Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006270.1 Hibiscus syriacus cultivar Beakdansim tig00014949_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: 949592
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 2 of 5
Found at i:268417 original size:48 final size:47
Alignment explanation
Indices: 268346--268454 Score: 137
Period size: 48 Copynumber: 2.3 Consensus size: 47
268336 AAACGAAGAT
*
268346 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCA
1 ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
** ** *
268393 GATCAGAAATCAGAACAGAATTCAGGTCATTTATCAGAACAGAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
*
268441 AGTCGGAAATCAGA
1 A-TCAGAAATCAGA
268455 TAAAATATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
47 1 0.02
48 52 0.98
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
Found at i:268452 original size:24 final size:25
Alignment explanation
Indices: 268346--268454 Score: 109
Period size: 24 Copynumber: 4.5 Consensus size: 25
268336 AAACGAAGAT
*
268346 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * *
268370 AACAGATATCAGAACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
268394 ATCAGAAATCAGAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* ***
268418 GTCATTTATCAGAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
268443 -TCGGAAATCAGA
1 ATCAGAAATCAGA
268455 TAAAATATTT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
23 2 0.03
24 63 0.91
25 4 0.06
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:270020 original size:31 final size:31
Alignment explanation
Indices: 269985--270084 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 31
269975 TTAATTGCTT
269985 TCTTAAACACTCTCTGATCTTGAAACGGTTC
1 TCTTAAACACTCTCTGATCTTGAAACGGTTC
* *
270016 TCTTAACAGACT-TCTAGTATCCTTCACAAAC---TC
1 TCTTAA-ACACTCTCT-G-AT-CTT--GAAACGGTTC
270049 T-TCT-AACACTCTCTGATCTTGAAACGGTTC
1 TCT-TAAACACTCTCTGATCTTGAAACGGTTC
270079 TCTTAA
1 TCTTAA
270085 CAGACTTCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 26
0.63 0.05 0.32
Matches are distributed among these distances:
27 4 0.08
29 3 0.06
30 6 0.12
31 16 0.31
32 10 0.19
33 6 0.12
34 3 0.06
36 4 0.08
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (31 bp):
TCTTAAACACTCTCTGATCTTGAAACGGTTC
Found at i:270089 original size:63 final size:63
Alignment explanation
Indices: 269990--270112 Score: 246
Period size: 63 Copynumber: 2.0 Consensus size: 63
269980 TGCTTTCTTA
269990 AACACTCTCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCTTCT
1 AACACTCTCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCTTCT
270053 AACACTCTCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCT
1 AACACTCTCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCT
270113 CCTAGGATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (63 bp):
AACACTCTCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCTTCT
Found at i:271041 original size:7 final size:7
Alignment explanation
Indices: 271029--271060 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
271019 TGGTCAAATC
271029 CGGTCAA
1 CGGTCAA
271036 CGGTCAA
1 CGGTCAA
271043 CGGGTCAA
1 C-GGTCAA
271051 CGGTCAA
1 CGGTCAA
271058 CGG
1 CGG
271061 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:271081 original size:18 final size:18
Alignment explanation
Indices: 271071--271116 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
271061 GTCGGGTCAA
271071 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
271089 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
271107 CGGGTCGGGT
1 CGGGTCGGGT
271117 TGTGACCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.09, C:0.22, G:0.52, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:271105 original size:26 final size:27
Alignment explanation
Indices: 271042--271107 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
271032 TCAACGGTCA
271042 ACGGGTCAAC-GGTCAACGGGTCGGGT
1 ACGGGTCAACGGGTCAACGGGTCGGGT
271068 CAACGGGT---CGGGTCAACGGGTCGGGT
1 --ACGGGTCAACGGGTCAACGGGTCGGGT
271094 -CGGGTCAACGGGTC
1 ACGGGTCAACGGGTC
271108 GGGTCGGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
23 5 0.15
25 1 0.03
26 22 0.65
28 6 0.18
ACGTcount: A:0.17, C:0.24, G:0.44, T:0.15
Consensus pattern (27 bp):
ACGGGTCAACGGGTCAACGGGTCGGGT
Found at i:271107 original size:8 final size:8
Alignment explanation
Indices: 271030--271089 Score: 64
Period size: 8 Copynumber: 8.5 Consensus size: 8
271020 GGTCAAATCC
271030 GGTCAAC-
1 GGTCAACG
271037 GGTCAACG
1 GGTCAACG
271045 GGTCAAC-
1 GGTCAACG
271052 GGTCAACG
1 GGTCAACG
271060 GGT---CG
1 GGTCAACG
271065 GGTCAACG
1 GGTCAACG
271073 GGT---CG
1 GGTCAACG
271078 GGTCAACG
1 GGTCAACG
271086 GGTC
1 GGTC
271090 GGGTCGGGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
5 10 0.22
7 14 0.31
8 21 0.47
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:271112 original size:13 final size:13
Alignment explanation
Indices: 271037--271094 Score: 89
Period size: 13 Copynumber: 4.3 Consensus size: 13
271027 TCCGGTCAAC
*
271037 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
271052 GGTCAACGGGTCG
1 GGTCAACGGGTCG
271065 GGTCAACGGGTCG
1 GGTCAACGGGTCG
271078 GGTCAACGGGTCG
1 GGTCAACGGGTCG
271091 GGTC
1 GGTC
271095 GGGTCAACGG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
13 30 0.71
15 12 0.29
ACGTcount: A:0.17, C:0.24, G:0.43, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:272472 original size:21 final size:21
Alignment explanation
Indices: 272412--272464 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
272402 TGTGCTAATG
272412 TGGTAGCTCATAATGCTTACA
1 TGGTAGCTCATAATGCTTACA
*
272433 TGGTAGCCCATAATGCTTACA
1 TGGTAGCTCATAATGCTTACA
272454 TGGTAGCTCAT
1 TGGTAGCTCAT
272465 TGTACTTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (21 bp):
TGGTAGCTCATAATGCTTACA
Found at i:273079 original size:15 final size:15
Alignment explanation
Indices: 273044--273079 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
273034 TAACAATATG
273044 ATATTATATTCTTTC
1 ATATTATATTCTTTC
273059 --ATTATATTCTTTC
1 ATATTATATTCTTTC
273072 ATATTATA
1 ATATTATA
273080 ATGATACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 13 0.68
15 6 0.32
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTATATTCTTTC
Found at i:274345 original size:2 final size:2
Alignment explanation
Indices: 274338--274421 Score: 152
Period size: 2 Copynumber: 42.5 Consensus size: 2
274328 TATTTCTTGG
274338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
274380 AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
274421 A
1 A
274422 ATGTTGAGAA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
1 1 0.01
2 78 0.99
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:287532 original size:10 final size:10
Alignment explanation
Indices: 287517--287541 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
287507 GTCATTGATC
287517 AACAACAAGA
1 AACAACAAGA
287527 AACAACAAGA
1 AACAACAAGA
287537 AACAA
1 AACAA
287542 AAATCAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.20, G:0.08, T:0.00
Consensus pattern (10 bp):
AACAACAAGA
Found at i:294557 original size:21 final size:21
Alignment explanation
Indices: 294515--294558 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
294505 ACTCCGGGAG
* *
294515 CTAGTTCTTCACGAGTTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
294536 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
294557 CT
1 CT
294559 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.34, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:295354 original size:13 final size:13
Alignment explanation
Indices: 295338--295372 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
295328 TTTCAAATTG
*
295338 ATTTTAAAAATAA
1 ATTTTAAAAACAA
295351 ATTTTAAAAACAA
1 ATTTTAAAAACAA
*
295364 ATCTTAAAA
1 ATTTTAAAA
295373 TTACTCAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (13 bp):
ATTTTAAAAACAA
Found at i:295690 original size:20 final size:20
Alignment explanation
Indices: 295657--295694 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
295647 TTTCAAAGGA
295657 ATGCACCGAAGCACCAATCC
1 ATGCACCGAAGCACCAATCC
* *
295677 ATGCATCGATGCACCAAT
1 ATGCACCGAAGCACCAAT
295695 TAATAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.16, T:0.16
Consensus pattern (20 bp):
ATGCACCGAAGCACCAATCC
Found at i:303816 original size:18 final size:19
Alignment explanation
Indices: 303789--303829 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
303779 AAGGAATTTT
*
303789 ATATTATTTA-TAAAAATA
1 ATATTATTTAGAAAAAATA
*
303807 ATATTTTTTAGAAAAAATA
1 ATATTATTTAGAAAAAATA
303826 ATAT
1 ATAT
303830 ATATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
ATATTATTTAGAAAAAATA
Found at i:303831 original size:2 final size:2
Alignment explanation
Indices: 303826--303863 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
303816 AGAAAAAATA
303826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
303864 CAAGAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:304358 original size:16 final size:20
Alignment explanation
Indices: 304320--304361 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 20
304310 TTATACTTTT
304320 ATTTTAAGATAATATAATGA
1 ATTTTAAGATAATATAATGA
304340 ATTTTAA-ATAA-A-AAT-A
1 ATTTTAAGATAATATAATGA
304356 ATTTTA
1 ATTTTA
304362 TTCATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 3 0.14
18 1 0.05
19 4 0.18
20 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (20 bp):
ATTTTAAGATAATATAATGA
Found at i:309717 original size:43 final size:43
Alignment explanation
Indices: 309637--309927 Score: 379
Period size: 43 Copynumber: 6.8 Consensus size: 43
309627 GTAAAAACGA
* * * *
309637 TAAGGTCTTATCCTTGCACATAGCAAA-AGAGCCTGGGGAAACTG
1 TAAGG-CTTACCCTTGCACACAACAAAGGGA-CCTGGGGAAACTG
* * *
309681 TAAGGCTTACCCTTGGACACAACAAAGGAACATGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAAACTG
* * *
309724 TAAGGCTTACCCTTGCACACAACAAAGGAATCTAGGGAAACTG
1 TAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAAACTG
* * * *
309767 TAAAGCTTATCCTTGCACACAGCAAAGGGACCCGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAAACTG
* *
309810 TAAGGCTTACCCTTGGACACAGCAAAGGGACCTGGGG-AACTG
1 TAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAAACTG
* *
309852 TAAGGCTTACCCTTGCATACAGCAAAGGGACCTGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAAACTG
*
309895 TAAGGCTTACCCTTGCACATAACAAAGGGACCT
