Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 149 of 163
Found at i:49144145 original size:64 final size:64
Alignment explanation
Indices: 49144076--49144203 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 64
49144066 AAAATGATTA
* * *
49144076 AATTAAAATACAGAGATTAAATCCACAGTTTTTA-TAAAGTTAAAATTTAACCTTAATTTATTTG
1 AATTAAAATACAAAAATTAAATCCACAATTTTTATTAAA-TTAAAATTTAACCTTAATTTATTTG
49144140 AATTAAAATACAAAAATTAAATCCACAATTTTTATTAAATTAAAATTTAACCTTAATTTATTTG
1 AATTAAAATACAAAAATTAAATCCACAATTTTTATTAAATTAAAATTTAACCTTAATTTATTTG
49144204 CCTATCTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 56 0.93
65 4 0.07
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (64 bp):
AATTAAAATACAAAAATTAAATCCACAATTTTTATTAAATTAAAATTTAACCTTAATTTATTTG
Found at i:49146697 original size:32 final size:32
Alignment explanation
Indices: 49146659--49146724 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
49146649 TACCTTGTTG
49146659 TTTTATGTAATCTATGCAAGTTGTTGGTTATC
1 TTTTATGTAATCTATGCAAGTTGTTGGTTATC
49146691 TTTTATGTAATCTATGCAAGTTGTTGGTTATC
1 TTTTATGTAATCTATGCAAGTTGTTGGTTATC
49146723 TT
1 TT
49146725 AGGATTGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.52
Consensus pattern (32 bp):
TTTTATGTAATCTATGCAAGTTGTTGGTTATC
Found at i:49149707 original size:30 final size:30
Alignment explanation
Indices: 49149673--49149729 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
49149663 TGAACTTAAA
*
49149673 AATTATTTTCATATTGAGGCCTGAATTAGC
1 AATTATTCTCATATTGAGGCCTGAATTAGC
* * *
49149703 AATTATTCTCGTATTGGGGCTTGAATT
1 AATTATTCTCATATTGAGGCCTGAATT
49149730 TTTTTGTCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.42
Consensus pattern (30 bp):
AATTATTCTCATATTGAGGCCTGAATTAGC
Found at i:49153330 original size:6 final size:6
Alignment explanation
Indices: 49153319--49153347 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49153309 ACTCAACTGG
49153319 TGGAGA TGGAGA TGGAGA TGGAGA TGGAG
1 TGGAGA TGGAGA TGGAGA TGGAGA TGGAG
49153348 CTCCATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.52, T:0.17
Consensus pattern (6 bp):
TGGAGA
Found at i:49159454 original size:23 final size:23
Alignment explanation
Indices: 49159404--49159582 Score: 240
Period size: 23 Copynumber: 8.0 Consensus size: 23
49159394 CCTGATCAGT
49159404 ATACGACACAT-AAGTGCCTG--
1 ATACGACACATAAAGTGCCTGAA
* * *
49159424 ATACGACACATGAGGTGCCTAAA
1 ATACGACACATAAAGTGCCTGAA
* *
49159447 ATACGACACATGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
*
49159470 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAA
* * *
49159493 ATACAACACATAAAATACCTGAA
1 ATACGACACATAAAGTGCCTGAA
*
49159516 ATATGACACATAAAGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
49159539 ATA-GACACATAAAGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
49159561 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
49159583 TCGGCATAGC
Statistics
Matches: 141, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
20 11 0.08
21 7 0.05
22 22 0.16
23 101 0.72
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:49162391 original size:31 final size:30
Alignment explanation
Indices: 49162356--49162458 Score: 102
Period size: 31 Copynumber: 3.4 Consensus size: 30
49162346 TGTTTTAATG
49162356 AATTTAATATTTATCTAGATATTATTTTATT
1 AATTTAATATTTATCTAGATA-TATTTTATT
* * *
49162387 AATTTAATATTAATAT-GATATA-TTAACTTT
1 AATTTAATATTTATCTAGATATATTTTA--TT
* *
49162417 AATTTAATATTTATCTAGATAATGTTTTAGT
1 AATTTAATATTTATCTAGAT-ATATTTTATT
*
49162448 AATTTGATATT
1 AATTTAATATT
49162459 AATGTGATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 3 0.05
29 2 0.03
30 20 0.34
31 28 0.48
32 2 0.03
33 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (30 bp):
AATTTAATATTTATCTAGATATATTTTATT
Found at i:49167542 original size:10 final size:10
Alignment explanation
Indices: 49167515--49167557 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
49167505 CTCTGTCAAT
*
49167515 AAAAAATACA
1 AAAAAATTCA
49167525 AAAAAATTCA
1 AAAAAATTCA
**
49167535 AAAAAATTTT
1 AAAAAATTCA
*
49167545 CAAAAATTCA
1 AAAAAATTCA
49167555 AAA
1 AAA
49167558 TATTTATAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAATTCA
Found at i:49167562 original size:19 final size:20
Alignment explanation
Indices: 49167526--49167578 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
49167516 AAAAATACAA
*
49167526 AAAAATTCAAAAAAATTT-T
1 AAAAATTCAAAAATATTTAT
49167545 CAAAAATTC-AAAATATTTAT
1 -AAAAATTCAAAAATATTTAT
*
49167565 AAAAATTCTAAAAT
1 AAAAATTCAAAAAT
49167579 TTATATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATTCAAAAATATTTAT
Found at i:49184784 original size:19 final size:20
Alignment explanation
Indices: 49184750--49184799 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
49184740 TTTTTTTTTA
49184750 CATT-CATTTCATTCATCA-G
1 CATTACATTTCATTCAT-ATG
49184769 CATTACATTTCA-TCATATG
1 CATTACATTTCATTCATATG
*
49184788 CATTAAATTTCA
1 CATTACATTTCA
49184800 CAAAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (20 bp):
CATTACATTTCATTCATATG
Found at i:49229562 original size:20 final size:20
Alignment explanation
Indices: 49229510--49229564 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
49229500 CGATATTTAT
* **
49229510 ATAAGTATCGATACTTTTTC
1 ATAACTATCGATACTAGTTC
* *
49229530 ATAAACTACCGATACTAGTTG
1 AT-AACTATCGATACTAGTTC
49229551 ATAACTATCGATAC
1 ATAACTATCGATAC
49229565 CTTTAATTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (20 bp):
ATAACTATCGATACTAGTTC
Found at i:49230572 original size:50 final size:50
Alignment explanation
Indices: 49230493--49230594 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
49230483 AGTTATGGTG
** * * **
49230493 CATTATAAGATGTAATGAGTATTATCCTATGTGGACTAACCAGTAACTTA
1 CATTATAAGAAATAATGAGCATTACCCTATGCAGACTAACCAGTAACTTA
*
49230543 CATTATAAGAAATAATGAGCATTACCCTATGCAGATTAACCAGTAACTTA
1 CATTATAAGAAATAATGAGCATTACCCTATGCAGACTAACCAGTAACTTA
49230593 CA
1 CA
49230595 AGTTATGATG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (50 bp):
CATTATAAGAAATAATGAGCATTACCCTATGCAGACTAACCAGTAACTTA
Found at i:49233084 original size:51 final size:51
Alignment explanation
Indices: 49233004--49233192 Score: 213
Period size: 51 Copynumber: 3.7 Consensus size: 51
49232994 CATGAGAACT
* * **
49233004 CATGTGTAGTACTATGTGTAGGCTACTATGAGTATAAGATAGTTATGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAGTTATGGTCA
* * *
49233055 CATATGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAGCTT-TGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAG-TTATGGTCA
* * *
49233106 CATGTGTAGTACTATGTGCAGGCTACTA-CATGTACCAGAT-GGTATTGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGA-GTACCAGATAGTTA-TGGTCA
* * *
49233157 CATGTGTAGTACTAAGTGTAGCCTACTATGTGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACC
49233193 GAATAACATT
Statistics
Matches: 115, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 111 0.97
52 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAGTTATGGTCA
Found at i:49233183 original size:102 final size:102
Alignment explanation
Indices: 49233004--49233193 Score: 276
Period size: 102 Copynumber: 1.9 Consensus size: 102
49232994 CATGAGAACT
* * *
49233004 CATGTGTAGTACTATGTGTAGGCTACTATGAGTATAAGATAGTTATGGTCACATATGTAGTACTA
1 CATGTGTAGTACTATGTGCAGGCTACTATCAGTACAAGATAGTTATGGTCACATATGTAGTACTA
*
49233069 AGTGCAGGCTACTATGTGTACCGGATAGCTTTGGTCA
66 AGTGCAGCCTACTATGTGTACCGGATAGCTTTGGTCA
* * *
49233106 CATGTGTAGTACTATGTGCAGGCTACTA-CATGTACCAGAT-GGTATTGGTCACATGTGTAGTAC
1 CATGTGTAGTACTATGTGCAGGCTACTATCA-GTACAAGATAGTTA-TGGTCACATATGTAGTAC
*
49233169 TAAGTGTAGCCTACTATGTGTACCG
64 TAAGTGCAGCCTACTATGTGTACCG
49233194 AATAACATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 4 0.05
102 74 0.95
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (102 bp):
CATGTGTAGTACTATGTGCAGGCTACTATCAGTACAAGATAGTTATGGTCACATATGTAGTACTA
AGTGCAGCCTACTATGTGTACCGGATAGCTTTGGTCA
Found at i:49236272 original size:40 final size:39
Alignment explanation
Indices: 49236202--49236286 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
49236192 ATTGGATTTT
* *
49236202 ATAAAAAAGAGTTAAAAATAAAAAATACATTATTTAAAA
1 ATAAAAAAGAATTAAAAATAAAAAATACATTAATTAAAA
49236241 ATAAAAAA-AATTAAAAATATAATCAAA-ACATTAATTAAAA
1 ATAAAAAAGAATTAAAAATA-AA--AAATACATTAATTAAAA
49236281 ATAAAA
1 ATAAAA
49236287 GACTTGACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
38 10 0.24
39 10 0.24
40 18 0.44
41 3 0.07
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (39 bp):
ATAAAAAAGAATTAAAAATAAAAAATACATTAATTAAAA
Found at i:49236284 original size:22 final size:20
Alignment explanation
Indices: 49236213--49236286 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
49236203 TAAAAAAGAG
*
49236213 TTAAAAATAAAAAATACATTAT
1 TTAAAAAT-AAAAA-ACATTAA
