Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001836.1 Hibiscus syriacus cultivar Beakdansim tig00003715_pilon, whole genome shotgun sequence
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: 2428596
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 12
Found at i:1315522 original size:22 final size:22
Alignment explanation
Indices: 1315494--1315537 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1315484 CACTCTCTCA
1315494 CCCATCTCCAACGAAATCCGTC
1 CCCATCTCCAACGAAATCCGTC
**
1315516 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCAACGAAATCCGTC
1315538 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCAACGAAATCCGTC
Found at i:1315849 original size:20 final size:20
Alignment explanation
Indices: 1315800--1315858 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1315790 TTTATTCTCT
* **
1315800 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
1315820 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
1315840 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
1315859 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:1316049 original size:25 final size:24
Alignment explanation
Indices: 1315995--1316049 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1315985 TGTTTATTAT
* *
1315995 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1316019 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1316045 TGTTT
1 TGTTT
1316050 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:1317201 original size:18 final size:18
Alignment explanation
Indices: 1317175--1317222 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
1317165 TCCACTTCGG
1317175 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
1317193 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1317211 GAGCCATCACCT
1 GAGCCATCACCT
1317223 GATCAACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1318707 original size:19 final size:19
Alignment explanation
Indices: 1318683--1318721 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1318673 CACTTCTCCA
1318683 ATTTATCATTTTAAAACAC
1 ATTTATCATTTTAAAACAC
1318702 ATTTATCATTTTAAAACAC
1 ATTTATCATTTTAAAACAC
1318721 A
1 A
1318722 CTTAAAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTATCATTTTAAAACAC
Found at i:1327401 original size:20 final size:20
Alignment explanation
Indices: 1327376--1327421 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1327366 TAGTTTACTT
1327376 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
1327396 TCGCAACGCGTAAATGGCTA
1 TCGCAACACGAAAATGACTA
1327416 TCGCAA
1 TCGCAA
1327422 TGCGAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:1327437 original size:19 final size:18
Alignment explanation
Indices: 1327415--1327504 Score: 79
Period size: 19 Copynumber: 5.3 Consensus size: 18
1327405 GTAAATGGCT
1327415 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
1327434 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
1327448 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
1327467 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
1327481 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
1327500 ATCGC
1 ATCGC
1327505 GTTGCGATAG
Statistics
Matches: 57, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
14 20 0.35
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 25 0.44
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:1327450 original size:14 final size:14
Alignment explanation
Indices: 1327431--1327489 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
1327421 ATGCGAAATG
1327431 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1327445 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
1327464 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1327478 AAAATCGCAACG
1 AAAATCGCAACG
1327490 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1327457 original size:33 final size:33
Alignment explanation
Indices: 1327415--1327504 Score: 171
Period size: 33 Copynumber: 2.7 Consensus size: 33
1327405 GTAAATGGCT
1327415 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1327448 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1327481 ATCGCAACGCGAAATGAAAATCGC
1 ATCGCAATGCGAAATGAAAATCGC
1327505 GTTGCGATAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1327527 original size:20 final size:20
Alignment explanation
Indices: 1327502--1327551 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1327492 AAATGAAAAT
1327502 CGCGTTGCGATAGCCATTTC
1 CGCGTTGCGATAGCCATTTC
* *
1327522 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGATAGCCATTTC
1327542 CGCGTTGCGA
1 CGCGTTGCGA
1327552 AAGTAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.14, C:0.26, G:0.28, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGATAGCCATTTC
Found at i:1327562 original size:20 final size:20
Alignment explanation
Indices: 1327522--1327577 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1327512 TAGCCATTTC
* * *
1327522 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGAAAGTAAGTTT
1327542 CGCGTTGCGAAAGTAAGTTT
1 CGCGTTGCGAAAGTAAGTTT
*
1327562 CGTGTTGCGAAAGTAA
1 CGCGTTGCGAAAGTAA
1327578 ACTATTCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGAAAGTAAGTTT
Found at i:1327952 original size:21 final size:20
Alignment explanation
Indices: 1327926--1327993 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
1327916 ATGTCATCCC
1327926 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
1327947 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
*
1327968 TCAAGAGTCCCC-CCACCGT
1 TCAAGAGTCCCCTCCATCGT
1327987 TCAAGAG
1 TCAAGAG
1327994 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
19 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.40, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:1328005 original size:40 final size:42
Alignment explanation
Indices: 1327917--1328005 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 42
1327907 CCGACTCACA
* *
1327917 TGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCC
1 TGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCAC
*
1327959 TATCATCCCTCAAGAGTCCCC-CC-ACCGTTCAAGAGGCCAC
1 TGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCAC
1327999 TGTCATC
1 TGTCATC
1328006 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 21 0.49
41 2 0.05
42 20 0.47
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.21
Consensus pattern (42 bp):
TGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCAC
Found at i:1329449 original size:14 final size:14
Alignment explanation
Indices: 1329415--1329453 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1329405 TTGATTGTTT
1329415 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
1329429 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
1329443 TGTTGATTTGT
1 AATTGATTTGT
1329454 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:1329574 original size:20 final size:20
Alignment explanation
Indices: 1329549--1329587 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1329539 ATGTTGAACG
1329549 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
1329569 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
1329588 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:1329653 original size:18 final size:19
Alignment explanation
Indices: 1329593--1329661 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
1329583 GCAACGAGAG
*
1329593 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1329612 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1329631 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
1329649 AATCGCAATGCGA
1 AATCGCAATGCGA
1329662 TTTTCATTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
18 14 0.30
19 33 0.70
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1329705 original size:20 final size:20
Alignment explanation
Indices: 1329680--1329751 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
1329670 TCGCATTGCG
*
1329680 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1329700 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
** *
1329720 ATTTTCAAGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
1329740 ATTTTCGCGTTG
1 ATTTTCGCGTTG
1329752 TAATTTCCCC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:1330327 original size:20 final size:20
Alignment explanation
Indices: 1330306--1330450 Score: 148
Period size: 20 Copynumber: 7.2 Consensus size: 20
1330296 TGTATTATCT
*
1330306 CGTTGCGATAGTCAGAATCT
1 CGTTGCGATAGTCAGAATCG
*
1330326 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGATAGTCAGAATCG
* *
1330346 CGTTGCGAAAGTCAAAATCG
1 CGTTGCGATAGTCAGAATCG
* * *
1330366 CGTTGTGAAAGTCAGTATCG
1 CGTTGCGATAGTCAGAATCG
* **
1330386 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--TAGTCAGAATCG
*
1330407 CGTTGCGATAGTCAGTATCG
1 CGTTGCGATAGTCAGAATCG
* *
1330427 CATTGCGATAGTCATAATCG
1 CGTTGCGATAGTCAGAATCG
1330447 CGTT
1 CGTT
1330451 ACGAATCTGG
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
19 3 0.03
20 87 0.82
21 14 0.13
22 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
CGTTGCGATAGTCAGAATCG
Found at i:1330352 original size:40 final size:40
Alignment explanation
Indices: 1330301--1330455 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
1330291 GATTCTGTAT
* * *
1330301 TATCTCGTTGCGATAGTCAGAATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCATAATCGCGTTGCGAAAGTCAG
* * * *
1330341 AATCGCGTTGCGAAAGTCAAAATCGCGTTGTGAAAGTCAG
1 TATCGCGTTGCGATAGTCATAATCGCGTTGCGAAAGTCAG
* * *
1330381 TATCGCGTTGCGATTTTGT-ATTATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGA--TAGTCATAATCGCGTTGCGAAAGTCAG
* *
1330422 TATCGCATTGCGATAGTCATAATCGCGTTACGAA
1 TATCGCGTTGCGATAGTCATAATCGCGTTGCGAA
1330456 TCTGGAAACT
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.63
41 30 0.32
42 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (40 bp):
TATCGCGTTGCGATAGTCATAATCGCGTTGCGAAAGTCAG
Found at i:1332226 original size:165 final size:164
Alignment explanation
Indices: 1331914--1332553 Score: 685
Period size: 165 Copynumber: 3.9 Consensus size: 164
1331904 ACTCAACAAA
* * *
1331914 TTTATTGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAATCTGAT-T-CGCCTCTG-AGCC
1 TTTATTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA--TGATGTGC-CCTC-GAAGCT
* * * *
1331976 GAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGAAAGCCCTTATCGACTTAAGCTATACTGCA
62 GAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCA
* * **
1332041 AATGATGTGCCTTTGAGCTGAGCTTAGTCGTACTCGAAGGTAT
123 AATGATGTGCCTTGGAGCTGAGCATAGTCAAACTCGAAGGT-T
* * *
1332084 TTTAATGACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGTAGCTGAGT
1 TTTATTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT
* * * * *
1332149 GTAATCAAACTCGAGGGTCTTTGCCAGATAGCCCTTTTTGACTTAAGCTATGCTGTAAATGATAT
66 GTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCAAATGATGT
*
1332214 GCCTTGGAGCTGAGCATAGTTAAACTCGAAGGTCT
131 GCCTTGGAGCTGAGCATAGTCAAACTCGAAGGT-T
** * * * * * * *
1332249 TTGGTTGGCAGATAACTCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTTAGT
1 TTTATTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT
* * * *
1332314 GTAATCGAACTTGAGGGTCTTTGGCAGATAACCCTTTTCGACTTAAACTATGCTACAAATGATGT
66 GTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCAAATGATGT
* *
1332379 GCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC
131 GCCTTGGAGCTGAGCATAGTCAAACTCGAAGGTT
** *
1332413 TTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT
1 TTTATTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT
** * * * * * * * * * * * *
1332478 GTAATTTAACTTGAGGGTTTTTCGCATATATCCCTTCTAGCCTTGAGCTATACCGCAAATGATAT
66 GTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCAAATGATGT
1332543 GCCATT-GAGCT
131 GCC-TTGGAGCT
1332554 AAGTGTAATC
Statistics
Matches: 397, Mismatches: 69, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
164 113 0.28
165 209 0.53
167 1 0.00
168 5 0.01
169 29 0.07
170 40 0.10
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (164 bp):
TTTATTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT
GTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCATAGTCAAACTCGAAGGTT
Found at i:1332539 original size:164 final size:163
Alignment explanation
Indices: 1331919--1332659 Score: 672
Period size: 165 Copynumber: 4.5 Consensus size: 163
1331909 ACAAATTTAT
* * *
1331919 TGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAATCTGAT-T-CGCCTCTG-AGCCGAGTG
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA--TGATGTGC-CCTC-GAAGCTGAGTG
* * * * *
1331981 TAATCGAACTCGAAGGTCTTTGGTTGGCAGA-AAGCCCTTATCGACTTAAGCTATACTGCAAATG
62 TAATCAAACTTGAGGGTC--T--TT-GCAGATAA-CCCTTTTAGACTTAAGCTATACTGCAAATG
* * * ** * **
1332045 ATGTGCCTTTGAGCTGAGCTTAGTCGTACTCGAAGGTATTTTAA
121 ATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGT-CTTTGG
* *
1332089 TGACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGTAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* * * * *
1332154 CAAACTCGAGGGTCTTTGCCAGATAGCCCTTTTTGACTTAAGCTATGCTGTAAATGATATGCCTT
66 CAAACTTGAGGGTCTTTG-CAGATAACCCTTTTAGACTTAAGCTATACTGCAAATGATATGCCTT
* *
1332219 GGAGCTGAGCATAGTTAAACTCGAAGGTCTTTGG
130 GGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGG
* * * * * * *
1332253 TTGGCAGATAACTCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTTAGTGTAA
1 -TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
* * * * * *
1332318 TCGAACTTGAGGGTCTTTGGCAGATAACCCTTTTCGACTTAAACTATGCTACAAATGATGTGCCT
65 TCAAACTTGAGGGTCTTT-GCAGATAACCCTTTTAGACTTAAGCTATACTGCAAATGATATGCCT
1332383 TGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGG
129 TGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGG
*
1332418 TGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
