Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 317 of 318
Found at i:100097227 original size:22 final size:22
Alignment explanation
Indices: 100097193--100097234 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
100097183 AGAAATTTAT
*
100097193 AAAAATTATTAAAT-TTTAATA
1 AAAAATTAATAAATATTTAATA
100097214 AAAATATTAATAAATATTTAA
1 AAAA-ATTAATAAATATTTAA
100097235 AATTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATTAATAAATATTTAATA
Found at i:100097269 original size:40 final size:42
Alignment explanation
Indices: 100097174--100097278 Score: 96
Period size: 40 Copynumber: 2.6 Consensus size: 42
100097164 TGACATGTGG
** *
100097174 AAAAAA-TATAGAAAT-TTATAAAAATTATTAAATTTTAATA
1 AAAAAATTATAGAAATATTATAAAAATTATTAAAAATTAAGA
* * * *
100097214 AAAATATTA-ATAAATATT-TAAAATTTATTAAAAATTAGGA
1 AAAAAATTATAGAAATATTATAAAAATTATTAAAAATTAAGA
*
100097254 AAAAAATTATA-AAATA-TATAGAAAT
1 AAAAAATTATAGAAATATTATAAAAAT
100097279 ATAGAAAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.02
40 45 0.88
41 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (42 bp):
AAAAAATTATAGAAATATTATAAAAATTATTAAAAATTAAGA
Found at i:100097416 original size:17 final size:17
Alignment explanation
Indices: 100097394--100097427 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100097384 GCATTTTATA
100097394 ATTTTTCTATAATTTTT
1 ATTTTTCTATAATTTTT
* *
100097411 ATTTTTTTATCATTTTT
1 ATTTTTCTATAATTTTT
100097428 CACCACATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTCTATAATTTTT
Found at i:100098802 original size:43 final size:43
Alignment explanation
Indices: 100098728--100098828 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
100098718 TCATTGCATG
* * **
100098728 TAAGATCATGTCTGGGACATTTACATTGTATTGTGATTACGTC
1 TAAGACCATGTCTGGGACATTTACATCGTATTAAGATTACGTC
* *
100098771 TAAGACCATGTCTGGGACA-TTAGCATCGTATTAAGATTTCGTG
1 TAAGACCATGTCTGGGACATTTA-CATCGTATTAAGATTACGTC
*
100098814 TAAGACCTTGTCTGG
1 TAAGACCATGTCTGG
100098829 AACAGTGGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 3 0.06
43 47 0.94
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTTACATCGTATTAAGATTACGTC
Found at i:100100524 original size:20 final size:20
Alignment explanation
Indices: 100100499--100100555 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
100100489 TACAATTTTT
*
100100499 TTTTATAATTTTTTTACGAG
1 TTTTATAATTTTTTTACAAG
* *
100100519 TTTTATAATTTTATTTTCAAT
1 TTTTATAATTTT-TTTACAAG
100100540 TTTTAATAATTTTTTT
1 TTTT-ATAATTTTTTT
100100556 TAAGTTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.38
21 12 0.38
22 8 0.25
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAG
Found at i:100100744 original size:20 final size:20
Alignment explanation
Indices: 100100719--100100761 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
100100709 TTACACTAAA
*
100100719 ATTGACATCTCTAATGGAAG
1 ATTGACACCTCTAATGGAAG
* *
100100739 ATTGACGCCTCTAGTGGAAG
1 ATTGACACCTCTAATGGAAG
100100759 ATT
1 ATT
100100762 TAGATAGACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (20 bp):
ATTGACACCTCTAATGGAAG
Found at i:100108297 original size:14 final size:14
Alignment explanation
Indices: 100108280--100108355 Score: 53
Period size: 14 Copynumber: 5.4 Consensus size: 14
100108270 TTAAAAAAAT
*
100108280 AATTGAGGATTGAA
1 AATTGAAGATTGAA
* *
100108294 AATTCAAAATTGAA
1 AATTGAAGATTGAA
* *
100108308 AATTAAAGATTAAA
1 AATTGAAGATTGAA
* * *
100108322 AATAGAAAATTAAA
1 AATTGAAGATTGAA
* *
100108336 AATCGAGGATTGAA
1 AATTGAAGATTGAA
*
100108350 ATTTGA
1 AATTGA
100108356 GTATTTGATT
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 47 1.00
ACGTcount: A:0.54, C:0.03, G:0.16, T:0.28
Consensus pattern (14 bp):
AATTGAAGATTGAA
Found at i:100108302 original size:7 final size:7
Alignment explanation
Indices: 100108292--100108338 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
100108282 TTGAGGATTG
*
100108292 AAAATTC
1 AAAATTA
*
100108299 AAAATTG
1 AAAATTA
100108306 AAAATTA
1 AAAATTA
*
100108313 AAGATTA
1 AAAATTA
100108320 AAAA-TA
1 AAAATTA
100108326 GAAAATTA
1 -AAAATTA
100108334 AAAAT
1 AAAAT
100108339 CGAGGATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
6 2 0.06
7 30 0.88
8 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:100116945 original size:22 final size:22
Alignment explanation
Indices: 100116914--100116961 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
100116904 AAACAATTGC
* *
100116914 TTTGTTATTGTTTTGTTGTCAT
1 TTTGTCATTGTTTTATTGTCAT
*
100116936 TTTGTCATTGTTTTATTGTTAT
1 TTTGTCATTGTTTTATTGTCAT
100116958 TTTG
1 TTTG
100116962 CTATTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.10, C:0.04, G:0.17, T:0.69
Consensus pattern (22 bp):
TTTGTCATTGTTTTATTGTCAT
Found at i:100128361 original size:29 final size:28
Alignment explanation
Indices: 100128309--100128375 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
100128299 TAAAAAAGTT
*
100128309 ATTTTTAATAAAATTATTGAAATAAATTA
1 ATTTTTAA-AAAATTATTGAAATAAATCA
* *
100128338 ATTTTTAAAAAATT-TATGAGAATAGATCG
1 ATTTTTAAAAAATTAT-TGA-AATAAATCA
100128367 ATTTTTAAA
1 ATTTTTAAA
100128376 TTTAAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.03
28 9 0.27
29 23 0.70
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.43
Consensus pattern (28 bp):
ATTTTTAAAAAATTATTGAAATAAATCA
Found at i:100128550 original size:23 final size:22
Alignment explanation
Indices: 100128519--100128573 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
100128509 TATATATATT
100128519 ATATAATAAAAATAAAAATAAAC
1 ATAT-ATAAAAATAAAAATAAAC
* * * *
100128542 ATACTATAAATATTATAATATAC
1 ATA-TATAAAAATAAAAATAAAC
100128565 ATATATAAA
1 ATATATAAA
100128574 TTCATTACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.22
23 20 0.74
24 1 0.04
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (22 bp):
ATATATAAAAATAAAAATAAAC
Found at i:100128627 original size:23 final size:23
Alignment explanation
Indices: 100128600--100128643 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
100128590 TATTTTTAAT
*
100128600 AAATTTATTATTAAAGATAATAC
1 AAATTTAATATTAAAGATAATAC
*
100128623 AAATTTAATATTAAATATAAT
1 AAATTTAATATTAAAGATAAT
100128644 TATTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATTTAATATTAAAGATAATAC
Found at i:100131557 original size:21 final size:21
Alignment explanation
Indices: 100131531--100131574 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
100131521 TGATATTACA
100131531 TTATTATTATTTT-CTTTCTAT
1 TTATTATT-TTTTCCTTTCTAT
*
100131552 TTATTATTTTTTCCTTTTTAT
1 TTATTATTTTTTCCTTTCTAT
100131573 TT
1 TT
100131575 TATTTTCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATTATTTTTTCCTTTCTAT
Found at i:100132336 original size:23 final size:23
Alignment explanation
Indices: 100132304--100132348 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
100132294 TTTAAATACT
100132304 ATATATATATGTATGTATATTTAG
1 ATATATATATGTATG-ATATTTAG
100132328 ATAT-TATATGTATGATATTTA
1 ATATATATATGTATGATATTTA
100132349 TGTTATGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
23 10 0.48
24 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (23 bp):
ATATATATATGTATGATATTTAG
Found at i:100132497 original size:17 final size:17
Alignment explanation
Indices: 100132475--100132537 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
100132465 TTAAATATTG
100132475 TATTTTTATTATGTATA
1 TATTTTTATTATGTATA
* * *
100132492 TATTTTTAATACGGATA
1 TATTTTTATTATGTATA
*
100132509 CATTTTTTATTACTCGTATA
1 TA-TTTTTATTA-T-GTATA
100132529 TATATTTTA
1 TAT-TTTTA
100132538 ATTTTGTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 15 0.44
18 8 0.24
19 1 0.03
20 10 0.29
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (17 bp):
TATTTTTATTATGTATA
Found at i:100132549 original size:35 final size:33
Alignment explanation
Indices: 100132460--100132550 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 33
100132450 TACTGTGTAA
100132460 ATATTTTAAATATTGTA-TTTTTATTATGTATAT
1 ATATTTT-AATATTGTATTTTTTATTATGTATAT
**
100132493 AT-TTTTAATACGGATACATTTTTTATTACTCGTATAT
1 ATATTTTAATATTG-T--ATTTTTTATTA-T-GTATAT
*
100132530 ATATTTTAATTTTGTATTTTT
1 ATATTTTAATATTGTATTTTT
100132551 ATTGTTATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
31 5 0.11
32 5 0.11
33 2 0.04
34 1 0.02
35 15 0.33
36 1 0.02
37 9 0.20
38 8 0.17
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (33 bp):
ATATTTTAATATTGTATTTTTTATTATGTATAT
Found at i:100132622 original size:24 final size:24
Alignment explanation
Indices: 100132576--100132622 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
100132566 CTTTAATACT
* *
100132576 ATATCATTTTTATTTTTATTTTTC
1 ATATCATTCTTATGTTTATTTTTC
100132600 ATATCA-TCTTATGTTTATGTTTT
1 ATATCATTCTTATGTTTAT-TTTT
100132623 TCAAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (24 bp):
ATATCATTCTTATGTTTATTTTTC
Found at i:100133129 original size:3 final size:3
Alignment explanation
Indices: 100133121--100133174 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