*
49236235 TTAAAAATAAAAAAAATTAA
1 TTAAAAATAAAAAACATTAA
*
49236255 --AAATATAATCAAAACATTAA
1 TTAAAAATAA--AAAACATTAA
49236275 TTAAAAATAAAA
1 TTAAAAATAAAA
49236287 GACTTGACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
18 7 0.16
20 16 0.37
21 5 0.12
22 15 0.35
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (20 bp):
TTAAAAATAAAAAACATTAA
Found at i:49236455 original size:16 final size:16
Alignment explanation
Indices: 49236434--49236464 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49236424 AGCTTGATGT
49236434 TATTTATATTAAAAAG
1 TATTTATATTAAAAAG
49236450 TATTTATATTAAAAA
1 TATTTATATTAAAAA
49236465 ACATTACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TATTTATATTAAAAAG
Found at i:49236733 original size:21 final size:21
Alignment explanation
Indices: 49236679--49236733 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
49236669 ATGCATGTAT
* *
49236679 AATAATAAATTATTAAAATTT
1 AATAATAAAATATTAAAATTA
* *
49236700 ATTAA-AAATATATTTAAATTA
1 AATAATAAA-ATATTAAAATTA
49236721 AATAATAAAATAT
1 AATAATAAAATAT
49236734 AAATTACATG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATAAAATATTAAAATTA
Found at i:49236810 original size:30 final size:31
Alignment explanation
Indices: 49236762--49236819 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
49236752 ATTATATTTA
49236762 TATTTGTGTTAAAATTATAATAA-AATACAT
1 TATTTGTGTTAAAATTATAATAATAATACAT
* * * *
49236792 TATTTTTGTTATATTTATATTAATAATA
1 TATTTGTGTTAAAATTATAATAATAATA
49236820 ATATGTACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TATTTGTGTTAAAATTATAATAATAATACAT
Found at i:49243493 original size:3 final size:3
Alignment explanation
Indices: 49243485--49243510 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49243475 TGCCTCTCTT
49243485 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
49243511 CTTGTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:49245963 original size:30 final size:31
Alignment explanation
Indices: 49245914--49245971 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
49245904 TGTTTTATTT
* * *
49245914 TAATTAATTTAATTTTTTAATTTAATCACTC
1 TAATTAATATAATTATTTAAATTAATCACTC
49245945 TAATTAA-ATAATTATTTAAATTAATCA
1 TAATTAATATAATTATTTAAATTAATCA
49245972 TTATCGTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (31 bp):
TAATTAATATAATTATTTAAATTAATCACTC
Found at i:49249331 original size:33 final size:33
Alignment explanation
Indices: 49249289--49249354 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
49249279 TATTTTTATG
49249289 CATCATTGGAACAGATATTGATATTATCTGGTT
1 CATCATTGGAACAGATATTGATATTATCTGGTT
49249322 CATCATTGGAACAGATATTGATATTATCTGGTT
1 CATCATTGGAACAGATATTGATATTATCTGGTT
49249355 GCAATCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (33 bp):
CATCATTGGAACAGATATTGATATTATCTGGTT
Found at i:49252587 original size:85 final size:89
Alignment explanation
Indices: 49252488--49252650 Score: 217
Period size: 88 Copynumber: 1.9 Consensus size: 89
49252478 GTTGTATAGT
* * *
49252488 TGTATTTGATCAATTTTGCAAGT-A-TTTTTTTGGTTTTCGTTATAGAAGA-A-ATGTAACAGGT
1 TGTATTTGATCAATTTGGCAACTAATTTTTTTTGGTTTTCGTTATAGAAGATACATGAAACAGGT
49252549 AAAATATTTATTATAATAATAAGC
66 AAAATATTTATTATAATAATAAGC
* * * *
49252573 TGTATTTTATCAATTTGGTAACTAATTTTTTTTTGGTTTTCTTTATAGAATATATCATGAAACAG
1 TGTATTTGATCAATTTGGCAACTAA-TTTTTTTTGGTTTTCGTTATAGAAGATA-CATGAAACAG
49252638 GTAAAATATTTAT
64 GTAAAATATTTAT
49252651 GAAAATAGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
85 19 0.29
86 1 0.02
88 23 0.35
89 1 0.02
91 21 0.32
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (89 bp):
TGTATTTGATCAATTTGGCAACTAATTTTTTTTGGTTTTCGTTATAGAAGATACATGAAACAGGT
AAAATATTTATTATAATAATAAGC
Found at i:49267470 original size:96 final size:95
Alignment explanation
Indices: 49267306--49267592 Score: 495
Period size: 96 Copynumber: 3.0 Consensus size: 95
49267296 TTCAAAAAAA
* *
49267306 GTAGAATTAAACAAATGGGGGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCAAAATCG
1 GTAGAATTGAATAAAT-GGGGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCAAAATCG
49267371 AGACCCACAATCTTGTTTATTGCCACGAAAC
65 AGACCCACAATCTTGTTTATTGCCACGAAAC
49267402 GTAGAATTGAATAAATGGGTGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCAAAATCG
1 GTAGAATTGAATAAATGGG-GTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCAAAATCG
49267467 AGACCCACAATCTTGTTTATTGCCACGAAAC
65 AGACCCACAATCTTGTTTATTGCCACGAAAC
* *
49267498 GTAGAATTGAATAAATGACGGTTAAAGAGGAGAGAAAGAGATGTTGGCTTACCTCACC-AAATCG
1 GTAGAATTGAATAAATG-GGGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCAAAATCG
*
49267562 AGACCCACAATCTTGTTTATTGCCACAAAAC
65 AGACCCACAATCTTGTTTATTGCCACGAAAC
49267593 ACCCAAGAGT
Statistics
Matches: 184, Mismatches: 5, Indels: 5
0.95 0.03 0.03
Matches are distributed among these distances:
95 39 0.21
96 144 0.78
97 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (95 bp):
GTAGAATTGAATAAATGGGGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCAAAATCGA
GACCCACAATCTTGTTTATTGCCACGAAAC
Found at i:49273812 original size:21 final size:21
Alignment explanation
Indices: 49273786--49273826 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
49273776 GCAAAAAAGA
49273786 AAAACTGTTTTGTAGCCAACT
1 AAAACTGTTTTGTAGCCAACT
49273807 AAAACTGTTTTGTAGCCAAC
1 AAAACTGTTTTGTAGCCAAC
49273827 CACCTCTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (21 bp):
AAAACTGTTTTGTAGCCAACT
Found at i:49292208 original size:25 final size:25
Alignment explanation
Indices: 49292125--49292259 Score: 119
Period size: 25 Copynumber: 5.6 Consensus size: 25
49292115 TTATTATGCA
49292125 CTAATGAA-CAGAGAGCACTTAA-GTG
1 CTAAT-AATCAGAGAGCAC-TAATGTG
49292150 CT-AT-A-CAGAGAGCA-TAGATGTG
1 CTAATAATCAGAGAGCACTA-ATGTG
*
49292172 C---TAATC-GAAGAGCACTAACGTG
1 CTAATAATCAG-AGAGCACTAATGTG
49292194 CTAATAATCAGAGAGCACTAATGTG
1 CTAATAATCAGAGAGCACTAATGTG
* * *
49292219 CTAATAATCAGAGAGCATTGATTTG
1 CTAATAATCAGAGAGCACTAATGTG
*
49292244 GTAATAATCAGAGAGC
1 CTAATAATCAGAGAGC
49292260 GCGCTAAGGT
Statistics
Matches: 94, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
20 3 0.03
21 3 0.03
22 26 0.28
23 2 0.02
24 2 0.02
25 57 0.61
26 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTAATGTG
Found at i:49292209 original size:47 final size:44
Alignment explanation
Indices: 49292136--49292223 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 44
49292126 TAATGAACAG
49292136 AGAGCACTTAAGTGCTATACAGAGAGCA-TAGATGTGCTAATCGA
1 AGAGCACTTAAGTGCTATACAGAGAGCACTA-ATGTGCTAATCGA
49292180 AGAGCAC-TAACGTGCTAATAATCAGAGAGCACTAATGTGCTAAT
1 AGAGCACTTAA-GTGCT-AT-A-CAGAGAGCACTAATGTGCTAAT
49292224 AATCAGAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
43 3 0.08
44 12 0.31
45 2 0.05
46 1 0.03
47 19 0.49
48 2 0.05
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (44 bp):
AGAGCACTTAAGTGCTATACAGAGAGCACTAATGTGCTAATCGA
Found at i:49294959 original size:94 final size:93
Alignment explanation
Indices: 49294789--49294973 Score: 352
Period size: 94 Copynumber: 2.0 Consensus size: 93
49294779 GAAAACAAAG
49294789 AATATTTTGTTATGTGACATTACATATAAACTAATAAAATCATGTAACTTTTTGTTAATATAAGA
1 AATATTTTGTTATGTGACATTACATATAAACTAATAAAATCATGTAACTTTTTGTTAATATAAGA
49294854 ATGTTATGTTTGGATGTGAAATATAACT
66 ATGTTATGTTTGGATGTGAAATATAACT
*
49294882 AATATTTTGTTTATGTGATATTACATATAAACTAATAAAATCATGTAACTTTTTGTTAATATAAG
1 AATATTTTG-TTATGTGACATTACATATAAACTAATAAAATCATGTAACTTTTTGTTAATATAAG
49294947 AATGTTATGTTTGGATGTGAAATATAA
65 AATGTTATGTTTGGATGTGAAATATAA
49294974 TTCTCAAGTT
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
93 9 0.10
94 81 0.90
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.43
Consensus pattern (93 bp):
AATATTTTGTTATGTGACATTACATATAAACTAATAAAATCATGTAACTTTTTGTTAATATAAGA
ATGTTATGTTTGGATGTGAAATATAACT
Found at i:49305236 original size:60 final size:60
Alignment explanation
Indices: 49305151--49305271 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
49305141 TAATTAAATT
*
49305151 ATTTGATTCACTAATGATATTTTAGCACATTAAATATGCATTGCAGTTTAAAAATAATAA
1 ATTTGATTAACTAATGATATTTTAGCACATTAAATATGCATTGCAGTTTAAAAATAATAA
* *
49305211 ATTTGTTTAACTAATGATATTTTAGCACATTAAATATGTATTGCAGTTTAAAAATAATAA
1 ATTTGATTAACTAATGATATTTTAGCACATTAAATATGCATTGCAGTTTAAAAATAATAA
49305271 A
1 A
49305272 GTAGATTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (60 bp):
ATTTGATTAACTAATGATATTTTAGCACATTAAATATGCATTGCAGTTTAAAAATAATAA
Found at i:49305616 original size:16 final size:16
Alignment explanation
Indices: 49305595--49305648 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
49305585 TAAATTACTA
49305595 ATTACAACTTTATTCC
1 ATTACAACTTTATTCC
* * *
49305611 ATTACAGCTCTATTCA
1 ATTACAACTTTATTCC
*
49305627 ATTACATCTTTATTCC
1 ATTACAACTTTATTCC
49305643 ATTACA
1 ATTACA