1 TAAGGCTTACCCTTGCACACAACAAAGGGACCT
309928 ATTGTAAGGG
Statistics
Matches: 218, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
42 40 0.18
43 172 0.79
44 6 0.03
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (43 bp):
TAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAAACTG
Found at i:315516 original size:66 final size:67
Alignment explanation
Indices: 315379--315523 Score: 158
Period size: 66 Copynumber: 2.2 Consensus size: 67
315369 CTGGTCATAA
*
315379 GGTATCGATACCCTATGAAGGGGTATCGATACCTCCTCTTGAACGAAAAATTACAGAATGTTAGT
1 GGTATCGATACCCTATGAAGGGGTATCGATACCTCCCCTTGAACGAAAAATTACAGAATGTTAGT
*
315444 AT
66 AG
* *
315446 GGTATCGATACCC-AT-TAGGAGGTATCGATACC-CCCCTT-AA-GATGAAAATTTCTAGAATGT
1 GGTATCGATACCCTATGAAGG-GGTATCGATACCTCCCCTTGAACGA--AAAATTAC-AGAATGT
315506 TA-TCAG
62 TAGT-AG
*
315512 GGTATCTATACC
1 GGTATCGATACC
315524 ATAGACAGGG
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
63 2 0.03
64 2 0.03
65 16 0.24
66 35 0.51
67 13 0.19
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (67 bp):
GGTATCGATACCCTATGAAGGGGTATCGATACCTCCCCTTGAACGAAAAATTACAGAATGTTAGT
AG
Found at i:317253 original size:25 final size:25
Alignment explanation
Indices: 317205--317254 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
317195 AATATTTTTG
* *
317205 GGTACTGTAGCAGATTACTATTCAT
1 GGTACTGTAGCAGACTAATATTCAT
* *
317230 GGTACTGTAGCAGGCTAATTTTCAT
1 GGTACTGTAGCAGACTAATATTCAT
317255 ATCATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (25 bp):
GGTACTGTAGCAGACTAATATTCAT
Found at i:328270 original size:13 final size:13
Alignment explanation
Indices: 328254--328279 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
328244 TTTTCCGTTA
328254 AATTTTTATTTTT
1 AATTTTTATTTTT
328267 AATTTTTATTTTT
1 AATTTTTATTTTT
328280 GTTCGACCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
AATTTTTATTTTT
Found at i:336957 original size:2 final size:2
Alignment explanation
Indices: 336950--336974 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
336940 TATAAAAATA
336950 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
336975 ATTAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:336994 original size:17 final size:17
Alignment explanation
Indices: 336964--336998 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
336954 ATATATATAT
* *
336964 ATATATATATAATTAAA
1 ATATAAATAAAATTAAA
336981 ATATAAATAAAATTAAA
1 ATATAAATAAAATTAAA
336998 A
1 A
336999 AATAGAAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAAATAAAATTAAA
Found at i:337471 original size:20 final size:20
Alignment explanation
Indices: 337435--337472 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
337425 TTATAATTTT
*
337435 ATTTTAATAATATATAATGA
1 ATTTTAATAATAAATAATGA
337455 ATTTTCAATAA-AAATAAT
1 ATTTT-AATAATAAATAAT
337473 ATTATTCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
ATTTTAATAATAAATAATGA
Found at i:337670 original size:10 final size:10
Alignment explanation
Indices: 337653--337696 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
337643 TTTTAATAAA
337653 AAAATTTAAT
1 AAAATTTAAT
* *
337663 ATAATTTATT
1 AAAATTTAAT
337673 AAAAGTTTCAAT
1 AAAA-TTT-AAT
337685 AAAATTTAAT
1 AAAATTTAAT
337695 AA
1 AA
337697 TCTTAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 16 0.57
11 6 0.21
12 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (10 bp):
AAAATTTAAT
Found at i:337685 original size:22 final size:21
Alignment explanation
Indices: 337652--337692 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
337642 ATTTTAATAA
*
337652 AAAAATTTAATATAATTTATT
1 AAAAATTTAATAAAATTTATT
*
337673 AAAAGTTTCAATAAAATTTA
1 AAAAATTT-AATAAAATTTA
337693 ATAATCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAAATTTAATAAAATTTATT
Found at i:338535 original size:15 final size:16
Alignment explanation
Indices: 338507--338539 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
338497 CAATAGAAAT
338507 AAATAAAAATTAAGAA
1 AAATAAAAATTAAGAA
338523 AAATAAAAA-TAAGAA
1 AAATAAAAATTAAGAA
338538 AA
1 AA
338540 TATTAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (16 bp):
AAATAAAAATTAAGAA
Found at i:340160 original size:86 final size:86
Alignment explanation
Indices: 339983--340235 Score: 364
Period size: 86 Copynumber: 3.0 Consensus size: 86
339973 GCTAAGATAT
* * *
339983 AAATTTGACATGCCTTTGAGCTGAACGTAATCAAACTCGAAGGTC-TTGGTTGACAGATAGCCCT
1 AAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAGCCCT
* *
340047 TCTCGCCTTGAGCTATGTTGT
66 TCTCGCCTTGAGCTATGCTGC
* * *
340068 AAATTTGATATGCCTTGGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGTCCT
1 AAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAGCCCT
*
340133 TCTCGCCTAGAGCTATGCTGC
66 TCTCGCCTTGAGCTATGCTGC
* * * * *
340154 AAATTTGATATGCCTTTAAGCTGAATGTAATCAAACTCGAACGTCTTTTGTTGATATATAACCCT
1 AAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAGCCCT
*
340219 TCTCGCCTTGAGTTATG
66 TCTCGCCTTGAGCTATG
340236 TTACACTGGC
Statistics
Matches: 148, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 41 0.28
86 107 0.72
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (86 bp):
AAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAGCCCT
TCTCGCCTTGAGCTATGCTGC
Found at i:346058 original size:20 final size:20
Alignment explanation
Indices: 346020--346061 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
346010 ACCACCGTCG
* *
346020 ACCACCGCCGGTTAATATTC
1 ACCACCGCCAGTCAATATTC
*
346040 ACCACCGCCAGTCACTATTC
1 ACCACCGCCAGTCAATATTC
346060 AC
1 AC
346062 GGTGGTTGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.40, G:0.12, T:0.21
Consensus pattern (20 bp):
ACCACCGCCAGTCAATATTC
Found at i:348538 original size:18 final size:18
Alignment explanation
Indices: 348515--348557 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
348505 TTGAGGACTT
*
348515 TTATATTATTT-ATAAAAA
1 TTATATT-TTTCAGAAAAA
348533 TTATATTTTTCAGAAAAA
1 TTATATTTTTCAGAAAAA
348551 TATATAT
1 T-TATAT
348558 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 14 0.64
19 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATATTTTTCAGAAAAA
Found at i:348557 original size:2 final size:2
Alignment explanation
Indices: 348550--348579 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
348540 TTTCAGAAAA
348550 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
348580 CAAGAATTAA
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:353689 original size:9 final size:9
Alignment explanation
Indices: 353675--353699 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
353665 ATACAAATGA
353675 CATCTCATT
1 CATCTCATT
353684 CATCTCATT
1 CATCTCATT
353693 CATCTCA
1 CATCTCA
353700 CGTAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (9 bp):
CATCTCATT
Found at i:359795 original size:2 final size:2
Alignment explanation
Indices: 359788--359823 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
359778 ACATTTTGAA
359788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
359824 GTTTTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:359816 original size:55 final size:56
Alignment explanation
Indices: 359752--359864 Score: 162
Period size: 55 Copynumber: 2.0 Consensus size: 56
359742 TTTTTGAAAG
359752 TATATATATA-AT-ATATAGTTTTAAAAACA-TTTTGAAA-TATATATATATATATA
1 TATATATATATATAATATAGTTTTAAAAACATTTTTGAAAGTATATATATA-ATATA
*
359805 TATATATATATATAATATAGTTTTGAAAACATTTTTTTGAAAGTATATATATAATATA
1 TATATATATATATAATATAGTTTTAAAAACA--TTTTTGAAAGTATATATATAATATA
359863 TA
1 TA
359865 GTTTTAAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
53 10 0.19
54 2 0.04
55 16 0.30
58 15 0.28
59 10 0.19
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (56 bp):
TATATATATATATAATATAGTTTTAAAAACATTTTTGAAAGTATATATATAATATA
Found at i:359856 original size:41 final size:40
Alignment explanation
Indices: 359806--359909 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 40
359796 ATATATATAT
*
359806 ATATATATATATAATATAGTTTTGAAAACATTTTTTTGAAA
1 ATATATATATATAATATAGTTTTGAAAACATATTTTT-AAA
*
359847 GTATATATATA-ATATATAGTTTT-AAAA-ATATTTTTAAA
1 ATATATATATATA-ATATAGTTTTGAAAACATATTTTTAAA
359885 ATATATATA-ATAA-A-A-TTTTGAAAAC
1 ATATATATATATAATATAGTTTTGAAAAC
359910 GCTTTAGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
34 4 0.07
35 5 0.09
36 1 0.02
37 2 0.04
38 12 0.21
39 7 0.12
40 5 0.09
41 20 0.36
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (40 bp):
ATATATATATATAATATAGTTTTGAAAACATATTTTTAAA
Found at i:359881 original size:39 final size:39
Alignment explanation
Indices: 359804--359909 Score: 123
Period size: 36 Copynumber: 2.7 Consensus size: 39
359794 ATATATATAT
*
359804 ATATATATATATATAATATAGTTTTGAAAACATTTTTTTGAA
1 ATATATATATA-AT-ATATAGTTTTGAAAACATATTTTT-AA
359846 AGTATATATATAATATATAGTTTT-AAAA-ATATTTTTAA
1 A-TATATATATAATATATAGTTTTGAAAACATATTTTTAA
*
359884 A-ATATATATAATA-A-AATTTTGAAAAC
1 ATATATATATAATATATAGTTTTGAAAAC
359910 GCTTTAGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
34 5 0.08
35 5 0.08
36 12 0.20
38 3 0.05
39 7 0.12
40 4 0.07
41 10 0.17
42 3 0.05
43 10 0.17
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (39 bp):
ATATATATATAATATATAGTTTTGAAAACATATTTTTAA
Found at i:360464 original size:21 final size:21
Alignment explanation
Indices: 360426--360467 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
360416 GAGGGCAAAC
*
360426 AACCCTGAAACAATCAGGAAT
1 AACCCTGAAACAACCAGGAAT
**
360447 AACCCTGAAGTAACCAGGAAT
1 AACCCTGAAACAACCAGGAAT
360468 GGCCTCGATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.17, T:0.14
Consensus pattern (21 bp):
AACCCTGAAACAACCAGGAAT
Found at i:381078 original size:2 final size:2
Alignment explanation
Indices: 381071--381119 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
381061 ATGTTCTTCA
381071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
381113 AT AT AT A
1 AT AT AT A
381120 ATTGTTTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:407388 original size:57 final size:57
Alignment explanation
Indices: 407320--407439 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 57
407310 GATCATATAC
* *
407320 ATATCACTATTTTAGGTATCC-GAAATTTCGGATATCCAAATTTTGGGATCGGATCCG
1 ATATCCCTATTTTAGGTA-CCTAAAATTTCGGATATCCAAATTTTGGGATCGGATCCG
* **
407377 ATATCCCTATTTTAGGTACCTAAAATTTTGGATATCCAAATTTTGTTATCGGATCCG
1 ATATCCCTATTTTAGGTACCTAAAATTTCGGATATCCAAATTTTGGGATCGGATCCG
407434 ATATCC
1 ATATCC
407440 GAATTTGCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 2 0.04
