTACCAGCACGAAGCCTGCG
98072950 GGATTTATTA-CAGCACGAAGCCTGCG
1 GGATTTATTACCAGCACGAAGCCTGCG
*
98072976 GAATTTA
1 GGATTTA
98072983 ACCCGAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (27 bp):
GGATTTATTACCAGCACGAAGCCTGCG
Found at i:98073049 original size:38 final size:38
Alignment explanation
Indices: 98072955--98073040 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
98072945 CTGCGGGATT
98072955 TATTA-CAGCACGAAGCCTGCGGAATTTAACCCGAATA
1 TATTACCAGCACGAAGCCTGCGGAATTTAACCCGAATA
* *
98072992 TATTACCAGCACGAAGCCTGTGGGATTTAACCC-AGATA
1 TATTACCAGCACGAAGCCTGCGGAATTTAACCCGA-ATA
98073030 TAATT-CCAGCA
1 T-ATTACCAGCA
98073041 TATAGCCTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
37 6 0.14
38 35 0.80
39 3 0.07
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (38 bp):
TATTACCAGCACGAAGCCTGCGGAATTTAACCCGAATA
Found at i:98077448 original size:25 final size:24
Alignment explanation
Indices: 98077420--98077489 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
98077410 GGAAACTCAT
* *
98077420 AAGAGCCATAATCAGGAAGTTCACA
1 AAGAACCAT-ATCAGGAAGCTCACA
* *
98077445 AAGAACCATATCGGGAAGCTCACG
1 AAGAACCATATCAGGAAGCTCACA
* * *
98077469 AATAGCC-TATTAGGAAGCTCA
1 AAGAACCATATCAGGAAGCTCA
98077490 ATAAGAGCCA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 12 0.32
24 17 0.46
25 8 0.22
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (24 bp):
AAGAACCATATCAGGAAGCTCACA
Found at i:98077467 original size:24 final size:25
Alignment explanation
Indices: 98077420--98077467 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
98077410 GGAAACTCAT
* *
98077420 AAGAGCCATAATCAGGAAGTTCACA
1 AAGAACCATAATCAGGAAGCTCACA
*
98077445 AAGAACCAT-ATCGGGAAGCTCAC
1 AAGAACCATAATCAGGAAGCTCAC
98077468 GAATAGCCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (25 bp):
AAGAACCATAATCAGGAAGCTCACA
Found at i:98084825 original size:21 final size:21
Alignment explanation
Indices: 98084801--98084869 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
98084791 TTATAATATT
98084801 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
98084822 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
98084842 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
*
98084862 ATTCTTAT
1 ATTATTAT
98084870 TATTAGCATT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.28
20 3 0.08
21 17 0.47
22 3 0.08
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:98085225 original size:14 final size:14
Alignment explanation
Indices: 98085201--98085233 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
98085191 AAGAATTAAG
98085201 GAAACAAAGAAACA
1 GAAACAAAGAAACA
98085215 -AAACAAAAGAAACA
1 GAAAC-AAAGAAACA
98085229 GAAAC
1 GAAAC
98085234 GAAGCAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 9 0.53
15 4 0.24
ACGTcount: A:0.73, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
GAAACAAAGAAACA
Found at i:98086314 original size:21 final size:23
Alignment explanation
Indices: 98086264--98086309 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
98086254 GATTTAAAAT
**
98086264 ATTCTGGGTGTGTTTGGGTTGAAC
1 ATTCT-GGTGTGTTTGGGGGGAAC
98086288 ATTCTGGTGTGTTTGGGGGGAA
1 ATTCTGGTGTGTTTGGGGGGAA
98086310 ATCTGCGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.13, C:0.07, G:0.41, T:0.39
Consensus pattern (23 bp):
ATTCTGGTGTGTTTGGGGGGAAC
Found at i:98087416 original size:15 final size:14
Alignment explanation
Indices: 98087390--98087420 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
98087380 TATGGTTTTA
98087390 TATTAGATTATTAT
1 TATTAGATTATTAT
98087404 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
98087419 TA
1 TA
98087421 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:98094717 original size:45 final size:44
Alignment explanation
Indices: 98094652--98094827 Score: 187
Period size: 45 Copynumber: 4.0 Consensus size: 44
98094642 AATATCGTAT
* **
98094652 GATACTAATCGGGCCTTTGAGCCTAATAGGCTATAATGCCGGTGA
1 GATACTAATC-GGCCCTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
98094697 GATACTAATCGGACCCTTGAGCTTAGCAGGCTATAATGCCGGTGA
1 GATACTAATCGG-CCCTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * *
98094742 GATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGATGA
1 GATACTAATCGGCCCTT-GAGCCTAGCAGGCTATAATGCCGGTGA
* * * * *
98094787 AATGA-T-ATCGGGCTTTGAGCCTAGCAAGCAAT-ATGCCGGTG
1 GAT-ACTAATCGGCCCTTGAGCCTAGCAGGCTATAATGCCGGTG
98094828 GATGAATTCG
Statistics
Matches: 114, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
42 8 0.07
43 14 0.12
44 14 0.12
