Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold472
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: 529027
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:114 original size:51 final size:51
Alignment explanation
Indices: 38--215 Score: 281
Period size: 51 Copynumber: 3.5 Consensus size: 51
28 CCGAATATGA
*
38 AAATTTGCCTGCATGTATCGATACATTGAAAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAAAGTGTATCGATACATCTGGGC
*
89 AAATTTGCCTGCATGTATCGATACATTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAAAGTGTATCGATACATCTGGGC
140 AAA-TTGCCTGCATGTATCGATACATTTTTATAA--GTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--TTTA-AAGTGTATCGATACATCTGGGC
*
191 AAATTTGCCTGCATGGATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
216 AAGATCAGGG
Statistics
Matches: 119, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
50 21 0.18
51 73 0.61
52 24 0.20
53 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTTAAAGTGTATCGATACATCTGGGC
Found at i:257 original size:102 final size:102
Alignment explanation
Indices: 47--270 Score: 244
Period size: 102 Copynumber: 2.2 Consensus size: 102
37 AAAATTTGCC
* *
47 TGCATGTATCGATACA--TTGA-AAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCG
1 TGCATGTATCGATACATTTTTATAA--GTATCGATACATCTGGGCAAATTTGCCTGCATGGATCG
*** * * **
109 ATACATTTATAGTGTATCGATACATCTGGGCAAATTGCC
64 ATACAAAGATAGGGTATCGATACATCTGCGCAAATTGAA
148 TGCATGTATCGATACATTTTTATAAGTATCGATACATCTGGGCAAATTTGCCTGCATGGATCGAT
1 TGCATGTATCGATACATTTTTATAAGTATCGATACATCTGGGCAAATTTGCCTGCATGGATCGAT
* * * *
213 ACAAAGATCAGGGTATCGAT-CATGTATCG-ATCATTTAA
66 ACAAAGAT-AGGGTATCGATACATCT-GCGCA-AATTGAA
251 TG-ATGTATCGATACATTTTT
1 TGCATGTATCGATACATTTTT
271 TGGCAGTAAG
Statistics
Matches: 104, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
101 16 0.15
102 67 0.64
103 19 0.18
104 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (102 bp):
TGCATGTATCGATACATTTTTATAAGTATCGATACATCTGGGCAAATTTGCCTGCATGGATCGAT
ACAAAGATAGGGTATCGATACATCTGCGCAAATTGAA
Found at i:327 original size:13 final size:13
Alignment explanation
Indices: 309--333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
299 AAAAAAAACA
309 TGTATCGATACAT
1 TGTATCGATACAT
322 TGTATCGATACA
1 TGTATCGATACA
334 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:453 original size:21 final size:21
Alignment explanation
Indices: 412--453 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
402 GTTGGGACCT
*
412 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
433 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
454 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1009 original size:20 final size:18
Alignment explanation
Indices: 964--1015 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
954 ACAAAGAAAA
964 TATATCGATACATTCACT
1 TATATCGATACATTCACT
*
982 TATGTATCGATACATTTACT
1 TA--TATCGATACATTCACT
1002 GTCATATCGATACA
1 -T-ATATCGATACA
1016 AATTGTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 2 0.07
20 25 0.86
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (18 bp):
TATATCGATACATTCACT
Found at i:2553 original size:29 final size:29
Alignment explanation
Indices: 2478--2719 Score: 255
Period size: 29 Copynumber: 8.3 Consensus size: 29
2468 GCCCACCGAT
* * *
2478 TTGTGGGC-TTCGAAAAGGGTGCCACTGATT
1 TTGTGGGCTTTTG-AAAGGTTGCCACTGA-C
2508 TGTGTGGGC-TTTG-AAGGTTGCCACTGAC
1 T-TGTGGGCTTTTGAAAGGTTGCCACTGAC
*
2536 TTGTGGGCTTTTTAAAGGTTGCCACTGAC
1 TTGTGGGCTTTTGAAAGGTTGCCACTGAC
**
2565 TTGTGGGCTTTTGAAAAATATGCCACTGAC
1 TTGTGGGCTTTTGAAAGGT-TGCCACTGAC
* *
2595 TTGTGGGCTTTTGAACAGGGTGCCACTAAC
1 TTGTGGGCTTTTGAA-AGGTTGCCACTGAC
2625 TT-TGGGGC-TTT-AAAGGTTGCCACTGAC
1 TTGT-GGGCTTTTGAAAGGTTGCCACTGAC
**
2652 TTGTGGGCTTTTGAAAAATATGCCACTGAC
1 TTGTGGGCTTTTGAAAGGT-TGCCACTGAC
* *
2682 TTGT-GGCTTTTGAAAAGGGTGCCACTAAC
1 TTGTGGGCTTTTG-AAAGGTTGCCACTGAC
2711 TTGTGGGCT
1 TTGTGGGCT
2720 GAAAAGAGTG
Statistics
Matches: 181, Mismatches: 19, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
27 25 0.14
28 10 0.06
29 73 0.40
30 62 0.34
31 11 0.06
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.33
Consensus pattern (29 bp):
TTGTGGGCTTTTGAAAGGTTGCCACTGAC
Found at i:2591 original size:30 final size:30
Alignment explanation
Indices: 2526--2926 Score: 248
Period size: 29 Copynumber: 13.7 Consensus size: 30
2516 CTTTGAAGGT
* **
2526 TGCCACTGACTTGTGGGCTTTTTAAAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
2555 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* ***
2585 TGCCACTGACTTGTGGGCTTTTGAACAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* **
2615 TGCCACTAACTT-TGGGGC-TTT-AAAGGT-
1 TGCCACTGACTTGT-GGGCTTTTGAAAAATA
2642 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
***
2672 TGCCACTGACTTGT-GGCTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* *
2701 TGCCACTAACTTGTGGGC---TGAAAAGA-G
1 TGCCACTGACTTGTGGGCTTTTGAAAA-ATA
* * * ** *
2728 TGCTA-TAGAGTTGTGAGCTTACAAAAGAAAAAGA
1 TGCCACT-GACTTGTGGGCTT----TTGAAAAATA
* * * *
2762 -GCCACGGAGTTGTGGACTTTGGAAAAGA-A
1 TGCCACTGACTTGTGGGCTTTTGAAAA-ATA
* ** ***
2791 TGCCACCGACTTGTGGGC-TCGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* **
2820 TGCCACTGATTTGT-GGC-TTTG-AAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* *
2846 TGCCACTGACTTGTGGGCTTTCGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
*
2876 TGCCACTGAC-TGTGGGC-TTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
2904 TGCCACTGACTTGTGGGACTTTT
1 TGCCACTGACTTGTGGG-CTTTT
2927 TGAAGGGTGA
Statistics
Matches: 295, Mismatches: 49, Indels: 54
0.74 0.12 0.14
Matches are distributed among these distances:
26 14 0.05
27 40 0.14
28 35 0.12
29 99 0.34
30 84 0.28
31 3 0.01
33 15 0.05
34 5 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (30 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAATA
Found at i:2608 original size:87 final size:87
Alignment explanation
Indices: 2510--2719 Score: 331
Period size: 87 Copynumber: 2.4 Consensus size: 87
2500 CACTGATTTG
* *
2510 TGTGGGC-TTTG-AAGGTTGCCACTGACTTGTGGGCTTTTTAAAGGTTGCCACTGACTTGTGGGC
1 TGTGGGCTTTTGAAAGGGTGCCACTAACTTGTGGGC-TTTTAAAGGTTGCCACTGACTTGTGGGC
2573 TTTTGAAAAATATGCCACTGACT
65 TTTTGAAAAATATGCCACTGACT
2596 TGTGGGCTTTTGAACAGGGTGCCACTAACTT-TGGGGC-TTTAAAGGTTGCCACTGACTTGTGGG
1 TGTGGGCTTTTGAA-AGGGTGCCACTAACTTGT-GGGCTTTTAAAGGTTGCCACTGACTTGTGGG
2659 CTTTTGAAAAATATGCCACTGACT
64 CTTTTGAAAAATATGCCACTGACT
2683 TGT-GGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCT
1 TGTGGGCTTTTG-AAAGGGTGCCACTAACTTGTGGGCT
2720 GAAAAGAGTG
Statistics
Matches: 115, Mismatches: 2, Indels: 13
0.88 0.02 0.10
Matches are distributed among these distances:
86 35 0.30
87 60 0.52
88 2 0.02
89 18 0.16
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (87 bp):
TGTGGGCTTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCT
TTTGAAAAATATGCCACTGACT
Found at i:4361 original size:1 final size:1
Alignment explanation
Indices: 4357--4525 Score: 221
Period size: 1 Copynumber: 169.0 Consensus size: 1
4347 CCGGACCCCC
* * * * * *
4357 TTTTTTTTTTTGTTTTTGTTTTATGTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** * *
4422 TTTTTTTTTTTTTTTTTGGTTTTTTTTTTTTTTTTTTTTTTGGTTTTTTCTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
4487 TTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4526 GGAGGACGCC
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 146 1.00
ACGTcount: A:0.01, C:0.01, G:0.07, T:0.92
Consensus pattern (1 bp):
T
Found at i:4524 original size:31 final size:31
Alignment explanation
Indices: 4357--4525 Score: 250
Period size: 31 Copynumber: 5.4 Consensus size: 31
4347 CCGGACCCCC
* * *
4357 TTTTTTTTTTTGTTTTTGTTTTATGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTGTTTTTT
*
4388 TGTTTTTTTTTTTTTTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTGTTTTTT
4419 TTTTTTTTTTTTTTTTTTTTGGTTTT-TTTTTT
1 TTTTTTTTTTTTTTTTTTTT--TTTTGTTTTTT
*
4451 TTTTTTTTTTTTGGTTTTTTCTTTTTGTTTTTT
1 TTTTTTTTTTTT--TTTTTTTTTTTTGTTTTTT
4484 TTTTTTTTTTTTTTTTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTGTTTTTT
4515 TTTTTTTTTTT
1 TTTTTTTTTTT
4526 GGAGGACGCC
Statistics
Matches: 126, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
31 75 0.60
32 22 0.17
33 22 0.17
34 7 0.06
ACGTcount: A:0.01, C:0.01, G:0.07, T:0.92
Consensus pattern (31 bp):
TTTTTTTTTTTTTTTTTTTTTTTTGTTTTTT
Found at i:14264 original size:10 final size:10
Alignment explanation
Indices: 14249--14275 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14239 ATGTATCAAG
14249 CAAAAACAAA
1 CAAAAACAAA
14259 CAAAAACAAA
1 CAAAAACAAA
14269 CAAAAAC
1 CAAAAAC
14276 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:18486 original size:52 final size:52
Alignment explanation
Indices: 18408--18608 Score: 341
Period size: 52 Copynumber: 3.9 Consensus size: 52
18398 CGAAATATGA
*
18408 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
18460 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
18512 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
18564 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
18609 ATGTATCGAT
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
51 2 0.01
52 141 0.99
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:18615 original size:13 final size:13
Alignment explanation
Indices: 18597--18621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18587 CAAAGATCAG
18597 TGTATCGATACAA
1 TGTATCGATACAA
18610 TGTATCGATACA
1 TGTATCGATACA
18622 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:18702 original size:13 final size:13
Alignment explanation
Indices: 18684--18708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18674 CAAAAAAACA
18684 TGTATCGATACAT
1 TGTATCGATACAT
18697 TGTATCGATACA
1 TGTATCGATACA
18709 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18807 original size:21 final size:21
Alignment explanation
Indices: 18766--18807 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18756 GTTGGGACCT
*
18766 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
18787 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
18808 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:23305 original size:77 final size:75
Alignment explanation
Indices: 23132--23390 Score: 200
Period size: 77 Copynumber: 3.4 Consensus size: 75
23122 GCCAAAAAGC
** * *
23132 TGATTTCATTTTGAACCTTTGAAAAGTTTAAAGTTGAAAAGGCATAGCAATAATCTCAAGCTTGA
1 TGATTTCATTTTGAACCTTTGAAAAGTTTAAAGTAAAAAAGGCATAACAACAATCTCAAGCTTGA
* *
23197 AAAGGCAATA
66 AAAGACAAAA
* * * * **
23207 TGATTCCATTTTGTACTTTTGAAAA-TGTTAAAGCCTAAAAAAGGCATAACAACAATTTTGAGCT
1 TGATTTCATTTTGAACCTTTGAAAAGT-TTAAAG--TAAAAAAGGCATAACAACAATCTCAAGCT
23271 TGAAAAGACAAAA
63 TGAAAAGACAAAA
* * * ** * * * *
23284 TGATTTCATATTAAACCTTTGAGAAGGCT-AAGCTTTAAAAAA-ACATAATAACTATCTCAAGCC
1 TGATTTCATTTTGAACCTTTGAAAAGTTTAAAG---TAAAAAAGGCATAACAACAATCTCAAGCT
* ** *
23347 TAAAAAGATGAGA
63 TGAAAAGACAAAA
* *
23360 TGATTTCATTTTGAATCTTTGAAAAGGTTAA
1 TGATTTCATTTTGAACCTTTGAAAAGTTTAA
23391 GGCCTAAAAG
Statistics
Matches: 140, Mismatches: 38, Indels: 10
0.74 0.20 0.05
Matches are distributed among these distances:
74 1 0.01
75 28 0.20
76 50 0.36
77 61 0.44
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.31
Consensus pattern (75 bp):
TGATTTCATTTTGAACCTTTGAAAAGTTTAAAGTAAAAAAGGCATAACAACAATCTCAAGCTTGA
AAAGACAAAA
Found at i:27066 original size:33 final size:33
Alignment explanation
Indices: 27022--27090 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
27012 GTCGTTGGGC
* ** *
27022 ACAATGTATCGATACTTTTTACCATGTATCGAT
1 ACAATGCATCGATACAATGTACCATGTATCGAT
*
27055 ACAATGCATCGATACAATGTCCCATGTATCGAT
1 ACAATGCATCGATACAATGTACCATGTATCGAT
27088 ACA
1 ACA
27091 TTTCACTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (33 bp):
ACAATGCATCGATACAATGTACCATGTATCGAT
Found at i:27067 original size:13 final size:13
Alignment explanation
Indices: 27049--27073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27039 TTTACCATGT
27049 ATCGATACAATGC
1 ATCGATACAATGC
27062 ATCGATACAATG
1 ATCGATACAATG
27074 TCCCATGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:27164 original size:19 final size:20
Alignment explanation
Indices: 27119--27172 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
27109 CTGCCAGTTT
*
27119 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTAAG
*
27139 TATGTATCGATACAA-TAAG
1 CATGTATCGATACAATTAAG
27158 CATGTATCGATACAA
1 CATGTATCGATACAA
27173 AGCATAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTAAG
