Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 150 of 170
Found at i:44788291 original size:30 final size:30
Alignment explanation
Indices: 44788257--44788318 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
44788247 ATTTATTTTA
44788257 TTGTTAATTTTATTAGTATTTTAAAGGCAT
1 TTGTTAATTTTATTAGTATTTTAAAGGCAT
* * *
44788287 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTAGTATTTTAAAGGCAT
44788317 TT
1 TT
44788319 TCTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTATTAGTATTTTAAAGGCAT
Found at i:44788458 original size:11 final size:11
Alignment explanation
Indices: 44788442--44788472 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
44788432 TATATATATT
44788442 TAAAAATTATA
1 TAAAAATTATA
*
44788453 TAAAAATAATA
1 TAAAAATTATA
44788464 TAAAAATTA
1 TAAAAATTA
44788473 ATACGGGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:44794686 original size:31 final size:30
Alignment explanation
Indices: 44794645--44794705 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
44794635 ATGGTATAAT
*
44794645 TACACTAAATCAAAATTCATGTATCAAATTA
1 TACACTAAATCAAAATTCATATAT-AAATTA
* *
44794676 TACATTAAATCAAAATTTATATATAAATTA
1 TACACTAAATCAAAATTCATATATAAATTA
44794706 AATTTTCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (30 bp):
TACACTAAATCAAAATTCATATATAAATTA
Found at i:44799295 original size:8 final size:8
Alignment explanation
Indices: 44799282--44799306 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
44799272 AATGGCAGTA
44799282 TGTCATCT
1 TGTCATCT
44799290 TGTCATCT
1 TGTCATCT
44799298 TGTCATCT
1 TGTCATCT
44799306 T
1 T
44799307 ATACCATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.52
Consensus pattern (8 bp):
TGTCATCT
Found at i:44803416 original size:12 final size:12
Alignment explanation
Indices: 44803399--44803439 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
44803389 ACAATTGTAT
44803399 TTTTTTCCTTAA
1 TTTTTTCCTTAA
**
44803411 TTTTTT-CTTTC
1 TTTTTTCCTTAA
44803422 TTTTTTCCTTAA
1 TTTTTTCCTTAA
44803434 TTTTTT
1 TTTTTT
44803440 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTCCTTAA
Found at i:44805583 original size:27 final size:27
Alignment explanation
Indices: 44805553--44805604 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
44805543 GTTCGTGTTT
* *
44805553 TGTTCGTGTTCATTAATTTTAAATTTA
1 TGTTCATGTTCATTAATTTAAAATTTA
*
44805580 TGTTCATGTTCATTTATTTAAAATT
1 TGTTCATGTTCATTAATTTAAAATT
44805605 ATATATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.56
Consensus pattern (27 bp):
TGTTCATGTTCATTAATTTAAAATTTA
Found at i:44816369 original size:29 final size:30
Alignment explanation
Indices: 44816337--44816397 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
44816327 TCATTCATTT
44816337 TTTCATTTGGTTGATCTGAAAAAAT-CTCG
1 TTTCATTTGGTTGATCTGAAAAAATGCTCG
44816366 TTTCATTTGGTTGATCTGAAAAAATGCTCG
1 TTTCATTTGGTTGATCTGAAAAAATGCTCG
44816396 TT
1 TT
44816398 GATGGTCGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (30 bp):
TTTCATTTGGTTGATCTGAAAAAATGCTCG
Found at i:44817736 original size:6 final size:6
Alignment explanation
Indices: 44817725--44817769 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
44817715 AGGTTTCTAA
* * **
44817725 AAATGG AAATGG AAATGA AAATGA AAATAA AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAA
44817770 CTTGCAATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:44817944 original size:26 final size:26
Alignment explanation
Indices: 44817913--44817984 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
44817903 AAATTTCTCG
*
44817913 AAATTTTACTAGGGGTAAAATCGTTA
1 AAATTTTACTAGGAGTAAAATCGTTA
*
44817939 AAATTTTACCAGGAGTAAAATCGTTA
1 AAATTTTACTAGGAGTAAAATCGTTA
44817965 AAATTTTACT-GGAGTAAAAT
1 AAATTTTACTAGGAGTAAAAT
44817985 TGGGATGAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
25 10 0.23
26 33 0.77
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (26 bp):
AAATTTTACTAGGAGTAAAATCGTTA
Found at i:44819519 original size:6 final size:6
Alignment explanation
Indices: 44819494--44819544 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
44819484 TTTCTTAATG
* **
44819494 TTTATT TTT-TT TTATTTT TTTATT TTTATT TTTATT TTGGTT TTTATT
1 TTTATT TTTATT TT-TATT TTTATT TTTATT TTTATT TTTATT TTTATT
44819542 TTT
1 TTT
44819545 TCTTTTTACA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
5 4 0.11
6 30 0.79
7 4 0.11
ACGTcount: A:0.12, C:0.00, G:0.04, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:44819521 original size:14 final size:13
Alignment explanation
Indices: 44819498--44819531 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
44819488 TTAATGTTTA
44819498 TTTTTTTTTATTT
1 TTTTTTTTTATTT
44819511 TTTTATTTTTATTT
1 TTTT-TTTTTATTT
44819525 TTATTTT
1 TT-TTTT
44819532 GGTTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 13 0.68
15 2 0.11
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTATTT
Found at i:44819525 original size:20 final size:20
Alignment explanation
Indices: 44819470--44819531 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
44819460 TTTAGTGTTA
*
44819470 TTTTATTATTTATTTTTCTTAAT
1 TTTTATT-TTTATTTTTATT--T
*
44819493 GTTTA-TTTT-TTTTTATTT
1 TTTTATTTTTATTTTTATTT
44819511 TTTTATTTTTATTTTTATTT
1 TTTTATTTTTATTTTTATTT
44819531 T
1 T
44819532 GGTTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 5 0.15
19 4 0.12
20 17 0.50
21 3 0.09
22 1 0.03
23 4 0.12
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTATTTTTATTTTTATTT
Found at i:44819526 original size:24 final size:24
Alignment explanation
Indices: 44819467--44819544 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 24
44819457 TTATTTAGTG
*
44819467 TTATTTTATTATTTATTTTTCTTAATGT
1 TTATTTT-TT-TTTATTTTT-TT-ATTT
44819495 TTATTTTTTTTTATTTTTTTATTT
1 TTATTTTTTTTTATTTTTTTATTT
**
44819519 TTATTTTTATTTT-GGTTTTTATTT
1 TTATTTTT-TTTTATTTTTTTATTT
44819543 TT
1 TT
44819545 TCTTTTTACA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 22 0.48
25 6 0.13
26 9 0.20
27 2 0.04
28 7 0.15
ACGTcount: A:0.15, C:0.01, G:0.04, T:0.79
Consensus pattern (24 bp):
TTATTTTTTTTTATTTTTTTATTT
Found at i:44819550 original size:12 final size:11
Alignment explanation
Indices: 44819470--44819550 Score: 56
Period size: 12 Copynumber: 6.6 Consensus size: 11
44819460 TTTAGTGTTA
*
44819470 TTTTATTATTT
1 TTTTTTTATTT
44819481 ATTTTTCTTAATGTT
1 -TTTTT-TT-AT-TT
44819496 TATTTTTT-TTT
1 T-TTTTTTATTT
44819507 ATTTTTTTATTT
1 -TTTTTTTATTT
44819519 TTATTTTTATTT
1 TT-TTTTTATTT
*
44819531 TGGTTTTTATTT
1 T-TTTTTTATTT
44819543 TTTCTTTT
1 TTT-TTTT
44819551 TACACGTTCT
Statistics
Matches: 57, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
11 11 0.19
12 33 0.58
13 2 0.04
14 5 0.09
15 6 0.11
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:44821846 original size:29 final size:29
Alignment explanation
Indices: 44821804--44821890 Score: 77
Period size: 31 Copynumber: 2.9 Consensus size: 29
44821794 CTAATACAAA
* *
44821804 ATAAACACTAGTACAAAGTACCTGATAAT
1 ATAATCACTGGTACAAAGTACCTGATAAT
* * *
44821833 ATAGTCACTGGTACATAA-CACCTTATATAAT
1 ATAATCACTGGTACA-AAGTACC-T-GATAAT
* *
44821864 ATAATCATTGGTACATAGTACCTGATA
1 ATAATCACTGGTACAAAGTACCTGATA
44821891 CTTTAAACCC
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
29 18 0.41
30 5 0.11
31 21 0.48
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.30
Consensus pattern (29 bp):
ATAATCACTGGTACAAAGTACCTGATAAT
Found at i:44823050 original size:14 final size:14
Alignment explanation
Indices: 44823031--44823066 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
44823021 TCATTTAATC
*
44823031 ACCAAAATTATTAG
1 ACCAAAATTATCAG
44823045 ACCAAAATTATCAG
1 ACCAAAATTATCAG
44823059 ACCAAAAT
1 ACCAAAAT
44823067 CTAATTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (14 bp):
ACCAAAATTATCAG
Found at i:44832285 original size:8 final size:8
Alignment explanation
Indices: 44832269--44832331 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 8
44832259 TTAAGCTATT
44832269 ATATAATA
1 ATATAATA
*
44832277 ATATGATA
1 ATATAATA
*
44832285 AGTAGCAATA
1 A-TA-TAATA
44832295 ATATAAGTA
1 ATATAA-TA
44832304 ATAATAATA
1 AT-ATAATA
44832313 ATAGTAATA
1 ATA-TAATA
44832322 ATA-AATA
1 ATATAATA
44832329 ATA
1 ATA
44832332 AAAGATGATA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.15
8 11 0.24
9 20 0.43
10 8 0.17
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (8 bp):
ATATAATA
Found at i:44832297 original size:3 final size:3
Alignment explanation
Indices: 44832291--44832332 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
44832281 GATAAGTAGC
*
44832291 AAT AAT -AT AAGT AAT AAT AAT AAT AGT AAT AAT AAAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
44832333 AAGATGATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44832309 original size:15 final size:15
Alignment explanation
Indices: 44832272--44832329 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
44832262 AGCTATTATA
44832272 TAATAAT-ATGATAAG
1 TAATAATAAT-ATAAG
**
44832287 TAGCAATAATATAAG
1 TAATAATAATATAAG
44832302 TAATAATAATA-ATAG
1 TAATAATAATATA-AG
44832317 TAATAATAA-ATAA
1 TAATAATAATATAA
44832330 TAAAAGATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 3 0.08
15 31 0.86
16 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.31
Consensus pattern (15 bp):
TAATAATAATATAAG
Found at i:44834102 original size:98 final size:98
Alignment explanation
Indices: 44833941--44834130 Score: 285
Period size: 98 Copynumber: 1.9 Consensus size: 98
44833931 ACCTGATGCG
*
44833941 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
1 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
* *
44834006 GGGAGATAGAATTA-TCGGCTTCAATCTGATGTT
66 GAGAGATAGAATTACT-AGCTTCAATCTGATGTT
* *
44834039 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCCT-TTATTTTAATCCACTCCACTGTAACTTC
1 ATCTACTCTACTGTAACTTCAAAGAGATAAGAT-CTGTGATTTTAATCCACTCCACTGCAACTTC
* *
44834103 AGAGAGTTAGGATTACTAGCTTCAATCT
65 AGAGAGATAGAATTACTAGCTTCAATCT
44834131 ACTCCGTTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
98 80 0.96
99 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (98 bp):
ATCTACTCTACTGTAACTTCAAAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
GAGAGATAGAATTACTAGCTTCAATCTGATGTT
Found at i:44834418 original size:218 final size:217
Alignment explanation
Indices: 44834039--44834766 Score: 1120
Period size: 218 Copynumber: 3.3 Consensus size: 217
44834029 ATCTGATGTT
* *
44834039 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
* * * ** * * * *
44834104 GAGAGTTAGGATTACTAG-CTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGATCTCTGGCT
66 GGGAGATAGGA-TAGT-GTCTTGGATCTGCTCCGCTATAATCTCAGGAAGATAAGATCTCTGGCT
44834168 TCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAA
129 TCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAA
*
44834233 CCTCAGGTAGATAAAACCTGATGCG
194 CCTCAGG-AGATAAGACCTGATGCG
* **
44834258 ATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAACTTTT
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
*
44834323 GGGAGATAGGATAGTGTCTTGGATTTGCTCCGCTATAATCTCAGGAAGATAAGATCTCTGGCTTC
66 GGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTATAATCTCAGGAAGATAAGATCTCTGGCTTC
44834388 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAACC
131 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAACC
* *
44834453 TCAAAGAGATAAGATCTGATGCG
196 TC-AGGAGATAAGACCTGATGCG
*
