Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009234.1 Hibiscus syriacus cultivar Beakdansim tig00112856_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: 912649
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:286142 original size:38 final size:37
Alignment explanation
Indices: 285943--286173 Score: 162
Period size: 38 Copynumber: 6.2 Consensus size: 37
285933 AAATATATTT
* *
285943 TTTTAAAAACTATATA-ATATATAAATGTTTTCAAAATG
1 TTTTCAAAACTATATATATATATACA--TTTTCAAAATG
*
285981 TTTTCAAAACTATAT-CATATA-A-ATTTTCAAAAATG
1 TTTTCAAAACTATATATATATATACATTTTC-AAAATG
*
286016 TTTTTCAAAACTATATATAT-TATACGTTTTCAAAAATG
1 -TTTTCAAAACTATATATATATATACATTTTC-AAAATG
* * *
286054 CTTTT-AAATA-TATATATATATATATATATAT-ATATAT-
1 -TTTTCAAA-ACTATATATATATATACAT-TTTCA-AAATG
* * *
286091 ATAT-ATATA-TATATATATATATACATTTTCAAAATG
1 TTTTCA-AAACTATATATATATATACATTTTCAAAATG
* *
286127 TTTTCAAAGACTATATAT-TATATATATTTTTAAAATG
1 TTTTCAAA-ACTATATATATATATACATTTTCAAAATG
286164 TTTTCGAAAA
1 TTTTC-AAAA
286174 AAAAACATAT
Statistics
Matches: 157, Mismatches: 19, Indels: 35
0.74 0.09 0.17
Matches are distributed among these distances:
34 5 0.03
35 11 0.07
36 42 0.27
37 43 0.27
38 54 0.34
39 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTCAAAACTATATATATATATACATTTTCAAAATG
Found at i:289940 original size:20 final size:20
Alignment explanation
Indices: 289915--289953 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
289905 CTTGAAACAA
*
289915 AAAGTGTGAAGAAAG-GAAGG
1 AAAGTG-GAAAAAAGTGAAGG
289935 AAAGTGGAAAAAAGTGAAG
1 AAAGTGGAAAAAAGTGAAG
289954 AAGAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.36, T:0.10
Consensus pattern (20 bp):
AAAGTGGAAAAAAGTGAAGG
Found at i:299791 original size:2 final size:2
Alignment explanation
Indices: 299784--299808 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
299774 AATTAGGTGA
299784 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
299809 AAAGTAGAAA
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:307208 original size:17 final size:18
Alignment explanation
Indices: 307177--307219 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
307167 AAGAGAAAAG
307177 AAACAAAGAAAAAAGCAA
1 AAACAAAGAAAAAAGCAA
307195 AAACAAAG-AAAAAGCAA
1 AAACAAAGAAAAAAGCAA
307212 AGAACAAA
1 A-AACAAA
307220 AAGAGGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.77, C:0.12, G:0.12, T:0.00
Consensus pattern (18 bp):
AAACAAAGAAAAAAGCAA
Found at i:308412 original size:12 final size:12
Alignment explanation
Indices: 308395--308425 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
308385 GATTAACATG
*
308395 CATACATCAATA
1 CATACATCAACA
308407 CATACATCAACA
1 CATACATCAACA
308419 CATACAT
1 CATACAT
308426 ACATATTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (12 bp):
CATACATCAACA
Found at i:309000 original size:36 final size:34
Alignment explanation
Indices: 308949--309083 Score: 139
Period size: 35 Copynumber: 3.9 Consensus size: 34
308939 TTTAAGAAAA
* *
308949 ATCTTTGAGTCTGTTT-CTTTAGAAACAAAATTAATC
1 ATCTTTGAGTTTGTTTCCCTT-GAAACAAAA--AATC
*
308985 ATCTTTGAGTTTGTTTCCCTTGAAACAAAACAAAC
1 ATCTTTGAGTTTGTTTCCCTTGAAACAAAA-AATC
* **
309020 ATCTTTGAGATTGTTTCCCTTGAAACAAAACCT-
1 ATCTTTGAGTTTGTTTCCCTTGAAACAAAAAATC
** *
309053 ATCTTTGAGTTTGTTTCTTTTGAAATAAAAA
1 ATCTTTGAGTTTGTTTCCCTTGAAACAAAAA
309084 TCTTTGAGTT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
