Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 180 of 189
Found at i:53573211 original size:22 final size:22
Alignment explanation
Indices: 53573186--53573274 Score: 110
Period size: 22 Copynumber: 4.0 Consensus size: 22
53573176 AAATTCAATA
*
53573186 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCTTTCAAAAATTCTC
*
53573208 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCTTTCAAAAATTCTC
*
53573230 TCAATTCCTTTCAAAATTTC-C
1 TCAATTCCTTTCAAAAATTCTC
*
53573251 ATCAATTTCC-TTCCAAAATTCTC
1 -TCAA-TTCCTTTCAAAAATTCTC
53573274 T
1 T
53573275 TAAACTCTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
21 1 0.02
22 54 0.90
23 5 0.08
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (22 bp):
TCAATTCCTTTCAAAAATTCTC
Found at i:53573284 original size:52 final size:52
Alignment explanation
Indices: 53573227--53573325 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
53573217 TTCAAAATTT
* * *
53573227 CTCTC-AATTCCTTTCAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAATTCCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTCTTAAA
*
53573279 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTC
1 CTCTCAAATTCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTC
53573326 CAAATCCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 3 0.07
52 25 0.61
53 13 0.32
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (52 bp):
CTCTCAAATTCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCTTAAA
Found at i:53573318 original size:21 final size:22
Alignment explanation
Indices: 53573279--53573320 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
53573269 TTCTCTTAAA
53573279 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
53573301 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
53573321 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:53573424 original size:29 final size:30
Alignment explanation
Indices: 53573362--53573424 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 30
53573352 ATTAAATTTC
* *
53573362 ATTTTTTAAGAAAATTTTAAATTTTTTTAT
1 ATTTTTTAAGAAAATTTTAAAATTTTTAAT
*
53573392 -TTTTTTAA-ATAATTTTAAAATTTTTAAT
1 ATTTTTTAAGAAAATTTTAAAATTTTTAAT
53573420 ATTTT
1 ATTTT
53573425 CAACAATGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
ATTTTTTAAGAAAATTTTAAAATTTTTAAT
Found at i:53573569 original size:24 final size:23
Alignment explanation
Indices: 53573514--53573569 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
53573504 TAAATTTTAA
*
53573514 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
53573537 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
53573563 ATTTTTT
1 ATTTTTT
53573570 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:53575713 original size:17 final size:18
Alignment explanation
Indices: 53575691--53575725 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
53575681 TAAAATCCCT
53575691 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
53575708 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
53575726 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:53575793 original size:28 final size:28
Alignment explanation
Indices: 53575718--53577171 Score: 1437
Period size: 28 Copynumber: 54.8 Consensus size: 28
53575708 AACCCTAATT
*
53575718 TAATTAAATTAAAAACCCTAA---ACCC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53575743 TACTT-AATTAAAAACCCTAACCCTAACC
1 TAATTAAATTAAAAACCCTAA-CCTAACC
53575771 TAATTTAATTAAATTAAAAACCCTAACCTAACC
1 -----TAATTAAATTAAAAACCCTAACCTAACC
***
53575804 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TAACC
53575833 TAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53575861 TACTTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53575889 TAATTTAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53575917 TAATTTAATTAAAAACCCTAACCTAA--
1 TAATTAAATTAAAAACCCTAACCTAACC
53575943 T--TT-AATTAAAAACCCTAACCT-A-C
1 TAATTAAATTAAAAACCCTAACCTAACC
53575966 ---TTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53575991 TAATTTAATTAAAAACCCTAACCTAA--
1 TAATTAAATTAAAAACCCTAACCTAACC
53576017 T--TT-AATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53576042 TAATTTAATTAAAAACCCTAACCT-A-C
1 TAATTAAATTAAAAACCCTAACCTAACC
53576068 ---TTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53576093 TAATTTAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53576121 TAATTTAATTAAAAACCCTAACCTAA--
1 TAATTAAATTAAAAACCCTAACCTAACC
53576147 T--TT-AATT-AAAACCCTAACCT-A-C
1 TAATTAAATTAAAAACCCTAACCTAACC
* **
53576169 ---TTAAATTAAAAACCCTAACCTTATT
1 TAATTAAATTAAAAACCCTAACCTAACC
53576194 TAATTAAATTAAAAACCCTAACCCTACCCTAACC
1 TAATTAAATTAAAAACCCT-A----A-CCTAACC
*
53576228 TAATTTAATTAAAAACCCTAACCT--CC
1 TAATTAAATTAAAAACCCTAACCTAACC
53576254 ---TTAAATTAAAAACCCTAACCTAA--
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53576277 T--TT-AATTAAAAATCCTAACCT-A-C
1 TAATTAAATTAAAAACCCTAACCTAACC
* **
53576300 ---TTAAATTAAAAACCCTAACCTTATT
1 TAATTAAATTAAAAACCCTAACCTAACC
53576325 TAATTAAATTAAAAACCCTAACCCTACCCTAACC
1 TAATTAAATTAAAAACCCT-A----A-CCTAACC
*
53576359 TAATTTAATTAAAAACCCTAACCT-A-C
1 TAATTAAATTAAAAACCCTAACCTAACC
**
53576385 ---TTAAATTAAAAACCCTAACCTAATT
1 TAATTAAATTAAAAACCCTAACCTAACC
53576410 TAATTAAATTAAAAACCCTAACCTAA--
1 TAATTAAATTAAAAACCCTAACCTAACC
53576436 T--TT-AATTAAAAACCCTAACCT-A-C
1 TAATTAAATTAAAAACCCTAACCTAACC
**
53576459 ---TTAAATTAAAAACCCTAACCTAATT
1 TAATTAAATTAAAAACCCTAACCTAACC
53576484 TAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
***
53576512 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TAACC
53576541 TAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
* ***
53576569 TACTTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TAACC
53576598 TAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53576626 TAATTTAATTAAAAACCCTAACCTAA--
1 TAATTAAATTAAAAACCCTAACCTAACC
53576652 T--TT-AATTAAAAACCCTAACCT-A-C
1 TAATTAAATTAAAAACCCTAACCTAACC
* * **
53576675 ---TTAAATTAAAAATCCTAACCTTATT
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53576700 TAATTAAATTAAAAACCCTACCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53576728 TAATTTAATTAAAAA---T--CCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53576751 TACTTAAATTAAAAACCCTAACCTAA--
1 TAATTAAATTAAAAACCCTAACCTAACC
**
53576777 T--TT-AATTAAAAACCCTAACCTAATT
1 TAATTAAATTAAAAACCCTAACCTAACC
**
53576802 TAATTAAATTAAAAACCCTAACCTAATT
1 TAATTAAATTAAAAACCCTAACCTAACC
53576830 TAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
53576858 TAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
53576886 TAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53576914 TACTTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
53576942 TAATT-AATTAAAAACCCTAACCTAA--
1 TAATTAAATTAAAAACCCTAACCTAACC
53576967 T--TT-AATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53576992 TAATTTAATTAAAAACCCTAACCTAA--
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53577018 T--TT-AATTTAAAACCCTAACCT-A-C
1 TAATTAAATTAAAAACCCTAACCTAACC
***
53577041 ---TTAAATTAAAAACCCTAACCTATTT
1 TAATTAAATTAAAAACCCTAACCTAACC
53577066 TAATTAAATTAAAAACCCTAACCCTAACCTAACC
1 TAATTAAATT--AAA----AACCCTAACCTAACC
* **
53577100 TAATTTAATTAAAAACCCTAACCTAAAT
1 TAATTAAATTAAAAACCCTAACCTAACC
53577128 TAATTAAATTAAAAA---T--CCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACC
*
53577151 TACTTAAATTAAAAACCCTAA
1 TAATTAAATTAAAAACCCTAA
53577172 TTAAATTGTA
Statistics
Matches: 1241, Mismatches: 76, Indels: 221
0.81 0.05 0.14
Matches are distributed among these distances:
21 3 0.00
22 32 0.03
23 353 0.28
24 38 0.03
25 12 0.01
26 13 0.01
27 28 0.02
28 583 0.47
29 78 0.06
30 3 0.00
32 3 0.00
33 15 0.01
34 80 0.06
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.29
Consensus pattern (28 bp):
TAATTAAATTAAAAACCCTAACCTAACC
Found at i:53575824 original size:51 final size:50
Alignment explanation
Indices: 53575769--53577171 Score: 873
Period size: 51 Copynumber: 26.6 Consensus size: 50
53575759 CTAACCCTAA
*
53575769 CCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAAC
1 CCTAATCTAATTAAATTAAAAACCCTAACCTAA-CTAATTAAATTAAAAAC
* *
53575820 CCTAACCTTATTTTAATTAAATTAAAAACCCTAACCTAACCTACTTAAATTAAAAAC
1 CCT-A----A-TCTAATTAAATTAAAAACCCTAACCTAA-CTAATTAAATTAAAAAC
* *
53575877 CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAAC
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACCTAA-CTAATTAAATTAAAAAC
* *
53575933 CCTAACCTAATTTAATTAAAAACCCTAACCT-AC---TTAAATTAAAAAC
1 CCTAATCTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
*
53575979 CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAA-T--TT-AATTAAAAAC
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
*
53576030 CCTAACCTAACCTAATTTAATTAAAAACCCTAACCT-AC---TTAAATTAAAAAC
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
* *
53576081 CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAAC
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACCTAA-CTAATTAAATTAAAAAC
* *
53576137 CCTAACCTAATTTAATT-AAAACCCTAACCT-AC---TTAAATTAAAAAC
1 CCTAATCTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
* *
53576182 CCTAACCTTATTTAATTAAATTAAAAACCCTAACCCTACCCTAACCTAATTTAATTAAAAAC
1 CCT-A----ATCTAATTAAATTAAAAACCCT-A----A-CCTAA-CTAATTAAATTAAAAAC
* ** *
53576244 CCTAACCTCCTTAAATTAAAAACCCTAACCTAA-T--TT-AATTAAAAAT
1 CCTAATCTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
* * **
53576290 CCTAACCTACTTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAAC
1 CCTAATCTAATTAAATTAAAAACCCTAACC-TAACTAATTAAATTAAAAAC
*
53576341 CCTAACCCTACCCTAACCTAATTTAATTAAAAACCCTAACCT-AC---TTAAATTAAAAACCC
1 CCT-A----A---T---CTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAA--C
*
53576400 TAACCTAATTTAATTAAATTAAAAACCCTAACCTAA-T--TT-AATTAAAAAC
1 ---CCTAATCTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
* * *
53576449 CCTAACCTACTTAAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAAC
1 CCTAATCTAATTAAATTAAAAACCCTAACCTAA-CTAATTAAATTAAAAAC
**
53576500 CCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAAC
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACC-TA-ACTAATTAAATTAAAAAC
* **
53576557 CCTAACCTAACCTACTTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAAC
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACC-TA-ACTAATTAAATTAAAAAC
*
53576614 CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAA-T--TT-AATTAAAAAC
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
* * * **
53576665 CCTAACCTACTTAAATTAAAAATCCTAACCTTATTTAATTAAATTAAAAACCCTAC
1 CCTAATCTAATTAAATTAAAAACCCTAACC-TAACTAATTAAATT-AAAA----AC
* * *
53576721 CCTAACCTAATTTAATTAAAAATCCTAACCT-AC---TTAAATTAAAAAC
1 CCTAATCTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
* * *
53576767 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCC
1 CCTAATCTAATTAAATTAAAAACCCTAACCTAA-CTAATTAAATTAAAAA--C
*
53576820 TAACCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAAC
1 ---CCTAATCTAATTAAATTAAAAACCCTAACCTAA-CTAATTAAATTAAAAAC
*
53576874 CCTAACCTAACCTAATTAAATTAAAAACCCTAACCTAACCTACTTAAATTAAAAAC
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACCTAA-CTAATTAAATTAAAAAC
53576930 CCTAACCTAACCTAATT-AATTAAAAACCCTAACCTAA-T--TT-AATTAAAAAC
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
* *
53576980 CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAA-T--TT-AATTTAAAAC
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
* * **
53577031 CCTAACCTACTTAAATTAAAAACCCTAACCTATTTTAATTAAATTAAAAACCCTAAC
1 CCTAATCTAATTAAATTAAAAACCCTAACCTA-ACTAATTAAATT--AAA----AAC
