Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005024.1 Hibiscus syriacus cultivar Beakdansim tig00011277_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 902903
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 3
Found at i:1277 original size:72 final size:73
Alignment explanation
Indices: 1165--1313 Score: 248
Period size: 72 Copynumber: 2.1 Consensus size: 73
1155 CGACGCTGTG
* * *
1165 CGAGGCTCCCGCACCCAGCGCTCGGTTCTGTGCGGTACTCCCGCACCAATGGCCTGGGGTTGCCG
1 CGAGGCTCCCGCACCAAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGCCCGGGGTTGCCG
1230 ATGGTGAC
66 ATGGTGAC
1238 CGAGGCTCCCGCACCAA-CGC-CTGGTTCTGTGCGGCACTCCCGCACCAATGGCCCGGGGTTGCC
1 CGAGGCTCCCGCACCAAGCGCTC-GGTTCTGTGCGGCACTCCCGCACCAATGGCCCGGGGTTGCC
1301 GATGGTGAC
65 GATGGTGAC
1310 CGAG
1 CGAG
1314 ACACCCATCT
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
71 1 0.01
72 55 0.76
73 16 0.22
ACGTcount: A:0.13, C:0.36, G:0.33, T:0.17
Consensus pattern (73 bp):
CGAGGCTCCCGCACCAAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGCCCGGGGTTGCCG
ATGGTGAC
Found at i:1359 original size:33 final size:33
Alignment explanation
Indices: 1296--1516 Score: 155
Period size: 33 Copynumber: 6.5 Consensus size: 33
1286 TGGCCCGGGG
* ** *
1296 TTGCCGATGGTGACCGA-GACACCCATCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1328 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
** * **
1361 TTGCCGATGGTGACCGAGGCTCATGCACAAGGG-
1 TTGCCGATGGTGACCGAGGC-CACCCGCCTGGGA
* * *
1394 --GCCTGATGGTGACCGAGGCTCCCGCACCAATGGCCCGGGG
1 TTGCC-GATGGTGACCGAGG----C-CACC---CGCCTGGGA
* * * *
1434 TTGCCGATGGTGACCTA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1466 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
* *
1499 TTGCCAATGGCGACCGAG
1 TTGCCGATGGTGACCGAG
1517 TCTCATGCAC
Statistics
Matches: 147, Mismatches: 28, Indels: 27
0.73 0.14 0.13
Matches are distributed among these distances:
31 3 0.02
32 52 0.35
33 59 0.40
34 7 0.05
35 4 0.03
36 3 0.02
39 4 0.03
40 1 0.01
41 11 0.07
42 3 0.02
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.18
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:1402 original size:65 final size:65
Alignment explanation
Indices: 1333--1548 Score: 195
Period size: 65 Copynumber: 3.2 Consensus size: 65
1323 TGGGTTTGCC
*
1333 GATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCATGCACAAGGGGCCT
1 GATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGACTCATGCACAAGGGGCCT
* * * * * ** *
1398 GATGGTGACCGAGGCTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCTAGACACCCG-TC-
1 GATGGTGACCGAGG----C-CACC---CGCCTGGGATTGCCGATGGTGACCGAGACTCATGCACA
*
1461 TGGGTTTGCC-
58 AGGG---GCCT
* * *
1471 GATGGTGACCGAGGCCACCCGCCTGGGATTGCCAATGGCGACCGAGTCTCATGCACAAGGGGCCT
1 GATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGACTCATGCACAAGGGGCCT
1536 GATGGTGACCGAG
1 GATGGTGACCGAG
1549 ACTCCCGTAC
Statistics
Matches: 115, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
64 3 0.03
65 51 0.44
66 1 0.01
67 3 0.03
68 4 0.03
69 2 0.02
70 4 0.03
71 3 0.03
72 1 0.01
73 40 0.35
74 3 0.03
ACGTcount: A:0.18, C:0.30, G:0.36, T:0.17
Consensus pattern (65 bp):
GATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGACTCATGCACAAGGGGCCT
Found at i:1463 original size:138 final size:138
Alignment explanation
Indices: 1273--1561 Score: 515
Period size: 138 Copynumber: 2.1 Consensus size: 138
1263 TCTGTGCGGC
1273 ACTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCATCTGGGTTTGCCGATGG
1 ACTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCATCTGGGTTTGCCGATGG
* *
1338 TGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCATGCACAAGGGGCCTGATGG
66 TGACCGAGGCCACCCGCCTGGGATTGCCAATGGCGACCGAGGCTCATGCACAAGGGGCCTGATGG
1403 TGACCGAG
131 TGACCGAG
* * *
1411 GCTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCTAGACACCCGTCTGGGTTTGCCGATGG
1 ACTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCATCTGGGTTTGCCGATGG
*
1476 TGACCGAGGCCACCCGCCTGGGATTGCCAATGGCGACCGAGTCTCATGCACAAGGGGCCTGATGG
66 TGACCGAGGCCACCCGCCTGGGATTGCCAATGGCGACCGAGGCTCATGCACAAGGGGCCTGATGG
1541 TGACCGAG
131 TGACCGAG
*
1549 ACTCCCGTACCAA
1 ACTCCCGCACCAA
1562 CGCTCGGTTC
Statistics
Matches: 143, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
138 143 1.00
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.17
Consensus pattern (138 bp):
ACTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCATCTGGGTTTGCCGATGG
TGACCGAGGCCACCCGCCTGGGATTGCCAATGGCGACCGAGGCTCATGCACAAGGGGCCTGATGG
TGACCGAG
Found at i:1587 original size:169 final size:170
Alignment explanation
Indices: 1412--1991 Score: 934
Period size: 169 Copynumber: 3.4 Consensus size: 170
1402 GTGACCGAGG
* *
1412 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCTAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* * * * *
1477 GACCGAGGCCACCCGCCTGGGATTGCCAATGGCGACCGAGTCTCATGCACA-AGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCATGCACACGGGGGCCTGATGG
* *
1541 TGACCGAGACTCCCGTACCAACGCTCGGTTCTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
*
1581 CTCCCGCACCAATGGCCCAGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
*
1646 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCATGCACACGGGGGCCTGATGG
* *
1711 TGACCGAGGCTCCCGCACCAAAGCTCGGTACTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
* * * *
1751 CTCCCGCACCAATGG-CTGGGGTTACCGATAGTGACTGAGACACCCGTATGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* *
1815 GACCGAGGCCACCCGCCTTGGATTACCGATGGTGA-CGAGGCGCATGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCATGCACACGGGGGCCTGATGG
1879 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
* **
1919 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1984 GA-CGAGGC
66 GACCGAGGC
1992 ACGCACACGT
Statistics
Matches: 379, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
168 86 0.23
169 230 0.61
170 63 0.17
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (170 bp):
CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCATGCACACGGGGGCCTGATGG
TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
Found at i:1672 original size:33 final size:33
Alignment explanation
Indices: 1606--1687 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 33
1596 CCCAGGGTTA
* * *
1606 CCGATGGTGACCGA-GACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTG
*
1638 CCGATGGTGACCGAGGCCACCCGCCTTGGATTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTG
1671 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
1688 TCACGCACAC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 14 0.31
33 31 0.69
ACGTcount: A:0.16, C:0.30, G:0.35, T:0.18
Consensus pattern (33 bp):
CCGATGGTGACCGAGGCCACCCGCCTGGGATTG
Found at i:1899 original size:307 final size:305
Alignment explanation
Indices: 1229--1823 Score: 727
Period size: 307 Copynumber: 1.9 Consensus size: 305
1219 TGGGGTTGCC
* * * ** *
1229 GATGGTGACCGAGGCTCCCGCACCAACGCCTGGTTCTGTGCGGCACTCCCGCACCAATGGCCCGG
1 GATGGTGACCGAGACGCACGCACCAACGCC-GGGCCTGTGCGGCACTCCCGCACCAATGGCCCAG
*
1294 GGTTGCCGATGGTGACCGAGACACCCATCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGG
65 GGTTACCGATGGTGACCGAGACACCCATCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGG
*
1359 GATTGCCGATGGTGACCGAGGCTCATGCACAAGGGGCCTGATGGTGACCGAGGCTCCCGCACCAA
130 GATTGCCGATGGTGACCGAGGCTCACGCACAAGGGGCCTGATGGTGACCGAGGCTCCCGCACCAA
* * * * * * * *
1424 TGGCCCGGGGTTGCCGATGGTGACCTAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCAC
195 TAGCCC-GGGTTACCGATGGTGACCCAGACACCCGGCTGGGGTTACCGATAGTGACCGAGGACAC
* * * *
1489 CCGCCTGGGATTGCCAATGGCGACCGAGTCTCATGCACAAGGGGCCT
259 CCGCATGGGATTGCCAATGGCGACCGAGGCTCACGCACAAGGGACCT
* * * **
1536 GATGGTGACCGAGACTCCCGTACCAACGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGCCCAG
1 GATGGTGACCGAGACGCACGCACCAACGC-CGGGCCTGTGCGGCACTCCCGCACCAATGGCCCAG
* *
1601 GGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTTG
65 GGTTACCGATGGTGACCGAGACACCCATCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGG
*
1666 GATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGGTGACCGAGGCTCCCGCACCA
130 GATTGCCGATGGTGACCGAGGCTCACGCACA-AGGGGCCTGATGGTGACCGAGGCTCCCGCACCA
* * * * *
1731 A-AGCTC-GG-TACTG-TGCG-GCACTCCCG-CACCAATGGCTGGGGTTACCGATAGTGACTGA-
194 ATAGCCCGGGTTACCGATG-GTG-AC-CCAGACACC--CGGCTGGGGTTACCGATAGTGACCGAG
* * * *
1789 GACACCCGTATGGGTTTGCCGATGGTGACCGAGGC
254 GACACCCGCATGGGATTGCCAATGGCGACCGAGGC
1824 CACCCGCCTT
Statistics
Matches: 254, Mismatches: 27, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
303 3 0.01
304 10 0.04
305 32 0.13
306 20 0.08
307 155 0.61
308 34 0.13
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (305 bp):
GATGGTGACCGAGACGCACGCACCAACGCCGGGCCTGTGCGGCACTCCCGCACCAATGGCCCAGG
GTTACCGATGGTGACCGAGACACCCATCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGG
ATTGCCGATGGTGACCGAGGCTCACGCACAAGGGGCCTGATGGTGACCGAGGCTCCCGCACCAAT
AGCCCGGGTTACCGATGGTGACCCAGACACCCGGCTGGGGTTACCGATAGTGACCGAGGACACCC
GCATGGGATTGCCAATGGCGACCGAGGCTCACGCACAAGGGACCT
Found at i:5121 original size:95 final size:95
Alignment explanation
Indices: 5001--5189 Score: 288
Period size: 95 Copynumber: 2.0 Consensus size: 95
4991 AGGATCCCCC
* * * * * *
5001 ACCCAACACTCGGTTCTGTGTGGCACTCTCGCACCAATGGCCTGGGGTTACCGAGGCACTCGTAG
1 ACCCAACACTCGGCTCTGTGCGGCACTCCCGCACCAATGGCCTAGGGTTACCGAGGCACCCATAG
5066 GGGGTTGTCGATGGTGACCGAGGCACCCGT
66 GGGGTTGTCGATGGTGACCGAGGCACCCGT
* * *
5096 ACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCATGGCCTAGGGTTACCGAGGCACCCATCG
1 ACCCAACACTCGGCTCTGTGCGGCACTCCCGCACCAATGGCCTAGGGTTACCGAGGCACCCATAG
*
5161 GGGGTTGTCGATGGTGACCGAGGCTCCCG
66 GGGGTTGTCGATGGTGACCGAGGCACCCG
5190 CACCAATGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.16, C:0.33, G:0.32, T:0.20
Consensus pattern (95 bp):
ACCCAACACTCGGCTCTGTGCGGCACTCCCGCACCAATGGCCTAGGGTTACCGAGGCACCCATAG
GGGGTTGTCGATGGTGACCGAGGCACCCGT
Found at i:5275 original size:33 final size:33
Alignment explanation
Indices: 5200--5349 Score: 144
Period size: 33 Copynumber: 4.6 Consensus size: 33
5190 CACCAATGAT
* * * * *
5200 CTGGGGTTACCGATAGTGACCGA-GACACCCGT
1 CTGGGATTACCGATGGTGACTGAGGCCACCCGC
* * *
5232 ATGGGTTTACCGATGGAGACTGAGGCCACCCGC
1 CTGGGATTACCGATGGTGACTGAGGCCACCCGC
* * * *
5265 CTAGGATTACCGATGGTGACTGA-GACACCAGT
1 CTGGGATTACCGATGGTGACTGAGGCCACCCGC
* *
5297 CTGGGTTTGCCGATGGTGA-TCGAGGCCACCCGC
1 CTGGGATTACCGATGGTGACT-GAGGCCACCCGC
5330 CTGGGATTACCGATGGTGAC
1 CTGGGATTACCGATGGTGAC
5350 CAAGGCTCAC
Statistics
Matches: 92, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
31 1 0.01
32 42 0.46
33 49 0.53
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.21
Consensus pattern (33 bp):
CTGGGATTACCGATGGTGACTGAGGCCACCCGC
Found at i:5310 original size:65 final size:65
Alignment explanation
Indices: 5206--5350 Score: 211
Period size: 65 Copynumber: 2.2 Consensus size: 65
5196 TGATCTGGGG
* *
5206 TTACCGATAGTGACCGAGACACCCGTATGGGTTTACCGATGGAGA-CTGAGGCCACCCGCCTAGG