57 55 0.96
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (57 bp):
ATATCCCTATTTTAGGTACCTAAAATTTCGGATATCCAAATTTTGGGATCGGATCCG
Found at i:408619 original size:2 final size:2
Alignment explanation
Indices: 408612--408674 Score: 92
Period size: 2 Copynumber: 32.0 Consensus size: 2
408602 GTCACCTAAT
* *
408612 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TC TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
408653 TT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
408675 ATCATTTGGG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:408776 original size:33 final size:33
Alignment explanation
Indices: 408739--408836 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
408729 TGCAAAATGG
408739 ACACGTTACATTCCATTTTTCTTTCCGTTAGCA
1 ACACGTTACATTCCATTTTTCTTTCCGTTAGCA
* *
408772 ACACGTGT-CA-T--ATATTTT-TAT-C-ATAG--
1 ACACGT-TACATTCCAT-TTTTCTTTCCGTTAGCA
408798 ACACGTTACATTCCATTTTTCTTTCCGTTAGCA
1 ACACGTTACATTCCATTTTTCTTTCCGTTAGCA
408831 ACACGT
1 ACACGT
408837 GTCATATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 22
0.66 0.05 0.29
Matches are distributed among these distances:
25 1 0.02
26 8 0.16
27 1 0.02
28 7 0.14
29 5 0.10
30 5 0.10
31 7 0.14
32 1 0.02
33 14 0.28
34 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (33 bp):
ACACGTTACATTCCATTTTTCTTTCCGTTAGCA
Found at i:408809 original size:59 final size:59
Alignment explanation
Indices: 408738--408855 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
408728 TTGCAAAATG
408738 GACACGTTACATTCCATTTTTCTTTCCGTTAGCAACACGTGTCATATATTTTTATCATA
1 GACACGTTACATTCCATTTTTCTTTCCGTTAGCAACACGTGTCATATATTTTTATCATA
408797 GACACGTTACATTCCATTTTTCTTTCCGTTAGCAACACGTGTCATATATTTTTATCATA
1 GACACGTTACATTCCATTTTTCTTTCCGTTAGCAACACGTGTCATATATTTTTATCATA
408856 TTATAGATTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.42
Consensus pattern (59 bp):
GACACGTTACATTCCATTTTTCTTTCCGTTAGCAACACGTGTCATATATTTTTATCATA
Found at i:412567 original size:57 final size:57
Alignment explanation
Indices: 412458--412595 Score: 140
Period size: 57 Copynumber: 2.4 Consensus size: 57
412448 ACTTCCAAAT
* * *
412458 AATAAATTTCAACGATTTATTTCTTTTTTATAAGAAAGAATCATACTTGATTCTCAAG-A
1 AATAAA-TTCAAAGATTTATTTC-TTTTTACAAGAAAGAATCATACTAGATTCT-AAGAA
* *
412517 AATAAATTCAAAGATTTAATTTC-TTTTACAA-AATAGATTCATACTAGATTCTATGAA
1 AATAAATTCAAAGATTT-ATTTCTTTTTACAAGAA-AGAATCATACTAGATTCTAAGAA
*
412574 AATAAATT-TAAGAATTTATTTC
1 AATAAATTCAAAG-ATTTATTTC
412596 CTTCCACAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
56 12 0.17
57 36 0.52
58 10 0.14
59 11 0.16
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (57 bp):
AATAAATTCAAAGATTTATTTCTTTTTACAAGAAAGAATCATACTAGATTCTAAGAA
Found at i:436389 original size:32 final size:31
Alignment explanation
Indices: 436310--436431 Score: 156
Period size: 32 Copynumber: 3.9 Consensus size: 31
436300 TAAGGGAAGG
* * *
436310 CCTTAGGGCCTTAGAGCCTACCCAAGGAATA
1 CCTTGGGGCCTAAGAGCCTACCCAAGGAGTA
* *
436341 CCTTGGGACCTCAGAGCCTACCCAAGGATGTA
1 CCTTGGGGCCTAAGAGCCTACCCAAGGA-GTA
436373 CCTTGGGGCCTAAGAGCCTACCCAATGGAGTA
1 CCTTGGGGCCTAAGAGCCTACCCAA-GGAGTA
*
436405 CCTTGGGGCTTGAA-AGCCTACCCAAGG
1 CCTTGGGGCCT-AAGAGCCTACCCAAGG
436432 GAACATATAA
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
31 27 0.33
32 49 0.60
33 5 0.06
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (31 bp):
CCTTGGGGCCTAAGAGCCTACCCAAGGAGTA
Found at i:436428 original size:64 final size:63
Alignment explanation
Indices: 436310--436431 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 63
436300 TAAGGGAAGG
* *
436310 CCTTAGGGCCTTAGAGCCTACCCAAGGAATACCTTGGGACCTCAGAGCCTACCCAAGGATGTA
1 CCTTAGGGCCTAAGAGCCTACCCAAGGAATACCTTGGGACCTCAAAGCCTACCCAAGGATGTA
* * * * *
436373 CCTTGGGGCCTAAGAGCCTACCCAATGGAGTACCTTGGGGCTTGAAAGCCTACCCAAGG
1 CCTTAGGGCCTAAGAGCCTACCCAA-GGAATACCTTGGGACCTCAAAGCCTACCCAAGG
436432 GAACATATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 23 0.45
64 28 0.55
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (63 bp):
CCTTAGGGCCTAAGAGCCTACCCAAGGAATACCTTGGGACCTCAAAGCCTACCCAAGGATGTA
Found at i:436446 original size:64 final size:62
Alignment explanation
Indices: 436312--436462 Score: 162
Period size: 64 Copynumber: 2.4 Consensus size: 62
436302 AGGGAAGGCC
* * * *
436312 TTAGGGCCTTAGAGCCTACCCAAGGAATACCTTGGGACCTCAGAGCCTACCCAAGGATGTACC
1 TTAGGGCCTAAGAGCCTACCCAAGGAATACCTTGGGACCTCAAAGCCTACCCAAGGA-GAACA
* * * * *
436375 TTGGGGCCTAAGAGCCTACCCAATGGAGTACCTTGGGGCTTGAAAGCCTACCCAAGG-GAACA
1 TTAGGGCCTAAGAGCCTACCCAA-GGAATACCTTGGGACCTCAAAGCCTACCCAAGGAGAACA
*
436437 TATAAGGGCCTAA-AACCTACCCAAGG
1 T-T-AGGGCCTAAGAGCCTACCCAAGG
436463 GTCACCTTAG
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
62 6 0.08
63 32 0.43
64 36 0.49
ACGTcount: A:0.29, C:0.28, G:0.25, T:0.18
Consensus pattern (62 bp):
TTAGGGCCTAAGAGCCTACCCAAGGAATACCTTGGGACCTCAAAGCCTACCCAAGGAGAACA
Found at i:437671 original size:11 final size:11
Alignment explanation
Indices: 437642--437672 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
437632 AATCAAGACT
*
437642 AAAATTTCATG
1 AAAATTTGATG
437653 AAAATTTGATG
1 AAAATTTGATG
437664 AAAATTTGA
1 AAAATTTGA
437673 AGGATGGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (11 bp):
AAAATTTGATG
Found at i:442947 original size:61 final size:61
Alignment explanation
Indices: 442852--442967 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
442842 TGATGTGCTT
* *
442852 GCACATAAGGTCATGCCCACCTCCTGCACTAAGTTTACACTCTAGT-TCTGATCCGGATATG
1 GCACATAAGGCCATGCCCACCACCTGCACTAAGTTTACACTCTAGTGT-TGATCCGGATATG
*
442913 GCACATAAGGCCGTGCCCACCACCTGCACTAAGTTTACACTCTAGTGTTGATCCG
1 GCACATAAGGCCATGCCCACCACCTGCACTAAGTTTACACTCTAGTGTTGATCCG
442968 ACATGACACA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
61 50 0.98
62 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (61 bp):
GCACATAAGGCCATGCCCACCACCTGCACTAAGTTTACACTCTAGTGTTGATCCGGATATG
Found at i:447764 original size:13 final size:12
Alignment explanation
Indices: 447748--447777 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
447738 ATAAATACTC
447748 AATAAAAATATAA
1 AATAAAAATA-AA
447761 AATAAAAATAAA
1 AATAAAAATAAA
447773 AATAA
1 AATAA
447778 GATAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AATAAAAATAAA
Found at i:447768 original size:6 final size:6
Alignment explanation
Indices: 447748--447777 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
447738 ATAAATACTC
447748 AATAAA AATATAA AATAAA AATAAA AATAA
1 AATAAA AATA-AA AATAAA AATAAA AATAA
447778 GATAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:448889 original size:15 final size:15
Alignment explanation
Indices: 448871--448913 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 15
448861 CTTTTGAAAA
*
448871 TTAAACTTTTAGTCC
1 TTAAACTTTTAGCCC
448886 TTAAACTTTAATTAGCCC
1 TTAAAC-TT--TTAGCCC
448904 TTAAACTTTT
1 TTAAACTTTT
448914 CCAAACTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 8 0.33
16 2 0.08
17 2 0.08
18 12 0.50
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.47
Consensus pattern (15 bp):
TTAAACTTTTAGCCC
Found at i:448952 original size:29 final size:31
Alignment explanation
Indices: 448905--448969 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
448895 AATTAGCCCT
* *
448905 TAAACTTTTCCAAACTTTATACTTTGG-CTAC
1 TAAACTTTTCCAAAATTTACACTTTGGTC-AC
*
448936 TAAAC-TTT-CAAAATTTACATTTTGGTCAC
1 TAAACTTTTCCAAAATTTACACTTTGGTCAC
448965 TAAAC
1 TAAAC
448970 AAACTGTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 21 0.70
30 4 0.13
31 5 0.17
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (31 bp):
TAAACTTTTCCAAAATTTACACTTTGGTCAC
Found at i:450191 original size:2 final size:2
Alignment explanation
Indices: 450184--450249 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
450174 TGCTTCCTTG
450184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
450226 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
450250 TCTTATTCCC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:451436 original size:13 final size:13
Alignment explanation
Indices: 451420--451449 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
451410 TAAATACTCG
451420 ATAAAAATAAAAA
1 ATAAAAATAAAAA
451433 ATAAAAATAAAAA
1 ATAAAAATAAAAA
451446 ATAA
1 ATAA
451450 GAGAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:458997 original size:25 final size:23
Alignment explanation
Indices: 458969--459019 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
458959 GTAAAAGGTT
*
458969 AAAGTAAAAGTAATGATGAAAAATA
1 AAAGTAAAAAT-ATGAT-AAAAATA
*
458994 AAAGTAAAAATATTATAAAAATA
1 AAAGTAAAAATATGATAAAAATA
459017 AAA
1 AAA
459020 CCAAAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.42
24 4 0.17
25 10 0.42
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.22
Consensus pattern (23 bp):
AAAGTAAAAATATGATAAAAATA
Found at i:460374 original size:4 final size:4
Alignment explanation
Indices: 460365--460395 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
460355 GTTAGATGAA
460365 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
460396 AGAGGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:460430 original size:8 final size:8
Alignment explanation
Indices: 460363--460467 Score: 52
Period size: 8 Copynumber: 12.5 Consensus size: 8
460353 TTGTTAGATG
460363 AAAAATAA
1 AAAAATAA
*
460371 ATAAATAA
1 AAAAATAA
*
460379 ATAAATAA
1 AAAAATAA
*
460387 ATAAATAA
1 AAAAATAA
* **
460395 AAGAGGAA
1 AAAAATAA
460403 AAAGAA-AA
1 AAA-AATAA
460411 AAATGAA-AA
1 AAA--AATAA
460420 AAATAATAA
1 AAA-AATAA
460429 AAAAATAA
1 AAAAATAA
* *
460437 AGAGAACAA
1 A-AAAATAA
*
460446 AAAACACATA
1 AAAA-ATA-A
460456 AAAAATAA
1 AAAAATAA
460464 AAAA
1 AAAA
460468 GGTAAGTGAG
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
8 49 0.62
9 25 0.32
10 5 0.06
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:460431 original size:12 final size:11
Alignment explanation
Indices: 460363--460467 Score: 50
Period size: 12 Copynumber: 9.1 Consensus size: 11
460353 TTGTTAGATG
460363 AAAAATAAATAA
1 AAAAATAAA-AA
*
460375 ATAAATAAATAA
1 AAAAATAAA-AA
*
460387 ATAAATAAAAGA
1 AAAAATAAAA-A
** *
460399 GGAAA-AAGAA
1 AAAAATAAAAA
460409 AAAAATGAAAAA
1 AAAAAT-AAAAA
*
460421 AATAATAAAAA
1 AAAAATAAAAA
* *
460432 AATAAAGAGAACA
1 AA-AAATA-AAAA
* * *
460445 AAAAACACATA
1 AAAAATAAAAA
460456 AAAAATAAAAA
1 AAAAATAAAAA
460467 A
1 A
460468 GGTAAGTGAG
Statistics
Matches: 71, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