45 77 0.68
46 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (44 bp):
GATACTAATCGGCCCTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:98102881 original size:17 final size:17
Alignment explanation
Indices: 98102840--98102873 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
98102830 AGATAGGCCT
*
98102840 TAAATCTATACATGTAA
1 TAAATATATACATGTAA
98102857 TAAATATATA-ATGTAA
1 TAAATATATACATGTAA
98102873 T
1 T
98102874 TTAATATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (17 bp):
TAAATATATACATGTAA
Found at i:98104156 original size:32 final size:32
Alignment explanation
Indices: 98104084--98104156 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
98104074 AAAATAAATA
98104084 TAAAATTAAAACAAATCGAATATTAACAATTG
1 TAAAATTAAAACAAATCGAATATTAACAATTG
* *
98104116 TAACATTAAAACAAAT-TAAT-TTAACAATATG
1 TAAAATTAAAACAAATCGAATATTAACAAT-TG
98104147 TATAAATTAA
1 TA-AAATTAA
98104157 TAATATTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 8 0.22
31 7 0.19
32 21 0.58
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (32 bp):
TAAAATTAAAACAAATCGAATATTAACAATTG
Found at i:98104246 original size:16 final size:18
Alignment explanation
Indices: 98104215--98104250 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
98104205 TGAATTTTTG
98104215 TATTATTTTAATATTAAA
1 TATTATTTTAATATTAAA
98104233 TATT-TTTTAA-ATTAAA
1 TATTATTTTAATATTAAA
98104249 TA
1 TA
98104251 ACATTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTATTTTAATATTAAA
Found at i:98113874 original size:30 final size:30
Alignment explanation
Indices: 98113838--98113895 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
98113828 TTTAACAACC
98113838 AAATGTCTCTAAAATAATAAAAAAATTAGT
1 AAATGTCTCTAAAATAATAAAAAAATTAGT
* *
98113868 AAATGTCTTTAAAATAATAATAAAATTA
1 AAATGTCTCTAAAATAATAAAAAAATTA
98113896 ACAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAAAAAAATTAGT
Found at i:98113954 original size:22 final size:22
Alignment explanation
Indices: 98113929--98113971 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
98113919 TATCCAAACA
98113929 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
98113951 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
98113972 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:98113975 original size:11 final size:11
Alignment explanation
Indices: 98113936--98113976 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
98113926 ACAATAACAA
98113936 CAAAATAGTAG
1 CAAAATAGTAG
* *
98113947 CAACATAATAG
1 CAAAATAGTAG
*
98113958 TAAAATAGTAG
1 CAAAATAGTAG
98113969 CAAAATAG
1 CAAAATAG
98113977 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:98115003 original size:26 final size:27
Alignment explanation
Indices: 98114973--98115032 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
98114963 TGGGTTAAAA
98114973 AAATTTAATTGTTT-TATGGAATTAAT
1 AAATTTAATTGTTTATATGGAATTAAT
* * *
98114999 GAATTTTTATTTTTTATATGGAATTAAT
1 -AAATTTAATTGTTTATATGGAATTAAT
98115027 AAATTT
1 AAATTT
98115033 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (27 bp):
AAATTTAATTGTTTATATGGAATTAAT
Found at i:98115019 original size:28 final size:28
Alignment explanation
Indices: 98114987--98115044 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
98114977 TTAATTGTTT
*
98114987 TATGGAATTAATGAATTTTTATTTTTTA
1 TATGGAATTAATAAATTTTTATTTTTTA
98115015 TATGGAATTAATAAATTTTTATTTTTTA
1 TATGGAATTAATAAATTTTTATTTTTTA
98115043 TA
1 TA
98115045 CTTTTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (28 bp):
TATGGAATTAATAAATTTTTATTTTTTA
Found at i:98115071 original size:20 final size:19
Alignment explanation
Indices: 98115048--98115103 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
98115038 TTTTATACTT
98115048 TTTTATTATATATTTTTTGA
1 TTTT-TTATATATTTTTTGA
*
98115068 TTTTTATATATATTATTTTTA
1 TTTTT-TATATATT-TTTTGA
98115089 -TTTTTATA-ATTTTTT
1 TTTTTTATATATTTTTT
98115104 TAAAATTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 4 0.12
18 3 0.09
19 5 0.15
20 16 0.48
21 5 0.15
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTTATATATTTTTTGA
Found at i:98115096 original size:21 final size:20
Alignment explanation
Indices: 98115047--98115104 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
98115037 TTTTTATACT
98115047 TTTTTATTATATATTTTTTGA
1 TTTTTA-TATATATTTTTTGA
*
98115068 TTTTTATATATATTATTTTTA
1 TTTTTATATATATT-TTTTGA
98115089 TTTTTATA-AT-TTTTTT
1 TTTTTATATATATTTTTT
98115105 AAAATTGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 4 0.11
19 2 0.06
20 10 0.29