1 TTACCGATGGTGACCGAGACACCAGTATGGGTTTACCGATGGAGATC-GAGGCCACCCGCCTAGG
5270 A
65 A
* * * * *
5271 TTACCGATGGTGACTGAGACACCAGTCTGGGTTTGCCGATGGTGATCGAGGCCACCCGCCTGGGA
1 TTACCGATGGTGACCGAGACACCAGTATGGGTTTACCGATGGAGATCGAGGCCACCCGCCTAGGA
5336 TTACCGATGGTGACC
1 TTACCGATGGTGACC
5351 AAGGCTCACA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 70 0.99
66 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.31, T:0.21
Consensus pattern (65 bp):
TTACCGATGGTGACCGAGACACCAGTATGGGTTTACCGATGGAGATCGAGGCCACCCGCCTAGGA
Found at i:5375 original size:65 final size:64
Alignment explanation
Indices: 5235--5387 Score: 164
Period size: 65 Copynumber: 2.3 Consensus size: 64
5225 CACCCGTATG
* ** ** **
5235 GGTTTACCGATGGAGACTGAGGCCACCCGCCTAGGATTACCGATGGTGACTGAGACACCAGTCTG
1 GGTTTACCGATGGTGAC-GAGGCCACCCGCCTAGGATTACCGATGGTGACCAAGACACCAAACAC
* * * *
5300 GGTTTGCCGATGGTGATCGAGGCCACCCGCCTGGGATTACCGATGGTGACCAAGGCTCACAAACA
1 GGTTTACCGATGGTGA-CGAGGCCACCCGCCTAGGATTACCGATGGTGACCAAGACAC-CAAACA
5365 C
64 C
5366 GG-TTACCGATGGTGACCGAGGC
1 GGTTTACCGATGGTGA-CGAGGC
5388 TCCGCTCCAA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
65 67 0.92
66 6 0.08
ACGTcount: A:0.22, C:0.27, G:0.32, T:0.19
Consensus pattern (64 bp):
GGTTTACCGATGGTGACGAGGCCACCCGCCTAGGATTACCGATGGTGACCAAGACACCAAACAC
Found at i:5441 original size:202 final size:203
Alignment explanation
Indices: 5169--5552 Score: 513
Period size: 202 Copynumber: 1.9 Consensus size: 203
5159 CGGGGGTTGT
*
5169 CGATGGTGACCGAGGCTCCCGCACCAATGATCTGGGGTTACCGATAGTGACCGAGACACCCGTAT
1 CGATGGTGACCGAGGCTCCCGCACCAATGATCTGGAGTTACCGATAGTGACCGAGACACCCGTAT
** ** * *
5234 GGGTTTACCGATG-GAGACTGAGGCCACCCGCCTAGGATTACCGATGGTGACTGAGACACCAGTC
66 GGGTTTACCGATGAG-GACCAACCCCACCCGCCTAGGATTACCGATGGTGACCGAGACACCAGTA
* *
5298 TGGGTTTGCCGA-TGGTGATCGAGGCCACCCGCCTGGGATTACCGATGGTGACCAAGGCTCACAA
130 TGGGTTTGCC-ATTGATGACCGAGGCCACCCGCCTGGGATTACCGATGGTGACCAAGGCTCACAA
5362 ACACGGTTAC
194 ACACGGTTAC
* * * ** * *
5372 CGATGGTGACCGAGGCT-CCGCTCCAATGGTCTGGAGTTGCTTATGGTGACCGAGACACCCGTCT
1 CGATGGTGACCGAGGCTCCCGCACCAATGATCTGGAGTTACCGATAGTGACCGAGACACCCGTAT
* * * *
5436 GGGTTTACCGATGAGGACCAACCCCACCCGCCTGGGATTGCCGATTGTGACCGAGACACCCGTAT
66 GGGTTTACCGATGAGGACCAACCCCACCCGCCTAGGATTACCGATGGTGACCGAGACACCAGTAT
* * * *
5501 GGGTTTGTCATTTATGACCGAGGCCACCCGCCTGGGATTGCCGATTGTGACC
131 GGGTTTGCCATTGATGACCGAGGCCACCCGCCTGGGATTACCGATGGTGACC
5553 GAGATACCCG
Statistics
Matches: 155, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
201 1 0.01
202 136 0.88
203 18 0.12
ACGTcount: A:0.21, C:0.28, G:0.30, T:0.21
Consensus pattern (203 bp):
CGATGGTGACCGAGGCTCCCGCACCAATGATCTGGAGTTACCGATAGTGACCGAGACACCCGTAT
GGGTTTACCGATGAGGACCAACCCCACCCGCCTAGGATTACCGATGGTGACCGAGACACCAGTAT
GGGTTTGCCATTGATGACCGAGGCCACCCGCCTGGGATTACCGATGGTGACCAAGGCTCACAAAC
ACGGTTAC
Found at i:5498 original size:65 final size:65
Alignment explanation
Indices: 5417--5567 Score: 205
Period size: 65 Copynumber: 2.3 Consensus size: 65
5407 GTTGCTTATG
5417 GTGACCGAGACACCCGTCTGGGTTTACCGA-TGAGGACCAACCCCACCCGCCTGGGATTGCCGAT
1 GTGACCGAGACACCCGTCTGGGTTTACC-ATTGAGGACCAACCCCACCCGCCTGGGATTGCCGAT
5481 T
65 T
* ** * * * **
5482 GTGACCGAGACACCCGTATGGGTTTGTCATTTATGACCGAGGCCACCCGCCTGGGATTGCCGATT
1 GTGACCGAGACACCCGTCTGGGTTTACCATTGAGGACCAACCCCACCCGCCTGGGATTGCCGATT
*
5547 GTGACCGAGATACCCGTCTGG
1 GTGACCGAGACACCCGTCTGG
5568 ATTTGCCTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
64 1 0.01
65 74 0.99
ACGTcount: A:0.19, C:0.30, G:0.29, T:0.21
Consensus pattern (65 bp):
GTGACCGAGACACCCGTCTGGGTTTACCATTGAGGACCAACCCCACCCGCCTGGGATTGCCGATT
Found at i:5552 original size:33 final size:33
Alignment explanation
Indices: 5459--5555 Score: 117
Period size: 33 Copynumber: 3.0 Consensus size: 33
5449 AGGACCAACC
5459 CCACCCGCCTGGGATTGCCGATTGTGACCGA-G
1 CCACCCGCCTGGGATTGCCGATTGTGACCGAGG
* ** * * *
5491 ACACCCGTATGGGTTTGTC-ATTTATGACCGAGG
1 CCACCCGCCTGGGATTGCCGA-TTGTGACCGAGG
5524 CCACCCGCCTGGGATTGCCGATTGTGACCGAG
1 CCACCCGCCTGGGATTGCCGATTGTGACCGAG
5556 ATACCCGTCT
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
31 1 0.02
32 23 0.46
33 25 0.50
34 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.23
Consensus pattern (33 bp):
CCACCCGCCTGGGATTGCCGATTGTGACCGAGG
Found at i:5574 original size:32 final size:32
Alignment explanation
Indices: 5417--5574 Score: 108
Period size: 33 Copynumber: 4.9 Consensus size: 32
5407 GTTGCTTATG
* *
5417 GTGACCGAGACACCCGTCTGGGTTTACCGA-T
1 GTGACCGAGACACCCGTCTGGATTTGCCGATT
* * ** *
5448 GAGGACCAACCCCACCCGCCTGGGA-TTGCCGATT
1 G-TGACCGA-GACACCCGTCT-GGATTTGCCGATT
* * *
5482 GTGACCGAGACACCCGTATGGGTTTGTC-ATTT
1 GTGACCGAGACACCCGTCTGGATTTGCCGA-TT
* * *
5514 ATGACCGAGGCCACCCGCCTGGGA-TTGCCGATT
1 GTGACCGA-GACACCCGTCT-GGATTTGCCGATT
*
5547 GTGACCGAGATACCCGTCTGGATTTGCC
1 GTGACCGAGACACCCGTCTGGATTTGCC
5575 TAATGGTGAT
Statistics
Matches: 92, Mismatches: 25, Indels: 19
0.68 0.18 0.14
Matches are distributed among these distances:
31 7 0.08
32 38 0.41
33 40 0.43
34 7 0.08
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.22
Consensus pattern (32 bp):
GTGACCGAGACACCCGTCTGGATTTGCCGATT
Found at i:6361 original size:21 final size:21
Alignment explanation
Indices: 6312--6354 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6302 AAATTAAGCT
*
6312 ATCTCAAGACTGTCTAAACCC
1 ATCTCACGACTGTCTAAACCC
6333 ATCTCACGACTGTCTAAACCC
1 ATCTCACGACTGTCTAAACCC
6354 A
1 A
6355 GTTCACGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.35, G:0.09, T:0.23
Consensus pattern (21 bp):
ATCTCACGACTGTCTAAACCC
Found at i:13966 original size:19 final size:19
Alignment explanation
Indices: 13942--13984 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
13932 CATTGAGGGG
13942 AGCTTTATCTATAAATAGA
1 AGCTTTATCTATAAATAGA
13961 AGCTTTATCTATAAATAGA
1 AGCTTTATCTATAAATAGA
*
13980 GGCTT
1 AGCTT
13985 CACCTCCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (19 bp):
AGCTTTATCTATAAATAGA
Found at i:17453 original size:29 final size:29
Alignment explanation
Indices: 17392--17458 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
17382 GTGGGGTGGG
* * *
17392 TGGCCTTTTTTGGTTTTAGAGTAAAGGGT
1 TGGCCTTTTTTGGTTTTAGAGGAAAAGGA
*
17421 TGGCCTTTTTTGGTTTTAGAGGAAAATGA
1 TGGCCTTTTTTGGTTTTAGAGGAAAAGGA
17450 TGGCCTTTT
1 TGGCCTTTT
17459 AATCCAGGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.18, C:0.09, G:0.28, T:0.45
Consensus pattern (29 bp):
TGGCCTTTTTTGGTTTTAGAGGAAAAGGA
Found at i:17703 original size:33 final size:33
Alignment explanation
Indices: 17627--17845 Score: 210
Period size: 33 Copynumber: 6.7 Consensus size: 33
17617 CCAATGGTCC
* * *
17627 GGGATTGCCGATGGTGACCGA-GACACCCGTCT
1 GGGATTACCGATGGTGACCGAGGCCACCCGCCT
* * *
17659 TGGTTTACCGATGGTGACCAAGGCCACCCGCCT
1 GGGATTACCGATGGTGACCGAGGCCACCCGCCT
* * * *
17692 GGGATTGCCGATGGTGACC-AAGACACCCGTCT
1 GGGATTACCGATGGTGACCGAGGCCACCCGCCT
** *
17724 GGCTTTACTGATGGTGACCGAGGCCACCCGCCT
1 GGGATTACCGATGGTGACCGAGGCCACCCGCCT
** ** * * * *
17757 TAGATTGTCGATGGTGATCGA-GACTCCCGTCT
1 GGGATTACCGATGGTGACCGAGGCCACCCGCCT
*
17789 GGGTTTACCGATGGTGACCGAGGCCACCCGCCT
1 GGGATTACCGATGGTGACCGAGGCCACCCGCCT
*
17822 AGGATTACCGATGGTGACCGAGGC
1 GGGATTACCGATGGTGACCGAGGC
17846 TTACGCATAC
Statistics
Matches: 143, Mismatches: 41, Indels: 5
0.76 0.22 0.03
Matches are distributed among these distances:
32 65 0.45
33 78 0.55
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.21
Consensus pattern (33 bp):
GGGATTACCGATGGTGACCGAGGCCACCCGCCT
Found at i:17731 original size:65 final size:64
Alignment explanation
Indices: 17627--17843 Score: 317
Period size: 65 Copynumber: 3.3 Consensus size: 64
17617 CCAATGGTCC
*
17627 GGGATTGCCGATGGTGACCGAGACACCCGTCTTGGTTTACCGATGGTGACCAAGGCCACCCGCCT
1 GGGATTGCCGATGGTGACCGAGACACCCGTC-TGGTTTACCGATGGTGACCGAGGCCACCCGCCT
* *
17692 GGGATTGCCGATGGTGACCAAGACACCCGTCTGGCTTTACTGATGGTGACCGAGGCCACCCGCCT
1 GGGATTGCCGATGGTGACCGAGACACCCGTCTGG-TTTACCGATGGTGACCGAGGCCACCCGCCT
** * * *
17757 TAGATTGTCGATGGTGATCGAGACTCCCGTCTGGGTTTACCGATGGTGACCGAGGCCACCCGCCT
1 GGGATTGCCGATGGTGACCGAGACACCCGTCT-GGTTTACCGATGGTGACCGAGGCCACCCGCCT
* *
17822 AGGATTACCGATGGTGACCGAG
1 GGGATTGCCGATGGTGACCGAG
17844 GCTTACGCAT
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
64 3 0.02
65 130 0.96
66 2 0.01
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (64 bp):
GGGATTGCCGATGGTGACCGAGACACCCGTCTGGTTTACCGATGGTGACCGAGGCCACCCGCCT
Found at i:20173 original size:29 final size:29
Alignment explanation
Indices: 20106--20173 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
20096 GGTGAGGTGT
* *
20106 GTGGCCTTTGTTGGTTTTAGAGGAAATGA
1 GTGGCCTTTTTTAGTTTTAGAGGAAATGA
* *
20135 GTGGCTTTTTTTAGTTTTAGAGG-AATGG
1 GTGGCCTTTTTTAGTTTTAGAGGAAATGA
20163 GATGGCCTTTT
1 G-TGGCCTTTT
20174 AATATGGGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.18, C:0.07, G:0.32, T:0.43
Consensus pattern (29 bp):
GTGGCCTTTTTTAGTTTTAGAGGAAATGA
Found at i:21613 original size:33 final size:33
Alignment explanation
Indices: 21576--21686 Score: 118
Period size: 33 Copynumber: 3.4 Consensus size: 33
21566 TGGGGTTCCC
21576 GATGGTGACCGAGGACACCCACCTGGGATTGCA
1 GATGGTGACCGAGGACACCCACCTGGGATTGCA
** * * *
21609 GATGGTG-CCGA-GACACCCGTCTGGGTTTACC
1 GATGGTGACCGAGGACACCCACCTGGGATTGCA
* * **
21640 GATGGTGACCGAGGCCATCCACCTGGGATTGTT
1 GATGGTGACCGAGGACACCCACCTGGGATTGCA
*
21673 GACGGTGACCGAGG
1 GATGGTGACCGAGG
21687 CTCACGCACA
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
31 22 0.35
32 8 0.13
33 32 0.52
ACGTcount: A:0.20, C:0.26, G:0.35, T:0.19
Consensus pattern (33 bp):
GATGGTGACCGAGGACACCCACCTGGGATTGCA
Found at i:21633 original size:31 final size:32
Alignment explanation
Indices: 21576--21669 Score: 100
Period size: 31 Copynumber: 2.9 Consensus size: 32
21566 TGGGGTTCCC
*
21576 GATGGTGACCGAGGACACCCACCTGGGATTGCA
1 GATGGTGACCGA-GACACCCACCTGGGATTACA
** * *
21609 GATGGTG-CCGAGACACCCGTCTGGGTTTACC
1 GATGGTGACCGAGACACCCACCTGGGATTACA
* *
21640 GATGGTGACCGAGGCCATCCACCTGGGATT
1 GATGGTGACCGA-GACACCCACCTGGGATT
21670 GTTGACGGTG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
31 22 0.45
32 8 0.16
33 19 0.39
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.19
Consensus pattern (32 bp):
GATGGTGACCGAGACACCCACCTGGGATTACA
Found at i:28603 original size:29 final size:28
Alignment explanation
Indices: 28543--28605 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
28533 GTGGGGTGTG
*
28543 TGGCCTTTTTTGGTTTAGAGGAAATGGG
1 TGGCCTTTTTTGGTTTAGAGGAAATGGA
28571 TGGCCTTTTTTGGTTTTAGAGGAAAAT-GA
1 TGGCCTTTTTTGG-TTTAGAGG-AAATGGA
28600 TGGCCT
1 TGGCCT
28606 CTTTGAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 13 0.41
29 15 0.47
30 4 0.12
ACGTcount: A:0.19, C:0.10, G:0.32, T:0.40
Consensus pattern (28 bp):
TGGCCTTTTTTGGTTTAGAGGAAATGGA
Found at i:28615 original size:29 final size:29
Alignment explanation
Indices: 28543--28615 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