49305649 GTGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (16 bp):
ATTACAACTTTATTCC
Found at i:49310455 original size:211 final size:211
Alignment explanation
Indices: 49310086--49312622 Score: 5065
Period size: 211 Copynumber: 12.0 Consensus size: 211
49310076 ACCCTACGGA
*
49310086 CATGGCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49310151 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49310216 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49310281 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49310297 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49310362 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49310427 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49310492 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49310508 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49310573 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49310638 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49310703 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49310719 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49310784 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49310849 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49310914 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49310930 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49310995 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49311060 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49311125 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49311141 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49311206 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49311271 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49311336 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49311352 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49311417 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49311482 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49311547 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49311563 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49311628 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49311693 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49311758 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49311774 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49311839 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49311904 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49311969 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49311985 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49312050 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49312115 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49312180 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49312196 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49312261 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49312326 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49312391 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49312407 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
1 CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
49312472 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
66 GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
49312537 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
131 AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
49312602 CATTTTACAAAATGAT
196 CATTTTACAAAATGAT
49312618 CATGT
1 CATGT
49312623 TGCCAAACAC
Statistics
Matches: 2325, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 2325 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (211 bp):
CATGTCCGGCTCATGTTATCTCTCGGCGCTGCAGCGTGCATAAACTCACCATCTTTGAAAAATAT
GGAATAATCAAAAGATACCGTCAAAGAGTCATATGAATTACAAATTGCATTGTATTTTGTTTTTG
AATAATTCATGATTTACAACAAATAATATCCTTTCCAGGTGAAACAAAGTGGGGAAAAAAGTAGT
CATTTTACAAAATGAT
Found at i:49312678 original size:13 final size:13
Alignment explanation
Indices: 49312642--49312715 Score: 76
Period size: 13 Copynumber: 5.7 Consensus size: 13
49312632 CTCAAAATTT
*
49312642 TCAAAAGCACCTC
1 TCAAAAGCACTTC
*
49312655 TTAAAAGCACTTC
1 TCAAAAGCACTTC
* *
49312668 TAAAAAGCACTTT
1 TCAAAAGCACTTC
* *
49312681 TCCACAGCACTTC
1 TCAAAAGCACTTC
*
49312694 TCAAAAGCACTTT
1 TCAAAAGCACTTC
*
49312707 TTAAAAGCA
1 TCAAAAGCA
49312716 ATGAAGAACT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:49312715 original size:26 final size:26
Alignment explanation
Indices: 49312642--49312715 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
49312632 CTCAAAATTT
* *
49312642 TCAAAAGCACCTCTTAAAAGCACTTC
1 TCAAAAGCACTTTTTAAAAGCACTTC
* ** *
49312668 TAAAAAGCACTTTTCCACAGCACTTC
1 TCAAAAGCACTTTTTAAAAGCACTTC
49312694 TCAAAAGCACTTTTTAAAAGCA
1 TCAAAAGCACTTTTTAAAAGCA
49312716 ATGAAGAACT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.26
Consensus pattern (26 bp):
TCAAAAGCACTTTTTAAAAGCACTTC
Found at i:49312890 original size:3 final size:3
Alignment explanation
Indices: 49312882--49312910 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
49312872 ACCCTTAATT
49312882 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
49312911 TATTTCTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:49319586 original size:32 final size:32
Alignment explanation
Indices: 49319550--49319647 Score: 87
Period size: 32 Copynumber: 3.2 Consensus size: 32
49319540 TATTACAAAA
49319550 ATATGCAGTTACCATGCTTAGGTATTGGGTTG
1 ATATGCAGTTACCATGCTTAGGTATTGGGTTG
* * ** ***
49319582 ATAT---GTT-CCATGTTTAGAATATTACGAAA
1 ATATGCAGTTACCATGCTTAG-GTATTGGGTTG
*
49319611 ATATGCAGTTACCATGCTTAGGAATTGGGTTG
1 ATATGCAGTTACCATGCTTAGGTATTGGGTTG
49319643 ATATG
1 ATATG
49319648 TTAAGTTCCA
Statistics
Matches: 46, Mismatches: 15, Indels: 10
0.65 0.21 0.14
Matches are distributed among these distances:
28 9 0.20
29 12 0.26
32 16 0.35
33 9 0.20
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (32 bp):
ATATGCAGTTACCATGCTTAGGTATTGGGTTG
Found at i:49327652 original size:17 final size:17
Alignment explanation
Indices: 49327630--49327662 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49327620 TTAAACATGC
49327630 TTGAAAAAATTAAATTA
1 TTGAAAAAATTAAATTA
*
49327647 TTGAAAATATTAAATT
1 TTGAAAAAATTAAATT
49327663 TTTCAGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
TTGAAAAAATTAAATTA
Found at i:49327994 original size:20 final size:20
Alignment explanation
Indices: 49327971--49328015 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
49327961 TAATCATTTG
*
49327971 TAAAATT-TAATTTAATTA-
1 TAAAATTATAATTTAAATAT
49327989 TATAAATTATAATTTAAATAT
1 TA-AAATTATAATTTAAATAT
49328010 TAAAAT
1 TAAAAT
49328016 AGAACCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 2 0.09
19 5 0.22
20 14 0.61
21 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAATTATAATTTAAATAT
Found at i:49336250 original size:6 final size:7
Alignment explanation
Indices: 49336233--49336258 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
49336223 ATGCTAAGCT
49336233 AAAAAAG
1 AAAAAAG
49336240 AAAAAAG
1 AAAAAAG
49336247 AAAAAAG
1 AAAAAAG
49336254 AAAAA
1 AAAAA
49336259 TCCTTACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:49336700 original size:31 final size:31
Alignment explanation
Indices: 49336640--49336711 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
49336630 TTTTAACGCT
* **
49336640 TTGAGTGACTAAAATGAAAGTATTTTAAAAG
1 TTGAGTGACCAAAATGAAAGTATCCTAAAAG
49336671 TTGAGTGACCAAAATGAAAGT-TCCCTAAAAG
1 TTGAGTGACCAAAATGAAAGTAT-CCTAAAAG
*
49336702 TTGGGTGACC
1 TTGAGTGACC
49336712 CAACTAGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (31 bp):
TTGAGTGACCAAAATGAAAGTATCCTAAAAG
Found at i:49358466 original size:41 final size:41
Alignment explanation
Indices: 49358419--49358550 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 41
49358409 GATAGTTTGG
49358419 ATTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGT
1 ATTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGT
* * * **
49358460 ATTGAAAAA-GCTCTC-AG-ATGGATGCTCTTTTCAG-TAGTGCT
1 ATTGAAAAACGCT-TCAAGCA-GGATGCAC-TGTCAGCAAAAG-T
** *
49358501 GGTGACAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGT
1 ATTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGT
49358542 ATTGAAAAA
1 ATTGAAAAA
49358551 GCTCCCAGAT
Statistics
Matches: 67, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
39 1 0.01
40 14 0.21
41 37 0.55
42 14 0.21
43 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (41 bp):
ATTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGT
Found at i:49358524 original size:82 final size:82
Alignment explanation
Indices: 49358425--49358589 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
49358415 TTGGATTGAA
*