Found at i:27951 original size:78 final size:78
Alignment explanation
Indices: 27822--27989 Score: 275
Period size: 78 Copynumber: 2.2 Consensus size: 78
27812 TAATAAAATT
* *
27822 TTTCTCCCCCTTGATAAAATAATTAAAGCTCTCTTTTGTTAACATGATTTTCTCC-CCTTTTTTG
1 TTTCTCCCCCTTGATAAAATAATTAAAGCTCTCTTTTGTTAAAACGATTTTCTCCTCC-TTTTTG
27886 TTATCAAAAAACAA
65 TTATCAAAAAACAA
*
27900 TTTCTCCCCCTTGATATAATAATTAAAGCTCTCTTTTGTTAAAACGATTTTCTCCTCCTTTTTGT
1 TTTCTCCCCCTTGATAAAATAATTAAAGCTCTCTTTTGTTAAAACGATTTTCTCCTCCTTTTTGT
*
27965 TATCAAAAAATAA
66 TATCAAAAAACAA
*
27978 TTTGTCCCCCTT
1 TTTCTCCCCCTT
27990 TGTGAAATGC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
78 82 0.98
79 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (78 bp):
TTTCTCCCCCTTGATAAAATAATTAAAGCTCTCTTTTGTTAAAACGATTTTCTCCTCCTTTTTGT
TATCAAAAAACAA
Found at i:28057 original size:40 final size:41
Alignment explanation
Indices: 27976--28073 Score: 144
Period size: 40 Copynumber: 2.4 Consensus size: 41
27966 ATCAAAAAAT
* * * *
27976 AATTTGTCCCCCTTTGTGAAATGCCAAAATTTATTTTCAAA
1 AATTTCTCCCCCTTTTTCAAAAGCCAAAATTTATTTTCAAA
28017 AATTTCTCCCCCTTTTTCAAAAGCC-AAATTTATTTTCAAA
1 AATTTCTCCCCCTTTTTCAAAAGCCAAAATTTATTTTCAAA
*
28057 AATTTCTCCCCATTTTT
1 AATTTCTCCCCCTTTTT
28074 GTTTTAGCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
40 31 0.60
41 21 0.40
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (41 bp):
AATTTCTCCCCCTTTTTCAAAAGCCAAAATTTATTTTCAAA
Found at i:31192 original size:13 final size:13
Alignment explanation
Indices: 31174--31198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31164 CATAAAGTGT
31174 TGTATCGATACAA
1 TGTATCGATACAA
31187 TGTATCGATACA
1 TGTATCGATACA
31199 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:36293 original size:19 final size:20
Alignment explanation
Indices: 36250--36295 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
36240 CTACCGATTT
*
36250 CATGTATCGATACAATTGAG
1 CATGTATCAATACAATTGAG
* *
36270 TATGTATCAATATAA-TGAG
1 CATGTATCAATACAATTGAG
36289 CATGTAT
1 CATGTAT
36296 TGATACAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (20 bp):
CATGTATCAATACAATTGAG
Found at i:36305 original size:19 final size:19
Alignment explanation
Indices: 36250--36305 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
36240 CTACCGATTT
36250 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
* * *
36270 TATGTATCAATATAATGAG
1 CATGTATCGATACAATGAG
*
36289 CATGTATTGATACAATG
1 CATGTATCGATACAATG
36306 TATCGTTTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:45881 original size:79 final size:79
Alignment explanation
Indices: 45745--46234 Score: 580
Period size: 79 Copynumber: 6.2 Consensus size: 79
45735 GAGATAATAA
* *
45745 CGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA
45810 TTTAGAAATAAAAT
66 TTTAGAAATAAAAT
* *
45824 CGGGATTGGAGTATCCCCTC-AGAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAATTGATG
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
* *
45888 TTTTAGAAATAAAAC
65 ATTTAGAAATAAAAT
** * * *
45903 CGGGGTTAAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTATGAGAAATTAAT-A
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA
45967 TTTTAGAAATAAAAT
66 -TTTAGAAATAAAAT
* * * * *
45982 CGGGGTTGGAGTATCTCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAGAAATTAAT-A
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA
*
46046 TTTTAGAAAT-AAAG
66 -TTTAGAAATAAAAT
* * *
46060 CTGGGGTTGGGGTATCCCCTTGAAAATAACGGGGTTGAAGTATCCCCG---ATGAAAAATTGATG
1 C-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
* *
46122 TTTTAGAAATAAAAC
65 ATTTAGAAATAAAAT
* * *** * * * *
46137 CTAGGGTTGGAGTGTCCCCTCGGTGATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGTCGGTG
1 C-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
* *
46202 TTTTGGAAATAAAAT
65 ATTTAGAAATAAAAT
*
46217 CGGAGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
46235 GATTATGAAA
Statistics
Matches: 353, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
76 20 0.06
77 43 0.12
78 5 0.01
79 260 0.74
80 25 0.07
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA
TTTAGAAATAAAAT
Found at i:46253 original size:51 final size:51
Alignment explanation
Indices: 46170--46336 Score: 228
Period size: 51 Copynumber: 3.3 Consensus size: 51
46160 TGATAACGGG
* *
46170 GTTGGAGTATCCCCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
* *
46221 GTTGGAGTATCCCCGATTATGAAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
* * * * * *
46272 GTTGGAGTATCCCCGATTAAGACAAATTGATGTTTTGGAAATGAAA-CCGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
46322 GATTGGAGTATCCCC
1 G-TTGGAGTATCCCC
46337 AAGATGAAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 4 0.04
51 100 0.96
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
Found at i:48662 original size:20 final size:19
Alignment explanation
Indices: 48637--48709 Score: 101
Period size: 20 Copynumber: 3.7 Consensus size: 19
48627 AAAATGCCTG
*
48637 ATGTATCGATACATTGTAAA
1 ATGTATCGATACAATG-AAA
*
48657 ATGTATCGATACAATGAGCA
1 ATGTATCGATACAATGA-AA
48677 ATGTATCGATACAATGCAAA
1 ATGTATCGATACAATG-AAA
48697 ATGTATCGATACA
1 ATGTATCGATACA
48710 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACAATGAAA
Found at i:63404 original size:19 final size:19
Alignment explanation
Indices: 63380--63440 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
63370 ATCAATACAT
63380 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
63399 TGTATC-A-A-TACA---A
1 TGTATCGATACAACACTTA
*
63412 TGTATCGATACAATACTTA
1 TGTATCGATACAACACTTA
63431 TGTATCGATA
1 TGTATCGATA
63441 GAGTTACTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
13 7 0.21
14 1 0.03
15 1 0.03
16 5 0.15
17 1 0.03
18 1 0.03
19 17 0.52
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:63404 original size:32 final size:32
Alignment explanation
Indices: 63366--63436 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
63356 ACCTTGAGTA
*
63366 ATGTATCAATACATTGTATCGATACAACACTT
1 ATGTATCAATACAATGTATCGATACAACACTT
*
63398 ATGTATCAATACAATGTATCGATACAATACTT
1 ATGTATCAATACAATGTATCGATACAACACTT
63430 ATGTATC
1 ATGTATC
63437 GATAGAGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (32 bp):
ATGTATCAATACAATGTATCGATACAACACTT
Found at i:64258 original size:52 final size:51
Alignment explanation
Indices: 64171--64511 Score: 293
Period size: 49 Copynumber: 6.7 Consensus size: 51
64161 GATGAGAAAA
* * * * *
64171 AAGATGTCAATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAG
* * * **
64222 AAGAATGTCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACG
1 AAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGA-G
** * * *
64276 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAG
*
64325 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--G
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAG
* * * * *
64374 ATG-TGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTAAAGATG-G
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAG
* * * * * *
64423 TTGAGGTGCCGATGTGCTGATTCAAGCCCAACGACATCGGACTTAAAGAT--G
1 --AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAG
** * * *
64474 AAGGCGCCAATGTGCTAATTCAAGGCCAGTGATATTGG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
64512 GCTTGTGCCA
Statistics
Matches: 237, Mismatches: 46, Indels: 16
0.79 0.15 0.05
Matches are distributed among these distances:
48 40 0.17
49 78 0.33
51 5 0.02
52 75 0.32
53 35 0.15
54 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (51 bp):
AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAG
Found at i:64399 original size:48 final size:48
Alignment explanation
Indices: 64178--64690 Score: 360
Period size: 48 Copynumber: 10.8 Consensus size: 48
64168 AAAAAGATGT
* * * * * *
64178 CAATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAGAATGT
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG--G--TGC
* * * ** *
64230 CAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGAT---G-AGGTGC
* *
64283 CAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG-AGGTGC
* *
64332 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
* * *
64380 CAATATGCTGATTTAAGGCCAGCGATATTGGGCTTAAAGATGGTTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA----TGAGGTGC
* * * * * *
64432 CGATGTGCTGATTCAAGCCCAACGACATCGGACTTAAAGATGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG-AGGTGC
* * *
64481 CAATGTGCTAATTCAAGGCCAGTGATATTGGGC-T-----T---GTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
* * * * **
64520 CAATGTGCTGATTCAAGGCTAGCGACATTAGCCTTAAAGACAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
* * *
64568 CAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T-A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
* * ** **
64607 CAATGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGACAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
* *
64655 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA
64691 TGCCAAAGTA
Statistics
Matches: 362, Mismatches: 71, Indels: 60
0.73 0.14 0.12
Matches are distributed among these distances:
39 60 0.17
40 2 0.01
41 1 0.00
43 1 0.00
46 1 0.00
47 1 0.00
48 109 0.30
49 76 0.21
52 74 0.20
53 33 0.09
55 1 0.00
56 1 0.00
57 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
Found at i:64470 original size:100 final size:98
Alignment explanation
Indices: 64230--64690 Score: 374
Period size: 87 Copynumber: 4.9 Consensus size: 98
64220 AGAAGAATGT
* * * **
64230 CAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCTAAT
1 CAATGTGCTGATTCAAGCCCAACGACA-TCGGACTTAAAGAT---GAAGGCGCCAATATGCTAAT
*
64295 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
62 TCAAGGCCAGCGATATTGGGCTTAAAGATGAAGGTGC
* * * * * * *
64332 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-ATGTGCCAATATGCTGATTTAA
1 CAATGTGCTGATTCAAGCCCAACGACATCGGACTTAAAGATGAAGGCGCCAATATGCTAATTCAA
*
64396 GGCCAGCGATATTGGGCTTAAAGATGGTTGAGGTGC
66 GGCCAGCGATATTGGGCTTAAAGAT-G--AAGGTGC
* *
64432 CGATGTGCTGATTCAAGCCCAACGACATCGGACTTAAAGATGAAGGCGCCAATGTGCTAATTCAA
1 CAATGTGCTGATTCAAGCCCAACGACATCGGACTTAAAGATGAAGGCGCCAATATGCTAATTCAA
*
64497 GGCCAGTGATATTGGGC-T-----T----GTGC
66 GGCCAGCGATATTGGGCTTAAAGATGAAGGTGC
* * * ** * * * *
64520 CAATGTGCTGATTCAAGGCTAGCGACATTAGCCTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGCCCAACGACATCGGACTTAAAGATGAAGGCGCCAATATGCTAATTCAA
*
64584 GGCCAACGATATTGGGC-T-----T--A--TGC
66 GGCCAGCGATATTGGGCTTAAAGATGAAGGTGC
* * * * ** * * *
64607 CAATGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGCCCAACGACATCGGACTTAAAGATGAAGGCGCCAATATGCTAATTCAA
64671 GGCCAGCGATATTGGGCTTA
66 GGCCAGCGATATTGGGCTTA
64691 TGCCAAAGTA
Statistics
Matches: 312, Mismatches: 40, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
87 115 0.37
88 38 0.12
95 1 0.00
97 42 0.13
98 2 0.01
100 45 0.14
101 44 0.14
102 25 0.08
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (98 bp):
CAATGTGCTGATTCAAGCCCAACGACATCGGACTTAAAGATGAAGGCGCCAATATGCTAATTCAA
GGCCAGCGATATTGGGCTTAAAGATGAAGGTGC
Found at i:64483 original size:149 final size:152
Alignment explanation
Indices: 64178--64511 Score: 379
Period size: 149 Copynumber: 2.2 Consensus size: 152
64168 AAAAAGATGT
* * * * * *
64178 CAATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAGAATGTCAATGTGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-AGAAG-ATGCCAATATGCTGATT
* * *
64243 CAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCTAATTCAAGGCCAGCGA
64 CAAGGCCAACAACATTGGGTCTTAAAGATGACGAAGGCGCCAATATGCTAATTCAAGCCCAACGA
* * *
64308 TATTGGACTTAAAGATGAAGGTGC
129 CATCGGACTTAAAGATGAAGGCGC
* *
64332 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-GATG-TGCCAATATGCTGATTTA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAGAAGATGCCAATATGCTGATTCA
* * * ** * * * *
64395 AGGCCAGCGATATTGGG-CTTAAAGATGGTTG-AGGTGCCGATGTGCTGATTCAAGCCCAACGAC
66 AGGCCAACAACATTGGGTCTTAAAGAT-GACGAAGGCGCCAATATGCTAATTCAAGCCCAACGAC
64458 ATCGGACTTAAAGATGAAGGCGC
130 ATCGGACTTAAAGATGAAGGCGC
* * *
64481 CAATGTGCTAATTCAAGGCCAGTGATATTGG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGG
64512 GCTTGTGCCA
Statistics
Matches: 153, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
149 82 0.54
150 31 0.20
152 3 0.02
154 37 0.24
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (152 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAGAAGATGCCAATATGCTGATTCA
AGGCCAACAACATTGGGTCTTAAAGATGACGAAGGCGCCAATATGCTAATTCAAGCCCAACGACA
TCGGACTTAAAGATGAAGGCGC
Found at i:64534 original size:39 final size:39
Alignment explanation