44834476 ATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
* * *
44834541 GGGAGATAGGATAGTGTCTTGGATCTGCTCCTCTGTAATCTTA-GAGAGATAAGATCTCTGGCTT
66 GGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTATAATCTCAGGA-AGATAAGATCTCTGGCTT
* *
44834605 CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATCCTTCGGTCTACTCCACTGTAAC
130 CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAAC
*
44834670 TTCAGAGAGATAAGACCTGATGCG
195 CTCAG-GAGATAAGACCTGATGCG
* * *
44834694 ATCTACTGTGCTGTAACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAA-TCTC
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TC
44834758 AGGGAGATA
65 AGGGAGATA
44834767 AGATTACTAG
Statistics
Matches: 471, Mismatches: 33, Indels: 11
0.91 0.06 0.02
Matches are distributed among these distances:
217 5 0.01
218 395 0.84
219 71 0.15
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (217 bp):
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
GGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTATAATCTCAGGAAGATAAGATCTCTGGCTTC
AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAACC
TCAGGAGATAAGACCTGATGCG
Found at i:44834566 original size:87 final size:89
Alignment explanation
Indices: 44834440--44834895 Score: 269
Period size: 85 Copynumber: 5.3 Consensus size: 89
44834430 CTTCGGTCTA
** *
44834440 CTCCACTGTAACCTCAAAGAGATAAGATCTGA---TGC-GATCTACTCTACTGTAACTTCAGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATCCTTCGGATCTACTCTACTGTAACTTCAGAGA
* * * *
44834501 GATGAGATC-CTTTATTTTAATCCG
66 GATAAGATCTC-TGACTTCAATCCG
* * * *
44834525 CTCCACTGTAACTTCAGGGAGATAGGATAGTG-T-CTT-GGATCTGCTCCT-CTGTAATCTT-AG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTGATCCTTCGGATCTACT-CTACTGTAA-CTTCAG
* *
44834585 AGAGATAAGATCTCTGGCTTCAATCTG
63 AGAGATAAGATCTCTGACTTCAATCCG
*
44834612 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATCCTTCGG-TCTACTCCACTGTAACTTCAGA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG--ATCCTTCGGATCTACTCTACTGTAACTTCAGA
* * **
44834676 GAGATAAGA-C-CTGA-TGCGATCTA
64 GAGATAAGATCTCTGACTTCAATCCG
*** * * * ** ** *
44834699 CTGTGCTGTAACTTCAGAGAGATAAGATTCTTTAT--TT-TAATCCGCTCCACTGTAA-TCTCAG
1 CTCCACTGTAACCTCAGGGAGATAAGA-TC-TGATCCTTCGGATCTACTCTACTGTAACT-TCAG
* *
44834760 GGAGATAAGAT-TACT-AGCTTCAATCTG
63 AGAGATAAGATCT-CTGA-CTTCAATCCG
* * * *
44834787 CTCCATTGTAATCTCAGGGAGATAAGACCTGA---TAC-GATCTACTCTACTGTAACTTCAGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATCCTTCGGATCTACTCTACTGTAACTTCAGAGA
* * *
44834848 GATAAGATC-CTTTATTTTAATCCG
66 GATAAGATCTC-TGACTTCAATCCG
* *
44834872 CTCCACTGTAATCTTAGGGAGATA
1 CTCCACTGTAACCTCAGGGAGATA
44834896 GGATTACTAG
Statistics
Matches: 287, Mismatches: 56, Indels: 56
0.72 0.14 0.14
Matches are distributed among these distances:
84 2 0.01
85 110 0.38
86 9 0.03
87 94 0.33
88 37 0.13
89 7 0.02
90 26 0.09
91 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (89 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGATCCTTCGGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCTCTGACTTCAATCCG
Found at i:44834577 original size:43 final size:44
Alignment explanation
Indices: 44834088--44835564 Score: 425
Period size: 44 Copynumber: 33.7 Consensus size: 44
44834078 TTTTAATCCA
* * * * * *
44834088 CTCCACTGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCTG
** * * *
44834132 CTCCGTTATAA-TCTGAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGGCTTCAATCTG
* ** *
44834176 CTCCACTGTAACCTCAGGGAGATAAGAT--CTGAAGTTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTG--G--CTTCAATCTG
* * * * * * *
44834222 CTCCACTGTAACCTCAGGTAGATAA-AAC-CT-GATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCTG
* * * *** * *
44834263 CTCTACTGTAACTTCAGAGAGATGAGATC-CTTTATTTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGATCAC-TGGCTTCAATCTG
** * * * ** *
44834307 CTCCACTGTAACTTTTGGGAGATAGGAT-AGTGTCTTGGATTTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCTG
* * * *
44834350 CTCCGCTATAA-TCTCAGGAAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGGCTTCAATCTG
* ** *
44834394 CTCCACTGTAACCTCAGGGAGATAAGAT--CTGAAGTTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTG--G--CTTCAATCTG
* ** * * * *
44834440 CTCCACTGTAACCTCAAAGAGATAAGAT--CT-GATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCTG
* * * *** * *
44834481 CTCTACTGTAACTTCAGAGAGATGAGATC-CTTTATTTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGATCAC-TGGCTTCAATCTG
* * * **
44834525 CTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTGGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCTG
* * *
44834568 CTCCTCTGTAATCTT-AGAGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAA-CTTCAGGGAGATAAGATCACTGGCTTCAATCTG
* * * ** *
44834612 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-CCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATC---ACTGGCTTCAATCTG
* * * * *
44834658 CTCCACTGTAACTTCAGAGAGATAAGA-C-CT-GATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCTG
*** * * *** * *
44834699 CTGTGCTGTAACTTCAGAGAGATAAGATTC-TTTATTTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGA-TCACTGGCTTCAATCTG
* *
44834743 CTCCACTGTAA-TCTCAGGGAGATAAGATTACTAGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGGCTTCAATCTG
* * * * *
44834787 CTCCATTGTAA-TCTCAGGGAGATAAGA-C-CT-GATACGATCTA
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGGCTTCAATCTG
* * *** * *
44834828 CTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGATCAC-TGGCTTCAATCTG
* * *
44834872 CTCCACTGTAATCTT-AGGGAGATAGGATTACTAGG-TTCAATCTA
1 CTCCACTGTAA-CTTCAGGGAGATAAGATCACT-GGCTTCAATCTG
** * * * *
44834916 CTCCGTTGTAA-TCTCAGGGAGATAAGA-C-CT-GATACGATCTA
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGGCTTCAATCTG
* * * *** *
44834957 CTCTACTATAACTTCAGAGAGATAAGATC-CTTTATTTTAATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCAC-TGGCTTCAATCTG
* * *
44835001 CTCCACTGTAATCTT-AGGGAGATATGATTACTAGCTTCAATCTGATGTG
1 CTCCACTGTAA-CTTCAGGGAGATAAGATCACTGGCTTCAATC-----TG
** *** * *
44835050 ATCTACTCTACTGTAACTTCAGAAAGATAAGATC-CTTTATTTTAATCCG
1 --CT-C-C-ACTGTAACTTCAGGGAGATAAGATCAC-TGGCTTCAATCTG
* * * **
44835099 CTCCACTGTAA-TCTCAGGGAGATATGAT-AGTGTCTTGGATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGGCTTCAATCTG
* *
44835142 CTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGGCTTCAATCTG
* * ** ** *
44835186 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TATTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATC---ACTGGCTTCAATCTG
* * * * *
44835232 CTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCTG
** * *** * *
44835273 CTCTGCTGTAACTTCAGAGAGATAAGATC-CTTTATTTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGATCAC-TGGCTTCAATCTG
* ** * *
44835317 CTCCACTGTAA-TCTCAGGGAGATAGGATTGCTAGCTTCAATATG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGGCTTCAATCTG
* * * * ** *
44835361 CTCCTCTGTAA-TATCAGTGAGATAAGATCTGAAAT-TCTTCGGTCTA
1 CTCCACTGTAACT-TCAGGGAGATAAGATC---ACTGGCTTCAATCTG
* * * * * *
44835407 CTCTACTGTAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCTG
* * * *** * **
44835448 CTCTACTGTAACCTCAGAGAGATAAGATC-CTAAATTTTAATCCA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACT-GGCTTCAATCTG
* * * *
44835492 CTCCACTGTAA-TCTCAAGGAGATAGGATTACTAGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGGCTTCAATCTG
*
44835536 CTCCGCTGTAA-TCTCAGGGAGATAAGATC
1 CTCCACTGTAACT-TCAGGGAGATAAGATC
44835565 TAAAATTCTT
Statistics
Matches: 1053, Mismatches: 298, Indels: 164
0.70 0.20 0.11
Matches are distributed among these distances:
40 1 0.00
41 212 0.20
42 27 0.03
43 104 0.10
44 491 0.47
45 16 0.02
46 162 0.15
47 5 0.00
49 3 0.00
51 2 0.00
52 1 0.00
53 5 0.00
54 24 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
CTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCTG
Found at i:44834840 original size:129 final size:129
Alignment explanation
Indices: 44834606--44835043 Score: 637
Period size: 129 Copynumber: 3.4 Consensus size: 129
44834596 CTCTGGCTTC
* * * * ** *
44834606 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATCCTTCGGTCTACTCCACTGTAA-
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTCAATCTACTCCATTGTAAT
* * * * *
44834669 CTTCAGAGAGATAAGACCTGATGCGATCTACTGTGCTGTAACTTCAGAGAGATAAGATTCTTTAT
63 C-TCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
44834734 TTT
127 TTT
*
44834737 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCATTGTAATCTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTACTCCATTGTAATCTC
44834802 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
66 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
* * * *
44834866 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGGTTCAATCTACTCCGTTGTAATCTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTACTCCATTGTAATCTC
*
44834931 AGGGAGATAAGACCTGATACGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTT
66 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
* * *
44834995 AATCTGCTCCACTGTAATCTTAGGGAGATATGATTACTAGCTTCAATCT
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
44835044 GATGTGATCT
Statistics
Matches: 283, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
129 248 0.88
130 3 0.01
131 32 0.11
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (129 bp):
AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTACTCCATTGTAATCTC
AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
Found at i:44835327 original size:574 final size:564
Alignment explanation
Indices: 44834170--44835433 Score: 1650
Period size: 574 Copynumber: 2.2 Consensus size: 564
44834160 CTCTGGCTTC
* * ** * * *
44834170 AATCTGCTCCACTGTAACCTCAGGGAGATAAGA-TCTGAAGTTCTTCGGTCTACTCCACTGTAAC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTCT--AG--CTTCAATCTGCTCCATTGTAAT
* * * *
44834234 CTCAGGTAGATAAAACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATT
62 CTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT
* * ** * *
44834299 TTAATCCGCTCCACTGTAACTTTTGGGAGATAGGATAGTGTCTTGGATTTGCTCCGCTATAATCT
127 TTAATCCGCTCCACTGTAACTTTAGGGAGATAGGATACTGTCTTCAATCTACTCCGCTATAATCT
* * * * *
44834364 CAGGAAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGT
192 CAGGAAGATAAGATCTCTGGATACAATCTACTCCACTATAACCTCAGAGAGATAAGATCTGAAGT
**
44834429 TCTTCGGTCTACTCCACTGTAACCTCAAAGAGATAAGATCTGATGCGATCTACTCTACTGTAACT
257 TCTTCAATCTACTCCACTGTAACCTCAAAGAGATAAGATCTGATGCGATCTACTCTACTGTAACT
* *
44834494 TCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
322 TCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
* *
44834559 TTGGATCTGCTCCTCTGTAATCTTAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAAC
387 TTGGATCTGCTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAAC
* *
44834624 CTCAGGGAGATAAGATCTGAAATCCTTCGGTCTACTCCACTGTAACTTCAGAGAGATAAGACCTG
452 CTCAGGGAGATAAGATCTGAAATCATTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTG
* *
44834689 ATGCGATCTACTGTGCTGTAACTTCAGAGAGATAAGATTCTTTATTTT
517 ATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTT
44834737 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCATTGTAATCTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATT-CTAGCTTCAATCTGCTCCATTGTAATCTC
44834802 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
65 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * *
44834867 ATCCGCTCCACTGTAA-TCTTAGGGAGATAGGATTACTAG-GTTCAATCTACTCCGTTGTAATCT
130 ATCCGCTCCACTGTAACT-TTAGGGAGATAGGA-TACT-GTCTTCAATCTACTCCGCTATAATCT
* * * * **