21 19 0.54
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTTATATATATTTTTTGA
Found at i:98123101 original size:20 final size:20
Alignment explanation
Indices: 98123065--98123103 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
98123055 TGAGTTTTTC
*
98123065 TATATTTGAGTATTTAATTT
1 TATATTTGAGTAATTAATTT
98123085 TATATTTG-GATAATTAATT
1 TATATTTGAG-TAATTAATT
98123104 AAACAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
TATATTTGAGTAATTAATTT
Found at i:98123199 original size:66 final size:66
Alignment explanation
Indices: 98123065--98123217 Score: 182
Period size: 66 Copynumber: 2.3 Consensus size: 66
98123055 TGAGTTTTTC
* * *
98123065 TATATTTGAGTATTTAATTTTATATTTGGATAATTAATTAAACAATTTAATTGGATTAAGTTATT
1 TATATTTGAGTATTTAATTTTATACTTGGATAATTAATTAAACAATTTAATTGGATTAAGTAAAT
98123130 T
66 T
* * * ** **
98123131 TATATTCGAGTATTTAATTTTATACTTGGATAATTTATTGAGTAATTTAATTAGG-TTGTGTAAA
1 TATATTTGAGTATTTAATTTTATACTTGGATAATTAATTAAACAATTTAATT-GGATTAAGTAAA
98123195 TT
65 TT
* *
98123197 TATATTTGAATATTTTATTTT
1 TATATTTGAGTATTTAATTTT
98123218 TTGGGTTAGT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
66 71 0.97
67 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (66 bp):
TATATTTGAGTATTTAATTTTATACTTGGATAATTAATTAAACAATTTAATTGGATTAAGTAAAT
T
Found at i:98124336 original size:79 final size:79
Alignment explanation
Indices: 98124203--98124432 Score: 324
Period size: 79 Copynumber: 2.9 Consensus size: 79
98124193 GAGTCACATC
* * * * *
98124203 TCATGTAACTGTAGTGAATTAGGATTA-CCTTTTCAGGTCAAATCCTACCCACCTTAAGTTATCA
1 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
* *
98124267 TAAGGATTCATGTA
66 TAAGGAATCATATA
* *
98124281 TCGTGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTATGTTACCA
1 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
*
98124346 TAATGAATCATATA
66 TAAGGAATCATATA
*
98124360 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCT-T-CGCCTTAAGTTACCA
1 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
98124423 T-AGTGAATCA
66 TAAG-GAATCA
98124433 GGAATAAATT
Statistics
Matches: 136, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
76 1 0.01
77 20 0.15
78 24 0.18
79 91 0.67
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (79 bp):
TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
TAAGGAATCATATA
Found at i:98124492 original size:40 final size:40
Alignment explanation
Indices: 98124417--98124492 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
98124407 TCGCCTTAAG
* * ** *
98124417 TTACCATAGTGAATCAGGAATAAATTTTATTCACTTCAAA
1 TTACCATAATGAATCAGGAACAAATCCTATCCACTTCAAA
98124457 TTACCATAATGAATCAGGAACAAATCCTATCCACTT
1 TTACCATAATGAATCAGGAACAAATCCTATCCACTT
98124493 TGAGGTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (40 bp):
TTACCATAATGAATCAGGAACAAATCCTATCCACTTCAAA
Found at i:98127927 original size:44 final size:44
Alignment explanation
Indices: 98127874--98127959 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
98127864 TAATAGAAAC
98127874 AGTACGACAC-ACGAAGTGCCTCATCAACACAAAGTCGAAGTAAT
1 AGTACGACACTA-GAAGTGCCTCATCAACACAAAGTCGAAGTAAT
* ** * * *
98127918 AGTATGACACTATTAGTGCCTCATCGACTCAAGGTCGAAGTA
1 AGTACGACACTAGAAGTGCCTCATCAACACAAAGTCGAAGTA
98127960 TCCCTATACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTACGACACTAGAAGTGCCTCATCAACACAAAGTCGAAGTAAT
Found at i:98129455 original size:2 final size:2
Alignment explanation
Indices: 98129450--98129509 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
98129440 TATTCATATG
98129450 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
98129492 CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA
98129510 TATATATATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:98129604 original size:10 final size:10
Alignment explanation
Indices: 98129591--98129660 Score: 56
Period size: 10 Copynumber: 6.9 Consensus size: 10
98129581 ATTAATTCTT
98129591 ATAATTATTA
1 ATAATTATTA
*
98129601 ATAATTTTTAA
1 ATAATTATT-A
*
98129612 ATAATTTTTA
1 ATAATTATTA
98129622 ATAATTA-TA
1 ATAATTATTA
*
98129631 TATAGTT-TGT-
1 -ATAATTAT-TA
98129641 ATAATTATTTA
1 ATAATTA-TTA
98129652 ATAATTATT
1 ATAATTATT
98129661 TAAAAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
9 7 0.14
10 23 0.47
11 19 0.39
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (10 bp):
ATAATTATTA
Found at i:98129655 original size:11 final size:11
Alignment explanation
Indices: 98129591--98129663 Score: 68
Period size: 11 Copynumber: 7.1 Consensus size: 11
98129581 ATTAATTCTT
98129591 ATAATTA-TTA