* * *
53577088 CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAAATTAATTAAATTAAAAAT
1 CCTAA--T---CTAATTAAATTAAAAACCCTAACCT-AACTAATTAAATTAAAAAC
* *
53577144 CCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAATCTAATTAAATTAAAAACCCTAA
53577172 TTAAATTGTA
Statistics
Matches: 1160, Mismatches: 73, Indels: 238
0.79 0.05 0.16
Matches are distributed among these distances:
45 15 0.01
46 163 0.14
47 7 0.01
48 5 0.00
49 4 0.00
50 66 0.06
51 334 0.29
52 18 0.02
53 7 0.01
54 3 0.00
55 21 0.02
56 235 0.20
57 198 0.17
58 1 0.00
59 2 0.00
60 3 0.00
61 3 0.00
62 74 0.06
63 1 0.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (50 bp):
CCTAATCTAATTAAATTAAAAACCCTAACCTAACTAATTAAATTAAAAAC
Found at i:53576217 original size:34 final size:34
Alignment explanation
Indices: 53576179--53576250 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
53576169 TTAAATTAAA
* **
53576179 AACCCTAACCTTATTTAATTAAATTAAAAACCCT
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
* *
53576213 AACCCTACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
53576247 AACC
1 AACC
53576251 TCCTTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (34 bp):
AACCCTAACCTAACCTAATTAAATTAAAAACCCT
Found at i:53576348 original size:34 final size:34
Alignment explanation
Indices: 53576310--53576381 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
53576300 TTAAATTAAA
* **
53576310 AACCCTAACCTTATTTAATTAAATTAAAAACCCT
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
* *
53576344 AACCCTACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
53576378 AACC
1 AACC
53576382 TACTTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (34 bp):
AACCCTAACCTAACCTAATTAAATTAAAAACCCT
Found at i:53576409 original size:18 final size:21
Alignment explanation
Indices: 53576363--53576478 Score: 97
Period size: 23 Copynumber: 4.9 Consensus size: 21
53576353 CTAACCTAAT
53576363 TTAATTAAAAACCCTAACCTAC
1 TTAATTAAAAACCCTAACC-AC
*
53576385 TTAAATTAAAAACCCTAACCTAATTTAA
1 TT-AATTAAAAACCCTAACC------AC
*
53576413 TTAAATTAAAAACCCTAACCTAAT
1 TT-AATTAAAAACCCTAACC--AC
53576437 TTAATTAAAAACCCTAACCTAC
1 TTAATTAAAAACCCTAACC-AC
53576459 TTAAATTAAAAACCCTAACC
1 TT-AATTAAAAACCCTAACC
53576479 TAATTTAATT
Statistics
Matches: 82, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
22 5 0.06
23 51 0.62
24 4 0.05
28 22 0.27
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (21 bp):
TTAATTAAAAACCCTAACCAC
Found at i:53576483 original size:18 final size:21
Alignment explanation
Indices: 53575921--53576188 Score: 142
Period size: 23 Copynumber: 10.9 Consensus size: 21
53575911 CTAACCTAAT
*
53575921 TTAATTAAAAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACC--AC
53575944 TTAATTAAAAACCCTAACCTAC
1 TTAATTAAAAACCCTAACC-AC
53575966 TTAAATTAAAAACCCTAACCTAACC
1 TT-AATTAAAAACCCTAACC--A-C
*
53575991 TAATTTAATTAAAAACCCTAACCTAAT
1 ----TTAATTAAAAACCCTAACC--AC
53576018 TTAATTAAAAACCCTAACCTAACC
1 TTAATTAAAAACCCTAACC--A-C
53576042 TAATTTAATTAAAAACCCTAACCTAC
1 ----TTAATTAAAAACCCTAACC-AC
53576068 TTAAATTAAAAACCCTAACCTAACC
1 TT-AATTAAAAACCCTAACC--A-C
53576093 TAATTTAATTAAAAACCCTAACCTAACC
1 ----TTAATTAAAAACCCTAACC--A-C
*
53576121 TAATTTAATTAAAAACCCTAACCTAAT
1 ----TTAATTAAAAACCCTAACC--AC
53576148 TTAATT-AAAACCCTAACCTAC
1 TTAATTAAAAACCCTAACC-AC
53576169 TTAAATTAAAAACCCTAACC
1 TT-AATTAAAAACCCTAACC
53576189 TTATTTAATT
Statistics
Matches: 214, Mismatches: 10, Indels: 42
0.80 0.04 0.16
Matches are distributed among these distances:
21 3 0.01
22 21 0.10
23 93 0.43
24 2 0.01
25 2 0.01
26 1 0.00
27 1 0.00
28 87 0.41
29 4 0.02
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
TTAATTAAAAACCCTAACCAC
Found at i:53576668 original size:18 final size:20
Alignment explanation
Indices: 53576623--53576707 Score: 62
Period size: 23 Copynumber: 3.8 Consensus size: 20
53576613 CCCTAACCTA
53576623 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
53576644 TAACCTAATTTAATTAAAAACCC
1 --ACCTAATTTAATTAAAAA-CC
* *
53576667 TAACCTACTTAAATTAAAAATCC
1 --ACCTAATTTAATTAAAAA-CC
*
53576690 TAACCTTATTTAATTAAA
1 --ACCTAATTTAATTAAA
53576708 TTAAAAACCC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:53577120 original size:23 final size:23
Alignment explanation
Indices: 53577093--53577171 Score: 86
Period size: 23 Copynumber: 3.2 Consensus size: 23
53577083 CTAACCCTAA
53577093 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
*
53577116 CCTAACCTAAATTAATTAAATTAAAAAT
1 CCTAACCT-AA-T--TT-AATTAAAAAC
* *
53577144 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
53577167 CCTAA
1 CCTAA
53577172 TTAAATTGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
23 22 0.47
24 3 0.06
25 1 0.02
26 1 0.02
27 3 0.06
28 17 0.36
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (23 bp):
CCTAACCTAATTTAATTAAAAAC
Found at i:53580511 original size:84 final size:85
Alignment explanation
Indices: 53580311--53580514 Score: 383
Period size: 84 Copynumber: 2.4 Consensus size: 85
53580301 CAAACTTGCT
*
53580311 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATCAAAAAAA
53580376 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
53580396 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATC-AAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATCAAAAAAA
53580460 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
*
53580480 ACTGTAGCGAAATCGCGTCCATGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
53580515 CACAATTTCT
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
84 60 0.51
85 57 0.49
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (85 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATCAAAAAAA
AATTATTTCCTACATGACCA
Found at i:53580696 original size:124 final size:125
Alignment explanation
Indices: 53580424--53580703 Score: 356
Period size: 124 Copynumber: 2.3 Consensus size: 125
53580414 CCACGAGGGC
* * *
53580424 GCGATTTGACACTATTTGCTCAGAAACATC-AAAAAAAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTTACACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * * * * **
53580488 GAAATCGCGTCCATGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* *
53580548 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATTA-TT-CTCACATGACC-ACTGTA
1 GCGATTTTACACTATTTACTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTA
* *
53580610 GCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
53580672 GCGA-TTTACCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTTA-CACTATTT-ACTCAGAAACGTCAA
53580704 CTCGAAAAAA
Statistics
Matches: 136, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
123 13 0.10
124 95 0.70
125 17 0.12
126 11 0.08
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (125 bp):
GCGATTTTACACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:53581075 original size:31 final size:31
Alignment explanation
Indices: 53581024--53581105 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
53581014 TCTTGAATAA
* * * **
53581024 AATATTTTTATTTAAATAATA-ATGAAAATT
1 AATATTTTTACTAAAATAATATATAAAAAAG
53581054 AATATTTTTGACTAAAATAATATATAAAAAAG
1 AATATTTTT-ACTAAAATAATATATAAAAAAG
*
53581086 AAT-TATTTACTAAAATAATA
1 AATATTTTTACTAAAATAATA
53581106 CACAAACTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
30 21 0.48
31 14 0.32
32 9 0.20
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (31 bp):
AATATTTTTACTAAAATAATATATAAAAAAG
Found at i:53581486 original size:65 final size:66
Alignment explanation
Indices: 53581263--53581543 Score: 379
Period size: 66 Copynumber: 4.3 Consensus size: 66
53581253 ATTTTGAATT
* *
53581263 TTTGAATAGGAAAGGTAAGATAGGTGGAAAACGATTATAAAATTTGAAGATAGGCGGGTTTGAAA
1 TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGGTTTGAAA
*
53581328 T
66 A
* * * * *
53581329 TTTGAATAGGAATGGTAAGATAAGTGGAAAATGACTATAAAATCTGAAGATAGGTGGATTTGAAA
1 TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGGTTTGAAA
53581394 A
66 A
* * *
53581395 TTTGATTAAGG-ATGGTAAGATAGGTGGAAAAAGACTGTAAAATTTGAAGATA-GCGGGTTTGAA
1 TTTGAAT-AGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGGTTTGAA
53581458 AA
65 AA
* * * * *
53581460 TTTAAATAGGAATGATAAGATAGGTGGAAAACGACTATAAAATTTAAAGATAGGCAGATTTGAAA
1 TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGGTTTGAAA
53581525 A
66 A
53581526 TTTGAATTA-GAATGGTAA
1 TTTGAA-TAGGAATGGTAA
53581544 AATGACTAAG
Statistics
Matches: 186, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
64 3 0.02
65 53 0.28
66 125 0.67
67 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.26, T:0.28
Consensus pattern (66 bp):
TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGGTTTGAAA
A
Found at i:53581510 original size:131 final size:132
Alignment explanation
Indices: 53581263--53581543 Score: 397
Period size: 131 Copynumber: 2.1 Consensus size: 132
53581253 ATTTTGAATT
* * *
53581263 TTTGAA-TAGGAAAGGTAAGATAGGTGGAAAACGATTATAAAATTTGAAGATAGGCGGGTTTGAA
1 TTTGAATTA-GAATGGTAAGATAGGTGGAAAAAGACTATAAAATTTGAAGATAGGCGGGTTTGAA
* * * * * **
53581327 ATTTTGAATAGGAATGGTAAGATAAGTGGAAAATGACTATAAAATCTGAAGATAGGTGGATTTGA
65 AATTTAAATAGGAATGATAAGATAAGTGGAAAACGACTATAAAATCTAAAGATAGGCAGATTTGA
53581392 AAA
130 AAA
* *
53581395 TTTG-ATTAAGGATGGTAAGATAGGTGGAAAAAGACTGTAAAATTTGAAGATA-GCGGGTTTGAA
1 TTTGAATT-AGAATGGTAAGATAGGTGGAAAAAGACTATAAAATTTGAAGATAGGCGGGTTTGAA
* *
53581458 AATTTAAATAGGAATGATAAGATAGGTGGAAAACGACTATAAAATTTAAAGATAGGCAGATTTGA
65 AATTTAAATAGGAATGATAAGATAAGTGGAAAACGACTATAAAATCTAAAGATAGGCAGATTTGA
53581523 AAA
130 AAA
53581526 TTTGAATTAGAATGGTAA
1 TTTGAATTAGAATGGTAA
53581544 AATGACTAAG
Statistics
Matches: 131, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
131 84 0.64
132 46 0.35
133 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.26, T:0.28
Consensus pattern (132 bp):
TTTGAATTAGAATGGTAAGATAGGTGGAAAAAGACTATAAAATTTGAAGATAGGCGGGTTTGAAA
ATTTAAATAGGAATGATAAGATAAGTGGAAAACGACTATAAAATCTAAAGATAGGCAGATTTGAA
AA
Found at i:53591877 original size:13 final size:14
Alignment explanation
Indices: 53591849--53591878 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53591839 AAATTTCAAG
53591849 TTTTTACTAGATTT
1 TTTTTACTAGATTT
*
53591863 TTTTTTCTAGATTT
1 TTTTTACTAGATTT
53591877 TT
1 TT
53591879 AATGGTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTTACTAGATTT
Found at i:53591917 original size:19 final size:19
Alignment explanation
Indices: 53591887--53591936 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
53591877 TTAATGGTTG
* *
53591887 ATTTTAGTTTATTTTTTCTA
1 ATTTT-GTTTATTTTTCCCA
53591907 ATTTTGTTTATTTTTCCCA
1 ATTTTGTTTATTTTTCCCA
53591926 ATTTTGTTTAT
1 ATTTTGTTTAT
53591937 GATATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.18, C:0.08, G:0.06, T:0.68
Consensus pattern (19 bp):
ATTTTGTTTATTTTTCCCA
Found at i:53593578 original size:29 final size:30
Alignment explanation
Indices: 53593519--53593576 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
53593509 TCCGAGCCTT
*
53593519 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
53593549 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
53593577 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:53593806 original size:13 final size:13
Alignment explanation
Indices: 53593788--53593819 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
53593778 TTTCCAGCAA
53593788 TTATGAATTTATT
1 TTATGAATTTATT
53593801 TTATGAATTTATT
1 TTATGAATTTATT
*
53593814 TGATGA
1 TTATGA
53593820 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:53594027 original size:50 final size:50
Alignment explanation