33 26 0.31
35 32 0.38
36 24 0.28
37 3 0.04
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (34 bp):
ATCTTTGAGTTTGTTTCCCTTGAAACAAAAAATC
Found at i:309067 original size:33 final size:32
Alignment explanation
Indices: 308984--309098 Score: 137
Period size: 35 Copynumber: 3.6 Consensus size: 32
308974 CAAAATTAAT
308984 CATCTTTGAGTTTGTTTCCCTTGAAACAAAAC
1 CATCTTTGAGTTTGTTTCCCTTGAAACAAAAC
*
309016 AAACATCTTTGAGATTGTTTCCCTTGAAACAAAAC
1 ---CATCTTTGAGTTTGTTTCCCTTGAAACAAAAC
** *
309051 CTATCTTTGAGTTTGTTTCTTTTGAAATAAAA-
1 C-ATCTTTGAGTTTGTTTCCCTTGAAACAAAAC
309083 -ATCTTTGAG-TTGTTTC
1 CATCTTTGAGTTTGTTTC
309099 TTTTGAAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
29 7 0.09
30 9 0.12
32 1 0.01
33 26 0.35
35 31 0.42
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.42
Consensus pattern (32 bp):
CATCTTTGAGTTTGTTTCCCTTGAAACAAAAC
Found at i:309115 original size:26 final size:26
Alignment explanation
Indices: 309053--309132 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 26
309043 AACAAAACCT
309053 ATCTTTGAGTTTGTTTCTTTTGAAATAAAA
1 ATCTTTGAG-TTGTTTCTTTTG--A-AAAA
309083 ATCTTTGAGTTGTTTCTTTTGAAAAA
1 ATCTTTGAGTTGTTTCTTTTGAAAAA
*
309109 TTCTTTGAGTCTGTTTCTTTTGAA
1 ATCTTTGAGT-TGTTTCTTTTGAA
309133 CCAAAGTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
26 13 0.27
27 14 0.29
29 12 0.25
30 9 0.19
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (26 bp):
ATCTTTGAGTTGTTTCTTTTGAAAAA
Found at i:309203 original size:29 final size:30
Alignment explanation
Indices: 309168--309225 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
309158 ATTTCGTGAA
*
309168 AAAATCTTTGAG-TAATTTCTTTTGAAACC
1 AAAATCTCTGAGTTAATTTCTTTTGAAACC
**
309197 AAAATCTCTGAGTTTGTTTCTTTTGAAAC
1 AAAATCTCTGAGTTAATTTCTTTTGAAAC
309226 AAAGTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (30 bp):
AAAATCTCTGAGTTAATTTCTTTTGAAACC
Found at i:309229 original size:91 final size:90
Alignment explanation
Indices: 309079--309273 Score: 259
Period size: 91 Copynumber: 2.2 Consensus size: 90
309069 CTTTTGAAAT
** * * *
309079 AAAAATCTTTGAGTTGTTTCTTTTGAAAAATTCTTTGAGTCTGTTTCTTTTGAACCAAAGTTTTG
1 AAAAATCTTTGAGTAATTTCTTTTGAAAAAATCTCTGAGTCTGTTTCTTTTGAAACAAAGTTTTG
*
309144 TTTCTCTTAAGACA-ATTTCGTGA-
66 TCTCTCTTAAGACAGATTTCGTGAG
*
309167 AAAAATCTTTGAGTAATTTCTTTTGAAACCAAAATCTCTGAGTTTGTTTCTTTTGAAACAAAGTT
1 AAAAATCTTTGAGTAATTTCTTTTG-AA--AAAATCTCTGAGTCTGTTTCTTTTGAAACAAAGTT
* * *
309232 TTGTCTCTCTTGAGACAGTTTTCTTGAG
63 TTGTCTCTCTTAAGACAGATTTCGTGAG
309260 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
309274 CTATTCCTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
88 23 0.25
89 2 0.02
91 46 0.50
92 7 0.08
93 14 0.15
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (90 bp):
AAAAATCTTTGAGTAATTTCTTTTGAAAAAATCTCTGAGTCTGTTTCTTTTGAAACAAAGTTTTG
TCTCTCTTAAGACAGATTTCGTGAG
Found at i:309751 original size:134 final size:134
Alignment explanation
Indices: 309511--309852 Score: 470
Period size: 134 Copynumber: 2.6 Consensus size: 134
309501 AATCATTATC
* * * * *
309511 CCTAAAGATGGTCATAACTCTTCATCATGTATGAG-CGGTGTCATCTCCTGACCAGATCTCTTCA
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTC-GTGTCATCCCCTGACCAGATCTCCTCA
* * * * * *
309575 TCACGTAGGAGTCGTGTCACCCCTAGATAACCAGACGTCCTCATCATGTAGGAACTGTGTTATCG
65 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAAGAACCGAGTTATCA
309640 CCCTT
130 CCCTT
*
309645 CCTAAAAATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCTGACCAGATCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCTGACCAGATCTCCTCAT
** * * *
309710 TGCGTAGGAGCCGTGTCACCCCTAGATAACCTGCCGTCCTCATCGCGTAAGAACCGAGTTATCAC
66 CACGTAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAAGAACCGAGTTATCAC
309775 CCTT
131 CCTT
* * * * *
309779 CCTAAAGATGACTAGAACTCTTCAGCACGTATGAGTCGTGTCATCCCCCGACCAGATTTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCTGACCAGATCTCCTCAT
309844 CACGTAGGA
66 CACGTAGGA
309853 ACTGTATCAC
Statistics
Matches: 182, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
134 181 0.99
135 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (134 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCTGACCAGATCTCCTCAT
CACGTAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAAGAACCGAGTTATCAC
CCTT
Found at i:310073 original size:3 final size:3
Alignment explanation
Indices: 310067--310103 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
310057 TTTATTTTTA
310067 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
310104 ATATAACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:312926 original size:12 final size:12
Alignment explanation
Indices: 312909--312949 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
312899 ATAAAAACTG
312909 TTTTTTATTAAT
1 TTTTTTATTAAT
312921 TTTTTT-TT-AT
1 TTTTTTATTAAT
* *
312931 ATTTTTATTAAA
1 TTTTTTATTAAT
312943 TTTTTTA
1 TTTTTTA
312950 AATAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 7 0.29
11 4 0.17
12 13 0.54
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTATTAAT
Found at i:313172 original size:15 final size:16
Alignment explanation
Indices: 313152--313184 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
313142 TGATGCGACC
313152 TAAAATA-AATATTTT
1 TAAAATATAATATTTT
*
313167 TAAAATATATTATTTT
1 TAAAATATAATATTTT
313183 TA
1 TA
313185 TTTAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAAATATAATATTTT
Found at i:319082 original size:25 final size:25
Alignment explanation
Indices: 319052--319101 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
319042 ATCTTTAATC
*
319052 GTTAATTGATCGAACCTAAAATTAA
1 GTTAATTAATCGAACCTAAAATTAA
*
319077 GTTAATTAATCGGACCTAAAATTAA
1 GTTAATTAATCGAACCTAAAATTAA
319102 ACAACCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (25 bp):
GTTAATTAATCGAACCTAAAATTAA
Found at i:322534 original size:19 final size:20
Alignment explanation
Indices: 322507--322551 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
322497 ATTAGCAACA
* *
322507 TAAT-AAAAATGATTCTATT
1 TAATAAAAAATGATCCTATC
*
322526 TAATTAAAAATGATCCTATC
1 TAATAAAAAATGATCCTATC
322546 TAATAA
1 TAATAA
322552 CTAATAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (20 bp):
TAATAAAAAATGATCCTATC
Found at i:322535 original size:20 final size:20
Alignment explanation
Indices: 322510--322549 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
322500 AGCAACATAA
* *
322510 TAAAAATGATTCTATTTAAT
1 TAAAAATGATCCTATCTAAT
322530 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
322550 AACTAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:322592 original size:20 final size:21
Alignment explanation
Indices: 322563--322602 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
322553 TAATAGAATA
*
322563 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