100133111 TATCTCTAAC
100133121 TAT TAT TAT TAT T-T TA- TAT ATAT TAT TAT CTA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT
*
100133165 TAC TAT TAT T
1 TAT TAT TAT T
100133175 CTTTATTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 33 0.75
4 5 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:100133566 original size:77 final size:77
Alignment explanation
Indices: 100133472--100133625 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
100133462 ACTCCCGAAC
*
100133472 TTGTTTTCTTGATTTACGTGGACCAAAATCGTTGTTTAAATAAATTAAACCATTTATTAAAAATA
1 TTGTTTTCTTAATTTACGTGGACCAAAATCGTTGTTTAAATAAATTAAACCATTTATTAAAAATA
100133537 ACCACTTTTACA
66 ACCACTTTTACA
100133549 TTGTTTTCTTAATTTACGTGGACCAAAATCGTTGTTTAAATAAATTAAACCATTTATTAAAAATA
1 TTGTTTTCTTAATTTACGTGGACCAAAATCGTTGTTTAAATAAATTAAACCATTTATTAAAAATA
100133614 ACCACTTTTACA
66 ACCACTTTTACA
100133626 AGGTGATCCA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.40
Consensus pattern (77 bp):
TTGTTTTCTTAATTTACGTGGACCAAAATCGTTGTTTAAATAAATTAAACCATTTATTAAAAATA
ACCACTTTTACA
Found at i:100136685 original size:2 final size:2
Alignment explanation
Indices: 100136672--100136702 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
100136662 TGTTTAGTGA
*
100136672 AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
100136703 GAGTTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:100138159 original size:34 final size:34
Alignment explanation
Indices: 100138120--100138189 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
100138110 AAACTTGATC
100138120 TTAAAATGTTTAGTTTTACCATGAAATACTAGAT
1 TTAAAATGTTTAGTTTTACCATGAAATACTAGAT
*
100138154 TTAAAATGTTTGGTTTTACCATGAAATACTAGAT
1 TTAAAATGTTTAGTTTTACCATGAAATACTAGAT
100138188 TT
1 TT
100138190 TTAGCTATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.43
Consensus pattern (34 bp):
TTAAAATGTTTAGTTTTACCATGAAATACTAGAT
Found at i:100140653 original size:51 final size:51
Alignment explanation
Indices: 100140577--100140681 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
100140567 GGCTAGTGTA
100140577 AGCCTTCTTTTCAAGCTGATTCATGTTAAGCATGAAACACTTATCAGCCGT
1 AGCCTTCTTTTCAAGCTGATTCATGTTAAGCATGAAACACTTATCAGCCGT
100140628 AGCCTTCTTTTCAAGCTGATTCATGTTAAGCATGAAACACTTATCAGCCGT
1 AGCCTTCTTTTCAAGCTGATTCATGTTAAGCATGAAACACTTATCAGCCGT
100140679 AGC
1 AGC
100140682 TACTAAGACC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (51 bp):
AGCCTTCTTTTCAAGCTGATTCATGTTAAGCATGAAACACTTATCAGCCGT
Found at i:100145191 original size:20 final size:20
Alignment explanation
Indices: 100145158--100145218 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
100145148 ATATCAGTGG
100145158 ATAATGAAACAATCGATTAAA
1 ATAA-GAAACAATCGATTAAA
* * *
100145179 ATAAGAAATAATCGGTTCAA
1 ATAAGAAACAATCGATTAAA
100145199 ATAAGAAAACAATCGATTAA
1 ATAAG-AAACAATCGATTAA
100145219 CCAAGGGTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.56, C:0.10, G:0.11, T:0.23
Consensus pattern (20 bp):
ATAAGAAACAATCGATTAAA
Found at i:100150172 original size:2 final size:2
Alignment explanation
Indices: 100150165--100150189 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100150155 AATTGACTTA
100150165 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
100150190 ACAACTAAAG
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:100152577 original size:13 final size:14
Alignment explanation
Indices: 100152550--100152583 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
100152540 AAAAATAAAT
100152550 TATATTTTATTTTA
1 TATATTTTATTTTA
100152564 TATATTTT-TTTTA
1 TATATTTTATTTTA
*
100152577 TAAATTT
1 TATATTT
100152584 ATAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATATTTTATTTTA
Found at i:100152858 original size:21 final size:22
Alignment explanation
Indices: 100152821--100152862 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
100152811 ATCCAATCTC
*
100152821 ATTTTATTTTTACTTTTATATT
1 ATTTTATTTTTAATTTTATATT
100152843 ATTTTA-TTTTAATTTTATAT
1 ATTTTATTTTTAATTTTATAT
100152863 AACTTTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
ATTTTATTTTTAATTTTATATT
Found at i:100152869 original size:22 final size:22
Alignment explanation
Indices: 100152821--100152870 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
100152811 ATCCAATCTC
* *
100152821 ATTTTATTTTTACTTTTATATT
1 ATTTTATTTTTAATTTTATATA
100152843 ATTTTA-TTTTAATTTTATATA
1 ATTTTATTTTTAATTTTATATA
100152864 ACTTTTA
1 A-TTTTA
100152871 ACATTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTTATTTTTAATTTTATATA
Found at i:100157903 original size:22 final size:22
Alignment explanation
Indices: 100157885--100157928 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
100157875 TTCTTTATAT
100157885 ATTCTTT-GAATTTTTTTTAAA
1 ATTCTTTAGAATTTTTTTTAAA
* *
100157906 ATTTTTTATAATTTTTTTTAAA
1 ATTCTTTAGAATTTTTTTTAAA
100157928 A
1 A
100157929 AATAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTCTTTAGAATTTTTTTTAAA
Found at i:100157966 original size:18 final size:18
Alignment explanation
Indices: 100157930--100157983 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
100157920 TTTTTAAAAA
*
100157930 ATAAAT-TTTGGAATTTTT
1 ATAAATATTTTGAA-TTTT
100157948 ATAAATATTTTGAATTTT
1 ATAAATATTTTGAATTTT
100157966 A-AAATTTATTTT-AATTTT
1 ATAAA--TATTTTGAATTTT
100157984 TTTTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.09
18 17 0.53
19 12 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
ATAAATATTTTGAATTTT
Found at i:100157984 original size:19 final size:19
Alignment explanation
Indices: 100157930--100157965 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
100157920 TTTTTAAAAA
*
100157930 ATAAAT-TTTGGAATTTTT
1 ATAAATATTTTGAATTTTT
100157948 ATAAATATTTTGAATTTT
1 ATAAATATTTTGAATTTT
100157966 AAAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
ATAAATATTTTGAATTTTT
Found at i:100158357 original size:6 final size:6
Alignment explanation
Indices: 100158346--100158374 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
100158336 AAGGTGTGTG
100158346 TTGCCT TTGCCT TTGCCT TTGCCT TTGCC
1 TTGCCT TTGCCT TTGCCT TTGCCT TTGCC
100158375 GGGTCTCTAG
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:0.00, C:0.34, G:0.17, T:0.48
Consensus pattern (6 bp):
TTGCCT
Found at i:100161307 original size:19 final size:19
Alignment explanation
Indices: 100161266--100161310 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
100161256 TGTAATTTGA
* *
100161266 TTAAA-TTGAAAGTTTATG
1 TTAAATTTGAAAGTTGAGG
*
100161284 ATAAATTTGAAAGTTGAGG
1 TTAAATTTGAAAGTTGAGG
100161303 TTAAATTT
1 TTAAATTT
100161311 AATGATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (19 bp):
TTAAATTTGAAAGTTGAGG
Found at i:100164148 original size:2 final size:2
Alignment explanation
Indices: 100164143--100164167 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100164133 ATAAAATTGT
100164143 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
100164168 TAATAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100171839 original size:39 final size:39
Alignment explanation
Indices: 100171795--100172050 Score: 449
Period size: 39 Copynumber: 6.6 Consensus size: 39
100171785 GACTTTAGGC
*
100171795 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATTGCCTGCGGACCTGAAGT
100171834 CCGGATATAATTCCAGCACATTGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATTGCCTGCGGACCTGAAGT
* * *
100171873 CCAGATATAATTCTAGCACATTTCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATTGCCTGCGGACCTGAAGT
100171912 CCGGATATAATTCCAGCACATTGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATTGCCTGCGGACCTGAAGT
*
100171951 CCAGATATAATTCCAGCACATTGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATTGCCTGCGGACCTGAAGT
*
100171990 CCGGATATAATTCCAGCACATTGCCTGTGGACCTGAAGT
1 CCGGATATAATTCCAGCACATTGCCTGCGGACCTGAAGT
*
100172029 CCGGATATAATTCTAGCACATT
1 CCGGATATAATTCCAGCACATT
100172051 TAATTATGAT
Statistics
Matches: 206, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 206 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATTGCCTGCGGACCTGAAGT
Found at i:100181998 original size:17 final size:17
Alignment explanation
Indices: 100181978--100182016 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
100181968 TAAAAAAAAA
*
100181978 TAATTTTTTTAAAAATT
1 TAATATTTTTAAAAATT
*
100181995 TAATATTTTTAATAATT
1 TAATATTTTTAAAAATT
100182012 TAATA
1 TAATA
100182017 ATGAACTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATATTTTTAAAAATT
Found at i:100185292 original size:12 final size:12
Alignment explanation
Indices: 100185275--100185303 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
100185265 TTGTGAGTGC
100185275 CAAGTGTTGTCA
1 CAAGTGTTGTCA
100185287 CAAGTGTTGTCA
1 CAAGTGTTGTCA
100185299 CAAGT
1 CAAGT
100185304 CTCACTACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (12 bp):
CAAGTGTTGTCA
Found at i:100188260 original size:30 final size:31
Alignment explanation