Indices: 64479--64724 Score: 159
Period size: 39 Copynumber: 5.8 Consensus size: 39
64469 AGATGAAGGC
* *
64479 GCCAATGTGCTAATTCAAGGCCAGTGATATTGGGCTTGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGT
* * * *
64518 GCCAATGTGCTGATTCAAGGCTAGCGACATTAGCCTTAAAGACAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT---------GT
* * *
64566 GCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGT
* * **
64605 GCCAATGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGACAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGG-------G-C-TTGT
* *
64653 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGT
* * * *
64692 GCCAAAGTACTAATTCAAGGCCAGCGACATTGG
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGG
64725 TCTGAGTGAC
Statistics
Matches: 158, Mismatches: 31, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
39 90 0.57
40 1 0.01
41 1 0.01
46 1 0.01
47 1 0.01
48 64 0.41
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (39 bp):
GCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGT
Found at i:64608 original size:87 final size:87
Alignment explanation
Indices: 64429--64777 Score: 473
Period size: 87 Copynumber: 4.0 Consensus size: 87
64419 ATGGTTGAGG
* * * * * * * * *
64429 TGCCGATGTGCTGATTCAAGCCCAACGACATCGGACTTAAAGATGAAGGCGCCAATGTGCTAATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
* *
64494 CAAGGCCAGTGATATTGGGCTTG
65 CAAGGCCAGCGATATTGGGCTTA
* * *
64517 TGCCAATGTGCTGATTCAAGGCTAGCGACATTAGCCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
64582 AAGGCCAACGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* *
64604 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
64669 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * * * **
64691 TGCCAAAGTACTAATTCAAGGCCAGCGACATTGGTCTGAGTGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
64756 AAGGCCAGTGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
64778 GAAGAAGACG
Statistics
Matches: 232, Mismatches: 29, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
87 196 0.84
88 36 0.16
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTA
Found at i:64882 original size:30 final size:29
Alignment explanation
Indices: 64801--64895 Score: 111
Period size: 30 Copynumber: 3.2 Consensus size: 29
64791 CCAACTTATA
** **
64801 TGGGCTTTTGAAAGGGTTACACCAACTTG
1 TGGGCTTTTGAAAGGGTGCCACTGACTTG
* *
64830 TTGTGCTTTTG-AAGGTTGCCACTGACTTG
1 -TGGGCTTTTGAAAGGGTGCCACTGACTTG
64859 TGGGCTTTTGAAAAGGGTGCCACTGACTTG
1 TGGGCTTTTG-AAAGGGTGCCACTGACTTG
64889 TGGGCTT
1 TGGGCTT
64896 AAAAGGAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 9 0.16
29 13 0.24
30 33 0.60
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.35
Consensus pattern (29 bp):
TGGGCTTTTGAAAGGGTGCCACTGACTTG
Found at i:64923 original size:33 final size:33
Alignment explanation
Indices: 64876--65649 Score: 589
Period size: 33 Copynumber: 24.7 Consensus size: 33
64866 TTGAAAAGGG
* * * *
64876 TGCCACTGACTTGTGGGCTTAAAAGGAGAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * * *
64909 TGCCACAGAGTTGTGGACTTAAAAGGGACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
64942 TGCCACGGAGTTATGGATTTAAAAGGAAAGAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
64975 TGCCACAGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
65008 TGCCACAGAGGTGTAGG-CTTAAAAGGGAAAAAGGA
1 TGCCACGGAGTTGT-GGACTTAAAA-GGAAAAA-GA
* * *
65043 TGCCATGGAGTCGTGGACTTAAAAAG-AAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
65075 TGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
* * *
65109 TACCACAGAGTTGTGGATTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
65142 TGCCACGAAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
65175 TGCCACGGAGGTGTGGACTTAAAAGG-----G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
65202 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
65235 TGCCACGGAGTTGTGGACTTAAAAGGAATAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
65268 TGCCACGGAGTTGTGGACTTAAAA-G-----GA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
65295 TGCCACGGAGTTATAGG-CTTTAAAAGG-----G-
1 TGCCACGGAGTTGT-GGAC-TTAAAAGGAAAAAGA
*
65323 TGCCACGGAGTTGTGGGCTTTAAAA-G----AG-
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
*
65351 TGCCATGGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
65384 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
65417 TGCCACGGAGTTGTGTACTTAAAA-G-----GA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
65444 TGCCACGGAGTTGTGGGCTTTAAAAGG-----G-
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
*
65472 TGCCACGGAGTTGTGGGCTTTAAAA-G----AG-
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
65500 TGCCAC-GAGTTGTGGACTTAAAAGG-----G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
65526 TGCCACAGTGTTGTGGACTTTGAAAA-GAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGA
* * *
65560 TGCCACGGAGTGGTGGGCTTTGAAAA-GAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGA
* **
65594 TGCCACGGAGTTGTGGGCTTTGAA--AAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
** *
65625 TGCCAATGAGTCGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGAC-TTAAAA
65650 AGAGATTGCC
Statistics
Matches: 629, Mismatches: 75, Indels: 75
0.81 0.10 0.10
Matches are distributed among these distances:
26 13 0.02
27 88 0.14
28 89 0.14
29 8 0.01
31 20 0.03
32 28 0.04
33 287 0.46
34 78 0.12
35 18 0.03
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
Found at i:65169 original size:167 final size:158
Alignment explanation
Indices: 64869--65609 Score: 602
Period size: 149 Copynumber: 4.8 Consensus size: 158
64859 TGGGCTTTTG
* * * *
64869 AAAAGGGTGCCACTGACTTGTGGGCTTAAAAGGAGAAAGATGCCAC-AGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGA-AAAGATGCCACGA-AGTTGTGGACTTAAAA
* * * *
64933 GGGACAAGGTGCCACGGAGTTATGGATTTAAAAGGAAAGAGATGCCACAGAGTTGTGGACTTAAA
64 GGAAAAAGGTGCCACGGAGTTGTGGATTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAA
* *
64998 AGGAACAAGGTGCCACAGAGGTGTAGG-CTT
129 AGGAAAAAGATGCCACAGAGGTGT-GGACTT
* *
65028 AAAAGGGAAAAAGGATGCCATGGAGTCGTGGACTTAAAAAGAAAAGATGCCACGAAGTTGTGGAC
1 AAAA--G-----GG-TGCCACGGAGTCGTGGACTTAAAAGGAAAAGATGCCACGAAGTTGTGGAC
* * * *
65093 TTTAAAAAGAAAAAGATACCACAGAGTTGTGGATTTAAAAGGAAAAAGATGCCAC-GAAGTTGTG
58 -TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGATTTAAAAGGAAAAAGATGCCACAG-AGTTGTG
*
65157 GACTTAAAAGGAAAAAGATGCCACGGAGGTGTGGACTT
121 GACTTAAAAGGAAAAAGATGCCACAGAGGTGTGGACTT
* *
65195 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGG-AAAAGATGCCACGAAGTTGTGGACTTAAAAG
* * * *
65260 GAATAAGGTGCCACGGAGTTGTGGACTTAAAA-G-----GATGCCACGGAGTTATAGG-CTTTAA
65 GAAAAAGGTGCCACGGAGTTGTGGATTTAAAAGGAAAAAGATGCCACAGAGTTGT-GGAC-TTAA
* * *
65318 AAGG-----G-TGCCACGGAGTTGTGGGCTTT
128 AAGGAAAAAGATGCCACAGAGGTGTGGAC-TT
* * *
65344 AAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGG-AAAAGATGCCACGAAGTTGTGGACTTAAAAG
* * * * *
65409 GAACAAGGTGCCACGGAGTTGTGTACTTAAAA-G-----GATGCCACGGAGTTGTGGGCTTTAAA
65 GAAAAAGGTGCCACGGAGTTGTGGATTTAAAAGGAAAAAGATGCCACAGAGTTGTGGAC-TTAAA
* * *
65468 AGG-----G-TGCCACGGAGTTGTGGGCTTT
129 AGGAAAAAGATGCCACAGAGGTGTGGAC-TT
* * *
65493 AAAAGAGTGCCAC-GAGTTGTGGACTTAAAAGG----G-TGCCAC-AGTGTTGTGGACTTTGAAA
1 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAGATGCCACGA-AGTTGTGGAC-TT-AAA
* * * *
65551 A-GAAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAA-GAAAAAGGTGCCACGGAGTTGTGG
63 AGGAAAAAGGTGCCACGGAGTTGT-GGATTT-AAAAGGAAAAAGATGCCACAGAGTTGTGG
65610 GCTTTGAAAA
Statistics
Matches: 510, Mismatches: 44, Indels: 65
0.82 0.07 0.11
Matches are distributed among these distances:
141 1 0.00
142 15 0.03
143 23 0.05
144 7 0.01
145 5 0.01
148 37 0.07
149 155 0.30
150 17 0.03
153 14 0.03
154 11 0.02
158 1 0.00
159 60 0.12
160 25 0.05
161 1 0.00
165 1 0.00
166 26 0.05
167 111 0.22
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (158 bp):
AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAGATGCCACGAAGTTGTGGACTTAAAAGG
AAAAAGGTGCCACGGAGTTGTGGATTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAG
GAAAAAGATGCCACAGAGGTGTGGACTT
Found at i:65227 original size:93 final size:87
Alignment explanation
Indices: 65111--65609 Score: 409
Period size: 93 Copynumber: 5.5 Consensus size: 87
65101 GAAAAAGATA
* * *
65111 CCACAGAGTTGTGGATTTAAAAGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAT
1 CCACGGAGTTGTGGACTTAAAAGG-AAAAG-TGCCACGGAGTTGTGGACTTAAAAGG----AGAT
*
65176 GCCACGGAGGTGTGGACTTAAAAGGGTG
60 GCCACGGAGTTGTGGACTTAAAAGGGTG
*
65204 CCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAATAAGGT
1 CCACGGAGTTGTGGACTTAAAAGG-AAAAG-TGCCACGGAGTTGTGGACTTAAAAGG----AGAT
*
65269 GCCACGGAGTTGTGGACTTAAAAGGATG
60 GCCACGGAGTTGTGGACTTAAAAGGGTG
* *
65297 CCACGGAGTTATAGG-CTTTAAAAGG----GTGCCACGGAGTTGTGGGCTTTAAAA-GAG-TGCC
1 CCACGGAGTTGT-GGAC-TTAAAAGGAAAAGTGCCACGGAGTTGTGGAC-TTAAAAGGAGATGCC
*
65355 ATGGAGTTGTGGACTTAAAAGGAAAAAGATG
63 ACGGAGTTGTGGACTTAAAAGG-----G-TG
* *
65386 CCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGTACTTAAAA-G-GATGCCA
1 CCACGGAGTTGTGGACTTAAAAGGAA-AA-GTGCCACGGAGTTGTGGACTTAAAAGGAGATGCCA
*
65449 CGGAGTTGTGGGCTTTAAAAGGGTG
64 CGGAGTTGTGGAC-TTAAAAGGGTG
*
65474 CCACGGAGTTGTGGGCTTTAAAA-G---AGTGCCAC-GAGTTGTGGACTTAAAAGG-G-TGCCAC
1 CCACGGAGTTGTGGAC-TTAAAAGGAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAGATGCCAC
* *
65532 AGTGTTGTGGACTTTGAAAAGAAAAAGGTG
65 GGAGTTGTGGAC-TT-AAAAG-----GGTG
* * *
65562 CCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGG
1 CCACGGAGTTGTGGAC-TT-AAAAGGAAAA-GTGCCACGGAGTTGTGG
65610 GCTTTGAAAA
Statistics
Matches: 348, Mismatches: 25, Indels: 64
0.80 0.06 0.15
Matches are distributed among these distances:
82 34 0.10
83 39 0.11
84 3 0.01
88 67 0.19
89 31 0.09
92 1 0.00
93 122 0.35
94 42 0.12
95 9 0.03
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (87 bp):
CCACGGAGTTGTGGACTTAAAAGGAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAGATGCCACG
GAGTTGTGGACTTAAAAGGGTG
Found at i:65318 original size:28 final size:26
Alignment explanation
Indices: 65264--65541 Score: 204
Period size: 28 Copynumber: 9.8 Consensus size: 26
65254 TAAAAGGAAT
65264 AAGG-TGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGG-CTTAA
*
65290 AAGGATGCCACGGAGTTATAGGCTTTAA
1 AAGGATGCCACGGAGTTGT-GGC-TTAA
*
65318 AAGGGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGATGCCACGGAGTTGT-GGC-TTAA
*
65346 AA-GAGTGCCATGGAGTTGTGGACTTAA
1 AAGGA-TGCCACGGAGTTGTGG-CTTAA
*
65373 AAGGAAAAAGATGCCACGAAGTTGTGGACTTAA
1 AA-G-----GATGCCACGGAGTTGTGG-CTTAA
*
65406 AAGGAACAAGGTGCCACGGAGTTGTGTACTTAA
1 AAGG----A--TGCCACGGAGTTGTG-GCTTAA
65439 AAGGATGCCACGGAGTTGTGGGCTTTAA
1 AAGGATGCCACGGAGTTGT-GGC-TTAA
*
65467 AAGGGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGATGCCACGGAGTTGT-GGC-TTAA
65495 AA-GAGTGCCAC-GAGTTGTGGACTTAA
1 AAGGA-TGCCACGGAGTTGTGG-CTTAA
* * *
65521 AAGGGTGCCACAGTGTTGTGG
1 AAGGATGCCACGGAGTTGTGG
65542 ACTTTGAAAA
Statistics
Matches: 212, Mismatches: 15, Indels: 49
0.77 0.05 0.18
Matches are distributed among these distances:
26 18 0.08
27 57 0.27
28 87 0.41
29 1 0.00
31 1 0.00
32 1 0.00
33 45 0.21
34 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (26 bp):
AAGGATGCCACGGAGTTGTGGCTTAA
Found at i:65334 original size:55 final size:53
Alignment explanation
Indices: 65228--65541 Score: 245
Period size: 55 Copynumber: 5.4 Consensus size: 53
65218 ACTTAAAAGG
*
65228 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAATAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGG-CTTAAAA-G-----GGTGCCACGGAGTTGTGGACTT
* *
65288 AAAAGGATGCCACGGAGTTATAGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGT-GGC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TT
* *
65344 AAAA-GAGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTGTGGACTT
1 AAAAGGA-TGCCACGGAGTTGTGG-CTTAAAAGG-----G-TGCCACGGAGTTGTGGACTT
* * *
65404 AAAAGGAACAAGGTGCCACGGAGTTGTGTACTTAAAAGGATGCCACGGAGTTGTGGGCTTT
1 AAAAGG----A--TGCCACGGAGTTGTG-GCTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
* *
65465 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCAC-GAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGT-GGC-TTAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
65519 AAAAGGGTGCCACAGTGTTGTGG
1 AAAAGGATGCCACGGAGTTGTGG
65542 ACTTTGAAAA
Statistics
Matches: 214, Mismatches: 19, Indels: 49
0.76 0.07 0.17
Matches are distributed among these distances:
53 2 0.01
54 21 0.10
55 56 0.26
56 33 0.15
60 44 0.21
61 33 0.15
65 1 0.00
66 24 0.11