44834930 CAGGGAGATAAGA-C-CT-GATACGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTA-
192 CAGGAAGATAAGATCTCTGGATACAATCTACTCCACTATAACCTCAGAGAGATAAGAT-CTGAAG
* * * * *
44834991 TT-TT-AATCTGCTCCACTGTAATCTTAGGGAGATATGATTACTAGCTTCAATCTGATGTGATCT
256 TTCTTCAATCTACTCCACTGTAACCTCA---A-AGA-GA-TA--AG-----ATCTGATGCGATCT
44835054 ACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-TCTCAGGG
308 ACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGG
* *
44835118 AGATATGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAAT
372 AGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAAT
*
44835183 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCA
437 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATCATTCGGTCTACTCCACTGTAACCTCA
*
44835248 GGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTT
502 GAGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTT
* * *
44835311 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTGCTAGCTTCAATATGCTCC-TCTGTAATAT
1 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATT-CTAGCTTCAATCTGCTCCAT-TGTAATCT
* * * * * *
44835375 CAGTGAGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGA
64 CAGGGAGATAAGACCTG--A---TACGATCTACTCTACTGTAACTTCAGAGAGATAAGA
44835434 CCTGATGCGA
Statistics
Matches: 611, Mismatches: 60, Indels: 40
0.86 0.08 0.06
Matches are distributed among these distances:
561 17 0.03
562 2 0.00
563 33 0.05
564 7 0.01
565 113 0.18
566 34 0.06
567 36 0.06
568 1 0.00
569 4 0.01
573 2 0.00
574 329 0.54
576 1 0.00
579 32 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (564 bp):
AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTCTAGCTTCAATCTGCTCCATTGTAATCTCA
GGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
TCCGCTCCACTGTAACTTTAGGGAGATAGGATACTGTCTTCAATCTACTCCGCTATAATCTCAGG
AAGATAAGATCTCTGGATACAATCTACTCCACTATAACCTCAGAGAGATAAGATCTGAAGTTCTT
CAATCTACTCCACTGTAACCTCAAAGAGATAAGATCTGATGCGATCTACTCTACTGTAACTTCAG
AAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGG
ATCTGCTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAATCATTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGC
GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTT
Found at i:44835335 original size:85 final size:84
Alignment explanation
Indices: 44835191--44835515 Score: 296
Period size: 87 Copynumber: 3.8 Consensus size: 84
44835181 ATCTGCTCCA
* * ** *
44835191 CTGTAACCTCAGGGAGATAAGAT-CTGAAATTATTCGGTCTACTCCACTGTAACCTCAGGGAGAT
1 CTGTAACTTCAGAGAGATAAGATCCT-AAATT-TT-AATCCACTCCACTGTAACCTCAGGGAGAT
44835255 AAGACCTGATGCGATCTACTCT
63 AAGACCTGATGCGATCTACTCT
** * * *
44835277 GCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAG
1 -CTGTAACTTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAACCTCAGGGAGATAA
* * * * * *
44835342 GATTGCTAGCTTCAATATGCTCCT
65 GA--CCT-GATGCGATCTACT-CT
* ** * *
44835366 CTGTAA-TATCAGTGAGATAAGAT-CTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGA
1 CTGTAACT-TCAGAGAGATAAGATCCT-AAATT-TT-AATCCACTCCACTGTAACCTCAGGGAGA
44835429 TAAGACCTGATGCGATCTACTCT
62 TAAGACCTGATGCGATCTACTCT
* * *
44835452 ACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCAAGGAGATA
1 -CTGTAACTTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAACCTCAGGGAGATA
44835516 GGATTACTAG
Statistics
Matches: 186, Mismatches: 40, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
85 51 0.27
86 6 0.03
87 62 0.33
88 37 0.20
89 4 0.02
90 26 0.14
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (84 bp):
CTGTAACTTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAACCTCAGGGAGATAAG
ACCTGATGCGATCTACTCT
Found at i:44835356 original size:175 final size:174
Alignment explanation
Indices: 44835141--44835581 Score: 684
Period size: 175 Copynumber: 2.5 Consensus size: 174
44835131 TCTTGGATCT
* * * *
44835141 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
1 GCTCCACTGTAATCTCAGGGAGATAGGAT-TCTAGCTTCAATCTGCTCCACTGTAATCTCAGGGA
*
44835206 GATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
65 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
* * **
44835271 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
130 TACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCC
* * * *
44835316 GCTCCACTGTAATCTCAGGGAGATAGGATTGCTAGCTTCAATATGCTCCTCTGTAATATCAGTGA
1 GCTCCACTGTAATCTCAGGGAGATAGGATT-CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGA
*
44835381 GATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
65 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
44835446 TACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCC
130 TACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCC
* * *
44835491 ACTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
1 GCTCCACTGTAATCTCAGGGAGATAGGATT-CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGA
* *
44835556 GATAAGATCTAAAATTCTTCGATCTA
65 GATAAGATCTGAAATTCTTCGGTCTA
44835582 TTCCCTGGGG
Statistics
Matches: 242, Mismatches: 23, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
174 1 0.00
175 241 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (174 bp):
GCTCCACTGTAATCTCAGGGAGATAGGATTCTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAG
ATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCT
ACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCC
Found at i:44835502 original size:131 final size:130
Alignment explanation
Indices: 44835050--44835564 Score: 341
Period size: 131 Copynumber: 3.9 Consensus size: 130
44835040 ATCTGATGTG
* * * ** *
44835050 ATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
* * * * * *
44835115 GGGAGATATGA-T-AGTGTCTT-GGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGC
66 GGGAGATAAGACTGAAT-TCTTCGG-TCTACTCTGCTGTAACCTCAGGGAGATAAGATC-CT-GA
*
44835177 TTCA
127 TGCA
* * ** * *
44835181 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTATTCGGTCTACTCCACTGTAACC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCT-AAATT-TT-AATCCACTCCACTGTAATC
* * * * *
44835245 TCAGGGAGATAAGACCTG-A---TGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTT
63 TCAGGGAGATAAGA-CTGAATTCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATCC-TG
**
44835306 ATTTTA
126 A-TGCA
** * * * * ** * *** * *
44835312 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTGCT-AGCTTCAATATGCTCCTCTGTAATATC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGA-TCCTAAATTTTAATCCACTCCACTGTAATCTC
* *
44835376 AGTGAGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGA-CCTGAT
65 AGGGAGATAAGA-CTG-AATTCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATCCTGAT
*
44835440 GCG
128 GCA
*
44835443 ATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
* * * * * ** * * *
44835508 AGGAGATAGGA-TTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
66 GGGAGATAAGACTGAAT-TCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATC
44835565 TAAAATTCTT
Statistics
Matches: 290, Mismatches: 75, Indels: 39
0.72 0.19 0.10
Matches are distributed among these distances:
128 2 0.01
129 60 0.21
130 8 0.03
131 151 0.52
132 6 0.02
133 31 0.11
134 31 0.11
135 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (130 bp):
ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
GGGAGATAAGACTGAATTCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATCCTGATGCA
Found at i:44836812 original size:7 final size:7
Alignment explanation
Indices: 44836800--44836846 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
44836790 TTAGCCTCTC
44836800 CATTTTT
1 CATTTTT
44836807 CA-TTTT
1 CATTTTT
44836813 CATTTTT
1 CATTTTT
44836820 CATTTTT
1 CATTTTT
*
44836827 CA-TTCT
1 CATTTTT
44836833 CATTTTT
1 CATTTTT
44836840 CATTTTT
1 CATTTTT
44836847 TTTTACTCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:44836818 original size:13 final size:13
Alignment explanation
Indices: 44836803--44836845 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
44836793 GCCTCTCCAT
44836803 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
44836815 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
44836829 TTCTCATTTTTCA
1 TTTTCATTTTTCA
44836842 TTTT
1 TTTT
44836846 TTTTTACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:44836823 original size:20 final size:20
Alignment explanation
Indices: 44836800--44836846 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
44836790 TTAGCCTCTC
*
44836800 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
44836820 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
44836840 CATTTTT
1 CATTTTT
44836847 TTTTACTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:44842310 original size:12 final size:11
Alignment explanation
Indices: 44842293--44842331 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
44842283 GATAAGTAGC
44842293 AATAATATAAGT
1 AATAATA-AAGT
44842305 AATAATAATAGT
1 AATAATAA-AGT
44842317 AATAATAAA-T
1 AATAATAAAGT
44842327 AATAA
1 AATAA
44842332 AAGATGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.23
11 2 0.08
12 18 0.69
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (11 bp):
AATAATAAAGT
Found at i:44842311 original size:15 final size:15
Alignment explanation
Indices: 44842274--44842330 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
44842264 AGCTATTATA
44842274 TAATAAT-ATGATAAG
1 TAATAATAAT-ATAAG
**
44842289 TAGCAATAATATAAG
1 TAATAATAATATAAG
44842304 TAATAATAATAGTAA-
1 TAATAATAATA-TAAG
44842319 TAATAAATAATA
1 TAAT-AATAATA
44842331 AAAGATGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 23 0.66
16 12 0.34
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (15 bp):
TAATAATAATATAAG
Found at i:44843251 original size:23 final size:22
Alignment explanation
Indices: 44843223--44843270 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 22
44843213 TTTTTTGTAA
44843223 AAAAAAAGAAGCCCCGATTACAGTG
1 AAAAAAA-AA-CCCCG-TTACAGTG
44843248 AAAAAAAAACCCCGTTACAGTG
1 AAAAAAAAACCCCGTTACAGTG
44843270 A
1 A
44843271 TGAAGCCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.39
23 5 0.22
24 2 0.09
25 7 0.30
ACGTcount: A:0.50, C:0.21, G:0.17, T:0.12
Consensus pattern (22 bp):
AAAAAAAAACCCCGTTACAGTG
Found at i:44845728 original size:21 final size:22
Alignment explanation
Indices: 44845704--44845815 Score: 74
Period size: 21 Copynumber: 5.3 Consensus size: 22
44845694 ATGAGAGCTA
44845704 AACAGAAACTCATAAAG-GTTG
1 AACAGAAACTCATAAAGAGTTG
* * *
44845725 AACAGAAGCTCGT-AAGAGCTG
1 AACAGAAACTCATAAAGAGTTG
* * *
44845746 AAC-GACAACACAT-AAGGGTTA
1 AACAGA-AACTCATAAAGAGTTG
* * *
44845767 AACAGGAGCTCA-AAAGAGCTG
1 AACAGAAACTCATAAAGAGTTG
* *
44845788 AACATAAACTCAT-ATGAGTTG
1 AACAGAAACTCATAAAGAGTTG
44845809 AACAGAA
1 AACAGAA
44845816 GCTTATGAGA
Statistics
Matches: 65, Mismatches: 21, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
20 5 0.08
21 59 0.91
22 1 0.02
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (22 bp):
AACAGAAACTCATAAAGAGTTG
Found at i:44845735 original size:42 final size:42
Alignment explanation
Indices: 44845683--44845837 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
44845673 CTGAAGGCTT
* *
44845683 AACAAAAGCTCATGAGAGCTAAACAGAAACTCATAAAGGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAAGGTTG
* * * * *
44845725 AACAGAAGCTCGTAAGAGCTGAAC-GACAACACATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGA-AACTCATAAAGGTTG
* * * * *
44845767 AACAGGAGCTCAAAAGAGCTGAACATAAACTCAT-ATGAGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAAG-GTTG
* *