10 4 0.06
11 22 0.31
12 40 0.56
13 5 0.07
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:460610 original size:21 final size:20
Alignment explanation
Indices: 460571--460618 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
460561 TAAAAATAGT
*
460571 AAAATAATAAGAAATAAAATA
1 AAAATAATAAGAAACAAAA-A
460592 AAAATAATAA-AAACCAAAAA
1 AAAATAATAAGAAA-CAAAAA
*
460612 AATATAA
1 AAAATAA
460619 ATGGATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAATAATAAGAAACAAAAA
Found at i:461907 original size:3 final size:3
Alignment explanation
Indices: 461901--461978 Score: 52
Period size: 3 Copynumber: 24.7 Consensus size: 3
461891 CTGACAAAAA
* *
461901 AAT AAT AAAT AAAT AAAT AAT AAT AAT AAT AAC AAT AAC AAT AAT AA-
1 AAT AAT -AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
461948 AGATT AAT AAT AAC AA- AAT AAAT AAA AAT AA
1 A-A-T AAT AAT AAT AAT AAT -AAT AAT AAT AA
461979 AAAATAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
2 3 0.05
3 43 0.69
4 15 0.24
5 1 0.02
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:461971 original size:28 final size:27
Alignment explanation
Indices: 461907--461985 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 27
461897 AAAAAATAAT
461907 AAATAAATAAATAATAATAATAATAACA
1 AAATAAAT-AATAATAATAATAATAACA
*
461935 ATAA-CAATAATAA-AGATTAATAATAACA
1 A-AATAAATAATAATA-A-TAATAATAACA
*
461963 AAATAAATAAAAATAA-AA-AATAA
1 AAATAAATAATAATAATAATAATAA
461986 AAACGTTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
25 5 0.12
26 3 0.07
27 8 0.19
28 24 0.56
29 3 0.07
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.23
Consensus pattern (27 bp):
AAATAAATAATAATAATAATAATAACA
Found at i:462022 original size:14 final size:14
Alignment explanation
Indices: 462005--462071 Score: 66
Period size: 14 Copynumber: 4.7 Consensus size: 14
461995 CAAAATCCTA
*
462005 TTTCAAAAAATGTT
1 TTTCAAAAAATATT
*
462019 TTTC-AAAATTAGTT
1 TTTCAAAAAATA-TT
*
462033 TTTCAAAATAATATAA
1 TTTCAAAA-AATAT-T
462049 TTTCAAAAAATATT
1 TTTCAAAAAATATT
462063 TTT-AAAAAA
1 TTTCAAAAAA
462072 CTATATATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
13 11 0.25
14 13 0.30
15 9 0.20
16 11 0.25
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (14 bp):
TTTCAAAAAATATT
Found at i:462137 original size:12 final size:12
Alignment explanation
Indices: 462120--462180 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
462110 TATATAATAT
462120 ATGTTTTTAAAA
1 ATGTTTTTAAAA
*
462132 ATGTTTTCAAAA
1 ATGTTTTTAAAA
* * *
462144 A-CTATATAAAA
1 ATGTTTTTAAAA
462155 TATGTTTTTAAAA
1 -ATGTTTTTAAAA
*
462168 ATGTTTTCAAAA
1 ATGTTTTTAAAA
462180 A
1 A
462181 CTATATAATA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
11 6 0.16
12 25 0.66
13 7 0.18
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (12 bp):
ATGTTTTTAAAA
Found at i:462151 original size:36 final size:36
Alignment explanation
Indices: 462062--462193 Score: 185
Period size: 36 Copynumber: 3.6 Consensus size: 36
462052 CAAAAAATAT
* * * *
462062 TTTTAAAAAACTATATATTATATATGATTTCAAAAAGG
1 TTTTCAAAAACTATATA--ATATATGTTTTTAAAAATG
*
462100 TTTT-AAAAATTATATAATATATGTTTTTAAAAATG
1 TTTTCAAAAACTATATAATATATGTTTTTAAAAATG
*
462135 TTTTCAAAAACTATATAAAATATGTTTTTAAAAATG
1 TTTTCAAAAACTATATAATATATGTTTTTAAAAATG
462171 TTTTCAAAAACTATATAATATAT
1 TTTTCAAAAACTATATAATATAT
462194 ATATATTATA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
35 20 0.23
36 51 0.59
37 11 0.13
38 4 0.05
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (36 bp):
TTTTCAAAAACTATATAATATATGTTTTTAAAAATG
Found at i:462341 original size:30 final size:30
Alignment explanation
Indices: 462305--462366 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
462295 TATATATATA
* * *
462305 TATATTTTTTGAAAACCATTTTCTAAAAAT
1 TATATTTTTTGAAAAACATTTGCAAAAAAT
*
462335 TATATTTTTTTAAAAACATTTGCAAAAAAT
1 TATATTTTTTGAAAAACATTTGCAAAAAAT
462365 TA
1 TA
462367 AACTATATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (30 bp):
TATATTTTTTGAAAAACATTTGCAAAAAAT
Found at i:463048 original size:84 final size:84
Alignment explanation
Indices: 462915--463479 Score: 591
Period size: 84 Copynumber: 6.8 Consensus size: 84
462905 TTTGCCTCTA
* * * * * *
462915 AGCTGAGTGTAATCAAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATGC
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCTCGACTTAAGTTATGC
462980 TGCAAATGATGTGCCTTGG
66 TGCAAATGATGTGCCTTGG
* * *
462999 AGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCTTGACTTAAGTTATAC
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCTCGACTTAAGTTATGC
* * * *
463064 TGTAAATGATATGTCTTGA
66 TGCAAATGATGTGCCTTGG
* * * * * * *
463083 AGCTGAGCGTAATCGAACTTGAAGGTATTTTGGTTA-CAAATAACCCTTCTAGCCTTGAGTTATG
1 AGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGGTTAGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
463147 CTGCAAATGATGTTCCCTCGA
65 CTGCAAATGATG-TGCCTTGG
* * * * *
463168 AGCTGAGTGTAATCGAACTCGAGGGTCTTT-G---GCAGATAGCCCTTCTCGACTTAAGCTATGC
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCTCGACTTAAGTTATGC
*
463229 TACAAATGATGTGCCTTGG
66 TGCAAATGATGTGCCTTGG
** * * * * * *
463248 AGCTGAATGTAGTCGAACTCGAAGGTCTTTGGTTGGAAAATAAACCTTCTTGACTTAAGTTATAC
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCTCGACTTAAGTTATGC
* *
463313 TGCAAATGATATTCCTTGG
66 TGCAAATGATGTGCCTTGG
* * ** * *
463332 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGATAGAAGATTGCCCTTCTCGACTTAAGCTATTC
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCTCGACTTAAGTTATGC
* *
463397 TGCAAATTATGTGCCTTTG
66 TGCAAATGATGTGCCTTGG
* * * * * * *
463416 AACTGAGTGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCTCGACTTAAGTTATG
463480 TTGCGAGTAA
Statistics
Matches: 392, Mismatches: 82, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
80 32 0.08
81 34 0.09
83 1 0.00
84 289 0.74
85 36 0.09
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (84 bp):
AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCTCGACTTAAGTTATGC
TGCAAATGATGTGCCTTGG
Found at i:463217 original size:249 final size:249
Alignment explanation
Indices: 462909--463445 Score: 720
Period size: 249 Copynumber: 2.1 Consensus size: 249
462899 ACTTGGTTTG
* *
462909 CCTCTAAGCTGAGTGTAATCAAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTCTCGACTTAAG
1 CCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-T---TTGGCAGATAGCCCTTCTCGACTTAAG
* * * * * *
462974 TTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGA
62 CTATGCTACAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTAGAAAA
* * *
463039 TAACCCTTCTTGACTTAAGTTATACTGTAAATGATATGT-CTTGAAGCTGAGCGTAATCGAACTT
127 TAAACCTTCTTGACTTAAGTTATACTGCAAATGATAT-TCCTTGAAGCTGAGCGTAATCGAACTC
* * * * * *
463103 GAAGGTATTTTGGTTACAA-ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTTC
191 GAAGGT-CTTTGGATACAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGC
*
463162 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
1 CCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
* *
463227 GCTACAAATGATGTGCCTTGGAGCTGAATGTAGTCGAACTCGAAGGTCTTTGGTTGGAAAATAAA
66 GCTACAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTAGAAAATAAA
* *
463292 CCTTCTTGACTTAAGTTATACTGCAAATGATATTCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
131 CCTTCTTGACTTAAGTTATACTGCAAATGATATTCCTTGAAGCTGAGCGTAATCGAACTCGAAGG
* ** * * *
463357 TCTTTGGATAGAAGATTGCCCTTCTCGACTTAAGCTATTCTGCAAATTATGTGC
196 TCTTTGGATACAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGC
* * *
463411 CTTTGAA-CTGAGTGTAGTCGAACTCGAAGGTCTTT
1 CCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
463446 TGTTGGCAGA
Statistics
Matches: 250, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
248 36 0.14
249 183 0.73
252 1 0.00
253 30 0.12
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (249 bp):
CCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
GCTACAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTAGAAAATAAA
CCTTCTTGACTTAAGTTATACTGCAAATGATATTCCTTGAAGCTGAGCGTAATCGAACTCGAAGG
TCTTTGGATACAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGC
Found at i:468665 original size:38 final size:36
Alignment explanation
Indices: 468623--468723 Score: 89
Period size: 38 Copynumber: 2.7 Consensus size: 36
468613 ACAAATAAAT
* *
468623 AAATAAAAGAGGAAAAAGAAAAAAAATACTAATGAGAA
1 AAATAAAA-A-GAAAAAGAAAAAAAAAACTAAAGAGAA
468661 AAATAATAAA-AAAAAGATAATAAAAAAACTAAAGAGAA
1 AAATAA-AAAGAAAAAGA-AA-AAAAAAACTAAAGAGAA
* *
468699 CAAA-AAATAGAAAAAAGTAAAAAAA
1 -AAATAAAAAG-AAAAAGAAAAAAAA
468724 GTAAGTGAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
36 7 0.13
37 9 0.17
38 26 0.49
39 11 0.21
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.11
Consensus pattern (36 bp):
AAATAAAAAGAAAAAGAAAAAAAAAACTAAAGAGAA
Found at i:468680 original size:14 final size:13
Alignment explanation
Indices: 468659--468688 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
468649 TACTAATGAG
468659 AAAAATAATAAAA
1 AAAAATAATAAAA
468672 AAAAGATAATAAAA
1 AAAA-ATAATAAAA
468686 AAA
1 AAA
468689 CTAAAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAATAATAAAA
Found at i:468821 original size:18 final size:17
Alignment explanation
Indices: 468800--468844 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
468790 AAATATTAAA
468800 AAAAATAAAAAATAATG
1 AAAAATAAAAAATAATG
* *
468817 TAAAATAGTAAAATAATG
1 AAAAATA-AAAAATAATG
*
468835 AGAAATAAAA
1 AAAAATAAAA
468845 TAAAATTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAAATAATG
Found at i:470200 original size:10 final size:10
Alignment explanation
Indices: 470175--470209 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
470165 TGACAAAAAA
470175 ATAATAAA-T
1 ATAATAAATT
470184 A-AATAAATT
1 ATAATAAATT
470193 ATAATAAATT
1 ATAATAAATT
470203 ATAATAA
1 ATAATAA
470210 TAACAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.25
9 3 0.12
10 15 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
ATAATAAATT
Found at i:470233 original size:25 final size:25
Alignment explanation
Indices: 470205--470259 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
470195 AATAAATTAT
*
470205 AATAATAACAATAACAAT-AATAAAA
1 AATAATAACAACAA-AATAAATAAAA
*
470230 AATAATAATAACAAAATAAATAAAA
1 AATAATAACAACAAAATAAATAAAA
470255 AATAA
1 AATAA
470260 AAATGTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (25 bp):
AATAATAACAACAAAATAAATAAAA
Found at i:470251 original size:28 final size:28