1 ATAATTATTTA
98129601 ATAATT-TTTAA
1 ATAATTATTT-A
98129612 ATAATT-TTTA
1 ATAATTATTTA
*
98129622 ATAATTATAT-
1 ATAATTATTTA
* *
98129632 ATAGTT-TGT-
1 ATAATTATTTA
98129641 ATAATTATTTA
1 ATAATTATTTA
98129652 ATAATTATTTA
1 ATAATTATTTA
98129663 A
1 A
98129664 AAAAAATCCA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
9 7 0.13
10 22 0.42
11 24 0.45
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
ATAATTATTTA
Found at i:98131640 original size:20 final size:20
Alignment explanation
Indices: 98131587--98131640 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
98131577 GCTGGAAAGA
*
98131587 AACTAAATTGAGCTCAAATG
1 AACTGAATTGAGCTCAAATG
* * * *
98131607 AGCTTAATTAAGCTCAAGTG
1 AACTGAATTGAGCTCAAATG
*
98131627 AACTGATTTGAGCT
1 AACTGAATTGAGCT
98131641 GATTGGAGCT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (20 bp):
AACTGAATTGAGCTCAAATG
Found at i:98132033 original size:19 final size:20
Alignment explanation
Indices: 98131982--98132033 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
98131972 AGTGGTTTCT
98131982 TAAATAATTAT-AAAATATA
1 TAAATAATTATAAAAATATA
*
98132001 TAAATGTATT-TAAAAAT-TA
1 TAAAT-AATTATAAAAATATA
*
98132020 TTAATAATTATAAA
1 TAAATAATTATAAA
98132034 TAATGATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.11
19 16 0.59
20 8 0.30
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAATAATTATAAAAATATA
Found at i:98132331 original size:30 final size:30
Alignment explanation
Indices: 98132297--98132353 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
98132287 AGAAAAATGA
*
98132297 TTTTCTAGCTCCTTTTAATCTAAACTTCAT
1 TTTTCTAACTCCTTTTAATCTAAACTTCAT
98132327 TTTTCTAACTCCTTTTAATCTAAACTT
1 TTTTCTAACTCCTTTTAATCTAAACTT
98132354 ACTTGTCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.02, T:0.51
Consensus pattern (30 bp):
TTTTCTAACTCCTTTTAATCTAAACTTCAT
Found at i:98132348 original size:15 final size:15
Alignment explanation
Indices: 98132300--98132349 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
98132290 AAAATGATTT
*
98132300 TCTAGCTCCTTTTAA
1 TCTAACTCCTTTTAA
*
98132315 TCTAAACTTCATTTT--
1 TCT-AAC-TCCTTTTAA
98132330 TCTAACTCCTTTTAA
1 TCTAACTCCTTTTAA
98132345 TCTAA
1 TCTAA
98132350 ACTTACTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
13 6 0.21
14 3 0.11
15 11 0.39
16 2 0.07
17 6 0.21
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (15 bp):
TCTAACTCCTTTTAA
Found at i:98137628 original size:17 final size:17
Alignment explanation
Indices: 98137589--98137631 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
98137579 GCAATTAGGG
98137589 TTAGGGTTTTGGAAATT
1 TTAGGGTTTTGGAAATT
**
98137606 TT-GGGTTTTTTAAATT
1 TTAGGGTTTTGGAAATT
98137622 TTAGGGTTTT
1 TTAGGGTTTT
98137632 AAGGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.56
Consensus pattern (17 bp):
TTAGGGTTTTGGAAATT
Found at i:98137866 original size:105 final size:96
Alignment explanation
Indices: 98137620--98137866 Score: 246
Period size: 96 Copynumber: 2.5 Consensus size: 96
98137610 GTTTTTTAAA
* * ** *
98137620 TTTTAGGGTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTAC
1 TTTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTAC
* *
98137685 TAATTTTAAAAAATTAGATTATGGTTTAGTG
66 TAATTTAAAAAAATTAGATTATGGTTTAGGG
* * * * *
98137716 -TTTATGGTTTTTAAGGAAAAAATCAAATAAATTTGAGTTCAGGGTTACTTGAGTAAATTAATTA
1 TTTTA-GGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
*
98137780 -TAAATTTAAAAAAAATAGATTAGGATTTTAGAGTTTAGGG
65 CT-AATTT---AAAAA-A-ATTA-GATTAT-G-GTTTAGGG
* *
98137820 TTTTAGGGTATTTAAGAAAAAAATCAAATAAATTAGGGTTTGGGGTT
1 TTTTAGGGT-TTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTT
98137867 TAGGGTAACT
Statistics
Matches: 120, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
95 5 0.04
96 54 0.45
99 4 0.03
100 1 0.01
101 4 0.03
102 5 0.04
103 1 0.01
104 10 0.08
105 36 0.30
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (96 bp):
TTTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTAC
TAATTTAAAAAAATTAGATTATGGTTTAGGG
Found at i:98138140 original size:126 final size:126
Alignment explanation
Indices: 98137911--98138323 Score: 666
Period size: 126 Copynumber: 3.3 Consensus size: 126
98137901 AAAAGTTTCT
* *
98137911 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATCTGAGAAGACGTGTCTGCGTAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGTAA
* *
98137976 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAATTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGAAAGAAGCTCCC
* *