Indices: 100188212--100188269 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
100188202 TTATTAGCTA
* *
100188212 TTTTACTTTTTCATTTCTAGGTT-TAAGTGC
1 TTTTACTTTTTCACTTCTAAGTTGTAAGTGC
* *
100188242 TTTTATTTTTTCCCTTCTAAGTTGTAAG
1 TTTTACTTTTTCACTTCTAAGTTGTAAG
100188270 GTACCAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.17, C:0.14, G:0.12, T:0.57
Consensus pattern (31 bp):
TTTTACTTTTTCACTTCTAAGTTGTAAGTGC
Found at i:100194336 original size:11 final size:11
Alignment explanation
Indices: 100194315--100194358 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
100194305 TTGACGTCTC
*
100194315 ACTATTGTTTT
1 ACTATTATTTT
*
100194326 GCTATTATTTT
1 ACTATTATTTT
*
100194337 ACTATTATATT
1 ACTATTATTTT
*
100194348 ACTACTATTTT
1 ACTATTATTTT
100194359 GTTGTTATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.05, T:0.59
Consensus pattern (11 bp):
ACTATTATTTT
Found at i:100199538 original size:20 final size:20
Alignment explanation
Indices: 100199506--100199552 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
100199496 TAATAAAATG
*
100199506 TTTTTAT-A-TTTTTAACTAA
1 TTTTTATAAGTTTTTAA-GAA
100199525 TTTTTATAAGTTTTTAAGAA
1 TTTTTATAAGTTTTTAAGAA
100199545 TTTTTATA
1 TTTTTATA
100199553 CGCTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.28
20 11 0.44
21 7 0.28
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTTATAAGTTTTTAAGAA
Found at i:100199559 original size:20 final size:20
Alignment explanation
Indices: 100199523--100199560 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
100199513 ATTTTTAACT
*
100199523 AATTTTTATAAGTTTTTAAG
1 AATTTTTATAAGCTTTTAAG
*
100199543 AATTTTTATACGCTTTTA
1 AATTTTTATAAGCTTTTA
100199561 TAAAATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (20 bp):
AATTTTTATAAGCTTTTAAG
Found at i:100199559 original size:21 final size:19
Alignment explanation
Indices: 100199506--100199569 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 19
100199496 TAATAAAATG
100199506 TTTTTAT-A-TTTTTAACTAA
1 TTTTTATAAGTTTTTAA--AA
100199525 TTTTTATAAGTTTTTAAGAA
1 TTTTTATAAGTTTTTAA-AA
*
100199545 TTTTTATACGCTTTTATAAAA
1 TTTTTATAAG-TTTT-TAAAA
100199566 TTTT
1 TTTT
100199570 AAATATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 7 0.18
20 12 0.31
21 17 0.44
22 3 0.08
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTATAAGTTTTTAAAA
Found at i:100199684 original size:22 final size:22
Alignment explanation
Indices: 100199638--100199692 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
100199628 GGATTTTTAG
100199638 ATTTT-TAA-TTTTTTTATAAT
1 ATTTTATAAGTTTTTTTATAAT
100199658 ATTTTATAAGTTTTTTATATAAT
1 ATTTTATAAGTTTTTT-TATAAT
100199681 -TTTTATAAGTTT
1 ATTTTATAAGTTT
100199693 ATATCAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.16
21 3 0.09
22 18 0.56
23 6 0.19
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTTTATAAGTTTTTTTATAAT
Found at i:100199712 original size:19 final size:19
Alignment explanation
Indices: 100199670--100199745 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 19
100199660 TTTATAAGTT
*
100199670 TTTTATATAATTTTTATAA
1 TTTTATATAATTTTAATAA
*
100199689 GTTTATATCAATTTTAAT-A
1 TTTTATAT-AATTTTAATAA
100199708 TTTTA-AT--TTTTAATAA
1 TTTTATATAATTTTAATAA
* *
100199724 ATTTATA-AATTATAAT-A
1 TTTTATATAATTTTAATAA
100199741 TTTTA
1 TTTTA
100199746 AATATTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
15 7 0.15
16 5 0.11
17 6 0.13
18 8 0.17
19 12 0.26
20 8 0.17
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (19 bp):
TTTTATATAATTTTAATAA
Found at i:100199720 original size:7 final size:8
Alignment explanation
Indices: 100199699--100199753 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
100199689 GTTTATATCA
100199699 ATTTTAAT
1 ATTTTAAT
100199707 ATTTTAAT
1 ATTTTAAT
100199715 -TTTTAAT
1 ATTTTAAT
100199722 AAATTTATAA-
1 --ATTT-TAAT
*
100199732 ATTATAAT
1 ATTTTAAT
100199740 ATTTTAAAT
1 ATTTT-AAT
100199749 ATTTT
1 ATTTT
100199754 TTATGATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
7 10 0.26
8 15 0.38
9 8 0.21
10 3 0.08
11 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATTTTAAT
Found at i:100199720 original size:15 final size:15
Alignment explanation
Indices: 100199698--100199748 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
100199688 AGTTTATATC
100199698 AATTTTAATATTTTA
1 AATTTTAATATTTTA
*
100199713 ATTTTTAATAAATTTATA
1 AATTTTAAT--ATTT-TA
*
100199731 AATTATAATATTTTA
1 AATTTTAATATTTTA
100199746 AAT
1 AAT
100199749 ATTTTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 13 0.43
16 4 0.13
17 4 0.13
18 9 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTAATATTTTA
Found at i:100199744 original size:33 final size:33
Alignment explanation
Indices: 100199677--100199746 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
100199667 GTTTTTTATA
* *
100199677 TAATTTTTATAAGTTTATATCAATTTTAATATTT
1 TAATTTTTATAAATTTATA-CAATTATAATATTT
100199711 TAATTTTTAATAAATTTATA-AATTATAATATTT
1 TAATTTTT-ATAAATTTATACAATTATAATATTT
100199744 TAA
1 TAA
100199747 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 15 0.45
34 8 0.24
35 10 0.30
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (33 bp):
TAATTTTTATAAATTTATACAATTATAATATTT
Found at i:100202086 original size:34 final size:35
Alignment explanation
Indices: 100202004--100202107 Score: 167
Period size: 34 Copynumber: 3.0 Consensus size: 35
100201994 ACAACCCACT
* *
100202004 AACCCCCTAACACCCAAATACAACCCCAATTATCCA
1 AACCCCCTAAAACCCAAATACAA-CCCAATTACCCA
100202040 AACCCCCTAAAACCCAAATACAACCCAATTACCCA
1 AACCCCCTAAAACCCAAATACAACCCAATTACCCA
100202075 AA-CCCCTAAAACCCAAATACAACCCAA-TACCCA
1 AACCCCCTAAAACCCAAATACAACCCAATTACCCA
100202108 TTAAAACCCT
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
33 6 0.09
34 25 0.38
35 13 0.20
36 22 0.33
ACGTcount: A:0.45, C:0.43, G:0.00, T:0.12
Consensus pattern (35 bp):
AACCCCCTAAAACCCAAATACAACCCAATTACCCA
Found at i:100203343 original size:18 final size:19
Alignment explanation
Indices: 100203320--100203359 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
100203310 ATATAGTATG
100203320 ATTTTTAAT-TACTTTATT
1 ATTTTTAATATACTTTATT
* *
100203338 ATTTTTATTATATTTTATT
1 ATTTTTAATATACTTTATT
100203357 ATT
1 ATT
100203360 ATTTTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTAATATACTTTATT
Found at i:100203348 original size:3 final size:3
Alignment explanation
Indices: 100203333--100203406 Score: 64
Period size: 3 Copynumber: 25.3 Consensus size: 3
100203323 TTTAATTACT
* * *
100203333 TTA TTA TTT TTA TTA -TA TT- TTA TTA TTA TTT TTT TGTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* **
100203376 ATA TTA TTA CCA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
100203407 CATTGTTAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
2 6 0.11
3 49 0.86
4 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:100203355 original size:10 final size:10
Alignment explanation
Indices: 100203332--100203375 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
100203322 TTTTAATTAC
100203332 TTTATTAT-T
1 TTTATTATAT
100203341 TTTATTATAT
1 TTTATTATAT
100203351 TTTATTATTAT
1 TTTATTA-TAT
* *
100203362 TTTTTTGTAT
1 TTTATTATAT
100203372 TTTA
1 TTTA
100203376 ATATTATTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.27
10 14 0.47
11 8 0.27
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTATTATAT
Found at i:100203372 original size:21 final size:22
Alignment explanation
Indices: 100203333--100203406 Score: 78
Period size: 21 Copynumber: 3.3 Consensus size: 22
100203323 TTTAATTACT
100203333 TTATTATTTTTATTATATTTTA
1 TTATTATTTTTATTATATTTTA
*
100203355 TTATTATTTTT-TTGTATTTTA
1 TTATTATTTTTATTATATTTTA
* ***
100203376 ATATTATTACCATTATTATTATTA
1 TTATTATTTTTATTA-TATT-TTA
100203400 TTATTAT
1 TTATTAT
100203407 CATTGTTAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 16 0.38
22 13 0.31
23 4 0.10
24 9 0.21
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (22 bp):
TTATTATTTTTATTATATTTTA
Found at i:100203822 original size:21 final size:20
Alignment explanation
Indices: 100203798--100203888 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 20
100203788 ACTATTATTT
*
100203798 TATTTATTTTTATTCCTAGTA
1 TATTTATTTTTATT-ATAGTA
* *
100203819 TATTTATTATTAATATTAGTA
1 TATTTATTTTTATTA-TAGTA
*
100203840 TATGTA-TTTTATTATACGTA
1 TATTTATTTTTATTATA-GTA
*
100203860 TATATATATTTTTATAAATAGTA
1 TAT-T-TATTTTTAT-TATAGTA
100203883 TTATTT
1 -TATTT
100203889 TCATATATCC
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
19 2 0.04
20 12 0.22
21 22 0.40
22 3 0.05
23 10 0.18
24 6 0.11
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
TATTTATTTTTATTATAGTA
Found at i:100203862 original size:20 final size:20
Alignment explanation
Indices: 100203837--100203875 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
100203827 ATTAATATTA
*
100203837 GTATATGTAT-TTTATTATAC
1 GTATATATATATTT-TTATAC
100203857 GTATATATATATTTTTATA
1 GTATATATATATTTTTATA