Indices: 53593914--53594155 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
53593904 ATTTGGGTAA
* * *
53593914 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
53593970 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
53594020 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
53594070 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
53594120 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
53594156 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:53594103 original size:100 final size:103
Alignment explanation
Indices: 53593914--53594163 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
53593904 ATTTGGGTAA
53593914 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
53593979 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
53594020 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
53594082 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
53594120 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
53594164 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:53601168 original size:29 final size:30
Alignment explanation
Indices: 53601109--53601166 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
53601099 TCCGAGCCTT
*
53601109 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
53601139 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
53601167 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:53601396 original size:13 final size:13
Alignment explanation
Indices: 53601378--53601409 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
53601368 TTTCCAGCAA
53601378 TTATGAATTTATT
1 TTATGAATTTATT
53601391 TTATGAATTTATT
1 TTATGAATTTATT
*
53601404 TGATGA
1 TTATGA
53601410 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:53601617 original size:50 final size:50
Alignment explanation
Indices: 53601504--53601745 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
53601494 ATTTGGGTAA
* * *
53601504 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
53601560 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
53601610 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
53601660 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
53601710 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
53601746 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:53601693 original size:100 final size:103
Alignment explanation
Indices: 53601504--53601753 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
53601494 ATTTGGGTAA
53601504 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
53601569 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
53601610 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
53601672 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
53601710 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
53601754 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:53603134 original size:21 final size:22
Alignment explanation
Indices: 53603100--53603140 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
53603090 GTTTTTTTTT
*
53603100 AATTTTTAATTATTGATTTAAG
1 AATTTTCAATTATTGATTTAAG
*
53603122 AATTTTCAA-TATTTATTTA
1 AATTTTCAATTATTGATTTA
53603141 TTATTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
AATTTTCAATTATTGATTTAAG
Found at i:53603267 original size:5 final size:5
Alignment explanation
Indices: 53603257--53603282 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
53603247 TGAGCATTCG
53603257 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
53603283 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:53606678 original size:30 final size:31
Alignment explanation
Indices: 53606642--53606705 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
53606632 TAGTAAATAT
* * *
53606642 TTTTTTA-TATTATTTTAATCAAAAAGTTTA
1 TTTTTTATTATTATTTAAATAAAAAAATTTA
53606672 TTTTTTATTATTATTTAAATAAAAAAATTTA
1 TTTTTTATTATTATTTAAATAAAAAAATTTA
53606703 TTT
1 TTT
53606706 AAGAGAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (31 bp):
TTTTTTATTATTATTTAAATAAAAAAATTTA
Found at i:53606997 original size:25 final size:25
Alignment explanation
Indices: 53606956--53607034 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
53606946 ATTTTTAATT
*
53606956 TTTTAAAAGTATT-TATATTATATTA
1 TTTTAAAA-TTTTATATATTATATTA
*
53606981 TTTTAATATTTTATATATT-T-TTA
1 TTTTAAAATTTTATATATTATATTA
* * *
53607004 TTTATTAAAATTTTTTATATAATATTT
1 -TT-TTAAAATTTTATATATTATATTA
53607031 TTTT
1 TTTT
53607035 TGAAAGATCG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 3 0.07
24 6 0.14
25 29 0.67
26 3 0.07
27 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (25 bp):
TTTTAAAATTTTATATATTATATTA
Found at i:53613127 original size:27 final size:27
Alignment explanation
Indices: 53613089--53613142 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
53613079 CTTAGGGCCA
53613089 GTTCTTCATTGCTTTTGAAGAGTGCTT
1 GTTCTTCATTGCTTTTGAAGAGTGCTT
53613116 GTTCTTCATTGCTTTTGAAGAGTGCTT
1 GTTCTTCATTGCTTTTGAAGAGTGCTT
53613143 TTGAGAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (27 bp):
GTTCTTCATTGCTTTTGAAGAGTGCTT
Found at i:53613800 original size:18 final size:18
Alignment explanation
Indices: 53613774--53613808 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53613764 TTTGATTCAC
53613774 CGTCATCATCACCATCAT
1 CGTCATCATCACCATCAT
* *
53613792 CGTCGTCATCATCATCA
1 CGTCATCATCACCATCA
53613809 CTTTAAACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.37, G:0.09, T:0.29
Consensus pattern (18 bp):
CGTCATCATCACCATCAT
Found at i:53618777 original size:15 final size:15
Alignment explanation
Indices: 53618757--53618785 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53618747 CTTGCTTCGT
53618757 TGTTTAATAGGTGCG
1 TGTTTAATAGGTGCG
53618772 TGTTTAATAGGTGC
1 TGTTTAATAGGTGC
53618786 TCTGTAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.31, T:0.41
Consensus pattern (15 bp):
TGTTTAATAGGTGCG
Found at i:53619462 original size:19 final size:20
Alignment explanation
Indices: 53619421--53619469 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
53619411 TACGTTACCC
*
53619421 TAAACCCTTAATCATAAGCCA
1 TAAA-CCTTAATCATAAACCA
*
53619442 TAAACCTTAA-CATAAATCA
1 TAAACCTTAATCATAAACCA
53619461 TAAA-CTTAA
1 TAAACCTTAA
53619470 ACCCTAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 6 0.23
21 4 0.15
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAACCTTAATCATAAACCA
Found at i:53619489 original size:14 final size:13
Alignment explanation
Indices: 53619440--53619491 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
53619430 AATCATAAGC
*
53619440 CATAAA-CCTTAA
1 CATAAATCCTAAA
*
53619452 CATAAATCATAAA
1 CATAAATCCTAAA
* *
53619465 CTTAAACCCTAAA
1 CATAAATCCTAAA
53619478 CACTAAATCCTAAA
1 CA-TAAATCCTAAA
53619492 TTTTAAACAC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
12 6 0.19
13 15 0.48
14 10 0.32
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (13 bp):
CATAAATCCTAAA
Found at i:53619618 original size:7 final size:7
Alignment explanation
Indices: 53619602--53620278 Score: 122
Period size: 7 Copynumber: 93.4 Consensus size: 7
53619592 ATCAATATTA
*
53619602 AAACCCT
1 AAACCTT
53619609 AAACCTT
1 AAACCTT
*
53619616 AAATGCTT
1 AAA-CCTT
*
53619624 AAACCCT
1 AAACCTT
** *
53619631 ACCCCTA
1 AAACCTT
53619638 AAACC-T
1 AAACCTT
*
53619644 AAATCTT
1 AAACCTT
53619651 AAACCTT
1 AAACCTT
*
53619658 AAAACCCT
1 -AAACCTT
53619666 AAACCTT
1 AAACCTT
53619673 AAACAC-T
1 AAAC-CTT
53619680 AAACCCTT
1 AAA-CCTT
*
53619688 CAA-CTT
1 AAACCTT
*
53619694 AAAACTT
1 AAACCTT
53619701 AAATCC-T
1 AAA-CCTT
53619708 AAACCTT
1 AAACCTT
53619715 AAA-CTT
1 AAACCTT
*
53619721 CAAACTCCT
1 -AAAC-CTT
**
53619730 AAATATT
1 AAACCTT
53619737 AATA--TT
1 AA-ACCTT
*
53619743 AAACCCT
1 AAACCTT
53619750 AAATCC-T
1 AAA-CCTT
53619757 AAACCTT
1 AAACCTT
* *
53619764 AAATGCAT
1 AAA-CCTT
*
53619772 AAACCCTA
1 AAA-CCTT
53619780 AAACCTT
1 AAACCTT
*
53619787 AAAACTCT
1 AAACCT-T
53619795 AAACCTT
1 AAACCTT
* *
53619802 AAAAACAT
1 -AAACCTT
53619810 AAACAC-T
1 AAAC-CTT
* *
53619817 AATCCCT
1 AAACCTT
**
53619824 AAATATCT
1 AAACCT-T
*
53619832 AAACATT
1 AAACCTT
*
53619839 AAACCCT
1 AAACCTT
*
53619846 AAACCTCA
1 AAACCT-T
53619854 AATGACCTT
1 AA--ACCTT
**
53619863 AAATATT
1 AAACCTT
*
53619870 AAA-TTCT
1 AAACCT-T
*
53619877 AAACTTT
1 AAACCTT
53619884 AAACCTT
1 AAACCTT
*
53619891 AAACTCTC
1 AAAC-CTT
53619899 AAACCTT
1 AAACCTT
* *
53619906 AAATCTC
1 AAACCTT
*
53619913 AAACACCT
1 AAAC-CTT
* *
53619921 AAACAATA
1 AAAC-CTT
*
53619929 AAACTTT
1 AAACCTT
53619936 AAATCC-T
1 AAA-CCTT
*
53619943 GAACCTT
1 AAACCTT
*
53619950 AAAACTCT
1 AAACCT-T
*
53619958 AAATCTT
1 AAACCTT
53619965 AAA-CTCT
1 AAACCT-T
*
53619972 AAACTCTA
1 AAAC-CTT
*
53619980 AAACCCT
1 AAACCTT
53619987 AAACAC-T
1 AAAC-CTT
* *
53619994 AAATCAT
1 AAACCTT
**
53620001 AAAATTT
1 AAACCTT
*
53620008 AAACCCT
1 AAACCTT
* *
53620015 AAATCTC
1 AAACCTT
* *
53620022 AAATACAT
1 AAA-CCTT
*
53620030 AAGCCTT
1 AAACCTT
*
53620037 AAAACTCT
1 AAACCT-T
53620045 AAACCTT
1 AAACCTT
*
53620052 AAACCCT
1 AAACCTT
53620059 AAATCC-T
1 AAA-CCTT
53620066 AAACCTT
1 AAACCTT
53620073 AAA-CTT
1 AAACCTT
**
53620079 CAAATATAT
1 -AAACCT-T
53620088 AAACC--
1 AAACCTT
53620093 AAACCTT
1 AAACCTT
*
53620100 AAACTTT
1 AAACCTT
* *
53620107 AAATGCAT
1 AAA-CCTT
53620115 AAACCTT
1 AAACCTT
*
53620122 AAA-TTAT
1 AAACCT-T
*
53620129 AAACCCT
1 AAACCTT
53620136 AAACCTT
1 AAACCTT
*
53620143 AAATACTT
1 AAA-CCTT
*
53620151 AAACCCT
1 AAACCTT
53620158 AAACCTT
1 AAACCTT
* *
53620165 AAATCAT
1 AAACCTT
53620172 AAATCC-T
1 AAA-CCTT
*
53620179 AAACCCT
1 AAACCTT
53620186 AAA-CTT
1 AAACCTT
53620192 CAAATGCC-T
1 -AAA--CCTT
*
53620201 AAATCCTA
1 AAA-CCTT
*
53620209 AAATCTT
1 AAACCTT
53620216 AAAACCTT
1 -AAACCTT
*
53620224 AAA-TTAT
1 AAACCT-T
53620231 AAACCTT
1 AAACCTT
53620238 AAAATCC-T
1 -AAA-CCTT
*
53620246 AAACCCT
1 AAACCTT
*
53620253 AAACACTA
1 AAAC-CTT
53620261 ACAACCTT
1 A-AACCTT
*
53620269 AAACTTT
1 AAACCTT
53620276 AAA
1 AAA
53620279 TTATAAACTC
Statistics
Matches: 482, Mismatches: 122, Indels: 132
0.65 0.17 0.18
Matches are distributed among these distances:
5 6 0.01
6 40 0.08
7 287 0.60
8 131 0.27
9 13 0.03
10 5 0.01
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.27
Consensus pattern (7 bp):
AAACCTT
Found at i:53619673 original size:22 final size:22
Alignment explanation
Indices: 53619636--53619804 Score: 106
Period size: 22 Copynumber: 7.9 Consensus size: 22
53619626 ACCCTACCCC
*
53619636 TAAAA-CCTAAATCTTAAACCT
1 TAAAACCCTAAACCTTAAACCT
53619657 TAAAACCCTAAACCTTAAACAC-
1 TAAAACCCTAAACCTTAAAC-CT
* *
53619679 T-AAACCCTTCAA-CTTAAAACT
1 TAAAACCC-TAAACCTTAAACCT
*
53619700 T-AAATCCTAAACCTTAAA-CT
1 TAAAACCCTAAACCTTAAACCT
* **
53619720 TCAAACTCCTAAATATTAATA--T
1 TAAAAC-CCTAAACCTTAA-ACCT
53619742 T-AAACCCTAAATCC-TAAACCT
1 TAAAACCCTAAA-CCTTAAACCT
** * *
53619763 TAAATGCATAAACCCTAAAACCT
1 TAAAACCCTAAA-CCTTAAACCT
*
53619786 TAAAACTCTAAACCTTAAA
1 TAAAACCCTAAACCTTAAA
53619805 AACATAAACA
Statistics
Matches: 115, Mismatches: 20, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
19 1 0.01
20 16 0.14
21 38 0.33
22 44 0.38
23 16 0.14
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.27
Consensus pattern (22 bp):
TAAAACCCTAAACCTTAAACCT
Found at i:53619697 original size:57 final size:57
Alignment explanation
Indices: 53619599--53619717 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 57
53619589 ATCATCAATA
** * *
53619599 TTAAAACCCTAAACCTTAAATGCTTAAACCCTACCCCTAAAACCTAAATCTTAAACC