98138037 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTAAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGTAA
* *
98138102 ATAGTGGT-AAAAACACTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGAAAGAAGCTCCC
* * * *
98138163 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTACATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGTAA
*
98138228 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGAAAGAAGCTCCC
* * *
98138289 ACGTAGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
98138324 TAACTTGGGC
Statistics
Matches: 265, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
125 2 0.01
126 261 0.98
127 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGTAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGAAAGAAGCTCCC
Found at i:98141437 original size:116 final size:116
Alignment explanation
Indices: 98141262--98141814 Score: 957
Period size: 116 Copynumber: 4.8 Consensus size: 116
98141252 TTTATATTTT
* * *
98141262 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
98141327 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
98141378 ATCATATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
98141443 AAAATATAAAAGTAAATTACAGTTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
98141494 ATTACATGGAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
98141559 AAAATATAAAATTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
98141610 GTTACATGAAATAATTTAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
98141675 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
98141726 ATTAAATGAAATAATATAAAAATATTCAAAATGTTACCTTATTTAAAAT-ATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
98141790 AAAATATAAAAGTAAATTA-AATTAC
66 AAAATATAAAAGTAAATTACAATTAC
98141815 ATGAAATAAT
Statistics
Matches: 415, Mismatches: 22, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
114 6 0.01
115 34 0.08
116 375 0.90
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.41
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:98141819 original size:84 final size:86
Alignment explanation
Indices: 98141725--98141900 Score: 311
Period size: 84 Copynumber: 2.1 Consensus size: 86
98141715 CCTTTTATCT
* *
98141725 AATTAAATGAAATAATATAAAAATATTCAAAATGTTACCTTATTTAAAAT-ATTTCCATTTTATT
1 AATTACATGAAATAATATAAAAATATTCAAAATGTTACCTTACTTAAAATAATTTCCATTTTATT
98141789 AAAAATATAAAAGTAAATTA-
66 AAAAATATAAAAGTAAATTAC
*
98141809 AATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTACTTAAAATAATTTCCATTTTATT
1 AATTACATGAAATAATATAAAAATATTCAAAATGTTACCTTACTTAAAATAATTTCCATTTTATT
98141874 AAAAATATAAAAGTAAATTAC
66 AAAAATATAAAAGTAAATTAC
98141895 AATTAC
1 AATTAC
98141901 TTTATTTAAA
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
84 47 0.54
85 34 0.39
86 6 0.07
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (86 bp):
AATTACATGAAATAATATAAAAATATTCAAAATGTTACCTTACTTAAAATAATTTCCATTTTATT
AAAAATATAAAAGTAAATTAC
Found at i:98142377 original size:18 final size:18
Alignment explanation
Indices: 98142350--98142387 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
98142340 GAAAAAGGAA
*
98142350 ACATATAAGGGCTAAGAT
1 ACATAAAAGGGCTAAGAT
*
98142368 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAAGAT
98142386 AC
1 AC
98142388 GTACTTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (18 bp):
ACATAAAAGGGCTAAGAT
Found at i:98142482 original size:30 final size:30
Alignment explanation
Indices: 98142441--98142506 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
98142431 GTTGAACTGT
* *
98142441 TGGGCCCGGTGACTGTGTAGGTC-CTGTTGC
1 TGGGCCCGGTGACTGTGT-GGGCACTGTTGA
* *
98142471 TGGGCCGGGTGATTGTGTGGGCACTGTTGA
1 TGGGCCCGGTGACTGTGTGGGCACTGTTGA
98142501 TGGGCC
1 TGGGCC
98142507 TGCTTCGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.08, C:0.20, G:0.44, T:0.29
Consensus pattern (30 bp):
TGGGCCCGGTGACTGTGTGGGCACTGTTGA
Found at i:98144174 original size:22 final size:22
Alignment explanation
Indices: 98144162--98144211 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
98144152 TAACGAGAGT
98144162 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
98144184 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
98144204 TTTGAGAG
1 TTTGAGAG
98144212 AATATTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:98144185 original size:11 final size:11
Alignment explanation
Indices: 98144162--98144213 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
98144152 TAACGAGAGT
*
98144162 TTTGAGAGGAA
1 TTTGAGAGAAA
*
98144173 TTTAAGAGAAA
1 TTTGAGAGAAA
98144184 TTTGAGAG--A