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (53 bp):
AAAAGGATGCCACGGAGTTGTGGCTTAAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:65361 original size:149 final size:149
Alignment explanation
Indices: 64841--65524 Score: 666
Period size: 149 Copynumber: 4.4 Consensus size: 149
64831 TGTGCTTTTG
* * * * * * *
64841 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACT-GACTTGTGGGCTTAAAAGGAGA
1 AAGGGTGCCACGGAGTTGTGGGC-TTT-AAAAGAGTGCCA-TGGAGTTGTGGACTTAAAAGGAAA
* * *
64905 AAGATGCCAC-AGAGTTGTGGACTTAAAAGGGACAAGGTGCCACGGAGTTATGGATTTAAAAGGA
63 AAGATGCCACGA-AGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT---A--A
*
64969 AAGAGATGCCACAGAGTTGTGGACTTAA
122 AAGAGATGCCACGGAGTTGTGGACTTAA
* * * *
64997 AAGGAACAAGGTGCCACAGAGGTGTAGGC-TTAAAAGGGAAAAAGGATGCCATGGAGTCGTGGAC
1 AA-G-----GGTGCCACGGAGTTGTGGGCTTTAAAA--G----A-G-TGCCATGGAGTTGTGGAC
* * * * * *
65061 TTAAAAAG-AAAAGATGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGATACCACAGAGTTGTGG
52 TTAAAAGGAAAAAGATGCCACGAAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGG
* *
65125 ATTTAAAAGGAAAAAGATGCCACGAAGTTGTGGACTTAA
116 ACTTAAAA-G----AGATGCCACGGAGTTGTGGACTTAA
* * * *
65164 AAGGAAAAAGATGCCACGGAGGTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAGG-----G-TGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGG
* *
65228 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAATAAGGTGCCACGGAGTTGTGGACTTAAAAG
60 AAAAAGATGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAG
*
65293 -GATGCCACGGAGTTATAGG-CTTTAA
125 AGATGCCACGGAGTTGT-GGAC-TTAA
65318 AAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAG
1 AAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAG
*
65383 ATGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGTACTTAAAAG-GATGC
66 ATGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGAGATGC
*
65447 CACGGAGTTGTGGGCTTTAA
131 CACGGAGTTGTGGAC-TTAA
*
65467 AAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCA-CGAGTTGTGGACTTAAAAGG
1 AAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGG
65525 GTGCCACAGT
Statistics
Matches: 450, Mismatches: 45, Indels: 74
0.79 0.08 0.13
Matches are distributed among these distances:
148 37 0.08
149 155 0.34
153 15 0.03
154 10 0.02
156 2 0.00
157 1 0.00
158 1 0.00
159 60 0.13
160 26 0.06
161 2 0.00
162 18 0.04
163 1 0.00
164 1 0.00
165 1 0.00
166 25 0.06
167 95 0.21
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (149 bp):
AAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAG
ATGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGAGATGC
CACGGAGTTGTGGACTTAA
Found at i:65563 original size:34 final size:34
Alignment explanation
Indices: 65519--65619 Score: 157
Period size: 34 Copynumber: 3.0 Consensus size: 34
65509 TTGTGGACTT
* * * *
65519 AAAAGGGTGCCACAGTGTTGTGGACTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
*
65553 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
65587 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
65620 AAAGATGCCA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 61 1.00
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.21
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
Found at i:65703 original size:31 final size:30
Alignment explanation
Indices: 65585--65773 Score: 148
Period size: 31 Copynumber: 6.1 Consensus size: 30
65575 GGCTTTGAAA
* * * *
65585 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTG
1 AGAAAAA-ATGCCACTGAGTCGTGGACTTTG
* *
65616 AAAAAAAGATGCCAATGAGTCGTGGACTTT-
1 AGAAAAA-ATGCCACTGAGTCGTGGACTTTG
* **
65646 A-AAAAGAGATTGCCACTAAGTTATGGACTTTGG
1 AGAAAA-A-A-TGCCACTGAGTCGTGGACTTT-G
*
65679 AGAAAAAATGCCACTGAGTCATGGACTTTG
1 AGAAAAAATGCCACTGAGTCGTGGACTTTG
* * * *
65709 GGACAAAATGCCACTAAGTCGTGGGCTTTG
1 AGAAAAAATGCCACTGAGTCGTGGACTTTG
* * *
65739 AGAAGAGATTGCCACTGAGTCGTGGACTTTA
1 AGAA-AAAATGCCACTGAGTCGTGGACTTTG
65770 AGAA
1 AGAA
65774 GATATTGGAA
Statistics
Matches: 128, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
29 4 0.03
30 32 0.25
31 85 0.66
32 1 0.01
33 2 0.02
34 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (30 bp):
AGAAAAAATGCCACTGAGTCGTGGACTTTG
Found at i:66730 original size:20 final size:20
Alignment explanation
Indices: 66702--66739 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
66692 TGAAAAGGGG
66702 TTTTCCTCTTTTTTTTTTCT
1 TTTTCCTCTTTTTTTTTTCT
*
66722 TTTTTCTCTTTTTTTTTT
1 TTTTCCTCTTTTTTTTTT
66740 GGTGTAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTCCTCTTTTTTTTTTCT
Found at i:67019 original size:13 final size:14
Alignment explanation
Indices: 66987--67020 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
66977 CTTTGCACTT
*
66987 TTTTTTTTGTGTGTG
1 TTTTTTTTGT-TTTG
67002 TTTTTTTTGTTTTG
1 TTTTTTTTGTTTTG
67016 TTTTT
1 TTTTT
67021 GTGTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:67032 original size:13 final size:12
Alignment explanation
Indices: 66986--67033 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
66976 CCTTTGCACT
66986 TTTTTTTTTGTG
1 TTTTTTTTTGTG
66998 TGTGTTTTTTT-TG
1 T-T-TTTTTTTGTG
67011 TTTTGTTTTTGTG
1 TTTT-TTTTTGTG
*
67024 TTTATTTTTG
1 TTTTTTTTTG
67034 ACTTTTTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
11 2 0.06
12 13 0.42
13 9 0.29
14 7 0.23
ACGTcount: A:0.02, C:0.00, G:0.19, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:67040 original size:26 final size:28
Alignment explanation
Indices: 66978--67040 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 28
66968 TTATTTTGCC
* *
66978 TTTGCACTTTTTTTTTTGTGTGTGTTTTT
1 TTTG-ACTTTTTGTTTTGTGTGTGTTATT
67007 TTTG---TTTTGTTTT-TGTGT-TTATT
1 TTTGACTTTTTGTTTTGTGTGTGTTATT
67030 TTTGACTTTTT
1 TTTGACTTTTT
67041 CATCACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
23 8 0.28
24 5 0.17
25 8 0.28
26 4 0.14
29 4 0.14
ACGTcount: A:0.05, C:0.05, G:0.16, T:0.75
Consensus pattern (28 bp):
TTTGACTTTTTGTTTTGTGTGTGTTATT
Found at i:77256 original size:20 final size:20
Alignment explanation
Indices: 77231--77269 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
77221 CTGCCAGTTT
77231 CATGTATCAATACAATTGTG
1 CATGTATCAATACAATTGTG
*
77251 CATGTATCGATACAATTGT
1 CATGTATCAATACAATTGT
77270 ATCGATACAA
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:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
CATGTATCAATACAATTGTG
Found at i:77272 original size:14 final size:14
Alignment explanation
Indices: 77253--77279 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77243 CAATTGTGCA
77253 TGTATCGATACAAT
1 TGTATCGATACAAT
77267 TGTATCGATACAA
1 TGTATCGATACAA
77280 AGCATAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
TGTATCGATACAAT
Found at i:79687 original size:5 final size:5
Alignment explanation
Indices: 79677--79782 Score: 70
Period size: 5 Copynumber: 22.2 Consensus size: 5
79667 CTTAATTTTA
* *
79677 AATAT AATAT AAT-T -ATAT AATAT AAATAT AA-AT AA-AA AATA- AATTAA
1 AATAT AATAT AATAT AATAT AATAT -AATAT AATAT AATAT AATAT AA-TAT
*
79724 AATAA AATAT AATATAT AATAT AATAT AATAT AA-A- AAT-T AATATT
1 AATAT AATAT -A-ATAT AATAT AATAT AATAT AATAT AATAT AATA-T
79769 AATAT -ATA- AATAT A
1 AATAT AATAT AATAT A
79783 TAAAAATTTA
Statistics
Matches: 85, Mismatches: 2, Indels: 28
0.74 0.02 0.24
Matches are distributed among these distances:
3 4 0.05
4 21 0.25
5 42 0.49
6 14 0.16
7 4 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:79737 original size:10 final size:11
Alignment explanation
Indices: 79675--79774 Score: 80
Period size: 12 Copynumber: 8.7 Consensus size: 11
79665 AACTTAATTT
79675 TAAATATAATA
1 TAAATATAATA
79686 TAATTATATAATA
1 TAA--ATATAATA
79699 TAAATATAA-A
1 TAAATATAATA
*
79709 TAAAAAATAA-A
1 T-AAATATAATA
*
79720 TTAAAATAAAATA
1 -T-AAATATAATA
79733 TAATATATAATA
1 TAA-ATATAATA
79745 T-AATATAATA
1 TAAATATAATA
*
79755 TAAAAATTAATA
1 TAAATA-TAATA
*
79767 TTAATATA
1 TAAATATA
79775 TAAATATATA
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
10 11 0.15
11 25 0.34
12 26 0.35
13 12 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAATATAATA
Found at i:79749 original size:17 final size:17
Alignment explanation
Indices: 79677--79785 Score: 92
Period size: 17 Copynumber: 6.7 Consensus size: 17
79667 CTTAATTTTA
79677 AATATAATATAATTATAT
1 AATATAATATAA-TATAT
79695 AATATAAATATAA-ATA-
1 AATAT-AATATAATATAT
*
79711 AA-A-AATA-AAT-TAA
1 AATATAATATAATATAT
*
79724 AATAAAATATAATATAT
1 AATATAATATAATATAT
79741 AATATAATATAATATA-
1 AATATAATATAATATAT
*
79757 AAAATTAATATTAATATAT
1 AATA-TAATA-TAATATAT
79776 AA-AT-ATATAA
1 AATATAATATAA
79786 AAATTTATAT
Statistics
Matches: 78, Mismatches: 3, Indels: 23
0.75 0.03 0.22
Matches are distributed among these distances:
12 4 0.05
13 6 0.08
14 1 0.01
15 8 0.10
16 11 0.14
17 26 0.33
18 13 0.17
19 9 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATAATATAATATAT
Found at i:79806 original size:33 final size:30
Alignment explanation
Indices: 79735--79835 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 30
79725 ATAAAATATA
*
79735 ATATA-TAATATA-ATATAATATAAAAA-TT
1 ATATATTAATATATAAAT-ATATAAAAATTT
79763 A-ATATTAATATATAAATATATAAAAATTT
1 ATATATTAATATATAAATATATAAAAATTT
*
79792 ATATATGATAAATATTTAAATATAT--AAATTT
1 ATATAT--T-AATATATAAATATATAAAAATTT
79823 ATATA--AATATATA
1 ATATATTAATATATA
79836 TTTGTAACAT
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
26 7 0.11
27 3 0.05
28 17 0.27
29 6 0.10
30 4 0.06
31 11 0.17
32 1 0.02
33 14 0.22
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (30 bp):
ATATATTAATATATAAATATATAAAAATTT
Found at i:79808 original size:17 final size:16
Alignment explanation
Indices: 79764--79835 Score: 72
Period size: 16 Copynumber: 4.3 Consensus size: 16
79754 ATAAAAATTA
* *
79764 ATATTAATATATAAAT
1 ATATAAATATTTAAAT
* *
79780 ATATAAAAATTTATAT
1 ATATAAATATTTAAAT
79796 ATGATAAATATTTAAAT
1 AT-ATAAATATTTAAAT
*
79813 ATATAAATTTATATAAAT
1 ATATAAA--TATTTAAAT
79831 ATATA
1 ATATA
79836 TTTGTAACAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
16 19 0.41
17 14 0.30
18 13 0.28
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (16 bp):
ATATAAATATTTAAAT
Found at i:79814 original size:41 final size:42
Alignment explanation
Indices: 79769--79862 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 42
79759 AATTAATATT
*
79769 AATATATAAATATATAAAAATTTATATATGATAA-AT-ATTTA
1 AATATATAAATATATAAAAATATATATATG-TAACATGATTTA
* * * *
79810 AATATATAAATTTATATAAATATATATTTGTAACATGATTTT
1 AATATATAAATATATAAAAATATATATATGTAACATGATTTA
*
79852 AATGTATAAAT
1 AATATATAAAT
79863 TAATGTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 3 0.07
41 28 0.62
42 14 0.31
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (42 bp):
AATATATAAATATATAAAAATATATATATGTAACATGATTTA
Found at i:79825 original size:10 final size:10
Alignment explanation
Indices: 79675--79836 Score: 58
Period size: 10 Copynumber: 16.1 Consensus size: 10
79665 AACTTAATTT
79675 TAAATATAATA
1 TAAATAT-ATA
79686 TAATTATATAATA
1 TAA--ATAT-ATA
*
79699 TAAATATAAA
1 TAAATATATA
79709 TAAA-A-A-A
1 TAAATATATA
*
79716 TAAAT-TAAAA
1 TAAATAT-ATA
79726 TAAAATATAATA
1 T-AAATAT-ATA
79738 TATAATATA-A
1 TA-AATATATA
79748 TATAATATA-A
1 TA-AATATATA
79758 -AAAT-TA-A
1 TAAATATATA
*
79765 T-ATTAATATA
1 TAAAT-ATATA
79775 TAAATATATA
1 TAAATATATA
* *
79785 AAAATTTATA
1 TAAATATATA
* *
79795 TATGATAAATA
1 TA-AATATATA
*
79806 TTTAA-ATATA
1 -TAAATATATA
*
79816 TAAATTTATA
1 TAAATATATA
79826 TAAATATATA
1 TAAATATATA
79836 T
1 T
79837 TTGTAACATG
Statistics
Matches: 118, Mismatches: 16, Indels: 35
0.70 0.09 0.21
Matches are distributed among these distances:
7 10 0.08
8 4 0.03
9 8 0.07
10 53 0.45
11 21 0.18
12 11 0.09
13 11 0.09
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (10 bp):
TAAATATATA
Found at i:80203 original size:30 final size:30
Alignment explanation
Indices: 80167--80249 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
80157 ATGGGTTTTT
80167 TATAAATTTTATATAATTTATATTTATTTA
1 TATAAATTTTATATAATTTATATTTATTTA
* *
80197 -ATTAAATTATA-ATATTTTATATTTTATTTA
1 TA-TAAATTTTATATAATTTATA-TTTATTTA
*
80227 TATAAA--TTATATAAATTATATTT
1 TATAAATTTTATATAATTTATATTT
80250 TAAATAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
28 5 0.11
29 18 0.41
30 20 0.45
31 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TATAAATTTTATATAATTTATATTTATTTA
Found at i:80245 original size:29 final size:29
Alignment explanation
Indices: 80175--80251 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
80165 TTTATAAATT
80175 TTATATAATTTATA-TTTATTTAATTAAA
1 TTATATAATTTATATTTTATTTAATTAAA