1 TTAAAACCCTAAACCTTAAACACTTAAACCCTACACCTAAAACCTAAATCCTAAACC
* * *
53619656 TTAAAACCCTAAACCTTAAACAC-TAAACCCTTCAACTTAAAACTTAAATCCTAAACC
1 TTAAAACCCTAAACCTTAAACACTTAAACCCTAC-ACCTAAAACCTAAATCCTAAACC
53619713 TTAAA
1 TTAAA
53619718 CTTCAAACTC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 9 0.17
57 45 0.83
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (57 bp):
TTAAAACCCTAAACCTTAAACACTTAAACCCTACACCTAAAACCTAAATCCTAAACC
Found at i:53619789 original size:15 final size:15
Alignment explanation
Indices: 53619741--53619804 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
53619731 AATATTAATA
*
53619741 TTAAACCCTAAATCC
1 TTAAACCCTAAAACC
* **
53619756 -TAAACCTTAAATGC
1 TTAAACCCTAAAACC
*
53619770 ATAAACCCTAAAACC
1 TTAAACCCTAAAACC
*
53619785 TTAAAACTCT-AAACC
1 TT-AAACCCTAAAACC
53619800 TTAAA
1 TTAAA
53619805 AACATAAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
14 15 0.38
15 19 0.47
16 6 0.15
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.25
Consensus pattern (15 bp):
TTAAACCCTAAAACC
Found at i:53619826 original size:22 final size:22
Alignment explanation
Indices: 53619771--53619848 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
53619761 CTTAAATGCA
* *
53619771 TAAACCCTAAA-ACCTTAAAACTC
1 TAAACCCTAAATAAC-T-AAACAC
*
53619794 TAAACCTTAAA-AACATAAACAC
1 TAAACCCTAAATAAC-TAAACAC
* * *
53619816 TAATCCCTAAATATCTAAACAT
1 TAAACCCTAAATAACTAAACAC
53619838 TAAACCCTAAA
1 TAAACCCTAAA
53619849 CCTCAAATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAACCCTAAATAACTAAACAC
Found at i:53619924 original size:22 final size:21
Alignment explanation
Indices: 53619875--53620214 Score: 90
Period size: 22 Copynumber: 15.7 Consensus size: 21
53619865 ATATTAAATT
* * * *
53619875 CTAAACTTTAAACCTTAAACT
1 CTAAACCTTAAATCTCAAACC
53619896 CTCAAACCTTAAATCTCAAACAC
1 CT-AAACCTTAAATCTCAAAC-C
** * * *
53619919 CTAAACAATAAAACTTTAAATC
1 CTAAACCTTAAATC-TCAAACC
* * *
53619941 CTGAACCTTAAAACTCTAAATC
1 CTAAACCTTAAATCTC-AAACC
* *
53619963 TTAAA-CTCTAAACTCTAAAACC
1 CTAAACCT-TAAA-TCTCAAACC
**
53619985 CTAAACAC-TAAATCAT-AAAAT
1 CTAAAC-CTTAAATC-TCAAACC
* * *
53620006 TTAAACCCTAAATCTCAAATAC
1 CTAAACCTTAAATCTCAAA-CC
* * *
53620028 ATAAGCCTTAAAACTCTAAACC
1 CTAAACCTTAAATCTC-AAACC
* *
53620050 TTAAACCCTAAATC-CTAAACC
1 CTAAACCTTAAATCTC-AAACC
* * *
53620071 TTAAA-CTTCAAATAT-ATAAAC
1 CTAAACCTT-AAATCTCA-AACC
* *
53620092 C-AAACCTTAAA-CTTTAAATGC
1 CTAAACCTTAAATC-TCAAA-CC
* *
53620113 ATAAACCTTAAAT-TATAAACC
1 CTAAACCTTAAATCT-CAAACC
*
53620134 CTAAACCTTAAATACTTAAACC
1 CTAAACCTTAAAT-CTCAAACC
*
53620156 CTAAACCTTAAATCAT-AAATC
1 CTAAACCTTAAATC-TCAAACC
* *
53620177 CTAAACCCTAAA-CTTCAAATGC
1 CTAAACCTTAAATC-TCAAA-CC
*
53620199 CTAAATCCTAAAATCT
1 CTAAA-CCTTAAATCT
53620215 TAAAACCTTA
Statistics
Matches: 242, Mismatches: 47, Indels: 58
0.70 0.14 0.17
Matches are distributed among these distances:
20 16 0.07
21 81 0.33
22 125 0.52
23 18 0.07
24 2 0.01
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.27
Consensus pattern (21 bp):
CTAAACCTTAAATCTCAAACC
Found at i:53619977 original size:21 final size:21
Alignment explanation
Indices: 53619976--53620314 Score: 85
Period size: 22 Copynumber: 15.7 Consensus size: 21
53619966 AACTCTAAAC
* *
53619976 TCTAAAACCCTAAACACTAAA
1 TCTAAAACCTTAAACCCTAAA
*
53619997 TCATAAAA-TTTAAACCCTAAA
1 TC-TAAAACCTTAAACCCTAAA
* * *
53620018 TCTCAAATA-CATAAGCCTTAAAA
1 TCT-AAA-ACCTTAAACCCT-AAA
53620041 CTCT-AAACCTTAAACCCTAAA
1 -TCTAAAACCTTAAACCCTAAA
*
53620062 TCCT-AAACCTTAAA-CTTCAAA
1 T-CTAAAACCTTAAACCCT-AAA
* *
53620083 TATATAAACC--AAACCTTAAA
1 TCTA-AAACCTTAAACCCTAAA
* ** * *
53620103 CTTTAAATGCATAAACCTTAAA
1 -TCTAAAACCTTAAACCCTAAA
* *
53620125 T-TATAAACCCTAAACCTTAAA
1 TCTA-AAACCTTAAACCCTAAA
* * *
53620146 TACTTAAACCCTAAACCTTAAA
1 T-CTAAAACCTTAAACCCTAAA
*
53620168 TCATAAATCC-TAAACCCTAAA
1 TC-TAAAACCTTAAACCCTAAA
* *
53620189 -CTTCAAATGCC-TAAATCCTAAAA
1 TC-T-AAA-ACCTTAAACCCT-AAA
***
53620212 TCTTAAAACCTTAAATTATAAA
1 TC-TAAAACCTTAAACCCTAAA
*
53620234 CCTTAAAATCC-TAAACCCTAAA
1 TC-TAAAA-CCTTAAACCCTAAA
* **
53620256 CACTAACAACCTTAAACTTTAAA
1 -TCTAA-AACCTTAAACCCTAAA
53620279 T-TATAAA-CTCTAAACCCTAAA
1 TCTA-AAACCT-TAAACCCTAAA
* * *
53620300 TTTTAAACCCTAAAC
1 TCTAAAACCTTAAAC
53620315 TTTACATATT
Statistics
Matches: 247, Mismatches: 40, Indels: 62
0.71 0.11 0.18
Matches are distributed among these distances:
20 20 0.08
21 95 0.38
22 96 0.39
23 30 0.12
24 6 0.02
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.27
Consensus pattern (21 bp):
TCTAAAACCTTAAACCCTAAA
Found at i:53620053 original size:15 final size:15
Alignment explanation
Indices: 53619877--53620054 Score: 63
Period size: 15 Copynumber: 12.1 Consensus size: 15
53619867 ATTAAATTCT
*
53619877 AAACTTTAAACCTT-
1 AAACTCTAAACCTTA
53619891 AAACTCTCAAACCTTA
1 AAACTCT-AAACCTTA
* *
53619907 AATCTC-AAACACCT-
1 AAACTCTAAAC-CTTA
** * *
53619921 AAACAATAAAACTTT
1 AAACTCTAAACCTTA
*
53619936 AAA-TCCTGAACCTTA
1 AAACT-CTAAACCTTA
*
53619951 AAACTCTAAATCTT-
1 AAACTCTAAACCTTA
53619965 AAACTCTAAA-CTCTA
1 AAACTCTAAACCT-TA
*
53619980 AAACCCTAAACAC-T-
1 AAACTCTAAAC-CTTA
* *
53619994 AAA-TCATAAA-ATTT
1 AAACTC-TAAACCTTA
* * *
53620008 AAACCCTAAATCTCA
1 AAACTCTAAACCTTA
* *
53620023 AATAC-ATAAGCCTTA
1 AA-ACTCTAAACCTTA
53620038 AAACTCTAAACCTTA
1 AAACTCTAAACCTTA
53620053 AA
1 AA
53620055 CCCTAAATCC
Statistics
Matches: 118, Mismatches: 28, Indels: 35
0.65 0.15 0.19
Matches are distributed among these distances:
13 4 0.03
14 42 0.36
15 63 0.53
16 8 0.07
17 1 0.01
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (15 bp):
AAACTCTAAACCTTA
Found at i:53620097 original size:27 final size:27
Alignment explanation
Indices: 53620066--53620119 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
53620056 CCTAAATCCT
*
53620066 AAACCTTAAACTTCAAATATATAAACC
1 AAACCTTAAACTTCAAATACATAAACC
* *
53620093 AAACCTTAAACTTTAAATGCATAAACC
1 AAACCTTAAACTTCAAATACATAAACC
53620120 TTAAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (27 bp):
AAACCTTAAACTTCAAATACATAAACC
Found at i:53620143 original size:43 final size:42
Alignment explanation
Indices: 53620072--53620212 Score: 137
Period size: 43 Copynumber: 3.3 Consensus size: 42
53620062 TCCTAAACCT
*
53620072 TAAA-CTTCAAATATATAAACC-AAACCTTAAACTTTAAATGCA
1 TAAACCTT-AAAT-TATAAACCTAAACCTTAAACTTTAAATGCC
*
53620114 TAAACCTTAAATTATAAACCCTAAACCTTAAA-TACTTAAA-CCC
1 TAAACCTTAAATTATAAA-CCTAAACCTTAAACT--TTAAATGCC
* * *
53620157 TAAACCTTAAATCATAAATCCTAAACCCTAAACTTCAAATGCC
1 TAAACCTTAAATTATAAA-CCTAAACCTTAAACTTTAAATGCC
*
53620200 TAAATCCTAAAAT
1 TAAA-CCTTAAAT
53620213 CTTAAAACCT
Statistics
Matches: 83, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
41 6 0.07
42 15 0.18
43 49 0.59
44 13 0.16
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (42 bp):
TAAACCTTAAATTATAAACCTAAACCTTAAACTTTAAATGCC
Found at i:53620247 original size:45 final size:45
Alignment explanation
Indices: 53620185--53620299 Score: 109
Period size: 45 Copynumber: 2.6 Consensus size: 45
53620175 TCCTAAACCC
* *
53620185 TAAACTTCAAATGCCTAAATCCTAAA-ATCTTAA-AACCTTAAATTA
1 TAAACTTAAAATGCCTAAACCCTAAACA-C-TAACAACCTTAAATTA
53620230 TAAACCTTAAAAT-CCTAAACCCTAAACACTAACAACCTTAAACTT-
1 TAAA-CTTAAAATGCCTAAACCCTAAACACTAACAACCTTAAA-TTA
53620275 TAAA-TTATAAA--CTCTAAACCCTAAA
1 TAAACTTA-AAATGC-CTAAACCCTAAA
53620300 TTTTAAACCC
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
43 4 0.06
44 18 0.29
45 30 0.48
46 10 0.16
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (45 bp):
TAAACTTAAAATGCCTAAACCCTAAACACTAACAACCTTAAATTA
Found at i:53620318 original size:14 final size:14
Alignment explanation
Indices: 53620263--53620318 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
53620253 AAACACTAAC
*
53620263 AACCTTAAACTTTA
1 AACCCTAAACTTTA
*** *
53620277 AATTATAAACTCTA
1 AACCCTAAACTTTA
*
53620291 AACCCTAAATTTTA
1 AACCCTAAACTTTA
53620305 AACCCTAAACTTTA
1 AACCCTAAACTTTA
53620319 CATATTTAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (14 bp):
AACCCTAAACTTTA
Found at i:53620342 original size:15 final size:15
Alignment explanation
Indices: 53620214--53620350 Score: 56
Period size: 14 Copynumber: 9.3 Consensus size: 15
53620204 TCCTAAAATC
53620214 TTAAAACCTTAAA--
1 TTAAAACCTTAAACT
*
53620227 TTATAAACCTTAAAAT
1 TTA-AAACCTTAAACT
* * *
53620243 CCT-AAACCCTAAACA
1 -TTAAAACCTTAAACT
*
53620258 CTAACAACCTTAAACT
1 TTAA-AACCTTAAACT
*
53620274 TT-AAA-TTATAAACT
1 TTAAAACCT-TAAACT
* *
53620288 CT-AAACCCTAAA-T
1 TTAAAACCTTAAACT
* *
53620301 TTTAAACCCTAAACT
1 TTAAAACCTTAAACT
* *
53620316 TTACATA-TTTAAACT
1 TTA-AAACCTTAAACT
53620331 TTAAAACCTTAAACT
1 TTAAAACCTTAAACT
*
53620346 CTAAA
1 TTAAA
53620351 TTATAAAGCA
Statistics
Matches: 93, Mismatches: 19, Indels: 22
0.69 0.14 0.16
Matches are distributed among these distances:
13 6 0.06
14 40 0.43
15 34 0.37
16 12 0.13
17 1 0.01
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAAACCTTAAACT
Found at i:53620401 original size:37 final size:36
Alignment explanation
Indices: 53620304--53620414 Score: 100
Period size: 37 Copynumber: 3.0 Consensus size: 36
53620294 CCTAAATTTT
* *
53620304 AAACCCTAAACTTTACATATT-TAAACTTTAAAACCTT-
1 AAACCCTAAACTATA-A-ATTATAAACATT-AAACCTTA
* * **
53620341 AAACTCTAAATTATAAAGCATAAACATTAAACCTTA
1 AAACCCTAAACTATAAATTATAAACATTAAACCTTA
* *
53620377 AAACCCTAAAACTATAAATTATAAATACTAAACCTTA
1 AAACCCT-AAACTATAAATTATAAACATTAAACCTTA
53620414 A
1 A
53620415 CCCTTAAACT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
35 8 0.14
36 14 0.24
37 37 0.63
ACGTcount: A:0.50, C:0.19, G:0.01, T:0.30
Consensus pattern (36 bp):
AAACCCTAAACTATAAATTATAAACATTAAACCTTA
Found at i:53620409 original size:44 final size:42
Alignment explanation
Indices: 53620324--53620473 Score: 133
Period size: 44 Copynumber: 3.5 Consensus size: 42
53620314 CTTTACATAT
* * *
53620324 TTAAACTTTAAAACCTTAAACTCTAAATTATAAAGCATAAACA
1 TTAAACCTTAAAACCTAAAACTCTAAATTATAAAAC-TAAACA
* *
53620367 TTAAACCTTAAAACCCTAAAACTATAAATTATAAATACTAAACC
1 TTAAACCTTAAAA-CCTAAAACTCTAAATTATAAA-ACTAAACA
* * * * *
53620411 TTAACCCTT-AAACTTTAAACTCTAAATAATAAACCCTAAA-A
1 TTAAACCTTAAAACCTAAAACTCTAAATTATAAA-ACTAAACA
53620452 TGTTAAACCTTAAAACACTAAA
1 --TTAAACCTTAAAAC-CTAAA
53620474 CCTTAAACCT
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
42 22 0.26
43 23 0.27
44 36 0.42
45 4 0.05
ACGTcount: A:0.51, C:0.19, G:0.01, T:0.29
Consensus pattern (42 bp):
TTAAACCTTAAAACCTAAAACTCTAAATTATAAAACTAAACA
Found at i:53620424 original size:35 final size:36
Alignment explanation
Indices: 53620334--53620450 Score: 105
Period size: 35 Copynumber: 3.3 Consensus size: 36
53620324 TTAAACTTTA
* * * *
53620334 AAACCTTAAACTCT-AAATTATAAAGC-ATAAACATT
1 AAACCTTAAACCCTAAAACTATAAA-CTATAAATAAT
* *
53620369 AAACCTTAAAACCCTAAAACTATAAATTATAAATACT
1 AAACCTT-AAACCCTAAAACTATAAACTATAAATAAT
* * *
53620406 AAACCTT-AACCCTTAAACTTTAAACTCTAAATAAT
1 AAACCTTAAACCCTAAAACTATAAACTATAAATAAT
*
53620441 AAACCCTAAA
1 AAACCTTAAA
53620451 ATGTTAAACC
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
35 36 0.54
36 8 0.12
37 23 0.34
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.27
Consensus pattern (36 bp):
AAACCTTAAACCCTAAAACTATAAACTATAAATAAT
Found at i:53620550 original size:35 final size:35
Alignment explanation
Indices: 53620440--53620623 Score: 130
Period size: 34 Copynumber: 5.3 Consensus size: 35
53620430 CTCTAAATAA
* * *
53620440 TAAACCCTAAAATGTTAAACCTTAAAACACTAAACCT
1 TAAACCCTAAAA-CTTAAACCAT-AAATACTAAACCT