1 TTTGAGAGAAA
98144193 TTTGAGAGAAA
1 TTTGAGAGAAA
98144204 TTTGAGAGAA
1 TTTGAGAGAA
98144214 TATTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:98144225 original size:31 final size:31
Alignment explanation
Indices: 98144162--98144225 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
98144152 TAACGAGAGT
* *
98144162 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
98144193 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
98144224 TT
1 TT
98144226 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:98148111 original size:28 final size:28
Alignment explanation
Indices: 98148060--98148134 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 28
98148050 TAATGTTAAG
*
98148060 ATAACTATATAAAATATTTCAATAAATAAA
1 ATAA-TATATAAAATATTTAAAT-AATAAA
*
98148090 A-AATATATAAAAT-TATTAAATATTAAA
1 ATAATATATAAAATAT-TTAAATAATAAA
98148117 ATAATATAATATAAATAT
1 ATAATAT-ATA-AAATAT
98148135 ACATTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
27 7 0.18
28 20 0.53
29 5 0.13
30 5 0.13
31 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAATATATAAAATATTTAAATAATAAA
Found at i:98155942 original size:7 final size:7
Alignment explanation
Indices: 98155930--98155961 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
98155920 AGTCGATTCA
98155930 TATTTAG
1 TATTTAG
98155937 TATTTAG
1 TATTTAG
98155944 TATTTAG
1 TATTTAG
98155951 TATTTAG
1 TATTTAG
98155958 TATT
1 TATT
98155962 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:98156498 original size:30 final size:30
Alignment explanation
Indices: 98156459--98156556 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
98156449 ATGACAACGC
* * * *
98156459 AAGCTCATCAATAGCGCCCACACAATTACG
1 AAGCCCATCAACAGCGCCCACAAAATCACG
* *
98156489 AAGCCCATCAACAGCGCCCATAAAAATCACT
1 AAGCCCATCAACAGCGCCCA-CAAAATCACG
* *
98156520 AGGCCCATCAACAGCGCCCACATAATCACCG
1 AAGCCCATCAACAGCGCCCACAAAATCA-CG
98156551 -AGCCCA
1 AAGCCCA
98156557 ACACTTCAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
30 29 0.53
31 26 0.47
ACGTcount: A:0.37, C:0.38, G:0.13, T:0.12
Consensus pattern (30 bp):
AAGCCCATCAACAGCGCCCACAAAATCACG
Found at i:98161848 original size:46 final size:46
Alignment explanation
Indices: 98161778--98161958 Score: 258
Period size: 46 Copynumber: 3.9 Consensus size: 46
98161768 TTTGACATGA
* * * *
98161778 TGCCATAGTGTCTTTC-AACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAAAC-ATGGTCTTACACA-TTTCATATCAGGT
**
98161824 TGCCATGGTATCTTTCAAACATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAGGT
*
98161870 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAGGT
*
98161916 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCA
98161959 ATGAGCACAC
Statistics
Matches: 126, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
45 4 0.03
46 119 0.94
47 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAGGT
Found at i:98165092 original size:125 final size:126
Alignment explanation
Indices: 98164869--98165117 Score: 428
Period size: 125 Copynumber: 2.0 Consensus size: 126
98164859 GCCAAATAGG
* * * *
98164869 AACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAAAAAAAAAGCGCCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
*
98164934 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCATA
66 TGCTTGAAGCGTTTTTGACACAATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCATA
*
98164995 AACTACTGTAAAAAAAAAGCGCCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACA-TGCATCC
1 AACTACTGTAAAAAAAAAGCGCCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
*
98165059 TGCTTGAAGCGTTTTTGACACAATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCA
66 TGCTTGAAGCGTTTTTGACACAATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCA
98165118 GATACATCTT
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
125 64 0.55
126 52 0.45
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (126 bp):
AACTACTGTAAAAAAAAAGCGCCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACAATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCATA
Found at i:98165117 original size:28 final size:28
Alignment explanation
Indices: 98165081--98165145 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
98165071 TTTTGACACA
* *
98165081 ATTTGTTCAGAAACGTCTTCTCAAAATT
1 ATTTTTTCAGAAACATCTTCTCAAAATT
* * *
98165109 ATTTTTTCAGATACATCTTCTCTAATTT
1 ATTTTTTCAGAAACATCTTCTCAAAATT
98165137 ATTTTTTCA
1 ATTTTTTCA
98165146 AAAATTACTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (28 bp):
ATTTTTTCAGAAACATCTTCTCAAAATT