322584 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
322603 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:322641 original size:20 final size:20
Alignment explanation
Indices: 322616--322654 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
322606 TAATAGAATA
*
322616 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
322636 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
322655 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:322645 original size:52 final size:52
Alignment explanation
Indices: 322508--322655 Score: 262
Period size: 52 Copynumber: 2.8 Consensus size: 52
322498 TTAGCAACAT
*
322508 AATAAAAA-TGATTCTATTTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
322559 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
322612 AATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
322656 TTTAATTTAG
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 3 0.03
52 45 0.48
53 45 0.48
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:327240 original size:19 final size:20
Alignment explanation
Indices: 327213--327257 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
327203 ATTAGCAACA
* *
327213 TAAT-AAAAATGATTCTATT
1 TAATAAAAAATGATCCTATC
*
327232 TAATTAAAAATGATCCTATC
1 TAATAAAAAATGATCCTATC
327252 TAATAA
1 TAATAA
327258 CTAATAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (20 bp):
TAATAAAAAATGATCCTATC
Found at i:327241 original size:20 final size:20
Alignment explanation
Indices: 327216--327255 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
327206 AGCAACATAA
* *
327216 TAAAAATGATTCTATTTAAT
1 TAAAAATGATCCTATCTAAT
327236 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
327256 AACTAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:327298 original size:20 final size:21
Alignment explanation
Indices: 327269--327308 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
327259 TAATAGAATA
*
327269 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
327290 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
327309 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:327347 original size:20 final size:20
Alignment explanation
Indices: 327322--327360 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
327312 TAATAGAATA
*
327322 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
327342 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
327361 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:327351 original size:52 final size:52
Alignment explanation
Indices: 327214--327361 Score: 262
Period size: 52 Copynumber: 2.8 Consensus size: 52
327204 TTAGCAACAT
*
327214 AATAAAAA-TGATTCTATTTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
327265 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
327318 AATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
327362 TTTAATTTAG
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 3 0.03
52 45 0.48
53 45 0.48
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:330003 original size:29 final size:29
Alignment explanation
Indices: 329961--330019 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
329951 TGCTCGCAGT
329961 CTATGAGCTATGTGTAGGATAAATTGGAC
1 CTATGAGCTATGTGTAGGATAAATTGGAC
329990 CTATGAGCTATGTGTAGGATAAATTGGAC
1 CTATGAGCTATGTGTAGGATAAATTGGAC
330019 C
1 C