28533 GTGGGGTGTG
* *
28543 TGGCCTTTTTTGG-TTTAGAGGAAATGGG
1 TGGCCTTCTTTGGTTTTAGAGGAAATGGA
*
28571 TGGCCTTTTTTGGTTTTAGAGGAAAAT-GA
1 TGGCCTTCTTTGGTTTTAGAGG-AAATGGA
28600 TGGCC-TCTTTGAGTTT
1 TGGCCTTCTTTG-GTTT
28616 GAGTGGAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 18 0.45
29 18 0.45
30 4 0.10
ACGTcount: A:0.18, C:0.10, G:0.30, T:0.42
Consensus pattern (29 bp):
TGGCCTTCTTTGGTTTTAGAGGAAATGGA
Found at i:29852 original size:32 final size:32
Alignment explanation
Indices: 29815--29994 Score: 191
Period size: 32 Copynumber: 5.6 Consensus size: 32
29805 TGGTCCGGGG
*
29815 TTACCGATGGTGATCGAGACACCCGGCTGGGT
1 TTACCGATGGTGACCGAGACACCCGGCTGGGT
* * *
29847 TTACCGATGGTGACCGAGGCCACCC-GCTTGAGA
1 TTACCGATGGTGACCGA-GACACCCGGC-TGGGT
* *
29880 TTACCGATGGTGATCGAGACACCCGTCTGGGT
1 TTACCGATGGTGACCGAGACACCCGGCTGGGT
* **
29912 TTACCGATGGTGACCGAGATACCCGTATGGGT
1 TTACCGATGGTGACCGAGACACCCGGCTGGGT
* * * * *
29944 TTGCCGATGGTGACCGAGGCTACCTGCCTGGGA
1 TTACCGATGGTGACCGAGAC-ACCCGGCTGGGT
*
29977 TTACCGATGGTGATCGAG
1 TTACCGATGGTGACCGAG
29995 GCTCACGTAC
Statistics
Matches: 123, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
32 73 0.59
33 50 0.41
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.23
Consensus pattern (32 bp):
TTACCGATGGTGACCGAGACACCCGGCTGGGT
Found at i:29891 original size:65 final size:65
Alignment explanation
Indices: 29815--29996 Score: 224
Period size: 65 Copynumber: 2.8 Consensus size: 65
29805 TGGTCCGGGG
*
29815 TTACCGATGGTGATCGAGACACCCGGCTGGGTTTACCGATGGTGACCGAGGCCACCCGCT-TGAG
1 TTACCGATGGTGATCGAGACACCCGCCTGGGTTTACCGATGGTGACCGAGGCCACCCG-TATGAG
29879 A
65 A
* ** * *
29880 TTACCGATGGTGATCGAGACACCCGTCTGGGTTTACCGATGGTGACCGA-GATACCCGTATGGGT
1 TTACCGATGGTGATCGAGACACCCGCCTGGGTTTACCGATGGTGACCGAGGCCACCCGTATGAGA
* * * * * *
29944 TTGCCGATGGTGACCGAGGCTACCTGCCTGGGATTACCGATGGTGATCGAGGC
1 TTACCGATGGTGATCGAGAC-ACCCGCCTGGGTTTACCGATGGTGACCGAGGC
29997 TCACGTACAC
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
63 1 0.01
64 26 0.26
65 73 0.72
66 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.23
Consensus pattern (65 bp):
TTACCGATGGTGATCGAGACACCCGCCTGGGTTTACCGATGGTGACCGAGGCCACCCGTATGAGA
Found at i:29981 original size:97 final size:97
Alignment explanation
Indices: 29815--29994 Score: 279
Period size: 97 Copynumber: 1.9 Consensus size: 97
29805 TGGTCCGGGG
* * *
29815 TTACCGATGGTGATCGAGACACCCGGCTGGGTTTACCGATGGTGACCGAGGCCACCCGCTTGAGA
1 TTACCGATGGTGACCGAGACACCCGGATGGGTTTACCGATGGTGACCGAGGCCACCCGCCTGAGA
29880 TTACCGATGGTGATCGAGACACCCGTCTGGGT
66 TTACCGATGGTGATCGAGACACCCGTCTGGGT
* * * * * *
29912 TTACCGATGGTGACCGAGATACCCGTATGGGTTTGCCGATGGTGACCGAGGCTACCTGCCTGGGA
1 TTACCGATGGTGACCGAGACACCCGGATGGGTTTACCGATGGTGACCGAGGCCACCCGCCTGAGA
29977 TTACCGATGGTGATCGAG
66 TTACCGATGGTGATCGAG
29995 GCTCACGTAC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 74 1.00
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.23
Consensus pattern (97 bp):
TTACCGATGGTGACCGAGACACCCGGATGGGTTTACCGATGGTGACCGAGGCCACCCGCCTGAGA
TTACCGATGGTGATCGAGACACCCGTCTGGGT
Found at i:37030 original size:28 final size:29
Alignment explanation
Indices: 36969--37035 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
36959 GGTGGGGTGT
*
36969 GTGGCCTTTTTTGGTTTTATAGGAAAGGG
1 GTGGCCTTTTTTGGGTTTATAGGAAAGGG
* *
36998 GTGGCCTTTTTTGGGTTTA-AGGGAATGG
1 GTGGCCTTTTTTGGGTTTATAGGAAAGGG
*
37026 TTGGCCTTTT
1 GTGGCCTTTT
37036 ATTACGGGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 16 0.47
29 18 0.53
ACGTcount: A:0.13, C:0.09, G:0.34, T:0.43
Consensus pattern (29 bp):
GTGGCCTTTTTTGGGTTTATAGGAAAGGG
Found at i:38535 original size:106 final size:106
Alignment explanation
Indices: 38404--38614 Score: 341
Period size: 106 Copynumber: 2.0 Consensus size: 106
38394 GGTGACCGAG
* * * * * *
38404 GCTCTCGCACCAATGGTCTGGGGTTGCCGATGGTGATCGAGACACCCGTCTGGGTTTGCCGATGG
1 GCTCCCGCACCAATGGTCTGAGGTTGCCGATGGTGACCGAGACACCAGTCTGGGTTTGCCAAAGG
*
38469 TGACCGAGGCCACTCGCTTGGGATTACCGATGGCGACTGAC
66 TGACCGAGGCCACTCGCCTGGGATTACCGATGGCGACTGAC
38510 GCTCCCGCACCAATGGTCTGAGGTTGCCGATGGTGACCGAGACACCAGTCTGGGTTTGCCAAAGG
1 GCTCCCGCACCAATGGTCTGAGGTTGCCGATGGTGACCGAGACACCAGTCTGGGTTTGCCAAAGG
* *
38575 TGACCGAGGCCACTCGCCTGGGATTACTGATGGTGACTGA
66 TGACCGAGGCCACTCGCCTGGGATTACCGATGGCGACTGA
38615 GACACCCGTA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (106 bp):
GCTCCCGCACCAATGGTCTGAGGTTGCCGATGGTGACCGAGACACCAGTCTGGGTTTGCCAAAGG
TGACCGAGGCCACTCGCCTGGGATTACCGATGGCGACTGAC
Found at i:38610 original size:33 final size:33
Alignment explanation
Indices: 38573--38682 Score: 89
Period size: 33 Copynumber: 3.4 Consensus size: 33
38563 GTTTGCCAAA
* *
38573 GGTGACCGAGGCCACTCGCCTGGGATTACTGAT
1 GGTGACCGAGGCCACCCGCATGGGATTACTGAT
* * * * * *
38606 GGTGACTGA-GACACCCGTATGGGTTTCCCGAT
1 GGTGACCGAGGCCACCCGCATGGGATTACTGAT
* * *
38638 GGTGACCAAGGTCACCCGCTTGGGATTA-TCGAT
1 GGTGACCGAGGCCACCCGCATGGGATTACT-GAT
*
38671 GGTGATCGAGGC
1 GGTGACCGAGGC
38683 TTACGCACAT
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
32 23 0.41
33 33 0.59
ACGTcount: A:0.19, C:0.25, G:0.34, T:0.23
Consensus pattern (33 bp):
GGTGACCGAGGCCACCCGCATGGGATTACTGAT
Found at i:38642 original size:65 final size:65
Alignment explanation
Indices: 38537--38680 Score: 173
Period size: 65 Copynumber: 2.2 Consensus size: 65
38527 CTGAGGTTGC
* * * *
38537 CGATGGTGACCGAGACACCAGTCTGGGTTTGCCAAAGGTGACCGAGGCCACTCGCCTGGGATTA-
1 CGATGGTGACCGAGACACCAGTATGGGTTTCCCAAAGGTGACCAAGGCCACCCGCCTGGGATTAT
* * * * * *
38601 CTGATGGTGACTGAGACACCCGTATGGGTTTCCCGATGGTGACCAAGGTCACCCGCTTGGGATTA
1 C-GATGGTGACCGAGACACCAGTATGGGTTTCCCAAAGGTGACCAAGGCCACCCGCCTGGGATTA
38666 T
65 T
*
38667 CGATGGTGATCGAG
1 CGATGGTGACCGAG
38681 GCTTACGCAC
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
64 1 0.02
65 64 0.97
66 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.22
Consensus pattern (65 bp):
CGATGGTGACCGAGACACCAGTATGGGTTTCCCAAAGGTGACCAAGGCCACCCGCCTGGGATTAT
Found at i:52430 original size:29 final size:29
Alignment explanation
Indices: 52397--52493 Score: 158
Period size: 29 Copynumber: 3.3 Consensus size: 29
52387 GGTGGGGTGT
*
52397 GTGGCCTTTTTTAGTTTTTGAGGAAAGGG
1 GTGGCCTTTTTTAGTTTTAGAGGAAAGGG
*
52426 GTGGCCTTTTTTGGTTTTAGAGGAAAGGG
1 GTGGCCTTTTTTAGTTTTAGAGGAAAGGG
*
52455 GTGGCCTTTTTTAGATTTAGAGGAAAGGG
1 GTGGCCTTTTTTAGTTTTAGAGGAAAGGG
*
52484 ATGGCCTTTT
1 GTGGCCTTTT
52494 ATTCCGGGGG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.19, C:0.08, G:0.34, T:0.39
Consensus pattern (29 bp):
GTGGCCTTTTTTAGTTTTAGAGGAAAGGG
Found at i:65051 original size:21 final size:21
Alignment explanation
Indices: 64971--65097 Score: 150
Period size: 21 Copynumber: 6.1 Consensus size: 21
64961 TTAGTGCAGA
*
64971 GGGAATCGATACCCCCGTGAAG
1 GGGAATCGATACCCCC-TGTAG
* * * * *
64993 AGGAACCGATTCCTCATGTAG
1 GGGAATCGATACCCCCTGTAG
* * *
65014 AGGAACCGAT-TCCCCTGTAG
1 GGGAATCGATACCCCCTGTAG
65034 GGGAATCGATACCCCCTGTAG
1 GGGAATCGATACCCCCTGTAG
65055 GGGAATCGATACCCCCTGTAG
1 GGGAATCGATACCCCCTGTAG
65076 GGGAATCGATACCCCCTG-AG
1 GGGAATCGATACCCCCTGTAG
65096 GG
1 GG
65098 TTCTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
20 19 0.21
21 62 0.67
22 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.18
Consensus pattern (21 bp):
GGGAATCGATACCCCCTGTAG
Found at i:66040 original size:29 final size:29
Alignment explanation
Indices: 66002--66068 Score: 109
Period size: 28 Copynumber: 2.3 Consensus size: 29
65992 GGTGGGTTGT
66002 GTGGCCTTTTTTGGTTTTAGAGGAAA-GG
1 GTGGCCTTTTTTGGTTTTAGAGGAAATGG
*
66030 GTGGCCTTTTTTGGTTTTAGATGAAATGG
1 GTGGCCTTTTTTGGTTTTAGAGGAAATGG
*
66059 ATGGCCTTTT
1 GTGGCCTTTT
66069 ATACCTGGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 25 0.69
29 11 0.31
ACGTcount: A:0.16, C:0.09, G:0.31, T:0.43
Consensus pattern (29 bp):
GTGGCCTTTTTTGGTTTTAGAGGAAATGG
Found at i:67510 original size:40 final size:40
Alignment explanation
Indices: 67418--67519 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
67408 CCCATGGCCT
* *
67418 GGGGTTGCCGATAGTGACTGAGGCTCCCACACCAATGGTC
1 GGGGTTGCCGATGGTGACCGAGGCTCCCACACCAATGGTC
* *
67458 GGGGTTACCGATGGTGACCGAGGCT-CCGCACCAATGGTCC
1 GGGGTTGCCGATGGTGACCGAGGCTCCCACACCAATGGT-C
* *
67498 GGGGTTGCCGATGATAACCGAG
1 GGGGTTGCCGATGGTGACCGAG
67520 ACACCTGTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 12 0.22
40 42 0.78
ACGTcount: A:0.20, C:0.26, G:0.35, T:0.19
Consensus pattern (40 bp):
GGGGTTGCCGATGGTGACCGAGGCTCCCACACCAATGGTC
Found at i:67735 original size:32 final size:31
Alignment explanation
Indices: 67632--67754 Score: 113
Period size: 32 Copynumber: 3.8 Consensus size: 31
67622 CGCACCAATA
*
67632 GTCTGGGGTTGTTGATGGTGACCGAGACACCC
1 GTCT-GGGTTGTCGATGGTGACCGAGACACCC
* * * *
67664 GTCTAGGTT-TACCGATGGTTACTGAGGCCACCC
1 GTCTGGGTTGT--CGATGGTGACCGA-GACACCC
**
67697 ACCTGGGATTGTCGATGGTGACCGAGACACCC
1 GTCTGGG-TTGTCGATGGTGACCGAGACACCC
*
67729 GTCTGGGTTTTCCGATGGTGACCGAG
1 GTCTGGGTTGT-CGATGGTGACCGAG
67755 GCTACCTGCT
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
30 1 0.01
31 7 0.10
32 39 0.55
33 21 0.30
34 2 0.03
35 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.25
Consensus pattern (31 bp):
GTCTGGGTTGTCGATGGTGACCGAGACACCC
Found at i:67757 original size:138 final size:138
Alignment explanation
Indices: 67465--67757 Score: 315
Period size: 138 Copynumber: 2.1 Consensus size: 138
67455 GTCGGGGTTA
* *
67465 CCGATGGTGACCGAGGCTCCGCACCAATGGTCCGGGGTTGCCGATGATAACCGAGACACCTGTCT
1 CCGATGGTGACCGAGGCTCCGCACCAATAGTCCGGGGTTGCCGATGATAACCGAGACACCCGTCT
* * * * *
67530 GAGTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTACCGATGGTGACTGAGGTTCACTCAC
66 GAGTTTACCAATGGTGACCGAGGCCACCCACCTGGGATTACCGATGGTGACCGAGGTACACCCAC
67595 ACGGTTGT
131 ACGGTTGT
* * * * ** * *
67603 -CGAAGGTGGCCCAGGCTCCCGCACCAATAGTCTGGGGTTGTTGATGGTGACCGAGACACCCGTC
1 CCGATGGTGACCGAGGCT-CCGCACCAATAGTCCGGGGTTGCCGATGATAACCGAGACACCCGTC
* * * **
67667 T-AGGTTTACCGATGGTTACTGAGGCCACCCACCTGGGATTGTCGATGGTGACCGA-G-ACACCC
65 TGA-GTTTACCAATGGTGACCGAGGCCACCCACCTGGGATTACCGATGGTGACCGAGGTACACCC
* ** *
67729 GTCTGGGTTTT
129 -ACACGGTTGT
67740 CCGATGGTGACCGAGGCT
1 CCGATGGTGACCGAGGCT
67758 ACCTGCTTGG
Statistics
Matches: 124, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
136 4 0.03
137 22 0.18
138 98 0.79
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.22
Consensus pattern (138 bp):
CCGATGGTGACCGAGGCTCCGCACCAATAGTCCGGGGTTGCCGATGATAACCGAGACACCCGTCT
GAGTTTACCAATGGTGACCGAGGCCACCCACCTGGGATTACCGATGGTGACCGAGGTACACCCAC
ACGGTTGT
Found at i:67772 original size:65 final size:65
Alignment explanation
Indices: 67634--67756 Score: 192
Period size: 65 Copynumber: 1.9 Consensus size: 65
67624 CACCAATAGT
* * * *
67634 CTGGGGTTGTTGATGGTGACCGAGACACCCGTCTAGGTTTACCGATGGTTACTGAGGCCACCCAC
1 CTGGGATTGTCGATGGTGACCGAGACACCCGTCTAGGTTTACCGATGGTGACCGAGGCCACCCAC
* *
67699 CTGGGATTGTCGATGGTGACCGAGACACCCGTCTGGGTTTTCCGATGGTGACCGAGGC
1 CTGGGATTGTCGATGGTGACCGAGACACCCGTCTAGGTTTACCGATGGTGACCGAGGC