44845809 AACAGAAGCTTATGAGAGCTAAACAGAAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAA
44845838 GTAAATACGA
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 4 0.04
42 85 0.94
43 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAAGGTTG
Found at i:44847360 original size:21 final size:21
Alignment explanation
Indices: 44847330--44847421 Score: 121
Period size: 21 Copynumber: 4.4 Consensus size: 21
44847320 CGTGTTTTAC
*
44847330 TTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAACTCTTATAAG
* * *
44847351 TTTATGTTCAGCTCTTACAAG
1 TTTCTGTTCAACTCTTATAAG
* * *
44847372 CTTCTGTTTAACTCTTATGAG
1 TTTCTGTTCAACTCTTATAAG
44847393 TTTCTGTTCAACTCTTATAAG
1 TTTCTGTTCAACTCTTATAAG
44847414 TTTCTGTT
1 TTTCTGTT
44847422 TAGCTCCTAC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTCTGTTCAACTCTTATAAG
Found at i:44847390 original size:42 final size:42
Alignment explanation
Indices: 44847331--44847423 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
44847321 GTGTTTTACT
* *
44847331 TTCTGTTCAACTCTTATGAGTTTATGTTCAGCTCTTACAAGC
1 TTCTGTTTAACTCTTATGAGTTTATGTTCAACTCTTACAAGC
* * *
44847373 TTCTGTTTAACTCTTATGAGTTTCTGTTCAACTCTTATAAGT
1 TTCTGTTTAACTCTTATGAGTTTATGTTCAACTCTTACAAGC
44847415 TTCTGTTTA
1 TTCTGTTTA
44847424 GCTCCTACGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.48
Consensus pattern (42 bp):
TTCTGTTTAACTCTTATGAGTTTATGTTCAACTCTTACAAGC
Found at i:44847439 original size:21 final size:21
Alignment explanation
Indices: 44847331--44847444 Score: 84
Period size: 21 Copynumber: 5.4 Consensus size: 21
44847321 GTGTTTTACT
** *
44847331 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAACTCTTACAAGC
* *
44847352 TTATGTTCAGCTCTTACAAGC
1 TTCTGTTCAACTCTTACAAGC
* ** *
44847373 TTCTGTTTAACTCTTATGAGT
1 TTCTGTTCAACTCTTACAAGC
* *
44847394 TTCTGTTCAACTCTTATAAGT
1 TTCTGTTCAACTCTTACAAGC
* * * *
44847415 TTCTGTTTAGCTCCTACGAGC
1 TTCTGTTCAACTCTTACAAGC
*
44847436 TTCTATTCA
1 TTCTGTTCA
44847445 GTTTTTGAGC
Statistics
Matches: 72, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAACTCTTACAAGC
Found at i:44851011 original size:23 final size:23
Alignment explanation
Indices: 44850962--44851018 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
44850952 TTTTTTGTGC
* *
44850962 TTTTTTATATTGTTTTGCTACTG
1 TTTTTAATATTGTTTTGCTACTA
* **
44850985 TTTTTAATGTTGTTTTGCTGTTA
1 TTTTTAATATTGTTTTGCTACTA
44851008 TTTTTAATATT
1 TTTTTAATATT
44851019 ATTTAAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.16, C:0.05, G:0.12, T:0.67
Consensus pattern (23 bp):
TTTTTAATATTGTTTTGCTACTA
Found at i:44851622 original size:24 final size:23
Alignment explanation
Indices: 44851586--44851638 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
44851576 ATGTTCATAT
44851586 ATTTCCACATGTTATTTCCTTCTA
1 ATTTCCACATGTTATTTCCTT-TA
*
44851610 ATTTCCACGTGTTATTTCCTTTA
1 ATTTCCACATGTTATTTCCTTTA
*
44851633 CTTTCC
1 ATTTCC
44851639 GATTTCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.17, C:0.26, G:0.06, T:0.51
Consensus pattern (23 bp):
ATTTCCACATGTTATTTCCTTTA
Found at i:44857665 original size:248 final size:248
Alignment explanation
Indices: 44857227--44857724 Score: 987
Period size: 248 Copynumber: 2.0 Consensus size: 248
44857217 CCTCAGACCC
44857227 TTTCAGGTGAGGTGTATCTGAGCAGGCGCATGCCTAGTGCACTTAGGTCTGCTTTTTTGTCAATA
1 TTTCAGGTGAGGTGTATCTGAGCAGGCGCATGCCTAGTGCACTTAGGTCTGCTTTTTTGTCAATA
44857292 TCCGAGTATTTGACTATAGTCATGGACCATAAAGAAATCATGCATGCCGAGCCTAGCACTTTTTT
66 TCCGAGTATTTGACTATAGTCATGGACCATAAAGAAATCATGCATGCCGAGCCTAGCACTTTTTT
44857357 TTGCGCTTTACACTCGAGGCAATATAAAGGTTTTGGTGCCAAAATGTACCTTGTGCCCTTGACAA
131 TTGCGCTTTACACTCGAGGCAATATAAAGGTTTTGGTGCCAAAATGTACCTTGTGCCCTTGACAA
44857422 CATTGCATCTTCTCCTTTATTTCTCGAACCATAATCAGTAGAACAGTCATTTA
196 CATTGCATCTTCTCCTTTATTTCTCGAACCATAATCAGTAGAACAGTCATTTA
44857475 TTTCAGGTGAGGTGTATCTGAGCAGGCGCATGCCTAGTGCACTTAGGTCTGCTTTTTTGTCAATA
1 TTTCAGGTGAGGTGTATCTGAGCAGGCGCATGCCTAGTGCACTTAGGTCTGCTTTTTTGTCAATA
*
44857540 TCCGAGTATTTGACTATAGTCATGGACCATAAAGAAATCATGCATGCTGAGCCTAGCACTTTTTT
66 TCCGAGTATTTGACTATAGTCATGGACCATAAAGAAATCATGCATGCCGAGCCTAGCACTTTTTT
44857605 TTGCGCTTTACACTCGAGGCAATATAAAGGTTTTGGTGCCAAAATGTACCTTGTGCCCTTGACAA
131 TTGCGCTTTACACTCGAGGCAATATAAAGGTTTTGGTGCCAAAATGTACCTTGTGCCCTTGACAA
44857670 CATTGCATCTTCTCCTTTATTTCTCGAACCATAATCAGTAGAACAGTCATTTA
196 CATTGCATCTTCTCCTTTATTTCTCGAACCATAATCAGTAGAACAGTCATTTA
44857723 TT
1 TT
44857725 CTTCTTGTTG
Statistics
Matches: 249, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
248 249 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (248 bp):
TTTCAGGTGAGGTGTATCTGAGCAGGCGCATGCCTAGTGCACTTAGGTCTGCTTTTTTGTCAATA
TCCGAGTATTTGACTATAGTCATGGACCATAAAGAAATCATGCATGCCGAGCCTAGCACTTTTTT
TTGCGCTTTACACTCGAGGCAATATAAAGGTTTTGGTGCCAAAATGTACCTTGTGCCCTTGACAA
CATTGCATCTTCTCCTTTATTTCTCGAACCATAATCAGTAGAACAGTCATTTA
Found at i:44863236 original size:10 final size:10
Alignment explanation
Indices: 44863221--44863248 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
44863211 ATTAATTTTA
44863221 ATATTATTAT
1 ATATTATTAT
44863231 ATATTATTAT
1 ATATTATTAT
44863241 ATATTATT
1 ATATTATT
44863249 TTTTCTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATTATTAT
Found at i:44864437 original size:13 final size:13
Alignment explanation
Indices: 44864419--44864444 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44864409 TTAAAATAAA
44864419 TTTAATTAAATTT
1 TTTAATTAAATTT
44864432 TTTAATTAAATTT
1 TTTAATTAAATTT
44864445 CTCAACTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATTAAATTT
Found at i:44867014 original size:30 final size:30
Alignment explanation
Indices: 44866978--44867036 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
44866968 CTTATTTTAT
44866978 TGTTAATTTTGTTATTATTTTAAAGACATC
1 TGTTAATTTTGTTATTATTTTAAAGACATC
*
44867008 TGTTAATTTTGTTATTATTTTAGAGACAT
1 TGTTAATTTTGTTATTATTTTAAAGACAT
44867037 TTGCTTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGACATC
Found at i:44867197 original size:12 final size:12
Alignment explanation
Indices: 44867167--44867199 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
44867157 TATATATTTT
44867167 AAAATT-ATATA
1 AAAATTAATATA
44867178 AAAA-TAATATA
1 AAAATTAATATA
44867189 AAAATTAATAT
1 AAAATTAATAT
44867200 GGGCGGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:44867458 original size:14 final size:15
Alignment explanation
Indices: 44867433--44867465 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
44867423 AGATTCTTCA
*
44867433 AATTATTATTTAATT
1 AATTATTATTTAAAT
44867448 AATTA-TATTTAAAT
1 AATTATTATTTAAAT
44867462 AATT
1 AATT
44867466 GAAATACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTATTATTTAAAT
Found at i:44868596 original size:6 final size:6
Alignment explanation
Indices: 44868578--44868621 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
44868568 TGCAAATGAA
*
44868578 TCATTT CTCATTT TCATTT TCATTT TCATTT TCATTT CCATTT T
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
44868622 GAGAAAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (6 bp):
TCATTT
Found at i:44869937 original size:28 final size:26
Alignment explanation
Indices: 44869877--44869937 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
44869867 AGGTTGAACC
* *
44869877 TAAAGTTAATGAAAATTTGTTTATAAA
1 TAAA-TTAATGAAAATTTCTTAATAAA
*
44869904 TCAATTAATGAATAATTTCTTCAATAAA
1 TAAATTAATGAA-AATTTCTT-AATAAA
44869932 TAAATT
1 TAAATT
44869938 TTTATACAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.29
27 10 0.36
28 10 0.36
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (26 bp):
TAAATTAATGAAAATTTCTTAATAAA
Found at i:44875907 original size:34 final size:35
Alignment explanation
Indices: 44875863--44875929 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44875853 CAGTAAAATA
44875863 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
44875897 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
44875930 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:44877567 original size:3 final size:3
Alignment explanation
Indices: 44877561--44877605 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
44877551 TCAGATTTTT
* * * *
44877561 TTA TTA TCA TTG TTA TTA TTA ATA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44877606 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:44890339 original size:132 final size:132
Alignment explanation
Indices: 44890096--44890732 Score: 929
Period size: 132 Copynumber: 4.8 Consensus size: 132
44890086 GTGTATTAAA
* *
44890096 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAAGGAAGCAGATTTAAGCCACCAGTCTTATCTC
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* * * * * *
44890161 CCTGAGTAGCAGTGGAGTAGGTTGAATATTGTAGATCTTGTATCCCTAATCAGTAGTAGAGCAGA
66 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
44890226 TC
131 TC
* *
44890228 GAAGACGATGAATCTTATCTTCCCAAAGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* * * *
44890293 CCTGAGCAACAGTGGAGTAAGTTGAAGATTGTAGATCCTGTCTCCCTAAGTAGTAGTGAAGCAGA
66 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
44890358 TC
131 TC
* * * *
44890360 GAATACGGTGAATCTTATCTTTCCAAGGAAGTAGGGAAGCAAATTTAAGCCATCAGTCCTATC-C
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* * * *
44890424 CCTTAAGCAACAGTGGAGTAGGTTGAATATTATAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAG
66 CC-TGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAG
44890489 ATC
130 ATC
* *
44890492 GAAGACGGTGGATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCATCAGTCCTATCTC
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* *
44890557 CTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTGGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
66 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
44890622 TC
131 TC
* * *
44890624 GAAGACGGCGAATCTAATCTTCCCAA-GATAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCT
1 GAAGACGGTGAATCTTATCTTCCCAAGGA-AGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCT
* * * *
44890688 -CCTTAGGCAGTAGTGGAGTAGGTTGAAGATTGTAAATCATGTCTC
65 CCCTGA-GCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTC
44890733 TTTGAGCAGC
Statistics
Matches: 454, Mismatches: 47, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
131 8 0.02
132 444 0.98
133 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
TC
Found at i:44890616 original size:44 final size:44
Alignment explanation
Indices: 44890416--44890628 Score: 123
Period size: 44 Copynumber: 4.8 Consensus size: 44
44890406 AAGCCATCAG
** * * * *
44890416 TCCTATC-CCCTTAAGCAACAGTGGAGTAGGTTGAATATTATAGA
1 TCCTATCTCCC-TAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* * ** *
44890460 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* * * *
44890504 TCTTATCTTCCC-AAGGAAGTAG-GGAAGCAGATTTAAGCCA-T-CAG-
1 TCCTATC-TCCCTAA-GCAGTAGTGG-AGCAGATTGAAG--ATTGTAGA
* * * * * *
44890548 TCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTGGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* *
44890592 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
44890629 CGGCGAATCT
Statistics
Matches: 122, Mismatches: 36, Indels: 22
0.68 0.20 0.12
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 18 0.15
44 77 0.63
45 24 0.20
47 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
Found at i:44892406 original size:3 final size:3
Alignment explanation
Indices: 44892400--44892465 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