49358425 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTATTGAAAAAGCTCTCAGATGGATGCTCTTT
1 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTATTGAAAAAGCTCCCAGATGGATGCTCTTT
49358490 TCAGTAGTGCTGGTGAC
66 TCAGTAGTGCTGGTGAC
49358507 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTATTGAAAAAGCTCCCAGATGGATGCTCTTT
1 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTATTGAAAAAGCTCCCAGATGGATGCTCTTT
49358572 TCAGTAGTGCTGGTGAC
66 TCAGTAGTGCTGGTGAC
49358589 A
1 A
49358590 GTGTATCCCA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (82 bp):
AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTATTGAAAAAGCTCCCAGATGGATGCTCTTT
TCAGTAGTGCTGGTGAC
Found at i:49358566 original size:40 final size:40
Alignment explanation
Indices: 49358439--49358566 Score: 107
Period size: 40 Copynumber: 3.1 Consensus size: 40
49358429 GCTTCAAGCA
*
49358439 GGATGCACTGTCAGCAAAAGTATTGAAAAAGCTCTCAGAT
1 GGATGCACTGTCAGCAAAAGTATTGAAAAAGCTCCCAGAT
* * * ** ** * * *
49358479 GGATGCTCTTTTCAG-TAGTGCTGGTGACAAACGCTTCAAGCA-
1 GGATGCAC-TGTCAGCAAAAG-TATTGA-AAAAGCTCCCAG-AT
49358521 GGATGCACTGTCAGCAAAAGTATTGAAAAAGCTCCCAGAT
1 GGATGCACTGTCAGCAAAAGTATTGAAAAAGCTCCCAGAT
49358561 GGATGC
1 GGATGC
49358567 TCTTTTCAGT
Statistics
Matches: 61, Mismatches: 21, Indels: 12
0.65 0.22 0.13
Matches are distributed among these distances:
39 1 0.02
40 24 0.39
41 18 0.30
42 17 0.28
43 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (40 bp):
GGATGCACTGTCAGCAAAAGTATTGAAAAAGCTCCCAGAT
Found at i:49359568 original size:22 final size:23
Alignment explanation
Indices: 49359512--49359569 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
49359502 CGGCTCGTTT
* * * *
49359512 TTAATTAAAATTAAAATTATTTT
1 TTAAATAAAATTAAAACTAATTG
49359535 TTAAATAAAATTAAAACTAATTG
1 TTAAATAAAATTAAAACTAATTG
*
49359558 TT-AGTAAAATTA
1 TTAAATAAAATTA
49359570 TCAAATTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (23 bp):
TTAAATAAAATTAAAACTAATTG
Found at i:49359675 original size:9 final size:9
Alignment explanation
Indices: 49359642--49359669 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
49359632 TTTATCAAAT
49359642 TATTAATTG
1 TATTAATTG
49359651 TATTAATTG
1 TATTAATTG
49359660 TATTAATTG
1 TATTAATTG
49359669 T
1 T
49359670 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:49359679 original size:68 final size:68
Alignment explanation
Indices: 49359558--49359931 Score: 716
Period size: 68 Copynumber: 5.5 Consensus size: 68
49359548 AAACTAATTG
* *
49359558 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACTTT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
49359621 TGA
66 TGA
49359624 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
49359689 TGA
66 TGA
49359692 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
49359757 TGA
66 TGA
49359760 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
49359825 TGA
66 TGA
49359828 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
49359893 TGA
66 TGA
49359896 TTAGTAAATTTATCAAATTATTAATTGTATTAATTG
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTG
49359932 GTTGTAGATG
Statistics
Matches: 304, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
66 26 0.09
68 278 0.91
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:49359743 original size:9 final size:9
Alignment explanation
Indices: 49359710--49359737 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
49359700 TTTATCAAAT
49359710 TATTAATTG
1 TATTAATTG
49359719 TATTAATTG
1 TATTAATTG
49359728 TATTAATTG
1 TATTAATTG
49359737 T
1 T
49359738 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:49359811 original size:9 final size:9
Alignment explanation
Indices: 49359778--49359805 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
49359768 TTTATCAAAT
49359778 TATTAATTG
1 TATTAATTG
49359787 TATTAATTG
1 TATTAATTG
49359796 TATTAATTG
1 TATTAATTG
49359805 T
1 T
49359806 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:49359879 original size:9 final size:9
Alignment explanation
Indices: 49359846--49359873 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
49359836 TTTATCAAAT
49359846 TATTAATTG
1 TATTAATTG
49359855 TATTAATTG
1 TATTAATTG
49359864 TATTAATTG
1 TATTAATTG
49359873 T
1 T
49359874 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:49360405 original size:14 final size:15
Alignment explanation
Indices: 49360381--49360409 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49360371 TTTTTCTGTG
49360381 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
49360396 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
49360410 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:49363248 original size:41 final size:41
Alignment explanation
Indices: 49363189--49363307 Score: 193
Period size: 41 Copynumber: 2.9 Consensus size: 41
49363179 ATCTGAGATT
* * *
49363189 TTCAGGCTTAATGCCTAGCAGACTTGATGTCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGACTTGATGTCGGTGAATTAC
49363230 TTCAGACTTTATGTCTAGCAGACTTGATGTCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGACTTGATGTCGGTGAATTAC
* *
49363271 TTCAGACTTTATGTCTAGCAGGCTTGGTGTCGGTGAA
1 TTCAGACTTTATGTCTAGCAGACTTGATGTCGGTGAA
49363308 ATGTATCGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGACTTGATGTCGGTGAATTAC
Found at i:49366417 original size:59 final size:59
Alignment explanation
Indices: 49366198--49366417 Score: 264
Period size: 59 Copynumber: 3.7 Consensus size: 59
49366188 TAACTCCTAA
* * ****** *
49366198 TTTATTAAATGAAACAATAAAAAAATAGTTTGTATTGCCTTATTCAAAAGAACTTATAT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTTATAT
* *
49366257 TTTATTAAAT-AGAGCAATATAAAAA-AATTTGTACAAAAATATTCAAAACAACTTATGT
1 TTTATTAAATGA-AACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTTATAT
* *
49366315 TTTATTAAATGAAACAATATAAAAATAATTTGTTCAAAAATATTCAAAACAACTTCTAT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTTATAT
* * * *
49366374 TTTATTCAATGAAACAATATAAAAATAGTTTGCACAAATATATT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATT
49366418 TTAAAAAAAT
Statistics
Matches: 138, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
58 47 0.34
59 91 0.66
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (59 bp):
TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTTATAT
Found at i:49373830 original size:2 final size:2
Alignment explanation
Indices: 49373823--49373854 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
49373813 AGATACTACA
49373823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49373855 TAAAAAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49403326 original size:23 final size:23
Alignment explanation
Indices: 49403296--49403342 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
49403286 AAGTTACAAA
* *
49403296 ATTGTAATATCCTAAAAATTACT
1 ATTGTAATACCCCAAAAATTACT
*
49403319 ATTGTAATACCCCGAAAATTACT
1 ATTGTAATACCCCAAAAATTACT
49403342 A
1 A
49403343 CAGTAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (23 bp):
ATTGTAATACCCCAAAAATTACT
Found at i:49408205 original size:33 final size:33
Alignment explanation
Indices: 49408168--49408232 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
49408158 CTTTTAAAAA
* * *
49408168 AAAATATAAATAGA-AATAATAATAAAAATAAAC
1 AAAATAGAAAAAGATAAAAATAA-AAAAATAAAC
*
49408201 AAAATGGAAAAAGATAAAAATAAAAAAATAAA
1 AAAATAGAAAAAGATAAAAATAAAAAAATAAA
49408233 AACAAGTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (33 bp):
AAAATAGAAAAAGATAAAAATAAAAAAATAAAC
Found at i:49409704 original size:16 final size:17
Alignment explanation
Indices: 49409673--49409705 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
49409663 TTATTTTTCT
49409673 ATTTTTTCTATAATTTA
1 ATTTTTTCTATAATTTA
*
49409690 ATTTTTT-TATTATTTA
1 ATTTTTTCTATAATTTA
49409706 TGAAATAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTTCTATAATTTA
Found at i:49422008 original size:16 final size:16
Alignment explanation
Indices: 49421984--49422042 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
49421974 ATTAGATAAG
*
49421984 TATTAAATATAACAAA
1 TATTTAATATAACAAA
*
49422000 TATTTAATAACAACAAA
1 TATTTAAT-ATAACAAA
49422017 T-TTTAATATAATTCAACA
1 TATTTAATATAA--CAA-A
49422035 TATTTAAT
1 TATTTAAT
49422043 CTTTAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 3 0.09
16 13 0.37
17 11 0.31
18 2 0.06
19 6 0.17
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (16 bp):
TATTTAATATAACAAA
Found at i:49422236 original size:18 final size:18
Alignment explanation
Indices: 49422210--49422244 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49422200 TAATAACGAA
*
49422210 AAGATCTAATTAAAATTT
1 AAGAACTAATTAAAATTT
*
49422228 AAGAACTAATTTAAATT
1 AAGAACTAATTAAAATT
49422245 GTAAATCATA
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:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