67757 TACCTGCTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.24
Consensus pattern (65 bp):
CTGGGATTGTCGATGGTGACCGAGACACCCGTCTAGGTTTACCGATGGTGACCGAGGCCACCCAC
Found at i:67778 original size:65 final size:65
Alignment explanation
Indices: 67645--67778 Score: 187
Period size: 65 Copynumber: 2.1 Consensus size: 65
67635 TGGGGTTGTT
* * *
67645 GATGGTGACCGAGACACCCGTCTAGGTTTACCGATGGTTACTGAGGCCACCCACCTGGGATTGTC
1 GATGGTGACCGAGACACCCGTCTAGGTTTACCGATGGTGACCGAGGCCACCCACCTGGGATTGCC
* * * ** *
67710 GATGGTGACCGAGACACCCGTCTGGGTTTTCCGATGGTGACCGAGGCTACCTGCTTGGGATTGCC
1 GATGGTGACCGAGACACCCGTCTAGGTTTACCGATGGTGACCGAGGCCACCCACCTGGGATTGCC
67775 GATG
1 GATG
67779 TTAACCGAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (65 bp):
GATGGTGACCGAGACACCCGTCTAGGTTTACCGATGGTGACCGAGGCCACCCACCTGGGATTGCC
Found at i:75864 original size:33 final size:33
Alignment explanation
Indices: 75802--76120 Score: 209
Period size: 33 Copynumber: 9.5 Consensus size: 33
75792 TGGTCCGGGG
* *
75802 TTGCCGAAGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGTCTGGGT
* * *
75834 TTGCTGATGGTGACCGAGGCCACCCATCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGTCTGGGT
* * * *
75867 TTGCCAATGGTGACCGA-GACAACCGTCTGTGT
1 TTGCCGATGGTGACCGAGGCCACCCGTCTGGGT
* * * *
75899 TTGTCAATTGTGACCGAGGCTCCCGTACCAATGGTCTGAGGT
1 TTGCCGATGGTGACCGAGG---CC--ACC---CGTCTG-GGT
* *
75941 TAT--CGATGGTGTCCGA-GACACCCGTCTGGGT
1 T-TGCCGATGGTGACCGAGGCCACCCGTCTGGGT
* * * *
75972 TTGTCGATGGTGACCGAGGCCACTCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGTCTGGGT
* * * *
76005 TTACCGATGGTGACCGAGGCCACTCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGTCTGGGT
** * *
76038 TTAACGATGGTGACCGA-GACACCCGTCAGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGTCTGGGT
* * * *
76070 TTGCCAATGGTGTCCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGTCTGGGT
* *
76103 TTACCGATAGTGACCGAG
1 TTGCCGATGGTGACCGAG
76121 ACTCACACAC
Statistics
Matches: 223, Mismatches: 48, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
30 1 0.00
31 4 0.02
32 80 0.36
33 111 0.50
35 3 0.01
36 1 0.00
37 1 0.00
38 2 0.01
40 1 0.00
41 15 0.07
42 3 0.01
43 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.32, T:0.22
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGTCTGGGT
Found at i:75989 original size:138 final size:138
Alignment explanation
Indices: 75770--76022 Score: 382
Period size: 138 Copynumber: 1.8 Consensus size: 138
75760 GTTACCGATG
* *
75770 GTGACCAAGGCTCCCGTACCAATGGTCCGGGGTTGCCGAAGGTGACCGAGACACCCGTCTGGGTT
1 GTGACCAAGGCTCCCGTACCAATGGTCCGAGGTTACCGAAGGTGACCGAGACACCCGTCTGGGTT
* *
75835 TGCTGATGGTGACCGAGGCCACCCATCTGGGATTGCCAATGGTGACCGAGACAACCGTCTGTGTT
66 TGCTGATGGTGACCGAGGCCACCCACCTGGGATTACCAATGGTGACCGAGACAACCGTCTGTGTT
75900 TGTCAATT
131 TGTCAATT
* * * * *
75908 GTGACCGAGGCTCCCGTACCAATGGTCTGAGGTTATCGATGGTGTCCGAGACACCCGTCTGGGTT
1 GTGACCAAGGCTCCCGTACCAATGGTCCGAGGTTACCGAAGGTGACCGAGACACCCGTCTGGGTT
* * *
75973 TG-TCGATGGTGACCGAGGCCACTCGCCTGGGATTACCGATGGTGACCGAG
66 TGCT-GATGGTGACCGAGGCCACCCACCTGGGATTACCAATGGTGACCGAG
76023 GCCACTCGCC
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
137 1 0.01
138 101 0.99
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (138 bp):
GTGACCAAGGCTCCCGTACCAATGGTCCGAGGTTACCGAAGGTGACCGAGACACCCGTCTGGGTT
TGCTGATGGTGACCGAGGCCACCCACCTGGGATTACCAATGGTGACCGAGACAACCGTCTGTGTT
TGTCAATT
Found at i:76070 original size:98 final size:98
Alignment explanation
Indices: 75944--76120 Score: 291
Period size: 98 Copynumber: 1.8 Consensus size: 98
75934 CTGAGGTTAT
* * * * *
75944 CGATGGTGTCCGAGACACCCGTCTGGGTTTGTCGATGGTGACCGAGGCCACTCGCCTGGGATTAC
1 CGATGGTGACCGAGACACCCGTCAGGGTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTAC
*
76009 CGATGGTGACCGAGGCCACTCGCCTGGGATTAA
66 CGATAGTGACCGAGGCCACTCGCCTGGGATTAA
*
76042 CGATGGTGACCGAGACACCCGTCAGGGTTTGCCAATGGTGTCCGAGGCCACCCGCCTGGGATTAC
1 CGATGGTGACCGAGACACCCGTCAGGGTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTAC
76107 CGATAGTGACCGAG
66 CGATAGTGACCGAG
76121 ACTCACACAC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 72 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (98 bp):
CGATGGTGACCGAGACACCCGTCAGGGTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTAC
CGATAGTGACCGAGGCCACTCGCCTGGGATTAA
Found at i:76098 original size:65 final size:65
Alignment explanation
Indices: 75946--76122 Score: 194
Period size: 65 Copynumber: 2.7 Consensus size: 65
75936 GAGGTTATCG
* * * ** * * *
75946 ATGGTGTCCGA-GACACCCGTCTGGGTTTGTCGATGGTGACCGAGGCCACTCGCCTGGGATTACC
1 ATGGTGTCCGAGGCCACCCGCCTGGGATTAACGATGGTGACCGA-GACACCCGCCAGGGATTACC
*
76010 G
65 A
* * * * *
76011 ATGGTGACCGAGGCCACTCGCCTGGGATTAACGATGGTGACCGAGACACCCGTCAGGGTTTGCCA
1 ATGGTGTCCGAGGCCACCCGCCTGGGATTAACGATGGTGACCGAGACACCCGCCAGGGATTACCA
* *
76076 ATGGTGTCCGAGGCCACCCGCCTGGGATTACCGATAGTGACCGAGAC
1 ATGGTGTCCGAGGCCACCCGCCTGGGATTAACGATGGTGACCGAGAC
76123 TCACACACAT
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
65 67 0.72
66 26 0.28
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (65 bp):
ATGGTGTCCGAGGCCACCCGCCTGGGATTAACGATGGTGACCGAGACACCCGCCAGGGATTACCA
Found at i:83616 original size:44 final size:45
Alignment explanation
Indices: 83552--83639 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 45
83542 TGCGAAGGTT
* *
83552 TTTTTTGTGTGGGGGTGTGGCCTTTTTTTGGGTTAGAGGAAAGGA
1 TTTTTTGTGCGGGGGTGTGGCCTTTTTCTGGGTTAGAGGAAAGGA
*
83597 TTTTTT-TGCGGGGGTGTGGCCTTTTTCTGGGTTATAGGAAAGG
1 TTTTTTGTGCGGGGGTGTGGCCTTTTTCTGGGTTAGAGGAAAGG
83640 GTCGGCCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.85
45 6 0.15
ACGTcount: A:0.12, C:0.07, G:0.39, T:0.42
Consensus pattern (45 bp):
TTTTTTGTGCGGGGGTGTGGCCTTTTTCTGGGTTAGAGGAAAGGA
Found at i:84947 original size:95 final size:95
Alignment explanation
Indices: 84847--85090 Score: 244
Period size: 95 Copynumber: 2.6 Consensus size: 95
84837 GATTGTAACC
* * * * * *
84847 GAGGCTCCCACATCCAATGATCG-TCTATCTGTGGCACTCCCGCACTAATGGCCTGGGGTTGCCA
1 GAGGCTCCCACATCCAACGATCGAT-TATCTGTGGCACTCCCGAACCAATGGCCTAGAGTTACCA
*
84911 AGGAACCCATCGGGGGTTGCTGATGGTGACT
65 AGGAACCCATCGAGGGTTGCTGATGGTGACT
** * *
84942 GAGGCTCCTGCATCCAACGATCGATTATGTGTGGCACTCCCGAACCAATGGCCTAGAGTTACCGA
1 GAGGCTCCCACATCCAACGATCGATTATCTGTGGCACTCCCGAACCAATGGCCTAGAGTTACCAA
** *
85007 GGAACCCATCGAGGGTTGCCAATGATGAAC-
66 GGAACCCATCGAGGGTTGCTGATGGTG-ACT
* * * * * *
85037 GATGCTCCCACACCCAACGCTC-ATT-TATGTGCGACAATCCCGTACCAATGGCCT
1 GAGGCTCCCACATCCAACGATCGATTATCTGTG-G-CACTCCCGAACCAATGGCCT
85091 GGGCTTGTCG
Statistics
Matches: 123, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
93 5 0.04
94 4 0.03
95 111 0.90
96 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (95 bp):
GAGGCTCCCACATCCAACGATCGATTATCTGTGGCACTCCCGAACCAATGGCCTAGAGTTACCAA
GGAACCCATCGAGGGTTGCTGATGGTGACT
Found at i:92346 original size:20 final size:20
Alignment explanation
Indices: 92321--92360 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
92311 AATTTGTAAA
92321 TCGCAACAC-AGAAGTCAAAT
1 TCGCAACACGA-AAGTCAAAT
*
92341 TCGCAACGCGAAAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
92361 ATTTTTACGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAGTCAAAT
Found at i:95289 original size:61 final size:62
Alignment explanation
Indices: 95189--95324 Score: 177
Period size: 66 Copynumber: 2.2 Consensus size: 62
95179 ACATTGAAAT
*
95189 TTGATTTGTTTAATTGATGAGGAAATAAG-ATTTATTTT-TTGATTAATTGATTTGTAAAAG
1 TTGATTTGTTTAATTGATGAGGAAATAAGAATTAATTTTCTTGATTAATTGATTTGTAAAAG
* * *
95249 TTGATTTGTTTAATTTGATGTGTAAATAAGAATTAATTTTTTGCTTGTTTAATTGATTTGTAAAA
1 TTGATTTGTTTAA-TTGATGAGGAAATAAGAATTAA--TTTT-CTTGATTAATTGATTTGTAAAA
95314 G
62 G
*
95315 TTCATTTGTT
1 TTGATTTGTT
95325 GTTTCTAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
60 13 0.20
61 14 0.22
62 4 0.06
64 4 0.06
66 30 0.46
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.51
Consensus pattern (62 bp):
TTGATTTGTTTAATTGATGAGGAAATAAGAATTAATTTTCTTGATTAATTGATTTGTAAAAG
Found at i:95432 original size:20 final size:20
Alignment explanation
Indices: 95409--95453 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
95399 AATAAGCGTT
*
95409 GCGATAGTGAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
*
95429 GCGAAAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
95449 GCGAT
1 GCGAT
95454 TTTTCGGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCAAC
Found at i:95716 original size:39 final size:39
Alignment explanation
Indices: 95660--95746 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
95650 TCAAGTTGTA
95660 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
* *
95699 GATTTTGATTTCTTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
95738 GATTTTGAT
1 GATTTTGAT
95747 GAGCATCAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:96560 original size:20 final size:20
Alignment explanation
Indices: 96535--96583 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
96525 CGGTTTGTGA
**
96535 TTTCGCGTTATGAATTTGAC
1 TTTCGCGTTACAAATTTGAC
*
96555 TTTCGCGTTGCAAATTTGAC
1 TTTCGCGTTACAAATTTGAC
96575 TTTCGCGTT
1 TTTCGCGTT
96584 GATCGCAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.45
Consensus pattern (20 bp):
TTTCGCGTTACAAATTTGAC
Found at i:96584 original size:20 final size:20
Alignment explanation
Indices: 96547--96584 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
96537 TCGCGTTATG
96547 AATTTGACTTTCGCGTTGCA
1 AATTTGACTTTCGCGTTGCA
96567 AATTTGACTTTCGCGTTG
1 AATTTGACTTTCGCGTTG
96585 ATCGCAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGCA
Found at i:96882 original size:18 final size:18
Alignment explanation
Indices: 96859--96894 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
96849 AAGTCGGTTG
*
96859 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
96877 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
96895 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:99821 original size:16 final size:15
Alignment explanation
Indices: 99799--99837 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
99789 GAAATCATTG
99799 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
99815 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
99830 AAAAATTA
1 AAAAATTA
99838 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:100041 original size:20 final size:20
Alignment explanation
Indices: 100009--100151 Score: 216
Period size: 20 Copynumber: 7.2 Consensus size: 20
99999 GAAATTAAAT
*
100009 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTA
* * *
100029 TTGTGTTGTGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
100049 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
100069 TCGCGTTGCGAATTTGACT-
1 TCGCGTTGCGAATTTGACTA
* *
100088 TTGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
*
100108 TCGAGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
100128 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