44892390 TCAGATTTTT
*
44892400 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
44892448 TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
44892466 GTTTTTTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:44895028 original size:3 final size:3
Alignment explanation
Indices: 44895012--44895054 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
44895002 AATTTAAAAA
*
44895012 AAT ATAT AAA AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
44895055 AGGAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:44895028 original size:13 final size:12
Alignment explanation
Indices: 44895006--44895054 Score: 64
Period size: 12 Copynumber: 4.0 Consensus size: 12
44894996 TTTATTAATT
44895006 TAAAAA-AATATA
1 TAAAAATAATA-A
44895018 TAAAAATAATAA
1 TAAAAATAATAA
44895030 TAATAAATAATAA
1 TAA-AAATAATAA
*
44895043 TAATAATAATAA
1 TAAAAATAATAA
44895055 AGGAAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
12 18 0.53
13 16 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:44895039 original size:19 final size:19
Alignment explanation
Indices: 44895012--44895055 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
44895002 AATTTAAAAA
*
44895012 AATATATAAAAATAATAAT
1 AATAAATAAAAATAATAAT
*
44895031 AATAAATAATAATAATAAT
1 AATAAATAAAAATAATAAT
44895050 AATAAA
1 AATAAA
44895056 GGAAAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAATAAAAATAATAAT
Found at i:44895041 original size:16 final size:15
Alignment explanation
Indices: 44895012--44895051 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
44895002 AATTTAAAAA
44895012 AATATATAAAAATAAT
1 AATA-ATAAAAATAAT
44895028 AATAATAAATAATAAT
1 AATAATAAA-AATAAT
44895044 AATAATAA
1 AATAATAA
44895052 TAAAGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATAATAAAAATAAT
Found at i:44895140 original size:29 final size:28
Alignment explanation
Indices: 44895089--44895148 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
44895079 AATATACCAT
* *
44895089 TTACATTTTGGCCTCAACTTTTTCTAAAA
1 TTACATTTTGGCCCCAACTTTTT-GAAAA
44895118 TTACATTTTGGCCCCTAAC-TTTTGAAAA
1 TTACATTTTGGCCCC-AACTTTTTGAAAA
44895146 TTA
1 TTA
44895149 ATAGAACGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 18 0.64
30 3 0.11
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.43
Consensus pattern (28 bp):
TTACATTTTGGCCCCAACTTTTTGAAAA
Found at i:44895536 original size:26 final size:26
Alignment explanation
Indices: 44895507--44895561 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
44895497 ATAATTATAT
*
44895507 TTTAAAATATTAAAATTTAATACTTA
1 TTTAAAATATTAAAATTTAATAATTA
* *
44895533 TTTAGAATATTTAAATTTAATAATTA
1 TTTAAAATATTAAAATTTAATAATTA
44895559 TTT
1 TTT
44895562 TCATACACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (26 bp):
TTTAAAATATTAAAATTTAATAATTA
Found at i:44898613 original size:16 final size:16
Alignment explanation
Indices: 44898589--44898626 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
44898579 TTTGGTTCAC
* *
44898589 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
44898605 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
44898621 TGTAAT
1 TGTAAT
44898627 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:44898656 original size:45 final size:44
Alignment explanation
Indices: 44898605--44898699 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
44898595 GGATTAGAGG
*
44898605 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
44898650 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
44898694 TGTAAT
1 TGTAAT
44898700 AGATGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:44898881 original size:18 final size:17
Alignment explanation
Indices: 44898860--44898894 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44898850 TTATTATTAA
*
44898860 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44898878 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44898895 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44898960 original size:155 final size:157
Alignment explanation
Indices: 44898747--44899061 Score: 562
Period size: 155 Copynumber: 2.0 Consensus size: 157
44898737 TAGAATACCC
*
44898747 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
44898812 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTACTATTAAATATATTATAATTAAAA
44898877 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
44898904 TTAGCAGAAATTTGTTTTGGTAAATTA-T-TTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
44898967 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTACTATTAAATATATTATAATTAAAT
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTACTATTAAATATATTATAATTAAAA
44899032 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
44899059 TTA
1 TTA
44899062 ATATTCTTAA
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
155 126 0.83
156 1 0.01
157 25 0.16
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTACTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:44899137 original size:118 final size:121
Alignment explanation
Indices: 44898998--44899288 Score: 450
Period size: 118 Copynumber: 2.4 Consensus size: 121
44898988 ATCATATTTA
* *
44898998 AACATAATTACTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
44899063 TATTCTTA-ATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAACTTG
* *
44899117 AACATAA-TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAT
1 AACATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
44899181 TATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAAGAAAACTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAACTTG
*
44899237 AA-ATAATTAATATTAAATATATT-TAAATTAAAATATATGATTTAATAAAATT
1 AACATAATTAATATTAAATATATTAT-AATTAAAATATATAATTTAATAAAATT
44899289 TAAAATAATT
Statistics
Matches: 159, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
118 65 0.41
119 51 0.32
120 43 0.27
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAACTTG
Found at i:44899166 original size:58 final size:57
Alignment explanation
Indices: 44898998--44899167 Score: 132
Period size: 58 Copynumber: 2.9 Consensus size: 57
44898988 ATCATATTTA
* * * *
44898998 AACATAATTACTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTAAT
1 AACATAA-TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAA-TATAAAT
* * * * * * *
44899057 AA-TTAATATTCTT-AATGA-ATTTACTCAAATCATAATATATGATACT-GTAAAATATAAATT
1 AACATAATATTATTAAAT-ATA-TTA-T--AATTAAAATATATAAT-TTAATAAAATATAAA-T
44899117 AACATAATATTATTAAATATATTATAATTAAAATATATAATTTAATAAAAT
1 AACATAATATTATTAAATATATTATAATTAAAATATATAATTTAATAAAAT
44899168 TCTTAATAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 23
0.67 0.15 0.19
Matches are distributed among these distances:
56 4 0.05
57 10 0.12
58 23 0.28
59 6 0.07
60 21 0.26
61 14 0.17
62 4 0.05
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (57 bp):
AACATAATATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATATAAAT
Found at i:44899469 original size:91 final size:90
Alignment explanation
Indices: 44899304--44899510 Score: 315
Period size: 91 Copynumber: 2.3 Consensus size: 90
44899294 TAATTATAAC
* * * * * *
44899304 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAATAATATTACATATAATTTAATAATA
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATAATATTAAATATAATTTAATAATA
*
44899369 ATATATAATTTCATAAAATTTTTAA
66 ATATATAATTTCATAAAATTCTTAA
44899394 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAA-TAATATTAAATATAATTTAATAAT
*
44899459 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
*
44899485 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
44899511 CTAAAATCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
90 35 0.33
91 51 0.48
92 20 0.19
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:44900928 original size:11 final size:11
Alignment explanation
Indices: 44900914--44900940 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44900904 AAAAATCAAT
44900914 ACAAAAGTTTC
1 ACAAAAGTTTC
44900925 ACAAAAGTTTC
1 ACAAAAGTTTC
44900936 ACAAA
1 ACAAA
44900941 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:44906228 original size:19 final size:19
Alignment explanation
Indices: 44906206--44906266 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
44906196 ACAGGAAAAT
44906206 AAAAAAATTAAAAAAGTGA
1 AAAAAAATTAAAAAAGTGA
**
44906225 AAAAAAATTAGCAAA---A
1 AAAAAAATTAAAAAAGTGA
*
44906241 AAAAAAACTAAAAAAGTGA
1 AAAAAAATTAAAAAAGTGA
44906260 AAAAAAA
1 AAAAAAA
44906267 AAATTGGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 13 0.38
19 21 0.62
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.11
Consensus pattern (19 bp):
AAAAAAATTAAAAAAGTGA
Found at i:44906371 original size:28 final size:29
Alignment explanation
Indices: 44906302--44906371 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
44906292 GACAATAGCT
* * *
44906302 TTTTCCTTGCATTTAAATGTTTTTATGTT
1 TTTTCCTTGCATTTAAATGTCTTAATGTC
*
44906331 TTTTCCATGCATTT-AATGTCTTAATGTC
1 TTTTCCTTGCATTTAAATGTCTTAATGTC
*
44906359 TTTTCCTTACATT
1 TTTTCCTTGCATT
44906372 CAACACTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.57
Consensus pattern (29 bp):
TTTTCCTTGCATTTAAATGTCTTAATGTC
Found at i:44906983 original size:20 final size:20
Alignment explanation
Indices: 44906928--44906986 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
44906918 ACACATTAAC
44906928 ATATATAAAAATAAAATAAAT
1 ATATATAAAAATAAAA-AAAT
44906949 ATATA-AAAAAT-AAAAAAT
1 ATATATAAAAATAAAAAAAT
**
44906967 ATATATAAATCTAAAAAAAT
1 ATATATAAAAATAAAAAAAT
44906987 TGTAAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 9 0.26
19 7 0.21
20 13 0.38
21 5 0.15
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
ATATATAAAAATAAAAAAAT
Found at i:44907216 original size:19 final size:20
Alignment explanation
Indices: 44907192--44907238 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
44907182 TTTAATTATT
44907192 TTTTTATAATATT-TTTTGA-
1 TTTTTA-AATATTATTTTGAC
*
44907211 TTTTTAGATATTATTTTGAC
1 TTTTTAAATATTATTTTGAC
44907231 TTTTTAAA
1 TTTTTAAA
44907239 ATTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 12 0.50
20 7 0.29
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (20 bp):
TTTTTAAATATTATTTTGAC
Found at i:44907485 original size:19 final size:18
Alignment explanation
Indices: 44907441--44907489 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
44907431 AATATTATAA
44907441 TTTA-TTTTTATAATATT
1 TTTATTTTTTATAATATT
*
44907458 TTTCCATTTTTGTATATTATT
1 TTT--ATTTTT-TATAATATT
44907479 TTTATTTTTTA
1 TTTATTTTTTA
44907490 AAATTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.11
18 2 0.07
19 7 0.26
20 4 0.15
21 11 0.41
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATTTTTTATAATATT
Found at i:44907535 original size:16 final size:16
Alignment explanation
Indices: 44907505--44907536 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44907495 TAAAATTATA
*
44907505 TATTTTTAAATTTTTT
1 TATTTTTAAACTTTTT
44907521 TATTTTTAAACTTTTT
1 TATTTTTAAACTTTTT
44907537 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTTAAACTTTTT
Found at i:44917915 original size:25 final size:24
Alignment explanation
Indices: 44917880--44917991 Score: 93
Period size: 25 Copynumber: 4.5 Consensus size: 24
44917870 GACACACCAC
*
44917880 AGCTCGTATGAGCTTCCCATTATTA
1 AGCTCGCATGAGCTTCCCATT-TTA
*
44917905 AGCTCGCATGAGCTTCTCGA-TTTA
1 AGCTCGCATGAGCTTC-CCATTTTA
* *
44917929 CAGCTCGCATGAGCTTCCCTTTTTTC