100203876 AATAGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (20 bp):
GTATATATATATTTTTATAC
Found at i:100204997 original size:22 final size:22
Alignment explanation
Indices: 100204942--100204997 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
100204932 AGTTAAATTT
*
100204942 TTAAATTCCAAAAGTAAAAGGA
1 TTAAATTCTAAAAGTAAAAGGA
* *
100204964 CT-AATTCATAAAAGTAAAAGTA
1 TTAAATTC-TAAAAGTAAAAGGA
100204986 TTAAATTCTAAA
1 TTAAATTCTAAA
100204998 TGCTCGAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 5 0.18
22 18 0.64
23 5 0.18
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (22 bp):
TTAAATTCTAAAAGTAAAAGGA
Found at i:100209535 original size:86 final size:86
Alignment explanation
Indices: 100209390--100209639 Score: 279
Period size: 86 Copynumber: 2.9 Consensus size: 86
100209380 CAAACAAGTG
* * * *
100209390 GTGGCTTGTCCACAAAATCCAGTAGCAGA-TTGTTTAATCTGCAAATATGTTGTGCACTCACCAC
1 GTGGCTTGTCCACAAAACCCAGTAG-AAATTTGTTTAATCTTCAAATATGTTGTGCACTCACAAC
* *
100209454 AAGTGGTAGTAACTATAAATAC
65 AAGTGGCAGTAACTACAAATAC
* * *
100209476 GTGGCTTGTCCACAAAACCCAGTCGAAATTTGTTCAATCTTCAAATATGTTGTGAACTCACAACA
1 GTGGCTTGTCCACAAAACCCAGTAGAAATTTGTTTAATCTTCAAATATGTTGTGCACTCACAACA
* *
100209541 AGTGACAGTAATTACAAATAC
66 AGTGGCAGTAACTACAAATAC
* ** * * * * * **
100209562 ATGGCTCATCCATAAAACTCAGTGGTAGTTTGTTTAAT-TTGCAACCATGTTGTGCACTCACAAC
1 GTGGCTTGTCCACAAAACCCAGTAGAAATTTGTTTAATCTT-CAAATATGTTGTGCACTCACAAC
100209626 AAGTGGCAGTAACT
65 AAGTGGCAGTAACT
100209640 GAAAATGATT
Statistics
Matches: 137, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
85 4 0.03
86 133 0.97
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (86 bp):
GTGGCTTGTCCACAAAACCCAGTAGAAATTTGTTTAATCTTCAAATATGTTGTGCACTCACAACA
AGTGGCAGTAACTACAAATAC
Found at i:100211106 original size:27 final size:27
Alignment explanation
Indices: 100210981--100211134 Score: 170
Period size: 28 Copynumber: 5.6 Consensus size: 27
100210971 AAAAATTTTC
100210981 TCGCACACTTAGTGCTCAAGAACCGATT
1 TCGCACACTTAGTGCTCAAG-ACCGATT
* *
100211009 TCGCACACTTAGTGCTCGAAAATCCAATT
1 TCGCACACTTAGTGCTC-AAGA-CCGATT
* * * * *
100211038 T-GCACACTTAATGCTTAAAACCAACT
1 TCGCACACTTAGTGCTCAAGACCGATT
*
100211064 T-GCACACTTAATGCTCAATGACCGATT
1 TCGCACACTTAGTGCTCAA-GACCGATT
100211091 TCGCACA-TTAGTGCTCAATGACCGATT
1 TCGCACACTTAGTGCTCAA-GACCGATT
100211118 TCGCACACTTAGTGCTC
1 TCGCACACTTAGTGCTC
100211135 TGTATCAAAT
Statistics
Matches: 111, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
26 22 0.20
27 36 0.32
28 45 0.41
29 8 0.07
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
TCGCACACTTAGTGCTCAAGACCGATT
Found at i:100216825 original size:28 final size:27
Alignment explanation
Indices: 100216785--100216911 Score: 132
Period size: 28 Copynumber: 4.6 Consensus size: 27
100216775 AAAAATTTTC
* *
100216785 TCGCATACTTAGTGCTCAATAACCGATT
1 TCGCACACTTAGTGCTCAA-AACCAATT
100216813 TCGCACACTTAGTGCTCGAAAATCCAATT
1 TCGCACACTTAGTGCTC-AAAA-CCAATT
* * * *
100216842 T-GCACACTTAATGTTTAAAACCAACT
1 TCGCACACTTAGTGCTCAAAACCAATT
* *
100216868 T-GCACACTTAGTGCTCAATGACCGATT
1 TCGCACACTTAGTGCTCAA-AACCAATT
100216895 TCGCACACTTAGTGCTC
1 TCGCACACTTAGTGCTC
100216912 GGTATCAAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
26 20 0.24
27 10 0.12
28 45 0.54
29 8 0.10
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (27 bp):
TCGCACACTTAGTGCTCAAAACCAATT
Found at i:100219844 original size:29 final size:30
Alignment explanation
Indices: 100219782--100219844 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
100219772 AGAAATTAAA
* *
100219782 AAATACTTAGAAATTTAAAAATAAAAAATT
1 AAATACTTAGAAATATAAAAATAAAAAATG
* *
100219812 AAATACTTAGAAA-ATAAAAGTAAAGAATG
1 AAATACTTAGAAATATAAAAATAAAAAATG
100219841 AAAT
1 AAAT
100219845 GTAGTCCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.25
Consensus pattern (30 bp):
AAATACTTAGAAATATAAAAATAAAAAATG
Found at i:100226846 original size:11 final size:11
Alignment explanation
Indices: 100226810--100226839 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
100226800 AAATATAGAC
100226810 AAAAGAAAAAA
1 AAAAGAAAAAA
100226821 AAAAGAAAAAA
1 AAAAGAAAAAA
100226832 AAAAGAAA
1 AAAAGAAA
100226840 GATAAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:100228826 original size:27 final size:28
Alignment explanation
Indices: 100228795--100228849 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
100228785 TGCTTAGAGT
*
100228795 TCTATTAAA-TAA-TAACTTTATTTTACA
1 TCTATAAAATTAACTAACTTT-TTTTACA
100228822 TCTATAAAATTAACGTAACTTTTTTTAC
1 TCTATAAAATTAAC-TAACTTTTTTTAC
100228850 TTCAAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 3 0.12
29 6 0.25
30 7 0.29
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (28 bp):
TCTATAAAATTAACTAACTTTTTTTACA
Found at i:100230564 original size:291 final size:290
Alignment explanation
Indices: 100230034--100230622 Score: 946
Period size: 291 Copynumber: 2.0 Consensus size: 290
100230024 CACATGCTAC
*
100230034 TTTGTTATTAATTATTAAAATAATTTAGAAGTTTTAAAAATGTAATTGAATTGGGAAGGGAATGG
1 TTTGTTATTAATTATTAAAATAATTTAGAAGTTTCAAAAATGTAATTGAATTGGGAAGGGAATGG
** * **
100230099 GAATTGGATTCTTGGGTATAACGGTTACTTGGGGAAATATTTAGGGTTTTATGTTGAATTATGGG
66 GAATTGGATTCTTGGGTATAACAATTACTTGGGGAAATATTCAGGGTTTTATACTGAATTATGGG
* * * *
100230164 TTATTTTGGATGGACTAATTCTGCTACAAAGATAAGGGTTCGATAGGGTGGTGATACAATCTAAC
131 TTATTTTGGATGGACTAATTCTGCTACAAAGATAAGGGTACAATAAGGTGATGATACAATCTAAC
* * * *
100230229 AACTTACAAGTGGCCATAGCTATCCAAGATGGTACATTGGTGGATCTGAGATCTGTTTTGCTTAG
196 AACTTACAAGTGGCCATAGCTATCCAAGATAGTACATCGGTGGATCTAAGATCTGTTTTGCTAAG
100230294 GCGGATCCAACAATTTTTGTTGCATGAAGGA
261 GCGGATCCAACAA-TTTTGTTGCATGAAGGA
100230325 TTTGTTATTAATTATTAAAATAATTTAGAAGTTTCAAAAATGTAATTGAATTGGGAAGGGAATGG
1 TTTGTTATTAATTATTAAAATAATTTAGAAGTTTCAAAAATGTAATTGAATTGGGAAGGGAATGG
* * *
100230390 GAATTGGATTCTTGGGTATAACAATTATTTGGGTAAGTATTCAGGGTTTTATACTGAATTATGGG
66 GAATTGGATTCTTGGGTATAACAATTACTTGGGGAAATATTCAGGGTTTTATACTGAATTATGGG
* * *
100230455 TTATTTTGGATGGACTAATTCTTCTACAAAGATAAGGGTACAATAAGGTGATGATTCAATTTAAC
131 TTATTTTGGATGGACTAATTCTGCTACAAAGATAAGGGTACAATAAGGTGATGATACAATCTAAC
* * * *
100230520 AGCTTACAAGTGGCTATAGCTATCCAAGATAGTACATCGGTGGATTTAAGGTCTGTTTTGCTAAG
196 AACTTACAAGTGGCCATAGCTATCCAAGATAGTACATCGGTGGATCTAAGATCTGTTTTGCTAAG
100230585 GCGGATCCAACAATTTTGTTGCATGAAGGA
261 GCGGATCCAACAATTTTGTTGCATGAAGGA
100230615 -TTGTTATT
1 TTTGTTATT
100230623 TCTAAAACAT
Statistics
Matches: 274, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
289 8 0.03
290 17 0.06
291 249 0.91
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (290 bp):
TTTGTTATTAATTATTAAAATAATTTAGAAGTTTCAAAAATGTAATTGAATTGGGAAGGGAATGG
GAATTGGATTCTTGGGTATAACAATTACTTGGGGAAATATTCAGGGTTTTATACTGAATTATGGG
TTATTTTGGATGGACTAATTCTGCTACAAAGATAAGGGTACAATAAGGTGATGATACAATCTAAC
AACTTACAAGTGGCCATAGCTATCCAAGATAGTACATCGGTGGATCTAAGATCTGTTTTGCTAAG
GCGGATCCAACAATTTTGTTGCATGAAGGA
Found at i:100236999 original size:13 final size:13
Alignment explanation
Indices: 100236981--100237006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100236971 CTTCTTTCTC
100236981 ATATAAAACATGA
1 ATATAAAACATGA
100236994 ATATAAAACATGA
1 ATATAAAACATGA
100237007 GGTATGAGAA
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:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
ATATAAAACATGA
Found at i:100237358 original size:41 final size:40
Alignment explanation
Indices: 100237301--100237503 Score: 212
Period size: 41 Copynumber: 5.0 Consensus size: 40
100237291 ACGCCACTAT
*
100237301 AAGT-TGAGAAATAGCGGCATTTTCGGAAAAACGCCGCCAA
1 AAGTCTGAGAATTAGCGGCATTTTC-GAAAAACGCCGCCAA
* * *
100237341 AAGTCCGAGAATTAGCGGCGTTTTTC-AAGAAACGCCGCAAA
1 AAGTCTGAGAATTAGCGGC-ATTTTCGAA-AAACGCCGCCAA
* * *
100237382 AAGTCTAAGAATTCGCGGCATTTTTCCAAAAACGCCGCCAA
1 AAGTCTGAGAATTAGCGGCA-TTTTCGAAAAACGCCGCCAA
* *
100237423 AAGTCTGAGCATTAGCGGCATTTTTAGAAAAACGCCGCCAA
1 AAGTCTGAGAATTAGCGGCA-TTTTCGAAAAACGCCGCCAA
* * * **
100237464 AGGTCTGAGCATTAGCGGCGTTTTTATAAAAACGCCGCCA
1 AAGTCTGAGAATTAGCGGC-ATTTTCGAAAAACGCCGCCA
100237504 TTTATAAAAA
Statistics
Matches: 140, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
40 6 0.04
41 127 0.91
42 7 0.05
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (40 bp):
AAGTCTGAGAATTAGCGGCATTTTCGAAAAACGCCGCCAA
Found at i:100237414 original size:82 final size:82
Alignment explanation
Indices: 100237307--100237503 Score: 236
Period size: 82 Copynumber: 2.4 Consensus size: 82
100237297 CTATAAGTTG
* * * *
100237307 AGAAATAGCGGCA-TTTTCGGAAAAACGCCGCCAAAAGTCCGAGAATTAGCGGCGTTTTTCA-AG
1 AGAATTAGCGGCATTTTTC-CAAAAACGCCGCCAAAAGTCCGAGAATTAGCGGCATTTTT-AGAA
100237370 AAACGCCGCAAAAAGTCTA
64 AAACGCCGCAAAAAGTCTA
* * *
100237389 AGAATTCGCGGCATTTTTCCAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCATTTTTAGAAAA
1 AGAATTAGCGGCATTTTTCCAAAAACGCCGCCAAAAGTCCGAGAATTAGCGGCATTTTTAGAAAA
* * *
100237454 ACGCCGCCAAAGGTCTG
66 ACGCCGCAAAAAGTCTA
* * **
100237471 AGCATTAGCGGCGTTTTTATAAAAACGCCGCCA