** * * * * * * *
1332483 TTAACTTGAGGGTTTTTCGCATATATCCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCAT
66 CAAACTTGAGGGTCTTT-GCAGATAACCCTTTTAGACTTAAGCTATACTGCAAATGATATGCC-T
* * * * *
1332548 T-GAGCTAAGTGTAATCGAACTCAAAGGTCTTT-G
129 TGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGG
* * * * * ** * * * * *
1332581 -GA-AGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGTTGTGCCTTGGAA-CTGAGCGTAGT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* *
1332643 CAAACTCGAAGGTCTTT
66 CAAACTTGAGGGTCTTT
1332660 TGGTGATAGA
Statistics
Matches: 478, Mismatches: 85, Indels: 26
0.81 0.14 0.04
Matches are distributed among these distances:
160 21 0.04
161 38 0.08
162 2 0.00
163 1 0.00
164 135 0.28
165 208 0.44
166 2 0.00
167 1 0.00
168 5 0.01
169 29 0.06
170 36 0.08
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (163 bp):
TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
CAAACTTGAGGGTCTTTGCAGATAACCCTTTTAGACTTAAGCTATACTGCAAATGATATGCCTTG
GAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGG
Found at i:1332590 original size:409 final size:411
Alignment explanation
Indices: 1332092--1332842 Score: 1085
Period size: 409 Copynumber: 1.8 Consensus size: 411
1332082 ATTTTAATGA
* * * * * * *
1332092 CATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGTAGCTGAGTGTAATCAA
1 CATATAACCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATCGTAGCTAAGTGTAATCAA
* * * * * **
1332157 ACTCGAGGGTCTTTGCCAGATAGCCCTTTTTGACTTAAGCTATGCTGTAAATGATATGCCTTGGA
66 ACTCAAAGGTCTTTGCAAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTGGA
* * * * *
1332222 GCTGAGCATAGTTAAACTCGAAGGTC-TTTGGTTGGCAGATAACTCTTCTCGACTTAAGTTATGC
131 ACTGAGCATAGTCAAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGACTTAAGTTATGC
* * * *
1332286 TGCAAATGATGTGCCCTCGAAGCTTAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAACCCTTT
195 TGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTATTTGGCAGATAACCCTTC
* *
1332351 TCGACTTAAACTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT
260 CCGACTTAAACTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTT
1332416 GG-TGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGT
325 GGTTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGT
1332480 AATTTAACTTGAGGGTTTTTCG
390 AATTTAACTTGAGGGTTTTTCG
* * *
1332502 CATATATCCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATTG-AGCTAAGTGTAATCGA
1 CATATAACCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATCGTAGCTAAGTGTAATCAA
* * *
1332566 ACTCAAAGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGTTGTGCCTTGGA
66 ACTCAAAGGTCTTTGCAAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTGGA
* * * * *
1332631 ACTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGATAGATAACCCTTCTAGCCTTGAGTTATGTT
131 ACTGAGCATAGTCAAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGCT
* * *
1332696 GTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTATTTGGTAGATAGCCCTTCC
196 GCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTATTTGGCAGATAACCCTTCC
* * *
1332761 CGACTTAAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTG
261 CGACTTAAACTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTG
*
1332826 GTTGGCAGATAACCCTT
326 GTTGACAGATAACCCTT
1332843 TGTTGAGTTA
Statistics
Matches: 296, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
409 237 0.80
410 59 0.20
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (411 bp):
CATATAACCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATCGTAGCTAAGTGTAATCAA
ACTCAAAGGTCTTTGCAAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTGGA
ACTGAGCATAGTCAAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGCT
GCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTATTTGGCAGATAACCCTTCC
CGACTTAAACTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTG
GTTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTA
ATTTAACTTGAGGGTTTTTCG
Found at i:1332721 original size:329 final size:327
Alignment explanation
Indices: 1331980--1332747 Score: 767
Period size: 329 Copynumber: 2.3 Consensus size: 327
1331970 TGAGCCGAGT
* * * * * *
1331980 GTAATCGAACTCGAAGGTCTTTGGTTGGCAGA-AAGCCCTTATCGACTTAAGCTATACTGCAAAT
1 GTAATCAAACTCGAAGGTC--T--TTGGCAGATAA-CCCTTCTAGACTTAAACTATGCTACAAAT
* * * ** * *
1332044 GATGTGCCTTTGAGCTGAGCTTAGTCGTACTCGAAGGTATTTTAATGACATATAACCCTTCTAGC
61 GATGTGCCCTTGAGCTGAGCGTAGTCGAACTCGAAGGTA-TTTGGTGACAGATAACCCTTATAGC
*
1332109 CTTGAGTTATGCTGTAAATGATGTGCCCTCGTAGCTGAGTGTAATCAAACTCGAGGGTCTTTGCC
125 CTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGCC
* * * * * * * *
1332174 AGATAGCCCTTTTTGACTTAAGCTATGCTGTAAATGATATGCCTTGGAGCTGAGCATAGTTAAAC
190 AGATAGCCCTTCTAGACTTAAGCTATACCGCAAATGATATGCCTTGGAGCTAAGCATAATCAAAC
* * * * *
1332239 TCGAAGGTCTTTGGTTGGCAGATAACTCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTC
255 TCAAAGGTC-TT-GTTGGAAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCCTC
* *
1332304 GAAGCTTAGT
318 GAAGCTGAGC
* * * * *
1332314 GTAATCGAACTTGAGGGTCTTTGGCAGATAACCCTTTTCGACTTAAACTATGCTACAAATGATGT
1 GTAATCAAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAACTATGCTACAAATGATGT
* *
1332379 G-CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGA
66 GCCCTT-GAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTGACAGATAACCCTTATAGCCTTGA
** * * *
1332443 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTTAACTTGAGGGT-TTTTCGCATAT
130 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGC-CAGAT
* * * ** *
1332507 ATCCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATT-GAGCTAAGTGTAATCGAACTCA
194 AGCCCTTCTAGACTTAAGCTATACCGCAAATGATATGCC-TTGGAGCTAAGCATAATCAAACTCA
* * * *
1332571 AAGGTC-T-TTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGTTGTGCCTTGGAA-C
258 AAGGTCTTGTTGGAAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCCTCGAAGC
1332633 TGAGC
323 TGAGC
* * * * ** * **
1332638 GTAGTCAAACTCGAAGGTCTTTTGGTGATAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATG
1 GTAATCAAACTCGAAGGTC-TTT-G-G-CAGATAACCCTTCTAGACTTAAACTATGCTACAAATG
* * * *
1332703 ATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTATTTGGT
62 ATGTGCCCTTG-AGCTGAGCGTAGTCGAACTCGAAGGTATTTGGT
1332748 AGATAGCCCT
Statistics
Matches: 358, Mismatches: 66, Indels: 25
0.80 0.15 0.06
Matches are distributed among these distances:
324 19 0.05
325 49 0.14
326 1 0.00
327 2 0.01
328 37 0.10
329 165 0.46
330 65 0.18
331 2 0.01
332 1 0.00
334 17 0.05
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (327 bp):
GTAATCAAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAACTATGCTACAAATGATGT
GCCCTTGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTGACAGATAACCCTTATAGCCTTGAG
TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGCCAGATAG
CCCTTCTAGACTTAAGCTATACCGCAAATGATATGCCTTGGAGCTAAGCATAATCAAACTCAAAG
GTCTTGTTGGAAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCCTCGAAGCTGA
GC
Found at i:1332783 original size:245 final size:243
Alignment explanation
Indices: 1331919--1332826 Score: 779
Period size: 245 Copynumber: 3.7 Consensus size: 243
1331909 ACAAATTTAT
* * * *
1331919 TGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAATCTGAT-T-CGCCTCTG-AGCCGAGTG
1 TGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAA--TGATGTGC-CCTC-GAAGCTGAGTG
* * * * * *
1331981 TAATCGAACTCGAAGGTCTTTGGTTGGCAGAAAGCCCTTATCGACTTAAGCTATACTGCAAATGA
62 TAATCGAACTCG-AGG-GTAT--TTCGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
* * * * * * * * *
1332046 TGTGCCTTTGAGCTGAGCT-TAGTCGTACTCGAAGGTATTTTAATGACATATAACCCTTCTAGCC
123 TGTGCC-TTGAGCTAAG-TGTAATCGAACTCAAAGGT-CTTT--GGA-AGATAACCCTTCTCGAC
* ** ** * * * * * *
1332110 TTGAGTTATGCTGTAAATGATGTGCCCTCGTAGCTGAGTGTAATCAAACTCGAGGGTC-TT--
182 TTAAACTATGCTACAAATGATGTG-CCTTGGAACTGAGCGTAGTCAAACTCGAAGGTCTTTGG
* * * * * * * * * * ** *
1332170 TGCCAGATAGCCCTTTTTGACTTAAGCTATGCTGTAAATGATATG-CCTTGGAGCTGAGCATAGT
1 TGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
** * * * * * *
1332234 TAAACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
66 CGAACTCG-AGG-GTAT--TTCGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * ** * * *
1332299 CCCTCGAAGCTTAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAACCCTTTTCGACTTAAACTA
127 -CCTTG-AGCTAAGTGTAATCGAACTCAAAGGTCTTTGGAAGATAACCCTTCTCGACTTAAACTA
*
1332364 TGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGG
190 TGCTACAAATGATGTGCCTTGGAACTGAGCGTAGTCAAACTCGAAGGTCTTTGG
1332418 TGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
** * * * * * * * * * *
1332483 TTAACTTGAGGGTTTTTCGCATATATCCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCAT
66 CGAACTCGAGGGTATTTCGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-T
* *
1332548 TGAGCTAAGTGTAATCGAACTCAAAGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTA
130 TGAGCTAAGTGTAATCGAACTCAAAGGTCTTTGGAAGATAACCCTTCTCGACTTAAACTATGCTA
*
1332613 CAAATGTTGTGCCTTGGAACTGAGCGTAGTCAAACTCGAAGGTCTTTTGG
195 CAAATGATGTGCCTTGGAACTGAGCGTAGTCAAACTCGAAGGTC-TTTGG
* * *
1332663 TGATAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* * * *
1332728 CGAACTCGAGGGTATTTGGTAGATAGCCCTTCCCGACTTAAGCTATGTTGCAAATGATGTGCCTT
66 CGAACTCGAGGGTATTTCGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* * * *
1332793 GGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGG
131 -GAGCTAAGTGTAATCGAACTCAAAGGTCTTTGG
1332827 TTGGCAGATA
Statistics
Matches: 542, Mismatches: 102, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
244 101 0.19
245 208 0.38
246 34 0.06
247 4 0.01
248 41 0.08
249 99 0.18
250 22 0.04
251 33 0.06
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (243 bp):
TGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
CGAACTCGAGGGTATTTCGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
GAGCTAAGTGTAATCGAACTCAAAGGTCTTTGGAAGATAACCCTTCTCGACTTAAACTATGCTAC
AAATGATGTGCCTTGGAACTGAGCGTAGTCAAACTCGAAGGTCTTTGG
Found at i:1332791 original size:165 final size:164
Alignment explanation
Indices: 1332509--1332842 Score: 454
Period size: 165 Copynumber: 2.0 Consensus size: 164
1332499 TCGCATATAT
*
1332509 CCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATTGAGCTAAGTGTAATCGAACTCAAAG
1 CCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATCGAGCTAAGTGTAATCGAACTCAAAG
* * *
1332574 GTCTTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGTTGTGCCTTGGAACTGAGCG
66 GTATTTGGAAGATAGCCCTTCCCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAACTGAGCG
* *
1332639 TAGTCAAACTCGAAGGTCTTTTGG-TGATAGATAA
131 TAGTCAAACTCAAAGGTC-TTTGGTTGACAGATAA
* *** * * * * * *
1332673 CCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAG
1 CCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATCG-AGCTAAGTGTAATCGAACTCAAA
* * * *
1332738 GGTATTTGGTAGATAGCCCTTCCCGACTTAAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGC
65 GGTATTTGGAAGATAGCCCTTCCCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAACTGAGC
*
1332803 GTAGTCAAACTCAAAGGTCTTTGGTTGGCAGATAA
130 GTAGTCAAACTCAAAGGTCTTTGGTTGACAGATAA
1332838 CCCTT
1 CCCTT
1332843 TGTTGAGTTA
Statistics
Matches: 147, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
164 38 0.26
165 109 0.74
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (164 bp):
CCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATCGAGCTAAGTGTAATCGAACTCAAAG
GTATTTGGAAGATAGCCCTTCCCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAACTGAGCG
TAGTCAAACTCAAAGGTCTTTGGTTGACAGATAA
Found at i:1333691 original size:57 final size:56
Alignment explanation
Indices: 1333572--1333681 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 56
1333562 AGTGCATCGA
* * *
1333572 TGCATCAAGTGCATTCAATGTTTCAAAAATAGCCAGAGTGTATCGATGCATGGCTGG
1 TGCATCAAATGCATTCAATGTTTCAAAAATA-CCACAGTGCATCGATGCATGGCTGG
* *
1333629 TGCATCAAATGCATTCGATGTTTTCATAAAAT-CCTCAGTGCATCGATGCATGG
1 TGCATCAAATGCATTCAATG-TTTCA-AAAATACCACAGTGCATCGATGCATGG
1333682 TATGTGCATC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 36 0.78
58 5 0.11
59 5 0.11
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (56 bp):
TGCATCAAATGCATTCAATGTTTCAAAAATACCACAGTGCATCGATGCATGGCTGG
Found at i:1334233 original size:2 final size:2
Alignment explanation
Indices: 1334226--1334252 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1334216 AATTGATTAA
1334226 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1334253 GCTTAAGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1336422 original size:23 final size:22
Alignment explanation
Indices: 1336395--1336474 Score: 81
Period size: 21 Copynumber: 3.6 Consensus size: 22
1336385 GCATGACCCT
*
1336395 GTGCATCAATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
1336417 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
1336439 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* *
1336461 ATACATCGATGCAC
1 GTGCATCGATGCAC
1336475 TGTTAGGTGT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
21 15 0.33
22 15 0.33
23 15 0.33
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:1336451 original size:21 final size:20
Alignment explanation
Indices: 1336422--1336493 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
1336412 CAAGGCGTGC
*
1336422 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACCTTCA-GGTGT
* **
1336443 ATCGATGCACATTCAAGGATAC
1 ATCGATGCACCTTC-AGG-TGT
*
1336465 ATCGATGCA-CTGTTAGGTGT
1 ATCGATGCACCT-TCAGGTGT
1336485 ATCGATGCA
1 ATCGATGCA
1336494 TGAAGCACAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
20 10 0.25
21 18 0.45
22 12 0.30
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (20 bp):
ATCGATGCACCTTCAGGTGT
Found at i:1336493 original size:42 final size:44
Alignment explanation
Indices: 1336403--1336493 Score: 116
Period size: 42 Copynumber: 2.1 Consensus size: 44