1 -AGCTCGCATGAGCTTCCC-ATTTTA
* * *
44917955 AGCTCACATGAGTTTCCC-GTTTA
1 AGCTCGCATGAGCTTCCCATTTTA
*
44917978 CAGCTCGTATGAGC
1 -AGCTCGCATGAGC
44917992 ATACATGTAC
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
23 3 0.04
24 14 0.20
25 48 0.69
26 5 0.07
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.34
Consensus pattern (24 bp):
AGCTCGCATGAGCTTCCCATTTTA
Found at i:44917941 original size:50 final size:49
Alignment explanation
Indices: 44917878--44917991 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 49
44917868 CGGACACACC
* *
44917878 ACAGCTCGTATGAGCTTCCCATTATTAAGCTCGCATGAGCTTCTCGATTT
1 ACAGCTCGTATGAGCTTCCCATTATTAAGCTCACATGAGCTTCCCG-TTT
* * * * *
44917928 ACAGCTCGCATGAGCTTCCCTTTTTTCAGCTCACATGAGTTTCCCGTTT
1 ACAGCTCGTATGAGCTTCCCATTATTAAGCTCACATGAGCTTCCCGTTT
44917977 ACAGCTCGTATGAGC
1 ACAGCTCGTATGAGC
44917992 ATACATGTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 17 0.30
50 39 0.70
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.33
Consensus pattern (49 bp):
ACAGCTCGTATGAGCTTCCCATTATTAAGCTCACATGAGCTTCCCGTTT
Found at i:44929465 original size:16 final size:18
Alignment explanation
Indices: 44929444--44929480 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
44929434 TACACACGTT
44929444 ATATTA-TCA-AAATTTA
1 ATATTATTCATAAATTTA
*
44929460 ATATTATTCATTAATTTA
1 ATATTATTCATAAATTTA
44929478 ATA
1 ATA
44929481 ACATTACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 3 0.17
18 9 0.50
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTATTCATAAATTTA
Found at i:44929723 original size:22 final size:22
Alignment explanation
Indices: 44929697--44929747 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
44929687 TGTTTGCTGC
*
44929697 CATTTTGATATTGT-TTAGCTAT
1 CATTTTGATATTATATTA-CTAT
*
44929719 CATTTTGCTATTATATTACTAT
1 CATTTTGATATTATATTACTAT
*
44929741 TATTTTG
1 CATTTTG
44929748 TTGTTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (22 bp):
CATTTTGATATTATATTACTAT
Found at i:44931640 original size:42 final size:42
Alignment explanation
Indices: 44931581--44931664 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
44931571 CACTTTCGTC
44931581 CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
1 CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
* *
44931623 CATGCATAATGTGTATAAATGTTGTTTCAACACCAATCGGTT
1 CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
44931665 AGCTAGAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (42 bp):
CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
Found at i:44933911 original size:20 final size:20
Alignment explanation
Indices: 44933888--44933938 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
44933878 TCTCAACAAA
*
44933888 AATTACAAAAAATTCAAAAT
1 AATTATAAAAAATTCAAAAT
* *
44933908 AATTTTTAAAAATTCAAAAT
1 AATTATAAAAAATTCAAAAT
*
44933928 ATTTATAAAAA
1 AATTATAAAAA
44933939 TTACAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTATAAAAAATTCAAAAT
Found at i:44933945 original size:20 final size:20
Alignment explanation
Indices: 44933895--44933946 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
44933885 AAAAATTACA
*
44933895 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTAT
44933915 AAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
44933934 AAAAATTACAAAA
1 AAAAATT-CAAAA
44933947 ATTATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:44938501 original size:17 final size:18
Alignment explanation
Indices: 44938467--44938501 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
44938457 ACTGCACGAC
44938467 CTCATGCAAATTACCAAAG
1 CTCATGCAAA-TACCAAAG
44938486 CTCATGCAAA-ACCAAA
1 CTCATGCAAATACCAAA
44938502 ATGAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.46, C:0.29, G:0.09, T:0.17
Consensus pattern (18 bp):
CTCATGCAAATACCAAAG
Found at i:44939278 original size:10 final size:11
Alignment explanation
Indices: 44939244--44939277 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
44939234 TTGGCCCGCC
44939244 TATATTAATTTT
1 TATA-TAATTTT
44939256 TATATAATTTT
1 TATATAATTTT
44939267 TATATAATTTT
1 TATATAATTTT
44939278 AAAATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATAATTTT
Found at i:44939439 original size:30 final size:30
Alignment explanation
Indices: 44939403--44939461 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
44939393 CTTAACAATC
44939403 AAATGTCTCTAAAATAATAACAAAATTAAA
1 AAATGTCTCTAAAATAATAACAAAATTAAA
*
44939433 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGTCTCTAAAATAATAACAAAATTAA
44939462 CAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAA
Found at i:44941894 original size:7 final size:6
Alignment explanation
Indices: 44941851--44941893 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
44941841 AAACTGTTTG
* *
44941851 TATTCTT TATTTT TATTTT TATTTT TGTTTT T-CTTT TATTTT T
1 TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
44941894 TTAAAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
5 4 0.12
6 24 0.75
7 4 0.12
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:44942541 original size:3 final size:3
Alignment explanation
Indices: 44942533--44942608 Score: 73
Period size: 3 Copynumber: 25.3 Consensus size: 3
44942523 ATTATCATCT
* * * *
44942533 TTA TTA TTA TTA TTG TTT TTA TTA TCT- TTA CTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
44942578 TTA TTA TTA ATA TTA TTG TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
44942609 GTTTTTATTT
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
2 1 0.02
3 56 0.97
4 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:44942808 original size:17 final size:17
Alignment explanation
Indices: 44942783--44942817 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
44942773 TATATATATA
*
44942783 TTATTTTATTTTATTTT
1 TTATCTTATTTTATTTT
44942800 TTATCTTATTTTATTTT
1 TTATCTTATTTTATTTT
44942817 T
1 T
44942818 ATAATTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (17 bp):
TTATCTTATTTTATTTT
Found at i:44944064 original size:33 final size:33
Alignment explanation
Indices: 44944027--44944094 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
44944017 ATATAAATAT
44944027 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
44944060 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
44944093 GT
1 GT
44944095 TATATAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (33 bp):
GTATACATATATTCGTGAGAAAAAAAGAAAAAA
Found at i:44944116 original size:33 final size:33
Alignment explanation
Indices: 44944027--44944109 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
44944017 ATATAAATAT
* * *
44944027 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACAGATATACATGAGAAAAAAAGAAAAAA
* * *
44944060 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACAGATATACATGAGAAAAAAAGAAAAAA
*
44944093 GTTATATAGATATACAT
1 G-TATACAGATATACAT
44944110 ATAAAAAGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 34 0.76
34 11 0.24
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.25
Consensus pattern (33 bp):
GTATACAGATATACATGAGAAAAAAAGAAAAAA
Found at i:44944236 original size:20 final size:20
Alignment explanation
Indices: 44944202--44944250 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
44944192 AAACTATCGT
* *
44944202 ATAATAATATGATAA-ATAAA
1 ATAATAAAATAATAATAT-AA
*
44944222 ATAATAAAATAATAATATTA
1 ATAATAAAATAATAATATAA
44944242 ATAATAAAA
1 ATAATAAAA
44944251 GATGATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAATAAAATAATAATATAA
Found at i:44946179 original size:173 final size:173
Alignment explanation
Indices: 44945883--44946228 Score: 611
Period size: 173 Copynumber: 2.0 Consensus size: 173
44945873 AAAATTTATG
* *
44945883 ATCCTCCCATTGCATTTTATTTGTTTTGAATTATAGTTTTCATGATGTTTTGTATTTTAAATTTT
1 ATCCTCCCATTGCATTTTATTTGTTTTGAATTATAGTTTTCATCATGTTTTGCATTTTAAATTTT
* *
44945948 TATATCTCCACTCATTGCATTGTATGACCGTTGGTCACACCTTTTTAAGTGGGAGTGAGAAGCTA
66 TATATCTCCACTCATTGCATTGCATGACCGTTGGTCACACCTTTTTAAGTGGGAGTGAGAAACTA
*
44946013 CTCCTTCGTGAGGTTTTCACCTCCGTTCAGGATAGTGGATCGC
131 CTCCTTCGTGAGGTTTTCACCTCCGTGCAGGATAGTGGATCGC
* *
44946056 ATCCTCTCATTGCATTTTCTTTGTTTTGAATTATAGTTTTCATCATGTTTTGCATTTTAAATTTT
1 ATCCTCCCATTGCATTTTATTTGTTTTGAATTATAGTTTTCATCATGTTTTGCATTTTAAATTTT
*
44946121 TATATCTCCACTCATTGCATTGCATGACTGTTGGTCACACCTTTTTAAGTGGGAGTGAGAAACTA
66 TATATCTCCACTCATTGCATTGCATGACCGTTGGTCACACCTTTTTAAGTGGGAGTGAGAAACTA
*
44946186 CTCTTTCGTGAGGTTTTCACCTCCGTGCAGGATAGTGGATCGC
131 CTCCTTCGTGAGGTTTTCACCTCCGTGCAGGATAGTGGATCGC
44946229 TTTCGGGATA
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 164 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (173 bp):
ATCCTCCCATTGCATTTTATTTGTTTTGAATTATAGTTTTCATCATGTTTTGCATTTTAAATTTT
TATATCTCCACTCATTGCATTGCATGACCGTTGGTCACACCTTTTTAAGTGGGAGTGAGAAACTA
CTCCTTCGTGAGGTTTTCACCTCCGTGCAGGATAGTGGATCGC
Found at i:44947022 original size:19 final size:19
Alignment explanation
Indices: 44946998--44947044 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
44946988 ACGTCTCTTT
*
44946998 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
44947017 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
44947036 TATGCATTA
1 TTTGCATTA
44947045 GATTTTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:44948972 original size:27 final size:27
Alignment explanation
Indices: 44948942--44948997 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
44948932 TCTTTGATTC
*
44948942 TTTTATTCTTTTCGATTTTCTTCCAAA
1 TTTTATTCTTTTAGATTTTCTTCCAAA
44948969 TTTTATTCTTTTAGATTTTCTTCCAAA
1 TTTTATTCTTTTAGATTTTCTTCCAAA
44948996 TT
1 TT
44948998 AATCTTGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTTATTCTTTTAGATTTTCTTCCAAA
Found at i:44949853 original size:52 final size:48
Alignment explanation
Indices: 44949791--44949908 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 48
44949781 AATTTATTTT
* * *
44949791 AAAAATTAAAATAAAAA-TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAA-AAAAATTTAAAAAAA--A-TTAAAAAAAAATTTAAAATT-A
*
44949843 AAAAATTAAAAAAAAGTATTTTAAAAAAATTAAAAAAAAATTTAAAATTA
1 AAAAATTAAAAAAAA--ATTTAAAAAAAATTAAAAAAAAATTTAAAATTA
44949893 AAAAATTAAAAAAAAA
1 AAAAATTAAAAAAAAA
44949909 GCATTTTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
48 1 0.02
50 16 0.27
51 21 0.36
52 12 0.20
53 1 0.02
54 8 0.14
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (48 bp):
AAAAATTAAAAAAAAATTTAAAAAAAATTAAAAAAAAATTTAAAATTA
Found at i:44949865 original size:41 final size:42
Alignment explanation
Indices: 44949785--44949939 Score: 143
Period size: 41 Copynumber: 3.5 Consensus size: 42
44949775 ACCAAAAATT
44949785 TATTTTAAAAATTAAAATAAAAATT-AAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-AAA-AAAAATTAAAAAAAAGTATTTTAAAAA
44949829 TATTTTAAAATT-AAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
* ** * *
44949870 AATTAAAAAAAAATTTAAAATTAAAAAATTAAAAAAAAAGCATTTTAAAAG
1 TATT---TTAAAA-TTAAAA--AA--AATT-AAAAAAAAGTATTTTAAAAA
44949921 TATTTTAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
44949940 TAAATAAAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 23
0.75 0.07 0.19
Matches are distributed among these distances:
40 7 0.08
41 24 0.26
43 7 0.08
44 10 0.11
45 4 0.04
46 3 0.03
47 6 0.07
48 6 0.07
50 4 0.04
51 21 0.23
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (42 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
Found at i:44950785 original size:1 final size:1
Alignment explanation