1 AGAATTAGCGGCATTTTTCCAAAAACGCCGCCA
100237504 TTTATAAAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 1 0.01
82 92 0.94
83 5 0.05
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (82 bp):
AGAATTAGCGGCATTTTTCCAAAAACGCCGCCAAAAGTCCGAGAATTAGCGGCATTTTTAGAAAA
ACGCCGCAAAAAGTCTA
Found at i:100237509 original size:18 final size:18
Alignment explanation
Indices: 100237486--100237521 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
100237476 TAGCGGCGTT
100237486 TTTATAAAAACGCCGCCA
1 TTTATAAAAACGCCGCCA
100237504 TTTATAAAAACGCCGCCA
1 TTTATAAAAACGCCGCCA
100237522 AAAGTCTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (18 bp):
TTTATAAAAACGCCGCCA
Found at i:100237542 original size:59 final size:59
Alignment explanation
Indices: 100237445--100237562 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
100237435 TAGCGGCATT
* *
100237445 TTTAGAAAAACGCCGCCAAAGGTCTGAGCATTAGCGGCGTTTTTATAAAAACGCCGCCA
1 TTTAGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTAGAAAAACGCCGCCA
* * * *
100237504 TTTATAAAAACGCCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGGAAAACGCCGCCA
1 TTTAGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTAGAAAAACGCCGCCA
100237563 AAAGTCTGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (59 bp):
TTTAGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTAGAAAAACGCCGCCA
Found at i:100237567 original size:41 final size:41
Alignment explanation
Indices: 100237510--100237701 Score: 170
Period size: 41 Copynumber: 4.5 Consensus size: 41
100237500 GCCATTTATA
*
100237510 AAAACGCCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGG
1 AAAACGCCGCAAAAAGTCTGAGTATTAGCGGCGTTTTTGGG
* ** * *
100237551 AAAACGCCGCCAAAAGTCTGAGTATTAGCGGCCGCAAAAAGTCTGAGT
1 AAAACGCCGCAAAAAGTCTGAGTATTAGCGG-CG-----TTTTTG-GG
* * *
100237599 ATTAGCGGCCGCAAAAAGTCTGAGTATTAGCGGCGTTTTTGGA
1 A-AAAC-GCCGCAAAAAGTCTGAGTATTAGCGGCGTTTTTGGG
* *
100237642 AAAACGTCGCAAAAAGTCTGAGCATTAGCGGCGTTTTT-GG
1 AAAACGCCGCAAAAAGTCTGAGTATTAGCGGCGTTTTTGGG
* *
100237682 AGAAACGCCGCTAAACGTCT
1 A-AAACGCCGCAAAAAGTCT
100237702 TTTTTGAATT
Statistics
Matches: 122, Mismatches: 19, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
40 2 0.02
41 77 0.63
42 4 0.03
43 2 0.02
44 3 0.02
47 3 0.02
48 2 0.02
49 4 0.03
50 25 0.20
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (41 bp):
AAAACGCCGCAAAAAGTCTGAGTATTAGCGGCGTTTTTGGG
Found at i:100237590 original size:25 final size:25
Alignment explanation
Indices: 100237556--100237632 Score: 145
Period size: 25 Copynumber: 3.1 Consensus size: 25
100237546 TTGGGAAAAC
*
100237556 GCCGCCAAAAGTCTGAGTATTAGCG
1 GCCGCAAAAAGTCTGAGTATTAGCG
100237581 GCCGCAAAAAGTCTGAGTATTAGCG
1 GCCGCAAAAAGTCTGAGTATTAGCG
100237606 GCCGCAAAAAGTCTGAGTATTAGCG
1 GCCGCAAAAAGTCTGAGTATTAGCG
100237631 GC
1 GC
100237633 GTTTTTGGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (25 bp):
GCCGCAAAAAGTCTGAGTATTAGCG
Found at i:100237865 original size:7 final size:7
Alignment explanation
Indices: 100237855--100237880 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
100237845 TGGGTTTGAG
100237855 GTTTAGT
1 GTTTAGT
100237862 GTTTAGT
1 GTTTAGT
100237869 GTTTAGT
1 GTTTAGT
100237876 GTTTA
1 GTTTA
100237881 TGATCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
GTTTAGT
Found at i:100238659 original size:14 final size:14
Alignment explanation
Indices: 100238617--100238660 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
100238607 GCGGTATTAA
100238617 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
*
100238631 TGG-TTAGGGGTTAG
1 -GGTTTAAGGGTTAG
*
100238645 GGTTTAAGGGATAG
1 GGTTTAAGGGTTAG
100238659 GG
1 GG
100238661 GATAAGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.48, T:0.32
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:100239072 original size:21 final size:21
Alignment explanation
Indices: 100239046--100239086 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
100239036 TAAGGTTAGG
* *
100239046 GGTTTATGGTTTAGAGTTTAA
1 GGTTTAAGATTTAGAGTTTAA
*
100239067 GGTTTAAGATTTAGGGTTTA
1 GGTTTAAGATTTAGAGTTTA
100239087 GGGTCTGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.46
Consensus pattern (21 bp):
GGTTTAAGATTTAGAGTTTAA
Found at i:100242509 original size:9 final size:9
Alignment explanation
Indices: 100242446--100242582 Score: 103
Period size: 9 Copynumber: 14.6 Consensus size: 9
100242436 ATTGATCATT
*
100242446 ACTTAAATA
1 ACTTACATA
*
100242455 AGTTACATA
1 ACTTACATA
* **
100242464 ACTCATGTA
1 ACTTACATA
100242473 ACTTACATA
1 ACTTACATA
*
100242482 ATTTACATAACA
1 ACTTACAT---A
*
100242494 ACCTACATA
1 ACTTACATA
100242503 ACTTACATA
1 ACTTACATA
100242512 ACTTACATA
1 ACTTACATA
* *
100242521 ATTTATATA
1 ACTTACATA
*
100242530 ACTCACATA
1 ACTTACATA
* *
100242539 ACGTATATAACA
1 AC-T-TA-CATA
100242551 ACTTACATA
1 ACTTACATA
*
100242560 ACTCACATA
1 ACTTACATA
100242569 ACTTACATA
1 ACTTACATA
100242578 ACTTA
1 ACTTA
100242583 ACTAATACAT
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
9 81 0.84
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:100242520 original size:57 final size:57
Alignment explanation
Indices: 100242446--100242580 Score: 171
Period size: 57 Copynumber: 2.4 Consensus size: 57
100242436 ATTGATCATT
* * * * **
100242446 ACTTAAATAAGTTACATAACTCATGTAACTTACATAATTTACATAACAACCTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
* * * *
100242503 ACTTACATAACTTACATAATTTATATAACTCACATAACGTATATAACAACTTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
*
100242560 ACTCACATAACTTACATAACT
1 ACTTACATAACTTACATAACT
100242581 TAACTAATAC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 66 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (57 bp):
ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
Found at i:100245963 original size:52 final size:48
Alignment explanation
Indices: 100245901--100246093 Score: 187
Period size: 47 Copynumber: 4.0 Consensus size: 48
100245891 GAAATGTGAT
* *
100245901 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
100245953 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
100246000 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATACGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * * *
100246046 ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
100246094 ACTATGTGCA
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
46 26 0.22
47 53 0.44
48 10 0.08
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:100252303 original size:44 final size:44
Alignment explanation
Indices: 100252214--100252327 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 44
100252204 TGTAAATTTA
* * *
100252214 GCGGCGTTTTTGGGGAAAGCGCCGCT-AAAGGACTCTACTTTTG
1 GCGGCATTTGTGGTGAAAGCGCCGCTAAAAGGACTCTACTTTTG
* *
100252257 GCGGCATTTGTGGAT-AAAGCGCCGCTAAAAGGTCTGTACTTTTG
1 GCGGCATTTGTGG-TGAAAGCGCCGCTAAAAGGACTCTACTTTTG
* *
100252301 GCGGCATTTTTGGTGTAAGCGCCGCTA
1 GCGGCATTTGTGGTGAAAGCGCCGCTA
100252328 TAGGTTTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
43 23 0.38
44 38 0.62
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (44 bp):
GCGGCATTTGTGGTGAAAGCGCCGCTAAAAGGACTCTACTTTTG
Found at i:100252387 original size:43 final size:42
Alignment explanation
Indices: 100252210--100252687 Score: 299
Period size: 43 Copynumber: 11.2 Consensus size: 42
100252200 AATCTGTAAA
* * *
100252210 TTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGACTCTACT
1 TTTAGCGGC-TTTTTGGGTAAAGCGCCGCTAAAGGTCTATACT
* * * *
100252253 TTTGGCGGCATTTGTGGATAAAGCGCCGCTAAAAGGTCTGTACT
1 TTTAGCGGC-TTTTTGGGTAAAGCGCCGCT-AAAGGTCTATACT
* * * **
100252297 TTTGGCGGCATTTTTGGTGT-AAGCGCCGCTATAGGTTTATAAA
1 TTTAGCGGC-TTTTTGG-GTAAAGCGCCGCTAAAGGTCTATACT
* *
100252340 TTTAGCGGTTTTTTGGGCTAAAGCTCCGCTAAAGGTCTATACT
1 TTTAGCGGCTTTTTGGG-TAAAGCGCCGCTAAAGGTCTATACT
** *** * ***
100252383 TTTAGCGGCGCTTTGCAAACAAACGCCGCTAAAGGTCCGCACT
1 TTTAGCGGCTTTTTGGGTA-AAGCGCCGCTAAAGGTCTATACT
*** * *
100252426 TTTAGCGGCGCTTTCCCCGG-AAA-CGCCGCTAAAGGTCTACACC
1 TTTAGC-G-GCTTT-TTGGGTAAAGCGCCGCTAAAGGTCTATACT
* * * * ** *
100252469 TTTAGTGGCGTTTGTGGATAAAACGCCGCTAAAGGTCTGCACC
1 TTTAGCGGC-TTTTTGGGTAAAGCGCCGCTAAAGGTCTATACT
* *
100252512 TTTAGCGGCGTTTTTTGGGT-AA-CGCCGCTAAAGGTATGTGA-T
1 TTTAGCGGC--TTTTTGGGTAAAGCGCCGCTAAAGGTCTAT-ACT
* * *
100252554 TTTAGTGGCGTTTGTTTGCT-AAGCGCCGCTAAAGGTCTATACT
1 TTTAGCGGC-TTT-TTGGGTAAAGCGCCGCTAAAGGTCTATACT
* * *
100252597 ATTAGCGGCGTTTAT-GGTAATGCGCCGCTAAAGGTCTATACT
1 TTTAGCGGC-TTTTTGGGTAAAGCGCCGCTAAAGGTCTATACT
* * * * *
100252639 ATTAGCGGCGTTTAT-GGTAATGCGCCGCTAAAGGTATCTACT
1 TTTAGCGGC-TTTTTGGGTAAAGCGCCGCTAAAGGTCTATACT
100252681 TTTAGCG
1 TTTAGCG
100252688 ACGTTTTCTG
Statistics
Matches: 349, Mismatches: 69, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
41 9 0.03
42 115 0.33
43 173 0.50
44 47 0.13
45 5 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCTTTTTGGGTAAAGCGCCGCTAAAGGTCTATACT
Found at i:100252565 original size:85 final size:84