Alignment explanation
Indices: 470169--470256 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 28
470159 TGACCCTGAC
*
470169 AAAAA-AATAATAA-ATAAATAAATTATA
1 AAAAATAATAATAACA-AAATAAATAATA
*
470196 ATAAATTATAATAATAACAATAA-CAATAATA
1 A-AAA--ATAATAATAACAA-AATAAATAATA
470227 AAAAATAATAATAACAAAATAAATAA-A
1 AAAAATAATAATAACAAAATAAATAATA
470254 AAA
1 AAA
470257 TAAAAATGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
27 7 0.14
28 21 0.41
30 4 0.08
31 16 0.31
32 3 0.06
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (28 bp):
AAAAATAATAATAACAAAATAAATAATA
Found at i:470351 original size:37 final size:36
Alignment explanation
Indices: 470310--470558 Score: 228
Period size: 35 Copynumber: 6.9 Consensus size: 36
470300 ATAATATAAA
470310 TTCAAAAAATATTTTTAAAAAACTATAT-ATATATGTT
1 TTCAAAAAATA-TTTT-AAAAACTATATAATATATGTT
** *
470347 TTC-AAAAAGGTTTTAAAAATTATATAATATATGTT
1 TTCAAAAAATATTTTAAAAACTATATAATATATGTT
* * *
470382 TT-TAAAAATGTTTTCAAAAATTATATAATATATGTT
1 TTCAAAAAATATTTT-AAAAACTATATAATATATGTT
** *
470418 TTTTAAAAATATTTTCAAAAACTATATATTATATATATT
1 TTCAAAAAATATTTT-AAAAACTATATA--ATATATGTT
*
470457 TT-AAAAAATACTTTAAAAACTATATAATATATGTT
1 TTCAAAAAATATTTTAAAAACTATATAATATATGTT
* * *
470492 TTC-AAAAA-A-TTTCAAAACCATATAATGTATATATT
1 TTCAAAAAATATTTTAAAAACTATATAA--TATATGTT
*
470527 TTC--AAAATATTTTCAAAACTATATATATATAT
1 TTCAAAAAATATTTTAAAAACTATATA-ATATAT
470559 ATTTCGAATA
Statistics
Matches: 186, Mismatches: 14, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
33 14 0.08
34 15 0.08
35 56 0.30
36 42 0.23
37 39 0.21
38 10 0.05
39 10 0.05
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (36 bp):
TTCAAAAAATATTTTAAAAACTATATAATATATGTT
Found at i:470560 original size:37 final size:37
Alignment explanation
Indices: 470333--470560 Score: 204
Period size: 37 Copynumber: 6.3 Consensus size: 37
470323 TTTAAAAAAC
* ** * *
470333 TATATATATATGTTTTCAAAAAGGTTTTAAAAATTATA
1 TATATATATATATTTT-AAAAATATTTTCAAAACTATA
* * *
470371 TA-ATATATGT-TTTTAAAAATGTTTTCAAAAAT-TA
1 TATATATATATATTTTAAAAATATTTTCAAAACTATA
* *
470405 TATAATATATGTTTTTTAAAAATATTTTCAAAAACTATA
1 TAT-ATATATATATTTTAAAAATATTTTC-AAAACTATA
* *
470444 TAT-TATATATATTTTAAAAAATACTTTAAAAACTATA
1 TATATATATATATTTT-AAAAATATTTTCAAAACTATA
* * *
470481 TA-ATATATGT-TTTCAAAAA-A-TTTCAAAACCATA
1 TATATATATATATTTTAAAAATATTTTCAAAACTATA
* *
470514 TA-ATGTATATATTTTCAAAATATTTTCAAAACTATA
1 TATATATATATATTTTAAAAATATTTTCAAAACTATA
470550 TATATATATAT
1 TATATATATAT
470561 TTCGAATACC
Statistics
Matches: 159, Mismatches: 20, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
33 19 0.12
34 12 0.08
35 21 0.13
36 29 0.18
37 56 0.35
38 17 0.11
39 5 0.03
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATATATATATTTTAAAAATATTTTCAAAACTATA
Found at i:474155 original size:11 final size:11
Alignment explanation
Indices: 474139--474214 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
474129 ATATTTTAAT
474139 AATAATAATAA
1 AATAATAATAA
*
474150 AATAATCATGAA
1 AATAATAAT-AA
*
474162 GATAATAATTTAA
1 AATAATAA--TAA
474175 ACAT-AT-ATCAA
1 A-ATAATAAT-AA
474186 AAGTAATAATAA
1 AA-TAATAATAA
474198 AATAA-AATAA
1 AATAATAATAA
474208 TAATAAT
1 -AATAAT
474215 TAAAATGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
10 7 0.14
11 20 0.39
12 15 0.29
13 6 0.12
14 3 0.06
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (11 bp):
AATAATAATAA
Found at i:474210 original size:16 final size:17
Alignment explanation
Indices: 474184--474243 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 17
474174 AACATATATC
474184 AAAAGTAATAATAAAAT
1 AAAAGTAATAATAAAAT
*
474201 AAAA-TAATAAT-AATT
1 AAAAGTAATAATAAAAT
* *
474216 AAAA-TGA-AAGAAAAT
1 AAAAGTAATAATAAAAT
474231 AAAAGTAATAATA
1 AAAAGTAATAATA
474244 TTAAAACTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 2 0.06
15 16 0.47
16 9 0.26
17 7 0.21
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (17 bp):
AAAAGTAATAATAAAAT
Found at i:474231 original size:19 final size:19
Alignment explanation
Indices: 474189--474232 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
474179 ATATCAAAAG
*
474189 TAATAATAAAATAAAATAA
1 TAATAATAAAATAAAAGAA
*
474208 TAATAATTAAAATGAAAGAA
1 TAATAA-TAAAATAAAAGAA
474228 -AATAA
1 TAATAA
474233 AAGTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (19 bp):
TAATAATAAAATAAAAGAA
Found at i:475623 original size:3 final size:3
Alignment explanation
Indices: 475604--475671 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
475594 TTGTAATATT
* *
475604 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAG
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
475651 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
475672 ACTTAAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:475930 original size:76 final size:76
Alignment explanation
Indices: 475804--476819 Score: 1876
Period size: 76 Copynumber: 13.4 Consensus size: 76
475794 GAAACGTTGA
*
475804 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
475869 AGGCTTTTTGG
66 AGGCTTTTTGG
475880 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
475945 CGGCTTTTTGG
66 AGGCTTTTTGG
* *
475956 AAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCG
476021 AAGGCTTTTTGG
65 AAGGCTTTTTGG
476033 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
476098 AGGCTTTTTGG
66 AGGCTTTTTGG
*
476109 AAACATCATGCACTGAAGGAATTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
476174 AGGCTTTTTGG
66 AGGCTTTTTGG
*
476185 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
476250 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
476261 AAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
476326 AGGCTTTTTGG
66 AGGCTTTTTGG
*
476337 AAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
476402 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
476413 AAACATCATGCACTGGAGGACTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
476477 AGGC-TTTTGG
66 AGGCTTTTTGG
*
476487 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
476552 AGGCTTTTTGG
66 AGGCTTTTTGG
476563 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
476627 CGGCTTTTTGG
66 AGGCTTTTTGG
476638 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
476703 AGGCTTTTTGG
66 AGGCTTTTTGG
*
476714 AAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
476779 AGGCTTTTTGG
66 AGGCTTTTTGG
476790 AAACATCATGCACTGAAGGACTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
476820 TGGGAAATAG
Statistics
Matches: 914, Mismatches: 22, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
74 36 0.04
75 145 0.16
76 660 0.72
77 73 0.08
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:477354 original size:112 final size:112
Alignment explanation
Indices: 477226--477482 Score: 392
Period size: 112 Copynumber: 2.3 Consensus size: 112
477216 GAATTATGCA
*
477226 AAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * **
477291 ATGAAC-TTCTCTGGAAAAGCTGCTCCATC-AAGTGATGGATTTGAGC
66 ATGAACTTTCTCTGGAAAAGCTGATCCATCGAA-TGATGAATTCAAGC
* *
477337 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCATATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
477402 TATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGC
65 TATGAACTTTCTCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGC
*
477450 GAAAAGTTGAACAAGTTCTTCTCATTATGAACT
1 -AAAAGTTGAACAAATTCTTCTCATTATGAACT
477483 CGATCTGGTA
Statistics
Matches: 132, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
111 4 0.03
112 64 0.48
113 58 0.44
114 6 0.05
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (112 bp):
AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGC
Found at i:477389 original size:24 final size:23
Alignment explanation
Indices: 477354--477398 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
477344 TGAACAAATT
*
477354 CTTCTCATTATGAATTTCTTCTTC
1 CTTCTCATTATG-AGTTCTTCTTC
477378 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGAGTTCTTCT
477399 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.24, G:0.07, T:0.53
Consensus pattern (23 bp):
CTTCTCATTATGAGTTCTTCTTC
Found at i:477509 original size:73 final size:73
Alignment explanation
Indices: 477390--477555 Score: 219
Period size: 73 Copynumber: 2.3 Consensus size: 73
477380 TCTTCATATG
*** * *
477390 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCGAAAA
1 AGTTCTTCTCATTATGAACTCGATCTGGAAAAGCTGATCCATCGAATGATGAATTCAAAC-AAAA
477455 -GTTGAACA
65 GGTTGAACA
* * *
477463 AGTTCTTCTCATTATGAACTCGATCTGGTAATGCTGAAT-CATCGAATGATGAATTTAAACAAAA
1 AGTTCTTCTCATTATGAACTCGATCTGGAAAAGCTG-ATCCATCGAATGATGAATTCAAACAAAA
477527 GGTTGAACA
65 GGTTGAACA
*
477536 AATTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
477556 TCTTCTTCCT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
72 4 0.05
73 76 0.93
74 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTCGATCTGGAAAAGCTGATCCATCGAATGATGAATTCAAACAAAAG
GTTGAACA
Found at i:477546 original size:186 final size:185
Alignment explanation
Indices: 477278--477671 Score: 530
Period size: 186 Copynumber: 2.1 Consensus size: 185
477268 TCTTCAGATG
* * * *
477278 AGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGAGCAAAAGG
1 AGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAAACAAAAGG
* *
477343 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAA
66 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
477408 CTTTCT-CTGGAAAAGTTGATCCATCGAA-TGATGAATTCAAGCGAAAA-GTTGAACA
131 CTTT-TACTGGAAAAGTTGATCCATC-AAGAGATGAATTCAAGC-AAAAGGTTGAACA
* *
477463 AGTTCTTCTCATTATGAAC-TCGATCTGGTAATGCTGAAT-CATCGAA-TGATGAATTTAAACAA
1 AGTTCTTCTCATTATGAACTTC--TCTGGAAAAGCTG-ATCCATC-AAGTGATGAATTTAAACAA
477525 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
62 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * ** *
477590 TGAACTTTTACTGGCAATGTTGATCCATCAAGAGATGGATTTGAGCAAAAGGTTGAATA
127 TGAACTTTTACTGGAAAAGTTGATCCATCAAGAGATGAATTCAAGCAAAAGGTTGAACA
* *
477649 AATTCTTCTCATTATGAATTTCT
1 AGTTCTTCTCATTATGAACTTCT
477672 TCTTCCTTCT
Statistics
Matches: 184, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
184 2 0.01
185 27 0.15
186 150 0.82
187 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (185 bp):
AGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAAACAAAAGG
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTTACTGGAAAAGTTGATCCATCAAGAGATGAATTCAAGCAAAAGGTTGAACA
Found at i:477589 original size:113 final size:113