* * * * * *
53620477 TAAA-CCTCAAAACATGAA-TACAAATACTAAATCA
1 TAAACCCT-AAAACTTAAACCATAAATACTAAACCT
*
53620511 TAAACCCTAAAACTTAAACCATAAATAGTAAACCT
1 TAAACCCTAAAACTTAAACCATAAATACTAAACCT
*
53620546 TAAACCCTAAAAAC--AAACTATAAATACTAAAACCT
1 TAAACCCT-AAAACTTAAACCATAAATACT-AAACCT
* * * *
53620581 TAAACCCT--AATTTAAACCCTAAACAC-AATCCT
1 TAAACCCTAAAACTTAAACCATAAATACTAAACCT
*
53620613 TAAACCTTAAA
1 TAAACCCTAAA
53620624 TATAAATCAT
Statistics
Matches: 114, Mismatches: 24, Indels: 21
0.72 0.15 0.13
Matches are distributed among these distances:
32 14 0.12
34 45 0.39
35 36 0.32
36 11 0.10
37 8 0.07
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.23
Consensus pattern (35 bp):
TAAACCCTAAAACTTAAACCATAAATACTAAACCT
Found at i:53620650 original size:14 final size:14
Alignment explanation
Indices: 53620613--53620664 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
53620603 ACACAATCCT
53620613 TAAACCTTAAA-TA
1 TAAACCTTAAACTA
* * *
53620626 TAAATCATAAACTT
1 TAAACCTTAAACTA
53620640 TAAACCTTAAACTA
1 TAAACCTTAAACTA
*
53620654 TAAACTTTAAA
1 TAAACCTTAAA
53620665 ATCATAAACA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAACCTTAAACTA
Found at i:53620673 original size:15 final size:14
Alignment explanation
Indices: 53620613--53620673 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
53620603 ACACAATCCT
53620613 TAAACCTT-AAATA
1 TAAACCTTAAAATA
* * * *
53620626 TAAATCATAAACTT
1 TAAACCTTAAAATA
*
53620640 TAAACCTTAAACTA
1 TAAACCTTAAAATA
*
53620654 TAAACTTTAAAATCA
1 TAAACCTTAAAAT-A
53620669 TAAAC
1 TAAAC
53620674 AATAAAACCC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
13 6 0.16
14 25 0.68
15 6 0.16
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAACCTTAAAATA
Found at i:53620693 original size:36 final size:36
Alignment explanation
Indices: 53620620--53620701 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
53620610 CCTTAAACCT
* * *
53620620 TAAATA-T-AAATCATAAACTTTAAACCTTAAACTA
1 TAAATATTAAAATCATAAACATAAAACCCTAAACTA
53620654 TAAACT-TTAAAATCATAAACAATAAAACCCTAAAC-A
1 TAAA-TATTAAAATCATAAAC-ATAAAACCCTAAACTA
53620690 TAAATATTAAAA
1 TAAATATTAAAA
53620702 CCCTAAAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
34 4 0.10
35 3 0.08
36 22 0.55
37 11 0.28
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (36 bp):
TAAATATTAAAATCATAAACATAAAACCCTAAACTA
Found at i:53620737 original size:44 final size:44
Alignment explanation
Indices: 53620661--53620835 Score: 119
Period size: 44 Copynumber: 4.1 Consensus size: 44
53620651 CTATAAACTT
*
53620661 TAAAATCATAAACAATAAAACCCTAAACATAAATATTAAAACCC
1 TAAAATCATAAACAATAAAACCCTAAACATAAACATTAAAACCC
* * * * *
53620705 TAAAATCATAAGCCATAAAA-CCTTAACTATAAACCTTAAAA-CT
1 TAAAATCATAAACAATAAAACCCTAAAC-ATAAACATTAAAACCC
* ** * * * * *
53620748 TTAACCCAT--A-ATTTAAACCCTAAACACAAAC-TTTAAACTC
1 TAAAATCATAAACAATAAAACCCTAAACATAAACATTAAAACCC
* ** * * *
53620788 TAAAATTATAAACCCTAAAACCCAAAACATAAACTTTAAAATCC
1 TAAAATCATAAACAATAAAACCCTAAACATAAACATTAAAACCC
53620832 TAAA
1 TAAA
53620836 CTTTAAAACC
Statistics
Matches: 94, Mismatches: 30, Indels: 14
0.68 0.22 0.10
Matches are distributed among these distances:
39 5 0.05
40 14 0.15
41 6 0.06
42 1 0.01
43 29 0.31
44 39 0.41
ACGTcount: A:0.53, C:0.22, G:0.01, T:0.24
Consensus pattern (44 bp):
TAAAATCATAAACAATAAAACCCTAAACATAAACATTAAAACCC
Found at i:53620828 original size:36 final size:34
Alignment explanation
Indices: 53620757--53620829 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
53620747 TTTAACCCAT
*
53620757 AATTTAAACCCTAAACACAAACTTTAAACTCTAA
1 AATTTAAACCCTAAACACAAACTATAAACTCTAA
* *
53620791 AATTATAAACCCTAAAACCCAAAAC-ATAAACTTTAA
1 AATT-TAAACCCT-AAACAC-AAACTATAAACTCTAA
53620827 AAT
1 AAT
53620830 CCTAAACTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 4 0.12
35 8 0.24
36 17 0.52
37 4 0.12
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (34 bp):
AATTTAAACCCTAAACACAAACTATAAACTCTAA
Found at i:53620836 original size:21 final size:21
Alignment explanation
Indices: 53620626--53620836 Score: 88
Period size: 21 Copynumber: 10.2 Consensus size: 21
53620616 ACCTTAAATA
*
53620626 TAAATCATAAACTTT-AAACCT
1 TAAA-CATAAACTTTAAAACCC
53620647 TAAACTATAAACTTTAAAA---
1 TAAAC-ATAAACTTTAAAACCC
**
53620666 T---CATAAACAATAAAACCC
1 TAAACATAAACTTTAAAACCC
53620684 TAAACATAAA-TATTAAAACCC
1 TAAACATAAACT-TTAAAACCC
* **
53620705 TAAAATCATAAGCCATAAAA-CC
1 T-AAA-CATAAACTTTAAAACCC
* * **
53620727 TTAACTATAAACCTTAAAACTT
1 TAAAC-ATAAACTTTAAAACCC
*
53620749 TAACCCAT-AA-TTT-AAACCC
1 TAA-ACATAAACTTTAAAACCC
* *
53620768 TAAACACAAACTTT-AAACTC
1 TAAACATAAACTTTAAAACCC
* **
53620788 TAAAATTATAAACCCTAAAACCC
1 T-AAA-CATAAACTTTAAAACCC
* *
53620811 AAAACATAAACTTTAAAATCC
1 TAAACATAAACTTTAAAACCC
53620832 TAAAC
1 TAAAC
53620837 TTTAAAACCA
Statistics
Matches: 139, Mismatches: 31, Indels: 40
0.66 0.15 0.19
Matches are distributed among these distances:
15 11 0.08
16 1 0.01
18 3 0.02
19 10 0.07
20 13 0.09
21 63 0.45
22 22 0.16
23 16 0.12
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACATAAACTTTAAAACCC
Found at i:53620837 original size:15 final size:14
Alignment explanation
Indices: 53620811--53620865 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 14
53620801 CCTAAAACCC
*
53620811 AAAACATAAACTTT
1 AAAACCTAAACTTT
53620825 AAAATCCTAAACTTT
1 AAAA-CCTAAACTTT
53620840 AAAACCATAAACTTT
1 AAAACC-TAAACTTT
53620855 AAAACCCTAAA
1 AAAA-CCTAAA
53620866 ACACTAAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 6 0.16
15 29 0.78
16 2 0.05
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAACCTAAACTTT
Found at i:53620966 original size:19 final size:20
Alignment explanation
Indices: 53620919--53620967 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
53620909 ACAAATTTTT
*
53620919 AAACCTTAAACCCTAAATAC
1 AAACCTTAAACCCTAAACAC
*
53620939 AACCCTTAAACCCT-AACAC
1 AAACCTTAAACCCTAAACAC
*
53620958 AAACTTTAAA
1 AAACCTTAAA
53620968 ACCTTAAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (20 bp):
AAACCTTAAACCCTAAACAC
Found at i:53620972 original size:27 final size:25
Alignment explanation
Indices: 53620942--53620999 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 25
53620932 TAAATACAAC
53620942 CCTTAAACCCTAACACAAACTTTAAAA
1 CCTTAAACCCTAACACAAA-TTT-AAA
* *
53620969 CCTTAAACCCTAACCCTAATTTAAA
1 CCTTAAACCCTAACACAAATTTAAA
53620994 CCTTAA
1 CCTTAA
53621000 CCCCAATGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 9 0.31
26 3 0.10
27 17 0.59
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (25 bp):
CCTTAAACCCTAACACAAATTTAAA
Found at i:53628580 original size:99 final size:99
Alignment explanation
Indices: 53628456--53628645 Score: 283
Period size: 99 Copynumber: 1.9 Consensus size: 99
53628446 AAGCAGCAAC
* * * * *
53628456 AATACAAGCTAAGCAGCAGTAAAAGCAAGTTTCCTTTAAGGTCCAAAAACCGATGCCTACCTATG
1 AATACAAGCTAAACAGCAGTAAAAGCAAGTTTCCTTTAAAGTCCAAAAAACAATGCCTACCGATG
53628521 TATGCTTTCAAAAGCAAGCAGGAGCAATGTAACT
66 TATGCTTTCAAAAGCAAGCAGGAGCAATGTAACT
* *
53628555 AATACAAGCTAAACAGCAG-ATAAAGCAAGTTTCCTTTAAAGTTCAAAAAACAATGCCTGCCGAT
1 AATACAAGCTAAACAGCAGTA-AAAGCAAGTTTCCTTTAAAGTCCAAAAAACAATGCCTACCGAT
* *
53628619 GTATGCTTTCAGAAGCAAGCAGTAGCA
65 GTATGCTTTCAAAAGCAAGCAGGAGCA
53628646 GAAAGAACAA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 1 0.01
99 80 0.99
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (99 bp):
AATACAAGCTAAACAGCAGTAAAAGCAAGTTTCCTTTAAAGTCCAAAAAACAATGCCTACCGATG
TATGCTTTCAAAAGCAAGCAGGAGCAATGTAACT
Found at i:53639298 original size:39 final size:39
Alignment explanation
Indices: 53639224--53639300 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
53639214 AATTGGTTAA
* * *
53639224 TAAATCATATTTTATAAATAATGGATAGGATTTTTTTAT
1 TAAAACATATTTTATAAATAATGGATAGCAATTTTTTAT
*
53639263 TAAAACATATTTTATAATTAATGGAT-GCCAATTTTTTA
1 TAAAACATATTTTATAAATAATGGATAG-CAATTTTTTA
53639301 GCTTTACAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (39 bp):
TAAAACATATTTTATAAATAATGGATAGCAATTTTTTAT
Found at i:53640443 original size:48 final size:49
Alignment explanation
Indices: 53640359--53640455 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 49
53640349 TGAGGGAATT
* * * * *
53640359 CTGTTGAATCCTTTATCTTTGCGAGATTAGGCTGACTTCGGTGTTTTTA
1 CTGTTGAATCCATTACCATTGCGAGATTAGGCTGACTTAGGCGTTTTTA
*
53640408 CTGTTGAATCCATTACCATTGTGAG-TTAGGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCATTACCATTGCGAGATTAGGCTGACTTAGGCGTTTTTA
53640456 AGCAAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 21 0.50
49 21 0.50
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (49 bp):
CTGTTGAATCCATTACCATTGCGAGATTAGGCTGACTTAGGCGTTTTTA
Found at i:53642396 original size:49 final size:48
Alignment explanation
Indices: 53642324--53642420 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 48
53642314 TGAAGGAATT
* * *
53642324 CTGTTGAATCCTTTATCGTTGCGAGATTAGGCTAACTTAGGTGTTTTTA
1 CTGTTGAATCCATTATCATTGCGAG-TTAGGCTAACTTAGGCGTTTTTA
*
53642373 CTGTTGAATCCATTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCATTATCATTGCGAGTTAGGCTAACTTAGGCGTTTTTA
53642421 AGCAAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 21 0.48
49 23 0.52
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCATTATCATTGCGAGTTAGGCTAACTTAGGCGTTTTTA
Found at i:53643058 original size:13 final size:11
Alignment explanation
Indices: 53643027--53643052 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53643017 ATTTTTTTAA
53643027 TTTTAAAATAC
1 TTTTAAAATAC
53643038 TTTTAAAATAC
1 TTTTAAAATAC
53643049 TTTT
1 TTTT
53643053 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:53646085 original size:27 final size:27
Alignment explanation
Indices: 53646053--53646120 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
53646043 ATGCACTTCG
53646053 GTGCTTACTGCTACGTGATTAAACTAT
1 GTGCTTACTGCTACGTGATTAAACTAT
* * ** *
53646080 GTGCTTACCGTTACGTGATTGCACTTT
1 GTGCTTACTGCTACGTGATTAAACTAT
*
53646107 GTTCTTACTGCTAC
1 GTGCTTACTGCTAC
53646121 ATGAAATGCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (27 bp):
GTGCTTACTGCTACGTGATTAAACTAT
Found at i:53650308 original size:26 final size:26
Alignment explanation
Indices: 53650279--53650336 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
53650269 GAATCATCTC
53650279 AAAATTAT-TATTTTAGAAAATTTTTT
1 AAAATTATATATTTTA-AAAATTTTTT
* * *
53650305 AAAATTTATATTTTTTATATATTTTTT
1 AAAA-TTATATATTTTAAAAATTTTTT
53650332 AAAAT
1 AAAAT
53650337 ATAAAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 5 0.19
27 16 0.59
28 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
AAAATTATATATTTTAAAAATTTTTT
Found at i:53650372 original size:19 final size:20
Alignment explanation
Indices: 53650343--53650390 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
53650333 AAATATAAAA
*
53650343 TTTGAATTTTTTATAAA-TAT
1 TTTGAA-TTTTTAAAAATTAT
*
53650363 TTTTAATTTTTAAAAATTAT
1 TTTGAATTTTTAAAAATTAT
53650383 TTTGAATT
1 TTTGAATT
53650391 ACTTTGTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATTAT
Found at i:53653219 original size:29 final size:31
Alignment explanation
Indices: 53653172--53653229 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
53653162 ATAAATATTG
53653172 AGTTTTCAGAATTTGTTAAGATTTTTTTTAT
1 AGTTTTCAGAATTTGTTAAGATTTTTTTTAT
* *
53653203 AGTTTT-AG-ATTTTTTAATATTTTTTTT
1 AGTTTTCAGAATTTGTTAAGATTTTTTTT
53653230 CAGAATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 17 0.68
30 2 0.08
31 6 0.24
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.64
Consensus pattern (31 bp):