Alignment explanation
Indices: 100252403--100252713 Score: 215
Period size: 85 Copynumber: 3.6 Consensus size: 84
100252393 CTTTGCAAAC
* * *** * *
100252403 AAACGCCGCTAAAGGTCCGCACTTTTAGCGGCGCTTTCCCCGGAAACGCCGCTAAAGGTCTACAC
1 AAACGCCGCTAAAGGTCTGCACCTTTAGCGGCG-TTT-TATGGTAACGCCGCTAAAGGTATACAC
100252468 CTTTAGTGGCGTTTG-TGGAT
64 CTTTAGTGGCGTTTGTTGGAT
* **
100252488 AAAACGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTTTGGGTAACGCCGCTAAAGGTATGTGA
1 -AAACGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTAT-GGTAACGCCGCTAAAGGTAT-ACA
* * *
100252553 -TTTTAGTGGCGTTTGTTTGCT
63 CCTTTAGTGGCGTTTGTTGGAT
* ** * *
100252574 AAGCGCCGCTAAAGGTCTATA-CTATTAGCGGCG-TTTATGGTAATGCGCCGCTAAAGGTCTATA
1 AAACGCCGCTAAAGGTCTGCACCT-TTAGCGGCGTTTTATGGTAA--CGCCGCTAAAGGTATACA
* *
100252637 -CTATTAGCGGCGTTT-ATGG-T
63 CCT-TTAGTGGCGTTTGTTGGAT
* * * * * *
100252657 AATGCGCCGCTAAAGGTAT-CTACTTTTAGCGACGTTTTCTGTTCAAACGCCGCTAAA
1 AA-ACGCCGCTAAAGGTCTGC-ACCTTTAGCGGCGTTTTATGGT--AACGCCGCTAAA
100252714 AGTGATGACT
Statistics
Matches: 183, Mismatches: 29, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
83 8 0.04
84 34 0.19
85 104 0.57
86 35 0.19
87 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (84 bp):
AAACGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTATGGTAACGCCGCTAAAGGTATACACCT
TTAGTGGCGTTTGTTGGAT
Found at i:100252693 original size:127 final size:128
Alignment explanation
Indices: 100252449--100252693 Score: 304
Period size: 127 Copynumber: 1.9 Consensus size: 128
100252439 TCCCCGGAAA
* * *
100252449 CGCCGCTAAAGGTCTACACCTTTAGTGGCGTTTGTGGATAAAACGCCGCTAAAGGTCTGCACCTT
1 CGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTATGGATAAAACGCCGCTAAAGGTCTACACCTT
* * * *
100252514 TAGCGGCGTTTTTTGGGTAACGCCGCTAAAGGTATGTGATTTTAGTGGCGTTTGTTTGCTAAG
66 TAGCGGCGTTTTATGGGTAACGCCGCTAAAGGTATCTGATTTTAGCGACGTTTGTTTGCTAAG
* ** *
100252577 CGCCGCTAAAGGTCTATA-CTATTAGCGGCGTTTATGG-TAATGCGCCGCTAAAGGTCTATA-CT
1 CGCCGCTAAAGGTCTACACCT-TTAGCGGCGTTTATGGATAAAACGCCGCTAAAGGTCTACACCT
100252639 ATTAGCGGCG-TTTAT-GGTAATGCGCCGCTAAAGGTATCT-ACTTTTAGCGACGTTT
65 -TTAGCGGCGTTTTATGGGTAA--CGCCGCTAAAGGTATCTGA-TTTTAGCGACGTTT
100252694 TCTGTTCAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
125 5 0.05
126 7 0.07
127 58 0.57
128 31 0.31
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (128 bp):
CGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTATGGATAAAACGCCGCTAAAGGTCTACACCTT
TAGCGGCGTTTTATGGGTAACGCCGCTAAAGGTATCTGATTTTAGCGACGTTTGTTTGCTAAG
Found at i:100253003 original size:18 final size:19
Alignment explanation
Indices: 100252973--100253009 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
100252963 TTTAATTAAC
100252973 TAATAAAATATTT-CAATA
1 TAATAAAATATTTCCAATA
100252991 TAATATAAA-ATTTCCAATA
1 TAATA-AAATATTTCCAATA
100253010 CCATCATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAAAATATTTCCAATA
Found at i:100254039 original size:34 final size:34
Alignment explanation
Indices: 100253985--100254062 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 34
100253975 CTTAAACTTA
100253985 AATATAATAAATAATTTTC-AAT-TCAAAATTTAAT
1 AATATAATAAATAATTTTCAAATGTC--AATTTAAT
*
100254019 AATAAAATAAA-AATTATTCAAATGTCAATTTAAT
1 AATATAATAAATAATT-TTCAAATGTCAATTTAAT
100254053 AATATAATAA
1 AATATAATAA
100254063 TTAAATAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
33 4 0.10
34 30 0.77
35 3 0.08
36 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.37
Consensus pattern (34 bp):
AATATAATAAATAATTTTCAAATGTCAATTTAAT
Found at i:100266163 original size:32 final size:32
Alignment explanation
Indices: 100266118--100266183 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
100266108 TGACATACAC
*
100266118 AAGATTAGGTAAGCTATTTACAAATACAAAAG
1 AAGATTAGATAAGCTATTTACAAATACAAAAG
*
100266150 AAGATTAGATAAGCTATTTACAAATACGAAAG
1 AAGATTAGATAAGCTATTTACAAATACAAAAG
100266182 AA
1 AA
100266184 CTTAGGGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (32 bp):
AAGATTAGATAAGCTATTTACAAATACAAAAG
Found at i:100267230 original size:82 final size:82
Alignment explanation
Indices: 100267086--100267251 Score: 206
Period size: 82 Copynumber: 2.0 Consensus size: 82
100267076 AAGACCAAAT
* * **
100267086 TATGTTAGAAATTAAAGTACATGAATTAAATCTCAAATTTAATCATATTAGAAAGACCAAAACCA
1 TATGTTAGAAATTAAACTACAAGAATTAAATCTCAAATTTAAGAATATTAGAAAGACCAAAACCA
*
100267151 AAAACTAACCATTTTTA
66 AAAACTAACCACTTTTA
* * * * * * *
100267168 TATGTTAGAGATTAAACTATAAGGATTATATCTCAAATTTAAGAATATTAGAAGGACTAAAACTA
1 TATGTTAGAAATTAAACTACAAGAATTAAATCTCAAATTTAAGAATATTAGAAAGACCAAAACCA
* *
100267233 AAAATTAATCACTTTTA
66 AAAACTAACCACTTTTA
100267250 TA
1 TA
100267252 AAATATAAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.33
Consensus pattern (82 bp):
TATGTTAGAAATTAAACTACAAGAATTAAATCTCAAATTTAAGAATATTAGAAAGACCAAAACCA
AAAACTAACCACTTTTA
Found at i:100273902 original size:27 final size:24
Alignment explanation
Indices: 100273872--100273942 Score: 52
Period size: 27 Copynumber: 2.7 Consensus size: 24
100273862 TGATCCCTTA
* *
100273872 AAAATAATAAAAATTTTATAATCTTTT
1 AAAATAATAAAAA---TATAAACTATT
*
100273899 AAAATTATTATAAAAATATAAACTATT
1 AAAA-TAATA-AA-AATATAAACTATT
*
100273926 AAAATAATAAAATTATA
1 AAAATAATAAAAATATA
100273943 TTTTTATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
24 5 0.14
25 2 0.06
26 4 0.11
27 17 0.47
28 4 0.11
29 2 0.06
30 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATAATAAAAATATAAACTATT
Found at i:100274131 original size:3 final size:3
Alignment explanation
Indices: 100274123--100274149 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
100274113 ATGTAAAATA
100274123 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
100274150 GAAAGAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:100274577 original size:21 final size:21
Alignment explanation
Indices: 100274552--100274592 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100274542 CCAAAATATA
100274552 AAAATA-TAAAAAATTATATTT
1 AAAATAGTAAAAAATT-TATTT
*
100274573 AAAATAGTAAAATATTTATT
1 AAAATAGTAAAAAATTTATT
100274593 ATATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAATAGTAAAAAATTTATTT
Found at i:100279406 original size:21 final size:21
Alignment explanation
Indices: 100279381--100279429 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
100279371 TCATGATTCG
*
100279381 AGATTCAAAATTTATGATTTA
1 AGATTCAAAATTTAGGATTTA
* * *
100279402 TGATTTAAAGTTTAGGATTTA
1 AGATTCAAAATTTAGGATTTA
100279423 AGATTCA
1 AGATTCA
100279430 GAGGTCAAGG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (21 bp):
AGATTCAAAATTTAGGATTTA
Found at i:100282119 original size:22 final size:23
Alignment explanation
Indices: 100282094--100282150 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
100282084 TTATATAGTC
*
100282094 TTTAGAATTTATTTTAAA-A-AAT
1 TTTAGAATTT-TTTAAAATATAAT
*
100282116 TTTATAATTTTTTAAAATATAAT
1 TTTAGAATTTTTTAAAATATAAT
*
100282139 TTTTGAATTTTT
1 TTTAGAATTTTT
100282151 GAATTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 6 0.21
22 10 0.34
23 13 0.45
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTAGAATTTTTTAAAATATAAT
Found at i:100286134 original size:12 final size:11
Alignment explanation
Indices: 100286105--100286138 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
100286095 AATTAAATCG
100286105 ATTTTTT-ATA
1 ATTTTTTAATA
100286115 ATTTTTTAATA
1 ATTTTTTAATA
100286126 ATTTATTTAATA
1 ATTT-TTTAATA
100286138 A
1 A
100286139 AAAATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 7 0.32
12 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTTTTAATA
Found at i:100290264 original size:22 final size:22
Alignment explanation
Indices: 100290239--100290289 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
100290229 AAAAATGATG
*
100290239 TTTTGCTGTTGTTTTCCCATTA
1 TTTTGCTGTTATTTTCCCATTA
** * *
100290261 TTTTATTGTTATTTTCTCATTG
1 TTTTGCTGTTATTTTCCCATTA
100290283 TTTTGCT
1 TTTTGCT
100290290 ACTATTTCAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.10, C:0.14, G:0.12, T:0.65
Consensus pattern (22 bp):
TTTTGCTGTTATTTTCCCATTA
Found at i:100292736 original size:33 final size:34
Alignment explanation
Indices: 100292693--100292768 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
100292683 ATTTTAACAG
*
100292693 AGTTAACATTTTTCTATAAAAATTCTTGTTTACT
1 AGTTAACATTTTTCTATAAAAATTATTGTTTACT
100292727 -GTTAACATTTTTCTATAAAAATTATTGTTTACT
1 AGTTAACATTTTTCTATAAAAATTATTGTTTACT
*
100292760 ATTTAACAT
1 AGTTAACAT
100292769 AATTAATCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 32 0.82
34 7 0.18
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (34 bp):
AGTTAACATTTTTCTATAAAAATTATTGTTTACT
Found at i:100293808 original size:22 final size:22
Alignment explanation
Indices: 100293757--100293829 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 22
100293747 ATAAGTTTTA
100293757 ATTAATA-AAAAATATTTAAAT
1 ATTAATATAAAAATATTTAAAT
* *
100293778 -TGAAT-TAAAAATATATAAAT