Found at i:98166319 original size:18 final size:20
Alignment explanation
Indices: 98166296--98166340 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
98166286 ATAAAAAATT
98166296 ATAAATAT-TT-TTT-TATGA
1 ATAAATATGTTATTTGTAT-A
98166314 ATAAATATGTTATTTGTATA
1 ATAAATATGTTATTTGTATA
98166334 ATAAATA
1 ATAAATA
98166341 GCATGGACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.33
19 2 0.08
20 11 0.46
21 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
ATAAATATGTTATTTGTATA
Found at i:98170523 original size:16 final size:15
Alignment explanation
Indices: 98170480--98170522 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
98170470 TTTAGAAAAA
*
98170480 TTTTAGTTTTTGGAT
1 TTTTAGTTTTTAGAT
98170495 TTTCTAGCTTTTTAGAT
1 TTT-TAG-TTTTTAGAT
98170512 TTTTAGTTTTT
1 TTTTAGTTTTT
98170523 TTTAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 6 0.24
17 11 0.44
ACGTcount: A:0.14, C:0.05, G:0.14, T:0.67
Consensus pattern (15 bp):
TTTTAGTTTTTAGAT
Found at i:98174364 original size:18 final size:17
Alignment explanation
Indices: 98174322--98174364 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
98174312 GTTTTAAGTT
*
98174322 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
98174339 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
98174357 TATAATTT
1 TATAATTT
98174365 AGAACATATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:98178780 original size:12 final size:13
Alignment explanation
Indices: 98178749--98178782 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
98178739 AATTGTGGAT
98178749 ATTAAAATAAAAC
1 ATTAAAATAAAAC
98178762 ATATAAAA-AAAAC
1 AT-TAAAATAAAAC
98178775 ATTAAAAT
1 ATTAAAAT
98178783 GATAGATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.26
13 9 0.47
14 5 0.26
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (13 bp):
ATTAAAATAAAAC
Found at i:98179181 original size:18 final size:17
Alignment explanation
Indices: 98179140--98179182 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
98179130 AAATTTCTCA
98179140 AATTAT-TAACATATTT
1 AATTATATAACATATTT
*
98179156 AATGATATAACATCATTT
1 AATTATATAACAT-ATTT
*
98179174 TATTATATA
1 AATTATATA
98179183 TTGCTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 5 0.23
17 6 0.27
18 11 0.50
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (17 bp):
AATTATATAACATATTT
Found at i:98179709 original size:5 final size:5
Alignment explanation
Indices: 98179699--98179728 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
98179689 TACTTACATA
*
98179699 AATAT AATAT AGTAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT
98179729 CCCTAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:98194868 original size:24 final size:24
Alignment explanation
Indices: 98194832--98194890 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
98194822 ATTGATAGTG
* *
98194832 TAATTCATGAAGCTCATACATTGA
1 TAATACATCAAGCTCATACATTGA
*
98194856 TAATACATCAAGCTCATGCATTGA
1 TAATACATCAAGCTCATACATTGA
98194880 TAATACATCAA
1 TAATACATCAA
98194891 ATATAATCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (24 bp):
TAATACATCAAGCTCATACATTGA
Found at i:98200883 original size:13 final size:13
Alignment explanation
Indices: 98200862--98200912 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
98200852 TTAACAATGC
98200862 TTTTAAAAAATAT
1 TTTTAAAAAATAT
* *
98200875 TTTTGAAAAGTA-
1 TTTTAAAAAATAT
*
98200887 TTGTAAAAAATTAT
1 TTTTAAAAAA-TAT
98200901 TTTTGAAAAAAT
1 TTTT-AAAAAAT
98200913 TTAAGTGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
12 7 0.24
13 12 0.41
14 4 0.14
15 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:98202996 original size:17 final size:17
Alignment explanation
Indices: 98202976--98203009 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98202966 AGGTTTAGGT
98202976 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
98202993 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
98203010 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:98205197 original size:6 final size:6
Alignment explanation
Indices: 98205186--98205214 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
98205176 AAATTCTACT
98205186 TTCCCA TTCCCA TTCCCA TTCCCA TTCCC
1 TTCCCA TTCCCA TTCCCA TTCCCA TTCCC
98205215 CTTCACGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.52, G:0.00, T:0.34
Consensus pattern (6 bp):
TTCCCA
Found at i:98217731 original size:21 final size:21
Alignment explanation
Indices: 98217706--98217751 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