AAGAACTAATTAAAATTT
Found at i:49422931 original size:12 final size:11
Alignment explanation
Indices: 49422906--49422985 Score: 62
Period size: 11 Copynumber: 7.5 Consensus size: 11
49422896 ATTTTTAAAA
49422906 TTAAAAAT-TT
1 TTAAAAATATT
49422916 TTAAAAAGTATT
1 TTAAAAA-TATT
*
49422928 TTAAAAAAATT
1 TTAAAAATATT
49422939 TT--AAA-A-T
1 TTAAAAATATT
* *
49422946 TAAAAAATAAT
1 TTAAAAATATT
**
49422957 AAAAAAAGTATT
1 TTAAAAA-TATT
49422969 TTAAAAATATT
1 TTAAAAATATT
49422980 TTAAAA
1 TTAAAA
49422986 TTACAAAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.11
10 8 0.14
11 23 0.40
12 17 0.30
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:49422948 original size:39 final size:39
Alignment explanation
Indices: 49422898--49423003 Score: 140
Period size: 41 Copynumber: 2.6 Consensus size: 39
49422888 AAAATTTTAT
*
49422898 TTTTAAAATTAAAAATTTTTAAAAAGTATTTTAAAAAAA
1 TTTTAAAATTAAAAATTTTAAAAAAGTATTTTAAAAAAA
* * *
49422937 TTTTAAAATTAAAAAATAATAAAAAAAGTATTTTAAAAATA
1 TTTTAAAATT-AAAAAT-TTTAAAAAAGTATTTTAAAAAAA
*
49422978 TTTTAAAATTACAAAAATTTAAAAAA
1 TTTTAAAATTA-AAAATTTTAAAAAA
49423004 TAAATATATT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
39 10 0.18
40 14 0.25
41 33 0.58
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (39 bp):
TTTTAAAATTAAAAATTTTAAAAAAGTATTTTAAAAAAA
Found at i:49423723 original size:14 final size:15
Alignment explanation
Indices: 49423704--49423733 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
49423694 CTTTTTTCAA
49423704 ATTTTTAATT-ATTT
1 ATTTTTAATTGATTT
49423718 ATTTTTAATTGATTT
1 ATTTTTAATTGATTT
49423733 A
1 A
49423734 ATTAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTTTAATTGATTT
Found at i:49424565 original size:89 final size:88
Alignment explanation
Indices: 49424468--49424643 Score: 232
Period size: 90 Copynumber: 2.0 Consensus size: 88
49424458 CAATTAAACC
* * * *
49424468 CTTTTTTTT-GCACTTAATTGAGCAT-TTGAACTTTTAAAATGCATCAAAAAGGCCCTC-AAACT
1 CTTTTTTTTCGCACTCAATTG-G-ATATTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAAAT
49424530 TCTTCAAAAAAAGCAATTAAGCCCCTA
64 T-TTC-AAAAAAGCAATTAAGCCCCTA
* *
49424557 CTTTTTTTTCTCACTCAATTGGATACTTGAACTTTCAAAATGTATCAAAAAGACCCTCAAAAATT
1 CTTTTTTTTCGCACTCAATTGGATA-TTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAAATT
49424622 TTCAAAAAAGCAATTAAGCCCC
65 TTCAAAAAAGCAATTAAGCCCC
49424644 AGCTCTTATT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
88 2 0.03
89 29 0.38
90 41 0.53
91 5 0.06
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (88 bp):
CTTTTTTTTCGCACTCAATTGGATATTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAAATTT
TCAAAAAAGCAATTAAGCCCCTA
Found at i:49424706 original size:19 final size:19
Alignment explanation
Indices: 49424673--49424725 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
49424663 AAAAAAACAA
** *
49424673 TAAATTTTAGAAAAATTAT
1 TAAATTTTATTAAAATAAT
49424692 TAAATTTTATTAAAA-AAT
1 TAAATTTTATTAAAATAAT
*
49424710 TAAAATTTATTAAAAT
1 TAAATTTTATTAAAAT
49424726 GTAGCTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TAAATTTTATTAAAATAAT
Found at i:49424950 original size:20 final size:20
Alignment explanation
Indices: 49424925--49424981 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
49424915 TACAATAATT
49424925 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTACGAAA
* **
49424945 TTTAT-ATTTCTTTAC-ATT
1 TTTATAATTTTTTTACGAAA
*
49424963 TTGTATAATTTTCTTACGA
1 TT-TATAATTTTTTTACGA
49424982 CTTTATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 13 0.45
21 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATAATTTTTTTACGAAA
Found at i:49430143 original size:18 final size:18
Alignment explanation
Indices: 49430120--49430155 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
49430110 TACATAGTTG
49430120 GGATTAAGTTACAAAAAA
1 GGATTAAGTTACAAAAAA
*
49430138 GGATTAAGTTATAAAAAA
1 GGATTAAGTTACAAAAAA
49430156 CCTTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.17, T:0.25
Consensus pattern (18 bp):
GGATTAAGTTACAAAAAA
Found at i:49430532 original size:24 final size:23
Alignment explanation
Indices: 49430505--49430549 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
49430495 ATCATGCGAC
49430505 ATTT-AAAGTAAGGTAAGTAATAGT
1 ATTTGAAAGTAA-GTAAG-AATAGT
*
49430529 ATTTGAAATTAAGTAAGAATA
1 ATTTGAAAGTAAGTAAGAATA
49430550 TGTGTGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 9 0.47
25 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (23 bp):
ATTTGAAAGTAAGTAAGAATAGT
Found at i:49432375 original size:10 final size:10
Alignment explanation
Indices: 49432362--49432399 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
49432352 GTTATTAAAT
49432362 TTTTAAAAAA
1 TTTTAAAAAA
49432372 TTTT-AAAAA
1 TTTTAAAAAA
*
49432381 TTTTAAAATAT
1 TTTTAAAA-AA
49432392 TTTTAAAA
1 TTTTAAAA
49432400 CATTAATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 9 0.36
10 7 0.28
11 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:49443689 original size:17 final size:18
Alignment explanation
Indices: 49443669--49443706 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49443659 AATATATGTA
49443669 TATATAC-TTGTT-TTTTT
1 TATATACGTT-TTATTTTT
49443686 TATATACGTTTTATTTTT
1 TATATACGTTTTATTTTT
49443704 TAT
1 TAT
49443707 TTTCATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (18 bp):
TATATACGTTTTATTTTT
Found at i:49447909 original size:1 final size:1
Alignment explanation
Indices: 49447905--49447931 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
49447895 CCCCCCCCCC
49447905 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
49447932 GGGGAAGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:49455746 original size:26 final size:25
Alignment explanation
Indices: 49455696--49455750 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
49455686 TATATTAAAA
* *
49455696 ATTTTAAAATATTTTATCATCATTG
1 ATTTTAAAATAATTTATCATAATTG
49455721 ATTTTATAAATAATTTA-CAATAATTG
1 ATTTTA-AAATAATTTATC-ATAATTG
49455747 -TTTT
1 ATTTT
49455751 GTATACACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (25 bp):
ATTTTAAAATAATTTATCATAATTG
Found at i:49464188 original size:23 final size:23
Alignment explanation
Indices: 49464144--49464188 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
49464134 GATTCGGGAA
*
49464144 AAAAAATAATATTTTATTTAAAC
1 AAAAAATAATATTTTATATAAAC
*
49464167 AAAAAAT-ATTTTTTAATATAAA
1 AAAAAATAATATTTT-ATATAAA
49464189 AAATTGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAAAATAATATTTTATATAAAC
Found at i:49465693 original size:30 final size:30
Alignment explanation
Indices: 49465657--49465726 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
49465647 AATTTAAAGA
49465657 GTTAATTTGTGGAATTACTCAAAAGAATCT
1 GTTAATTTGTGGAATTACTCAAAAGAATCT
49465687 GTTAATTTGTGGAATTACTCAAAAGAATCT
1 GTTAATTTGTGGAATTACTCAAAAGAATCT
49465717 GTTGAATTTG
1 GTT-AATTTG
49465727 ATAGTAATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
30 33 0.85
31 6 0.15
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (30 bp):
GTTAATTTGTGGAATTACTCAAAAGAATCT
Found at i:49471352 original size:33 final size:33
Alignment explanation
Indices: 49471301--49471373 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
49471291 TCCTTGCCGC
49471301 CTCCACCTCCAAAAACCATGCAGACTCCACCAG
1 CTCCACCTCCAAAAACCATGCAGACTCCACCAG
* * * *
49471334 CTCCGCCTTCAAAAACCATGCTGCCTCCACC-G
1 CTCCACCTCCAAAAACCATGCAGACTCCACCAG
49471366 CCTCCACC
1 -CTCCACC
49471374 CAAGTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 1 0.03
33 33 0.97
ACGTcount: A:0.26, C:0.49, G:0.10, T:0.15
Consensus pattern (33 bp):
CTCCACCTCCAAAAACCATGCAGACTCCACCAG
Found at i:49473904 original size:3 final size:3
Alignment explanation
Indices: 49473891--49473921 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
49473881 CTGTTCTCCA
49473891 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
49473922 ACTGTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:49475647 original size:23 final size:22
Alignment explanation
Indices: 49475620--49475679 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
49475610 ATTTATAGAA
* *
49475620 TTTTATCCTTTTTGCCCCTATAT
1 TTTTA-CCATTTTGCCCCTACAT
*
49475643 TTTTACCATTTTGTCCCTACAT
1 TTTTACCATTTTGCCCCTACAT
* *
49475665 TTCTACCGTTTTGCC
1 TTTTACCATTTTGCC
49475680 TTTTGGAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.13, C:0.28, G:0.07, T:0.52
Consensus pattern (22 bp):
TTTTACCATTTTGCCCCTACAT
Found at i:49479354 original size:21 final size:22
Alignment explanation
Indices: 49479328--49479372 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
49479318 ATGTGTGATT
*
49479328 GTATAAAT-AAACTTTAATT-TG
1 GTAT-AATGAAACCTTAATTGTG
49479349 GTATAATGAAACCTTAATTGTG
1 GTATAATGAAACCTTAATTGTG