1 ATTAATATAAAAATATTTAAAT
100293798 ATTAATATAAAAATATTTAAAAT
1 ATTAATATAAAAATATTT-AAAT
*
100293821 ATTTATATA
1 ATTAATATA
100293830 TATATTACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 17 0.40
21 4 0.09
22 10 0.23
23 12 0.28
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (22 bp):
ATTAATATAAAAATATTTAAAT
Found at i:100295896 original size:19 final size:19
Alignment explanation
Indices: 100295834--100295902 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
100295824 GACACTACTT
*
100295834 ATTAAGTATAATTAATAGTTAA
1 ATTAAGT-TAATTAAT--TTAG
* * *
100295856 ATTATGTTAA-TAAATCATG
1 ATTAAGTTAATTAATTTA-G
100295875 ATTAAGTTAATTAATTTAG
1 ATTAAGTTAATTAATTTAG
100295894 ATTAA-TTAA
1 ATTAAGTTAA
100295903 GGATTAATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.16
19 15 0.39
20 8 0.21
21 3 0.08
22 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.43
Consensus pattern (19 bp):
ATTAAGTTAATTAATTTAG
Found at i:100298264 original size:21 final size:21
Alignment explanation
Indices: 100298239--100298307 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
100298229 TATAATGATT
100298239 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
100298260 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
100298280 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
100298300 ATTATTAT
1 ATTATTAT
100298308 TAGCATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:100298736 original size:18 final size:19
Alignment explanation
Indices: 100298695--100298737 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
100298685 GGAAGCAGGG
100298695 GAGAAAAGAGAAAGAAAAA
1 GAGAAAAGAGAAAGAAAAA
100298714 G-GAAAAGA-AAA-ATAAAA
1 GAGAAAAGAGAAAGA-AAAA
100298731 GAGAAAA
1 GAGAAAA
100298738 TTAAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 8 0.36
18 12 0.55
19 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (19 bp):
GAGAAAAGAGAAAGAAAAA
Found at i:100302965 original size:19 final size:19
Alignment explanation
Indices: 100302903--100302971 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
100302893 GGCACTACCT
*
100302903 ATTAAGTATAATTAATAGTTAA
1 ATTAAGT-TAATTAAT--TTAG
* * *
100302925 ATTATGTTAA-TAAATCATG
1 ATTAAGTTAATTAATTTA-G
100302944 ATTAAGTTAATTAATTTAG
1 ATTAAGTTAATTAATTTAG
100302963 ATTAA-TTAA
1 ATTAAGTTAA
100302972 AGATCAATGC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.16
19 15 0.39
20 8 0.21
21 3 0.08
22 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.43
Consensus pattern (19 bp):
ATTAAGTTAATTAATTTAG
Found at i:100305347 original size:12 final size:12
Alignment explanation
Indices: 100305330--100305354 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100305320 TTACGAAGAA
100305330 CTGCTTCGAAAT
1 CTGCTTCGAAAT
100305342 CTGCTTCGAAAT
1 CTGCTTCGAAAT
100305354 C
1 C
100305355 CACTTCAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (12 bp):
CTGCTTCGAAAT
Found at i:100305671 original size:23 final size:23
Alignment explanation
Indices: 100305623--100305667 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
100305613 AAGATTTAAA
*
100305623 TTTTAGAGTTTAACAATCTAGTG
1 TTTTAGAGTTTAACAATCTAGGG
* *
100305646 TTTTAGGGTTTAA-AATTTAGGG
1 TTTTAGAGTTTAACAATCTAGGG
100305668 GTTTGAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.44
Consensus pattern (23 bp):
TTTTAGAGTTTAACAATCTAGGG
Found at i:100315246 original size:5 final size:5
Alignment explanation
Indices: 100315236--100315271 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
100315226 TTTGAAGTTG
*
100315236 GGGAA GGGAA GGGAA GGGAA CGGAA GGGAA GGGAA G
1 GGGAA GGGAA GGGAA GGGAA GGGAA GGGAA GGGAA G
100315272 AAAAAAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.39, C:0.03, G:0.58, T:0.00
Consensus pattern (5 bp):
GGGAA
Found at i:100316489 original size:109 final size:109
Alignment explanation
Indices: 100316298--100316519 Score: 372
Period size: 109 Copynumber: 2.0 Consensus size: 109
100316288 ATCATGAGAA
* * * * * *
100316298 AAGGTGAAATTGGATAACCAGTCCTTGAGGATTCGACCCTACTGCTCTATATTTCAATTTACTAT
1 AAGGTGAAATTGAATAACCAATCCCTAAGGATTCGACCCTACTACCCTATATTTCAATTTACTAT
*
100316363 TATTTTGTCATAGAAATTTGTATTTGGTGGTTTCAATGCCCATC
66 TATTTTGTCATAGAAATTTGTATTTAGTGGTTTCAATGCCCATC
*
100316407 AAGGTGAAATTGAATAACCAATCCCTAAGGATTCGACCTTACTACCCTATATTTCAATTTACTAT
1 AAGGTGAAATTGAATAACCAATCCCTAAGGATTCGACCCTACTACCCTATATTTCAATTTACTAT
100316472 TATTTTGTCATAGAAATTTGTATTTAGTGGTTTCAATGCCCATC
66 TATTTTGTCATAGAAATTTGTATTTAGTGGTTTCAATGCCCATC
100316516 AAGG
1 AAGG
100316520 AGCCTAGTGG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 105 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (109 bp):
AAGGTGAAATTGAATAACCAATCCCTAAGGATTCGACCCTACTACCCTATATTTCAATTTACTAT
TATTTTGTCATAGAAATTTGTATTTAGTGGTTTCAATGCCCATC
Found at i:100324694 original size:21 final size:23
Alignment explanation
Indices: 100324668--100324714 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
100324658 AATTGAAAGT
100324668 TTATATGAATATGT-GC-TGGAA
1 TTATATGAATATGTGGCATGGAA
* *
100324689 TTATATGATTATTTGGCATGGAA
1 TTATATGAATATGTGGCATGGAA
100324712 TTA
1 TTA
100324715 GAGCCTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 2 0.09
23 8 0.36
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (23 bp):
TTATATGAATATGTGGCATGGAA
Found at i:100326035 original size:50 final size:50
Alignment explanation
Indices: 100325960--100326136 Score: 275
Period size: 50 Copynumber: 3.5 Consensus size: 50
100325950 CCATGGCAAC
100325960 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
100326010 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
100326060 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
100326110 CAAGTGAAAAGTGGTAGTTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
100326137 CTGATCAGTG
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
50 93 0.79
51 24 0.21
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:100326150 original size:31 final size:31
Alignment explanation
Indices: 100326112--100326284 Score: 265
Period size: 31 Copynumber: 5.6 Consensus size: 31
100326102 GCAAATGACA
*
100326112 AGTGAAAAGTGGTAGTTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
100326143 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
100326174 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
100326205 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* ** *
100326236 AGTGAAAAATGGTAGCACCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
100326267 AGTGAATAGTGGTAGCTT
1 AGTGAAAAGTGGTAGCTT
100326285 TGGGTACAAG
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 132 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:100326386 original size:47 final size:46
Alignment explanation
Indices: 100326316--100326529 Score: 202
Period size: 47 Copynumber: 4.7 Consensus size: 46
100326306 AAGTGATTTC
* * *
100326316 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * ** *
100326362 CTGTATAAGACCATATCTGGGATATGGCATCAGTAAGATATGTGATT
1 C-GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * *
100326409 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TA
* * * *
100326458 CGTGTAAGACCATAGCTGGGCTATGGCATC-G-AT-ATATG-AATA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * *
100326500 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATAGCTGGGATATGGCATC
100326530 ATTATGTGAA
Statistics
Matches: 146, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
42 31 0.21
43 1 0.01
44 5 0.03
45 1 0.01
46 27 0.18
47 40 0.27
48 10 0.07
49 31 0.21
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
Found at i:100326471 original size:49 final size:48
Alignment explanation
Indices: 100326320--100326573 Score: 220
Period size: 42 Copynumber: 5.6 Consensus size: 48
100326310 GATTTCCGTA
* * * * * * *
100326320 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTC-GTG
* * *
100326367 TAAGACCATATCTGGGATATGGCATC-AGTA--AGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGATATGTGATTCGTG
100326413 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-CGTG
*
100326462 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
100326504 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA-A---GA-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGATATGTGATTCGTG
* **
100326546 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
100326574 GAAAACGAAG
Statistics
Matches: 183, Mismatches: 14, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
41 1 0.01
42 64 0.35
43 1 0.01
44 1 0.01
45 1 0.01
46 29 0.16
47 36 0.20
48 12 0.07
49 38 0.21
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
Found at i:100328157 original size:38 final size:40
Alignment explanation
Indices: 100328096--100328177 Score: 98
Period size: 38 Copynumber: 2.1 Consensus size: 40
100328086 TTTAAACTCA
* *
100328096 GATATAATACCAGCACTAGGCCTGTGGG-ATTTAA-CCCG
1 GATATAATACCAGCACTAAGCCTGCGGGTATTTAAGCCCG
* *