1336393 CTGTGCATCA
* * *
1336403 ATGCACATTCAAGGCGTGCATCGGTGCACCTTCATGGTGTATCG
1 ATGCACATTCAAGGCATACATCGATGCACCTTCATGGTGTATCG
*
1336447 ATGCACATTCAAGG-ATACATCGATGCA-CTGTTA-GGTGTATCG
1 ATGCACATTCAAGGCATACATCGATGCACCT-TCATGGTGTATCG
1336489 ATGCA
1 ATGCA
1336494 TGAAGCACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 16 0.38
43 12 0.29
44 14 0.33
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (44 bp):
ATGCACATTCAAGGCATACATCGATGCACCTTCATGGTGTATCG
Found at i:1341711 original size:20 final size:20
Alignment explanation
Indices: 1341686--1341780 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
1341676 TGCAGCCTTC
*
1341686 ATGCATGGATGCACAGTAGG
1 ATGCATCGATGCACAGTAGG
*
1341706 ATGCATCGATGCACAGCCT-TG
1 ATGCATCGATGCACAG--TAGG
*
1341727 ATGCATCGATGCACAGAAGG
1 ATGCATCGATGCACAGTAGG
* * *
1341747 ATTCATCGATGCACAGAATG
1 ATGCATCGATGCACAGTAGG
*
1341767 ATACATCGATGCAC
1 ATGCATCGATGCAC
1341781 TAATTGCATT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
20 47 0.72
21 17 0.26
22 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (20 bp):
ATGCATCGATGCACAGTAGG
Found at i:1341731 original size:21 final size:21
Alignment explanation
Indices: 1341678--1341742 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
1341668 CTAGTCATTG
* *
1341678 CAGCCTTCATGCATGGATGCA
1 CAGCCTTGATGCATCGATGCA
*
1341699 CAG--TAGGATGCATCGATGCA
1 CAGCCT-TGATGCATCGATGCA
1341719 CAGCCTTGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
1341740 CAG
1 CAG
1341743 AAGGATTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 1 0.03
20 15 0.41
21 20 0.54
22 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (21 bp):
CAGCCTTGATGCATCGATGCA
Found at i:1341738 original size:41 final size:41
Alignment explanation
Indices: 1341678--1341780 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
1341668 CTAGTCATTG
* * *
1341678 CAGCCTTCATGCATGGATGCACAGTAGGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
*
1341719 CAGCCTTGATGCATCGATGCACAGAAGGATTCATCGATGCA
1 CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
** *
1341760 CAG-AATGATACATCGATGCAC
1 CAGCCTTGATGCATCGATGCAC
1341781 TAATTGCATT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 15 0.27
41 40 0.73
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (41 bp):
CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
Found at i:1341848 original size:22 final size:23
Alignment explanation
Indices: 1341815--1341857 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1341805 ATGGATGCAC
1341815 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
1341838 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
1341858 GCAGGGGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:1341979 original size:29 final size:29
Alignment explanation
Indices: 1341958--1342015 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1341948 AAACTTTGAA
1341958 TAAATTCAACT-AAGTCCAAAAACATTTTG
1 TAAATTCAACTCAAGTCCAAAAACA-TTTG
* *
1341987 TAAATTCAATTCAAGTTCAAAAACCATTT
1 TAAATTCAACTCAAGTCCAAAAA-CATTT
1342016 TTCCTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 13 0.52
31 2 0.08
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAACTCAAGTCCAAAAACATTTG
Found at i:1342010 original size:30 final size:30
Alignment explanation
Indices: 1341958--1342016 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
1341948 AAACTTTGAA
1341958 TAAATTCAACTAAGTCCAAAAA-CATTTTG
1 TAAATTCAACTAAGTCCAAAAACCATTTTG
* *
1341987 TAAATTCAATTCAAGTTCAAAAACCATTTT
1 TAAATTCAACT-AAGTCCAAAAACCATTTT
1342017 TCCTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 10 0.38
30 10 0.38
31 6 0.23
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (30 bp):
TAAATTCAACTAAGTCCAAAAACCATTTTG
Found at i:1342223 original size:84 final size:84
Alignment explanation
Indices: 1342050--1342252 Score: 235
Period size: 84 Copynumber: 2.4 Consensus size: 84
1342040 ATAGTTCAAC
* * * *
1342050 ACCCTTCTTGACTTAAGTTATACTGCAAATGATATGCCTTGGAGCTGAGAGTAATCAAACTTGAA
1 ACCCTTCTAGACTTAAGTTATACTGCAAATGTTGTGCCTTGGAGCTGAGAGTAATCAAACTCGAA
* *
1342115 GGTCTTTGGATAGCAGATA
66 GGTCTTTAGATAGCAAATA
* * * * * * * *
1342134 GCCCTTCTCGATTTAAGCTATACTGCAAATGTTGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAA
1 ACCCTTCTAGACTTAAGTTATACTGCAAATGTTGTGCCTTGGAGCTGAGAGTAATCAAACTCGAA
* *
1342199 GGTCTTTAGTTGGCAAATA
66 GGTCTTTAGATAGCAAATA
* * *
1342218 ACCCTTCTAGCCTTGAGTTATGCTGCAAATGTTGT
1 ACCCTTCTAGACTTAAGTTATACTGCAAATGTTGT
1342253 CTTTAAAATA
Statistics
Matches: 97, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
84 97 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (84 bp):
ACCCTTCTAGACTTAAGTTATACTGCAAATGTTGTGCCTTGGAGCTGAGAGTAATCAAACTCGAA
GGTCTTTAGATAGCAAATA
Found at i:1343596 original size:95 final size:94
Alignment explanation
Indices: 1343441--1343626 Score: 286
Period size: 95 Copynumber: 2.0 Consensus size: 94
1343431 ATATAAACAA
* *
1343441 CTTTATCAGGTTAGCTGAATCTTATCCATAAAGTCAGGGAGTTTAACCAATTGCCTTAGAGGGAC
1 CTTTATCAGGCTAGCTGAATATTATCCATAAAGTCAGGGAGTTTAACCAATTGCCTTAGAGGGAC
*
1343506 AGCTCAAGCTTTATTGTATAGTATAATTAC
66 AACTCAAGCTTTATTGTATA-TATAATTAC
* *
1343536 CTTTATCAGGCTAGCTGAATATTATCCATAAAGT-TGAGGCGTTTAACCAATTG-CTCTAGAGGG
1 CTTTATCAGGCTAGCTGAATATTATCCATAAAGTCAG-GGAGTTTAACCAATTGCCT-TAGAGGG
1343599 ACAACTCAAGCTTTATTGTATATATAAT
64 ACAACTCAAGCTTTATTGTATATATAAT
1343627 ATTATAATAT
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
94 9 0.11
95 75 0.89
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (94 bp):
CTTTATCAGGCTAGCTGAATATTATCCATAAAGTCAGGGAGTTTAACCAATTGCCTTAGAGGGAC
AACTCAAGCTTTATTGTATATATAATTAC
Found at i:1346045 original size:24 final size:24
Alignment explanation
Indices: 1346013--1346066 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
1346003 GACGAAAATT
1346013 AGTGTCCACAGGGGTATTATTTTA
1 AGTGTCCACAGGGGTATTATTTTA
*
1346037 AGTGTCCACAGGGGTGTTATTTTA
1 AGTGTCCACAGGGGTATTATTTTA
1346061 AGTGTC
1 AGTGTC
1346067 AGCCACCATA
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:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (24 bp):
AGTGTCCACAGGGGTATTATTTTA
Found at i:1346572 original size:64 final size:64
Alignment explanation
Indices: 1346496--1346630 Score: 243
Period size: 64 Copynumber: 2.1 Consensus size: 64
1346486 TTAACCCCTA
*
1346496 ATGATTTGCTTATGATTTTATTTAGTTCTTATTTTAATTCATTGATTCTTTTAATTTGGTCCCC
1 ATGATTTGCTTATGATTTTATTTAGTTATTATTTTAATTCATTGATTCTTTTAATTTGGTCCCC
* *
1346560 ATGATTTTCTTATGATTTTATTTAGTTATTATTTTAATTTATTGATTCTTTTAATTTGGTCCCC
1 ATGATTTGCTTATGATTTTATTTAGTTATTATTTTAATTCATTGATTCTTTTAATTTGGTCCCC
1346624 ATGATTT
1 ATGATTT
1346631 ATGATATTCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.58
Consensus pattern (64 bp):
ATGATTTGCTTATGATTTTATTTAGTTATTATTTTAATTCATTGATTCTTTTAATTTGGTCCCC
Found at i:1357518 original size:19 final size:20
Alignment explanation
Indices: 1357494--1357535 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1357484 TTTCCACCAC
*
1357494 ATGCAACTACATG-ATCTAA
1 ATGCAACTAAATGTATCTAA
*
1357513 ATGCAACTAAATGTTTCTAA
1 ATGCAACTAAATGTATCTAA
1357533 ATG
1 ATG
1357536 ATATGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (20 bp):
ATGCAACTAAATGTATCTAA
Found at i:1357901 original size:20 final size:20
Alignment explanation
Indices: 1357876--1357918 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1357866 TTTTAAGGCA
1357876 CATTTAGGACCATATAGATG
1 CATTTAGGACCATATAGATG
* * *
1357896 CATTTAGGATCATGTAGTTG
1 CATTTAGGACCATATAGATG
1357916 CAT
1 CAT
1357919 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:1368078 original size:27 final size:27
Alignment explanation
Indices: 1368036--1368089 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1368026 AGTTAGTCCC
1368036 TAGTTTTCTTAAGGTTTTCAAAATAGG
1 TAGTTTTCTTAAGGTTTTCAAAATAGG
*
1368063 TAGTTTTCTTAGGGTTTTCAAAATAGG
1 TAGTTTTCTTAAGGTTTTCAAAATAGG
1368090 CTCTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.44
Consensus pattern (27 bp):
TAGTTTTCTTAAGGTTTTCAAAATAGG
Found at i:1372493 original size:221 final size:221
Alignment explanation
Indices: 1372050--1374896 Score: 5235
Period size: 221 Copynumber: 13.0 Consensus size: 221
1372040 TTTCGAACCT
* *
1372050 TCGAATACCTGGAAAGCTTAGGCAAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
*
1372115 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAAACCAATTTTAGTGT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATC-AAAAACCAATTTTAGGGT
*
1372180 TGAACCAAAATAAAACGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCG
130 TGAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCG
1372245 TTAGCAGAATACTCATTTCCTACCTCG
195 TTAGCAGAATACTCATTTCCTACCTCG
1372272 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
*
1372337 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATTAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
*
1372402 GAACCAAAATAAAATGACCCAAACCTTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
1372467 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
*
1372493 TCGAATACCTGAAAAGCTTAGGTGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1372558 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
*
1372623 GAACCAAAATAAAAAGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
1372688 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
1372714 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1372779 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
1372844 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
1372909 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
*
1372935 TCGAATACCTGAAAAGCTTAGGCAAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
*
1373000 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATTAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
1373065 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
1373130 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
*
1373156 TCGAATACCTGAAAAGCTTAGGCGAAAGAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1373221 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
*
1373286 GAACC-AAATAAAA-GACCCAAACCCTAATTTAAATATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
1373349 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
*
1373375 TCGAATACCTGAAAAGCTTAGGAGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1373440 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
*
1373505 GAACCAAAATAAAATGACCTAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
1373570 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
1373596 TCGAATACCTGAAAAGCTTAGGC-AAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1373660 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAG-C-CTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
1373723 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
1373788 TAGCAGAATAC-CATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
1373813 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTC-AACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
*
1373877 ACCTGGATTGTAAAAGAAAGATCTCACCAAGCGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
1373942 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATA-TTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
*
1374006 TAGCAGAATACTCATTTTCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
1374032 TCGAATACCTG-AAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAA-TA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1374095 ACCTGGATT-TAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
*
1374159 GAACCAAAAT-AAA--ACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTGCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
1374221 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
1374247 TCGAATACCTGAAAAGCTTAGGCGAAAAAA-TTCGAACATACTCATGTAG-AGTTCTTA-AACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1374309 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAG-C-CTCATCAAAAACCAATTTTAGGG-T
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
*
1374371 GAACCAAAATAAAA--CCCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
1374434 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
1374460 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
* *
1374525 ACCTGGATTGTAAAAGAAATATCTCACCAAGTGTTAG--TCTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
1374588 GAACCAAAATAAAATGATCCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCG
131 GAACCAAAATAAAATGA-CCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCG
1374653 TTAGCAGAATAC-CATTTCCTA-CTCG
195 TTAGCAGAATACTCATTTCCTACCTCG
1374678 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
* *
1374743 ACCTGGATTGTAAAAGAAATATCTCACCAAGTGTTAGCCACTCATTAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
* * * * *
1374808 GAACCAAAAGAAAACGACCCATACCCTAATTTAAAGATTAATCCAAGGTATTTACATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
1374873 TA-CAAGAATACTCATTTCCTACCT
196 TAGC-AGAATACTCATTTCCTACCT
1374897 ATTTTTTTGA
Statistics
Matches: 2560, Mismatches: 40, Indels: 51
0.97 0.02 0.02
Matches are distributed among these distances:
212 11 0.00
213 131 0.05
214 73 0.03
215 103 0.04
216 85 0.03
217 182 0.07
218 276 0.11
219 398 0.16
220 201 0.08
221 992 0.39
222 108 0.04
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.27
Consensus pattern (221 bp):
TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
TAGCAGAATACTCATTTCCTACCTCG
Found at i:1375613 original size:18 final size:18
Alignment explanation
Indices: 1375592--1375678 Score: 77
Period size: 19 Copynumber: 4.7 Consensus size: 18
1375582 TAGTTCGTTT
1375592 AAGCATGTTAGA-TCATTA
1 AAGCATGTTA-ATTCATTA
*
1375610 AAGCATGTTTAATTCATTT