AGTTTTCAGAATTTGTTAAGATTTTTTTTAT
Found at i:53664171 original size:17 final size:17
Alignment explanation
Indices: 53664149--53664192 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
53664139 TAGGAAATAA
53664149 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
53664166 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
53664183 -ATATGTATAT
1 AAAATGTATAT
53664193 ACAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:53664731 original size:14 final size:12
Alignment explanation
Indices: 53664698--53664723 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
53664688 GATTGCATAT
53664698 ATCATATCTAAG
1 ATCATATCTAAG
53664710 ATCATATCTAAG
1 ATCATATCTAAG
53664722 AT
1 AT
53664724 TGCATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:53668243 original size:26 final size:26
Alignment explanation
Indices: 53668195--53668253 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
53668185 ACATATTTTC
* * **
53668195 TCAAAATTTTTCCTAGGGCAAAATTG
1 TCAAAATATTACCTAGGGCAAAATCA
* *
53668221 TCAAAATATTACCTGGGGTAAAATCA
1 TCAAAATATTACCTAGGGCAAAATCA
53668247 TCAAAAT
1 TCAAAAT
53668254 TTTGCTGAGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (26 bp):
TCAAAATATTACCTAGGGCAAAATCA
Found at i:53671184 original size:23 final size:23
Alignment explanation
Indices: 53671141--53671184 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
53671131 TTCTTATCCT
* *
53671141 TACATTTAAATTCTTGGCCCATC
1 TACATTTAAATTCATGACCCATC
53671164 TACATTTAAATTCATGACCCA
1 TACATTTAAATTCATGACCCA
53671185 AGCAGCTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (23 bp):
TACATTTAAATTCATGACCCATC
Found at i:53674047 original size:23 final size:24
Alignment explanation
Indices: 53674010--53674058 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
53674000 TTAAGCTTTT
* *
53674010 AATAGGATTTATTTAGGTAAAAAG
1 AATAGGATCTATTTAAGTAAAAAG
*
53674034 AATAGG-TCTATTTAAGTACAAAG
1 AATAGGATCTATTTAAGTAAAAAG
53674057 AA
1 AA
53674059 ATGAAATGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.31
Consensus pattern (24 bp):
AATAGGATCTATTTAAGTAAAAAG
Found at i:53674287 original size:21 final size:21
Alignment explanation
Indices: 53674248--53674287 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53674238 GTATTAAAAA
* *
53674248 CAAATTTAAAAATACAAAGTT
1 CAAATTAAAAAAAACAAAGTT
*
53674269 CAAATTAAAAAAAATAAAG
1 CAAATTAAAAAAAACAAAG
53674288 GAAAACAAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (21 bp):
CAAATTAAAAAAAACAAAGTT
Found at i:53678813 original size:62 final size:58
Alignment explanation
Indices: 53678741--53678882 Score: 162
Period size: 57 Copynumber: 2.4 Consensus size: 58
53678731 CGGTAAAAAG
* *
53678741 GATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCGGAAGAATATGTGTGAAAA-A
1 GATCTAGCCCGGACGGGTGATCC--T--TGATATAGCCCTCCCGAAGAATATATG-GAAAATA
* *
53678803 TATCTAGCCCGAACGGGTGAT-CTTGATATAGCCCTCCCGAAGAATATATGGAAAATA
1 GATCTAGCCCGGACGGGTGATCCTTGATATAGCCCTCCCGAAGAATATATGGAAAATA
* * *
53678860 GATTTAGCCCGGATGGGTAATCC
1 GATCTAGCCCGGACGGGTGATCC
53678883 GAATTAGGGT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
56 5 0.07
57 42 0.61
58 1 0.01
59 1 0.01
61 1 0.01
62 19 0.28
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.24
Consensus pattern (58 bp):
GATCTAGCCCGGACGGGTGATCCTTGATATAGCCCTCCCGAAGAATATATGGAAAATA
Found at i:53679113 original size:67 final size:67
Alignment explanation
Indices: 53679005--53679135 Score: 217
Period size: 67 Copynumber: 2.0 Consensus size: 67
53678995 TTTATATTAT
* *
53679005 AGGGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATGAAGTTTGCGAGAGTGTGCTCTCTT
1 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAAGTTCGCGAGAGTGTGCTCTCTT
53679070 GC
66 GC
* * *
53679072 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGGTCTCT
1 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAAGTTCGCGAGAGTGTGCTCTCT
53679136 GAATTGAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (67 bp):
AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAAGTTCGCGAGAGTGTGCTCTCTT
GC
Found at i:53680822 original size:49 final size:49
Alignment explanation
Indices: 53680742--53680865 Score: 178
Period size: 49 Copynumber: 2.5 Consensus size: 49
53680732 CCATGTGAAA
* *
53680742 ATGTGATTATGTGATTTCCGTGTAAGGCCATAGTTGGGCTATGGCATCAGT
1 ATGTGA-TATGTGA-TTCCGTGTAAGACCATAGTTGGGCTATGGCATCGGT
*
53680793 -TAGTGATATGTGATTCCGTGTAAGACCATAGTTGGGCTATGGTATCGGT
1 AT-GTGATATGTGATTCCGTGTAAGACCATAGTTGGGCTATGGCATCGGT
*
53680842 ATGTGATATGTGATTACGTGTAAG
1 ATGTGATATGTGATTCCGTGTAAG
53680866 TGTCACGGAC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
49 54 0.81
50 9 0.13
51 4 0.06
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.35
Consensus pattern (49 bp):
ATGTGATATGTGATTCCGTGTAAGACCATAGTTGGGCTATGGCATCGGT
Found at i:53684441 original size:32 final size:31
Alignment explanation
Indices: 53684396--53684491 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
53684386 CTTAGATAAT
53684396 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
53684427 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
53684459 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
53684490 TT
1 TT
53684492 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:53686817 original size:18 final size:19
Alignment explanation
Indices: 53686771--53686824 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
53686761 ATGATCATTT
53686771 TTATTTTTAATATTAATATAA
1 TTATTTTT-AT-TTAATATAA
53686792 TTATTTTTATTTAATATTAA
1 TTATTTTTATTTAATA-TAA
53686812 -TA-TTTTATTTAAT
1 TTATTTTTATTTAAT
53686825 TAGATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.34
19 8 0.25
20 5 0.16
21 8 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTTTTATTTAATATAA
Found at i:53688220 original size:29 final size:30
Alignment explanation
Indices: 53688178--53688234 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
53688168 TTAAATAAAA
*
53688178 AATTTATAAATAAAACAAATAACATAATTT
1 AATTTATAAATAAAAAAAATAACATAATTT
* *
53688208 AATTTA-AACTAAAAAAAATATCATAAT
1 AATTTATAAATAAAAAAAATAACATAAT
53688235 AAAACTTGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (30 bp):
AATTTATAAATAAAAAAAATAACATAATTT
Found at i:53689963 original size:41 final size:40
Alignment explanation
Indices: 53689918--53690005 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
53689908 AAACAGGCTT
*
53689918 TTAGCGGCG-TTTGAATTAAAAACGCCACTAAAAATCAAGCA
1 TTAGCGGCGCTTT-AA-CAAAAACGCCACTAAAAATCAAGCA
* * * *
53689959 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCGCTTTAACAAAAACGCCACTAAAAATCAAGCA
53689999 TTAGCGG
1 TTAGCGG
53690006 TGAATTTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 28 0.68
41 10 0.24
42 3 0.07
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGCTTTAACAAAAACGCCACTAAAAATCAAGCA
Found at i:53689983 original size:40 final size:38
Alignment explanation
Indices: 53689935--53690070 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 38
53689925 CGTTTGAATT
*
53689935 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAC
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCG-TTTT-C
* * * *
53689975 AAAAACGCCGCTAAAGATCGAGCATTAGCGGTGAATTTTG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCG--TTTTC
* *
53690015 GAAAACGCCGCCAAAAAT-AAGCATTAGCGGCGTTTTCC
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTT-C
*
53690053 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCTAAAAA
53690071 CCTAAGCCTA
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 4 0.05
38 4 0.05
39 23 0.29
40 44 0.56
41 4 0.05
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.18
Consensus pattern (38 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTC
Found at i:53690167 original size:41 final size:40
Alignment explanation
Indices: 53690118--53690386 Score: 362
Period size: 41 Copynumber: 6.6 Consensus size: 40
53690108 CATTTAGTGA
*
53690118 CGTTTTTGAAAAAGCGCCACTAATGCTCTGACCTTTAGCGG
1 CGTTTTTGAAAAAGCGCCGCTAATGCTCTG-CCTTTAGCGG
53690159 CGTTTTTGAAAAAGCGCCGCTAATGCTCGTGCCTTTAGCGG
1 CGTTTTTGAAAAAGCGCCGCTAATGCTC-TGCCTTTAGCGG
*
53690200 CTTTTTTGAAAAAGCGCCGCTAATGCTCCTGCCTTTAGCGG
1 CGTTTTTGAAAAAGCGCCGCTAATGCT-CTGCCTTTAGCGG
* *
53690241 CGTTTTTAAAAAAGCGCCGCTAATGCTCTGACCTTTAGCGA
1 CGTTTTTGAAAAAGCGCCGCTAATGCTCTG-CCTTTAGCGG
* *
53690282 CGTTTTTGATAAAGAGCCGCTAATGCTCGTGCCTTTAGCGG
1 CGTTTTTGAAAAAGCGCCGCTAATGCTC-TGCCTTTAGCGG
* ** *
53690323 CATTTCTAAAAAAAGCGCCGTTAATG--CTGACCTTTAGCGG
1 CGTTT-TTGAAAAAGCGCCGCTAATGCTCTG-CCTTTAGCGG
*
53690363 CATTTTTGAAAAAGCGCCGCTAAT
1 CGTTTTTGAAAAAGCGCCGCTAAT
53690387 AATAAAATCT
Statistics
Matches: 204, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
39 18 0.09
40 19 0.09
41 147 0.72
42 20 0.10
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (40 bp):
CGTTTTTGAAAAAGCGCCGCTAATGCTCTGCCTTTAGCGG
Found at i:53690335 original size:123 final size:122
Alignment explanation
Indices: 53690118--53690386 Score: 407
Period size: 123 Copynumber: 2.2 Consensus size: 122
53690108 CATTTAGTGA
* * *
53690118 CGTTTTTGAAAAAGCGCCACTAATGCTCTGACCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 CGTTTTTGAAAAAGCGCCGCTAATGCTCTGACCTTTAGCGACGTTTTTGAAAAAGAGCCGCTAAT
* **
53690183 GCTCGTGCCTTTAGCGGC-TTTTTTGAAAAAGCGCCGCTAATGCTCCTG-CCTTTAGCGG
66 GCTCGTGCCTTTAGCGGCATTTCTAAAAAAAGCGCCGCTAATG---CTGACCTTTAGCGG
* *
53690241 CGTTTTTAAAAAAGCGCCGCTAATGCTCTGACCTTTAGCGACGTTTTTGATAAAGAGCCGCTAAT
1 CGTTTTTGAAAAAGCGCCGCTAATGCTCTGACCTTTAGCGACGTTTTTGAAAAAGAGCCGCTAAT
*
53690306 GCTCGTGCCTTTAGCGGCATTTCTAAAAAAAGCGCCGTTAATGCTGACCTTTAGCGG
66 GCTCGTGCCTTTAGCGGCATTTCTAAAAAAAGCGCCGCTAATGCTGACCTTTAGCGG
*
53690363 CATTTTTGAAAAAGCGCCGCTAAT
1 CGTTTTTGAAAAAGCGCCGCTAAT
53690387 AATAAAATCT
Statistics
Matches: 133, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
121 3 0.02
122 32 0.24
123 78 0.59
124 20 0.15
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (122 bp):
CGTTTTTGAAAAAGCGCCGCTAATGCTCTGACCTTTAGCGACGTTTTTGAAAAAGAGCCGCTAAT
GCTCGTGCCTTTAGCGGCATTTCTAAAAAAAGCGCCGCTAATGCTGACCTTTAGCGG
Found at i:53691803 original size:133 final size:136
Alignment explanation
Indices: 53691624--53691876 Score: 431
Period size: 133 Copynumber: 1.9 Consensus size: 136
53691614 TATATTTAAA
* *
53691624 AATGCTTTTATATTTAAAAATATTTAATCTAAACTATTTGATATATTTAAATATTAGATTT-AAA
1 AATGCTTTTATATTTAAAAATATTTAATCTAAACCATTTGATATATTTAAATACTAGATTTAAAA
* * *
53691688 AAA-ATTGATAAATGAAT-AAAAAAAGTAACATATTGATATGAATAGGCAACTAAAGTAGTTCTT
66 AAACATTGATAAATAAATAAAAAAAAGCAACATATTGATATGAATAGACAACTAAAGTAGTTCTT
53691751 CAAATT
131 CAAATT
53691757 AATGCTTTTATATTTAAAAATATTTAATCTAAACCATTTGATATATTTAAATACTAGATTTAAAA
1 AATGCTTTTATATTTAAAAATATTTAATCTAAACCATTTGATATATTTAAATACTAGATTT-AAA
53691822 AAAACATTGATAAATAAATAAAAAAAAGCAACATATTGATATGAATAGACAACTA
65 AAAACATTGATAAATAAATAAAAAAAAGCAACATATTGATATGAATAGACAACTA
53691877 TCTATTTTAG
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
133 59 0.53
135 6 0.05
136 13 0.12
137 33 0.30
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (136 bp):
AATGCTTTTATATTTAAAAATATTTAATCTAAACCATTTGATATATTTAAATACTAGATTTAAAA
AAACATTGATAAATAAATAAAAAAAAGCAACATATTGATATGAATAGACAACTAAAGTAGTTCTT
CAAATT
Found at i:53695395 original size:24 final size:24
Alignment explanation
Indices: 53695363--53695416 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
53695353 GGGAAAAGTA
* *
53695363 AGTTC-TTTCTGTATGTGTTGAAC
1 AGTTCATTTCTGCATGTATTGAAC
* *
53695386 GGTTCATTTCTGCATGTATTTAAC
1 AGTTCATTTCTGCATGTATTGAAC
53695410 AGTTCAT