100148 TCGC
1 TCGC
100152 ATTGTGATTC
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
19 17 0.15
20 93 0.85
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTA
Found at i:100060 original size:59 final size:60
Alignment explanation
Indices: 100009--100146 Score: 251
Period size: 59 Copynumber: 2.3 Consensus size: 60
99999 GAAATTAAAT
* *
100009 TCGCGTTGCGAATTTGACTTTTGTGTTGTGAATTTGACTATCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGAGTTGCGAATTTGACTA
100069 TCGCGTTGCGAATTTGAC-TTTGTGTTGCGAATTTGACTATCGAGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGAGTTGCGAATTTGACTA
100128 TCGCGTTGCGAATTTGACT
1 TCGCGTTGCGAATTTGACT
100147 ATCGCATTGT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
59 57 0.76
60 18 0.24
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.40
Consensus pattern (60 bp):
TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGAGTTGCGAATTTGACTA
Found at i:102272 original size:16 final size:16
Alignment explanation
Indices: 102248--102290 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
102238 TTTGAAAATA
* *
102248 TGTTGTAAACAATTAT
1 TGTTTTAAACAATTAC
102264 TGTTTTAAAAACAATTAC
1 TGTTTT--AAACAATTAC
102282 TGTTTTAAA
1 TGTTTTAAA
102291 AAGATTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
18 15 0.65
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (16 bp):
TGTTTTAAACAATTAC
Found at i:102277 original size:18 final size:18
Alignment explanation
Indices: 102254--102292 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
102244 AATATGTTGT
*
102254 AAACAATTATTGTTTTAA
1 AAACAATTACTGTTTTAA
102272 AAACAATTACTGTTTTAA
1 AAACAATTACTGTTTTAA
102290 AAA
1 AAA
102293 GATTTTCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (18 bp):
AAACAATTACTGTTTTAA
Found at i:104182 original size:9 final size:9
Alignment explanation
Indices: 104154--104191 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
104144 GCTGACAGAA
104154 CTGATCGAG
1 CTGATCGAG
*
104163 CCGATCGAG
1 CTGATCGAG
104172 CTGATCGAG
1 CTGATCGAG
*
104181 CTGACCGAG
1 CTGATCGAG
104190 CT
1 CT
104192 TTTTGACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.21, C:0.29, G:0.32, T:0.18
Consensus pattern (9 bp):
CTGATCGAG
Found at i:104211 original size:31 final size:31
Alignment explanation
Indices: 104174--104252 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
104164 CGATCGAGCT
** *
104174 GATCGAGCTGACCGAGCTTTTTGACCAAGCC
1 GATCGAGCTGACCGAGCAATTTAACCAAGCC
* *
104205 GATCGAGCTGACTGAGCAATTTAACCGAGCC
1 GATCGAGCTGACCGAGCAATTTAACCAAGCC
104236 GA-CAGAGCTGACCGAGC
1 GATC-GAGCTGACCGAGC
104253 CGAGTTGATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.18
Consensus pattern (31 bp):
GATCGAGCTGACCGAGCAATTTAACCAAGCC
Found at i:106788 original size:18 final size:18
Alignment explanation
Indices: 106765--106803 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
106755 AATATGTTGT
*
106765 AAACAATTATTCTTTTAA
1 AAACAATTACTCTTTTAA
*
106783 AAACAATTACTGTTTTAA
1 AAACAATTACTCTTTTAA
106801 AAA
1 AAA
106804 GATTTACATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (18 bp):
AAACAATTACTCTTTTAA
Found at i:108740 original size:46 final size:46
Alignment explanation
Indices: 108673--108762 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
108663 CTCATAATTG
* *
108673 TTTGGGTTGTGTTCACATGCAAAAAGGTAAGGTTGTGGCCTATGCC
1 TTTGGGTTGTGTTCACATGCAAAAAGGTAAGGTTATAGCCTATGCC
* *
108719 TTTGGTTTGTGTTCTCATGCAAAAAGGTAAGGTTATAGCCTATG
1 TTTGGGTTGTGTTCACATGCAAAAAGGTAAGGTTATAGCCTATG
108763 ACTCAAGATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (46 bp):
TTTGGGTTGTGTTCACATGCAAAAAGGTAAGGTTATAGCCTATGCC
Found at i:111621 original size:15 final size:15
Alignment explanation
Indices: 111601--111629 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
111591 TTTGACCCTA
111601 AGAAAAATATTGGGG
1 AGAAAAATATTGGGG
111616 AGAAAAATATTGGG
1 AGAAAAATATTGGG
111630 ACCATTTTGT
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:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (15 bp):
AGAAAAATATTGGGG
Found at i:113621 original size:47 final size:48
Alignment explanation
Indices: 113563--113656 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
113553 ATACTTTTTG
* * *
113563 TATGATGTTTATC-GATCATTTTGTTTAATGCATAAGTTGCATTTTCA
1 TATGATATTTATCAAATCATTTTGTTTAATGCATAAGTTGCAATTTCA
* *
113610 TATGATATTTATCAAATGATTTTGTTTAATGCATATGTTGCAATTTC
1 TATGATATTTATCAAATCATTTTGTTTAATGCATAAGTTGCAATTTC
113657 GTATCAGTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 12 0.29
48 29 0.71
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.49
Consensus pattern (48 bp):
TATGATATTTATCAAATCATTTTGTTTAATGCATAAGTTGCAATTTCA
Found at i:113760 original size:53 final size:53
Alignment explanation
Indices: 113676--113791 Score: 178
Period size: 53 Copynumber: 2.2 Consensus size: 53
113666 CTATATGTAC
*
113676 TTTCGGCACTATGTGTGCACCCATGGTATTCATAACGAGTTTATGAATGACCA
1 TTTCGGCACTATGTGTGCACCCATGGAATTCATAACGAGTTTATGAATGACCA
* * * * *
113729 TTTTGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCACCCATGGAATTCATAACGAGTTTATGAATGACCA
113782 TTTCGGCACT
1 TTTCGGCACT
113792 TAGGTGTAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (53 bp):
TTTCGGCACTATGTGTGCACCCATGGAATTCATAACGAGTTTATGAATGACCA
Found at i:128445 original size:157 final size:157
Alignment explanation
Indices: 128159--128479 Score: 588
Period size: 157 Copynumber: 2.0 Consensus size: 157
128149 TTATCAGACC
* *
128159 CAGTGTTTCTCCTTGGGGGTACATGTGCTTTTTGTGAAAAAGAATGATGGATCTATGTGATAATG
1 CAGTGTTTCTCCTTGGGGGTACATGTGCTTTTAGTGAAAAAGAATGATGGATCTACGTGATAATG
128224 TATAGATTATCGACATTTAAGTAAAGTAACAACAATGAATAAGTATCCTCTTTTGAGGATTAATG
66 TATAGATTATCGACATTTAAGTAAAGTAACAACAATGAATAAGTATCCTCTTTTGAGGATTAATG
128289 ATATGTTCGATTAACTGAAAGGCGCAG
131 ATATGTTCGATTAACTGAAAGGCGCAG
* *
128316 CAGTGTTTCTCCTTGGGGGTACATGTGCTTTTAGTGAAAAAGATTGATGGATCTACGTGATTATG
1 CAGTGTTTCTCCTTGGGGGTACATGTGCTTTTAGTGAAAAAGAATGATGGATCTACGTGATAATG
128381 TATAGATTATCGACATTTAAGTAAAGTAACAACAATGAATAAGTATCCTCTTTTGAGGATTAATG
66 TATAGATTATCGACATTTAAGTAAAGTAACAACAATGAATAAGTATCCTCTTTTGAGGATTAATG
*
128446 ATATGTTCGATTAATTGAAAGGCGCAG
131 ATATGTTCGATTAACTGAAAGGCGCAG
*
128473 TAGTGTT
1 CAGTGTT
128480 CTCTAAGATA
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 158 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (157 bp):
CAGTGTTTCTCCTTGGGGGTACATGTGCTTTTAGTGAAAAAGAATGATGGATCTACGTGATAATG
TATAGATTATCGACATTTAAGTAAAGTAACAACAATGAATAAGTATCCTCTTTTGAGGATTAATG
ATATGTTCGATTAACTGAAAGGCGCAG
Found at i:132192 original size:48 final size:48
Alignment explanation
Indices: 132136--132240 Score: 147
Period size: 48 Copynumber: 2.2 Consensus size: 48
132126 TTTGAAATAC
* * * *
132136 TTTTTGTATGATGTTTATCAATCGATTTTGTTTAATGCATAAGTTGCA
1 TTTTTGTATAATGGTTATCAATCAATTTTGTTTAATGCATAAGTTACA
* *
132184 TTTTTGTATAATGGTTATCTATCAATTTTGTTTAATGCATATGTTACA
1 TTTTTGTATAATGGTTATCAATCAATTTTGTTTAATGCATAAGTTACA
*
132232 ATTTTGTAT
1 TTTTTGTAT
132241 CAGTATTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.52
Consensus pattern (48 bp):
TTTTTGTATAATGGTTATCAATCAATTTTGTTTAATGCATAAGTTACA
Found at i:132233 original size:24 final size:24
Alignment explanation
Indices: 132160--132238 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
132150 TTATCAATCG
* *
132160 ATTTTGTTTAATGCATAAGTTGCA
1 ATTTTGTTTAATGCATATGTTACA
* * ** *
132184 TTTTTGTATAATGGTTAT-CTATCA
1 ATTTTGTTTAATGCATATGTTA-CA
132208 ATTTTGTTTAATGCATATGTTACA
1 ATTTTGTTTAATGCATATGTTACA
132232 ATTTTGT
1 ATTTTGT
132239 ATCAGTATTA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
23 1 0.02
24 38 0.93
25 2 0.05
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.52
Consensus pattern (24 bp):
ATTTTGTTTAATGCATATGTTACA
Found at i:132340 original size:53 final size:53
Alignment explanation
Indices: 132260--132371 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 53
132250 ATATACTTTT
* * ** * *
132260 GGCACTGTGTGTGCACCCATGGTATTCATAATGAGTTTATGAATGACCATTTC
1 GGCACTATGTATGCACCCATGAAATTCAAAATGAGTTCATGAATGACCATTTC
* * *
132313 GGCACTATGTATGCATCCATGAAATTCAAAATGAGTTCGTGAATTACCATTTC
1 GGCACTATGTATGCACCCATGAAATTCAAAATGAGTTCATGAATGACCATTTC
132366 GGCACT
1 GGCACT
132372 TAGGTGCAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (53 bp):
GGCACTATGTATGCACCCATGAAATTCAAAATGAGTTCATGAATGACCATTTC
Found at i:136819 original size:28 final size:27
Alignment explanation
Indices: 136762--136827 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
136752 TGCAACTTAT
* *
136762 ATGAGGCACTTTGAGTGCAGTTTACTA
1 ATGAGGCACTTTGAGTGCAATTGACTA
*
136789 ATGAGACACTTTCGAGTGCAATTGA-TAA
1 ATGAGGCACTTT-GAGTGCAATTGACT-A
136817 ATGAGGCACTT
1 ATGAGGCACTT
136828 ACAAGTACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 12 0.36
28 21 0.64
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (27 bp):
ATGAGGCACTTTGAGTGCAATTGACTA
Found at i:139866 original size:283 final size:287
Alignment explanation
Indices: 139507--140078 Score: 1107
Period size: 283 Copynumber: 2.0 Consensus size: 287
139497 GTATTTGGGT
139507 ATATTTACGTGATAGAGGTGTTATAAATGCTTCCTAGAATCTTCCTATGGTGATCCTCTAAAATT
1 ATATTTACGTGATAGAGGTGTTATAAATGCTTCCTAGAATCTTCCTATGGTGATCCTCTAAAATT
*
139572 TTCCAATGAATTGAGCATACTGAACATTGCAAGCTTAAGTTCAATATGAGCG-CTTGAATTTTTG
66 TTCAAATGAATTGAGCATACTGAACATTGCAAGCTTAAGTTCAATATGAGCGACTTGAATTTTTG
139636 GAGTGACAATGCCTGGATTCAATTCATATAGGATGGGTAT-AGATGATC-AAGATATACATGGCT
131 GAGTGACAATGCCTGGATTCAATTCATATAGGATGGGTATGAGATGATCAAAGATATACATGGCT
139699 TGAACTCGTTCAGGTTGCTCCATCAAGTA-TCATTGTCATTTTCTACGGCGACACTTCGATATTC
196 TGAACTCGTTCAGGTTGCTCCATCAAGTATTCATTGTCATTTTCTACGGCGACACTTCGATATTC
139763 ATCACCATTGCTTGCTTGATTATTTTC
261 ATCACCATTGCTTGCTTGATTATTTTC
139790 ATATTTACGTGATAGAGGTGTTATAAATGCTTCCTAGAATCTTCCTATGGTGATCCTCTAAAATT
1 ATATTTACGTGATAGAGGTGTTATAAATGCTTCCTAGAATCTTCCTATGGTGATCCTCTAAAATT
139855 TTCAAATGAATTGAGCATACTGAACATTGCAAGCTTAAGTTCAATATGAGCGACTTGAATTTTTG
66 TTCAAATGAATTGAGCATACTGAACATTGCAAGCTTAAGTTCAATATGAGCGACTTGAATTTTTG
139920 GAGTGACAATGCCTGGATTCAATTCATATAGGATGGGTATGAGATGATCAAAGATATACATGGCT
131 GAGTGACAATGCCTGGATTCAATTCATATAGGATGGGTATGAGATGATCAAAGATATACATGGCT
139985 TGAACTCGTTCAGGTTGCTCCATCAAGTATTCATTGTCATTTTCTACGGCGACACTTCGATATTC
196 TGAACTCGTTCAGGTTGCTCCATCAAGTATTCATTGTCATTTTCTACGGCGACACTTCGATATTC
140050 ATCACCATTGCTTGCTTGATTATTTTC
261 ATCACCATTGCTTGCTTGATTATTTTC
140077 AT
1 AT
140079 TTTTCATGGT
Statistics
Matches: 284, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
283 116 0.41
284 52 0.18
285 8 0.03
286 44 0.15
287 64 0.23
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (287 bp):
ATATTTACGTGATAGAGGTGTTATAAATGCTTCCTAGAATCTTCCTATGGTGATCCTCTAAAATT
TTCAAATGAATTGAGCATACTGAACATTGCAAGCTTAAGTTCAATATGAGCGACTTGAATTTTTG
GAGTGACAATGCCTGGATTCAATTCATATAGGATGGGTATGAGATGATCAAAGATATACATGGCT
TGAACTCGTTCAGGTTGCTCCATCAAGTATTCATTGTCATTTTCTACGGCGACACTTCGATATTC
ATCACCATTGCTTGCTTGATTATTTTC