Alignment explanation
Indices: 477463--477743 Score: 397
Period size: 113 Copynumber: 2.5 Consensus size: 113
477453 AAGTTGAACA
*
477463 AGTTCTTCTCATTATGAACTCGATCTGGTAATGCTGAATCATCGAATGATGAATTTAAACAAAAG
1 AGTTCTTCTCATTATGAACTCGATCTGGAAATGCTGAATCATCGAATGATGAATTTAAACAAAAG
477528 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
** * * * * * *
477576 AGTTCTTCTCATTATGAACT-TTTACTGGCAATGTTG-ATCCATC-AAGAGATGGATTTGAGCAA
1 AGTTCTTCTCATTATGAACTCGAT-CTGGAAATGCTGAAT-CATCGAA-TGATGAATTTAAACAA
* *
477638 AAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
63 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* *
477689 AGTTCTTCTCATTATGAACTCGAACTGGAAATACTGAATCATCGAATGATGAATT
1 AGTTCTTCTCATTATGAACTCGATCTGGAAATGCTGAATCATCGAATGATGAATT
477744 CATATCTTTG
Statistics
Matches: 144, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
112 5 0.03
113 135 0.94
114 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTCGATCTGGAAATGCTGAATCATCGAATGATGAATTTAAACAAAAG
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:478172 original size:22 final size:22
Alignment explanation
Indices: 478147--478201 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
478137 CATAAAGTTT
*
478147 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
478169 TCATCTTT-ATAAAGAGAATCTA
1 TCATCTTTGA-AAAGAGAATCTA
478191 TCATCTTTGAA
1 TCATCTTTGAA
478202 GAGCGTAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:478620 original size:54 final size:54
Alignment explanation
Indices: 478538--478706 Score: 227
Period size: 54 Copynumber: 3.2 Consensus size: 54
478528 TAACAGGTTT
* *** *
478538 GTAAAACATTTAACAGTGCATTCATCCTTGCCTGTGGCTTCTGCTCAGATGTTC
1 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
* *
478592 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGATGTTC
1 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
**
478646 GTAAAACATTTGACAACACATTCAT--TTTTTTGTGGCTTCTGCTCAGATGTTC
1 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
*
478698 -TCAAACATT
1 GTAAAACATT
478707 GAACCTCTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
51 8 0.08
52 23 0.22
54 72 0.70
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (54 bp):
GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
Found at i:481044 original size:92 final size:92
Alignment explanation
Indices: 480865--481239 Score: 570
Period size: 92 Copynumber: 4.1 Consensus size: 92
480855 CCTCTTCCTC
* * * *
480865 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGATTATGTGGTTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCCAAATTCAATAACTGGTTATGTGG-TTCATACCAAACCAGATCAG
*
480930 ATAATTCAAAGAACACTTCCAGAAGATG
65 ATAACTCAAAGAACACTTCCAGAAGATG
* * *
480958 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGTGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTCCAAATTCAATAACTGGTTATGTGGTTCATACCAAACCAGATCAGA
*
481023 TAACTCAAAGAACATTTCCAGAAGATG
66 TAACTCAAAGAACACTTCCAGAAGATG
* * *
481050 CTATCAGCACATTCCTCTTCCAAATTCAATAACTAGTTCATGTGGTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCCAAATTCAATAACTGGTT-ATGTGGTTCATACCAAACCAGATCAG
*
481115 ATAACTCAAAGAACATTTCCAGAAGATG
65 ATAACTCAAAGAACACTTCCAGAAGATG
* * * * *
481143 CTATCAGCACATTCCTCTTCCAAATTTAATAACTGGTTCTGTGGTTCATACCAAACCATATCAGA
1 CTATGAGCACATTCATCTTCCAAATTCAATAACTGGTTATGTGGTTCATACCAAACCAGATCAGA
481208 TAACTCAAAGAACACTTCCAGAAGATG
66 TAACTCAAAGAACACTTCCAGAAGATG
481235 CTATG
1 CTATG
481240 GGTCTCCTTA
Statistics
Matches: 264, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
92 134 0.51
93 130 0.49
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (92 bp):
CTATGAGCACATTCATCTTCCAAATTCAATAACTGGTTATGTGGTTCATACCAAACCAGATCAGA
TAACTCAAAGAACACTTCCAGAAGATG
Found at i:481192 original size:185 final size:185
Alignment explanation
Indices: 480865--481238 Score: 581
Period size: 185 Copynumber: 2.0 Consensus size: 185
480855 CCTCTTCCTC
* * *
480865 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGATTATGTGGTTTCATACCAAACCAGATCAG
1 CTATCAGCAAATTCATCTTCCAAATTCAATAATAGATTATGTGGTTTCATACCAAACCAGATCAG
* * * *
480930 ATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGT
66 ATAACTCAAAGAACACTTCCAGAAGATGCTATCAGCACATTCATCTTCCAAATTCAATAACTGGT
* *
480995 TTTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATG
131 TCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
* *
481050 CTATCAGCACATTCCTCTTCCAAATTCAATAACTAG-TTCATGTGG-TTCATACCAAACCAGATC
1 CTATCAGCAAATTCATCTTCCAAATTCAATAA-TAGATT-ATGTGGTTTCATACCAAACCAGATC
* * *
481113 AGATAACTCAAAGAACATTTCCAGAAGATGCTATCAGCACATTCCTCTTCCAAATTTAATAACTG
64 AGATAACTCAAAGAACACTTCCAGAAGATGCTATCAGCACATTCATCTTCCAAATTCAATAACTG
*
481178 GTTCTGTGGTTCATACCAAACCATATCAGATAACTCAAAGAACACTTCCAGAAGATG
129 GTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
481235 CTAT
1 CTAT
481239 GGGTCTCCTT
Statistics
Matches: 172, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
185 164 0.95
186 8 0.05
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (185 bp):
CTATCAGCAAATTCATCTTCCAAATTCAATAATAGATTATGTGGTTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATGCTATCAGCACATTCATCTTCCAAATTCAATAACTGGT
TCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
Found at i:483572 original size:17 final size:17
Alignment explanation
Indices: 483546--483578 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
483536 TCAATTTTCC
483546 TTTTTCTTC-TTCTTTT
1 TTTTTCTTCTTTCTTTT
483562 TTTTGTCTTCTTTCTTT
1 TTTT-TCTTCTTTCTTT
483579 GTTGGATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTCTTCTTTCTTTT
Found at i:489157 original size:11 final size:11
Alignment explanation
Indices: 489141--489216 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
489131 ATATTTTAAT
489141 AATAATAATAA
1 AATAATAATAA
*
489152 AATAATCATGAA
1 AATAATAAT-AA
*
489164 GATAATAATTTAA
1 AATAATAA--TAA
489177 ACAT-AT-ATCAA
1 A-ATAATAAT-AA
489188 AAGTAATAATAA
1 AA-TAATAATAA
489200 AATAA-AATAA
1 AATAATAATAA
489210 TAATAAT
1 -AATAAT
489217 TAAAATGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
10 7 0.14
11 20 0.39
12 15 0.29
13 6 0.12
14 3 0.06
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (11 bp):
AATAATAATAA
Found at i:489212 original size:16 final size:17
Alignment explanation
Indices: 489186--489245 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 17
489176 AACATATATC
489186 AAAAGTAATAATAAAAT
1 AAAAGTAATAATAAAAT
*
489203 AAAA-TAATAAT-AATT
1 AAAAGTAATAATAAAAT
* *
489218 AAAA-TGA-AAGAAAAT
1 AAAAGTAATAATAAAAT
489233 AAAAGTAATAATA
1 AAAAGTAATAATA
489246 TTAAAACTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 2 0.06
15 16 0.47
16 9 0.26
17 7 0.21
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (17 bp):
AAAAGTAATAATAAAAT
Found at i:489233 original size:19 final size:19
Alignment explanation
Indices: 489191--489234 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
489181 ATATCAAAAG
*
489191 TAATAATAAAATAAAATAA
1 TAATAATAAAATAAAAGAA
*
489210 TAATAATTAAAATGAAAGAA
1 TAATAA-TAAAATAAAAGAA
489230 -AATAA
1 TAATAA
489235 AAGTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (19 bp):
TAATAATAAAATAAAAGAA
Found at i:490619 original size:3 final size:3
Alignment explanation
Indices: 490600--490667 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
490590 TTGTAATATT
* *
490600 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAG
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
490647 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
490668 ACTTAAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:498680 original size:2 final size:2
Alignment explanation
Indices: 498673--498704 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
498663 TGTGCACTTA
498673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
498705 GAGTAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:507959 original size:15 final size:15
Alignment explanation
Indices: 507936--507983 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
507926 TGAGACATTA
507936 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
*
507951 CCCGTCCCGCATCCG
1 CCCGCCCCGCATCCG
*
507966 CCCGCCCCACATCCG
1 CCCGCCCCGCATCCG
507981 CCC
1 CCC
507984 ACCCAGCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.08, C:0.67, G:0.17, T:0.08
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:512643 original size:18 final size:18
Alignment explanation
Indices: 512622--512659 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
512612 TTCAGACTCA
512622 TCTGGAAGTCGATCCTCC
1 TCTGGAAGTCGATCCTCC
512640 TCTGGAAGTCGATCCTCC
1 TCTGGAAGTCGATCCTCC
512658 TC
1 TC
512660 GGGTCTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.34, G:0.21, T:0.29
Consensus pattern (18 bp):
TCTGGAAGTCGATCCTCC
Found at i:524254 original size:20 final size:20
Alignment explanation
Indices: 524229--524266 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
524219 CTGAAATTAA
*
524229 ATGTTAGAATGTTGATTTTG
1 ATGTTAGAATCTTGATTTTG
524249 ATGTTAGAATCTTGATTT
1 ATGTTAGAATCTTGATTT
524267 GGATCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (20 bp):
ATGTTAGAATCTTGATTTTG
Found at i:531057 original size:2 final size:2
Alignment explanation
Indices: 531050--531090 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
531040 TTGATAAGAA
* *
531050 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
531091 GTTCCAATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:533361 original size:22 final size:22
Alignment explanation
Indices: 533336--533378 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
533326 AAATGAAAGC
533336 AACTCGAAA-CGAAACTAACCCA
1 AACT-GAAATCGAAACTAACCCA
*
533358 AACTGAAATCGAAATTAACCC
1 AACTGAAATCGAAACTAACCC
533379 GAACCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.49, C:0.28, G:0.09, T:0.14
Consensus pattern (22 bp):
AACTGAAATCGAAACTAACCCA
Found at i:533409 original size:16 final size:15
Alignment explanation
Indices: 533386--533429 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
533376 CCCGAACCAA
533386 AAACAACCCGAACTG
1 AAACAACCCGAACTG
**
533401 AAACTAACCTAAACTG
1 AAAC-AACCCGAACTG
533417 AAAGCAACCCGAA
1 AAA-CAACCCGAA
533430 TCGAAAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 4 0.17
16 18 0.78
17 1 0.04
ACGTcount: A:0.50, C:0.30, G:0.11, T:0.09
Consensus pattern (15 bp):
AAACAACCCGAACTG
Found at i:535124 original size:12 final size:11
Alignment explanation
Indices: 535096--535136 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