49479371 GT
1 GT
49479373 TCAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 14 0.67
22 4 0.19
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.40
Consensus pattern (22 bp):
GTATAATGAAACCTTAATTGTG
Found at i:49480986 original size:19 final size:18
Alignment explanation
Indices: 49480945--49480988 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
49480935 CATTTCACGC
49480945 GAAAAACCCTCAAAGAGG
1 GAAAAACCCTCAAAGAGG
49480963 GAAAAACCCTCAAAGAGG
1 GAAAAACCCTCAAAGAGG
49480981 GAAAAACC
1 GAAAAACC
49480989 ATGGGTAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.52, C:0.23, G:0.20, T:0.05
Consensus pattern (18 bp):
GAAAAACCCTCAAAGAGG
Found at i:49482133 original size:30 final size:28
Alignment explanation
Indices: 49482099--49482163 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
49482089 TTATTTTTTC
49482099 ATATTTAAATATATGAAATATAAATT-TTAA
1 ATATTTAAATA-AT-AAATATAAATTATT-A
*
49482129 ATATTTTTAAATAATAAATATTAATTATTA
1 ATA--TTTAAATAATAAATATAAATTATTA
49482159 ATATT
1 ATATT
49482164 AATAGGCCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
28 2 0.06
30 17 0.55
31 4 0.13
32 8 0.26
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
ATATTTAAATAATAAATATAAATTATTA
Found at i:49483034 original size:24 final size:24
Alignment explanation
Indices: 49483002--49483052 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
49482992 GTTCGGCTCG
49483002 AAGAAGAAAAAGAGAAAG-AAAAGA
1 AAGAAGAAAAAGA-AAAGAAAAAGA
49483026 AAGAAGAAAAAGAAAAGACAAAAGA
1 AAGAAGAAAAAGAAAAGA-AAAAGA
49483051 AA
1 AA
49483053 AAATTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.16
24 13 0.52
25 8 0.32
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (24 bp):
AAGAAGAAAAAGAAAAGAAAAAGA
Found at i:49483037 original size:18 final size:17
Alignment explanation
Indices: 49483005--49483054 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 17
49482995 CGGCTCGAAG
*
49483005 AAGAAAAAGAGAAAGAA
1 AAGAAAAAGAAAAAGAA
49483022 AAGAAAGAAGAAAAAGAA
1 AAGAAA-AAGAAAAAGAA
49483040 AAGACAAAAGAAAAA
1 AAGA-AAAAGAAAAA
49483055 ATTATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 6 0.20
18 22 0.73
19 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAAAAAGAA
Found at i:49483048 original size:7 final size:6
Alignment explanation
Indices: 49483005--49483054 Score: 59
Period size: 6 Copynumber: 8.3 Consensus size: 6
49482995 CGGCTCGAAG
*
49483005 AAGAAA AAGAGA AAG-AA AAGAAA GAAGAAA AAG-AA AAGACAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA -AAGAAA AAGAAA AAGA-AA AAGAAA
49483053 AA
1 AA
49483055 ATTATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 9 0.24
6 17 0.45
7 12 0.32
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:49483972 original size:37 final size:36
Alignment explanation
Indices: 49483916--49484049 Score: 105
Period size: 37 Copynumber: 3.6 Consensus size: 36
49483906 TGTGTTTTCA
* *
49483916 AAAAAAATTCCCGTCTTTCAAAATTTTCATGTTTTTTTT
1 AAAAAAATT--CGTGTTTCAAAAATTTC-TGTTTTTTTT
* * *
49483955 TAAAAAATTCGTGTTTCAAAACTTTC-G--TATTTT
1 AAAAAAATTCGTGTTTCAAAAATTTCTGTTTTTTTT
* *
49483988 CAAAAAATTCTAGTGTTTAAAAAATTT-TGTTTTTTTT
1 AAAAAAATTC--GTGTTTCAAAAATTTCTGTTTTTTTT
49484025 AAAAAAAAATTCGTGTTTTCAAAAA
1 --AAAAAAATTCGTG-TTTCAAAAA
49484050 GTTTTCTTGT
Statistics
Matches: 77, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
33 14 0.18
35 15 0.19
37 23 0.30
38 8 0.10
39 17 0.22
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.45
Consensus pattern (36 bp):
AAAAAAATTCGTGTTTCAAAAATTTCTGTTTTTTTT
Found at i:49484029 original size:35 final size:33
Alignment explanation
Indices: 49483948--49484029 Score: 83
Period size: 35 Copynumber: 2.4 Consensus size: 33
49483938 ATTTTCATGT
* *
49483948 TTTTTTTTAAAAAATTCGTGTTTCAAAACTTTCG
1 TTTTTTTT-AAAAATTCGTGTTTAAAAAATTTCG
* ** *
49483982 TATTTTCAAAAAATTCTAGTGTTTAAAAAATTTTG
1 TTTTTTTTAAAAATTC--GTGTTTAAAAAATTTCG
49484017 TTTTTTTTAAAAA
1 TTTTTTTTAAAAA
49484030 AAAATTCGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
33 8 0.22
34 5 0.14
35 24 0.65
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (33 bp):
TTTTTTTTAAAAATTCGTGTTTAAAAAATTTCG
Found at i:49484048 original size:18 final size:18
Alignment explanation
Indices: 49483951--49484097 Score: 99
Period size: 18 Copynumber: 8.2 Consensus size: 18
49483941 TTCATGTTTT
*
49483951 TTTTTAAAAAA-TTCGTG
1 TTTTCAAAAAATTTCGTG
* *
49483968 -TTTC-AAAACTTTCGTA
1 TTTTCAAAAAATTTCGTG
*
49483984 TTTTCAAAAAATTCTAGTG
1 TTTTCAAAAAATT-TCGTG
* *
49484003 -TTT-AAAAAATTTTGTTTT
1 TTTTCAAAAAATTTCG--TG
* *
49484021 TTTTAAAAAAAAATTCGTG
1 TTTT-CAAAAAATTTCGTG
* *
49484040 TTTTCAAAAAGTTTTCTTG
1 TTTTCAAAAA-ATTTCGTG
*
49484059 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAAATTTCGTG
49484076 TTTTCAAAAAATTCTCGTG
1 TTTTCAAAAAATT-TCGTG
49484095 TTT
1 TTT
49484098 CAATCAGATC
Statistics
Matches: 101, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
15 4 0.04
16 10 0.10
17 19 0.19
18 35 0.35
19 24 0.24
21 9 0.09
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (18 bp):
TTTTCAAAAAATTTCGTG
Found at i:49484085 original size:56 final size:56
Alignment explanation
Indices: 49483978--49484086 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 56
49483968 TTTCAAAACT
* *
49483978 TTCGTATTTTCAAAAAATTCTAGTGTTTAAAAAATTTTGTTTTTTTTAAAAAAAAA
1 TTCGTATTTTCAAAAAATTCTAGTGTTTAAAAAATTTTGTTGTTTTCAAAAAAAAA
* * * ** *
49484034 TTCGTGTTTTCAAAAAGTTTTCTTGTTTCAAAAATTTTCG-TGTTTTCAAAAAA
1 TTCGTATTTTCAAAAAATTCTAGTGTTTAAAAAATTTT-GTTGTTTTCAAAAAA
49484087 TTCTCGTGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
56 43 0.98
57 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (56 bp):
TTCGTATTTTCAAAAAATTCTAGTGTTTAAAAAATTTTGTTGTTTTCAAAAAAAAA
Found at i:49484086 original size:19 final size:19
Alignment explanation
Indices: 49483972--49484097 Score: 100
Period size: 19 Copynumber: 6.8 Consensus size: 19
49483962 TTCGTGTTTC
* *
49483972 AAAACTTTCGTATTTTCAA
1 AAAATTTTCGTGTTTTCAA
* *
49483991 AAAATTCTAGTG-TTT-AA
1 AAAATTTTCGTGTTTTCAA
* *
49484008 AAAATTTT-GTTTTTTTTAAA
1 AAAATTTTCG--TGTTTTCAA
**
49484028 AAAAAATTCGTGTTTTCAA
1 AAAATTTTCGTGTTTTCAA
* *
49484047 AAAGTTTTCTTG-TTTC-A
1 AAAATTTTCGTGTTTTCAA
49484064 AAAATTTTCGTGTTTTCAA
1 AAAATTTTCGTGTTTTCAA
*
49484083 AAAATTCTCGTGTTT
1 AAAATTTTCGTGTTT
49484098 CAATCAGATC
Statistics
Matches: 83, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
16 1 0.01
17 20 0.24
18 12 0.14
19 41 0.49
20 8 0.10
21 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.47
Consensus pattern (19 bp):
AAAATTTTCGTGTTTTCAA
Found at i:49488458 original size:82 final size:82
Alignment explanation
Indices: 49488321--49488471 Score: 268
Period size: 82 Copynumber: 1.8 Consensus size: 82
49488311 TTCAGAAGTA
*
49488321 AGAAAATGCTTTTGAATCTTTGGAAAAAACAGTTTTAAAGTCAAGTCACATTTTTAACCATTATT
1 AGAAAATGCTTTTGAATCCTTGGAAAAAACAGTTTTAAAGTCAAGTCACATTTTTAACCATTATT
49488386 TATAATTTAATGTGTTT
66 TATAATTTAATGTGTTT
*
49488403 AGAAAATGCTTTTGAATCCTTGGAAAAAACA-TATTTAAAGTCAAGTGACATTTTTAACCATTAT
1 AGAAAATGCTTTTGAATCCTTGGAAAAAACAGT-TTTAAAGTCAAGTCACATTTTTAACCATTAT
49488467 TTATA
65 TTATA
49488472 TATAATTTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
81 1 0.02
82 65 0.98
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (82 bp):
AGAAAATGCTTTTGAATCCTTGGAAAAAACAGTTTTAAAGTCAAGTCACATTTTTAACCATTATT
TATAATTTAATGTGTTT
Found at i:49488625 original size:20 final size:20
Alignment explanation
Indices: 49488579--49488626 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
49488569 TTTTATATAT
*
49488579 TTTTATGATATTTAAAATATA
1 TTTTAT-ATATTTAAAATAAA
** *
49488600 GATTATATATTTAAATTAAA
1 TTTTATATATTTAAAATAAA
49488620 TTTTATA
1 TTTTATA
49488627 AATAATTAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTTATATATTTAAAATAAA
Found at i:49488626 original size:18 final size:20
Alignment explanation
Indices: 49488581--49488626 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
49488571 TTATATATTT
*
49488581 TTATGATATTTAAAATATAGA
1 TTAT-ATATTTAAAATATAAA
49488602 TTATATATTT-AAAT-TAAA
1 TTATATATTTAAAATATAAA
*
49488620 TTTTATA
1 TTATATA
49488627 AATAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 6 0.26
21 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (20 bp):
TTATATATTTAAAATATAAA
Found at i:49491419 original size:19 final size:20
Alignment explanation
Indices: 49491395--49491435 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
49491385 TTTTTTTAAC
*
49491395 TTTAAAAGAGAAATAA-AAT
1 TTTAAAAAAGAAATAATAAT
*
49491414 TTTAAAAAATAAATAATAAT
1 TTTAAAAAAGAAATAATAAT
49491434 TT
1 TT
49491436 CTCAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
TTTAAAAAAGAAATAATAAT
Found at i:49499391 original size:37 final size:36