330020 ATTCTTCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (29 bp):
CTATGAGCTATGTGTAGGATAAATTGGAC
Found at i:330076 original size:21 final size:21
Alignment explanation
Indices: 330037--330076 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
330027 AGAGTTTGTT
330037 CTTATATTTATTTATCTTAAG
1 CTTATATTTATTTATCTTAAG
330058 CTTAT-TTTATTTATGCTTA
1 CTTATATTTATTTAT-CTTA
330077 CGGATGCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.25, C:0.10, G:0.05, T:0.60
Consensus pattern (21 bp):
CTTATATTTATTTATCTTAAG
Found at i:335717 original size:17 final size:17
Alignment explanation
Indices: 335695--335729 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
335685 AGTTGGAGGA
335695 CTATTTGTATATTTTAC
1 CTATTTGTATATTTTAC
335712 CTATTTGTATATTTTAC
1 CTATTTGTATATTTTAC
335729 C
1 C
335730 CTAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.57
Consensus pattern (17 bp):
CTATTTGTATATTTTAC
Found at i:336172 original size:28 final size:28
Alignment explanation
Indices: 336141--336195 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
336131 TATGTTAGGA
*
336141 AGGACGAATTTAAACTTATAAAATTTTC
1 AGGACGAACTTAAACTTATAAAATTTTC
* * *
336169 AGGATGAACTTGAATTTATAAAATTTT
1 AGGACGAACTTAAACTTATAAAATTTT
336196 AGGGAGTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (28 bp):
AGGACGAACTTAAACTTATAAAATTTTC
Found at i:343513 original size:27 final size:26
Alignment explanation
Indices: 343482--343532 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
343472 CGACCAGCTG
* * *
343482 TTTGGGTAGTGGCAGTGGAGCCGGTCA
1 TTTGGGCAGTGACAGTCG-GCCGGTCA
343509 TTTGGGCAGTGACAGTCGGCCGGT
1 TTTGGGCAGTGACAGTCGGCCGGT
343533 AGTTTGGTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.14, C:0.18, G:0.43, T:0.25
Consensus pattern (26 bp):
TTTGGGCAGTGACAGTCGGCCGGTCA
Found at i:343538 original size:26 final size:26
Alignment explanation
Indices: 343458--343539 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
343448 ACCGACTGTA
* * *
343458 TGGGCAGTGACAATCGACCAGCT-GTT
1 TGGGCAGTGACAGTCGGCC-GGTAGTT
* * *
343484 TGGGTAGTGGCAGTGGAGCCGGTCA-TT
1 TGGGCAGTGACAGTCG-GCCGGT-AGTT
343511 TGGGCAGTGACAGTCGGCCGGTAGTT
1 TGGGCAGTGACAGTCGGCCGGTAGTT
343537 TGG
1 TGG
343540 TCTTCTTCAA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
25 1 0.02
26 25 0.58
27 17 0.40
ACGTcount: A:0.17, C:0.18, G:0.40, T:0.24
Consensus pattern (26 bp):
TGGGCAGTGACAGTCGGCCGGTAGTT
Found at i:343786 original size:15 final size:16
Alignment explanation
Indices: 343765--343806 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
343755 ATTATGATCA
343765 AAATATTTAAAATAAT
1 AAATATTTAAAATAAT
** *
343781 -AATATTTGTAATATT
1 AAATATTTAAAATAAT
343796 AAATATTTAAA
1 AAATATTTAAA
343807 TTTATCGAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AAATATTTAAAATAAT
Found at i:344231 original size:26 final size:26
Alignment explanation
Indices: 344194--344243 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
344184 TTTTTTAATA
*
344194 AAAATTATAATTAAATTATAATTATT
1 AAAATTAGAATTAAATTATAATTATT
* *
344220 AAAATTAGAATTAAGTTTTAATTA
1 AAAATTAGAATTAAATTATAATTA
344244 ATGATTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
AAAATTAGAATTAAATTATAATTATT
Found at i:344582 original size:15 final size:16
Alignment explanation
Indices: 344564--344600 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
344554 ATATATTTTA
344564 AATATTTTAA-TAAAT