Found at i:141785 original size:2 final size:2
Alignment explanation
Indices: 141778--141807 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
141768 TATGAGTTAA
141778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
141808 TGAAAGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141896 original size:17 final size:17
Alignment explanation
Indices: 141874--141906 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
141864 GATGAACTGG
141874 AAGCATG-TGATATTTGC
1 AAGCATGATGA-ATTTGC
141891 AAGCATGATGAATTTG
1 AAGCATGATGAATTTG
141907 AGATATGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (17 bp):
AAGCATGATGAATTTGC
Found at i:143507 original size:20 final size:20
Alignment explanation
Indices: 143482--143521 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
143472 TATTTTTAAG
143482 AAAAAA-GATCGATCCATTTT
1 AAAAAAGGATCGATCC-TTTT
143502 AAAAAAGGATCGATCCTTTT
1 AAAAAAGGATCGATCCTTTT
143522 CAAGGGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (20 bp):
AAAAAAGGATCGATCCTTTT
Found at i:143584 original size:29 final size:31
Alignment explanation
Indices: 143551--143625 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 31
143541 CCAAACTTTA
*
143551 TTTAGTGACCAAAATATA-AAATTTAA-AAG
1 TTTAGTGACCAAAATATATAAATTGAAGAAG
* *
143580 TTTAGT-AGCCAAAGTATATAGATTGAAGAAG
1 TTTAGTGA-CCAAAATATATAAATTGAAGAAG
* *
143611 TTTAGAGATCAAAAT
1 TTTAGTGACCAAAAT
143626 GGTAATTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
28 1 0.03
29 15 0.42
30 6 0.17
31 13 0.36
32 1 0.03
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (31 bp):
TTTAGTGACCAAAATATATAAATTGAAGAAG
Found at i:145625 original size:17 final size:17
Alignment explanation
Indices: 145605--145651 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
145595 AAGGAAATAA
145605 TTCATTAATTAAACTAG
1 TTCATTAATTAAACTAG
* * *
145622 TTCATTCATCAAACTAT
1 TTCATTAATTAAACTAG
*
145639 TTCATTTATTAAA
1 TTCATTAATTAAA
145652 TTAACTCTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:146279 original size:10 final size:10
Alignment explanation
Indices: 146264--146289 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
146254 AGAAGACAAA
146264 GCATTTAAGT
1 GCATTTAAGT
146274 GCATTTAAGT
1 GCATTTAAGT
146284 GCATTT
1 GCATTT
146290 TATTGCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (10 bp):
GCATTTAAGT
Found at i:156506 original size:17 final size:17
Alignment explanation
Indices: 156484--156543 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
156474 TTATGGGTAG
*
156484 TTCATTAATTAAACTAT
1 TTCATTAATTAAACTAA
* *
156501 TTCATTCATCAAACTAA
1 TTCATTAATTAAACTAA
* *
156518 TTCATTTATTAAATTAA
1 TTCATTAATTAAACTAA
*
156535 CTC-TTAATT
1 TTCATTAATT
156544 GTTTCATGCA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
16 5 0.14
17 30 0.86
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (17 bp):
TTCATTAATTAAACTAA
Found at i:158360 original size:12 final size:12
Alignment explanation
Indices: 158343--158370 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
158333 GTGTTAAAAA
158343 ATTTAAATTTAT
1 ATTTAAATTTAT
158355 ATTTAAATTTAT
1 ATTTAAATTTAT
158367 ATTT
1 ATTT
158371 TAATATTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTAAATTTAT
Found at i:160387 original size:21 final size:21
Alignment explanation
Indices: 160361--160415 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
160351 AGAAACAGAG
160361 AGAGACAACAAGAACATACAC
1 AGAGACAACAAGAACATACAC
* * *
160382 GGAGACAGCAATAACATACAC
1 AGAGACAACAAGAACATACAC
*
160403 AAAGACAACAAGA
1 AGAGACAACAAGA
160416 GACACAACAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.56, C:0.22, G:0.16, T:0.05
Consensus pattern (21 bp):
AGAGACAACAAGAACATACAC
Found at i:162261 original size:22 final size:22
Alignment explanation
Indices: 162233--162283 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
162223 TTTTCCAGAA
* *
162233 TGCTACAGGGGTATCGATACCC
1 TGCTACAGGGGTACCAATACCC
*
162255 TGCTACA-GTGTACCAATACCC
1 TGCTACAGGGGTACCAATACCC
162276 TGCTACAG
1 TGCTACAG
162284 TAATTCCGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (22 bp):
TGCTACAGGGGTACCAATACCC
Found at i:163070 original size:32 final size:32
Alignment explanation
Indices: 162937--163067 Score: 230
Period size: 32 Copynumber: 4.1 Consensus size: 32
162927 GCTCGTATAA
162937 TAATA-TGTCCATATGTCCCG-AAGAACATAGG
1 TAATACTGTCCATATGTCCCGAAAG-ACATAGG
162968 TAATACTGTCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
163000 TAATACTGTCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
*
163032 TAATCCTGTCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
163064 TAAT
1 TAAT
163068 CCTCGACTCT
Statistics
Matches: 97, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
31 5 0.05
32 89 0.92
33 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (32 bp):
TAATACTGTCCATATGTCCCGAAAGACATAGG
Found at i:170236 original size:22 final size:22
Alignment explanation
Indices: 170211--170253 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
170201 TTTTATAGAG
170211 ATGATAGATTCTCTTTTCAAAT
1 ATGATAGATTCTCTTTTCAAAT
170233 ATGATAGATTCTCTTTTCAAA
1 ATGATAGATTCTCTTTTCAAA
170254 GACGAAAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (22 bp):
ATGATAGATTCTCTTTTCAAAT
Found at i:171135 original size:17 final size:18
Alignment explanation
Indices: 171106--171149 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
171096 CCGAGTAATG
171106 TATA-TATATAATAATAT
1 TATATTATATAATAATAT
*
171123 TATATTATA-AATATTAT
1 TATATTATATAATAATAT
171140 TAT-TTATATA
1 TATATTATATA
171150 TTCCGAAGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 15 0.62
18 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATATTATATAATAATAT
Found at i:186779 original size:18 final size:17
Alignment explanation
Indices: 186740--186782 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
186730 ATTATATGGA
186740 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
186756 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
186774 TATTATTAT
1 TATTATTAT
186783 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:187004 original size:15 final size:16
Alignment explanation
Indices: 186984--187013 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
186974 TATATTCTTA
186984 ATTATTT-TTTATTTG
1 ATTATTTCTTTATTTG
186999 ATTATTTCTTTATTT
1 ATTATTTCTTTATTT
187014 ATGTAATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (16 bp):
ATTATTTCTTTATTTG
Found at i:187058 original size:10 final size:10
Alignment explanation
Indices: 187045--187098 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
187035 TATATATTTA
187045 TATTATTTTT
1 TATTATTTTT
187055 TATTATTTTT
1 TATTATTTTT
187065 TATT-TTTTAT
1 TATTATTTT-T
*
187075 TCATTATTATTA
1 T-ATTATT-TTT
*
187087 TATTATTATT
1 TATTATTTTT
187097 TA
1 TA
187099 AAAAAAAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 4 0.11
10 19 0.51
11 9 0.24
12 3 0.08
13 2 0.05
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTATTTTT
Found at i:187081 original size:14 final size:13
Alignment explanation
Indices: 187041--187097 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
187031 ACTTTATATA
187041 TTTATATTATT-T
1 TTTATATTATTAT
*
187053 TTTATTATTTTTTAT
1 TTTA-TA-TTATTAT
*
187068 TTTTTATTCATTAT
1 TTTATATT-ATTAT
187082 TATTATATTATTAT
1 T-TTATATTATTAT
187096 TT
1 TT
187098 AAAAAAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
12 4 0.11
13 5 0.14
14 17 0.47
15 10 0.28
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATATTATTAT
Found at i:192324 original size:169 final size:173
Alignment explanation
Indices: 192038--192543 Score: 736
Period size: 169 Copynumber: 2.9 Consensus size: 173
192028 AGCTATTCCA
*
192038 CTAAGGTAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTATGTTCAAACT
1 CTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTATGTTCAAACT
*
192103 ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCATTGCTTTTGTCAGGCTAAAGACTT
66 ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTGTCAGGCTAAAGACTT
192168 TGTGATGAGATGAACCCTTCAGTGATTTGTCCCTCT-A-AAG-
131 TGTGATGAGATGAACCCTTCAGTGATTTGTCCCTCTAACAAGT
192208 CT-AGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTATGTTCAAACT
1 CTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTATGTTCAAACT
* * *
192272 ATGACACTGCTCGGACACTTGGTAATTCGGTGTTTGCTCCACTGCTTTTGTCAGGCCATAGACTT
66 ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTGTCAGGCTAAAGACTT
*
192337 TGTGATGAGACGAACCCTTCAGTGATTTGTCCCTCTAAAGCTAAGTTATT
131 TGTGATGAGATGAACCCTTCAGTGATTTGTCCCTCT-AA-C-AAG----T
* **
192387 CCACTAAGGCAATTGGTTATAAGAGGAAACTCGAAAGCCCTGGCTTTATGAATAGATTACATTCA
1 ---CTAAGGCAATTGGTTAT-AGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTATGTTCA
* * * *
192452 AA-TCATGACATTGCTTGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTATC-GGGTCAA
62 AACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTGTCAGGCT-AA
192515 AGACTTTGTGATGAGATGAACCCTTCAGT
125 AGACTTTGTGATGAGATGAACCCTTCAGT
192544 TAAACCTGAT
Statistics
Matches: 302, Mismatches: 17, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
169 157 0.52
170 2 0.01
171 1 0.00
174 3 0.01
182 2 0.01
183 17 0.06
184 120 0.40
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (173 bp):
CTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTATGTTCAAACT
ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTGTCAGGCTAAAGACTT
TGTGATGAGATGAACCCTTCAGTGATTTGTCCCTCTAACAAGT
Found at i:192538 original size:184 final size:183
Alignment explanation
Indices: 192210--192543 Score: 544
Period size: 184 Copynumber: 1.8 Consensus size: 183
192200 CTCTAAAGCT
**
192210 AGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTATGTTCAAACTATG
1 AGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTACATTCAAACTATG
* * *
192275 ACACTGCTCGGACACTTGGTAATTCGGTGTTTGCTCCACTGCTTTTGTCAGGCCATAGACTTTGT
66 ACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTATCAGGCCAAAGACTTTGT
192340 GATGAGACGAACCCTTCAGTGATTTGTCCCTCTAAAGCTAAGTTATTCCACTA
131 GATGAGACGAACCCTTCAGTGATTTGTCCCTCTAAAGCTAAGTTATTCCACTA
*
192393 AGGCAATTGGTTATAAGAGGAAACTCGAAAGCCCTGGCTTTATGAATAGATTACATTCAAA-TCA
1 AGGCAATTGGTTAT-AGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTACATTCAAACT-A
* * * *
192457 TGACATTGCTTGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTATCGGGTCAAAGACTTT
64 TGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTATCAGGCCAAAGACTTT
*
192522 GTGATGAGATGAACCCTTCAGT
129 GTGATGAGACGAACCCTTCAGT
192544 TAAACCTGAT
Statistics
Matches: 138, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
183 15 0.11
184 123 0.89
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (183 bp):
AGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTACATTCAAACTATG
ACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTATCAGGCCAAAGACTTTGT
GATGAGACGAACCCTTCAGTGATTTGTCCCTCTAAAGCTAAGTTATTCCACTA
Found at i:194002 original size:39 final size:39