98217696 CTGCACCAGC
* *
98217706 TTCTTCAGATTTTTCTTCTGT
1 TTCTTCAGATTCTGCTTCTGT
* *
98217727 TTCTTCTGCTTCTGCTTCTGT
1 TTCTTCAGATTCTGCTTCTGT
98217748 TTCT
1 TTCT
98217752 GCTTCTGCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.24, G:0.11, T:0.61
Consensus pattern (21 bp):
TTCTTCAGATTCTGCTTCTGT
Found at i:98217738 original size:6 final size:6
Alignment explanation
Indices: 98217729--98217764 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
98217719 TCTTCTGTTT
*
98217729 CTTCTG CTTCTG CTTCTG TTTCTG CTTCTG CTTCTG
1 CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG
98217765 GTTTCGCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.31, G:0.17, T:0.53
Consensus pattern (6 bp):
CTTCTG
Found at i:98217751 original size:18 final size:19
Alignment explanation
Indices: 98217730--98217769 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
98217720 CTTCTGTTTC
98217730 TTCTGCTTCTGCTTCT-GT
1 TTCTGCTTCTGCTTCTGGT
98217748 TTCTGCTTCTGCTTCTGGT
1 TTCTGCTTCTGCTTCTGGT
98217767 TTC
1 TTC
98217770 GCATCATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.00, C:0.28, G:0.17, T:0.55
Consensus pattern (19 bp):
TTCTGCTTCTGCTTCTGGT
Found at i:98222434 original size:17 final size:19
Alignment explanation
Indices: 98222402--98222448 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
98222392 AGCAAATGCC
*
98222402 TATAAAATAGTAACAA-AAT
1 TATACAATA-TAACAAGAAT
*
98222421 TA-ACAATATAACAAGAGT
1 TATACAATATAACAAGAAT
98222439 TATACAATAT
1 TATACAATAT
98222449 CCAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.25
18 9 0.38
19 9 0.38
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (19 bp):
TATACAATATAACAAGAAT
Found at i:98222533 original size:14 final size:14
Alignment explanation
Indices: 98222492--98222543 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
98222482 TAAAAAAGTG
*
98222492 AAAAAACAATAAAA
1 AAAAAACAGTAAAA
* *
98222506 AAATAGCAAG-AAAA
1 AAAAAAC-AGTAAAA
98222520 AAAAAACAGTAAAA
1 AAAAAACAGTAAAA
*
98222534 AAAAGACAGT
1 AAAAAACAGT
98222544 TTCTTTTTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 2 0.07
14 27 0.90
15 1 0.03
ACGTcount: A:0.75, C:0.08, G:0.10, T:0.08
Consensus pattern (14 bp):
AAAAAACAGTAAAA
Found at i:98225967 original size:27 final size:26
Alignment explanation
Indices: 98225929--98225988 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
98225919 AATTTTAAAA
98225929 TTTATAAAAATAAAAAATATAAATATT
1 TTTATAAAAATAAAAAAT-TAAATATT
* *
98225956 TTTA-AAATAATATACAATTAAAT-TT
1 TTTATAAA-AATAAAAAATTAAATATT
*
98225981 TTTTTAAA
1 TTTATAAA
98225989 CAATTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 5 0.18
26 11 0.39
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TTTATAAAAATAAAAAATTAAATATT
Found at i:98235428 original size:32 final size:32
Alignment explanation
Indices: 98235392--98235455 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
98235382 AATAACTATT
98235392 TTCAGTCATATATATGTTGATCAAAGATTTAC
1 TTCAGTCATATATATGTTGATCAAAGATTTAC
98235424 TTCAGTCATATATATGTTGATCAAAGATTTAC
1 TTCAGTCATATATATGTTGATCAAAGATTTAC
98235456 ATCAATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (32 bp):
TTCAGTCATATATATGTTGATCAAAGATTTAC
Found at i:98241195 original size:18 final size:19
Alignment explanation
Indices: 98241161--98241198 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
98241151 CGTTGAAGAA
98241161 ATGAGACAAGAGCTGAATT
1 ATGAGACAAGAGCTGAATT
98241180 ATGAGA-AAGA-CATGAATT
1 ATGAGACAAGAGC-TGAATT
98241198 A
1 A
98241199 CAATCTTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 11 0.61
19 6 0.33
ACGTcount: A:0.47, C:0.08, G:0.24, T:0.21
Consensus pattern (19 bp):
ATGAGACAAGAGCTGAATT
Found at i:98251956 original size:19 final size:20
Alignment explanation
Indices: 98251922--98251962 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
98251912 ACAAATAAAT
* *
98251922 AAAATTCATAATTTTTTTTA
1 AAAATTAATAATTTTTATTA
98251942 AAAATTAATAA-TTTTATTA
1 AAAATTAATAATTTTTATTA
98251961 AA
1 AA
98251963 CCAGTTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATTAATAATTTTTATTA
Found at i:98253476 original size:21 final size:20
Alignment explanation
Indices: 98253428--98253484 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
98253418 TGGATATTAT
* *
98253428 TTTTAATAATTTTTAAATAAT
1 TTTT-ATAAATTTTAAATAAA
98253449 TTCTTATAAATTTTAAATAAAA
1 TT-TTATAAATTTTAAAT-AAA
*
98253471 TTTTATAACTTTTA
1 TTTTATAAATTTTA
98253485 GAATTATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTATAAATTTTAAATAAA
Done.