*
80203 TTATAATATTTTATATTTTATTT-ATATAAA
1 TTAT-ATAATTTATATTTTATTTAAT-TAAA
*
80233 TTATATAAATTATATTTTA
1 TTATATAATTTATATTTTA
80252 AATAAATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.09
29 24 0.56
30 15 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TTATATAATTTATATTTTATTTAATTAAA
Found at i:80260 original size:29 final size:29
Alignment explanation
Indices: 80175--80286 Score: 86
Period size: 29 Copynumber: 3.9 Consensus size: 29
80165 TTTATAAATT
* ** *
80175 TTATATAATTTATA-TTTATTTAATTAAA
1 TTATATAAATTATATTTTAAATAAATAAA
** ** *
80203 TTATAATATTTTATATTTTATTTATATAAA
1 TTAT-ATAAATTATATTTTAAATAAATAAA
80233 TTATATAAATTATATTTTAAATAAATAAA
1 TTATATAAATTATATTTTAAATAAATAAA
*
80262 -AATATATAATTAT-TTTTAATATAAA
1 TTATATA-AATTATATTTTAA-ATAAA
80287 AATTAAATAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
28 15 0.21
29 40 0.56
30 16 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TTATATAAATTATATTTTAAATAAATAAA
Found at i:80295 original size:30 final size:31
Alignment explanation
Indices: 80228--80309 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 31
80218 TTTTATTTAT
80228 ATAAATTATATAAATTATATTTTAAATAAATA
1 ATAAA-TATATAAATTATATTTTAAATAAATA
80260 A-AAATATAT-AATTAT-TTTTAATATAAA-A
1 ATAAATATATAAATTATATTTTAA-ATAAATA
80288 ATTAAATA-ACTAAATATATATT
1 A-TAAATATA-TAAAT-TATATT
80310 AAAAATTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
28 8 0.19
29 12 0.28
30 11 0.26
31 6 0.14
32 4 0.09
33 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (31 bp):
ATAAATATATAAATTATATTTTAAATAAATA
Found at i:81154 original size:11 final size:11
Alignment explanation
Indices: 81139--81180 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
81129 AATTAATAAA
81139 AAATTAAATAT
1 AAATTAAATAT
*
81150 TAATTAAATAT
1 AAATTAAATAT
81161 GAAATTAAAT-T
1 -AAATTAAATAT
81172 AAATTAAAT
1 AAATTAAAT
81181 TTATTGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.32
11 11 0.39
12 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAATTAAATAT
Found at i:81172 original size:5 final size:5
Alignment explanation
Indices: 81139--81181 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
81129 AATTAATAAA
*
81139 AAATT AAATAT TAATT AAATAT GAAATT AAATT AAATT AAATT
1 AAATT AAAT-T AAATT AAAT-T -AAATT AAATT AAATT AAATT
81182 TATTGAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 23 0.70
6 6 0.18
7 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:83889 original size:32 final size:31
Alignment explanation
Indices: 83853--83921 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
83843 TAAATATTTA
*
83853 AATATATCATAATTTA-T-ATAATAAAAATTATT
1 AATATATCA-AATTTATTAAAAATAAAAA-TA-T
*
83885 AATATATTAAATTTATTAAAAATAAAAATAT
1 AATATATCAAATTTATTAAAAATAAAAATAT
83916 AATATA
1 AATATA
83922 AATACACACA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 13 0.39
32 11 0.33
33 9 0.27
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (31 bp):
AATATATCAAATTTATTAAAAATAAAAATAT
Found at i:84413 original size:17 final size:17
Alignment explanation
Indices: 84372--84414 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
84362 AAATGAATCA
*
84372 ATTATTTTAAGAAAATT
1 ATTATTTTAAAAAAATT
*
84389 -TGATTTTTAAAAAAATT
1 ATTA-TTTTAAAAAAATT
84406 ATTATTTTA
1 ATTATTTTA
84415 TGTAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.10
17 17 0.81
18 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
ATTATTTTAAAAAAATT
Found at i:84811 original size:13 final size:13
Alignment explanation
Indices: 84793--84819 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84783 ACATAATGCT
84793 TTGTATCGATACA
1 TTGTATCGATACA
84806 TTGTATCGATACA
1 TTGTATCGATACA
84819 T
1 T
84820 GGATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:84830 original size:20 final size:21
Alignment explanation
Indices: 84800--84840 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
84790 GCTTTGTATC
84800 GATACATTGTATCGATACATG
1 GATACATTGTATCGATACATG
*
84821 GATA-ATTGTATTGATACATG
1 GATACATTGTATCGATACATG
84841 AGATTGGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (21 bp):
GATACATTGTATCGATACATG
Found at i:85725 original size:31 final size:31
Alignment explanation
Indices: 85683--85749 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
85673 TAATCCATAT
*
85683 TTAA-AATTAAATTAATAAACATAAAATTAA
1 TTAATAATTAAATTAATAAACACAAAATTAA
* *
85713 TTAATAATTAAATTAATGATCACAAAATTAA
1 TTAATAATTAAATTAATAAACACAAAATTAA
85744 TTAATA
1 TTAATA
85750 TTCTACTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (31 bp):
TTAATAATTAAATTAATAAACACAAAATTAA
Found at i:86343 original size:126 final size:126
Alignment explanation
Indices: 86118--86367 Score: 437
Period size: 126 Copynumber: 2.0 Consensus size: 126
86108 CCACTGTCGA
* * *
86118 TATGGTGCAGATCTTGCATAGTAAACTGCTTCTTTTCTTAATACCCTTAGAAGTTGTGGGACTGT
1 TATGGTGCAGATCTTGCATAGTAAACTGCTTCTTTTCTCAACACCCTTACAAGTTGTGGGACTGT
*
86183 CTGAATATCGTTCTCTAGTAGTAGGACACCTGAAAAGGTTTTGGTAAATGACGATTTCATT
66 CTGAATATCGTTCTCTAGTAGTAGGACACCTGAAAAGGATTTGGTAAATGACGATTTCATT
* * *
86244 TATGGTGCAGATCTTGCATGGTAAACTGCTTCTTTTCTCAGCCCCCTTACAAGTTGTGGGACTGT
1 TATGGTGCAGATCTTGCATAGTAAACTGCTTCTTTTCTCAACACCCTTACAAGTTGTGGGACTGT
86309 CTGAATATCGTTCTCTAGTAGTAGGACACCTGAAAAGGATTTGGTAAATGACGATTTCA
66 CTGAATATCGTTCTCTAGTAGTAGGACACCTGAAAAGGATTTGGTAAATGACGATTTCA
86368 CTCATAAGTT
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 117 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (126 bp):
TATGGTGCAGATCTTGCATAGTAAACTGCTTCTTTTCTCAACACCCTTACAAGTTGTGGGACTGT
CTGAATATCGTTCTCTAGTAGTAGGACACCTGAAAAGGATTTGGTAAATGACGATTTCATT
Found at i:87932 original size:2 final size:2
Alignment explanation
Indices: 87927--87989 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
87917 TCGTGTGTTG
87927 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87969 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
87990 TTTAATGTTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89526 original size:34 final size:32
Alignment explanation
Indices: 89463--89594 Score: 122
Period size: 34 Copynumber: 3.9 Consensus size: 32
89453 AGTGATTGAG
89463 AAGTTTTATCTTAGCCTT-TGAAAAAGATAGGAA
1 AAGTTTTATCTTAG-CTTGT-AAAAAGATAGGAA
89496 AGAGATTTTATCTTAGCTTGTAAAAAGATAGGAA
1 A-AG-TTTTATCTTAGCTTGTAAAAAGATAGGAA
* * * *
89530 ATAGGTTTATCTTAGCCTATGAAAAGATAAGGAGA
1 A-AGTTTTATCTTAGCTTGTAAAAAGAT-AGGA-A
* * * *
89565 AAGTTCTACCTTGGCTTGTGAAAAGATAGG
1 AAGTTTTATCTTAGCTTGTAAAAAGATAGG
89595 GTTGTAAGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
33 24 0.29
34 45 0.54
35 14 0.17
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (32 bp):
AAGTTTTATCTTAGCTTGTAAAAAGATAGGAA
Found at i:89589 original size:67 final size:68
Alignment explanation
Indices: 89467--89594 Score: 172
Period size: 67 Copynumber: 1.9 Consensus size: 68
89457 ATTGAGAAGT
* * *
89467 TTTATCTTAGCCTTTGAAAAAGATAGGAAAGAGATTTTATCTTAGCTTGTAAAAAGATAGGAAAT
1 TTTATCTTAGCCTATGAAAAAGATAGGAAAGAGATTCTACCTTAGCTTGTAAAAAGATAGGAAAT
89532 AGG
66 AGG
* *
89535 TTTATCTTAGCCTATG-AAAAGATAAGGAGAA-AG-TTCTACCTTGGCTTGTGAAAAGATAGG
1 TTTATCTTAGCCTATGAAAAAGAT-AGGA-AAGAGATTCTACCTTAGCTTGTAAAAAGATAGG
89595 GTTGTAAGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
67 30 0.57
68 21 0.40
69 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (68 bp):
TTTATCTTAGCCTATGAAAAAGATAGGAAAGAGATTCTACCTTAGCTTGTAAAAAGATAGGAAAT
AGG
Found at i:92002 original size:29 final size:30
Alignment explanation
Indices: 91970--92212 Score: 132
Period size: 29 Copynumber: 8.6 Consensus size: 30
91960 ACTAATAGGG
91970 TCCTAAAATGCATGAAATTACAT-AAATGA
1 TCCTAAAATGCATGAAATTACATAAAATGA
* * *
91999 TCCTAAAA--CATGGCAAATTA-TTGAAATAA
1 TCCTAAAATGCAT-G-AAATTACATAAAATGA
* *
92028 TCCTAAAATGTATGAAATTACAT-AAATGG
1 TCCTAAAATGCATGAAATTACATAAAATGA
* * *
92057 T-CT--TATGGA--AAATGAC-TAAAATGA
1 TCCTAAAATGCATGAAATTACATAAAATGA
*
92081 TGC-ATAAATGCATGAAA-TACAT-AAATG-
1 TCCTA-AAATGCATGAAATTACATAAAATGA
* *
92108 TCCTAAAATAGGA-AAAATTAC-TAAAATGA
1 TCCTAAAAT-GCATGAAATTACATAAAATGA
* * * *
92137 CCCTAAATTGAATGAAATTACAT-AAATAA
1 TCCTAAAATGCATGAAATTACATAAAATGA
92166 TCCTAAAAT--ATGGTAAATTAC-TAAAATGA
1 TCCTAAAATGCAT-G-AAATTACATAAAATGA
* *
92195 CCCAAAAATGCATGAAAT
1 TCCTAAAATGCATGAAAT
92213 GAAAAAAAAA
Statistics
Matches: 162, Mismatches: 26, Indels: 52
0.68 0.11 0.22
Matches are distributed among these distances:
23 1 0.01
24 12 0.07
25 1 0.01
26 4 0.02
27 19 0.12
28 26 0.16
29 91 0.56
30 4 0.02
31 4 0.02
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (30 bp):
TCCTAAAATGCATGAAATTACATAAAATGA
Found at i:92004 original size:58 final size:58
Alignment explanation
Indices: 91859--92212 Score: 257
Period size: 58 Copynumber: 6.3 Consensus size: 58
91849 TTAAGTGCTG
* * * * *
91859 CTAAAATGCAT-AGAATTGCAT-AATAGTTCCTAAAACATCAAAAATAACTAAATTG-T-
1 CTAAAATGCATGA-AATTACATAAAT-GATCCTAAAACATGAAAAATGACTAAAATGATC
* * * ** * * *
91915 C-ATAATGCATAAAATTACATAAAAGCCCCTAAAACATGAAAAATGACTAATAGGGTC
1 CTAAAATGCATGAAATTACATAAATGATCCTAAAACATGAAAAATGACTAAAATGATC
** * * * *
91972 CTAAAATGCATGAAATTACATAAATGATCCTAAAACATGGCAAATTATTGAAATAATC
1 CTAAAATGCATGAAATTACATAAATGATCCTAAAACATGAAAAATGACTAAAATGATC
* * * * *
92030 CTAAAATGTATGAAATTACATAAATGGT-CT----TATGGAAAATGACTAAAATGATG
1 CTAAAATGCATGAAATTACATAAATGATCCTAAAACATGAAAAATGACTAAAATGATC
* * * *
92083 C-ATAAATGCATGAAA-TACATAAATG-TCCTAAAATAGGAAAAATTACTAAAATGACC
1 CTA-AAATGCATGAAATTACATAAATGATCCTAAAACATGAAAAATGACTAAAATGATC
* * * * ** * *
92139 CTAAATTGAATGAAATTACATAAATAATCCTAAAATATGGTAAATTACTAAAATGACC
1 CTAAAATGCATGAAATTACATAAATGATCCTAAAACATGAAAAATGACTAAAATGATC
*
92197 CAAAAATGCATGAAAT
1 CTAAAATGCATGAAAT
92213 GAAAAAAAAA
Statistics
Matches: 236, Mismatches: 48, Indels: 26
0.76 0.15 0.08
Matches are distributed among these distances:
51 1 0.00
52 13 0.06
53 28 0.12
55 38 0.16
56 34 0.14
57 13 0.06
58 109 0.46
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.26
Consensus pattern (58 bp):
CTAAAATGCATGAAATTACATAAATGATCCTAAAACATGAAAAATGACTAAAATGATC
Found at i:94131 original size:80 final size:78
Alignment explanation
Indices: 94033--94570 Score: 285
Period size: 79 Copynumber: 6.9 Consensus size: 78
94023 TTGGGATTGA
* * *
94033 AGTAT-CCCTCGGAGATGGTAGGGTTGGAGTATCCCCGAAGATGTAAAATTTGGTGTTTTGGAAG
1 AGTATCCCCTCGGAAATGGTAGGGTTGGAGTATCCCCG-AGATGAAAAATTTGATGTTTTGGAAG
94097 TAAAAACGTGGTTGG
65 TAAAAACG-GGTTGG
* *
94112 AGTATCCCCTCGGAAATGGTAAGGTCT----T-T----GAGAT-AAAAATTTTGATGTTTTAGAA
1 AGTATCCCCTCGGAAATGGTAGGGT-TGGAGTATCCCCGAGATGAAAAA-TTTGATGTTTTGGAA
** *
94167 GTAAAAGTGAGGTCGG
64 GTAAAAACG-GGTTGG
* * *** * * * * * * *
94183 AGTATCCTCTCGGAGACAAT-GGGTTAGAGTATCCCTAGAGATAAAAAATTCGGTGTTTGGGAAA
1 AGTATCCCCTCGGAAATGGTAGGGTTGGAGTATCCC-CGAGATGAAAAATTTGATGTTTTGGAAG
** *
94247 TATGAACGGGGTTAG
65 TAAAAAC-GGGTTGG
* * * * * ** * **
94262 AGTATCCCCTCGAAAATGATGGGGTTAGAGCATCCTTGAGAT-AAAAATTTCTATGTTTTAAAAG
1 AGTATCCCCTCGGAAATGGTAGGGTTGGAGTATCCCCGAGATGAAAAATTT-GATGTTTTGGAAG
* *
94326 TAAAAATGGGTTAG
65 TAAAAACGGGTTGG
* ** * * * ** * * *
94340 AATATCCCCTTAGAGACGATAGGGTTGGAGTATCCTTAGAGATGAAAAATTTGGTGTTTAGGAAA
1 AGTATCCCCTCGGAAATGGTAGGGTTGGAGTATCC-CCGAGATGAAAAATTTGATGTTTTGGAAG
*
94405 TAAGAACAGGGTTGG
65 TAAAAAC-GGGTTGG
* * ** * * * **
94420 AGTTTCTCCTCAAAAATAGT-GAGGTTGGAGGATCCTCGAGATGAAAAATTCAATGTTTTGGAAG
1 AGTATCCCCTCGGAAATGGTAG-GGTTGGAGTATCCCCGAGATGAAAAATTTGATGTTTTGGAAG
* *
94484 TGAAATCGAGGTTGG
65 TAAAAACG-GGTTGG
* * ** *
94499 AGTATCCCCTCAGAAATGGTAGGGTTGGAATATCCCCGGAGATGAAGAAATTCAATGTTTTAGAA
1 AGTATCCCCTCGGAAATGGTAGGGTTGGAGTATCCCC-GAGATGAA-AAATTTGATGTTTTGGAA
94564 GTAAAAA
64 GTAAAAA
94571 TGGGGTTAGA
Statistics
Matches: 342, Mismatches: 92, Indels: 48
0.71 0.19 0.10
Matches are distributed among these distances:
69 1 0.00
70 7 0.02
71 44 0.13
72 1 0.00
73 1 0.00
74 1 0.00
76 1 0.00
77 1 0.00
78 41 0.12
79 139 0.41
80 82 0.24
81 23 0.07
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (78 bp):
AGTATCCCCTCGGAAATGGTAGGGTTGGAGTATCCCCGAGATGAAAAATTTGATGTTTTGGAAGT
AAAAACGGGTTGG
Found at i:94371 original size:158 final size:158
Alignment explanation
Indices: 94139--94478 Score: 391
Period size: 158 Copynumber: 2.2 Consensus size: 158
94129 GGTAAGGTCT
* * * * * *
94139 TTGAGATAAAAATTT-TGATGTTTTAGAAGTAAAAGTGAGGTCGGAGTATCCTCTCGGAGACAAT
1 TTGAGATAAAAATTTCT-ATGTTTTAAAAGTAAAAATGAGGTCAGAATATCCCCTCAGAGACAAT
* * *
94203 GGGTTAGAGTATCCCTAGAGATAAAAAATTCGGTGTTTGGGAAATATGAACGGGGTTAGAGTATC
65 GGGTTAGAGTATCCCTAGAGATAAAAAATTCGGTGTTTAGGAAATAAGAACAGGGTTAGAGTATC