Alignment explanation
Indices: 193945--194019 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
193935 CCTTGAAATT
*
193945 AATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAA
1 AATTTTATCTCTCCTGAGATAGTTTCCCTCGAAACAGAA
* *
193984 AATTTTATCTC-CCTTGAGATAGTTTCTCTTGAAACA
1 AATTTTATCTCTCC-TGAGATAGTTTCCCTCGAAACA
194020 TAAACATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 30 0.94
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (39 bp):
AATTTTATCTCTCCTGAGATAGTTTCCCTCGAAACAGAA
Found at i:194031 original size:104 final size:103
Alignment explanation
Indices: 193922--194238 Score: 464
Period size: 104 Copynumber: 3.1 Consensus size: 103
193912 ACTGTTTCTC
193922 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAAT
1 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAAT
*
193987 TTTATCTCCCTTGAGATAGTTTCTCTTGAAACATAAACA
66 TTT-TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* *
194026 TTGAAAACATTACCCTTGAAA-TGATTTTTTCTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAA
1 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTC-C-TGAGATAGTTTCCCTCGAAACAGAAA
194090 ATTTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
64 ATTTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * * * *
194130 TTGAAAACATTT-CCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AAT
1 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAAT
** *
194191 TTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTT-TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
194230 TTGAAAACA
1 TTGAAAACA
194239 ATTTAACGAA
Statistics
Matches: 196, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
99 6 0.03
100 41 0.21
101 1 0.01
102 20 0.10
103 21 0.11
104 76 0.39
105 31 0.16
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (103 bp):
TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAAT
TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:194185 original size:36 final size:36
Alignment explanation
Indices: 194142--194213 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
194132 GAAAACATTT
* * *
194142 CCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAACGAATTTTATCTCCCTTGAGACAGTTTC
*
194178 CCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTC
1 CCTTGAAACGAATTTTATCTCCCTTGAGACAGTTTC
194214 TCTCCAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (36 bp):
CCTTGAAACGAATTTTATCTCCCTTGAGACAGTTTC
Found at i:194520 original size:43 final size:44
Alignment explanation
Indices: 194453--194538 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 44
194443 CGAAGGGACG
* *
194453 GCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCC
1 GCTGCTTGTCAACAAACAACTTCTCAATTTCAAAGCCAATTTCC
194497 GCTGCTTGTCAAC-AACAACTTCTCAATTTCAAAGCCAATTTC
1 GCTGCTTGTCAACAAACAACTTCTCAATTTCAAAGCCAATTTC
194539 AACTTCACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 28 0.70
44 12 0.30
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (44 bp):
GCTGCTTGTCAACAAACAACTTCTCAATTTCAAAGCCAATTTCC
Found at i:194618 original size:105 final size:105
Alignment explanation
Indices: 194495--194979 Score: 642
Period size: 105 Copynumber: 4.7 Consensus size: 105
194485 GAGCCAATTT
*
194495 CCGCTGCTTGTCAACAACAACTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATT
1 CCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
*
194560 GGACTGCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
66 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* *
194600 CCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
1 CCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* * *
194665 GGACTCCTGACAACGCAAGTTCAAGTTCATGACGAAGGGA
66 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* *
194705 CCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
1 CCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* * * **
194770 GGACTCCAAACAATGCAAGTTCAACTCCACGACGAAGATA
66 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* * * *
194810 CCACTGTTTGTCAACAA-AA-TT-TC-A-TTCAGAGTCAATTTCAACTTCACAATGAAGGATATT
1 CCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* * * *
194870 AGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA
66 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* * * * * * *
194910 CGGCTGGTTGTCAACAAACAA-TT-TCAGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATTT
1 CCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
*
194973 TGAACTC
65 TGGACTC
194980 AACAGTATTT
Statistics
Matches: 334, Mismatches: 42, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
100 76 0.23
101 3 0.01
102 7 0.02
103 2 0.01
104 36 0.11
105 210 0.63
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
CCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
Found at i:195005 original size:14 final size:15
Alignment explanation
Indices: 194986--195031 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 15
194976 ACTCAACAGT
194986 ATTTC-ACTTCACGG
1 ATTTCAACTTCACGG
195000 ATTTCAACTTACTTACGG
1 ATTTCAACTT-C--ACGG
195018 ATTTCAACTTCACG
1 ATTTCAACTTCACG
195032 ACGAAGGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.18
15 7 0.25
16 1 0.04
17 1 0.04
18 14 0.50
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (15 bp):
ATTTCAACTTCACGG
Found at i:195019 original size:18 final size:19
Alignment explanation
Indices: 194991--195027 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
194981 ACAGTATTTC
194991 ACTTCACGGATTTCAACTT
1 ACTTCACGGATTTCAACTT
195010 ACTT-ACGGATTTCAACTT
1 ACTTCACGGATTTCAACTT
195028 CACGACGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (19 bp):
ACTTCACGGATTTCAACTT
Found at i:195592 original size:37 final size:37
Alignment explanation
Indices: 195539--195643 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
195529 CATTTTCGTC
195539 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * * *
195576 TTGCTAGGATTCAAACTCCTGAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
195613 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
195644 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:196023 original size:16 final size:17
Alignment explanation
Indices: 195999--196037 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
195989 ATTATATGGA
*
195999 TATTTTATTCAT-TTAT
1 TATTATATTCATGTTAT
*
196015 TTTTATATTCATGTTAT
1 TATTATATTCATGTTAT
196032 TATTAT
1 TATTAT
196038 TATAGTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTATATTCATGTTAT
Found at i:199427 original size:5 final size:5
Alignment explanation
Indices: 199419--199494 Score: 59
Period size: 5 Copynumber: 14.8 Consensus size: 5
199409 AATCAAAGCA
*
199419 AAAAG AAAAAG CAAAG -AAAG AAAA- AACCAAG AAAA- AGAAAG AAAAG
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AA--AAG AAAAG A-AAAG AAAAG
* *
199465 AAAAG AAAAG AAAGAA AAAAG CAAAG AAAA
1 AAAAG AAAAG AAA-AG AAAAG AAAAG AAAA
199495 AAGCAAAGAC
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
4 7 0.12
5 37 0.64
6 12 0.21
7 2 0.03
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:199431 original size:13 final size:15
Alignment explanation
Indices: 199420--199493 Score: 61
Period size: 16 Copynumber: 5.2 Consensus size: 15
199410 ATCAAAGCAA
199420 AAAGAAAAAGCAAAG
1 AAAGAAAAAGCAAAG
*
199435 AAAG--AAA--AAAC
1 AAAGAAAAAGCAAAG
*
199446 CAAGAAAAAG-AAAG
1 AAAGAAAAAGCAAAG
*
199460 AAA-AGAAAAGAAAAG
1 AAAGA-AAAAGCAAAG
199475 AAAGAAAAAAGCAAAG
1 AAAG-AAAAAGCAAAG
199491 AAA
1 AAA
199494 AAAGCAAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
11 6 0.13
13 7 0.15
14 10 0.21
15 11 0.23
16 12 0.26
17 1 0.02
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGCAAAG
Found at i:202256 original size:37 final size:34
Alignment explanation
Indices: 202141--202256 Score: 108
Period size: 35 Copynumber: 3.3 Consensus size: 34
202131 AGAGACAATT
* **
202141 TTTTCTTGAAATAAAA-TTGATCTCACTTGAGATTG
1 TTTTCTT-AAAAAAAATTTG-TCTCACTTGAGACAG
** *
202176 TTTTCTTAAAAAAAATTTGTCTCGTTTGAGTCAG
1 TTTTCTTAAAAAAAATTTGTCTCACTTGAGACAG
202210 TTTTTCTTAAAAACAAATTTCGTCTCACTTGAGACAG
1 -TTTTCTTAAAAA-AAATTT-GTCTCACTTGAGACAG
*
202247 TCTTCCTTAA
1 T-TTTCTTAA
202257 GACACGAACA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
34 17 0.26
35 22 0.33
36 7 0.11
37 20 0.30
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (34 bp):
TTTTCTTAAAAAAAATTTGTCTCACTTGAGACAG
Found at i:202338 original size:67 final size:67
Alignment explanation
Indices: 202209--202344 Score: 170
Period size: 67 Copynumber: 2.0 Consensus size: 67
202199 GTTTGAGTCA
* * * * *
202209 GTTTTTCTTAAAAACAAATTTCGTCTCACTTGAGACAGTCTTCCTTAAGACACGAACATTTGAGA
1 GTTTTTCTTAAAAACAAATTTCATCTCACTAGAGACAGTCTTCCCTAAAACACGAACATTTGAAA
202274 TT
66 TT
*
202276 GTTTTTCTTAAAAACAAATTTCATCTCACTAGAGACAGT-TTCCCCTAGAAATAC-AA-ATTTTG
1 GTTTTTCTTAAAAACAAATTTCATCTCACTAGAGACAGTCTT-CCCTA-AAACACGAACA-TTTG
202338 AAATT
63 AAATT
202343 GT
1 GT
202345 GTCACTTGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
66 3 0.05
67 53 0.88
68 4 0.07
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (67 bp):
GTTTTTCTTAAAAACAAATTTCATCTCACTAGAGACAGTCTTCCCTAAAACACGAACATTTGAAA
TT
Found at i:202640 original size:66 final size:66
Alignment explanation
Indices: 202567--202831 Score: 426
Period size: 66 Copynumber: 4.0 Consensus size: 66
202557 AACAAAACTG
* * * *
202567 ATAAACCTTTGAGATTGTTTCTCTTGAAATAAATTTTGTCTTGCTTGAGACGGTTTCTCTTGAAA
1 ATAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
202632 C
66 C
*
202633 ATAAACCTTTGAGATTATTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
1 ATAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
202698 C
66 C
* * *
202699 ATAAACCTTTGAGATTGTTTCCCTTGAAACAAATGTTGTCTCCCTTGAGATAGTTTCTCTTGAAA
1 ATAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
202764 C
66 C
202765 ATAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTT-TCCTCGCTTGAGACA-TATTCTCTTGA
1 ATAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTTGT-CTCGCTTGAGACAGT-TTCTCTTGA
202828 AAC
64 AAC
202831 A
1 A
202832 AATTTAATCT
Statistics
Matches: 185, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
65 2 0.01
66 183 0.99
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (66 bp):
ATAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
C
Found at i:202659 original size:30 final size:30
Alignment explanation
Indices: 202620--202729 Score: 80
Period size: 30 Copynumber: 3.5 Consensus size: 30
202610 CTTGAGACGG
*
202620 TTTCTCTTGAAACATAAACCTTTGAGATTA
1 TTTCCCTTGAAACATAAACCTTTGAGATTA
* * *
202650 TTTCCCTTGAAACA-AATTTTGTCTCGCTTGAGA-CA
1 TTTCCCTTGAAACATAA-----AC-C-TTTGAGATTA
* *
202685 GTTTCTCTTGAAACATAAACCTTTGAGATTG
1 -TTTCCCTTGAAACATAAACCTTTGAGATTA
202716 TTTCCCTTGAAACA
1 TTTCCCTTGAAACA
202730 AATGTTGTCT
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
29 2 0.03
30 32 0.53
31 1 0.02
32 1 0.02
34 1 0.02
35 2 0.03
36 19 0.32
37 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (30 bp):