1 AATATTTTAATTAAAT
344579 AATATTTTAATTAAAT
1 AATATTTTAATTAAAT
*
344595 GATATT
1 AATATT
344601 AAAATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AATATTTTAATTAAAT
Found at i:347179 original size:233 final size:233
Alignment explanation
Indices: 346772--347385 Score: 847
Period size: 233 Copynumber: 2.6 Consensus size: 233
346762 AAGTGGATAT
** * *
346772 TTAAATCCTTCAGGTCATATGTAAGTCTTTCGAGCAAGACGATAAGTCCTTCGGGAT-ATCCATA
1 TTAAATCCTTTGGGTCATATGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCAGG-TCATCCATA
* * * * *
346836 AGACCTTCGGACAAGATGTTTTCACATGTTTTTCGAAAAATGAGAAAGGTTTCTCATTTAAATCT
65 AGACCTTCGGGCAGGATGTTTTCACATATTTTTTGAAAAATGAGAAAGGTTTCTCATTTAAATAT
* *
346901 TAAAATTGAAAATTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAACTGTTTCCAAAATTGGTA
130 GAAAATTGAAAATTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTGTTTCCAAAATTGGTA
* * *
346966 AGTCCTTCGGGCCATCAATAAGTCTTTTGAGCATGATGC
195 AGTCATTCGGGCCATCAATAAGTCTTTCGAGCATGATGA
* *
347005 TTAAATCCTTTGGGTCATATGTAAGTCTTTTGAGCAAGATGATAAGTTCTTCAGGTCATCCATAA
1 TTAAATCCTTTGGGTCATATGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCAGGTCATCCATAA
*
347070 GAACTTCGGGCAGGATGTTTTCACATATTTTTTGAAAAATGAGAAAGGTTTCTCATTTAAATATG
66 GACCTTCGGGCAGGATGTTTTCACATATTTTTTGAAAAATGAGAAAGGTTTCTCATTTAAATATG
*
347135 AAAATTGAAAATTTTGAAAAGTAAGAAAAGTTTTTTACCTAGTAAACTGTTTCCAAAATTGGTAA
131 AAAATTGAAAATTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTGTTTCCAAAATTGGTAA
* * *
347200 GTCATTTGGGCCATCAGTATGTCTTTCGAGCATGATGA
196 GTCATTCGGGCCATCAATAAGTCTTTCGAGCATGATGA
* * * * * * *
347238 GTAAAT-CTTTCGGGTCATCTATAAGCCTTTCGAGCAAGATGACAAGTCCTT-ATGGCCATCCAC
1 TTAAATCCTTT-GGGTCATATGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCA-GGTCATCCAT
* * **
347301 AAGACCTTCAGGCAGGATGTTTTCACATGTTTTTTTTCGAAAAAATGAGAAAAATTTCTCATTTA
64 AAGACCTTCGGGCAGGATGTTTTCACA--TATTTTTT-G-AAAAATGAGAAAGGTTTCTCATTTA
*
347366 AATATGAAATTTGAAAATTT
125 AATATGAAAATTGAAAATTT
347386 CCGAAAAAAT
Statistics
Matches: 338, Mismatches: 36, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
232 6 0.02
233 282 0.83
235 7 0.02
236 1 0.00
237 42 0.12
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (233 bp):
TTAAATCCTTTGGGTCATATGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCAGGTCATCCATAA
GACCTTCGGGCAGGATGTTTTCACATATTTTTTGAAAAATGAGAAAGGTTTCTCATTTAAATATG
AAAATTGAAAATTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTGTTTCCAAAATTGGTAA
GTCATTCGGGCCATCAATAAGTCTTTCGAGCATGATGA
Found at i:347861 original size:132 final size:133
Alignment explanation
Indices: 347647--347934 Score: 382
Period size: 134 Copynumber: 2.2 Consensus size: 133
347637 ATCGAACCCC
* * * * * *
347647 ATTCCATCTTTCCTGAAGAATAATGGAATGAATCAACGTCCCTTAATATGATTTTCCCTCAGGAA
1 ATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACATCCCATAATATGATTTTCCCTCAAGAA
* * *
347712 AAAGCGAAACAAA-TCTCTCTTTCAAGATTTGATATTCCTTGAGTAGCAGTGGAAAAAGTCTGCC
66 AAAGCGAAACAAACTCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAAAAAGTCTGCC
347776 TCA
131 TCA
* *
347779 ATTCAATCTTCTCTGAGGAACAATGGAATGAATCAACATCCCCAT-ATATGATTTTCCCTCAAGA
1 ATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACAT-CCCATAATATGATTTTCCCTCAAGA
* * * * *
347843 AGAAGTGGAACATATCTCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAACAAGTCTG
65 AAAAGCGAAACA-AACTCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAAAAAGTCTG
**
347908 CCTTG
129 CCTCA
347913 ATTCAATCTTCCCTGAAGAACA
1 ATTCAATCTTCCCTGAAGAACA
347935 GTGTGTTGGG
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
132 60 0.45
133 5 0.04
134 68 0.51
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (133 bp):
ATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACATCCCATAATATGATTTTCCCTCAAGAA
AAAGCGAAACAAACTCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAAAAAGTCTGCC
TCA
Found at i:348639 original size:20 final size:20
Alignment explanation
Indices: 348591--348645 Score: 66
Period size: 15 Copynumber: 3.0 Consensus size: 20
348581 GTATCAGTCT
348591 TGTTCATATAGTATCGATAC
1 TGTTCATATAGTATCGATAC
*
348611 ---T-A-CTAGTATCGATAC
1 TGTTCATATAGTATCGATAC
348626 TGTTCATATAGTATCGATAC
1 TGTTCATATAGTATCGATAC
348646 ATATTTTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
15 12 0.43
16 1 0.04
17 1 0.04
18 1 0.04
19 1 0.04
20 12 0.43
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTTCATATAGTATCGATAC
Found at i:348714 original size:21 final size:21
Alignment explanation
Indices: 348679--348753 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
348669 GAGTATCGTC
*
348679 ACTGTTCATATAGTATTGATATT
1 ACTGTTC--ATAGTATTGATACT
* *
348702 ATTGTTCATAGTATCGATACT
1 ACTGTTCATAGTATTGATACT
348723 ACTGTTCATAGTATTGATACT
1 ACTGTTCATAGTATTGATACT
*
348744 ACTATTCATA
1 ACTGTTCATA
348754 CAATATCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 40 0.87
23 6 0.13
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (21 bp):
ACTGTTCATAGTATTGATACT
Found at i:348768 original size:20 final size:20
Alignment explanation
Indices: 348743--348807 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
348733 GTATTGATAC
348743 TACTATTCATACAATATCAA
1 TACTATTCATACAATATCAA
* **
348763 TACTATTTATACAATATTGA
1 TACTATTCATACAATATCAA
* *
348783 TAATATTCATACAGTATCAA
1 TACTATTCATACAATATCAA
348803 TACTA
1 TACTA
348808 CTTATAAAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.38
Consensus pattern (20 bp):
TACTATTCATACAATATCAA
Found at i:349303 original size:134 final size:132
Alignment explanation
Indices: 348948--349364 Score: 486
Period size: 134 Copynumber: 3.1 Consensus size: 132
348938 TTAGTTCAAC
* * * * **
348948 ACAGTGGAATGAATCAACGTCCCCAAATATGATTTTCCCTCAAGAAAAAGTAGAACAAATATATC
1 ACAGTGGAATGAATCAAAGT-CCCATATATGATTTTCCCTCAAGAAGAAGTGGAAC--ATATCCC
* * *
349013 TC-TTTCAAGATTTGATATTTCTTGAGTAACAGTGAAACAAGTCTACCTCGATTCAATCTT-CTC
63 TCTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCT-
*
349076 TGAGGA
127 TGAAGA
* ** * * * *
349082 ACAATATAATTAATCAACA-TCCC-TGGATCTGA--TTCCCTCAAGAAGAAGCGGGACATATCCC
1 ACAGTGGAATGAATCAA-AGTCCCAT--ATATGATTTTCCCTCAAGAAGAAGTGGAACATATCCC
* * *
349143 TCGTTTTCAAGATTTGATATTCCCTGAGTGATAGTGGAACAAGTCTACCTCAATTCAATCTTCCT
63 TC-TTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCT
349208 TGAAGA
127 TGAAGA
* *
349214 ACAGTGGAATGAATCAAAGTCTCCATATTTGATTTTCCCTCAGGAAGAAGTGGAACATATCCCTC
1 ACAGTGGAATGAATCAAAGTC-CCATATATGATTTTCCCTCAAGAAGAAGTGGAACATATCCCTC
* *
349279 ATTTTTAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTG
65 -TTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCTTG
349344 AAGA
129 AAGA
349348 ACAGTGGAATGAATCAA
1 ACAGTGGAATGAATCAA
349365 TGTTTCTCGA
Statistics
Matches: 238, Mismatches: 34, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
130 7 0.03
131 1 0.00