* *
94268 CCCTCGAAAAT-GATGGGGTTAGAGCATCC
130 CCCTCAAAAATAG-TGAGGTTAGAGCATCC
* * *
94297 TTGAGATAAAAATTTCTATGTTTTAAAAGTAAAAATG-GGTTAGAATATCCCCTTAGAGACGATA
1 TTGAGATAAAAATTTCTATGTTTTAAAAGTAAAAATGAGGTCAGAATATCCCCTCAGAGACAAT-
* * * * * *
94361 GGGTTGGAGTATCCTTAGAGATGAAAAATTTGGTGTTTAGGAAATAAGAACAGGGTTGGAGTTTC
65 GGGTTAGAGTATCCCTAGAGATAAAAAATTCGGTGTTTAGGAAATAAGAACAGGGTTAGAGTATC
* * *
94426 TCCTCAAAAATAGTGAGGTTGGAGGATCC
130 CCCTCAAAAATAGTGAGGTTAGAGCATCC
* *
94455 TCGAGATGAAAAA-TTCAATGTTTT
1 TTGAGAT-AAAAATTTCTATGTTTT
94479 GGAAGTGAAA
Statistics
Matches: 153, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
157 19 0.12
158 127 0.83
159 7 0.05
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (158 bp):
TTGAGATAAAAATTTCTATGTTTTAAAAGTAAAAATGAGGTCAGAATATCCCCTCAGAGACAATG
GGTTAGAGTATCCCTAGAGATAAAAAATTCGGTGTTTAGGAAATAAGAACAGGGTTAGAGTATCC
CCTCAAAAATAGTGAGGTTAGAGCATCC
Found at i:99650 original size:19 final size:20
Alignment explanation
Indices: 99626--99676 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
99616 ATCGATAATA
99626 TATCGATACATGTTC-ATTG
1 TATCGATACATGTTCAATTG
*
99645 TATCGATACATATTCAATTG
1 TATCGATACATGTTCAATTG
*
99665 TATCGAAACATG
1 TATCGATACATG
99677 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (20 bp):
TATCGATACATGTTCAATTG
Found at i:101567 original size:13 final size:13
Alignment explanation
Indices: 101549--101574 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101539 ACACACAAGA
101549 TGTATCGATACAT
1 TGTATCGATACAT
101562 TGTATCGATACAT
1 TGTATCGATACAT
101575 CTCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:101590 original size:33 final size:32
Alignment explanation
Indices: 101529--101596 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
101519 CCTTAACTGT
*
101529 TTGTATCGATACACACAAGATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
101561 TTGTATCGATACATCTCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
101594 TTG
1 TTG
101597 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:104389 original size:20 final size:20
Alignment explanation
Indices: 104346--104397 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
104336 CTTAACTGTT
*
104346 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
104365 TGTATCGATACATCTCAAAA
1 TGTATCGATACATCACAAAA
104385 TGTATCGATACAT
1 TGTATCGATACAT
104398 TGGCTTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:110826 original size:13 final size:13
Alignment explanation
Indices: 110808--110871 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
110798 CAGAATTCTC
*
110808 TGTATCGATACAT
1 TGTATCGATACAG
110821 TGTATCGATACAG
1 TGTATCGATACAG
*
110834 TGTATCGATACAT
1 TGTATCGATACAG
110847 TGTATCGATACAG
1 TGTATCGATACAG
110860 TGTATCGATACA
1 TGTATCGATACA
110872 AAGGGTTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:110844 original size:26 final size:26
Alignment explanation
Indices: 110808--110871 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
110798 CAGAATTCTC
110808 TGTATCGATACATTGTATCGATACAG
1 TGTATCGATACATTGTATCGATACAG
110834 TGTATCGATACATTGTATCGATACAG
1 TGTATCGATACATTGTATCGATACAG
110860 TGTATCGATACA
1 TGTATCGATACA
110872 AAGGGTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (26 bp):
TGTATCGATACATTGTATCGATACAG
Found at i:112758 original size:22 final size:23
Alignment explanation
Indices: 112733--112778 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
112723 AGTTATTGTT
112733 AAATTGCTTT-ATTAAGGGGGAG
1 AAATTGCTTTGATTAAGGGGGAG
**
112755 AAATTTTTTTGATTAAGGGGGAG
1 AAATTGCTTTGATTAAGGGGGAG
112778 A
1 A
112779 GATAAGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.35
Consensus pattern (23 bp):
AAATTGCTTTGATTAAGGGGGAG
Found at i:113391 original size:21 final size:20
Alignment explanation
Indices: 113345--113397 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
113335 ATCGATACAC
**
113345 TGTATCGATACATGACTAAA
1 TGTATCGATACATGAAAAAA
* *
113365 TATATCGATACTTGCAAAAAA
1 TGTATCGATACATG-AAAAAA
113386 TGTATCGATACA
1 TGTATCGATACA
113398 GGTGATTGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:114421 original size:12 final size:12
Alignment explanation
Indices: 114404--114436 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
114394 ACAATGAAAG
114404 ATGATGAAGATA
1 ATGATGAAGATA
*
114416 ATGATGATGATA
1 ATGATGAAGATA
114428 ATGATGAAG
1 ATGATGAAG
114437 TTGACTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (12 bp):
ATGATGAAGATA
Found at i:116183 original size:13 final size:13
Alignment explanation
Indices: 116165--116223 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
116155 ATTGCTTGTG
116165 GTATCGATACATT
1 GTATCGATACATT
116178 GTATCGATACATT
1 GTATCGATACATT
116191 G---C--T-CATT
1 GTATCGATACATT
*
116198 GTATCGATTCATT
1 GTATCGATACATT
116211 GTATCGATACATT
1 GTATCGATACATT
116224 CTGGATTTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 5 0.13
8 1 0.03
10 2 0.05
12 1 0.03
13 30 0.77
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:116183 original size:33 final size:33
Alignment explanation
Indices: 116141--116223 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
116131 ATACATTTTG
**
116141 CATTGTATCGATACATTGCTTGTGGTATCGATA
1 CATTGTATCGATACATTGCTCATGGTATCGATA
* *
116174 CATTGTATCGATACATTGCTCATTGTATCGATT
1 CATTGTATCGATACATTGCTCATGGTATCGATA
116207 CATTGTATCGATACATT
1 CATTGTATCGATACATT
116224 CTGGATTTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATGGTATCGATA
Found at i:116197 original size:20 final size:20
Alignment explanation
Indices: 116174--116211 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
116164 GGTATCGATA
116174 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATTGCT
*
116194 CATTGTATCGATTCATTG
1 CATTGTATCGATACATTG
116212 TATCGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (20 bp):
CATTGTATCGATACATTGCT
Found at i:118853 original size:28 final size:28
Alignment explanation
Indices: 118817--118892 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
118807 ATTTTTCACA
* *
118817 ATCGGGGATACTCTAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGCTATTTC
*
118845 ATCGGGGATACTCCAATCCCGCTATTT-
1 ATCGGGGATACTCCAACCCCGCTATTTC
* *
118872 TTGAGGGGATACTCCAACCCC
1 AT-CGGGGATACTCCAACCCC
118893 AGCTTTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGCTATTTC
Found at i:118941 original size:51 final size:51
Alignment explanation
Indices: 118876--118993 Score: 191
Period size: 51 Copynumber: 2.3 Consensus size: 51
118866 CTATTTTTGA
* *
118876 GGGGATACTCCAACCCCAGCTTTATTTCCAAAATATTGATTTCTCGCAATC
1 GGGGATACTCCAACCCCAGCTTTATTTCCAAAATATCGATTTCTCACAATC
* * *
118927 GGGGATACTCCAACCCCAGCTTTATTTCTAAAGTATCGATTTTTCACAATC
1 GGGGATACTCCAACCCCAGCTTTATTTCCAAAATATCGATTTCTCACAATC
118978 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
118994 TGTTATTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGCTTTATTTCCAAAATATCGATTTCTCACAATC
Found at i:119013 original size:79 final size:77
Alignment explanation
Indices: 118930--119147 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 77
118920 CGCAATCGGG
* *
118930 GATACTCCAACCCCAGCTTTATTTCTAAAGTATCGATTTTTCACAATCGGGGATACTCCAACCCT
1 GATACTCCAACCCC-GTTTTATTTCTAAA-TATCGATTTTTCATAATCGGGGATACTCCAACCCT
118995 GTTATTTTTGAGGA
64 GTTATTTTTGAGGA
* * *
119009 GATACTCCAACCCCGATTTTATTTTCAAAATATCGA-TTTTCTATAATCAGGGATACTCCAACTC
1 GATACTCCAACCCCG-TTTTA-TTTCTAAATATCGATTTTTC-ATAATCGGGGATACTCCAACCC
*
119073 TGTTATTTTTGAGGG
63 TGTTATTTTTGAGGA
* * * * *
119088 GATACTCCAACCTCGGTTTTATTTCGAGAACACCGATTTTCCATAATCGGGGATACTCCA
1 GATACTCCAACC-CCGTTTTATTTCTA-AATATCGATTTTTCATAATCGGGGATACTCCA
119148 GCCCCGTTGT
Statistics
Matches: 121, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
78 11 0.09
79 97 0.80
80 13 0.11
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (77 bp):
GATACTCCAACCCCGTTTTATTTCTAAATATCGATTTTTCATAATCGGGGATACTCCAACCCTGT
TATTTTTGAGGA
Found at i:122346 original size:13 final size:13
Alignment explanation
Indices: 122328--122353 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122318 CAATTTTTTG
122328 TGTATCGATACAT
1 TGTATCGATACAT
122341 TGTATCGATACAT
1 TGTATCGATACAT
122354 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:122438 original size:20 final size:20
Alignment explanation
Indices: 122413--122485 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
122403 CAACTTTTTT
122413 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
122433 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
122454 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
122474 ATGTATCGATAC
1 ATGTATCGATAC
122486 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:122451 original size:41 final size:41
Alignment explanation
Indices: 122392--122485 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
122382 CTGCCAAGAA
*
122392 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
122433 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
122474 ATGTATCGATAC
1 ATGTATCGATAC
122486 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:122467 original size:21 final size:21
Alignment explanation
Indices: 122392--122467 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
122382 CTGCCAAGAA
* *
122392 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
122413 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
122433 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
122454 ATGTATCGATACAT
1 ATGTATCGATACAT
122468 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:124374 original size:13 final size:13
Alignment explanation
Indices: 124356--124380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124346 ACTGAAGCAA
124356 TGTATCGATACAT
1 TGTATCGATACAT
124369 TGTATCGATACA
1 TGTATCGATACA
124381 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:126020 original size:84 final size:84
Alignment explanation
Indices: 125865--126029 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
125855 CATTTTCCAC
* * * *
125865 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
125930 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
125949 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
126011 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
126030 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:128100 original size:13 final size:13
Alignment explanation
Indices: 128082--128107 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
128072 CAATTTTTTG
128082 TGTATCGATACAT
1 TGTATCGATACAT
128095 TGTATCGATACAT
1 TGTATCGATACAT
128108 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:128192 original size:20 final size:20
Alignment explanation
Indices: 128167--128239 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
128157 CAACTTTTTT
128167 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
128187 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
128208 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
128228 ATGTATCGATAC
1 ATGTATCGATAC
128240 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:128205 original size:41 final size:41
Alignment explanation
Indices: 128146--128239 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
128136 CTGCCAAGAA
*
128146 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
128187 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
128228 ATGTATCGATAC
1 ATGTATCGATAC
128240 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:128221 original size:21 final size:21
Alignment explanation
Indices: 128146--128221 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
128136 CTGCCAAGAA
* *
128146 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
128167 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
128187 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
128208 ATGTATCGATACAT
1 ATGTATCGATACAT
128222 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:128643 original size:20 final size:20
Alignment explanation
Indices: 128593--128670 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
128583 GGTAAAAAGA
*
128593 CATAATGTATCGATACATTG
1 CATAATGTATCAATACATTG
* *
128613 CAGAATATATCAATACATT-
1 CATAATGTATCAATACATTG
* *
128632 CATACATGTATCGATATATTG
1 CATA-ATGTATCAATACATTG
* * *
128653 AAAAATGTATCGATACAT
1 CATAATGTATCAATACAT
128671 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
19 3 0.07
20 41 0.89
21 2 0.04
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (20 bp):
CATAATGTATCAATACATTG
Found at i:128669 original size:40 final size:39