1 AGTTCAT
53695417 CTTTCATTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.20, C:0.15, G:0.19, T:0.46
Consensus pattern (24 bp):
AGTTCATTTCTGCATGTATTGAAC
Found at i:53696863 original size:42 final size:42
Alignment explanation
Indices: 53696614--53696969 Score: 453
Period size: 42 Copynumber: 8.3 Consensus size: 42
53696604 GTTATGTTTC
* * * *
53696614 TAGCGGCGTTTTTGTGAGAAGCGCCGCTAAAGGT-TTGATCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCTTGGTCTT
* * *
53696656 TAGCGGCGTTTTTGACGAAAAGCGCCGCTAAAGGTCATGTTCTT
1 TAGCGGCGTTTGTG--GAAAAGCGCCGCTAAAGGTCTTGGTCTT
* *
53696700 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCTTGGTCTT
*
53696743 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCTTGGTCTT
* **
53696786 TAGCAGCGTTTGTATAAAAAAAGCGCCGCTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTG--T-GGAAAAGCGCCGCTAAAGGTCTTGGTCTT
53696831 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
* * * * *
53696873 TAGCGGTGTTTTTGGGAAAGCGTCGTTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
* *
53696915 TAGCGGCGTTTGTGGAAAAGTGCTGCTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
53696957 TAGCGGCGTTTGT
1 TAGCGGCGTTTGT
53696970 TTCTAAAAAC
Statistics
Matches: 280, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
42 126 0.45
43 98 0.35
44 17 0.06
45 39 0.14
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.31
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
Found at i:53698235 original size:28 final size:28
Alignment explanation
Indices: 53698202--53698349 Score: 91
Period size: 28 Copynumber: 5.3 Consensus size: 28
53698192 CTCACATGTG
*
53698202 GATTCATAAATGTGGATTTATACATGCA
1 GATTCATAGATGTGGATTTATACATGCA
* ** ** **
53698230 GATTCATAGATGCGGATCCATATGTGTT
1 GATTCATAGATGTGGATTTATACATGCA
* ** * * *
53698258 GATTTATAGATGCAGATTTGTACATACG
1 GATTCATAGATGTGGATTTATACATGCA
** *
53698286 GATTCATAGATGTGGATCCATAGATGC-
1 GATTCATAGATGTGGATTTATACATGCA
* * * *
53698313 GAATTAATACATGTAGATTTATAGATGCA
1 G-ATTCATAGATGTGGATTTATACATGCA
53698342 GATTCATA
1 GATTCATA
53698350 AATACAGATT
Statistics
Matches: 86, Mismatches: 32, Indels: 4
0.70 0.26 0.03
Matches are distributed among these distances:
27 1 0.01
28 84 0.98
29 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (28 bp):
GATTCATAGATGTGGATTTATACATGCA
Found at i:53698309 original size:42 final size:42
Alignment explanation
Indices: 53698201--53698312 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
53698191 TCTCACATGT
* * * *
53698201 GGATTCATAAATGTGGATTTATACATGCAGATTCATAGATGC
1 GGATTCATAGATGTGGATTTATAGATGCAGATTCATACATAC
* * **
53698243 GGATCCATATG-TGTTGATTTATAGATGCAGATTTGTACATAC
1 GGATTCATA-GATGTGGATTTATAGATGCAGATTCATACATAC
**
53698285 GGATTCATAGATGTGGATCCATAGATGC
1 GGATTCATAGATGTGGATTTATAGATGC
53698313 GAATTAATAC
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
41 1 0.02
42 55 0.98
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (42 bp):
GGATTCATAGATGTGGATTTATAGATGCAGATTCATACATAC
Found at i:53702521 original size:44 final size:44
Alignment explanation
Indices: 53702471--53702562 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
53702461 TTTTTACGCT
* * * *
53702471 TTGACACTTGAAATTGACAACTAGTTTCATTTTGATATTTGAAC
1 TTGACACTTGAAATTGAAAACTAGGTCCATTCTGATATTTGAAC
*
53702515 TTGACACTTGAAATTGAAAACTAGGTCCATTCTGATATTTGATC
1 TTGACACTTGAAATTGAAAACTAGGTCCATTCTGATATTTGAAC
53702559 TTGA
1 TTGA
53702563 AAATATAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (44 bp):
TTGACACTTGAAATTGAAAACTAGGTCCATTCTGATATTTGAAC
Found at i:53704957 original size:139 final size:139
Alignment explanation
Indices: 53704814--53705220 Score: 386
Period size: 139 Copynumber: 2.9 Consensus size: 139
53704804 ACTTGTCAAA
* * **
53704814 AAAAAACTCATCCTAACCCTATTTTTTACGACAAAAACCAAATT-TTAATGAGCTTC-TTTCCAT
1 AAAAAACTCATCCAAACCCTATTTTTGACGACAAAAACCAAATTCCAAATGAGCTTCTTTTCCAT
*
53704877 TTTTAAACATCGATTTTGATTCCTTTCTCACCTCAATTCAAAACT-TATGTATTATTTTTCGTTA
66 TTTTAAAC-TCGATTTCGATTCCTTTCTCACCTCAATTCAAAACTATATGTATT-TTTTTC-TTA
*
53704941 AAGCAACCCATC
128 AAACAACCCATC
* * * * * *
53704953 AAAAAACTGATCCAAACCCTATTTTCGACAAC-AAAACTCGAATTCCGACT-AGCTTCTTTTCCA
1 AAAAAACTCATCCAAACCCTATTTTTGACGACAAAAAC-CAAATTCCAAATGAGCTTCTTTTCCA
* * ** * * * * *
53705016 TTTTTAAACCTCGATTTCAATTCCTTTCTCACATTGATAC-AGATTCTATGTACTGTTTTTCTTA
65 TTTTTAAA-CTCGATTTCGATTCCTTTCTCACCTCAATTCAAAACTATATGTA-TTTTTTTCTT-
*
53705080 AAAATAACCCATC
127 AAAACAACCCATC
* * ** * *
53705093 --AAAACTCATACAAACCTTATTTTTGGTGACAAAACCCAAATTCCAAACGAGCTTCTTTTCCAT
1 AAAAAACTCATCCAAACCCTATTTTTGACGACAAAAACCAAATTCCAAATGAGCTTCTTTTCCAT
*
53705156 TTTTAAATCTCGATTTCGATTCC--T-TCACCCCAATTCAAAACCTATATTGTATTTTTTTCTTA
66 TTTTAAA-CTCGATTTCGATTCCTTTCTCACCTCAATTCAAAA-CTATA-TGTATTTTTTTCTTA
53705218 AAA
128 AAA
53705221 ATAACTTTCT
Statistics
Matches: 213, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
136 7 0.03
137 7 0.03
138 48 0.23
139 86 0.40
140 63 0.30
141 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (139 bp):
AAAAAACTCATCCAAACCCTATTTTTGACGACAAAAACCAAATTCCAAATGAGCTTCTTTTCCAT
TTTTAAACTCGATTTCGATTCCTTTCTCACCTCAATTCAAAACTATATGTATTTTTTTCTTAAAA
CAACCCATC
Found at i:53705675 original size:17 final size:18
Alignment explanation
Indices: 53705656--53705689 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
53705646 AATTACAAAA
53705656 AAAAT-GAAAAA-AAATT
1 AAAATGGAAAAACAAATT
53705672 AAAATGGAAAAACAAATT
1 AAAATGGAAAAACAAATT
53705690 CAGAACTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.18
Consensus pattern (18 bp):
AAAATGGAAAAACAAATT
Found at i:53709171 original size:25 final size:26
Alignment explanation
Indices: 53709143--53709214 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
53709133 TTTCATTCTT
*
53709143 ATTTTACCC-TAGTAAAATTTTGACA
1 ATTTTACCCGTAGTAAAATTTTAACA
* * *
53709168 ATTTTACCCTTAGTAAAAATTTAACG
1 ATTTTACCCGTAGTAAAATTTTAACA
* *
53709194 ATTTTGCCCGTGGTAAAATTT
1 ATTTTACCCGTAGTAAAATTT
53709215 CGAGAAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 9 0.23
26 30 0.77
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTTTACCCGTAGTAAAATTTTAACA
Found at i:53709375 original size:6 final size:6
Alignment explanation
Indices: 53709363--53709401 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
53709353 CAAATGGATT
* *
53709363 ATTTCC TTTTCC -TTTTC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
53709402 TTAGAAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTCC
Found at i:53709385 original size:17 final size:18
Alignment explanation
Indices: 53709363--53709401 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
53709353 CAAATGGATT
* *
53709363 ATTTCCTTTTCC-TTTTC
1 ATTTCCATTTCCATTTCC
53709380 ATTTCCATTTCCATTTCC
1 ATTTCCATTTCCATTTCC
53709398 ATTT
1 ATTT
53709402 TTAGAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTCCATTTCCATTTCC
Found at i:53711957 original size:65 final size:65
Alignment explanation
Indices: 53711853--53711980 Score: 211
Period size: 65 Copynumber: 2.0 Consensus size: 65
53711843 GTAATTGTTC
53711853 AAAAACATTGTCTTGACATCTATTTTCCAGATCTCGTAATCAAGAGTCGCCATAATAGATAGTTA
1 AAAAACATTGTCTTGACATCTATTTTCCAGATCTCGTAATCAAGAGTCGCCATAATAGATAGTTA
* * * * *
53711918 AAAAAGATTGTCTTGACATCTATTTTCTAGATCTTGTAATCGAGAGTCGCCATAATGGATAGT
1 AAAAACATTGTCTTGACATCTATTTTCCAGATCTCGTAATCAAGAGTCGCCATAATAGATAGT
53711981 AATTTATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (65 bp):
AAAAACATTGTCTTGACATCTATTTTCCAGATCTCGTAATCAAGAGTCGCCATAATAGATAGTTA
Found at i:53714478 original size:48 final size:49
Alignment explanation
Indices: 53714399--53714517 Score: 150
Period size: 48 Copynumber: 2.4 Consensus size: 49
53714389 TAACCACATT
* *
53714399 TATCTGGCAGTTTATTTGGAATTTCTAGTGGCTTGTCCACATATATCTG
1 TATCTGGCAGTTTGTTTGCAATTTCTAGTGGCTTGTCCACATATATCTG
* * * *
53714448 -ATCTGGCAGTTTGTTTGCAATTTTTGGTGGCTTGTTCATATATATCTG
1 TATCTGGCAGTTTGTTTGCAATTTCTAGTGGCTTGTCCACATATATCTG
* * *
53714496 TATTTGGCAGCTTGTCTGCAAT
1 TATCTGGCAGTTTGTTTGCAAT
53714518 ATCCGGTGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
48 42 0.70
49 18 0.30
ACGTcount: A:0.18, C:0.15, G:0.22, T:0.45
Consensus pattern (49 bp):
TATCTGGCAGTTTGTTTGCAATTTCTAGTGGCTTGTCCACATATATCTG
Found at i:53714526 original size:49 final size:48
Alignment explanation
Indices: 53714426--53714536 Score: 125
Period size: 48 Copynumber: 2.3 Consensus size: 48
53714416 GGAATTTCTA
* * * **
53714426 GTGGCTTGTCCACATATATCTGATCTGGCAGTTTGTTTGCAATTTTTG
1 GTGGCTTGTCCACATATATCTGATCTGGCAGCTTGTCTGCAATATCCG
* * *
53714474 GTGGCTTGTTCATATATATCTGTATTTGGCAGCTTGTCTGCAATATCCG
1 GTGGCTTGTCCACATATATCTG-ATCTGGCAGCTTGTCTGCAATATCCG
*
53714523 GTGG-TTGTCTACAT
1 GTGGCTTGTCCACAT
53714537 TGTGGTGTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 27 0.53
49 24 0.47
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.42
Consensus pattern (48 bp):
GTGGCTTGTCCACATATATCTGATCTGGCAGCTTGTCTGCAATATCCG
Found at i:53715083 original size:27 final size:30
Alignment explanation
Indices: 53715027--53715084 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 30
53715017 ACTTAAATCT
*
53715027 ATTTATTCAATTAAGTGATATTTTATCAAA
1 ATTTATTCAATTAAGTGATATTTTAGCAAA
*
53715057 ATTTATTGAA-TAA-TGAT-TTTTAGCAAA
1 ATTTATTCAATTAAGTGATATTTTAGCAAA
53715084 A
1 A
53715085 ACATGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 4 0.15
29 3 0.12
30 9 0.35
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (30 bp):
ATTTATTCAATTAAGTGATATTTTAGCAAA
Found at i:53720188 original size:210 final size:210
Alignment explanation
Indices: 53719826--53720250 Score: 814
Period size: 210 Copynumber: 2.0 Consensus size: 210
53719816 TATGTGAAGA
*
53719826 TGATAGTCCACGGTCTATTTCCTAAGAACTACAACCTTGGCAAAAAATAATAATTATATAACAAA
1 TGATAGTCCACGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAATAATAATTATATAACAAA
53719891 TATATATTATTGCATTTTTTTCACATCCATTTCCCTAAACATGTGAATAATTACAAGTATGTCAC
66 TATATATTATTGCATTTTTTTCACATCCATTTCCCTAAACATGTGAATAATTACAAGTATGTCAC
53719956 ATCTTATCAAATATTAATCAAATAGATAAAAAGAGAGATTTAGTCTTAGTTTACAACATAATCAT
131 ATCTTATCAAATATTAATCAAATAGATAAAAAGAGAGATTTAGTCTTAGTTTACAACATAATCAT
*
53720021 AGCACAACATGGCTC
196 AGCACAACATGACTC
53720036 TGATAGTCCACGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAATAATAATTATATAACAAA
1 TGATAGTCCACGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAATAATAATTATATAACAAA
53720101 TATATATTATTGCATTTTTTTCACATCCATTTCCCTAAACATGTGAATAATTACAAGTATGTCAC
66 TATATATTATTGCATTTTTTTCACATCCATTTCCCTAAACATGTGAATAATTACAAGTATGTCAC
* *
53720166 ATCTTATCAAATATTAATCAAATAGATGAAGAGAGAGATTTAGTCTTAGTTTACAACATAATCAT
131 ATCTTATCAAATATTAATCAAATAGATAAAAAGAGAGATTTAGTCTTAGTTTACAACATAATCAT
53720231 AGCACAACATGACTC
196 AGCACAACATGACTC
53720246 TGATA
1 TGATA
53720251 CCAATTATTA
Statistics
Matches: 211, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
210 211 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (210 bp):
TGATAGTCCACGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAATAATAATTATATAACAAA
TATATATTATTGCATTTTTTTCACATCCATTTCCCTAAACATGTGAATAATTACAAGTATGTCAC
ATCTTATCAAATATTAATCAAATAGATAAAAAGAGAGATTTAGTCTTAGTTTACAACATAATCAT
AGCACAACATGACTC
Found at i:53721040 original size:26 final size:26
Alignment explanation
Indices: 53720966--53721041 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
53720956 TCTCATCCCT
* * *
53720966 ATTTTTCCTCCAGTAAAATTTTAACA
1 ATTTTACCTCTAGTAAAATTTTGACA
* *
53720992 ATTTTACC-CTTGGTAAAATTTTGACG
1 ATTTTACCTC-TAGTAAAATTTTGACA