100328134 GATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATACCAGCACTA-AGCCTGCGGGTATTTAAGCCCG
100328174 GATA
1 GATA
100328178 CACATCAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.05
38 22 0.59
39 5 0.14
40 8 0.22
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (40 bp):
GATATAATACCAGCACTAAGCCTGCGGGTATTTAAGCCCG
Found at i:100328623 original size:26 final size:26
Alignment explanation
Indices: 100328587--100328638 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
100328577 ATACGGCATA
*
100328587 GTTTATTCATTGTAACACTCATTTAG
1 GTTTATTCATTATAACACTCATTTAG
100328613 GTTTATTCATTATAACACTCATTTAG
1 GTTTATTCATTATAACACTCATTTAG
100328639 TGCATCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (26 bp):
GTTTATTCATTATAACACTCATTTAG
Found at i:100333635 original size:11 final size:12
Alignment explanation
Indices: 100333605--100333637 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
100333595 ATTAATTTGT
100333605 GTATTATTTTAA
1 GTATTATTTTAA
*
100333617 GAATTATTTT-A
1 GTATTATTTTAA
100333628 GTATTATTTT
1 GTATTATTTT
100333638 TATTTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (12 bp):
GTATTATTTTAA
Found at i:100333653 original size:21 final size:21
Alignment explanation
Indices: 100333623--100333678 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
100333613 TTAAGAATTA
*
100333623 TTTTAGTATTATTTTTAT-TT
1 TTTTAATATTATTTTTATGTT
*
100333643 GTTTTAATATTTGTTTTTATGTT
1 -TTTTAATA-TTATTTTTATGTT
100333666 TTTTAATA-TATTT
1 TTTTAATATTATTT
100333679 GATTTATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 7 0.23
22 17 0.57
23 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTAATATTATTTTTATGTT
Found at i:100336154 original size:47 final size:47
Alignment explanation
Indices: 100336082--100336244 Score: 159
Period size: 47 Copynumber: 3.4 Consensus size: 47
100336072 TGGTTGGACC
* * *
100336082 ATGGCAACA-TGTGATACGTGATTTCTGTATAAGACCATAGCTGGGCT
1 ATGGCATCAGTGTGATATGTG-TTTCTGTGTAAGACCATAGCTGGGCT
* ** * * *
100336129 ATGGTATTGGTGTGATATGTGTTTCTATGTAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGTTTCTGTGTAAGACCATAGCTGGGCT
* * * *
100336176 ATGGCATCAGTGTGATATATG-ATCCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGTGTGATATGTGTTTCTGTGTAAGACCATAGCTGGGCT
*
100336222 ATGGCTTCAGTGTGTGATATGTG
1 ATGGCATCA--GTGTGATATGTG
100336245 ACTATGTACA
Statistics
Matches: 92, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
46 27 0.29
47 44 0.48
48 21 0.23
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGTTTCTGTGTAAGACCATAGCTGGGCT
Found at i:100336225 original size:46 final size:47
Alignment explanation
Indices: 100336111--100336243 Score: 144
Period size: 46 Copynumber: 2.9 Consensus size: 47
100336101 GATTTCTGTA
* ** * * *
100336111 TAAGACCATAGCTGGGCTATGGTATTGGTGTGATATGTGTTTCTATG
1 TAAGACCATAGCTGGGCTATGGCATCAGTGTGATATATGTATCCATG
* * *
100336158 TAAGACCATATCTGGGATATGGCATCAGTGTGATATATG-ATCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGTGTGATATATGTATCCATG
* *
100336204 TAAGACCATGGCTGGGCTATGGCTTCAGTGTG-TGATATGT
1 TAAGACCATAGCTGGGCTATGGCATCAGTGTGAT-ATATGT
100336244 GACTATGTAC
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
45 1 0.01
46 37 0.52
47 33 0.46
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCAGTGTGATATATGTATCCATG
Found at i:100339541 original size:20 final size:20
Alignment explanation
Indices: 100339516--100339554 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
100339506 GATGTTTCCA
*
100339516 AAGTCAACAATAAAAATGCC
1 AAGTCAAAAATAAAAATGCC
*
100339536 AAGTCAAAAATAAAGATGC
1 AAGTCAAAAATAAAAATGC
100339555 AAACCTGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (20 bp):
AAGTCAAAAATAAAAATGCC
Found at i:100348708 original size:21 final size:21
Alignment explanation
Indices: 100348682--100348723 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100348672 CAATCAATTA
*
100348682 CAAAAAGCATCGATACCTTTT
1 CAAAAAGCATCGATACATTTT
* *
100348703 CAAAAAGTATTGATACATTTT
1 CAAAAAGCATCGATACATTTT
100348724 ACCATATATC
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:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (21 bp):
CAAAAAGCATCGATACATTTT
Found at i:100350433 original size:100 final size:100
Alignment explanation
Indices: 100350260--100350459 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
100350250 TAAAGACAAA
*
100350260 AAGATATTCAATAGGTTCATGAAGTCCAATAAAGGAAGAAGATTCCAAAAGATGGAAGCATTGAA
1 AAGATATTCAACAGGTTCATGAAGTCCAATAAAGGAAGAAGATTCCAAAAGATGGAAGCATTGAA
100350325 GCTTGAATCTACCAAGGAGAAAGATCCCATTATTT
66 GCTTGAATCTACCAAGGAGAAAGATCCCATTATTT
100350360 AAGATATTCAACAGGTTCATGAAGTCCAATAAAGGAAGAAGATTCCAAAAGATGGAAGCATTGAA
1 AAGATATTCAACAGGTTCATGAAGTCCAATAAAGGAAGAAGATTCCAAAAGATGGAAGCATTGAA
100350425 GCTTGAATCTACCAAGGAGAAAGATCCCATTATTT
66 GCTTGAATCTACCAAGGAGAAAGATCCCATTATTT
100350460 GCTATGAATG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.23
Consensus pattern (100 bp):
AAGATATTCAACAGGTTCATGAAGTCCAATAAAGGAAGAAGATTCCAAAAGATGGAAGCATTGAA
GCTTGAATCTACCAAGGAGAAAGATCCCATTATTT
Found at i:100355791 original size:195 final size:196
Alignment explanation
Indices: 100355445--100355824 Score: 584
Period size: 195 Copynumber: 1.9 Consensus size: 196
100355435 AAAGTGCAAG
* * *
100355445 CACATTCCATTTTCATTTCAAGTGGTTTCAATCCAACGCAATTTGACCTATAATAATTAGTAATA
1 CACATTCCATTTTCATCTCAAGTGGTTTCAATCCAACACAACTTGACCTATAATAATTAGTAATA
* * *
100355510 TAAGATATCCTTCCAAGAAATCATGTCAAGATACATTTAGTATGTGTTATCTCTCCATCCCTTGA
66 TAAGATATCCTTCCAAGAAATCACGTCAAGATACATTTAGTATGTGTTACCTCTCCATCCCTAGA
**
100355575 GCACAAGTAAGCTTAAAGTGAATTAAACACAACCACAAGAATGTC-TTTTATACAAAAAACACAA
131 GCACAAGTAAGCTTAAAGTGAACCAAACACAACCACAAGAATGTCTTTTTATACAAAAAACACAA
100355639 A
196 A
*
100355640 CACATTCCATTTTCATCTCAAGTGGTTTCAATCCGACACAACTTGACCTATAATAATTAGTAATA
1 CACATTCCATTTTCATCTCAAGTGGTTTCAATCCAACACAACTTGACCTATAATAATTAGTAATA
* * * * *
100355705 TAAGATATCCTTCCAAGAAATTACGTCATGGTGCATTTAGTATGTGTTCCCTCTCCATCCCTAGA
66 TAAGATATCCTTCCAAGAAATCACGTCAAGATACATTTAGTATGTGTTACCTCTCCATCCCTAGA
* * *
100355770 GCACAAAG-AAGTTTTAAGTGAACCAAACTCAACCACAAGAATGTCTTTTTATACA
131 GCAC-AAGTAAGCTTAAAGTGAACCAAACACAACCACAAGAATGTCTTTTTATACA
100355825 GAAAGTCCTA
Statistics
Matches: 166, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
195 154 0.93
196 12 0.07
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (196 bp):
CACATTCCATTTTCATCTCAAGTGGTTTCAATCCAACACAACTTGACCTATAATAATTAGTAATA
TAAGATATCCTTCCAAGAAATCACGTCAAGATACATTTAGTATGTGTTACCTCTCCATCCCTAGA
GCACAAGTAAGCTTAAAGTGAACCAAACACAACCACAAGAATGTCTTTTTATACAAAAAACACAA
A
Found at i:100358076 original size:11 final size:12
Alignment explanation
Indices: 100358055--100358089 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
100358045 GTAATTGATT
*
100358055 AATTTTTAAAAA
1 AATTATTAAAAA
100358067 AA-TATTAAAAA
1 AATTATTAAAAA
100358078 AATTATTAAAAA
1 AATTATTAAAAA
100358090 CACTTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATTATTAAAAA
Found at i:100366015 original size:28 final size:30
Alignment explanation
Indices: 100365983--100366039 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
100365973 ATGATTGAAA
100365983 ATAACCCATTTTT-GTAAATAATT-TTTTC
1 ATAACCCATTTTTCGTAAATAATTATTTTC
** *
100366011 ATAACGTATTTTTCGTAATTAATTATTTT
1 ATAACCCATTTTTCGTAAATAATTATTTT
100366040 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 9 0.38
30 4 0.17
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (30 bp):
ATAACCCATTTTTCGTAAATAATTATTTTC
Found at i:100367593 original size:4 final size:4
Alignment explanation
Indices: 100367586--100367625 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
100367576 GCTTGCTTGC
100367586 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
100367626 TGTGAATCGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:100374655 original size:16 final size:16
Alignment explanation
Indices: 100374636--100374666 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100374626 ATTTTATAAG
100374636 TATTAATATATATAGC
1 TATTAATATATATAGC
*
100374652 TATTATTATATATAG
1 TATTAATATATATAG
100374667 ATTATAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (16 bp):
TATTAATATATATAGC
Found at i:100381379 original size:18 final size:18
Alignment explanation
Indices: 100381356--100381391 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
100381346 GGAACAAACT
100381356 TGATTAAGGACTCCGCTA
1 TGATTAAGGACTCCGCTA
100381374 TGATTAAGGACTCCGCTA
1 TGATTAAGGACTCCGCTA
100381392 CGGTCATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (18 bp):
TGATTAAGGACTCCGCTA
Found at i:100396280 original size:20 final size:20
Alignment explanation
Indices: 100396255--100396304 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
100396245 TGGCTTAAAA
100396255 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
100396275 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
100396292 GTGGTAGTGGATT
1 TTGGTAGTGGATT
100396305 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Done.