Alignment explanation
Indices: 128593--128670 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
128583 GGTAAAAAGA
* *
128593 CATAATGTATCGATACATTGCAGAATATATCAATACATT
1 CATAATGTATCGATACATTGAAAAATATATCAATACATT
* * *
128632 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCAATACAT
128671 CTGGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCAATACATT
Found at i:129441 original size:29 final size:29
Alignment explanation
Indices: 129231--130706 Score: 1659
Period size: 29 Copynumber: 50.1 Consensus size: 29
129221 TTTTTAAAAT
* * *
129231 AAAGGGTGCCACTAACTTATGTGGGCCTTAA
1 AAAGGGTGCCACTGAC-T-TGTGGGCTTTGA
* *
129262 AAAGAGTTGCCACCGACTCGTGTGGGCTTTGA
1 AAAG-GGTGCCACTGACT--TGTGGGCTTTGA
* * *
129294 AAAGAGTTACCACTGGCTTGTGGGCTTT-A
1 AAAG-GGTGCCACTGACTTGTGGGCTTTGA
*
129323 AAAGGGTGCCACTAACTTGTGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
129351 GAAGGGTGCCACTAATTTGTGTGGGCTTTGA
1 AAAGGGTGCCACTGA-CT-TGTGGGCTTTGA
* *
129382 AAAGAGTTGCTA-TCGACTTGTGTGGGCTTTGA
1 AAAG-GGTGCCACT-GAC-T-TGTGGGCTTTGA
* *
129414 AAAGAGTGCCACTAACTTGTGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
129442 AAATGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
129471 AAGGGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
129500 AAAGAGTGCCACTAACTTGTGGGCTTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
129528 AAAAGGTGCCACTGACTTGCGTGGGCTTTGA
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGA
* *
129559 AAAGGGGTGCCATTAACTTGTGGGCTTTGA
1 AAA-GGGTGCCACTGACTTGTGGGCTTTGA
*
129589 AAGGGGTGCCACTGACTTGTGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
129617 AAAGGGTGCCACTGACTTGCGTGGGCTTTGA
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGA
* *
129648 AAGGGGTGCCATTGACTTGTGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
129676 AAAGGGTGCCACTGACTTATAGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
129705 AAAGAGTTGCCACCGACTTGTGTGGGGTTTGA
1 AAAG-GGTGCCACTGAC-T-TGTGGGCTTTGA
* *
129737 AAAGAGAGCCACTGACTTGCGTGGGCTTT-A
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGA
129767 AAAGGGGTGCCACTGACTTGTGGGCTTTG-
1 AAA-GGGTGCCACTGACTTGTGGGCTTTGA
*
129796 AATGGGTGCCACTGACTTGTGGG-TTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
129823 GAAAGAGGTGCCACTGTCTTGTGGGCTTTGA
1 -AAAG-GGTGCCACTGACTTGTGGGCTTTGA
* * *
129854 AAAGAGTGCCACTGGCTTATGGGCTTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
129882 AAAGGGTGCCACTGACTTGCGTGGGCTTTGA
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGA
*
129913 AAGGGGTGCCACTGACTTGTGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
129941 AAAGGGTACCACAGACTTGTGGGCTTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
129969 AAAGGGTGCCACTGACTTGCGTGGGCTTTG-
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGA
129999 AAAGAGGTGCCACTGACTTGTGGGCTTTG-
1 AAAG-GGTGCCACTGACTTGTGGGCTTTGA
130028 AAAGGGTGCCACTGACTTGTGTGGGCTTTGA
1 AAAGGGTGCCACTGAC-T-TGTGGGCTTTGA
* *
130059 AAGGGGTGCCACTAACTTGTGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
130087 AAAGGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
130116 AAAGAGTTACCACTGGCTTGTGGGCTTT-A
1 AAAG-GGTGCCACTGACTTGTGGGCTTTGA
130145 AAAGGGTGCCACTGACTTGTGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
130173 GAAGGGTGCCACTGATTTGTGTGGGCTTTGA
1 AAAGGGTGCCACTGA-CT-TGTGGGCTTTGA
* * * *
130204 AAAGAGTTGCTACCGACTTGTGTGGGCTTTAA
1 AAAG-GGTGCCACTGAC-T-TGTGGGCTTTGA
*
130236 AAAGAGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
130265 AAAGAGTGCCACTGACTTATGGGTTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
130294 AAA-GGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
130322 AAAGAGTGCCACTAACTTGTGGG-TTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
130350 AAAGGGTGCCACTGACTTGCGTGGGCTTTGA
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGA
* *
130381 AAGGGGTGCCACTTACTTGTGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
130409 AAAGGGTGCCATTGACTTGCGTGGGCTTTG-
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGA
130439 AAAGAGGTGCCACTGACTTGTGGGCTTTGA
1 AAAG-GGTGCCACTGACTTGTGGGCTTTGA
* * *
130469 AAGGGGTGCCACTAACTTGTGGTCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * * *
130498 AAATAGTTGTCACCGACTCGTGTGGGCTTTGA
1 AAA-GGGTGCCACTGACT--TGTGGGCTTTGA
*
130530 AAAGAGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
130559 AAAGAGTGCCACTGACTTGCGTGGGCTTTGA
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGA
* * *
130590 AAGGGGTGCCATTGACTTGTGGGGTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
130618 AAAGGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
130647 AAGGGGTGCCACTAACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
130676 AAAGAGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
130705 AA
1 AA
130707 GGGATGAACA
Statistics
Matches: 1239, Mismatches: 142, Indels: 130
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.00
28 352 0.28
29 398 0.32
30 172 0.14
31 191 0.15
32 123 0.10
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTGA
Found at i:129562 original size:59 final size:57
Alignment explanation
Indices: 129231--130709 Score: 1555
Period size: 59 Copynumber: 25.1 Consensus size: 57
129221 TTTTTAAAAT
* * * *
129231 AAAGGGTGCCACTAACTTATGTGGGCCTTAAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGA
1 AAAGGGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTT-A
* * * * * *
129294 AAAGAGTTACCACTGGCTTGTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTA
* * * *
129351 GAAGGGTGCCACTAATTTGTGTGGGCTTTGAAAAGAGTTGCTA-TCGACTTGTGTGGGCTTTGA
1 AAAGGGTGCCACTGA-CT-TGTGGGCTTTGAAAAGAG-TGCCACT-GAC-T-TGTGGGCTTT-A
* * *
129414 AAAGAGTGCCACTAACTTGTGGGCTTTGAAATG-GTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-A
* *
129471 AAGGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTA
* * * *
129528 AAAAGGTGCCACTGACTTGCGTGGGCTTTGAAAAGGGGTGCCATTAACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGGCTTT-A
* *
129589 AAGGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGCGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTT-A
* * * * *
129648 AAGGGGTGCCATTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTATAGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-A
* * * *
129705 AAAGAGTTGCCACCGACTTGTGTGGGGTTTGAAAAGAGAGCCACTGACTTGCGTGGGCTTTA
1 AAAG-GGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTA
* *
129767 AAAGGGGTGCCACTGACTTGTGGGCTTTG-AATGGGTGCCACTGACTTGTGGG-TTTA
1 AAA-GGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTA
* * *
129823 GAAAGAGGTGCCACTGTCTTGTGGGCTTTGAAAAGAGTGCCACTGGCTTATGGGCTTTA
1 -AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTA
* * *
129882 AAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTA
* * * *
129941 AAAGGGTACCACAGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTA
*
129999 AAAGAGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGTGGGCTTTGA
1 AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC-T-TGTGGGCTTT-A
* * *
130059 AAGGGGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-A
* * * * *
130116 AAAGAGTTACCACTGGCTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTA
* * * *
130173 GAAGGGTGCCACTGATTTGTGTGGGCTTTGAAAAGAGTTGCTACCGACTTGTGTGGGCTTTAA
1 AAAGGGTGCCACTGA-CT-TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-TGTGGGCTTT-A
* * *
130236 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGTTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-A
* *
130294 AAA-GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGTTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTA
* * * *
130350 AAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGGGTGCCACTTACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTA
*
130409 AAAGGGTGCCATTGACTTGCGTGGGCTTTG-AAAGAGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGA-GTGCCACTGACTTGTGGGCTTT-A
* * * * * *
130469 AAGGGGTGCCACTAACTTGTGGTCTTTGAAAATAGTTGTCACCGACTCGTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTT-A
*
130530 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGCGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTT-A
* * * *
130590 AAGGGGTGCCATTGACTTGTGGGGTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-A
* * *
130647 AAGGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTA
130704 AAAGGG
1 AAAGGG
130710 ATGAACATTC
Statistics
Matches: 1223, Mismatches: 135, Indels: 122
0.83 0.09 0.08
Matches are distributed among these distances:
56 42 0.03
57 263 0.22
58 200 0.16
59 370 0.30
60 138 0.11
61 118 0.10
62 45 0.04
63 39 0.03
64 8 0.01
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (57 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTA
Found at i:130054 original size:411 final size:407
Alignment explanation
Indices: 129235--130706 Score: 1385
Period size: 411 Copynumber: 3.6 Consensus size: 407
129225 TAAAATAAAG
* * * *
129235 GGTGCCACTAACTTATGTGGGCCTTAAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCACTGACT--TGTGGGCTTTGAAAAGAG
* * * * *
129300 TTACCACTGGCTT--GTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTGGAAGGGTGCCA
62 -TGCCACTGACTTGCGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
* * * *
129362 CTAATTTGTGTGGGCTTT-GAAAAGAGTTGCTA-TCGACTTGTGTGGGCTTTGAAAAGAGTGCCA
126 CTGA-CT-TGTGGGCTTTAG-AAAGAG-TGCCACT-AAC-T-TGTGGGCTTTGAAAAGAGTGCCA
* * * * * *
129425 CTAACTTGTGGGCTTTG-AAATGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTT
184 CTGACTTATGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTT
* * * *
129489 GTGGGCTTTGAAAAGAGTGCCACTAACTT-GTGGGCTTT-AAAAAGGTGCCACTGACTTGCGTGG
249 GTGGGCTTT-AAAAGGGTGCCACTGACTTCGTGGGCTTTGAAAAGGGTGCCACTAACTT--GTGG
* *
129552 GCTTTGAAAAGGGGTGCCATTAACTTGTGGGCTTTGAAAGGGGTGCCACTGAC-T-TGTGGGCTT
311 GCTTTG-AAA-GGGTGCCACTGACTTGTGGGCTTTGAAA-GGGTGCCACTGACTTGTGTGGGCTT
*
129615 TGAAA-GGGTGCCACTGACTTGCGTGGGCTTTGAAAGG
373 TGAAAGGGGTGCCACTAACTT--GTGGGCTTTGAAA-G
* * * *
129652 GGTGCCATTGACTTGTGGGCTTTG-AAAG-GGTGCCACTGACTTATAGGCTTTGAAAAGAGTTGC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGC
* * * * * * *
129715 CACCGACTTGTGTGGGGTTTGAAAAGAGAGCCACTGACTTGCGTGGGCTTTAAAAGGGGTGCCAC
65 CACTGACTTGCGTGGGCTTTGAAAGGGGTGCCACTGACTT--GTGGGCTTTGAAA-GGGTGCCAC
* * * *
129780 TGACTTGTGGGCTTT-GAATGGGTGCCACTGACTTGTGGG-TTT-AGAAAGAGGTGCCACTGTCT
127 TGACTTGTGGGCTTTAGAAAGAGTGCCACTAACTTGTGGGCTTTGA-AAAGA-GTGCCACTGACT
* * * * * *
129842 TGTGGGCTTTGAAAAGAGTGCCACTGGCTTATGGGCTTT-AAAAGGGTGCCACTGACTTGCGTGG
190 TATGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTT--GTGG
* *
129906 GCTTTGAAAGGGGTGCCACTGACTT-GTGGGCTTTG-AAAGGGTACCAC-AGACTTGTGGGCTTT
253 GCTTT-AAAAGGGTGCCACTGACTTCGTGGGCTTTGAAAAGGGTGCCACTA-ACTTGTGGGCTTT
*
129968 AAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGAGGTGCCACTGAC-T-TGTGGGCTTTGAAA
316 GAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAG-GGTGCCACTGACTTGTGTGGGCTTTGAAA
*
130031 -GGGTGCCACTGACTTGTGTGGGCTTTGAAAGG
378 GGGGTGCCACTAAC-T-TGTGGGCTTTGAAA-G
* * *
130063 GGTGCCACTAACTTGTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGC
* * *
130126 CACTGGCTT--GTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGCCACTGA
65 CACTGACTTGCGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
* * ** *
130188 TTTGTGTGGGCTTT-GAAAAGAGTTGCTACCGACTTGTGTGGGCTTTAAAAAGAGTGCCACTGAC
130 -CT-TGTGGGCTTTAG-AAAGAG-TGCCACTAAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGAC
* * * * *
130252 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGTTTTGAAAAG-GTGCCACTGACTTGTGGG
189 TTATGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGG
* * * *
130316 CTTTGAAAAGAGTGCCACTAACTT-GTGGG-TTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTT
254 CTTT-AAAAGGGTGCCACTGACTTCGTGGGCTTTGAAAAGGGTGCCACTAACTT--GTGGGCTTT
* * * *
130379 GAAAGGGGTGCCACTTACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGCGTGGGCTTTGAAAGA
316 GAAA-GGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAAGG
*
130444 GGTGCCACTGACTTGTGGGCTTTGAAAGG
380 GGTGCCACTAACTTGTGGGCTTTGAAA-G
* * * * *
130473 GGTGCCACTAACTTGTGGTCTTTGAAAATAGTTGTCACCGACTCGTGTGGGCTTTGAAAAGAGTG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACT--TGTGGGCTTTGAAAAGAGTG
* *
130538 CCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGCGTGGGCTTTGAAAGGGGTGCCA
64 CCACTGACTTGCGTGGGCTTTGAAAGGGGTGCCACTGACTT--GTGGGCTTTGAAA-GGGTGCCA
* * * * * * *
130601 TTGACTTGTGGGGTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTAACTT
126 CTGACTTGTGGGCTTTAGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