535086 TAACAAAATA
* *
535096 AATAATATAAA
1 AATAATACAAG
535107 AATAATACAAG
1 AATAATACAAG
535118 TAATAATACAAG
1 -AATAATACAAG
535130 AATAATA
1 AATAATA
535137 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (11 bp):
AATAATACAAG
Found at i:535175 original size:16 final size:15
Alignment explanation
Indices: 535156--535268 Score: 56
Period size: 16 Copynumber: 7.3 Consensus size: 15
535146 AGAAAGTAAA
535156 AAAATATAATAATAAT
1 AAAATATAATAAT-AT
*
535172 AAAATATAAAAATAT
1 AAAATATAATAATAT
*
535187 -ACATAT-ATAATAT
1 AAAATATAATAATAT
* * *
535200 AAATAAGTAGAATAAAAGG
1 -AA-AA-TATAATAATA-T
*
535219 AAAATATAATAGTA-
1 AAAATATAATAATAT
535233 AAAATAATATATAA-AT
1 AAAAT-ATA-ATAATAT
*
535249 ATAATAGTAATAATA-
1 AAAATA-TAATAATAT
535264 AAAAT
1 AAAAT
535269 GCAAAGAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
13 6 0.08
14 10 0.14
15 16 0.22
16 30 0.41
17 4 0.05
18 7 0.10
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAATATAATAATAT
Found at i:535181 original size:26 final size:27
Alignment explanation
Indices: 535155--535204 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 27
535145 GAGAAAGTAA
535155 AAAAATATA-ATA-ATAATA-AAATAT
1 AAAAATATACATATATAATATAAATAT
535179 AAAAATATACATATATAATATAAATA
1 AAAAATATACATATATAATATAAATA
535205 AGTAGAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.39
25 3 0.13
26 6 0.26
27 5 0.22
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (27 bp):
AAAAATATACATATATAATATAAATAT
Found at i:535238 original size:25 final size:25
Alignment explanation
Indices: 535210--535266 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
535200 AAATAAGTAG
535210 AATAAAAGGA-AAATATAATAGTAAA
1 AATAAAA-GATAAATATAATAGTAAA
* * *
535235 AATAATATATAAATATAATAGTAAT
1 AATAAAAGATAAATATAATAGTAAA
535260 AATAAAA
1 AATAAAA
535267 ATGCAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (25 bp):
AATAAAAGATAAATATAATAGTAAA
Found at i:535241 original size:12 final size:13
Alignment explanation
Indices: 535180--535263 Score: 61
Period size: 13 Copynumber: 6.5 Consensus size: 13
535170 ATAAAATATA
535180 AAAATATACATA-T
1 AAAATATA-ATAGT
*
535193 ATAATATAAATAAGT
1 AAAATAT-AAT-AGT
* *
535208 AGAATA-AA-AGG
1 AAAATATAATAGT
535219 AAAATATAATAGT
1 AAAATATAATAGT
535232 AAAA-ATAATA-T
1 AAAATATAATAGT
535243 ATAAATATAATAGT
1 A-AAATATAATAGT
535257 AATAATA
1 AA-AATA
535264 AAAATGCAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
11 9 0.16
12 11 0.19
13 23 0.40
14 8 0.14
15 6 0.11
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATATAATAGT
Found at i:535868 original size:37 final size:36
Alignment explanation
Indices: 535827--535922 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 36
535817 GGATCTTATC
*
535827 TTTAGGAGTTTAAATCATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTAAATCCTAGTAGAACTCTATCCT-TT
* * * *
535864 TTTAGGAGTTTAAATCCTAGCAAAATTTTATCCTTT
1 TTTAGGAGTTTAAATCCTAGTAGAACTCTATCCTTT
*
535900 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTAAATCCTAGTAG
535923 GACGAAAAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 22 0.43
37 29 0.57
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (36 bp):
TTTAGGAGTTTAAATCCTAGTAGAACTCTATCCTTT
Found at i:537100 original size:106 final size:106
Alignment explanation
Indices: 536652--543845 Score: 10838
Period size: 106 Copynumber: 68.0 Consensus size: 106
536642 AGCATTGTTC
* * * * * ** * *
536652 GGAGTCCAATATCCTCCGTCGTGATGTTGAAATTGGCTCCGGAACCGAGAA-ATGTTTTGTTGAC
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTTGTTGAC
* * *
536716 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
** * * *
536758 CAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* ** * * * *
536817 ATCAGC-CACCTCTTCATCGTGAAGTTGAGCTTGTGTTGCCTT
66 ACCAGCGGTCC-CTTCGTCGTGAAGTTGAACTTGCGTTGTC-T
* * * * * *
536859 GG-GTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGATCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
536923 ACCAGCGGTCCC-T--TCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
536961 TGAGTCCAATAT-CTTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGAC
1 GGAGTCCAATATCCTT-CGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
* *
537025 AACTAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
537067 GGAGTCCACTATCCTTCGTTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
** * *
537132 ACCAGTAGTCCTTTCGTCTTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
537173 GGAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
537238 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
537279 TGAGTCCAATATCCTTCGCTGTGAAATTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
537344 ACCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
537385 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
537450 ACCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
537491 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTT-TTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
537555 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
537596 GGAGTCCAATATCCTTCGCTGTAAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
537661 ACCAGTGGTCCCTTCGTCGAGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
537702 GGAGTTCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *** *
537767 ATCAGCGGTATTTTCGTCGTGAAGTTAAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
537808 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
537873 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
537914 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTATTAACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
537979 ACCAGCGGTCTCTTCATCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
538020 GGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
538085 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
538126 GGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
538191 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
538232 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAATTTGGGAAGTTATTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
538297 ACCAGCGGTCCCTTCGTCGTGACGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
538338 GGAGTCCAATCA-CCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAGAAGTTGTTTGTTGAC
1 GGAGTCCAAT-ATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
**
538402 AAGGAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
538444 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
538509 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * ** *
538550 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGATCTGAAATTGGGAAACTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
538615 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
538656 TGAGTCTAATAT-CTTACGCTGTGAAGTTGAAATTGGCACTGAAATTGGGAAATTGTTTATTGAC
1 GGAGTCCAATATCCTT-CGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
*
538720 AACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
538762 GGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
538827 ACCAGCGGTCCTTTCTTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
538868 GGAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTTTTTATTGAAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
538933 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
538974 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
539039 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
539080 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGAGAATTTGTTTGCTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
539145 ACCAGCGGTCCCTTCTTCATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
539186 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
539251 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
539292 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
** *
539357 ACCAGCGGTCTTTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
** *
539398 GGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
539463 ACCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTTTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
539504 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTAACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
539569 ACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
539610 GGAGACCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
539675 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
539716 GGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
539781 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
539822 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAGTTATTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
539887 ACCAGCGGTCCCTTCGTCGTGACGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
539928 GAAGTCCAATCTCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
539993 ACCAGCGGTCCCTTCGTCGTGATGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* ** *
540034 GGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTTCCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
540099 ACCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
540140 GGAGTCCAATATTCTTCGCTGTGAAGTTTAAACTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
540205 ACGAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
540246 TGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
540311 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
540352 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
540417 ACCAGCGGTCCCTTCATTGTGAAGTTTAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
540458 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
540523 ACCAGCGGTCCCTTCGTCGTGATGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* ** * *
540564 GGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTTCCTCTAAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
540629 ACCAGCGG-CCCTTTCGTCGTGAAGTTGAACTTGCGTTGCCT
66 ACCAGCGGTCCC-TTCGTCGTGAAGTTGAACTTGCGTTGTCT
** *
540670 GGAGTCCAATATCCTTCCCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
540735 ACCAGTGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
540776 GTAGTTCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
** *
540841 ACCAGCGGTCTTTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
540882 GGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