53721018 ATTTTACCTCTAGTAAAATTTTGA
1 ATTTTACCTCTAGTAAAATTTTGA
53721042 GAAAATATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
25 1 0.02
26 40 0.95
27 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (26 bp):
ATTTTACCTCTAGTAAAATTTTGACA
Found at i:53741685 original size:27 final size:27
Alignment explanation
Indices: 53741647--53741711 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
53741637 ATAGAGGAAG
53741647 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
53741672 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
*
53741700 TACTATTACTGG
1 TACTGTTACTGG
53741712 CAGCTTTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 27 0.77
28 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:53741717 original size:27 final size:26
Alignment explanation
Indices: 53741652--53741743 Score: 78
Period size: 27 Copynumber: 3.5 Consensus size: 26
53741642 GGAAGTACTG
* *
53741652 TACTGGTGGCTCT-GCCACAATCACTGT
1 TACTGGTAGCT-TGGCCACAAT-ACTAT
*
53741679 TACTGGTGGCTTGGCCACATATACTAT
1 TACTGGTAGCTTGGCCACA-ATACTAT
* * **
53741706 TACTGGCAGCTTTGCTGCAATACTAT
1 TACTGGTAGCTTGGCCACAATACTAT
*
53741732 TGCTGGTAGCTT
1 TACTGGTAGCTT
53741744 TGCTACGATG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 18 0.33
27 35 0.64
28 2 0.04
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.34
Consensus pattern (26 bp):
TACTGGTAGCTTGGCCACAATACTAT
Found at i:53741858 original size:32 final size:32
Alignment explanation
Indices: 53741752--53741937 Score: 95
Period size: 32 Copynumber: 5.8 Consensus size: 32
53741742 TTTGCTACGA
* * *
53741752 TGCTACTGATAGCTTTGTGCCAATCATATTAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
* * * * ** *
53741784 CGTTACCGATGGCTGTGTGTCGGTCATTTCAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
** * *
53741816 TATTATTGATGGCTGTGTGCCTATCATATCAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
* * * * *
53741848 TGCTACTGATGGCTTTGTACCGATCATGTTAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
* * * * **
53741880 CGTTACTGATGGTTGTCT-ATAGATCATATCAC
1 TGCTACTGATGGCTGTGTGCCA-ATCATATCAC
* * * *
53741912 TACTACTGATGACTTTATGCCAATCA
1 TGCTACTGATGGCTGTGTGCCAATCA
53741938 CATTATTATA
Statistics
Matches: 107, Mismatches: 45, Indels: 4
0.69 0.29 0.03
Matches are distributed among these distances:
32 106 0.99
33 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (32 bp):
TGCTACTGATGGCTGTGTGCCAATCATATCAC
Found at i:53741992 original size:22 final size:22
Alignment explanation
Indices: 53741949--53741995 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
53741939 ATTATTATAC
* *
53741949 TTATAGCTTGTAGCCATTCTGT
1 TTATAGCTTATAGCCATCCTGT
**
53741971 TTATAGCTTATAGTTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
53741993 TTA
1 TTA
53741996 CGGCTCTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:53747405 original size:53 final size:53
Alignment explanation
Indices: 53747347--53747503 Score: 203
Period size: 53 Copynumber: 3.0 Consensus size: 53
53747337 AAAAAATTTG
*
53747347 GTCCTAGCCTGTCAATGGCCACCACCAAATACAAAAAAAAATCAAATTTTTTT
1 GTCCTAGCCTGTCAATGGCCACCACCAAGTACAAAAAAAAATCAAATTTTTTT
****
53747400 GTCCTAGCCTGTCAATGGCCACCACCAAGTAC---AAAAAATTTTTTTTTTTT
1 GTCCTAGCCTGTCAATGGCCACCACCAAGTACAAAAAAAAATCAAATTTTTTT
** * * *
53747450 GTGTTGGCCTGTCAATGACCACCACCAAGTACAAAAAAAAATCACATTTTTTT
1 GTCCTAGCCTGTCAATGGCCACCACCAAGTACAAAAAAAAATCAAATTTTTTT
53747503 G
1 G
53747504 GTGCTGGCTT
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
50 42 0.48
53 46 0.52
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (53 bp):
GTCCTAGCCTGTCAATGGCCACCACCAAGTACAAAAAAAAATCAAATTTTTTT
Found at i:53747531 original size:54 final size:53
Alignment explanation
Indices: 53747353--53747523 Score: 204
Period size: 50 Copynumber: 3.3 Consensus size: 53
53747343 TTTGGTCCTA
* * * *
53747353 GCCTGTCAATGGCCACCACCAAATACAAAAAAAAATCAAATTTTTTTGTCCTA
1 GCCTGTCAATGACCACCACCAAGTACAAAAAAAAATCAAATTTTTTTGTGCTG
* **** *
53747406 GCCTGTCAATGGCCACCACCAAGTAC---AAAAAATTTTTTTTTTTTGTGTTG
1 GCCTGTCAATGACCACCACCAAGTACAAAAAAAAATCAAATTTTTTTGTGCTG
*
53747456 GCCTGTCAATGACCACCACCAAGTACAAAAAAAAATCACATTTTTTTGGTGCTG
1 GCCTGTCAATGACCACCACCAAGTACAAAAAAAAATCAAATTTTTTT-GTGCTG
*
53747510 GCTTGTCAATGACC
1 GCCTGTCAATGACC
53747524 GGCACCAAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
50 42 0.42
53 39 0.39
54 18 0.18
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (53 bp):
GCCTGTCAATGACCACCACCAAGTACAAAAAAAAATCAAATTTTTTTGTGCTG
Found at i:53747629 original size:52 final size:55
Alignment explanation
Indices: 53747499--53747641 Score: 184
Period size: 59 Copynumber: 2.6 Consensus size: 55
53747489 AATCACATTT
*
53747499 TTTTGGTGCTGGCTTGTCAATGACCGGCACCAAAGCACGAGTTTTAGAAAAAAAATTC
1 TTTTGGTGCTGGCTTGTCAATGGCCGGCACCAAAGCACGAGTTTT--AAAAAAAA-TC
* * *
53747557 TTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAAAGTACGTGTTTT-AAAAAAA-C
1 -TTTTGGTGCTGGCTTGTCAATGGCCGGCACCAAAGCACGAGTTTTAAAAAAAATC
*
53747611 -TTTGGTACTGGCTTGTCAATGGCCGGCACCA
1 TTTTGGTGCTGGCTTGTCAATGGCCGGCACCA
53747642 GACTCAGTAT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
52 29 0.37
54 1 0.01
56 7 0.09
59 41 0.53
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (55 bp):
TTTTGGTGCTGGCTTGTCAATGGCCGGCACCAAAGCACGAGTTTTAAAAAAAATC
Found at i:53747659 original size:52 final size:54
Alignment explanation
Indices: 53747499--53747659 Score: 157
Period size: 52 Copynumber: 2.9 Consensus size: 54
53747489 AATCACATTT
* * *
53747499 TTTTGGTGCTGGCTTGTCAATGACCGGCACCAAAGCACGAGTTTTAGAAAAAAAATTC
1 TTTTGGTGCTGGCTTGTCAATGGCCGGCACCAAA-CTC-AGTATTA-AAAAAAAA-TC
* * * **
53747557 TTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAAAGT-ACGTGTTTTAAAAAAA-C
1 -TTTTGGTGCTGGCTTGTCAATGGCCGGCACCAAACTCA-GTATTAAAAAAAAATC
* *
53747611 -TTTGGTACTGGCTTGTCAATGGCCGGCACCAGACTCAGTATTAAAAAAA
1 TTTTGGTGCTGGCTTGTCAATGGCCGGCACCAAACTCAGTATTAAAAAAA
53747660 TTTGTTTTAG
Statistics
Matches: 86, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
52 40 0.47
53 1 0.01
54 1 0.01
56 8 0.09
57 4 0.05
59 32 0.37
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (54 bp):
TTTTGGTGCTGGCTTGTCAATGGCCGGCACCAAACTCAGTATTAAAAAAAAATC
Found at i:53751863 original size:20 final size:20
Alignment explanation
Indices: 53751838--53751880 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
53751828 GAATGGTACA
* * *
53751838 GAGTTGAGCAGAGCAGAGCG
1 GAGTTGAACAGAACAGAACG
53751858 GAGTTGAACAGAACAGAACG
1 GAGTTGAACAGAACAGAACG
53751878 GAG
1 GAG
53751881 CAGAACATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.40, T:0.09
Consensus pattern (20 bp):
GAGTTGAACAGAACAGAACG
Found at i:53752804 original size:63 final size:63
Alignment explanation
Indices: 53752705--53752835 Score: 181
Period size: 63 Copynumber: 2.1 Consensus size: 63
53752695 CACAGAGCCA
** *
53752705 GGGCACACACCCATGTCATCTACCTGTGTGGTTCTAAACCATAAACAGTGAGTTACACGGCCT
1 GGGCACACACCCATGTCATCTACCCATGTGGTTCTAAACCATAAACAGTGAGTTACAAGGCCT
* * * * **
53752768 GGGCACACGCCCATGTCGTCTGCCCATGTGGTTCTAAATCATAAATTGTGAGTTACAAGGCCT
1 GGGCACACACCCATGTCATCTACCCATGTGGTTCTAAACCATAAACAGTGAGTTACAAGGCCT
53752831 GGGCA
1 GGGCA
53752836 TGATGCGGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (63 bp):
GGGCACACACCCATGTCATCTACCCATGTGGTTCTAAACCATAAACAGTGAGTTACAAGGCCT
Found at i:53760367 original size:20 final size:19
Alignment explanation
Indices: 53760339--53760379 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
53760329 AAAATGAACT
53760339 AAAAAAAAGAAGA-ACAAGA
1 AAAAAAAAGAA-ATACAAGA
53760358 AAAAAGAAAGAAATACAAGA
1 AAAAA-AAAGAAATACAAGA
53760378 AA
1 AA
53760380 CTTCACACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAATACAAGA
Found at i:53764854 original size:316 final size:316
Alignment explanation
Indices: 53764275--53764907 Score: 1104
Period size: 316 Copynumber: 2.0 Consensus size: 316
53764265 ATGCATAGTC
* *
53764275 ATTCAATTTCAATAAACAATTGTATAATCAAAATTTCAGTCTAAAATTGTCAGATAGTAGTCATA
1 ATTCAATTTCAATAAACAATTGTATAATCAAAATTTCAGTCTAAAATTGTCAAATAGCAGTCATA
*
53764340 CAGTCTAAACAGATCATACATATACACTACGAATGCCCTACAGTCGCGTTAACAATGCTTACGGC
66 CAGTCTAAACAGATCATACATATACACTACGAATGCCCTACAGTCGCGTTAACAATGCTTACAGC
53764405 CCCAAGGATGAATTCCAAACCTGACCCAGACGCCTGTGTGGTTCCACATGACCGAGCACACGCTC
131 CCCAAGGATGAATTCCAAACCTGACCCAGACGCCTGTGTGGTTCCACATGACCGAGCACACGCTC
* *
53764470 GTGTGCCCAGTCGTGAGTTTCACACGGCTTGACATACGCTCGTGTAGTCCTAAATCACAAACAGT
196 GTGTGCCCAGCCGTGAGTTTCACACGGCTTGACATACGCCCGTGTAGTCCTAAATCACAAACAGT
*
53764535 GTGTTACACGGCCTAGACACATACCCGTGTCTTTAGTCCGTGTTAATCCAGCACTA
261 GTGTTACACGGCCTAGACACATACCCGTGTCTTTAGTCCGTGTTAACCCAGCACTA
* * *
53764591 ATTCAGTTTCAATAAACATTTGTATAATCAAAATTTCAGTCTAAAATTGTTAAATAGCAGTCATA
1 ATTCAATTTCAATAAACAATTGTATAATCAAAATTTCAGTCTAAAATTGTCAAATAGCAGTCATA
* * *
53764656 CAGTCTAATCAGATCATACATATACACTACGGATGCCCTACATTCGCGTTAACAATGCTTACAGC
66 CAGTCTAAACAGATCATACATATACACTACGAATGCCCTACAGTCGCGTTAACAATGCTTACAGC
* *
53764721 CCCAAGGATGACTTCCAAACCTGACCCAGACGCCTGTGTGGTTCCACATGACCTAGCACACGCTC
131 CCCAAGGATGAATTCCAAACCTGACCCAGACGCCTGTGTGGTTCCACATGACCGAGCACACGCTC
* * *
53764786 GTGTTCCTAGCCGTGTGTTTCACACGGCTTGACATACGCCCGTGTAGTCCTAAATCACAAACAGT
196 GTGTGCCCAGCCGTGAGTTTCACACGGCTTGACATACGCCCGTGTAGTCCTAAATCACAAACAGT
*
53764851 GTGTTACACGGCCTAGACACATGCCCGTGTCTTTAGTCCGTGTTAACCCAGCACTA
261 GTGTTACACGGCCTAGACACATACCCGTGTCTTTAGTCCGTGTTAACCCAGCACTA
53764907 A
1 A
53764908 CATGCCGTGT
Statistics
Matches: 299, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
316 299 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (316 bp):
ATTCAATTTCAATAAACAATTGTATAATCAAAATTTCAGTCTAAAATTGTCAAATAGCAGTCATA
CAGTCTAAACAGATCATACATATACACTACGAATGCCCTACAGTCGCGTTAACAATGCTTACAGC
CCCAAGGATGAATTCCAAACCTGACCCAGACGCCTGTGTGGTTCCACATGACCGAGCACACGCTC
GTGTGCCCAGCCGTGAGTTTCACACGGCTTGACATACGCCCGTGTAGTCCTAAATCACAAACAGT
GTGTTACACGGCCTAGACACATACCCGTGTCTTTAGTCCGTGTTAACCCAGCACTA
Found at i:53765564 original size:20 final size:20
Alignment explanation
Indices: 53765507--53765582 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
53765497 AATAAAGAGG
*
53765507 AAAGAAA-AAGAATCGAAAAAT
1 AAAGAAAGAAGAA--GAAAAAA
53765528 AAAGAAAAGAA-AAGAAAAAA
1 AAAG-AAAGAAGAAGAAAAAA
*
53765548 AAAGAAAGAAGAGGAAAAAA
1 AAAGAAAGAAGAAGAAAAAA
*
53765568 ATAG-AAGAAGAAGAA
1 AAAGAAAGAAGAAGAA
53765583 CTAATGTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 16 0.33
20 21 0.44
21 4 0.08
22 5 0.10
23 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.20, T:0.04
Consensus pattern (20 bp):
AAAGAAAGAAGAAGAAAAAA
Found at i:53773913 original size:43 final size:43
Alignment explanation
Indices: 53773865--53774058 Score: 196
Period size: 43 Copynumber: 4.6 Consensus size: 43
53773855 GTTTATCTGG
** * *
53773865 AAAAACATTACTATAGAACATGAAATTTAGCGACGCTTTTCCC
1 AAAAACACCACTAAAGAACATGACATTTAGCGACGCTTTTCCC
*
53773908 AAAAACACCACTAAAGAACATGACATTTAGCGGCGC-TTTCCC
1 AAAAACACCACTAAAGAACATGACATTTAGCGACGCTTTTCCC
* * * * ** *
53773950 ACAAACGCCGCTATAGAACATGATGTTTAGCTG-CGCTTTCCCC
1 AAAAACACCACTAAAGAACATGACATTTAGC-GACGCTTTTCCC
* * * *
53773993 ACAAACGCCACTAAAGAACATGACCTTTAGCAACGCTTTT-CC
1 AAAAACACCACTAAAGAACATGACATTTAGCGACGCTTTTCCC
* *
53774035 ACAAACACCGCTAAAGAACATGAC
1 AAAAACACCACTAAAGAACATGAC
53774059 CTTTCATTGC
Statistics
Matches: 128, Mismatches: 20, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
42 58 0.45
43 70 0.55
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.22
Consensus pattern (43 bp):
AAAAACACCACTAAAGAACATGACATTTAGCGACGCTTTTCCC
Done.