130665 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
191 ATGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
130707 GGGATGAACA
Statistics
Matches: 921, Mismatches: 90, Indels: 94
0.83 0.08 0.09
Matches are distributed among these distances:
405 12 0.01
406 12 0.01
407 11 0.01
408 24 0.03
409 87 0.09
410 67 0.07
411 375 0.41
412 75 0.08
413 104 0.11
414 66 0.07
415 30 0.03
416 26 0.03
417 32 0.03
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (407 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCC
ACTGACTTGCGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAC
TTGTGGGCTTTAGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGG
CTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTAAA
AGGGTGCCACTGACTTCGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGC
CACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAAGGGGTGCCACTAA
CTTGTGGGCTTTGAAAG
Found at i:131960 original size:17 final size:19
Alignment explanation
Indices: 131938--131977 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
131928 TTTTGCTATT
131938 TTTTCTT-ATTT-TTTTTG
1 TTTTCTTGATTTGTTTTTG
*
131955 TTTTCTTGTTTTGTTTTTG
1 TTTTCTTGATTTGTTTTTG
131974 TTTT
1 TTTT
131978 GTTTTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 3 0.15
19 10 0.50
ACGTcount: A:0.03, C:0.05, G:0.10, T:0.82
Consensus pattern (19 bp):
TTTTCTTGATTTGTTTTTG
Found at i:131976 original size:11 final size:11
Alignment explanation
Indices: 131946--131983 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
131936 TTTTTTCTTA
131946 TTTT-TTTTGTT
1 TTTTGTTTTG-T
131957 TTCTTGTTTTGT
1 TT-TTGTTTTGT
131969 TTTTGTTTTGT
1 TTTTGTTTTGT
131980 TTTT
1 TTTT
131984 TTCTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.60
12 5 0.20
13 5 0.20
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (11 bp):
TTTTGTTTTGT
Found at i:146004 original size:20 final size:20
Alignment explanation
Indices: 145975--146049 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
145965 AAAAAGACAT
*
145975 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
145995 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
146015 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
146035 AATGTATCGATACAT
1 AATGTATCGATACAT
146050 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:146043 original size:40 final size:39
Alignment explanation
Indices: 145972--146049 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
145962 GGTAAAAAGA
* *
145972 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
146011 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
146050 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:155793 original size:1 final size:1
Alignment explanation
Indices: 155789--155852 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
155779 ATTCTTTTTC
* * * * * * * *
155789 AAAAAACAAAAAATAAAAAAAAACAAAAAAAAACAAAAAAAAACAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
155853 GAGAGAAAAG
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:155809 original size:15 final size:14
Alignment explanation
Indices: 155789--155852 Score: 76
Period size: 14 Copynumber: 4.4 Consensus size: 14
155779 ATTCTTTTTC
*
155789 AAAAAACAAAAAAT
1 AAAAAACAAAAAAA
*
155803 AAAAAA-AAACAAA
1 AAAAAACAAAAAAA
155816 AAAAAACAAAAAAA
1 AAAAAACAAAAAAA
155830 AACAAAACAAAACAAA
1 AA-AAAACAAAA-AAA
155846 GAAAAAA
1 -AAAAAA
155853 GAGAGAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
13 11 0.26
14 14 0.33
15 9 0.21
16 7 0.16
17 2 0.05
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.02
Consensus pattern (14 bp):
AAAAAACAAAAAAA
Found at i:155811 original size:17 final size:17
Alignment explanation
Indices: 155788--155841 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
155778 CATTCTTTTT
155788 CAAAAAACAAAAAATAAA
1 CAAAAAACAAAAAA-AAA
155806 -AAAAAACAAAAAAAAA
1 CAAAAAACAAAAAAAAA
*
155822 C-AAAAA-AAAACAAAA
1 CAAAAAACAAAAAAAAA
155837 CAAAA
1 CAAAA
155842 CAAAGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 9 0.27
16 11 0.33
17 13 0.39
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (17 bp):
CAAAAAACAAAAAAAAA
Found at i:155864 original size:5 final size:5
Alignment explanation
Indices: 155791--155845 Score: 62
Period size: 5 Copynumber: 11.6 Consensus size: 5
155781 TCTTTTTCAA
* * *
155791 AAAAC AAAA- AATA- AAAA- AAAAC AAAAA AAAAC AAAAA AAAAC AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
155838 AAAAC AAA
1 AAAAC AAA
155846 GAAAAAAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
4 10 0.23
5 33 0.77
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (5 bp):
AAAAC
Found at i:155869 original size:10 final size:10
Alignment explanation
Indices: 155796--155852 Score: 87
Period size: 10 Copynumber: 5.6 Consensus size: 10
155786 TTCAAAAAAC
*
155796 AAAAAATAAA
1 AAAAAACAAA
155806 AAAAAACAAA
1 AAAAAACAAA
155816 AAAAAACAAA
1 AAAAAACAAA
155826 AAAAAACAAA
1 AAAAAACAAA
*
155836 ACAAAACAAA
1 AAAAAACAAA
155846 GAAAAAA
1 -AAAAAA
155853 GAGAGAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
10 38 0.88
11 5 0.12
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:157015 original size:55 final size:54
Alignment explanation
Indices: 156938--157188 Score: 247
Period size: 55 Copynumber: 4.5 Consensus size: 54
156928 TCCTTTCACC
* * *
156938 CTTT-AGTCTTCAAAAAGTAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
156991 CCTTTCAATCCTCAAAGAGCAAGACGCCTTTCAAAGCCAATACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
157046 TTTTTTTAGTCCTCAAAGAGCAGGACGCCTTT-AAAGCCCACACAAGTTGGTGGCA
1 --CTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* **
157101 -TTTCCCAGTCCTCAAAGAGCAAGATGCGTTCTCCTTTTAAAGCCCACACAAGTTGGTAACA
1 CTTT--CAGTCCTCAAAGAGCAAGA--CG----CCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
157162 CTTCCTAGTCCTCAAAGAGCAGGACGC
1 CTTTC-AGTCCTCAAAGAGCAAGACGC
157189 TCTCTCTTTT
Statistics
Matches: 165, Mismatches: 19, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
52 3 0.02
54 21 0.13
55 65 0.39
56 28 0.17
59 2 0.01
60 6 0.04
61 38 0.23
62 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (54 bp):
CTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:157335 original size:156 final size:154
Alignment explanation
Indices: 157050--157344 Score: 428
Period size: 156 Copynumber: 1.9 Consensus size: 154
157040 GTGGCATTTT
157050 TTTAGTCCTCAAAGAGCAGGACGCCTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCA
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCA
** * *
157115 AAGAGCAAGATGCGTTCTCCTTTTAAAGCCCACACAAGTTGGTAACACTTCCTAGTCCTCAAAGA
66 AAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTCGTAACACTTCCTAGTCCTCAAAGA
157180 GCAGGACGCTCTCTCTTTTCGCCC
131 GCAGGACGCTCTCTCTTTTCGCCC
* * * * *
157204 TTTAGTCCTCAAAGAGCATGATGCCTTTTAAAGCCTACACAAGTTGGTGGCACTTTTCTAGTCCT
1 TTTAGTCCTCAAAGAGCAGGACGCC-TTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCT
* ** * * *
157269 CAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTCGTGGCATTTTCTAGTCCTTAAA
64 CAAAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTCGTAACACTTCCTAGTCCTCAAA
*
157334 GAGTAGGACGC
129 GAGCAGGACGC
157345 CTTTCAAAAC
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
154 23 0.19
155 25 0.20
156 75 0.61
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (154 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCA
AAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTCGTAACACTTCCTAGTCCTCAAAGA
GCAGGACGCTCTCTCTTTTCGCCC
Found at i:157373 original size:55 final size:55
Alignment explanation
Indices: 157206--157393 Score: 198
Period size: 55 Copynumber: 3.3 Consensus size: 55
157196 TTTCGCCCTT
* * *
157206 TAGTCCTCAAAGAGCATGATGCCTTTTAAAGCCTACACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCTACACAAGTTGGTGGCA-TTTTC
* * *
157262 TAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTCGTGGCATTTTC
1 TAGTCCTCAAAGAGCAAGACGCC-TTT-C----AAAGCCTACACAAGTTGGTGGCATTTTC
* * * *
157323 TAGTCCTTAAAGAGTAGGACGCCTTTCAAAACCTACACAAGTTGGTGGCATTTT-
1 TAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTC
*
157377 TCAGCCCTCAAAGAGCA
1 T-AGTCCTCAAAGAGCA
157394 GGATGCTTTC
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
54 1 0.01
55 36 0.33
56 20 0.18
57 3 0.03
59 1 0.01
60 3 0.03
61 24 0.22
62 21 0.19
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (55 bp):
TAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTC
Found at i:157429 original size:272 final size:265
Alignment explanation
Indices: 156834--157469 Score: 789
Period size: 265 Copynumber: 2.4 Consensus size: 265
156824 TTTCTCCTTT
* *
156834 CATTTTTCAGTCCTCAGAGAGCAGGACAT-CTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGTA
1 CATTTTTCAGTCCTCAAAGAGCAGG--ATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGT--AA
* * * *
156897 C-CTT-CTAGTCCTCAAAGAGTAGGACGCTCTCTCCTTTCACCCTTTAGTCTTCAAAAAGTAAGA
62 CACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCACCCTTTAGTCCTCAAAAAGCAAGA
*
156960 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGCCTTTCAA
127 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACACCTTTCAA
* * * *
157025 AGCCAATACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTAAAGCCCACACA
192 AGCCAACACAAGTTCGTGGCATTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTAAAACCCACACA
157090 AGTTGGTGG
257 AGTTGGTGG
** * *
157099 CATTTCCCAGTCCTCAAAGAGCAAGATGCGTTCTCCTTTTAAAGCCCACACAAGTTGGTAACACT
1 CATTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTAACACT
* * * *
157164 TCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCGCCCTTTAGTCCTCAAAGAGCATGATGCC
66 TCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCACCCTTTAGTCCTCAAAAAGCAAGACGCC
* * * *
157229 TTTTAAAGCCTACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACACCTTTTCCTTT
131 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AATCCTCAAAGAGCAAGACACC-TTT-C---
* * * *
157294 TAAAGCCCACACAAGTTCGTGGCA-TTTTCTAGTCCTTAAAGAGTAGGACGCCTTTCAAAACCTA
190 -AAAGCCAACACAAGTTCGTGGCATTTTTCTAGTCCTCAAAGAGCAGGACGCCTTT-AAAACCCA
157358 CACAAGTTGGTGG
253 CACAAGTTGGTGG
* * * * **
157371 CATTTTTCAGCCCTCAAAGAGCAGGATGCTTTCTCCTTTTAAAGACCACTCGAGTTGGTGGCACT
1 CATTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTAACAC-
* * *
157436 TTCCT-GTCTTCAAAGAGCAGGATGCTTTCTCTTT
65 TTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTT
157470 GCAAAGCCCA
Statistics
Matches: 318, Mismatches: 40, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
263 4 0.01
264 6 0.02
265 132 0.42
266 20 0.06
267 3 0.01
268 1 0.00
271 28 0.09
272 119 0.37
273 5 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (265 bp):
CATTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTAACACT
TCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCACCCTTTAGTCCTCAAAAAGCAAGACGCC
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACACCTTTCAAAGCC
AACACAAGTTCGTGGCATTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTAAAACCCACACAAGTT
GGTGG
Found at i:157432 original size:61 final size:59
Alignment explanation
Indices: 157228--157592 Score: 253
Period size: 61 Copynumber: 6.1 Consensus size: 59
157218 AGCATGATGC
* * **
157228 CTTTTAAAG-CCTACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACACCTTT-T
1 CTTTTAAAGACC-AC-CAAGTTGGTGGCAC-TTTCCAGTCCTCAAAGAGCAGGA-TGCTTTCT
* * * * * * *
157289 CCTTTTAAAGCCCACACAAGTTCGTGGCATTTTCTAGTCCTTAAAGAGTAGGA--C--GC-
1 -CTTTTAAAGACCAC-CAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
* * * *
157345 CTTTCAAA-ACCTACACAAGTTGGTGGCATTTTTCAGCCCTCAAAGAGCAGGATGCTTTCT
1 CTTTTAAAGACC-AC-CAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
* * *
157405 CCTTTTAAAGACCACTCGAGTTGGTGGCACTTTCCTGTCTTCAAAGAGCAGGATGCTTTCT
1 -CTTTTAAAGACCAC-CAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
* * * * * *
157466 CTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCTTCAAAGAGTAGGACGCATTT-T
1 CTTT-TAAAGACCAC-CAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGC-TTTCT
** * ** * *
157527 CTTTTCAAAGTTCACAAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAAGATGCCTTTTT
1 CTTTT-AAAGACCACCAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
157588 CTTTT
1 CTTTT
157593 CTCCTTTATC
Statistics
Matches: 246, Mismatches: 42, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
54 2 0.01
55 41 0.17
57 1 0.00
58 1 0.00
59 1 0.00
60 38 0.15
61 130 0.53
62 30 0.12
63 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (59 bp):
CTTTTAAAGACCACCAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
Done.