Alignment explanation
Indices: 49499335--49499468 Score: 105
Period size: 37 Copynumber: 3.6 Consensus size: 36
49499325 TGTGTTTTCA
* *
49499335 AAAAAAATTCCCGTCTTTCAAAATTTTCATGTTTTTTTT
1 AAAAAAATT--CGTGTTTCAAAAATTTC-TGTTTTTTTT
* * *
49499374 TAAAAAATTCGTGTTTCAAAACTTTC-G--TATTTT
1 AAAAAAATTCGTGTTTCAAAAATTTCTGTTTTTTTT
* *
49499407 CAAAAAATTCTAGTGTTTAAAAAATTT-TGTTTTTTTT
1 AAAAAAATTC--GTGTTTCAAAAATTTCTGTTTTTTTT
49499444 AAAAAAAAATTCGTGTTTTCAAAAA
1 --AAAAAAATTCGTG-TTTCAAAAA
49499469 GTTTTCTTGT
Statistics
Matches: 77, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
33 14 0.18
35 15 0.19
37 23 0.30
38 8 0.10
39 17 0.22
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.45
Consensus pattern (36 bp):
AAAAAAATTCGTGTTTCAAAAATTTCTGTTTTTTTT
Found at i:49499448 original size:35 final size:33
Alignment explanation
Indices: 49499367--49499448 Score: 83
Period size: 35 Copynumber: 2.4 Consensus size: 33
49499357 ATTTTCATGT
* *
49499367 TTTTTTTTAAAAAATTCGTGTTTCAAAACTTTCG
1 TTTTTTTT-AAAAATTCGTGTTTAAAAAATTTCG
* ** *
49499401 TATTTTCAAAAAATTCTAGTGTTTAAAAAATTTTG
1 TTTTTTTTAAAAATTC--GTGTTTAAAAAATTTCG
49499436 TTTTTTTTAAAAA
1 TTTTTTTTAAAAA
49499449 AAAATTCGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
33 8 0.22
34 5 0.14
35 24 0.65
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (33 bp):
TTTTTTTTAAAAATTCGTGTTTAAAAAATTTCG
Found at i:49499467 original size:18 final size:18
Alignment explanation
Indices: 49499370--49499516 Score: 99
Period size: 18 Copynumber: 8.2 Consensus size: 18
49499360 TTCATGTTTT
*
49499370 TTTTTAAAAAA-TTCGTG
1 TTTTCAAAAAATTTCGTG
* *
49499387 -TTTC-AAAACTTTCGTA
1 TTTTCAAAAAATTTCGTG
*
49499403 TTTTCAAAAAATTCTAGTG
1 TTTTCAAAAAATT-TCGTG
* *
49499422 -TTT-AAAAAATTTTGTTTT
1 TTTTCAAAAAATTTCG--TG
* *
49499440 TTTTAAAAAAAAATTCGTG
1 TTTT-CAAAAAATTTCGTG
* *
49499459 TTTTCAAAAAGTTTTCTTG
1 TTTTCAAAAA-ATTTCGTG
*
49499478 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAAATTTCGTG
49499495 TTTTCAAAAAATTCTCGTG
1 TTTTCAAAAAATT-TCGTG
49499514 TTT
1 TTT
49499517 CAATCAGATC
Statistics
Matches: 101, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
15 4 0.04
16 10 0.10
17 19 0.19
18 35 0.35
19 24 0.24
21 9 0.09
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (18 bp):
TTTTCAAAAAATTTCGTG
Found at i:49499504 original size:56 final size:56
Alignment explanation
Indices: 49499397--49499505 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 56
49499387 TTTCAAAACT
* *
49499397 TTCGTATTTTCAAAAAATTCTAGTGTTTAAAAAATTTTGTTTTTTTTAAAAAAAAA
1 TTCGTATTTTCAAAAAATTCTAGTGTTTAAAAAATTTTGTTGTTTTCAAAAAAAAA
* * * ** *
49499453 TTCGTGTTTTCAAAAAGTTTTCTTGTTTCAAAAATTTTCG-TGTTTTCAAAAAA
1 TTCGTATTTTCAAAAAATTCTAGTGTTTAAAAAATTTT-GTTGTTTTCAAAAAA
49499506 TTCTCGTGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
56 43 0.98
57 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (56 bp):
TTCGTATTTTCAAAAAATTCTAGTGTTTAAAAAATTTTGTTGTTTTCAAAAAAAAA
Found at i:49499505 original size:19 final size:19
Alignment explanation
Indices: 49499391--49499516 Score: 100
Period size: 19 Copynumber: 6.8 Consensus size: 19
49499381 TTCGTGTTTC
* *
49499391 AAAACTTTCGTATTTTCAA
1 AAAATTTTCGTGTTTTCAA
* *
49499410 AAAATTCTAGTG-TTT-AA
1 AAAATTTTCGTGTTTTCAA
* *
49499427 AAAATTTT-GTTTTTTTTAAA
1 AAAATTTTCG--TGTTTTCAA
**
49499447 AAAAAATTCGTGTTTTCAA
1 AAAATTTTCGTGTTTTCAA
* *
49499466 AAAGTTTTCTTG-TTTC-A
1 AAAATTTTCGTGTTTTCAA
49499483 AAAATTTTCGTGTTTTCAA
1 AAAATTTTCGTGTTTTCAA
*
49499502 AAAATTCTCGTGTTT
1 AAAATTTTCGTGTTT
49499517 CAATCAGATC
Statistics
Matches: 83, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
16 1 0.01
17 20 0.24
18 12 0.14
19 41 0.49
20 8 0.10
21 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.47
Consensus pattern (19 bp):
AAAATTTTCGTGTTTTCAA
Found at i:49501609 original size:20 final size:18
Alignment explanation
Indices: 49501566--49501611 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
49501556 ATTGCATGTG
49501566 AAAATAATAATAAAATAA
1 AAAATAATAATAAAATAA
*
49501584 ATAAATAATACATTAAATTAA
1 A-AAATAATA-A-TAAAATAA
49501605 AAAATAA
1 AAAATAA
49501612 CTCTTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.04
19 8 0.33
20 7 0.29
21 8 0.33
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATAATAATAAAATAA
Found at i:49503079 original size:19 final size:20
Alignment explanation
Indices: 49503055--49503095 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
49503045 CTTTTTTTTC
*
49503055 TTTAAAAGATAAATAA-AAT
1 TTTAAAAAATAAATAATAAT
49503074 TTTAAAAAATAAATAATAAT
1 TTTAAAAAATAAATAATAAT
49503094 TT
1 TT
49503096 CTCAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TTTAAAAAATAAATAATAAT
Found at i:49507619 original size:16 final size:16
Alignment explanation
Indices: 49507594--49507626 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49507584 TTCGCTGTAT
*
49507594 TGGAATAGAGGCGTAA
1 TGGAACAGAGGCGTAA
49507610 TGGAACAGAGGCGTAA
1 TGGAACAGAGGCGTAA
49507626 T
1 T
49507627 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.09, G:0.36, T:0.18
Consensus pattern (16 bp):
TGGAACAGAGGCGTAA
Found at i:49524455 original size:27 final size:27
Alignment explanation
Indices: 49524417--49524469 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
49524407 ACTTTAGTGA
49524417 TGCCAATGAGAAAGGCACCATTGGTGG
1 TGCCAATGAGAAAGGCACCATTGGTGG
*
49524444 TGCCAATGAGAATGGCACCATTGGTG
1 TGCCAATGAGAAAGGCACCATTGGTG
49524470 CCGCCATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (27 bp):
TGCCAATGAGAAAGGCACCATTGGTGG
Found at i:49524475 original size:27 final size:27
Alignment explanation
Indices: 49524418--49524475 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
49524408 CTTTAGTGAT
**
49524418 GCCAATGAGAAAGGCACCATTGGTGGT
1 GCCAATGAGAAAGGCACCATTGGTGCC
*
49524445 GCCAATGAGAATGGCACCATTGGTGCC
1 GCCAATGAGAAAGGCACCATTGGTGCC
49524472 GCCA
1 GCCA
49524476 TTCTCTTCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.24, G:0.31, T:0.17
Consensus pattern (27 bp):
GCCAATGAGAAAGGCACCATTGGTGCC
Found at i:49527929 original size:135 final size:136
Alignment explanation
Indices: 49527678--49527955 Score: 524
Period size: 135 Copynumber: 2.1 Consensus size: 136
49527668 TTGCAACAGA
49527678 TTTATTTCTTTGTTTTGTATTTTTATTATGGCTATAAAAAGCCATTGAGATAACTCTATGAAGAG
1 TTTATTTCTTTGTTTTGTATTTTTATTATGGCTATAAAAAGCCATTGAGATAACTCTATGAAGAG
49527743 GGTGAAGGGGATACAAAGAAAAAGAGAGAAAACAGATACAATAATTTTTTGAACACAAAGGTTTC
66 GGTGAAGGGGATACAAAGAAAAAGAGAGAAAACAGATACAATAATTTTTTGAACACAAAGGTTTC
49527808 TTTTTT
131 TTTTTT
49527814 TTTATTTC-TTGTTTTGTATTTTTATTATGGCTATAAAAAGCCATTGAGAT-ACTCTATGAAAGA
1 TTTATTTCTTTGTTTTGTATTTTTATTATGGCTATAAAAAGCCATTGAGATAACTCTATG-AAGA
*
49527877 GGGTGAAGGGGATACAAAGAAAAAGAGGGAAAACAGATACAATAATTTTTTGAACACAAAGGTTT
65 GGGTGAAGGGGATACAAAGAAAAAGAGAGAAAACAGATACAATAATTTTTTGAACACAAAGGTTT
49527942 CTTTTTT
130 CTTTTTT
49527949 TTTATTT
1 TTTATTT
49527956 TCGTTCTACA
Statistics
Matches: 140, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
134 8 0.06
135 124 0.89
136 8 0.06
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (136 bp):
TTTATTTCTTTGTTTTGTATTTTTATTATGGCTATAAAAAGCCATTGAGATAACTCTATGAAGAG
GGTGAAGGGGATACAAAGAAAAAGAGAGAAAACAGATACAATAATTTTTTGAACACAAAGGTTTC
TTTTTT
Found at i:49543781 original size:13 final size:14
Alignment explanation
Indices: 49543747--49543783 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
49543737 TGCTTTCATA
49543747 TATATTCATTTCGTT
1 TATATT-ATTTCGTT
49543762 TAT-TTATTT-GTT
1 TATATTATTTCGTT
49543774 TATATTATTT
1 TATATTATTT
49543784 TTATGCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:49543814 original size:15 final size:15
Alignment explanation
Indices: 49543790--49543823 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
49543780 ATTTTTATGC
49543790 TATTGATGTATTTAT
1 TATTGATGTATTTAT
*
49543805 TATTGTTGTATTTAT
1 TATTGATGTATTTAT
49543820 TATT
1 TATT
49543824 ATAGCATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (15 bp):
TATTGATGTATTTAT
Found at i:49550238 original size:14 final size:13
Alignment explanation
Indices: 49550214--49550252 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
49550204 CTTAAAAATT
49550214 ATAAAAAATAAAA
1 ATAAAAAATAAAA
49550227 ATAAAAATATAAAA
1 ATAAAAA-ATAAAA
49550241 ATCCAAAAAATA
1 AT--AAAAAATA
49550253 CATATAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 3 0.13
16 5 0.22
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:49558481 original size:26 final size:28
Alignment explanation
Indices: 49558438--49558497 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
49558428 TCATTTTCTT
*
49558438 AAAA-ATATTAATAATTATTTTCATAAA-
1 AAAATATATTAAT-ATTATATTCATAAAG
*
49558465 AAAATATATTAAT-TTATATTCCTAAAG
1 AAAATATATTAATATTATATTCATAAAG