Indices: 44950781--44950871 Score: 56
Period size: 1 Copynumber: 91.0 Consensus size: 1
44950771 TAAAAATTGT
* * * * * * * * * * * *
44950781 AAAAAAAAAGAAGAAAAAAAAAGAAGAAAAAAAAAGAGAGAGAAAAAAGAAAAAGAAAGAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
44950846 AAAAAAAAAAAAAGAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
44950872 GGAGAGGCCA
Statistics
Matches: 62, Mismatches: 28, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (1 bp):
A
Found at i:44950797 original size:10 final size:9
Alignment explanation
Indices: 44950784--44950871 Score: 74
Period size: 9 Copynumber: 9.8 Consensus size: 9
44950774 AAATTGTAAA
44950784 AAAAAAGAAG
1 AAAAAA-AAG
44950794 AAAAAAAAAG
1 -AAAAAAAAG
*
44950804 AAGAAAAA-
1 AAAAAAAAG
* *
44950812 AAAAGAGAG
1 AAAAAAAAG
*
44950821 AGAAAAAAG
1 AAAAAAAAG
44950830 AAAAAGAAAG
1 AAAAA-AAAG
*
44950840 AAAAAGAA-
1 AAAAAAAAG
44950848 AAAAAAAA-
1 AAAAAAAAG
*
44950856 AAAGAAAAG
1 AAAAAAAAG
44950865 AAAAAAA
1 AAAAAAA
44950872 GGAGAGGCCA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
8 19 0.31
9 25 0.40
10 12 0.19
11 6 0.10
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:44950797 original size:13 final size:13
Alignment explanation
Indices: 44950781--44950869 Score: 110
Period size: 13 Copynumber: 6.7 Consensus size: 13
44950771 TAAAAATTGT
44950781 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
44950794 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
44950807 AAAAAAAAAGAGAG
1 AAAAAAAAAGA-AG
*
44950821 AGAAAAAAGAAAAAG
1 A-AAAAAA-AAGAAG
*
44950836 AAAGAAAAAGAA-
1 AAAAAAAAAGAAG
44950848 AAAAAAAAA-AAG
1 AAAAAAAAAGAAG
44950860 AAAAGAAAAA
1 AAAA-AAAAA
44950870 AAGGAGAGGC
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
11 2 0.03
12 12 0.18
13 33 0.49
14 8 0.12
15 9 0.13
16 3 0.04
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:44950833 original size:19 final size:17
Alignment explanation
Indices: 44950781--44950871 Score: 83
Period size: 15 Copynumber: 5.8 Consensus size: 17
44950771 TAAAAATTGT
*
44950781 AAAAAAAAAGAAGAAAA-
1 AAAAAGAAAGAA-AAAAG
44950798 AAAAAG-AAGAAAAAA-
1 AAAAAGAAAGAAAAAAG
* *
44950813 AAAGAGAGAGAAAAAAG
1 AAAAAGAAAGAAAAAAG
44950830 AAAAAGAAAG-AAAAAG
1 AAAAAGAAAGAAAAAAG
44950846 -AAAA-AAA-AAAAAAG
1 AAAAAGAAAGAAAAAAG
44950860 -AAAAGAAA-AAAA
1 AAAAAGAAAGAAAA
44950872 GGAGAGGCCA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
14 13 0.20
15 20 0.31
16 19 0.29
17 13 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAGAAAAAAG
Found at i:44950844 original size:42 final size:42
Alignment explanation
Indices: 44950781--44950871 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
44950771 TAAAAATTGT
* *
44950781 AAAAAAAAAGAAGAAAAAAAAAG-AAGAAAAAAAAAGAGAGAG
1 AAAAAAAAAGAAGAAAAAAAAAGAAAAAAAAAAAAAGA-AAAG
*
44950823 AAAAAAGAAA-AAGAAAGAAAAAGAAAAAAAAAAAAAGAAAAG
1 AAAAAA-AAAGAAGAAAAAAAAAGAAAAAAAAAAAAAGAAAAG
44950865 AAAAAAA
1 AAAAAAA
44950872 GGAGAGGCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
41 1 0.02
42 27 0.61
43 16 0.36
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (42 bp):
AAAAAAAAAGAAGAAAAAAAAAGAAAAAAAAAAAAAGAAAAG
Found at i:44952289 original size:49 final size:48
Alignment explanation
Indices: 44952162--44952795 Score: 302
Period size: 49 Copynumber: 12.8 Consensus size: 48
44952152 ATACCATAGT
* ** * *
44952162 TTGCAATTTAAAAGATTGAAGCCACAATGGCGAATCTTACTTTCCCAGGCG
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTCGC-TTCCC-GACA
* * * * * * *
44952213 GTGTAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCCTCGACA
1 TTGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTCGCTTCC-CGACA
* ** * *
44952263 TTGCAATTAAAAGATTGATGCCACAACGGCGAATCTTACTTTCCCAGGCG
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCGC-TTCCC-GACA
* * * * *
44952313 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCTCGACA
1 TTGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTCGCTTCC-CGACA
* * ** * *
44952363 TTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTACTTTACCAGGCA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCGC-TT-CCCGACA
* * * * *
44952413 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
1 TTGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTCGCTT-CCCGACA
* * ** ** *
44952463 TTGCAATTAAAAGATTGAGGCCACAATGGCGAATCTTACTTCTAGGCGA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCCGAC-A
*** * * * * * *
44952512 -TGCAGCGGAACAGATTGAAGTCACAACAGCGGATCTAGCTTTCCCGTCA
1 TTGCA-ATTAAAAGATTGAAGCCACAACGGCGAATCTCGC-TTCCCGACA
** * * * ** * *
44952561 TTGCGTTTAAAAAGATTGAAGCTACAATGGTGAATCTTACTTCCAAGAGA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTCGCTTCC-CGACA
*** * * * * *
44952611 -TGCAGCGGAACAGATTGAAGCTACGACGGTGAATCTTGCTTCCCTGACA
1 TTGCA-ATTAAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCC-GACA
* * * ** **
44952660 TTGTAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTCCC-AGG
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCGC-TTCCCGACA
* * * * *
44952708 TGGTGCAGTGGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGTCA
1 T--TGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTCGCTT-CCCGACA
* *
44952760 TTACAATTAAACGATTGAAGCCACAACGGCGAATCT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCT
44952796 TACCTTCCTA
Statistics
Matches: 419, Mismatches: 140, Indels: 50
0.69 0.23 0.08
Matches are distributed among these distances:
48 9 0.02
49 193 0.46
50 105 0.25
51 111 0.26
52 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (48 bp):
TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCCGACA
Found at i:44952716 original size:297 final size:299
Alignment explanation
Indices: 44952162--44952837 Score: 925
Period size: 297 Copynumber: 2.3 Consensus size: 299
44952152 ATACCATAGT
* * *
44952162 TTGCAATTTAAAAGATTGAAGCCACAATGGCGAATCTTACTTTCCCAGGCGGTGTAGTGGAACAG
1 TTGCAA-TTAAAAGATTGAAGCCACAATGGCGAATCTTAC-TTCCTAGGCGATGCAGTGGAACAG
* * *
44952227 ATTGAAGCTACAACGGCAAATCTCGCTTCCTCGACATTGCAATTAAAAGATTGATGCCACAACGG
64 ATTGAAGCTACAACAGCAAATCTAGCTTCCTCGACATTGCAATTAAAAGATTGAAGCCACAACGG
* * * *
44952292 CGAATCTTACTTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCC
129 CGAATCTTACTTTCCCAAGAGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCC
* *
44952357 TCGACATTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTACTTTACCAGGCAGTGCAGTGG
194 TCGACATTGCAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTACCAGGCAGTGCAGTGG
44952422 AACAGATTGAAG-CTACAACGGCGAATCTCGCTTCCCCGACA
259 AACAGATTGAAGTC-ACAACGGCGAATCTCGCTTCCCCGACA
* *
44952463 TTGCAATTAAAAGATTGAGGCCACAATGGCGAATCTTACTT-CTAGGCGATGCAGCGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCTAGGCGATGCAGTGGAACAGAT
** * ** * *
44952527 TGAAG-TCACAACAGCGGATCTAGCTTTCC-CGTCATTGCGTTTAAAAAGATTGAAGCTACAATG
66 TGAAGCT-ACAACAGCAAATCTAGC-TTCCTCGACATTGCAATT-AAAAGATTGAAGCCACAACG
* * * *
44952590 GTGAATCTTAC-TT-CCAAGAGATGCAGCGGAACAGATTGAAGCTACGACGGTGAATCTTGCTTC
128 GCGAATCTTACTTTCCCAAGAGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTC
* * **
44952653 C-CTGACATTGTAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTCCCAGGTGGTGCAGT
193 CTC-GACATTGCAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTACCAGGCAGTGCAGT
*
44952717 GGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGTCA
257 GGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACA
* * * *
44952760 TTACAATTAAACGATTGAAGCCACAACGGCGAATCTTACCTTCCTAGGCGATGCAGTGGAATAGA
1 TTGCAATTAAAAGATTGAAGCCACAATGGCGAATCTTA-CTTCCTAGGCGATGCAGTGGAACAGA
44952825 TTGAAGCTACAAC
65 TTGAAGCTACAAC
44952838 GACGAATCTT
Statistics
Matches: 331, Mismatches: 36, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
296 1 0.00
297 174 0.53
298 53 0.16
299 64 0.19
300 33 0.10
301 6 0.02
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (299 bp):
TTGCAATTAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCTAGGCGATGCAGTGGAACAGAT
TGAAGCTACAACAGCAAATCTAGCTTCCTCGACATTGCAATTAAAAGATTGAAGCCACAACGGCG
AATCTTACTTTCCCAAGAGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCTC
GACATTGCAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTACCAGGCAGTGCAGTGGAA
CAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACA
Found at i:44952854 original size:100 final size:100
Alignment explanation
Indices: 44952162--44952862 Score: 887
Period size: 100 Copynumber: 7.0 Consensus size: 100
44952152 ATACCATAGT
* * *
44952162 TTGCAATTTAAAAGATTGAAGCCACAATGGCGAATCTTACTTTCCCAGGCGGTGTAGTGGAACAG
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAG
* *
44952227 ATTGAAGCTACAACGGCAAATCTCGCTTCCTCGACA
65 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
* *
44952263 TTGCAATTAAAAGATTGATGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAGTGGAACAGA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAGA
*
44952328 TTGAAGCTACAACGGCGAATCTCGCTTCCTCGACA
66 TTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
* * *
44952363 TTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTACTTTACCAGGC-AGTGCAGTGGAACAG
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGA-TGCAGTGGAACAG
44952427 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
65 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
* * * *
44952463 TTGCAATTAAAAGATTGAGGCCACAATGGCGAATCTTAC-TT-CTAGGCGATGCAGCGGAACAGA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAGA
* * * * *
44952526 TTGAAG-TCACAACAGCGGATCTAGCTTTCCCGTCA
66 TTGAAGCT-ACAACGGCGAATCTCGCTTCCCCGACA
** * * * * * *
44952561 TTGCGTTTAAAAAGATTGAAGCTACAATGGTGAATCTTAC-TT-CCAAGAGATGCAGCGGAACAG
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAG
* * * *
44952624 ATTGAAGCTACGACGGTGAATCTTGCTTCCCTGACA
65 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
* * * * *
44952660 TTGTAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTCCCAGGTGGTGCAGTGGAACAGA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAGA
*
44952725 TTGAAG-TCACAACGGCGAATCTCGCTTCCCCGTCA
66 TTGAAGCT-ACAACGGCGAATCTCGCTTCCCCGACA
* * * * *
44952760 TTACAATTAAACGATTGAAGCCACAACGGCGAATCTTACCTTCCTAGGCGATGCAGTGGAATAGA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAGA
* *
44952825 TTGAAGCTACAACGACGAATCTTC-TTTCCCCGACA
66 TTGAAGCTACAACGGCGAATC-TCGCTTCCCCGACA
44952860 TTG
1 TTG
44952863 TAATCTCATT
Statistics
Matches: 525, Mismatches: 65, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
97 1 0.00
98 78 0.15
99 85 0.16
100 352 0.67
101 9 0.02
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (100 bp):
TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAGA
TTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
Found at i:44952995 original size:172 final size:172
Alignment explanation
Indices: 44952709--44953034 Score: 379
Period size: 172 Copynumber: 1.9 Consensus size: 172
44952699 TTTCCCAGGT
* * ** *
44952709 GGTGCAGTGGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGTCATTACAATTAAACGA
1 GGTGCAGCGGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACATTACAACCAAAAGA
** * * * *
44952774 TTGAAGCCACAACGGCGAATCTTACCTTCCTAGGCGATGCAGTGGAATAGATTGAAGCTACAACG
66 TTGAAGCCACAACAACGAATCTCACCTTCCTAGGCGATGCAATGGAATAGATTAAAGCCACAACG
44952839 ACGAATCTT-CTTTCCCCGACATTGTAATCTCATTTCCCTAGC
131 ACGAATCTTGCTTT-CCCGACATTGTAATCTCATTTCCCTAGC
* * * * * * * *
44952881 GGTGCAGCGGAATAGATTGAAGTTACGATGGTGAATCTCGTTTCCCCGACATTGCAGCCAAATAG
1 GGTGCAGCGGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACATTACAACCAAA-AG