1 AAGCATG-TTAATTCATTA
*
1375629 AAGCATGTTAATTCATTTC
1 AAGCATGTTAATTCA-TTA
* * *
1375648 AAGCATATTAGTTCATTT
1 AAGCATGTTAATTCATTA
* *
1375666 AGGCATATTAATT
1 AAGCATGTTAATT
1375679 TTAAATATGA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
18 29 0.49
19 30 0.51
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (18 bp):
AAGCATGTTAATTCATTA
Found at i:1375632 original size:19 final size:18
Alignment explanation
Indices: 1375589--1375678 Score: 101
Period size: 18 Copynumber: 4.9 Consensus size: 18
1375579 TGCTAGTTCG
1375589 TTTAAGCATGTTAGA-TCA
1 TTTAAGCATGTTA-ATTCA
*
1375607 TTAAAGCATGTTTAATTCA
1 TTTAAGCATG-TTAATTCA
1375626 TTTAAGCATGTTAATTCA
1 TTTAAGCATGTTAATTCA
* *
1375644 TTTCAAGCATATTAGTTCA
1 TTT-AAGCATGTTAATTCA
* *
1375663 TTTAGGCATATTAATT
1 TTTAAGCATGTTAATT
1375679 TTAAATATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
18 32 0.51
19 31 0.49
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.43
Consensus pattern (18 bp):
TTTAAGCATGTTAATTCA
Found at i:1375645 original size:37 final size:37
Alignment explanation
Indices: 1375589--1375678 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
1375579 TGCTAGTTCG
*
1375589 TTTAAGCATGTTAGA-TCA-TTAAAGCATGTTTAATTCA
1 TTTAAGCATGTTA-ATTCATTTAAAGCAT-ATTAATTCA
* *
1375626 TTTAAGCATGTTAATTCATTTCAAGCATATTAGTTCA
1 TTTAAGCATGTTAATTCATTTAAAGCATATTAATTCA
* *
1375663 TTTAGGCATATTAATT
1 TTTAAGCATGTTAATT
1375679 TTAAATATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 1 0.02
37 37 0.80
38 8 0.17
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.43
Consensus pattern (37 bp):
TTTAAGCATGTTAATTCATTTAAAGCATATTAATTCA
Found at i:1376862 original size:24 final size:25
Alignment explanation
Indices: 1376830--1376913 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 25
1376820 TTGACAATCT
*
1376830 TCATTCTT-CACAATCAAATTCATA
1 TCATACTTCCACAATCAAATTCATA
*
1376854 TCATACTTCCACAAT-ATA-TC-TGA
1 TCATACTTCCACAATCAAATTCAT-A
*
1376877 -CA-ATCTT-CACAATCGAATTCATA
1 TCATA-CTTCCACAATCAAATTCATA
1376900 TCATACTTCCACAA
1 TCATACTTCCACAA
1376914 GATTGAGACG
Statistics
Matches: 47, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
21 7 0.15
22 7 0.15
23 6 0.13
24 15 0.32
25 12 0.26
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.33
Consensus pattern (25 bp):
TCATACTTCCACAATCAAATTCATA
Found at i:1390407 original size:16 final size:16
Alignment explanation
Indices: 1390386--1390416 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1390376 TCTCATTTTA
1390386 TAATTACAAACTGAAC
1 TAATTACAAACTGAAC
*
1390402 TAATTATAAACTGAA
1 TAATTACAAACTGAA
1390417 GGTAAGCAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (16 bp):
TAATTACAAACTGAAC
Found at i:1401616 original size:23 final size:22
Alignment explanation
Indices: 1401564--1401619 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
1401554 TTTATATGGA
* *
1401564 ACTTTGGTGCAATTCACGCAGT
1 ACTTCGGTGCAATTCACGCAGC
**
1401586 ACTTCGGTGCAATTCTACGTGGC
1 ACTTCGGTGCAATTC-ACGCAGC
1401609 ACTTCGGTGCA
1 ACTTCGGTGCA
1401620 TTTATACGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (22 bp):
ACTTCGGTGCAATTCACGCAGC
Found at i:1405111 original size:2 final size:2
Alignment explanation
Indices: 1405106--1405137 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1405096 TTTCTTAACG
1405106 AT AT AT AT AT AT AT AT AT AT -T AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1405138 TGTTAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1405747 original size:38 final size:38
Alignment explanation
Indices: 1405696--1405772 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
1405686 ATTTTCATCC
*
1405696 AAATAAGTCTAGAAATATTTTTTTAATTAAGTTTATAA
1 AAATAAGTCTAGAAATAGTTTTTTAATTAAGTTTATAA
1405734 AAATAAGTCTAGAAATAGTTTTTTAATTAAGTTTATAA
1 AAATAAGTCTAGAAATAGTTTTTTAATTAAGTTTATAA
1405772 A
1 A
1405773 TCAAGATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (38 bp):
AAATAAGTCTAGAAATAGTTTTTTAATTAAGTTTATAA
Found at i:1407950 original size:38 final size:38
Alignment explanation
Indices: 1407907--1407979 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
1407897 TGCAAGACAT
1407907 ATGAACATCTTTTCCAAAAATGGT-AAAACTTGAACCCC
1 ATGAACATCTTTTCCAAAAATGGTGAAAA-TTGAACCCC
**
1407945 ATGAACATCTTTTCCAATGATGGTGAAAATTGAAC
1 ATGAACATCTTTTCCAAAAATGGTGAAAATTGAAC
1407980 TCCAAGATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
38 28 0.88
39 4 0.12
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (38 bp):
ATGAACATCTTTTCCAAAAATGGTGAAAATTGAACCCC
Found at i:1412594 original size:37 final size:37
Alignment explanation
Indices: 1412524--1412598 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 37
1412514 TCATTAAACT
*
1412524 TTTTATATTTTAAATTTTGTAAAAACAATTATATAAA
1 TTTTATAATTTAAATTTTGTAAAAACAATTATATAAA
*
1412561 TTTTATGAATTTAAATTTTTTAAAGAA-AA-TATATAAA
1 TTTTAT-AATTTAAATTTTGTAAA-AACAATTATATAAA
1412598 T
1 T
1412599 ATTTTCCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 15 0.44
38 17 0.50
39 2 0.06
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTTATAATTTAAATTTTGTAAAAACAATTATATAAA
Found at i:1415546 original size:87 final size:86
Alignment explanation
Indices: 1415404--1415669 Score: 345
Period size: 87 Copynumber: 3.1 Consensus size: 86
1415394 TTAATTAACG
* * * * *
1415404 TAATAATTAGAACCTCAACTTTATATTTTTTACAATTTAGTCATTTAGATCTTTAATTAAATATT
1 TAATAATTAGAACCTCAATTTTAGATTCTTTACAATTTAGTC-CTTAGATCTTTAATTAGATATT
*
1415469 CTTTTGACATAATTAATTAGGT
65 CTTTTAACATAATTAATTAGGT
* * * *
1415491 TAATAATTAGAACCTCAATTTTAGATTCTTCACAATTTAGTCCTTAAACTTTTTAATTAGATACT
1 TAATAATTAGAACCTCAATTTTAGATTCTTTACAATTTAGTCCTTAGA-TCTTTAATTAGATATT
* *
1415556 -TTTTAGCATAATTAATTAGAT
65 CTTTTAACATAATTAATTAGGT
* * * *
1415577 TAATTATTAGAGCATAAATTTTAGATTCTTTACAATTTAGTCCTTTAGATCTTTAATTAGATATT
1 TAATAATTAGAACCTCAATTTTAGATTCTTTACAATTTAGTCC-TTAGATCTTTAATTAGATATT
*
1415642 CTTTTAACATAATTGATTAGGT
65 CTTTTAACATAATTAATTAGGT
1415664 TAATAA
1 TAATAA
1415670 ATAAAGTCTC
Statistics
Matches: 152, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
86 74 0.49
87 78 0.51
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.46
Consensus pattern (86 bp):
TAATAATTAGAACCTCAATTTTAGATTCTTTACAATTTAGTCCTTAGATCTTTAATTAGATATTC
TTTTAACATAATTAATTAGGT
Found at i:1416798 original size:29 final size:29
Alignment explanation
Indices: 1416759--1416820 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
1416749 TGAGCAAATT
1416759 AAAAAAATATTAAAATTGTATATTTTTTA
1 AAAAAAATATTAAAATTGTATATTTTTTA
* *
1416788 AAAAAAATATTGAAATTGTATTTTTTTTA
1 AAAAAAATATTAAAATTGTATATTTTTTA
1416817 AAAA
1 AAAA
1416821 TTAAATGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (29 bp):
AAAAAAATATTAAAATTGTATATTTTTTA
Found at i:1421765 original size:30 final size:31
Alignment explanation
Indices: 1421710--1421775 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
1421700 GTTAATTCTC
*
1421710 AATTTGATTTTTAAATTTTAAATAAAATATT
1 AATTTGATTTATAAATTTTAAATAAAATATT
* *
1421741 AATTTGA-TTATATATTTTATATAAAATATT
1 AATTTGATTTATAAATTTTAAATAAAATATT
1421771 AATTT
1 AATTT
1421776 AATTCTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
AATTTGATTTATAAATTTTAAATAAAATATT
Found at i:1422602 original size:16 final size:16
Alignment explanation
Indices: 1422583--1422613 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1422573 AATCAATTTT
1422583 TAAAATAATATCGTCA
1 TAAAATAATATCGTCA
1422599 TAAAATAATATCGTC
1 TAAAATAATATCGTC
1422614 GTCCGCTAAA
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:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (16 bp):
TAAAATAATATCGTCA
Found at i:1423194 original size:15 final size:16
Alignment explanation
Indices: 1423174--1423206 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1423164 AGGTATTGAT
1423174 AATATTTT-TTTATAA
1 AATATTTTATTTATAA
1423189 AATATTTTATTTATAA
1 AATATTTTATTTATAA
1423205 AA
1 AA
1423207 AAATATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATATTTTATTTATAA
Found at i:1437565 original size:5 final size:5
Alignment explanation
Indices: 1437555--1437684 Score: 260
Period size: 5 Copynumber: 26.0 Consensus size: 5
1437545 ATGACTGTTG
1437555 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1437605 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1437655 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
1437685 ATCGAATCTC
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 125 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:1439270 original size:2 final size:2
Alignment explanation
Indices: 1439263--1439296 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1439253 GGTAAAAGGA
1439263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1439297 TGTAAGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1445736 original size:184 final size:186
Alignment explanation
Indices: 1445428--1445817 Score: 630
Period size: 184 Copynumber: 2.1 Consensus size: 186
1445418 TTTTCTAATT
* * * * *
1445428 TATATAA-AAATTAAATGTTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATATA
1 TATATAATATATTTAATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATATA
1445492 TATATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTA
66 TATATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTA
* * *
1445557 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTTAGCTCATATGTTA
131 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTATGGGCTGAGCCCATATGTTA
1445613 TATATAATATATTTAATATTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATA-
1 TATATAATATATTTAATATTTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAATAATATATAT
*
1445677 AT-TATAAAATAAAAAATTT-ATAT-AATTTTTTAATTAATTAATATTGATTT-AGATTTAAAAG
65 ATATATAAAAT-AAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAAG-TTTAAAAG
1445738 TTATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTATGGGCTGAGCCCATATGTTA
128 TTATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTATGGGCTGAGCCCATATGTTA
1445797 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
1445818 AAAATTTAAT
Statistics
Matches: 192, Mismatches: 9, Indels: 9
0.91 0.04 0.04
Matches are distributed among these distances:
183 2 0.01
184 112 0.58
185 18 0.09
186 33 0.17
187 27 0.14
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.45
Consensus pattern (186 bp):
TATATAATATATTTAATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATATA
TATATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTA
TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTATGGGCTGAGCCCATATGTTA
Found at i:1446309 original size:30 final size:30
Alignment explanation
Indices: 1446275--1446331 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1446265 GAATGACCTA
*
1446275 TCCATATGTTCC-AAAGAACATAGGTAATTG
1 TCCATATGTCCCGAAAG-ACATAGGTAATTG
1446305 TCCATATGTCCCGAAAGACATAGGTAA
1 TCCATATGTCCCGAAAGACATAGGTAA
1446332 ACTATTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (30 bp):
TCCATATGTCCCGAAAGACATAGGTAATTG
Found at i:1446342 original size:31 final size:30
Alignment explanation
Indices: 1446272--1446362 Score: 94
Period size: 31 Copynumber: 3.0 Consensus size: 30
1446262 TCCGAATGAC
*
1446272 CTATCCATATGTTCCAAAGAACATAGGT-AA
1 CTATCCATATGTCCCAAAG-ACATAGGTAAA
* *
1446302 TTGTCCATATGTCCCGAAAGACATAGGTAAA
1 CTATCCATATGTCCC-AAAGACATAGGTAAA
* **
1446333 CTATTCATATGTCTTAAAAGACATAGGTAA
1 CTATCCATATGTC-CCAAAGACATAGGTAA
1446363 CCCTCGACTC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
30 20 0.40
31 30 0.60
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (30 bp):
CTATCCATATGTCCCAAAGACATAGGTAAA
Found at i:1448328 original size:3 final size:3
Alignment explanation
Indices: 1448320--1448345 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1448310 AAATAAAATT
1448320 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
1448346 TTAAAATGAC
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1450202 original size:2 final size:2
Alignment explanation
Indices: 1450195--1450231 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1450185 ATGTAACAAT
1450195 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1450232 CATTATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1450724 original size:31 final size:31
Alignment explanation
Indices: 1450658--1450743 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 31
1450648 ACCATTGTCC
* * * * * *
1450658 ATATGTTCCGAATAACATAGATAACCTGTCC
1 ATATGTCCCGAATGACATAGGTAAACTATCA
1450689 ATATGTCCCGAATGACATAGGTAAACTATCA
1 ATATGTCCCGAATGACATAGGTAAACTATCA
** *
1450720 ATATGTCTTGAAAGACATAGGTAA
1 ATATGTCCCGAATGACATAGGTAA
1450744 CCCTCGACTC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.28
Consensus pattern (31 bp):
ATATGTCCCGAATGACATAGGTAAACTATCA
Found at i:1456569 original size:20 final size:20
Alignment explanation
Indices: 1456540--1456578 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1456530 AAGGCATATT
1456540 TAGGACCATATAGATGCATC
1 TAGGACCATATAGATGCATC
* *
1456560 TAGGATCATATAGTTGCAT
1 TAGGACCATATAGATGCAT
1456579 ATGGTAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (20 bp):
TAGGACCATATAGATGCATC
Found at i:1464194 original size:144 final size:144
Alignment explanation
Indices: 1463918--1464474 Score: 763
Period size: 144 Copynumber: 3.9 Consensus size: 144
1463908 GTAATGTTTC
*
1463918 AACATTTGCAGTCTCTTTTTCGTCTTGCCCCATTCCTTATCTCTTGATCCTCGGCATTGTCTTCC
1 AACATTTGCAGTCTC-TTTTCGTCTTGCCCCATTCCTTATCTCTTGATCCTCAGCATTGTCTTCC
* * * * * * *
1463983 ATGTGCTGTTTCAGAACATTTGTAGTCCCTTTTCCATTAGCAGCTTGATCTTTGACATTTTCTCC
65 ATGTGCTGTTTCAAAACATTTGCAGTCCCTTTTCCTTTAGCCGCTCGATCTTCGACATTCTCTCC
* *
1464048 CTTCTGTTGTTCCAA
130 CTTCTGTCGTTCCGA
* * *
1464063 AACATTTGCTGTCTCTTTTCGTCTTGCCTCATTCCTTTTCTCTTGATCCTCAGCATTGTCTTCCA