49558492 AAAATA
1 AAAATA
49558498 GATTTTGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 11 0.38
27 10 0.34
28 8 0.28
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (28 bp):
AAAATATATTAATATTATATTCATAAAG
Found at i:49569604 original size:19 final size:17
Alignment explanation
Indices: 49569576--49569632 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
49569566 TTGATGGCTC
*
49569576 ATATTATTAAATAATAA
1 ATATTTTTAAATAATAA
*
49569593 ATTTATTTTTAAATGTAACAA
1 A--TATTTTTAAA--TAATAA
49569614 ATATTATTTAAATAATAA
1 ATATT-TTTAAATAATAA
49569632 A
1 A
49569633 AGCAGACTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
17 1 0.03
18 6 0.19
19 13 0.41
20 6 0.19
21 6 0.19
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
ATATTTTTAAATAATAA
Found at i:49587031 original size:2 final size:2
Alignment explanation
Indices: 49587013--49587047 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
49587003 TCGATTGAGA
*
49587013 AT AT AA AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49587048 TTACGTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:49596221 original size:4 final size:4
Alignment explanation
Indices: 49596212--49596237 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
49596202 ACTATAAATC
49596212 TTGT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TT
49596238 CCCAGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTGT
Found at i:49598650 original size:17 final size:17
Alignment explanation
Indices: 49598613--49598652 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
49598603 AAAAAAATTG
* *
49598613 AAAAAT-GAAAAATTAT
1 AAAAATAGAAAAATAAA
49598629 AAAAATAGAAAAATAAA
1 AAAAATAGAAAAATAAA
49598646 AAAAATA
1 AAAAATA
49598653 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAAATAGAAAAATAAA
Found at i:49614374 original size:21 final size:20
Alignment explanation
Indices: 49614347--49614395 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
49614337 AATAGAAGTT
*
49614347 ATGAATGACAGGAAATTGTC
1 ATGAATGACAGGAAATTGAC
* *
49614367 AGTGAATGATAGGGAATTGAC
1 A-TGAATGACAGGAAATTGAC
49614388 ATGAATGA
1 ATGAATGA
49614396 TTTTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (20 bp):
ATGAATGACAGGAAATTGAC
Found at i:49616698 original size:114 final size:114
Alignment explanation
Indices: 49616577--49616798 Score: 444
Period size: 114 Copynumber: 1.9 Consensus size: 114
49616567 TCATATATAC
49616577 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
49616642 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
49616691 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
49616756 TCAATTATAGCTCATCAAATATACAATAGATATACATATATAT
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATAT
49616799 NNNNNNNNNN
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 108 1.00
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.41
Consensus pattern (114 bp):
ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
Found at i:49617958 original size:13 final size:13
Alignment explanation
Indices: 49617940--49617964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49617930 CAATCAAATG
49617940 CACACAAAATAAA
1 CACACAAAATAAA
49617953 CACACAAAATAA
1 CACACAAAATAA
49617965 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:49618254 original size:26 final size:26
Alignment explanation
Indices: 49618224--49618286 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
49618214 TCAACTCTTA
* *
49618224 TGAGCATCTC-ATTATATGGCTCTTCG
1 TGAGCATCCCGATTA-AAGGCTCTTCG
* *
49618250 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCATCCCGATTAAAGGCTCTTCG
*
49618276 TGAGCTTCCCG
1 TGAGCATCCCG
49618287 TTAGTCCTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
TGAGCATCCCGATTAAAGGCTCTTCG
Found at i:49618364 original size:24 final size:24
Alignment explanation
Indices: 49618332--49618380 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
49618322 CTGGTACTTG
49618332 CCGTTAATTGCTCTTCGGAGCTAC
1 CCGTTAATTGCTCTTCGGAGCTAC
*
49618356 CCGTTAATTGCTCTTTGGAGCTAC
1 CCGTTAATTGCTCTTCGGAGCTAC
49618380 C
1 C
49618381 TATTATAGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.20, T:0.35
Consensus pattern (24 bp):
CCGTTAATTGCTCTTCGGAGCTAC
Found at i:49620445 original size:24 final size:24
Alignment explanation
Indices: 49620412--49620465 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
49620402 TTAGTAGGTC
*
49620412 AAATAAATTATGCTAATAAATACT
1 AAATATATTATGCTAATAAATACT
49620436 AAATATATTATGCTAATAAATACT
1 AAATATATTATGCTAATAAATACT
49620460 AAATAT
1 AAATAT
49620466 TCTAGAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATACT
Found at i:49622406 original size:24 final size:24
Alignment explanation
Indices: 49622378--49622429 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
49622368 TTAGTAGGTC
* * *
49622378 AAATAAACTATGCTAATCAATGCT
1 AAATAAACTATACTAATAAATACT
* *
49622402 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
49622426 AAAT
1 AAAT
49622430 CTTCTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:49625221 original size:17 final size:17
Alignment explanation
Indices: 49625177--49625223 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
49625167 CTCATATTAT
49625177 TTTTA-ATATTTTAAAAA
1 TTTTATATA-TTTAAAAA
*
49625194 TATTTAT-TATTTAATAA
1 T-TTTATATATTTAAAAA
49625211 TTTTATATATTTA
1 TTTTATATATTTA
49625224 CATTTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTATATATTTAAAAA
Found at i:49631730 original size:30 final size:30
Alignment explanation
Indices: 49631694--49631771 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
49631684 TTATTGTACT
49631694 AAAAAAATTACACTAGGTTCAATTTCTAAG
1 AAAAAAATTACACTAGGTTCAATTTCTAAG
*
49631724 AAAAAAATTACACTAGGTTCGATTTCTAAG
1 AAAAAAATTACACTAGGTTCAATTTCTAAG
49631754 AAAAAAA--ACACTAGGTTC
1 AAAAAAATTACACTAGGTTC
49631772 GAATCTCCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 11 0.23
30 36 0.77
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (30 bp):
AAAAAAATTACACTAGGTTCAATTTCTAAG
Found at i:49639612 original size:27 final size:27
Alignment explanation
Indices: 49639576--49639644 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
49639566 AAATAAAAAA
*
49639576 TTACCAAAATGT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTAT
49639603 TTACCAAAATATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
49639630 TTACCAAAATATATA
1 TTACCAAAATATATA
49639645 AAAATAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 35 0.88
28 5 0.12
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:49639758 original size:27 final size:27
Alignment explanation
Indices: 49639728--49639794 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
49639718 AGGGAAGCAG
49639728 ATTGGCGGCACCAAACAAGGGATCCCT
1 ATTGGCGGCACCAAACAAGGGATCCCT
****
49639755 ATTGGCGGCACCAGTGGAGGGATCCCT
1 ATTGGCGGCACCAAACAAGGGATCCCT
*
49639782 GTTGGCGGCACCA
1 ATTGGCGGCACCA
49639795 CCCTTGAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAACAAGGGATCCCT
Found at i:49639900 original size:38 final size:37
Alignment explanation
Indices: 49639852--49640018 Score: 148
Period size: 38 Copynumber: 4.5 Consensus size: 37
49639842 GAAGAAGAAA
*
49639852 GAAAGGAAGAAAGAAAAAGAAGGAAAAGGAAAGGAGAG
1 GAAAGAAAGAAAGAAAAAGAA-GAAAAGGAAAGGAGAG
* *
49639890 GAAAGAAAGAAA-AAGAAGGATAGAAAAGGAAAGGGGAG
1 GAAAGAAAGAAAGAA-AAAGA-AGAAAAGGAAAGGAGAG
* *
49639928 GAAAGAAAGAAA-AATAAGGAAAGAAAAGGAAATGAGAAG
1 GAAAGAAAGAAAGAA-AAAG-AAGAAAAGGAAAGGAG-AG
* * *
49639967 AGAAAAAAAG-AAGAAAGAAGAAGAAGAGGGAAGGA-AG
1 -GAAAGAAAGAAAGAAA-AAGAAGAAAAGGAAAGGAGAG
49640004 GAAA-AAA-AAAGAAAA
1 GAAAGAAAGAAAGAAAA
49640019 TAATGTAATT
Statistics
Matches: 110, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
34 1 0.01
35 9 0.08
36 4 0.04
37 4 0.04
38 61 0.55
39 19 0.17
40 12 0.11
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (37 bp):
GAAAGAAAGAAAGAAAAAGAAGAAAAGGAAAGGAGAG
Found at i:49639941 original size:72 final size:72
Alignment explanation
Indices: 49639862--49640016 Score: 174
Period size: 72 Copynumber: 2.2 Consensus size: 72
49639852 GAAAGGAAGA
* * *
49639862 AAGAAAAAGAAGGAAAAGGAAAGGAGAGGA-AAGA-AAGAAAAAGAAGGATAGAA-AAGGAA-AG
1 AAGAAAAAGAAGG-AAAGAAAAGGAAAGGAGAAGAGAA-AAAAAGAA-GAAAGAAGAA-GAAGAG
*
49639923 GGGAGGAAAGA
62 GGAAGGAAAGA
* *
49639934 AAGAAAAATAAGGAAAGAAAAGGAAATGAGAAGAGAAAAAAAGAAGAAAGAAGAAGAAGAGGGAA
1 AAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAGAAAGAAGAAGAAGAGGGAA
*
49639999 GGAAGGA
66 GGAAAGA
*
49640006 AAAAAAAAGAA
1 AAGAAAAAGAA
49640017 AATAATGTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
71 22 0.31
72 46 0.66
73 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (72 bp):
AAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAGAAAGAAGAAGAAGAGGGAA
GGAAAGA
Done.