* * *
44952946 ATTGAAGCTATAACAACGAATCTCA-CTTCTCT-GGCGATGTAATGGAATAGATTAAAGCCACAA
65 ATTGAAGCCACAACAACGAATCTCACCTTC-CTAGGCGATGCAATGGAATAGATTAAAGCCACAA
* **
44953009 TGGTGAATCTTGCTTTCCCGACATTG
129 CGACGAATCTTGCTTTCCCGACATTG
44953035 CAATTAAAAT
Statistics
Matches: 126, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
172 99 0.79
173 27 0.21
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (172 bp):
GGTGCAGCGGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACATTACAACCAAAAGA
TTGAAGCCACAACAACGAATCTCACCTTCCTAGGCGATGCAATGGAATAGATTAAAGCCACAACG
ACGAATCTTGCTTTCCCGACATTGTAATCTCATTTCCCTAGC
Found at i:44954713 original size:3 final size:3
Alignment explanation
Indices: 44954705--44954777 Score: 58
Period size: 3 Copynumber: 24.3 Consensus size: 3
44954695 TTATCATCTT
* * * *
44954705 TTA TTA TTA TTG TTT TTA TTA TCT- TTA CTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * * *
44954750 TTG TTA ATA TTA TTG TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
44954778 GTTTTTATTT
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
2 1 0.02
3 51 0.96
4 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.07, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:44954725 original size:12 final size:12
Alignment explanation
Indices: 44954705--44954772 Score: 75
Period size: 12 Copynumber: 5.7 Consensus size: 12
44954695 TTATCATCTT
44954705 TTATTATTATTG
1 TTATTATTATTG
*
44954717 TTTTTATTATCT-
1 TTATTATTAT-TG
* *
44954729 TTACTATTATTA
1 TTATTATTATTG
*
44954741 TTAGTATTATTG
1 TTATTATTATTG
*
44954753 TTAATATTATTG
1 TTATTATTATTG
44954765 TTATTATT
1 TTATTATT
44954773 GTTATGTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
11 1 0.02
12 45 0.96
13 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:44955041 original size:19 final size:19
Alignment explanation
Indices: 44955017--44955053 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44955007 ATATATTATT
*
44955017 TTATTTCATTTTTTTAATC
1 TTATTTCATTTTTATAATC
*
44955036 TTATTTTATTTTTATAAT
1 TTATTTCATTTTTATAAT
44955054 TCACATACGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTCATTTTTATAATC
Found at i:44955082 original size:18 final size:18
Alignment explanation
Indices: 44955059--44955093 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44955049 ATAATTCACA
* *
44955059 TACGTATATATTTTCTTC
1 TACGTACATATATTCTTC
44955077 TACGTACATATATTCTT
1 TACGTACATATATTCTT
44955094 ATGTTTTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (18 bp):
TACGTACATATATTCTTC
Found at i:44961727 original size:45 final size:45
Alignment explanation
Indices: 44961628--44961806 Score: 245
Period size: 45 Copynumber: 4.0 Consensus size: 45
44961618 ATTTGCCGGC
* * * *
44961628 TTACTGATTAGGCAC-TTATGTGCCGACTACTGTTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
*
44961672 ATTACTGATTCGGCACTTTGTGTGTCGAATACTGTTATTGTTACTG
1 -TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
*
44961718 TTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
* **
44961763 TTACAGATTCATCACTTTGTGTGTTC-AATACTGTTACTGTTACT
1 TTACTGATTCGGCACTTTGTGTG-TCGAATACTGTTACTGTTACT
44961807 ACTACCGTTA
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
45 95 0.78
46 27 0.22
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
Found at i:44962337 original size:13 final size:15
Alignment explanation
Indices: 44962319--44962350 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44962309 TATATGAAAT
44962319 AATGATT-TT-ATGA
1 AATGATTATTGATGA
44962332 AATGATTATTGATGA
1 AATGATTATTGATGA
44962347 AATG
1 AATG
44962351 CATGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (15 bp):
AATGATTATTGATGA
Found at i:44963821 original size:26 final size:26
Alignment explanation
Indices: 44963782--44963847 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
44963772 GAGAAAGCAC
*
44963782 TAACGGG-AGCCTCAAAAAGAGCC-TT
1 TAACGGGAAG-CTCAAAAAGAGCCATA
**
44963807 TAATCGGGAAGCTCACGAAGAGCCATA
1 TAA-CGGGAAGCTCAAAAAGAGCCATA
*
44963834 TAACGGGATGCTCA
1 TAACGGGAAGCTCA
44963848 TAAGAGCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
25 3 0.09
26 25 0.74
27 6 0.18
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.17
Consensus pattern (26 bp):
TAACGGGAAGCTCAAAAAGAGCCATA
Found at i:44967898 original size:24 final size:24
Alignment explanation
Indices: 44967860--44967970 Score: 125
Period size: 24 Copynumber: 4.6 Consensus size: 24
44967850 TCTCAAGCAC
* *
44967860 TATAATGGTAAGCTCATTGAGCCT
1 TATAACGGGAAGCTCATTGAGCCT
* *
44967884 TGTAACTGGAAGCTCATTGAGCCT
1 TATAACGGGAAGCTCATTGAGCCT
* **
44967908 TATAACGGGAAGCTTATCCTG-GCAA
1 TATAACGGGAAGCTCAT--TGAGCCT
44967933 TATAACGGGAAGCTCATTGAGCCT
1 TATAACGGGAAGCTCATTGAGCCT
*
44967957 TGTAACGGGAAGCT
1 TATAACGGGAAGCT
44967971 TATCCGGACA
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
23 2 0.03
24 49 0.69
25 18 0.25
26 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (24 bp):
TATAACGGGAAGCTCATTGAGCCT
Found at i:44967939 original size:25 final size:25
Alignment explanation
Indices: 44967908--44967995 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
44967898 CATTGAGCCT
44967908 TATAACGGGAAGCTTATCCTGGCAA
1 TATAACGGGAAGCTTATCCTGGCAA
* **
44967933 TATAACGGGAAGCTCAT--TGAGCCT
1 TATAACGGGAAGCTTATCCTG-GCAA
*
44967957 TGTAACGGGAAGCTTATCC-GGACAA
1 TATAACGGGAAGCTTATCCTGG-CAA
44967982 TATAACGGGAAGCT
1 TATAACGGGAAGCT
44967996 CACAAAGAGC
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.04
24 18 0.35
25 31 0.61
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (25 bp):
TATAACGGGAAGCTTATCCTGGCAA
Found at i:44967949 original size:49 final size:49
Alignment explanation
Indices: 44967886--44967997 Score: 190
Period size: 49 Copynumber: 2.3 Consensus size: 49
44967876 TTGAGCCTTG
*
44967886 TAACTGGAAGCTCATTGAGCCTTATAACGGGAAGCTTATCCTGG-CAATA
1 TAACGGGAAGCTCATTGAGCCTTATAACGGGAAGCTTATCC-GGACAATA
*
44967935 TAACGGGAAGCTCATTGAGCCTTGTAACGGGAAGCTTATCCGGACAATA
1 TAACGGGAAGCTCATTGAGCCTTATAACGGGAAGCTTATCCGGACAATA
44967984 TAACGGGAAGCTCA
1 TAACGGGAAGCTCA
44967998 CAAAGAGCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
48 2 0.03
49 58 0.97
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (49 bp):
TAACGGGAAGCTCATTGAGCCTTATAACGGGAAGCTTATCCGGACAATA
Found at i:44979991 original size:12 final size:12
Alignment explanation
Indices: 44979947--44979996 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
44979937 AGGTAAGTAT
44979947 CTGTGATTGTTG
1 CTGTGATTGTTG
*
44979959 CTG-AATT-TTCGG
1 CTGTGATTGTT--G
*
44979971 CTTTGATTGTTG
1 CTGTGATTGTTG
44979983 CTGTGATTGTTG
1 CTGTGATTGTTG
44979995 CT
1 CT
44979997 AAATTTTCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
10 2 0.07
11 3 0.10
12 20 0.67
13 3 0.10
14 2 0.07
ACGTcount: A:0.10, C:0.12, G:0.28, T:0.50
Consensus pattern (12 bp):
CTGTGATTGTTG
Found at i:44980238 original size:62 final size:62
Alignment explanation
Indices: 44980156--44980383 Score: 244
Period size: 62 Copynumber: 3.7 Consensus size: 62
44980146 TATTCCCCAA
* * * * *
44980156 AAGACCACATGGCCAAGGACACGGGCGTGTACCCAGACCGTGTAACTCAATGA-TTGTGGTCT
1 AAGACCACACGGCCAGGGACACGAGCGTGTACCCAGGCCGTGTAACTCACT-ATTTGTGGTCT
** * * * * *
44980218 AAGACCGTACGGCCAGGGACACAAGCATGTACCCAGGCCATGTAACTCACTATTTCTAGTCT
1 AAGACCACACGGCCAGGGACACGAGCGTGTACCCAGGCCGTGTAACTCACTATTTGTGGTCT
* *
44980280 AAGACCACACGGCCAGGGACACGAGCGTGTGCTCAGGCCGTGTAACTCACTATTTGTGGTC-
1 AAGACCACACGGCCAGGGACACGAGCGTGTACCCAGGCCGTGTAACTCACTATTTGTGGTCT
* * * * * * *
44980341 AAGACGACATGACTAAGGACACGGGCGTATACCCAGGCCGTGT
1 AAGACCACACGGCCAGGGACACGAGCGTGTACCCAGGCCGTGT
44980384 GAGTTATACG
Statistics
Matches: 135, Mismatches: 30, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
61 35 0.26
62 100 0.74
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (62 bp):
AAGACCACACGGCCAGGGACACGAGCGTGTACCCAGGCCGTGTAACTCACTATTTGTGGTCT
Found at i:44987228 original size:62 final size:62
Alignment explanation
Indices: 44987156--44987386 Score: 230
Period size: 62 Copynumber: 3.7 Consensus size: 62
44987146 TATTAGCGAA
** * * * *
44987156 AAGACCACACGACCAGGGACTTGGGTGTGTACCCAGGCCGTGTAACTTATTGTTTTTGGTCC
1 AAGACCACACGACCAGGGACACGGGCGTGTACCCAGGCCGTGTAACTCACTGTTTGTGGTCC
** * * ** *
44987218 AAGACCACACGGTCAGGGACACGAGCCTGTAAGCAGGCTGTGTAACTCACTGTTTGTGGTCC
1 AAGACCACACGACCAGGGACACGGGCGTGTACCCAGGCCGTGTAACTCACTGTTTGTGGTCC
* * * * * **
44987280 AAGACCACAC-AGCTAGGGACATGGACGTGTGCTCAGGTTGTGTAACTCACTGTTTGTGGTCC
1 AAGACCACACGA-CCAGGGACACGGGCGTGTACCCAGGCCGTGTAACTCACTGTTTGTGGTCC
* * * *
44987342 AATACCACACGACCAAGGACACAGGCGTGTAGCCAGGCCGTGTAA
1 AAGACCACACGACCAGGGACACGGGCGTGTACCCAGGCCGTGTAA
44987387 GTCATACCGG
Statistics
Matches: 132, Mismatches: 35, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
62 131 0.99
63 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (62 bp):
AAGACCACACGACCAGGGACACGGGCGTGTACCCAGGCCGTGTAACTCACTGTTTGTGGTCC
Found at i:44993212 original size:69 final size:69
Alignment explanation
Indices: 44993101--44993394 Score: 392
Period size: 69 Copynumber: 4.3 Consensus size: 69
44993091 ATTCACAAAT
* * * * * * *
44993101 ATTTGGACAGCAGTAAAAACATTTGGACAGCATTGACTTGTACGAAAAATGGACAACATTTAAGC
1 ATTTGGACAGCATTAATAACATTCGGACAGCATAGATTTGTACAAAAAATGGACAGCATTTAAGC
44993166 ACTA
66 ACTA
* * * *
44993170 ATTTGGATAGCATTAATAACATTCGGACAGCATAGATTTGTACCAAAAATAGATAGCATTTAAGC
1 ATTTGGACAGCATTAATAACATTCGGACAGCATAGATTTGTACAAAAAATGGACAGCATTTAAGC
44993235 ACTA
66 ACTA
* * *
44993239 ATTTGGAAAGCATTAATAACATTCAGACAACATAGATTTGTACAAAAAATGGACAGCATTTAAGC
1 ATTTGGACAGCATTAATAACATTCGGACAGCATAGATTTGTACAAAAAATGGACAGCATTTAAGC
44993304 ACTA
66 ACTA
* * * * *
44993308 ATTTGGACAGCATGAATAACATACGGATAGCAT-GAATTTGTATAAAAAATGGATAGCATTTAAG
1 ATTTGGACAGCATTAATAACATTCGGACAGCATAG-ATTTGTACAAAAAATGGACAGCATTTAAG
44993372 CACTA
65 CACTA
*
44993377 ATTTGGACAACATTAATA
1 ATTTGGACAGCATTAATA
44993395 TGCTAAAAAA
Statistics
Matches: 198, Mismatches: 26, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
68 1 0.01
69 197 0.99
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (69 bp):
ATTTGGACAGCATTAATAACATTCGGACAGCATAGATTTGTACAAAAAATGGACAGCATTTAAGC
ACTA
Found at i:44993457 original size:34 final size:33
Alignment explanation
Indices: 44993405--44993505 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 33
44993395 TGCTAAAAAA
*
44993405 TGGACAGCATTTATACATGCAAAACAACCACATT
1 TGGACAACATTTA-ACATGCAAAACAACCACATT
*
44993439 TGGACAACATTATAACATGTAAAAACAACCACATT
1 TGGACAACATT-TAACATG-CAAAACAACCACATT
* ** *
44993474 TGGATATTATTTTAATATGCAAAACAACCACA
1 TGGACAACA-TTTAACATGCAAAACAACCACA
44993506 CTTTAATACC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
34 27 0.47
35 28 0.49
36 2 0.04
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.26
Consensus pattern (33 bp):
TGGACAACATTTAACATGCAAAACAACCACATT
Found at i:44994303 original size:43 final size:43
Alignment explanation
Indices: 44994256--44994352 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
44994246 TCCTAGATAT
* * **
44994256 GGTCTTACATGCT-ATCACATCTCGATGCCACTATCCTTGACAG
1 GGTCTTACATG-TAATCACATATCGATGCCAATATCCCAGACAG
* * *
44994299 GGTCTTACATGTAATCTCATATCGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCACATATCGATGCCAATATCCCAGACAG
44994342 GGTCTTACATG
1 GGTCTTACATG
44994353 AAATTATACC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
42 1 0.02
43 45 0.98
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAATATCCCAGACAG
Done.