TTTCCCTTGAAACATAAACCTTTGAGATTA
Found at i:202755 original size:36 final size:35
Alignment explanation
Indices: 202641--202851 Score: 108
Period size: 36 Copynumber: 6.2 Consensus size: 35
202631 ACATAAACCT
*
202641 TTGAGATTA-TTTCCCTTGAAACAAATTTTGTCTCGC
1 TTGAGA-TAGTTTCCCTTGAAACAAA-TTTGTCTCCC
* * * *
202677 TTGAGACAGTTTCTCTTGAAACATAA------ACCT
1 TTGAGATAGTTTCCCTTGAAACA-AATTTGTCTCCC
*
202707 TTGAGATTGTTTCCCTTGAAACAAATGTTGTCTCCC
1 TTGAGATAGTTTCCCTTGAAACAAAT-TTGTCTCCC
* * *
202743 TTGAGATAGTTTCTCTTGAAACATAA------ACCT
1 TTGAGATAGTTTCCCTTGAAACA-AATTTGTCTCCC
* * *
202773 TTGAGATTGTTTCCCTTGAAACAAATTTTTCCTCGC
1 TTGAGATAGTTTCCCTTGAAACAAATTTGT-CTCCC
* * * *
202809 TTGAGACA-TATTCTCTTGAAACAAATTTAATCTCAC
1 TTGAGATAGT-TTCCCTTGAAACAAATTT-GTCTCCC
202845 TTGAGAT
1 TTGAGAT
202852 TGTTGTCTCC
Statistics
Matches: 131, Mismatches: 25, Indels: 38
0.68 0.13 0.20
Matches are distributed among these distances:
29 4 0.03
30 44 0.34
35 2 0.02
36 76 0.58
37 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (35 bp):
TTGAGATAGTTTCCCTTGAAACAAATTTGTCTCCC
Found at i:203284 original size:139 final size:139
Alignment explanation
Indices: 202852--203275 Score: 551
Period size: 139 Copynumber: 3.1 Consensus size: 139
202842 CACTTGAGAT
*
202852 TGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACATAGGAACAATGTCGTCTA
1 TGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCTA
* * * * * **
202917 CCGACCAGATCTCATCAACGCGTAGGATCAGCGTCATACCCATATAATCAGACTTTCTCATCATA
66 CCGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATACTCACATAATCAGACTTCCTCATCACG
*
202982 TAGGAACCA
131 TAGGAACCG
* * * * * *
202991 TGTTTTCTCCAAATTATCCCTAAATATGGCTTGACATCCTCATCACGTAGGAACAATGTCATCCA
1 TGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCTA
* * * ** * *
203056 CTGACCATATCTCCTTATTGCGTAGGAGCAGCGTCATCCTCACATAACCAGACTTCCTCATCACG
66 CCGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATACTCACATAATCAGACTTCCTCATCACG
203121 TAGGAACCG
131 TAGGAACCG
* * * * *
203130 TGTTGTCTCCAAATTAACCCTAAAGATGGCTAGACGTCCTCATCATGCAGGAATAATGTTGTCTA
1 TGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCTA
* * * * * *
203195 CCGATCAGATCTCCTCAACGCGTAGGAGCAGTGTCATGCTCAGACAATCAAACTTCCTCATCACG
66 CCGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATACTCACATAATCAGACTTCCTCATCACG
203260 TAGGAACCG
131 TAGGAACCG
203269 TGTTGTC
1 TGTTGTC
203276 ATTAAATTAT
Statistics
Matches: 240, Mismatches: 45, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
139 240 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (139 bp):
TGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCTA
CCGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATACTCACATAATCAGACTTCCTCATCACG
TAGGAACCG
Found at i:203540 original size:3 final size:3
Alignment explanation
Indices: 203532--203573 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
203522 GCTCTAATTA
*
203532 ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT -TT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
203574 ATAATATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:204226 original size:13 final size:15
Alignment explanation
Indices: 204208--204243 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
204198 GATTGGGGGG
204208 AAAGAGAAG-AAA-C
1 AAAGAGAAGAAAACC
204221 AAAGAG-AGAAAACC
1 AAAGAGAAGAAAACC
204235 AAAGAGAAG
1 AAAGAGAAG
204244 CATTCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 7 0.35
15 2 0.10
ACGTcount: A:0.67, C:0.08, G:0.25, T:0.00
Consensus pattern (15 bp):
AAAGAGAAGAAAACC
Found at i:204577 original size:2 final size:2
Alignment explanation
Indices: 204570--204598 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
204560 CAAGTTAAAG
204570 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
204599 GGGCCAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:205229 original size:4 final size:4
Alignment explanation
Indices: 205220--205253 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
205210 GTATTATATA
205220 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
205254 GTGTACGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:206021 original size:16 final size:17
Alignment explanation
Indices: 205984--206015 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
205974 ACGCAGACCA
205984 ATTTTTGTCTTAAAATG
1 ATTTTTGTCTTAAAATG
206001 ATTTTT-TCTTAAAAT
1 ATTTTTGTCTTAAAAT
206016 TGTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
ATTTTTGTCTTAAAATG
Found at i:206672 original size:3 final size:3
Alignment explanation
Indices: 206666--206705 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
206656 TTCATTTGAA
206666 TAT TAT T-T ATAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
206706 AAAAAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 3 0.09
3 30 0.88
4 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:208016 original size:18 final size:16
Alignment explanation
Indices: 207961--208016 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 16
207951 ATTGGTTTTT
207961 TTTA-TTATTTTAAT-
1 TTTATTTATTTTAATA
*
207975 TTCATTTATTTTAATA
1 TTTATTTATTTTAATA
*
207991 GTTGATTTAATTTTATATA
1 -TTTATTT-ATTTTA-ATA
208010 TTTATTT
1 TTTATTT
208017 GCAATAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
17 6 0.18
18 12 0.35
19 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (16 bp):
TTTATTTATTTTAATA
Found at i:208197 original size:2 final size:2
Alignment explanation
Indices: 208190--208233 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
208180 TTCTAAGTAA
*
208190 AT AT AT AT CT -T AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
208230 AT AT
1 AT AT
208234 TTTCTTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:208759 original size:18 final size:19
Alignment explanation
Indices: 208723--208760 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
208713 TTCTTTTCAA
*
208723 AATTTTTATATATACTTAT
1 AATTTTCATATATACTTAT
*
208742 AATTTTCATA-ATATTTAT
1 AATTTTCATATATACTTAT
208760 A
1 A
208761 TGTATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTCATATATACTTAT
Found at i:218724 original size:113 final size:113
Alignment explanation
Indices: 218559--219198 Score: 1043
Period size: 113 Copynumber: 5.7 Consensus size: 113
218549 TTTTAGAAGG
* * *
218559 AGTTCATAATGAAAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGA-GGAAGAAGAAATTCATAATGAGAAGAACTTGTTC
*
218624 AACCTTTTGCTTCAATTCATCACTCGATGGATCAACATTGCCAGGTAGA
65 AACCTTTTGCTTCAATTCATCACTCGATGGATCAGCATTGCCAGGTAGA
* *
218673 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCA
218738 ACCTTTTGCTTCAATTCATCACTCGATGGATCAGCATTGCCAGGTAGA
66 ACCTTTTGCTTCAATTCATCACTCGATGGATCAGCATTGCCAGGTAGA
*
218786 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCA
* * *
218851 ACCTTTTGC-TCAAATCCATCACTTGATGGATCAGCATTTCCA-G-AGAA
66 ACCTTTTGCTTC-AATTCATCACTCGATGGATCAGCATTGCCAGGTAG-A
* *
218898 AGTTCATAATGAGAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGA-GGAAGAAGAAATTCATAATGAGAAGAACTTGTTC
* * *
218963 AACCTTTTGCTTCAATTCATCACTCAATGGATCAGCATTGCCAAGTAAA
65 AACCTTTTGCTTCAATTCATCACTCGATGGATCAGCATTGCCAGGTAGA
*
219012 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCA
* *
219077 ACCTTTTGCTTCAATTCATCACTCGATGGATCAACATTGCTAGGTAGA
66 ACCTTTTGCTTCAATTCATCACTCGATGGATCAGCATTGCCAGGTAGA
* *
219125 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCA
219190 ACCTTTTGC
66 ACCTTTTGC
219199 ATGACTCTAT
Statistics
Matches: 491, Mismatches: 29, Indels: 13
0.92 0.05 0.02
Matches are distributed among these distances:
111 2 0.00
112 34 0.07
113 391 0.80
114 63 0.13
115 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCA
ACCTTTTGCTTCAATTCATCACTCGATGGATCAGCATTGCCAGGTAGA
Found at i:219157 original size:339 final size:339
Alignment explanation
Indices: 218559--219198 Score: 1181
Period size: 339 Copynumber: 1.9 Consensus size: 339
218549 TTTTAGAAGG
218559 AGTTCATAATGAAAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAAAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * *
218624 AACCTTTTGCTTCAATTCATCACTCGATGGATCAACATTGCCAGGTAGAAGTTCATAATGAGAAG
66 AACCTTTTGCTTCAATTCATCACTCAATGGATCAACATTGCCAAGTAAAAGTTCATAATGAGAAG
*
218689 AACTCATCTGAAGAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTCAATT
131 AACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTCAATT
*
218754 CATCACTCGATGGATCAGCATTGCCAGGTAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGA
196 CATCACTCGATGGATCAACATTGCCAGGTAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGA
* *
218819 AGAAGAAATTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
261 AGAAGAAATTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
218884 GCATTTCCAGAGAA
326 GCATTTCCAGAGAA
*
218898 AGTTCATAATGAGAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAAAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
*
218963 AACCTTTTGCTTCAATTCATCACTCAATGGATCAGCATTGCCAAGTAAAAGTTCATAATGAGAAG
66 AACCTTTTGCTTCAATTCATCACTCAATGGATCAACATTGCCAAGTAAAAGTTCATAATGAGAAG
219028 AACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTCAATT
131 AACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTCAATT
*
219093 CATCACTCGATGGATCAACATTGCTAGGTAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGA
196 CATCACTCGATGGATCAACATTGCCAGGTAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGA
*
219158 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
261 AGAAGAAATTCATAATAAGAAGAACTTGTTCAACCTTTTGC
219199 ATGACTCTAT
Statistics
Matches: 290, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
339 290 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (339 bp):
AGTTCATAATGAAAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
AACCTTTTGCTTCAATTCATCACTCAATGGATCAACATTGCCAAGTAAAAGTTCATAATGAGAAG
AACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTCAATT
CATCACTCGATGGATCAACATTGCCAGGTAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGA
AGAAGAAATTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
GCATTTCCAGAGAA
Found at i:219545 original size:3 final size:3
Alignment explanation
Indices: 219539--219581 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
219529 TTTATTTGAA
219539 TAT TAT T-T ATAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
219582 AAAAAATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 3 0.08
3 33 0.89
4 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:220888 original size:18 final size:16
Alignment explanation
Indices: 220833--220888 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 16
220823 TATTGGTTTT
220833 TTTA-TTATTTTAAT-
1 TTTATTTATTTTAATA
*
220847 TTCATTTATTTTAATA
1 TTTATTTATTTTAATA
*
220863 GTTGATTTAATTTTATATA
1 -TTTATTT-ATTTTA-ATA
220882 TTTATTT
1 TTTATTT
220889 TCAATATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
17 6 0.18
18 12 0.35
19 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (16 bp):
TTTATTTATTTTAATA
Done.