540947 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTAT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
540988 GGAGTCCAATATCCTTCGTTGTGAAGTT-AAAGTTGGCTCTGAAATTGAGAAGTTGTTTATTGAC
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAA-TTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
*
541052 AACCAGCGGTCCCTTCGTCGTGATGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * ** * *
541094 GGAGTCCAATATCCTTAGTTGTGAAGTTAAAATTTCCTCTAAAATTGAGAAGTTG--T-TTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
541156 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
541197 GGAGTCCAATATCCTTCGCTGTAAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
541262 ACCAGTGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
541303 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTAACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
541368 ACCAACGGTGCCTTCGTCGTGAAGTTGAACATGCGTTTTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
541409 GGAGTCCAATGTCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
541474 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTAT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
541515 GGAGTCCAATATCCTTCGTTGTGAAGTT-AAAGTTGGCTCTGAAATTGAGAAGTTGTTTATTGAC
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAA-TTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
*
541579 AACCAGCGGTCCCTTCGTCGTGATGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * ** * *
541621 GGAGTCCAATATCCTTAGTTGTGAAGTTAAAATTTCCTCTAAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
541686 ACCAGCGGTCCCTTCATTGTGAAGTTTAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
541727 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
541792 ACCAGCGGTCCCTTCGTCGTGATGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* ** * *
541833 GGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTTCCTCTAAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
541898 ACCAGCGG-CCCTTTCGTCGTGAAGTTGAACTTGCGTTGCCT
66 ACCAGCGGTCCC-TTCGTCGTGAAGTTGAACTTGCGTTGTCT
** *
541939 GGAGTCCAATATCCTTCCCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
542004 ACCAGTGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
542045 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTAACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
542110 ACCAACGGTGCCTTCGTCGTGAAGTTGAACATGCGTTTTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
542151 GGAGTCCAATGTCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
542216 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTAT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
542257 GGAGTCCAATATCCTTCGTTGTGAAGTT-AAAGTTGGCTCTGAAATTGAGAAGTTGTTTATTGAC
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAA-TTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
*
542321 AACCAGCGGTCCCTTCGTCGTGATGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * ** * *
542363 GGAGTCCAATATCCTTAGTTGTGAAGTTAAAATTTCCTCTAAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
542428 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
542469 GGAGTCCAATATCCTTCGCTGTAAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
542534 ACCAGTGGTCCCTTCGTCGAGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
542575 GGAGTTCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
** *
542640 ACCAGCGGTCTTTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
** *
542681 GGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
542746 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
542787 TGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTAACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
542852 ACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
542893 GGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
542958 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
542999 GGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
543064 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
543105 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATAGGGAAGTTATTTATTGATA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
543170 ACCAGCGGTCCCTTCGTCGTGACGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
543211 GAAGTCCAATCTCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
543276 AGCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * ** * *
543317 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGTCTCTGAAATTTTGAAGTTATTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
543382 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATAT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
543423 GGAGTCCAATCTCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
543488 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTAGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
543529 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
543594 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGTGTTATCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
543635 TGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTGTTTATTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
543700 ACCAGCGGTCCCTTCTTCGTGAAGTTAAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
543741 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGCAAATTG-TTGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
543805 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
543846 TGACTGGCAA
Statistics
Matches: 6450, Mismatches: 605, Indels: 67
0.91 0.08 0.01
Matches are distributed among these distances:
99 2 0.00
100 73 0.01
101 3 0.00
102 11 0.00
103 175 0.03
104 5 0.00
105 167 0.03
106 5992 0.93
107 22 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:544703 original size:22 final size:22
Alignment explanation
Indices: 544677--544731 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
544667 TGTGTTTGGT
544677 CAAAGGTTTGACATTTGATGCA
1 CAAAGGTTTGACATTTGATGCA
* *
544699 CAAAGGTTTGGCATTTGATGCT
1 CAAAGGTTTGACATTTGATGCA
544721 CAAAGGTTTGA
1 CAAAGGTTTGA
544732 TGGGGTAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (22 bp):
CAAAGGTTTGACATTTGATGCA
Found at i:545361 original size:13 final size:13
Alignment explanation
Indices: 545345--545407 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
545335 TTTCTTTCGA
545345 TTTTTGTTTTTTC
1 TTTTTGTTTTTTC
*
545358 TTTTTGTTCTTTTA
1 TTTTTGTT-TTTTC
**
545372 TTTTT-TTCCTT-
1 TTTTTGTTTTTTC
545383 TTTTTGCTTCTTTTC
1 TTTTTG-TT-TTTTC
545398 TTTTT-TTTTT
1 TTTTTGTTTTT
545408 GCCCTTTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
11 5 0.12
12 5 0.12
13 14 0.35
14 11 0.28
15 5 0.12
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.83
Consensus pattern (13 bp):
TTTTTGTTTTTTC
Found at i:545399 original size:31 final size:30
Alignment explanation
Indices: 545351--545416 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
545341 TCGATTTTTG
* * *
545351 TTTTTTCTTTTTGTTCTTTTATTTTTTTCCT
1 TTTTTTCTTCTTGTTCTTTT-TTTTTTGCCC
545382 TTTTTTGCTTCTT-TTCTTTTTTTTTTGCCC
1 TTTTTT-CTTCTTGTTCTTTTTTTTTTGCCC
545412 TTTTT
1 TTTTT
545417 GTTCTGATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 13 0.42
31 13 0.42
32 5 0.16
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.79
Consensus pattern (30 bp):
TTTTTTCTTCTTGTTCTTTTTTTTTTGCCC
Found at i:548860 original size:19 final size:19
Alignment explanation
Indices: 548827--548863 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
548817 TGCAGATGAT
548827 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
548846 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
548864 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:550093 original size:22 final size:21
Alignment explanation
Indices: 550028--550106 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 21
550018 AAATAGTAAG
550028 TAAA-AAAACAAATAATAAAATA
1 TAAATAAAACAAATAA-AAAA-A
* *
550050 TATATAAAA-AAGAAAAAGAAAA
1 TAAATAAAACAA-ATAAA-AAAA
550072 TAAATAAAACAAATAAACAAAA
1 TAAATAAAACAAATAAA-AAAA
550094 T-AATAATAACAAA
1 TAAATAA-AACAAA
550107 GTACGAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
21 5 0.11
22 30 0.64
23 12 0.26
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (21 bp):
TAAATAAAACAAATAAAAAAA
Found at i:550644 original size:12 final size:11
Alignment explanation
Indices: 550629--550658 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
550619 TAACAAAATA
550629 AATAATACAAG
1 AATAATACAAG
550640 TAATAATACAAG
1 -AATAATACAAG
550652 AATAATA
1 AATAATA
550659 AAAAGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (11 bp):
AATAATACAAG
Found at i:550705 original size:27 final size:28
Alignment explanation
Indices: 550676--550727 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
550666 AGAGAAAGTA
550676 AAAAAATATA-ATA-ATAATA-AAATAT
1 AAAAAATATACATATATAATATAAATAT
550701 AAAAAATATACATATATAATATAAATA
1 AAAAAATATACATATATAATATAAATA
550728 AGTAGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 10 0.42
26 3 0.12
27 6 0.25
28 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAAAATATACATATATAATATAAATAT
Found at i:551386 original size:37 final size:36
Alignment explanation
Indices: 551345--551440 Score: 138
Period size: 37 Copynumber: 2.6 Consensus size: 36
551335 GGATTATATC
*
551345 TTTAGGAGTTTAAATCATAGTATAACTCTATCCTATT
1 TTTAGGAGTTTAAATCCTAGTA-AACTCTATCCTATT
* *
551382 TTTAGGAGTTTAAATCCTAGGGAAATTCTATCCTATT
1 TTTAGGAGTTTAAATCCTA-GTAAACTCTATCCTATT
*
551419 TTTAGGAGTTTGAATCCTAGTA
1 TTTAGGAGTTTAAATCCTAGTA
551441 GGACTAAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
36 2 0.04
37 49 0.92
38 2 0.04
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (36 bp):
TTTAGGAGTTTAAATCCTAGTAAACTCTATCCTATT
Found at i:554800 original size:17 final size:18
Alignment explanation
Indices: 554780--554815 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
554770 AAAATTGGTA
*
554780 ATTTATTA-AAAAATTAG
1 ATTTATTATAAAAAATAG
554797 ATTTATTATAAAAAATAG
1 ATTTATTATAAAAAATAG
554815 A
1 A
554816 AAGTTTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
ATTTATTATAAAAAATAG
Found at i:555179 original size:19 final size:19
Alignment explanation
Indices: 555152--555188 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
555142 AATATAAAAA
*
555152 TTTGGTAACAAATTCTAAT
1 TTTGATAACAAATTCTAAT
555171 TTTGATAACAAATTCTAA
1 TTTGATAACAAATTCTAA
555189 CATGTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (19 bp):
TTTGATAACAAATTCTAAT
Done.