1 AACATTTGCAGTCTCTTTTCGTCTTGCCCCATTCCTTATCTCTTGATCCTCAGCATTGTCTTCCA
* *
1464128 TGTGCTGTTACAAAACATTTGCAGTCCCTTTTCCTTTAGCTGCTCGATCTTCGACATTCTCTCCC
66 TGTGCTGTTTCAAAACATTTGCAGTCCCTTTTCCTTTAGCCGCTCGATCTTCGACATTCTCTCCC
1464193 TTCTGTCGTTCCGA
131 TTCTGTCGTTCCGA
*
1464207 AACGTTTGCAGTCTCTTTTCGTCTTGCCCCATTCCTTATCTCTTGATCCT-AGGCATTGTCTTCC
1 AACATTTGCAGTCTCTTTTCGTCTTGCCCCATTCCTTATCTCTTGATCCTCA-GCATTGTCTTCC
* *
1464271 ATGTGCTGTTTCAGAACATTTGCAGTCCCTTTTCCTTTAGCCGCTTGATCTTCGACATTCTCTCC
65 ATGTGCTGTTTCAAAACATTTGCAGTCCCTTTTCCTTTAGCCGCTCGATCTTCGACATTCTCTCC
*
1464336 CTTCTGCCGTTCCGA
130 CTTCTGTCGTTCCGA
* * * * * *
1464351 AGCATTTGCAG------TTGGTCTTGCCCCATTCCTTTTCTCTTGATCCTCAGTATTGCCCTCTC
1 AACATTTGCAGTCTCTTTTCGTCTTGCCCCATTCCTTATCTCTTGATCCTCAGCATTGTCTTC-C
* * *
1464410 -TTTGCTGTTCCAAAACATTTGCAG-CCGCTTTTCCTTTAGCCGCTCGATCTTCAACATTCTCTC
65 ATGTGCTGTTTCAAAACATTTGCAGTCC-CTTTTCCTTTAGCCGCTCGATCTTCGACATTCTCTC
1464473 CC
129 CC
1464475 ATGTCTTTCT
Statistics
Matches: 373, Mismatches: 35, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
137 2 0.01
138 96 0.26
139 2 0.01
143 1 0.00
144 258 0.69
145 14 0.04
ACGTcount: A:0.14, C:0.31, G:0.14, T:0.41
Consensus pattern (144 bp):
AACATTTGCAGTCTCTTTTCGTCTTGCCCCATTCCTTATCTCTTGATCCTCAGCATTGTCTTCCA
TGTGCTGTTTCAAAACATTTGCAGTCCCTTTTCCTTTAGCCGCTCGATCTTCGACATTCTCTCCC
TTCTGTCGTTCCGA
Found at i:1465778 original size:42 final size:43
Alignment explanation
Indices: 1465701--1465793 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 43
1465691 CAGCACTCTT
* *
1465701 ATAGCATAATCTCGTAGCAAAACCAGAAAGAGCATCAGGGGAA
1 ATAGCATAATCACGTAGCAAAACCAGAAACAGCATCAGGGGAA
* *
1465744 ATAGCATCATCACGTAGC-AAACCAGAAACAGCATCAGGGGGA
1 ATAGCATAATCACGTAGCAAAACCAGAAACAGCATCAGGGGAA
1465786 ATAGCATA
1 ATAGCATA
1465794 TCTGTTAGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 29 0.64
43 16 0.36
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (43 bp):
ATAGCATAATCACGTAGCAAAACCAGAAACAGCATCAGGGGAA
Found at i:1469587 original size:14 final size:14
Alignment explanation
Indices: 1469549--1469579 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1469539 ACTTTCCAAG
*
1469549 ATGGTTACTATCGT
1 ATGGTTACTGTCGT
1469563 ATGGTTACTGTCGT
1 ATGGTTACTGTCGT
1469577 ATG
1 ATG
1469580 TTTCCTGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.26, T:0.42
Consensus pattern (14 bp):
ATGGTTACTGTCGT
Found at i:1469632 original size:3 final size:3
Alignment explanation
Indices: 1469616--1469660 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
1469606 GTCGGAAAAA
* * *
1469616 TAT TAT TAAA TAT TAT TAT TAT TAT TAC TAT TAT TAA TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1469661 ATTTATATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 33 0.94
4 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:1469640 original size:9 final size:9
Alignment explanation
Indices: 1469614--1469666 Score: 72
Period size: 9 Copynumber: 5.9 Consensus size: 9
1469604 GGGTCGGAAA
1469614 AATATTATT
1 AATATTATT
1469623 AAATATTATT
1 -AATATTATT
*
1469633 ATTATTATT
1 AATATTATT
*
1469642 ACTATTATT
1 AATATTATT
1469651 AATATTATT
1 AATATTATT
1469660 AAT-TTAT
1 AATATTAT
1469667 ATTTTTTGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
8 4 0.10
9 27 0.68
10 9 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (9 bp):
AATATTATT
Found at i:1470088 original size:9 final size:9
Alignment explanation
Indices: 1470071--1470109 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
1470061 AGCACTTAAG
1470071 AATCCACCA
1 AATCCACCA
*
1470080 AATCGACCA
1 AATCCACCA
*
1470089 AATCTCATCA
1 AATC-CACCA
1470099 AATCCACCA
1 AATCCACCA
1470108 AA
1 AA
1470110 ACATATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.46, C:0.36, G:0.03, T:0.15
Consensus pattern (9 bp):
AATCCACCA
Found at i:1471169 original size:30 final size:29
Alignment explanation
Indices: 1471106--1471197 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 29
1471096 TGTTAATACC
* * *
1471106 ATTTTAGTCCTTTAACTTTCTGTTTTT-T
1 ATTTTAATCATTTAAATTTCTGTTTTTAT
** *
1471134 ATTTTAATTTTTTAAGTTTCTGTTTTTACT
1 ATTTTAATCATTTAAATTTCTGTTTTTA-T
* *
1471164 ATTTTAGTCATTTAAATGTCTGTTTTTAAT
1 ATTTTAATCATTTAAATTTCTGTTTTT-AT
1471194 ATTT
1 ATTT
1471198 AGTTCCTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 23 0.44
30 28 0.54
31 1 0.02
ACGTcount: A:0.21, C:0.09, G:0.08, T:0.63
Consensus pattern (29 bp):
ATTTTAATCATTTAAATTTCTGTTTTTAT
Found at i:1471672 original size:16 final size:18
Alignment explanation
Indices: 1471634--1471673 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
1471624 ACGCAAACCA
1471634 ATTTTTATCTTAAAAATG
1 ATTTTTATCTTAAAAATG
*
1471652 A-TTTT-TCTT-AAAATT
1 ATTTTTATCTTAAAAATG
1471667 ATTTTTA
1 ATTTTTA
1471674 AAAGATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 5
0.76 0.04 0.20
Matches are distributed among these distances:
15 6 0.32
16 8 0.42
17 4 0.21
18 1 0.05
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTTTATCTTAAAAATG
Found at i:1472690 original size:32 final size:32
Alignment explanation
Indices: 1472654--1472726 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
1472644 GTATTAAATG
* * *
1472654 ATTTCTTTTGTTTTGTTTGTGTACACTAA-TT
1 ATTTCTTTTATTTTGTTTATGTAAACTAACTT
*
1472685 AATTTCTTTCATTTTGTTTATGTAAACTAACTT
1 -ATTTCTTTTATTTTGTTTATGTAAACTAACTT
1472718 ATTTCTTTT
1 ATTTCTTTT
1472727 TATTGTATCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 33 0.94
33 2 0.06
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.60
Consensus pattern (32 bp):
ATTTCTTTTATTTTGTTTATGTAAACTAACTT
Found at i:1475892 original size:101 final size:101
Alignment explanation
Indices: 1475717--1475935 Score: 348
Period size: 101 Copynumber: 2.2 Consensus size: 101
1475707 ACATGAATCC
* * *
1475717 TTCAGCTAGCCTGATAAAGGTGATTATAAGATATACGTACAATAAAGCTTGAGTTGTACCTCTAG
1 TTCAGCTAGCCTGATAAAGGTGATTATAAGATATACATACAATAAAGCTTGAGCTATACCTCTAG
*
1475782 AGCAATTGGTTAAACGCCCCGACTTTATGGATAAGA
66 AGCAATTGGTTAAACACCCCGACTTTATGGATAAGA
*
1475818 TTCAGCTAGCCTGATAAAGGTGATTATAAGATATACATACAATAAAGCTTGAGCTATCCCTCTAG
1 TTCAGCTAGCCTGATAAAGGTGATTATAAGATATACATACAATAAAGCTTGAGCTATACCTCTAG
* **
1475883 AGCAATTGGTTAAACACTCCGGTTTTATGGATAAGA
66 AGCAATTGGTTAAACACCCCGACTTTATGGATAAGA
* *
1475919 TTCATCTAGCCAGATAA
1 TTCAGCTAGCCTGATAA
1475936 TGGAAAATTA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 108 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (101 bp):
TTCAGCTAGCCTGATAAAGGTGATTATAAGATATACATACAATAAAGCTTGAGCTATACCTCTAG
AGCAATTGGTTAAACACCCCGACTTTATGGATAAGA
Found at i:1477267 original size:125 final size:128
Alignment explanation
Indices: 1477050--1477359 Score: 339
Period size: 130 Copynumber: 2.4 Consensus size: 128
1477040 ATGGCTAAGA
* * *
1477050 TTCATCATAGTATGAGCAGTGTCATCCCCGACCAGATCTCCTTATTA--TAGGAGTTGTGTCAAC
1 TTCATCA-AGTATGAGCAGTGTCATCCCCGACCAGATCTCCTCATTATGTAGGAGCTATGTCAAC
* * ** * *
1477113 CCGATAACCATTCGTCCTCATCACGTAGGAGCCGTGTTATCA-CCTT-T-AGAT-GACCAGAACT
65 CAGATAACCAGTCGTCCTCATCAC-TAGGA-AAGAGTTATCACCCTTCTAAGATAGACAAGAACT
1477174 C
128 C
* * * *
1477175 TTCATCACGTATGAGTAGTGTCATCACCTGACCAGATTTCCTCATTATGTAGGAGCTATGTCAAT
1 TTCATCAAGTATGAGCAGTGTCATC-CCCGACCAGATCTCCTCATTATGTAGGAGCTATGTCAA-
* *
1477240 CTAGATAACCAGTCGTCCTCA-CA-TAGGAAAGAGTTATCACCCTTCCTAAAGATAGGCAAGAAC
64 CCAGATAACCAGTCGTCCTCATCACTAGGAAAGAGTTATCACCCTT-CT-AAGATAGACAAGAAC
1477303 TC
127 TC
* *
1477305 TTCATCATGTATGAGCAGTGTCATCCCCCGACTAGATCTCCTCATTATGTAGGAG
1 TTCATCAAGTATGAGCAGTGTCAT-CCCCGACCAGATCTCCTCATTATGTAGGAG
1477360 TCGTGTCACC
Statistics
Matches: 154, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
124 24 0.16
125 34 0.22
127 16 0.10
128 18 0.12
129 4 0.03
130 57 0.37
131 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (128 bp):
TTCATCAAGTATGAGCAGTGTCATCCCCGACCAGATCTCCTCATTATGTAGGAGCTATGTCAACC
AGATAACCAGTCGTCCTCATCACTAGGAAAGAGTTATCACCCTTCTAAGATAGACAAGAACTC
Found at i:1481209 original size:2 final size:2
Alignment explanation
Indices: 1481202--1481235 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1481192 CCACTTTGAA
1481202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1481236 CACTTATAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1483203 original size:38 final size:37
Alignment explanation
Indices: 1483161--1483252 Score: 148
Period size: 37 Copynumber: 2.5 Consensus size: 37
1483151 TCAGATATGG
*
1483161 TCTTGGAAGATTATATAATAAATTTGTTTAGGGTGATC
1 TCTTGGAAGATTATATAATAAA-TTGTTTAGGATGATC
*
1483199 TCTTGGAAGATTATACAATAAATTGTTTAGGATGATC
1 TCTTGGAAGATTATATAATAAATTGTTTAGGATGATC
*
1483236 TCTTGGAAGACTATATA
1 TCTTGGAAGATTATATA
1483253 TAGGGTTGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 29 0.58
38 21 0.42
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.39
Consensus pattern (37 bp):
TCTTGGAAGATTATATAATAAATTGTTTAGGATGATC
Found at i:1489332 original size:22 final size:24
Alignment explanation
Indices: 1489290--1489344 Score: 87
Period size: 22 Copynumber: 2.3 Consensus size: 24
1489280 GTCATGCCCA
1489290 TAATAATACTTGACTAGAGATCTTT
1 TAATAATACTTGACTA-AGATCTTT
1489315 TAATAATA-TTGACT-AGATCTTT
1 TAATAATACTTGACTAAGATCTTT
1489337 TAATAATA
1 TAATAATA
1489345 ACAATTATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.53
24 6 0.20
25 8 0.27
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (24 bp):
TAATAATACTTGACTAAGATCTTT
Found at i:1495975 original size:21 final size:21
Alignment explanation
Indices: 1495934--1495974 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1495924 TTCATTATAA
*
1495934 ATTCTCTTCAAACTTTAAAAT
1 ATTCTCTTCAAACCTTAAAAT
*
1495955 ATTCTCTATCAACCCTTAAA
1 ATTCTCT-TCAAACCTTAAA
1495975 TCATAAGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTCTCTTCAAACCTTAAAAT
Found at i:1504788 original size:21 final size:20
Alignment explanation
Indices: 1504764--1504804 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1504754 AATAATTTTT
*
1504764 AAAAGAATTATCATATTAATC
1 AAAAG-ATTACCATATTAATC
*
1504785 AAAAGGTTACCATATTAATC
1 AAAAGATTACCATATTAATC
1504805 TTCATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (20 bp):
AAAAGATTACCATATTAATC
Found at i:1507046 original size:6 final size:7
Alignment explanation
Indices: 1507021--1507065 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
1507011 CCAAATAATT
*
1507021 TTTTTCT
1 TTTTTCA
*
1507028 TTTTTACT
1 TTTTT-CA
1507036 TTTTTCA
1 TTTTTCA
1507043 TTTTTCA
1 TTTTTCA
1507050 TTTTTCA
1 TTTTTCA
1507057 TTTTT-A
1 TTTTTCA
1507063 TTT
1 TTT
1507066 ATTTATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
6 4 0.11
7 25 0.69
8 7 0.19
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:1508662 original size:17 final size:17
Alignment explanation
Indices: 1508640--1508674 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1508630 TAATAACTCG
1508640 ATGTGGTA-AAAAGTTAA
1 ATGTGGTACAAAA-TTAA
1508657 ATGTGGTACAAAATTAA
1 ATGTGGTACAAAATTAA
1508674 A
1 A
1508675 GAACCAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.29
Consensus pattern (17 bp):
ATGTGGTACAAAATTAA
Found at i:1519311 original size:17 final size:17
Alignment explanation
Indices: 1519289--1519326 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1519279 TTGGGGGAAT
1519289 GTGAGATTTTCATGGGA
1 GTGAGATTTTCATGGGA
1519306 GTGAGATTTTCATGGGA
1 GTGAGATTTTCATGGGA
1519323 GTGA
1 GTGA
1519327 AATTCACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.37, T:0.34
Consensus pattern (17 bp):
GTGAGATTTTCATGGGA
Found at i:1520581 original size:20 final size:20
Alignment explanation
Indices: 1520545--1520582 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1520535 ATCCTATTCC
**
1520545 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
1520565 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1520583 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1522465 original size:182 final size:180
Alignment explanation
Indices: 1522157--1522755 Score: 822
Period size: 182 Copynumber: 3.3 Consensus size: 180
1522147 GGACAAATAT
* * *
1522157 GACAAAACCGGTAAAGCA-CTACCGGATATATTGCAAGTGTCGATACTTGAATATAAGTATCGAC
1 GACAAAACCGGTAAAG-AGCTACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGAC
* * * * * *
1522221 ACATAGTGAATTTAAAGGAGAAGCAGTTTAAGCACTTATAAAGTATCGATTCTTTTTAAATATGT
65 ACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGT
* * * **
1522286 ATCGATCCACAATGATATAACAGATAAAAATATGACAAAACTGATCAGGAGAA
130 ATCGATCCACAATGATATAACAG-TAAAAATATGATAAAACCGGTCTCGA-AA
* *
1522339 GACAAAACCGGTAAAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGGCA
1 GACAAAACCGGTAAAGAGCTACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
1522404 CATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
66 CATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
* *
1522469 TCGATCCACAAAGATATAACATGTTAAAATATGATAAAACCGGTCTCGAAAA
131 TCGATCCACAATGATATAACA-GTAAAAATATGATAAAACCGGTCTCG-AAA
* * *
1522521 GACAAAACCGGTAAAGCGTTACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAGAGCTACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* * * * *
1522586 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGTCTATAAAGTGTCGATACTTTATAAAAATGTA
66 CATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
* * * *
1522651 TCGATCCATAATGATATAAAAGGTAAAAATATGATAAAACCGGTCTCTAAGT
131 TCGATCCACAATGATATAACA-GTAAAAATATGATAAAACCGGTCTCGAA-A
* * * *
1522703 GACAAAACCGTTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTAATA
1 GACAAAACCGGTAAAGAGCTACCAGATATATTGAAAGTGTCGATACTTTAATA
1522756 AGTACGCGTA
Statistics
Matches: 374, Mismatches: 39, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
181 3 0.01
182 369 0.99
183 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (180 bp):
GACAAAACCGGTAAAGAGCTACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
CATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
TCGATCCACAATGATATAACAGTAAAAATATGATAAAACCGGTCTCGAAA
Found at i:1524775 original size:21 final size:23
Alignment explanation
Indices: 1524723--1524777 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
1524713 GAACGTTTTG
*
1524723 TTTTTTTATATAAAATTATAAGA
1 TTTTATTATATAAAATTATAAGA
*
1524746 TAGTTATTATATAAAA-TAT-AGA
1 T-TTTATTATATAAAATTATAAGA
1524768 TTTTATTATA
1 TTTTATTATA
1524778 AATGTAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 8 0.29
22 4 0.14
23 4 0.14
24 12 0.43
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (23 bp):
TTTTATTATATAAAATTATAAGA
Found at i:1525168 original size:21 final size:21
Alignment explanation
Indices: 1525144--1525187 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1525134 AAAACAATCA
1525144 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1525165 AGAGTCGACGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1525186 AG
1 AG
1525188 GCATAATGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1525258 original size:33 final size:33
Alignment explanation
Indices: 1525221--1525287 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
1525211 AAATAGATGG
1525221 AGTGGTGAAAG-AAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTG-AAGTAAGTTGAGGTGTTAAGGGGTGA
*
1525254 AGTGGTGAAGTAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAGTAAGTTGAGGTGTTAAGGGGTGA
1525287 A
1 A
1525288 CTTAATATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.28, C:0.00, G:0.46, T:0.25
Consensus pattern (33 bp):
AGTGGTGAAGTAAGTTGAGGTGTTAAGGGGTGA
Found at i:1525411 original size:14 final size:14
Alignment explanation
Indices: 1525392--1525423 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1525382 AATACTTGGA
*
1525392 TGAAGGGGGGAAAT
1 TGAAGGGGGAAAAT
1525406 TGAAGGGGGAAAAT
1 TGAAGGGGGAAAAT
1525420 TGAA
1 TGAA
1525424 AGAGATGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.16
Consensus pattern (14 bp):
TGAAGGGGGAAAAT
Found at i:1525496 original size:18 final size:18
Alignment explanation
Indices: 1525473--1525511 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1525463 GAAAAAATAT
*
1525473 GAAGAAGAAAAGAGAGAG
1 GAAGAAGAAAAGACAGAG
1525491 GAAGAAGAAAAGACAGAG
1 GAAGAAGAAAAGACAGAG
1525509 GAA
1 GAA
1525512 ATAAGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.03, G:0.36, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAAAGACAGAG
Found at i:1527089 original size:19 final size:19
Alignment explanation
Indices: 1527065--1527113 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1527055 AATGTAGAGT
1527065 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1527084 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1527103 TAATTTTGTAT
1 TAATTTTGTAT
1527114 GTGGATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1527844 original size:200 final size:200
Alignment explanation
Indices: 1527475--1528799 Score: 1284
Period size: 200 Copynumber: 6.7 Consensus size: 200
1527465 GTGTCAAAAT
* * * *
1527475 ATTTATAAAAAGTTTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATAGGTAATTTTA
1 ATTTATTAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTT-
* * *
1527540 T-AATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTAC-ATAATGTATCAACAC
65 TCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAATAATGTATCGACAC
* * * * * * * * * *
1527603 TT-TTTCATTATGTGTCAATACTTTTTGACCAGAATGAATGCCCAAAATGATGAACACATAACGT
130 TTGTGTAATT-TGTGTCGATAC-TTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGCATAAAGT
1527667 GTCGATAC
193 GTCGATAC
* * *
1527675 ATTTATTGAAATTGTCAATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTT
1 ATTTATTAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTT
* * * *
1527740 CAATGTAACCGGTATAAGTAAACTGGTTTTATGAGAGAATAGGTCTA-AATAATGTATCAACACT
66 CAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAATAATGTATCGACACT
* * * * *
1527804 TCTGGAATTTGTGTCGATAATATTTCTCCAGAAGGAATGCCCAAAAGGGTGCACGCAAAAAGTGT
131 TGTGTAATTTGTGTCGATACT-TTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGCATAAAGTGT
1527869 CGATAC
195 CGATAC
* * *
1527875 ATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGCAATAGGTAATTTT
1 ATTTATTAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTT
* *
1527940 TCAATGTAACCGGTATACATATACCGGTTTTATGAGAGAATAGGTGTACAAT-A--TATCGACAC
65 TCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAATAATGTATCGACAC
*
1528002 TTGTGTAATTTGTGTCGATACTTTTGGTCCAAAAGGAATGCCCAAAAGGGGTGCAC-CACT-AAG
130 TTGTGTAATTTGTGTCGATACTTTT-GTCCAGAAGGAATGCCCAAAA-GGGTGCACGCA-TAAAG
*
1528065 TGTCGATAT
192 TGTCGATAC
* * *
1528074 ATTTA-TAATAAGTGTCGATCCTAGAAACATCGAAATCCATAATTATAATGTAATATGTAATTTT
1 ATTTATTAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTT
* ** * * *
1528138 TCAATGTAATCGGTATACTTATACCGGTTTTATGAGAGAATATGTGTATAAT-ATGTATCGACAC
65 TCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAATAATGTATCGACAC
* *
1528202 TTGTGTAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCACAAAAAGGGTGCAC-CACT-AAG
130 TTGTGTAATTTGTGTCGATACTTTT-GTCCAGAAGGAATGC-CCAAAAGGGTGCACGCA-TAAAG
1528265 TGTCGAT-C
192 TGTCGATAC
* ** *
1528273 --CTA--AAAA----C-AT--C-G-AA-A-C----CCAT-AATTATAATCTAATAGGTAATTTTG
1 ATTTATTAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTT-
** * *
1528318 T-AATACAACCGATATAAATATACCAGTTTTAT-ATGAGAATAGGTCTAC-ATAATGTATCGACA
65 TCAATGTAACCGGTATAAATATACCGGTTTTATGA-GAGAATAGGTCTACAATAATGTATCGACA
* * * * * * * *
1528380 CTTTTTTATTTTGTGTCGATACATTTTGTCCATAATGAATGCCCAAAATGATGAACGCATAAAGT
129 CTTGTGTAATTTGTGTCGATAC-TTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGCATAAAGT
* *
1528445 ATCGATAT
193 GTCGATAC
* * * * * * *
1528453 ATTTATAAAAAGTGTCGATACCAGAAACATCGAAATCCATAAATATAATGTAATATGTAAATTTA
1 ATTTATTAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTT
* ** ** *
1528518 CAATGTAATCGGTATATTTATACTAGTTTTATGAGAGAATAGGTCTACAA-CATGTATCGACACT
66 CAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAATAATGTATCGACACT
* * *
1528582 TGTGGAATTGGTGTCGATACCTTTTGTCCAGAAGGAATG-CC-AAAGGGTTGCATGCATAAAGTG
131 TGTGTAATTTGTGTCGATA-CTTTTGTCCAGAAGGAATGCCCAAAAGGG-TGCACGCATAAAGTG
1528645 TCGATAC
194 TCGATAC
* * * ** *
1528652 -TTTTTTAAAAAGTTTCGATCCCA-ATAACATCAAAACTGATAATTATAATGTAATAGGTAAATT
1 ATTTATT-AAAAGTGTCGATCCCAGA-AACATCGAAACCCATAATTATAATGTAATAGGTAATTT
* * * * *
1528715 TCCAATGTAATCGGTATAAATATATCTGTTTTATGAGA-AACTAGGTC-ATC-ATAAAGTATCGA
64 TTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAA-TAGGTCTA-CAATAATGTATCGA
* *
1528777 CAATTGT-TAAATTTATGTCGATA
127 CACTTGTGT-AATTTGTGTCGATA
1528800 ACATGTTAAA
Statistics
Matches: 936, Mismatches: 139, Indels: 101
0.80 0.12 0.09
Matches are distributed among these distances:
178 14 0.01
179 112 0.12
180 6 0.01
182 2 0.00
184 5 0.01
185 1 0.00
186 2 0.00
187 1 0.00
188 1 0.00
189 2 0.00
190 2 0.00
191 2 0.00
192 1 0.00
193 2 0.00
194 1 0.00
195 3 0.00
196 2 0.00
197 2 0.00
198 117 0.12
199 198 0.21
200 350 0.37
201 107 0.11
202 3 0.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (200 bp):
ATTTATTAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTT
CAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAATAATGTATCGACACT
TGTGTAATTTGTGTCGATACTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGCATAAAGTGTC
GATAC
Found at i:1528235 original size:399 final size:390
Alignment explanation
Indices: 1527475--1528799 Score: 1414
Period size: 399 Copynumber: 3.4 Consensus size: 390
1527465 GTGTCAAAAT
**
1527475 ATTTATAAAAAGTTTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATAGGTAATTTTA
1 ATTTATAAAAAGTTTCGATCCC-AAAACATCGAAACCCATAATTATAATGCAATAGGTAATTTTA
* *
1527540 TAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATCAACACTT
65 TAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACA-AATGTATCGACACTT
* * * * *
1527605 TTTCATTATGTGTCAATACTTTTTGACCAGAATGAATGCCCAAAATGATGAACACATAACGTGTC
129 TTTAATT-TGTGTCGATAC-TTTTGTCCAAAATGAATGCCCAAAATGATGACCAC-TAA-GTGTC
* * * * * *
1527670 GATACATTTATTGAAATTGTCAATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAA
190 GATATATTTA-TAAAAGTGTCGAT-CCAGAAACATCGAAATCCATAATTATAATGTAATATGTAA
* * * *
1527735 TTTTTCAATGTAACCGGTATAAGTAAACTGGTTTTATGAGAGAATAGGTCTAAATAATGTATCAA
253 TTTTTCAATGTAATCGGTATAATTATACTGGTTTTATGAGAGAATAGGTCTAAAT-ATGTATCGA
* * *
1527800 CACTTCTGGAATTTGTGTCGATAATATTTCTCCAGAAGGAATGCCCAAAAGGGTGCACGCAAAAA
317 CACTTGTGGAATTTGTGTCGATACT-TTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGCAAAAA
1527865 GTGTCGATAC
381 GTGTCGATAC
*
1527875 ATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGCAATAGGTAATTTT
1 ATTTATAAA-AAGTTTCGATCCCA-AAACATCGAAACCCATAATTATAATGCAATAGGTAATTTT
* * * *
1527940 -TCAATGTAACCGGTATACATATACCGGTTTTATGAGAGAATAGGTGTAC-AATATATCGACACT
64 AT-AATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAAATGTATCGACACT
* * * *
1528003 TGTGTAATTTGTGTCGATACTTTTGGTCCAAAAGGAATGCCCAAAAGGGGTGCACCACTAAGTGT
128 T-TTTAATTTGTGTCGATACTTTT-GTCCAAAATGAATGCCCAAAA-TGATG-ACCACTAAGTGT
1528068 CGATATATTTATAATAAGTGTCGATCCTAGAAACATCGAAATCCATAATTATAATGTAATATGTA
189 CGATATATTTATAA-AAGTGTCGATCC-AGAAACATCGAAATCCATAATTATAATGTAATATGTA
* * * *
1528133 ATTTTTCAATGTAATCGGTATACTTATACCGGTTTTATGAGAGAATATGTGTATAATATGTATCG
252 ATTTTTCAATGTAATCGGTATAATTATACTGGTTTTATGAGAGAATAGGTCTA-AATATGTATCG
* * * **
1528198 ACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCACAAAAAGGGTGCAC-CACT
316 ACACTTGTGGAATTTGTGTCGATACTTTT-GTCCAGAAGGAATGC-CCAAAAGGGTGCACGCAAA
1528262 AAGTGTCGAT-C
379 AAGTGTCGATAC
* *
1528273 ---------------C--T--AAAAACATCGAAACCCATAATTATAAT-CTAATAGGTAATTTTG
1 ATTTATAAAAAGTTTCGATCCCAAAACATCGAAACCCATAATTATAATGC-AATAGGTAATTTTA
* * *
1528318 TAATACAACCGATATAAATATACCAGTTTTAT-ATGAGAATAGGTCTACATAATGTATCGACACT
65 TAATATAACCGGTATAAATATACCGGTTTTATGA-GAGAATAGGTCTACA-AATGTATCGACAC-
* * *
1528382 TTTTTATTTTGTGTCGATACATTTTGTCCATAATGAATGCCCAAAATGATGAACGCA-TAAAGTA
127 TTTTTAATTTGTGTCGATAC-TTTTGTCCAAAATGAATGCCCAAAATGATG-AC-CACT-AAGTG
*
1528446 TCGATATATTTATAAAAAGTGTCGATACCAGAAACATCGAAATCCATAAATATAATGTAATATGT
188 TCGATATATTTAT-AAAAGTGTCGAT-CCAGAAACATCGAAATCCATAATTATAATGTAATATGT
* * * * *
1528511 AAATTTACAATGTAATCGGTATATTTATACTAGTTTTATGAGAGAATAGGTCTACAACATGTATC
251 AATTTTTCAATGTAATCGGTATAATTATACTGGTTTTATGAGAGAATAGGTCTA-AATATGTATC
* * *
1528576 GACACTTGTGGAATTGGTGTCGATACCTTTTGTCCAGAAGGAATG-CC-AAAGGGTTGCATGCAT
315 GACACTTGTGGAATTTGTGTCGATA-CTTTTGTCCAGAAGGAATGCCCAAAAGGG-TGCACGCAA
1528639 AAAGTGTCGATAC
378 AAAGTGTCGATAC
* * * ** * * *
1528652 TTTTTTAAAAAGTTTCGATCCCAATAACATCAAAACTGATAATTATAATGTAATAGGTAAATTTC
1 ATTTATAAAAAGTTTCGATCCCAA-AACATCGAAACCCATAATTATAATGCAATAGGTAATTTTA
* * * * * * *
1528717 CAATGTAATCGGTATAAATATATCTGTTTTATGAGA-AACTAGGTC-ATCATAAAGTATCGACAA
65 TAATATAACCGGTATAAATATACCGGTTTTATGAGAGAA-TAGGTCTA-CA-AATGTATCGACAC
* *
1528780 TTGTTAAATTTATGTCGATA
127 TT-TTTAATTTGTGTCGATA
1528800 ACATGTTAAA
Statistics
Matches: 781, Mismatches: 92, Indels: 105
0.80 0.09 0.11
Matches are distributed among these distances:
376 8 0.01
377 82 0.10
378 20 0.03
379 204 0.26
380 16 0.02
382 1 0.00
394 1 0.00
396 1 0.00
398 19 0.02
399 293 0.38
400 39 0.05
401 97 0.12
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (390 bp):
ATTTATAAAAAGTTTCGATCCCAAAACATCGAAACCCATAATTATAATGCAATAGGTAATTTTAT
AATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAAATGTATCGACACTTTT
TAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCCAAAATGATGACCACTAAGTGTCGATATA
TTTATAAAAGTGTCGATCCAGAAACATCGAAATCCATAATTATAATGTAATATGTAATTTTTCAA
TGTAATCGGTATAATTATACTGGTTTTATGAGAGAATAGGTCTAAATATGTATCGACACTTGTGG
AATTTGTGTCGATACTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGCAAAAAGTGTCGATAC
Found at i:1528382 original size:179 final size:179
Alignment explanation
Indices: 1528082--1528427 Score: 459
Period size: 179 Copynumber: 1.9 Consensus size: 179
1528072 ATATTTATAA
* * * * **
1528082 TAAGTGTCGATCCTAGAAACATCGAAATCCATAATTATAATGTAATATGTAATTTTTCAATGTAA
1 TAAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAATCTAATAGGTAATTTTTCAATACAA
* * ** *
1528147 TCGGTATACTTATACCGGTTTTATGAGAGAATATGTGTATAATATGTATCGACACTTGTGTAATT
66 CCGATATAAATATACCAGTTTTATGAGAGAATATGTGTATAATATGTATCGACACTTGTGTAATT
1528212 TGTGTCGATAC-TTTTGGTCCAGAATGAATGCACAAAAAGGGTGCACCAC
131 TGTGTCGATACATTTT-GTCCAGAATGAATGCACAAAAAGGGTGCACCAC
1528261 TAAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAATCTAATAGGTAATTTTGT-AATACA
1 TAAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAATCTAATAGGTAATTTT-TCAATACA
* * *
1528325 ACCGATATAAATATACCAGTTTTAT-ATGAGAATA-G-GTCTACATAATGTATCGACACTTTTTT
65 ACCGATATAAATATACCAGTTTTATGA-GAGAATATGTGTATA-AT-ATGTATCGACACTTGTGT
* * *
1528387 ATTTTGTGTCGATACATTTTGTCCATAATGAATGCCCAAAA
127 AATTTGTGTCGATACATTTTGTCCAGAATGAATGCACAAAA
1528428 TGATGAACGC
Statistics
Matches: 145, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
177 4 0.03
178 4 0.03
179 132 0.91
180 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (179 bp):
TAAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAATCTAATAGGTAATTTTTCAATACAA
CCGATATAAATATACCAGTTTTATGAGAGAATATGTGTATAATATGTATCGACACTTGTGTAATT
TGTGTCGATACATTTTGTCCAGAATGAATGCACAAAAAGGGTGCACCAC
Found at i:1528468 original size:379 final size:373
Alignment explanation
Indices: 1527885--1528649 Score: 988
Period size: 379 Copynumber: 2.0 Consensus size: 373
1527875 ATTTATAAAC
* * * *
1527885 AAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGC-AATAGGTAATTTTTCAATGTAA
1 AAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAAT-CTAATAGGTAATTTTT-AATATAA
* * * * * *
1527949 CCGGTATACATATACCGGTTTTATGA-GAGAATAGGTGTAC--AATATATCGACACTTGTGTAAT
64 CCGGTATAAATATACCGGTTTTAT-ATGAGAATAGGTCTACATAATGTATCGACACTTTTTTATT
* * * *
1528011 TTGTGTCGATACTTTTGGTCCAAAAGGAATGCCCAAAAGGGGTGCACCACT-AAGTGTCGATATA
128 TTGTGTCGATACTTTT-GTCCAAAATGAATGCCCAAAA-TGATGAACCA-TAAAGTGTCGATATA
*
1528075 TTTATAATAAGTGTCGATCCTAGAAACATCGAAATCCATAATTATAATGTAATATGTAATTTTTC
190 TTTATAAAAAGTGTCGATCC-AGAAACATCGAAATCCATAATTATAATGTAATATGTAATTTTTC
* * * *
1528140 AATGTAATCGGTATACTTATACCGGTTTTATGAGAGAATATGTGTATAATATGTATCGACACTTG
254 AATGTAATCGGTATAATTATACTGGTTTTATGAGAGAATAGGTCTA-AATATGTATCGACACTTG
* * **
1528205 TGTAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCACAAAAAGGGTGCAC-CACT
318 TGGAATTTGTGTCGATACTTTT-GTCCAGAAGGAATGC-CAAAAAGGGTGCACGCAAA
*
1528262 AAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAATCTAATAGGTAATTTTGTAATACAAC
1 AAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAATCTAATAGGTAATTTT-TAATATAAC
* *
1528327 CGATATAAATATACCAGTTTTATATGAGAATAGGTCTACATAATGTATCGACACTTTTTTATTTT
65 CGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGTATCGACACTTTTTTATTTT
* *
1528392 GTGTCGATACATTTTGTCCATAATGAATGCCCAAAATGATGAACGCATAAAGTATCGATATATTT
130 GTGTCGATAC-TTTTGTCCAAAATGAATGCCCAAAATGATGAAC-CATAAAGTGTCGATATATTT
* * *
1528457 ATAAAAAGTGTCGATACCAGAAACATCGAAATCCATAAATATAATGTAATATGTAAATTTACAAT
193 ATAAAAAGTGTCGAT-CCAGAAACATCGAAATCCATAATTATAATGTAATATGTAATTTTTCAAT
* * *
1528522 GTAATCGGTATATTTATACTAGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTGTGG
257 GTAATCGGTATAATTATACTGGTTTTATGAGAGAATAGGTCTA-AATATGTATCGACACTTGTGG
* * *
1528587 AATTGGTGTCGATACCTTTTGTCCAGAAGGAATGCC--AAAGGGTTGCATGCATA
321 AATTTGTGTCGATA-CTTTTGTCCAGAAGGAATGCCAAAAAGGG-TGCACGCAAA
1528640 AAGTGTCGAT
1 AAGTGTCGAT
1528650 ACTTTTTTAA
Statistics
Matches: 340, Mismatches: 36, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
376 8 0.02
377 93 0.27
378 20 0.06
379 208 0.61
380 11 0.03
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (373 bp):
AAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAATCTAATAGGTAATTTTTAATATAACC
GGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGTATCGACACTTTTTTATTTTG
TGTCGATACTTTTGTCCAAAATGAATGCCCAAAATGATGAACCATAAAGTGTCGATATATTTATA
AAAAGTGTCGATCCAGAAACATCGAAATCCATAATTATAATGTAATATGTAATTTTTCAATGTAA
TCGGTATAATTATACTGGTTTTATGAGAGAATAGGTCTAAATATGTATCGACACTTGTGGAATTT
GTGTCGATACTTTTGTCCAGAAGGAATGCCAAAAAGGGTGCACGCAAA
Found at i:1528536 original size:20 final size:20
Alignment explanation
Indices: 1528499--1528537 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1528489 CCATAAATAT
*
1528499 AATGTAATATGTAAATTTAC
1 AATGTAATAGGTAAATTTAC
* *
1528519 AATGTAATCGGTATATTTA
1 AATGTAATAGGTAAATTTA
1528538 TACTAGTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (20 bp):
AATGTAATAGGTAAATTTAC
Found at i:1528646 original size:578 final size:578
Alignment explanation
Indices: 1527699--1528752 Score: 1428
Period size: 578 Copynumber: 1.8 Consensus size: 578
1527689 TCAATCCCAG
* ** * * *
1527699 AAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAGTAAACT
1 AAACATCGAAACCCATAATTATAATCTAATAGGTAATTTTTCAATACAACCGATATAAATAAACC
*
1527764 GGTTTTATGAGAGAATAGGTCTAAATAATGTATCAACACTTCTGGAATTTGTGTCGATAATATTT
66 AGTTTTATGAGAGAATAGGTCTAAATAATGTATCAACACTTCTGGAATTTGTGTCGATAATATTT
* * *
1527829 CTCCAGAAGGAATGCCCAAAAGGGTGCACGCAAAAAGTGTCGATACATTTATAAACAAGTATCGA
131 CTCCAGAAGGAATGCCCAAAAGGATGAACGCAAAAAGTATCGATACATTTATAAACAAGTATCGA
* * * *
1527894 TCCCAGAAACATCGAAACCCATAATTATAATGCAATAGGTAATTTTTCAATGTAACCGGTATACA
196 TACCAGAAACATCGAAACCCATAAATATAATGCAATAGGTAAATTTACAATGTAACCGGTATACA
* * * *
1527959 TATACCGGTTTTATGAGAGAATAGGTGTACAATATATCGACACTTGTGTAATTTGTGTCGATACT
261 TATACCAGTTTTATGAGAGAATAGGTCTACAATATATCGACACTTGTGGAATTGGTGTCGATACT
*
1528024 TTTGGTCCAAAAGGAATGCCCAAAAGGGGTGCACCACTAAGTGTCGATA-TATTTATAATAAGTG
326 TTTGGTCCAAAAGGAATGCCCAAAAGGGGTGCACCACTAAGTGTCGATACT-TTTATAAAAAGTG
* * * * *
1528088 TCGATCCTAGA-AACATCGAAA-TCCATAATTATAATGTAATATGTAATTTTTCAATGTAATCGG
390 TCGATCCCA-ATAACATCAAAACT-CATAATTATAATGTAATAGGTAAATTTCCAATGTAATCGG
**
1528151 TATACTTATACCGGTTTTATGAGAGAATATGTGTATAATATGTATCGACACTTGTGTAATTTGTG
453 TATAAATATACCGGTTTTATGAGAGAATATGTGTATAATATGTATCGACACTTGTGTAATTTGTG
1528216 TCGATACTTTTGGTCCAGAATGAATGCACAAAAAGGGTGCACCACTAAGTGTCGATCCTAA
518 TCGATACTTTTGGTCCAGAATGAATGCACAAAAAGGGTGCACCACTAAGTGTCGATCCTAA
*
1528277 AAACATCGAAACCCATAATTATAATCTAATAGGTAATTTTGT-AATACAACCGATATAAATATAC
1 AAACATCGAAACCCATAATTATAATCTAATAGGTAATTTT-TCAATACAACCGATATAAATAAAC
* * * ** *
1528341 CAGTTTTAT-ATGAGAATAGGTCTACATAATGTATCGACACTTTTTTATTTTGTGTCGATACAT-
65 CAGTTTTATGA-GAGAATAGGTCTAAATAATGTATCAACACTTCTGGAATTTGTGTCGATA-ATA
* * * * * * *
1528404 TTTGTCCATAATGAATGCCCAAAATGATGAACGCATAAAGTATCGATATATTTATAAA-AAGTGT
128 TTTCTCCAGAAGGAATGCCCAAAAGGATGAACGCAAAAAGTATCGATACATTTATAAACAAGTAT
* * * *
1528468 CGATACCAGAAACATCGAAATCCATAAATATAATGTAATATGTAAATTTACAATGTAATCGGTAT
193 CGATACCAGAAACATCGAAACCCATAAATATAATGCAATAGGTAAATTTACAATGTAACCGGTAT
** * *
1528533 ATTTATACTAGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTGTGGAATTGGTGTCG
258 ACATATACCAGTTTTATGAGAGAATAGGTCTAC-A-ATATATCGACACTTGTGGAATTGGTGTCG
* * * *
1528598 ATACCTTTT-GTCCAGAAGGAATG-CC-AAAGGGTTGCATGCA-TAAAGTGTCGATACTTTTTTA
321 ATA-CTTTTGGTCCAAAAGGAATGCCCAAAAGGGGTGCA-CCACT-AAGTGTCGATACTTTTATA
* *
1528659 AAAAGTTTCGATCCCAATAACATCAAAACTGATAATTATAATGTAATAGGTAAATTTCCAATGTA
383 AAAAGTGTCGATCCCAATAACATCAAAACTCATAATTATAATGTAATAGGTAAATTTCCAATGTA
* *
1528724 ATCGGTATAAATATATCTGTTTTATGAGA
448 ATCGGTATAAATATACCGGTTTTATGAGA
1528753 AACTAGGTCA
Statistics
Matches: 409, Mismatches: 56, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
577 103 0.25
578 254 0.62
579 47 0.11
580 5 0.01
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (578 bp):
AAACATCGAAACCCATAATTATAATCTAATAGGTAATTTTTCAATACAACCGATATAAATAAACC
AGTTTTATGAGAGAATAGGTCTAAATAATGTATCAACACTTCTGGAATTTGTGTCGATAATATTT
CTCCAGAAGGAATGCCCAAAAGGATGAACGCAAAAAGTATCGATACATTTATAAACAAGTATCGA
TACCAGAAACATCGAAACCCATAAATATAATGCAATAGGTAAATTTACAATGTAACCGGTATACA
TATACCAGTTTTATGAGAGAATAGGTCTACAATATATCGACACTTGTGGAATTGGTGTCGATACT
TTTGGTCCAAAAGGAATGCCCAAAAGGGGTGCACCACTAAGTGTCGATACTTTTATAAAAAGTGT
CGATCCCAATAACATCAAAACTCATAATTATAATGTAATAGGTAAATTTCCAATGTAATCGGTAT
AAATATACCGGTTTTATGAGAGAATATGTGTATAATATGTATCGACACTTGTGTAATTTGTGTCG
ATACTTTTGGTCCAGAATGAATGCACAAAAAGGGTGCACCACTAAGTGTCGATCCTAA
Found at i:1528798 original size:199 final size:198
Alignment explanation
Indices: 1528262--1528799 Score: 568
Period size: 199 Copynumber: 2.7 Consensus size: 198
1528252 GTGCACCACT
* * * * ** ** *
1528262 AAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAATCTAATAGGTAATTTTGTAATACAAC
1 AAGTGTCGATCC-CAAAACATCGAAACTCATAATTATAATGTAATAGGTAAATTTACAATGTAAT
* * * * *
1528327 CGATATAAATATACCAGTTTTAT-ATGAGAATAGGTCTACATAATGTATCGACACTTTTTTATTT
65 CGGTATAAATATA-CTGTTTTATGA-GAGAATAGGTCTACATAATGTATCGACACTTGTTAAATT
* * *
1528391 TGTGTCGATACATTTTGTCCATAATGAATGCCCAAAATGATGAACGCATAAAGTATCGATATATT
128 TGTGTCGATACATTTTGTCCAGAAGGAATGCCCAAAAGGATGAACGCATAAAGTATCGATATATT
1528456 TATAAA
193 TATAAA
* * *
1528462 AAGTGTCGATACCAGAAACATCGAAA-TCCATAAATATAATGTAATATGTAAATTTACAATGTAA
1 AAGTGTCGATCCCA-AAACATCGAAACT-CATAATTATAATGTAATAGGTAAATTTACAATGTAA
** **
1528526 TCGGTATATTTATACTAGTTTTATGAGAGAATAGGTCTACA-ACATGTATCGACACTTGTGGAAT
64 TCGGTATAAATATACT-GTTTTATGAGAGAATAGGTCTACATA-ATGTATCGACACTTGTTAAAT
* * * * * * *
1528590 TGGTGTCGATACCTTTTGTCCAGAAGGAATG-CCAAAGGGTTGCATGCATAAAGTGTCGATACT-
127 TTGTGTCGATACATTTTGTCCAGAAGGAATGCCCAAAAGGATGAACGCATAAAGTATCGATA-TA
*
1528653 TTTTTAAA
191 TTTATAAA
* * * *
1528661 AAGTTTCGATCCCAATAACATCAAAACTGATAATTATAATGTAATAGGTAAATTTCCAATGTAAT
1 AAGTGTCGATCCCAA-AACATCGAAACTCATAATTATAATGTAATAGGTAAATTTACAATGTAAT
* *
1528726 CGGTATAAATATATCTGTTTTATGAGA-AACTAGGTC-ATCATAAAGTATCGACAATTGTTAAAT
65 CGGTATAAATATA-CTGTTTTATGAGAGAA-TAGGTCTA-CATAATGTATCGACACTTGTTAAAT
*
1528789 TTATGTCGATA
127 TTGTGTCGATA
1528800 ACATGTTAAA
Statistics
Matches: 280, Mismatches: 46, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
198 4 0.01
199 144 0.51
200 131 0.47
201 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (198 bp):
AAGTGTCGATCCCAAAACATCGAAACTCATAATTATAATGTAATAGGTAAATTTACAATGTAATC
GGTATAAATATACTGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTGTTAAATTTGT
GTCGATACATTTTGTCCAGAAGGAATGCCCAAAAGGATGAACGCATAAAGTATCGATATATTTAT
AAA
Found at i:1530265 original size:6 final size:6
Alignment explanation
Indices: 1530213--1530277 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
1530203 CAAGAGGTCA
* * * * * * *
1530213 ATGAAG ATGAAG ATGACG ATAAAG ATGATG ATGATG ATCAAG ATGATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
*
1530261 ATGATG ATTATG ATGAT
1 ATGATG ATGATG ATGAT
1530278 CCAAACAAGT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.42, C:0.03, G:0.28, T:0.28
Consensus pattern (6 bp):
ATGATG
Found at i:1530265 original size:18 final size:18
Alignment explanation
Indices: 1530216--1530268 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
1530206 GAGGTCAATG
* *
1530216 AAGATGAAGATGACGATA
1 AAGATGATGATGATGATA
*
1530234 AAGATGATGATGATGATC
1 AAGATGATGATGATGATA
1530252 AAGATGATGATGATGAT
1 AAGATGATGATGATGAT
1530269 TATGATGATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.43, C:0.04, G:0.28, T:0.25
Consensus pattern (18 bp):
AAGATGATGATGATGATA
Found at i:1531272 original size:11 final size:11
Alignment explanation
Indices: 1531256--1531318 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
1531246 TGTTGTGGGT
1531256 ACATTATTTGA
1 ACATTATTTGA
1531267 ACATTATTTGA
1 ACATTATTTGA
*
1531278 ACATTGTTATGTA
1 ACATTATT-TG-A
*
1531291 TAAATTATTTGA
1 -ACATTATTTGA
1531303 ACATTATTTGA
1 ACATTATTTGA
1531314 ACATT
1 ACATT
1531319 GTTATGTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
11 33 0.73
12 3 0.07
13 3 0.07
14 6 0.13
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (11 bp):
ACATTATTTGA
Found at i:1531285 original size:36 final size:36
Alignment explanation
Indices: 1531258--1531332 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
1531248 TTGTGGGTAC
*
1531258 ATTATTTGAACATTATTTGAACATTGTTATGTATAA
1 ATTATTTGAACATTATTTGAACATTGTTATGGATAA
*
1531294 ATTATTTGAACATTATTTGAACATTGTTATGTATAA
1 ATTATTTGAACATTATTTGAACATTGTTATGGATAA
1531330 ATT
1 ATT
1531333 TCTTGTGTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (36 bp):
ATTATTTGAACATTATTTGAACATTGTTATGGATAA
Found at i:1531610 original size:15 final size:15
Alignment explanation
Indices: 1531590--1531628 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1531580 TCTCCACAAC
* *
1531590 AAAGTTTTCATACAT
1 AAAGTTTCCAAACAT
*
1531605 AAAGTTTCCAAACTT
1 AAAGTTTCCAAACAT
1531620 AAAGTTTCC
1 AAAGTTTCC
1531629 CATAAAGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (15 bp):
AAAGTTTCCAAACAT
Found at i:1532126 original size:200 final size:199
Alignment explanation
Indices: 1531629--1532795 Score: 1315
Period size: 200 Copynumber: 5.8 Consensus size: 199
1531619 TAAAGTTTCC
* * *
1531629 CATAAAGTGTCGATACATTTTTAAAATGTATCGATCCCAGAAACATCGAAATCC-ATAAATATAA
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAA-CCAATAATTATAA
* * * * * * *
1531693 TATAATAGGTAAATTTACAATGTAAACGGTATAACTAAACTGGTTTTATGAGAGAATAGGTCTAC
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTAC
* * * * * *
1531758 AAAATTTATCGACACTTCTGGAATTTGTGTCGATATTTTTTCTCCAGAAGGAATGCCCATAAAGA
130 ATAATGTATCGACACTT-TTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCA-AAAG-
** *
1531823 AAT-CACT
192 GGTGCACG
* * * *
1531830 CATAAAGTGTCGAAACATTTTTAAAACGTATCGATCCCAAAAACATCAAAACTAATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * ** * *
1531895 GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
* * * * *
1531960 TAATATGTCGAAACTTTTTAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGGGT
131 TAATGTATCGACACTTTTGAAT-TTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGT
*
1532025 GAACG
195 GCACG
* * * *
1532030 CATAAAGTGGCGATACATATATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * * * * * *
1532095 GTAATAGGTAAATTTACAATTTAATCGGTATAAATAAACC-CTTTTTTGAGAAAATAGATATACA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
* * * * * * *
1532159 TAATGTATCGACACTTGTGGAATTTGTTTCCATACTTTTGGTCCACAAGGAAAAT-CCAAAAAGG
131 TAATGTATCGACACTT-TTGAATTTGTGTCGATACTTTTTGTCCAGAATG--AATGCCCAAAAGG
*
1532223 GTGCACC
193 GTGCACG
* * * * *
1532230 CATAAAGTGTCGATACATTTTTAAACAGTATCGATCCCTAAAACATCAAAACCCATAAATATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* ** ** ** *
1532295 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATATTGGTTTTATGTCAGAATAGGTCTACA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
* ** * * *
1532360 TAATGTGTCGACACGATTGAATGATGTGTTGATACTTATTGTCCAGAATGAATGCCCAAAAGGGT
131 TAATGTATCGACACTTTTGAAT-TTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGT
*
1532425 GAACG
195 GCACG
*
1532430 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * ** ** **
1532495 ATAATAGGTAAATTTACAATGTAACCGGT-TAAATATACCAATTTTATGTTAAAATAGGTGAACA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
* * *
1532559 TAATGTATAGACACGTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAAGGGT
131 TAATGTATCGACAC-TTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGG-
1532623 TGCACG
194 TGCACG
*
1532629 CATAAAGTGTCGATACATGTTTTAAAAAGTATCGAT-CCAAAAAAATCGAAACCAATAATTATAA
1 CATAAAGTGTCGATACAT-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAA
* * * * **
1532693 TGTAATAGGTAAATTTACAATTTAACCAGTTTAAATATACCAGTTTTATGAGAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTAC
1532758 ATAATGTATCGACACGTTTT-AGATTTGTGTCGATACTT
130 ATAATGTATCGACAC-TTTTGA-ATTTGTGTCGATACTT
1532796 ATAAATAACG
Statistics
Matches: 810, Mismatches: 142, Indels: 29
0.83 0.14 0.03
Matches are distributed among these distances:
198 9 0.01
199 200 0.25
200 395 0.49
201 206 0.25
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (199 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
TAATGTATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTG
CACG
Found at i:1536954 original size:199 final size:198
Alignment explanation
Indices: 1536220--1537144 Score: 996
Period size: 201 Copynumber: 4.6 Consensus size: 198
1536210 ACCTAAATAT
* * *
1536220 GTGTCGATACATTT-TCTAAATGTATCGACCCAAAAAACATCGAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTTAT-TAAAAGTATCGA-TCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
1536284 AGGTAAATTAACAATGTAACC-AGTATAAATATATCG-GTTAATTAGAAAACAGGTCAACATAAT
64 AGGTAAATTTACAATGTAACCGA-TATAAATATATCGATTTTATGAGAAAATAGGTCAACATAAT
* * *
1536347 ATATCGACACTTGTGT-AATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGAGT
128 GTATCGACACTT-T-TAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCC-AACGAGGTGC
1536411 ACGCATAAA
190 ACGCATAAA
* * * *
1536420 GTGTCGATACAATTATTAAAAGTATTGATCCCAATAAA-ATCAAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGAT--CAAAAAACATCGAAACCGATAATTATAATGTAAT
* ** *
1536484 AGGTAAATTTACAATGTAACCGATATAAATATATCAATTTTATGTTAAAATAGGTGAACATAATG
64 AGGTAAATTTACAATGTAACCGATATAAATATATCGATTTTATGAGAAAATAGGTCAACATAATG
* * * * *
1536549 TATCGACACATTTTATATTTGTTTCAATACTTTTTGTCCAAAATGAATG-CCAAC-AGGGTTGCA
129 TATCGACAC-TTTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAACGA-GG-TGCA
1536612 CGCATAAA
191 CGCATAAA
*
1536620 GTGTCGATACATGTT-TTAAAAAGTATCGATTCAAAAAACATCGAAATCGATAATTATAATGTAA
1 GTGTCGATACAT-TTATT-AAAAGTATCGA-TCAAAAAACATCGAAACCGATAATTATAATGTAA
* * * * * * * *
1536684 TATGTAAATTTATAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGTCATCATAAA
63 TAGGTAAATTTACAATGTAACCGATATAAATATATCGATTTTATGAGAAAATAGGTCAACATAAT
* * *
1536749 GTATCGACACTTATTAAATTTGTGTCGTTACATT-TTGTCCATAATGAATGCCAAACG-GGTGCA
128 GTATCGACACTT-TTAAATTTGTGTCGATAC-TTATTGTCCAGAATGAATGCCCAACGAGGTGCA
1536812 CGCATAAA
191 CGCATAAA
* * ** * * *
1536820 GTGTCAATACATTTATTAAAACTATCGATCCCAAAACTATCGAAACCAATAATTACAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATCAAAAAAC-ATCGAAACCGATAATTATAATGTAATA
* * * * * *
1536885 GGTAAATTTACAATGTACCCAATAGAAATATATCGATTTTATGAAAAAATATGTTTAA-ATAATG
65 GGTAAATTTACAATGTAACCGATATAAATATATCGATTTTATGAGAAAATA-GGTCAACATAATG
* * * * *
1536949 TATCGACACTCTTTAAGTTTATGTCGATACTTGTT-TCCAGAATGAATGTCCAACGAGGTGCACA
129 TATCGACACT-TTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAACGAGGTGCACG
1537013 CATAAA
193 CATAAA
*
1537019 GTGTCGATACATTTA--AAATTGTATCGATCTAAAAAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATC-AAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * * * * *
1537082 AGGTAAATTTGCAATGTTACCGATATAAATATATTGGTTTTCTTATAAAATAGGTCAATATAA
64 AGGTAAATTTACAATGTAACCGATATAAATATATCGATTTTATGAGAAAATAGGTCAACATAA
1537145 GCGCTACCTA
Statistics
Matches: 603, Mismatches: 96, Indels: 54
0.80 0.13 0.07
Matches are distributed among these distances:
197 7 0.01
198 104 0.17
199 145 0.24
200 142 0.24
201 196 0.33
202 9 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (198 bp):
GTGTCGATACATTTATTAAAAGTATCGATCAAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGATATAAATATATCGATTTTATGAGAAAATAGGTCAACATAATGTA
TCGACACTTTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAACGAGGTGCACGCAT
AAA
Found at i:1537231 original size:87 final size:87
Alignment explanation
Indices: 1537139--1537301 Score: 308
Period size: 87 Copynumber: 1.9 Consensus size: 87
1537129 AAATAGGTCA
*
1537139 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
1537204 CTGGTTAAATGCCTATTTTATT
66 CTGGTTAAATGCCTATTTTATT
*
1537226 ATATAAGCGCTACCTATTACATTATATAAATGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
1537291 CTGGTTAAATG
66 CTGGTTAAATG
1537302 ATATAACATA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
CTGGTTAAATGCCTATTTTATT
Found at i:1537273 original size:23 final size:23
Alignment explanation
Indices: 1537223--1537267 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1537213 TGCCTATTTT
* *
1537223 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
*
1537246 ATTATATAAATGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
1537268 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:1542394 original size:33 final size:34
Alignment explanation
Indices: 1542332--1542408 Score: 147
Period size: 33 Copynumber: 2.3 Consensus size: 34
1542322 CGATTATATA
1542332 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
1542366 TATATATATAATATTTTAT-TTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
1542399 TATATATATA
1 TATATATATA
1542409 TATAATATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 24 0.56
34 19 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTTTATATTAAT
Found at i:1542402 original size:42 final size:40
Alignment explanation
Indices: 1542324--1542419 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 40
1542314 CCCCGCCCCG
*
1542324 ATTATATATATATATATAATATTTTATATT--TTTTA-T-
1 ATTATATATATATATATAATATTTTATATTAATTATATTA
**
1542360 ATTA-AT-TATATATATAATATTTTAT-TTTTTTATATTA
1 ATTATATATATATATATAATATTTTATATTAATTATATTA
1542397 A-T-TATATATATATATAATATTTT
1 ATTATATATATATATATAATATTTT
1542420 CGGGTTCGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
33 2 0.04
34 19 0.36
35 6 0.11
36 8 0.15
37 18 0.34
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (40 bp):
ATTATATATATATATATAATATTTTATATTAATTATATTA
Found at i:1543353 original size:460 final size:460
Alignment explanation
Indices: 1542464--1543374 Score: 1644
Period size: 461 Copynumber: 2.0 Consensus size: 460
1542454 TTTTGAGTCG
*
1542464 GGGTCAGGGATTTATTTTGGGTTCGGGATATTGATTATGCAGTGGGTGATGATGTTTTCTTGAAA
1 GGGTCAAGGATTTATTTTGGGTTCGGGATATTGATTATGCAGTGGGTGATGATGTTTTCTTGAAA
1542529 GTATCTCCATGGAGGAAAGTGTTGTGTTTTGGTTTGAATGGTAAATCGAGTTCTCGTTTCATTGG
66 GTATCTCCATGGAGGAAAGTGTTGTGTTTTGGTTTGAATGGTAAATCGAGTTCTCGTTTCATTGG
1542594 GTCTTATTGGATTATTCGTCGTGTCAGACCAGAGGCTTACCAGCTTGAGATACCACCTGAACTTG
131 GTCTTATTGGATTATTCGTCGTGTCAGACCAGAGGCTTACCAGCTTGAGATACCACCTGAACTTG
* * *
1542659 CTCGCATTCATGATATTTTTCATGTTTCTGTGTTGAGACATTATAAAACCGACCTGTCTCACGTA
196 CTCGCATTCATGACATTTTTCATGTTTCCGTGTTGAGACATTATAAAACCGACCCGTCTCACGTA
1542724 ATAGATATGGAAAGGGTAGAGATCCGACCCGACTTGAGGTTTAAAGATGAGCCAGTTGAAATTCT
261 ATAGATATGGAAAGGGTAGAGATCCGACCCGACTTGAGGTTTAAAGATGAGCCAGTTGAAATTCT
*
1542789 TAAGAAGGATAAGAAAGTTCTCCAGAGAATGACCGTCAAGATGGTCAAAGTCTTGTGGTAACCGG
326 TAAGAAGGATAAGAAAGTTCTACAGAGAATGACCGTCAAGATGGTCAAAGTCTTGTGGTAACCGG
* *
1542854 GGTTATGATGAGTCCGTGTGGGAGGCCATGAAAGTTCAGTATCCTCATCTCTTTCCTCTAGAGAA
391 GGTTATGATGAGTCCATGTGGGAGGCCATGAAAGTTCAGTATCCTCATATCTTTCCTCTAGAGAA
1542919 GGAAA
456 GGAAA
**
1542924 GGGTCAAGGATTTATTTTGGGTTCAGGGATATTGATTATGTTGTGGGTGATGATGTTTTCTTGAA
1 GGGTCAAGGATTTATTTTGGGTTC-GGGATATTGATTATGCAGTGGGTGATGATGTTTTCTTGAA
*
1542989 AGTATCTCCATGGAGGAAGGTGTTGTGTTTTGGTTTGAATGGTAAATCGAGTTCTCGTTTCATTG
65 AGTATCTCCATGGAGGAAAGTGTTGTGTTTTGGTTTGAATGGTAAATCGAGTTCTCGTTTCATTG
*
1543054 GGTCTTATTGGATTATTCGTCGTGTCAGACCAGAGGCTTACCAGCTTGAGCTACCACCTGAACTT
130 GGTCTTATTGGATTATTCGTCGTGTCAGACCAGAGGCTTACCAGCTTGAGATACCACCTGAACTT
*
1543119 GCTCTCATTCATGACATTTTTCATGTTTCCGTGTTGAGACATTATAAAACCGACCCGTCTCACGT
195 GCTCGCATTCATGACATTTTTCATGTTTCCGTGTTGAGACATTATAAAACCGACCCGTCTCACGT
* *
1543184 AATAGATATGGAAA-GGTAGAGATCCGACCCGACTTGAGGTTTGAAGATGAGTCAGTTGAAATTC
260 AATAGATATGGAAAGGGTAGAGATCCGACCCGACTTGAGGTTTAAAGATGAGCCAGTTGAAATTC
* * * *
1543248 TTGAGAAGGATAAGAAAGTTCTACAGAGAATGTCCGTTAAGATGGTCAAAGTCTTGTGGTAATCG
325 TTAAGAAGGATAAGAAAGTTCTACAGAGAATGACCGTCAAGATGGTCAAAGTCTTGTGGTAACCG
1543313 GGGTTATGATGAGTCCATGTGGGAGGCCATGAAAGTTCAGTATCCTCATATCTTTCCTCTAG
390 GGGTTATGATGAGTCCATGTGGGAGGCCATGAAAGTTCAGTATCCTCATATCTTTCCTCTAG
1543375 GTAAATTTTG
Statistics
Matches: 432, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
460 191 0.44
461 241 0.56
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (460 bp):
GGGTCAAGGATTTATTTTGGGTTCGGGATATTGATTATGCAGTGGGTGATGATGTTTTCTTGAAA
GTATCTCCATGGAGGAAAGTGTTGTGTTTTGGTTTGAATGGTAAATCGAGTTCTCGTTTCATTGG
GTCTTATTGGATTATTCGTCGTGTCAGACCAGAGGCTTACCAGCTTGAGATACCACCTGAACTTG
CTCGCATTCATGACATTTTTCATGTTTCCGTGTTGAGACATTATAAAACCGACCCGTCTCACGTA
ATAGATATGGAAAGGGTAGAGATCCGACCCGACTTGAGGTTTAAAGATGAGCCAGTTGAAATTCT
TAAGAAGGATAAGAAAGTTCTACAGAGAATGACCGTCAAGATGGTCAAAGTCTTGTGGTAACCGG
GGTTATGATGAGTCCATGTGGGAGGCCATGAAAGTTCAGTATCCTCATATCTTTCCTCTAGAGAA
GGAAA
Found at i:1544518 original size:23 final size:23
Alignment explanation
Indices: 1544492--1544538 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1544482 CATTGTGATT
1544492 ACCGTTGATGATTTGACGTATAA
1 ACCGTTGATGATTTGACGTATAA
1544515 ACCGTTGATGATTTGACGTATAA
1 ACCGTTGATGATTTGACGTATAA
1544538 A
1 A
1544539 TGTTATTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (23 bp):
ACCGTTGATGATTTGACGTATAA
Found at i:1545309 original size:18 final size:19
Alignment explanation
Indices: 1545269--1545309 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
1545259 TTTATATATT
* *
1545269 TTAATTTAAATTCACATAC
1 TTAAATTAAATTCAAATAC
1545288 -TAAATTAAATTCAAAT-C
1 TTAAATTAAATTCAAATAC
1545305 TTAAA
1 TTAAA
1545310 AATAAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATTAAATTCAAATAC
Found at i:1545382 original size:30 final size:30
Alignment explanation
Indices: 1545313--1545404 Score: 103
Period size: 30 Copynumber: 3.1 Consensus size: 30
1545303 TCTTAAAAAT
* * * *
1545313 AAAAACTATTTTGTTTTTATATTAACTTAT
1 AAAAAATATTTTATTTTTATTTTAACTTAA
* * *
1545343 TAAATATATTTTATTTTTATTTTAAATTAA
1 AAAAAATATTTTATTTTTATTTTAACTTAA
* *
1545373 AAAAAATATTTTAGTCTTATTTTAACTTAA
1 AAAAAATATTTTATTTTTATTTTAACTTAA
1545403 AA
1 AA
1545405 TATGTTTTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (30 bp):
AAAAAATATTTTATTTTTATTTTAACTTAA
Found at i:1545654 original size:184 final size:181
Alignment explanation
Indices: 1545374--1545778 Score: 532
Period size: 184 Copynumber: 2.2 Consensus size: 181
1545364 TTAAATTAAA
* * * * *
1545374 AAAAATATTTTAGTCTTATTTTAACTTA--AAATATGTTTTATTCTTTTCATAATTTTAAAAAAT
1 AAAAATATTTTACTTTTATCTTAACTTATGAAATATATTTTATTCTTATCATAATTTTAAAAAAT
*
1545437 ATATTTTTAATTAAATTAACATATTAAAATTAAAAAT-AGATATTCTATCTCAACTTATTAAATA
66 ATATTTTTAATTAAATTAACATATTAAAATT-AAAATGAGATATTCTATCTCAAATTATTAAATA
*
1545501 TATTTTACTCTTATTTTAGTTTAAAAATATATATTTTAATCTTATTATTTTAGCTT
130 TATTTTACTCTTATTTTAATTTAAAAA-ATATATTTTAATC---TTATTTTAGCTT
* *
1545557 AAAAATATTTTACTTTTATCTTAAATTATGAAATATATTTTATTCTTATC-TCAATTTT-ACAAA
1 AAAAATATTTTACTTTTATCTTAACTTATGAAATATATTTTATTCTTATCAT-AATTTTAAAAAA
* * * * *
1545620 TATGTTTTTAATTAAATTCACATATTAAAATTAAAATGATATATTTTATCTTAAATTATTAAATA
65 TATATTTTTAATTAAATTAACATATTAAAATTAAAATGAGATATTCTATCTCAAATTATTAAATA
* * *
1545685 TATTTTATTCTTATTTTAATTTTAAAAATATATTTTAGTCTTATTTTAGCTT
130 TATTTTACTCTTATTTTAATTTAAAAAATATATTTTAATCTTATTTTAGCTT
* ** *
1545737 TAAAATATTTTGTTTTTATCTTAACTTATGAAATACATTTTA
1 AAAAATATTTTACTTTTATCTTAACTTATGAAATATATTTTA
1545779 CTTTATTTTA
Statistics
Matches: 196, Mismatches: 22, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
180 49 0.25
183 41 0.21
184 82 0.42
185 24 0.12
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (181 bp):
AAAAATATTTTACTTTTATCTTAACTTATGAAATATATTTTATTCTTATCATAATTTTAAAAAAT
ATATTTTTAATTAAATTAACATATTAAAATTAAAATGAGATATTCTATCTCAAATTATTAAATAT
ATTTTACTCTTATTTTAATTTAAAAAATATATTTTAATCTTATTTTAGCTT
Found at i:1545688 original size:93 final size:92
Alignment explanation
Indices: 1545366--1545720 Score: 346
Period size: 93 Copynumber: 3.8 Consensus size: 92
1545356 TTTTTATTTT
* ** * * *
1545366 AAATTAAAAA-AAATATTTTAGTCTTATTTTAACTTAAAATATGTTTTATTCTTTTCATAATTTT
1 AAATTAAAAATATATATTTTA-TCTTAAATT-A-TT-AAATATATTTTATTCTTATCTTAATTTT
1545430 AAAAAATATATTTTTAATTAAATTAACATATTA
62 -AAAAATATATTTTTAATTAAATT-ACATATTA
* * * * * * *
1545463 AAATTAAAAATAGATATTCTATCTCAACTTATTAAATATATTTTACTCTTAT-TTTAGTTTAAAA
1 AAATTAAAAATATATATTTTATCTTAAATTATTAAATATATTTTATTCTTATCTTAATTTTAAAA
* *
1545527 ATATATATTTTAATCT-TATT--AT-TTT
66 ATATAT-TTTTAAT-TAAATTACATATTA
** * * * *
1545552 AGCTTAAAAATATTTTACTTTTATCTTAAATTATGAAATATATTTTATTCTTATCTCAATTTTAC
1 AAATTAAAAATA-TATA-TTTTATCTTAAATTATTAAATATATTTTATTCTTATCTTAATTTTAA
*
1545617 AAATATGTTTTTAATTAAATTCACATATTA
64 AAATATATTTTTAATTAAATT-ACATATTA
*
1545647 AAATT-AAAATGATATATTTTATCTTAAATTATTAAATATATTTTATTCTTATTTTAATTTTAAA
1 AAATTAAAAAT-ATATATTTTATCTTAAATTATTAAATATATTTTATTCTTATCTTAATTTTAAA
1545711 AATATATTTT
65 AATATATTTT
1545721 AGTCTTATTT
Statistics
Matches: 209, Mismatches: 37, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
89 12 0.06
90 5 0.02
91 41 0.20
92 23 0.11
93 68 0.33
94 27 0.13
95 8 0.04
96 1 0.00
97 16 0.08
98 8 0.04
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.50
Consensus pattern (92 bp):
AAATTAAAAATATATATTTTATCTTAAATTATTAAATATATTTTATTCTTATCTTAATTTTAAAA
ATATATTTTTAATTAAATTACATATTA
Found at i:1545705 original size:29 final size:28
Alignment explanation
Indices: 1545673--1545804 Score: 108
Period size: 30 Copynumber: 4.6 Consensus size: 28
1545663 TTTTATCTTA
1545673 AATTATTAAATATATTTTATTCTTATTTT
1 AATT-TTAAATATATTTTATTCTTATTTT
*
1545702 AATTTTAAAAATATATTTTAGTCTTATTTT
1 AATTTT--AAATATATTTTATTCTTATTTT
** * * *
1545732 AGCTTTAAA-ATATTTTGTTTTTATCTT
1 AATTTTAAATATATTTTATTCTTATTTT
* * *
1545759 AACTTATGAAATACATTTTACT-TTATTTT
1 AA-TT-TTAAATATATTTTATTCTTATTTT
1545788 AA-TTTAAGATATATTTT
1 AATTTTAA-ATATATTTT
1545805 TAAAATTTAA
Statistics
Matches: 81, Mismatches: 16, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
26 3 0.04
27 24 0.30
28 6 0.07
29 16 0.20
30 32 0.40
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (28 bp):
AATTTTAAATATATTTTATTCTTATTTT
Done.