132 95 0.40
133 7 0.03
134 128 0.54
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (132 bp):
ACAGTGGAATGAATCAAAGTCCCATATATGATTTTCCCTCAAGAAGAAGTGGAACATATCCCTCT
TTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCTTGAA
GA
Found at i:353983 original size:2 final size:2
Alignment explanation
Indices: 353976--354002 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
353966 AAAACGCCAC
353976 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
354003 TTGGGCCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:356627 original size:177 final size:177
Alignment explanation
Indices: 356316--356662 Score: 414
Period size: 177 Copynumber: 2.0 Consensus size: 177
356306 AACATTACTG
* * *
356316 ACCCGCAATAAACATATTTATATAAAAAATAATTTTATTCAATAAAATAGGAATCTAATTAACAA
1 ACCCGCAATAAACATATTTATAAAAAAAATAATCTTATTCAATAAAATAGAAATCTAATTAACAA
* * * ** *
356381 AAATAATATATGGAGGGTTATTATTGCAATTATCCCCAAATAAATAAGGTATAATTACAATATTT
66 AAATAATATATAGAGGGTTATTATTACAATTATCCACAAATAAATAAGACATAATTACAATACTT
*
356446 TTTGGGTTCGGG-CAGGGTATTTTTCACCTTAATTCCAAACCTAATCCA
131 TTTGGG-TCGGGTC-GGGTATTTTTCACCTTAAATCCAAACCTAATCCA
* *
356494 ACCCGCAATAAACATATTTATAAAAAAATATTAATCTTATTTAATAAAATAGAAATCTAATTTA-
1 ACCCGCAATAAACATATTTATAAAAAAA-A-TAATCTTATTCAATAAAATAGAAATCTAATTAAC
* * * * * * * ***
356558 AAAAGT-ATATATAGAGGG-TATTATTATAATTGTTCATAACTATATAAGACATAATTATGTTAC
64 AAAAATAATATATAGAGGGTTATTATTACAATTATCCACAAATAAATAAGACATAATTACAATAC
* *
356621 TTTTTGGGTCGGGTCGGGTATTTTTCATCTTAAATCCGAACC
129 TTTTTGGGTCGGGTCGGGTATTTTTCACCTTAAATCCAAACC
356663 CGATCTGACC
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
176 29 0.20
177 40 0.28
178 38 0.27
179 6 0.04
180 29 0.20
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (177 bp):
ACCCGCAATAAACATATTTATAAAAAAAATAATCTTATTCAATAAAATAGAAATCTAATTAACAA
AAATAATATATAGAGGGTTATTATTACAATTATCCACAAATAAATAAGACATAATTACAATACTT
TTTGGGTCGGGTCGGGTATTTTTCACCTTAAATCCAAACCTAATCCA
Found at i:360703 original size:2 final size:2
Alignment explanation
Indices: 360696--360720 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
360686 CTTTTAATTG
360696 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
360721 ATTTGGAATA
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:370547 original size:59 final size:60
Alignment explanation
Indices: 370438--370592 Score: 156
Period size: 59 Copynumber: 2.6 Consensus size: 60
370428 TAGCACATAC
* * * *
370438 ATATAATTT-GGGATGAAATTGAAATGTTGAAAATGTTTGGGGACTAATTTAGAATGAAA
1 ATATAATTTAGGGATGAAATAGAAATATTCAAAATGTTTGAGGACTAATTTAGAATGAAA
* *
370497 GATATAATTTAGGGATGAAACTAG-AATATTCAAAA-G-TTGAGGACTGATTTAGAATGATA
1 -ATATAATTTAGGGATGAAA-TAGAAATATTCAAAATGTTTGAGGACTAATTTAGAATGAAA
* * * *
370556 ATCATAGTTTAAGGATGAAATTGAAATACTTAAAAAT
1 AT-ATAATTTAGGGATGAAATAGAAATA-TTCAAAAT
370593 TTAGGGATCA
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
58 4 0.05
59 39 0.49
60 16 0.20
61 18 0.23
62 2 0.03
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (60 bp):
ATATAATTTAGGGATGAAATAGAAATATTCAAAATGTTTGAGGACTAATTTAGAATGAAA
Found at i:373952 original size:70 final size:70
Alignment explanation
Indices: 373839--373983 Score: 272
Period size: 70 Copynumber: 2.1 Consensus size: 70
373829 AGGTTAAATC
*
373839 ACCCAAACGTTTCGTGATGATAAACTCGTAGTCAAACTTTATAAGCGAAATTTTGAGATTAAGAA
1 ACCCAAACGTTCCGTGATGATAAACTCGTAGTCAAACTTTATAAGCGAAATTTTGAGATTAAGAA
373904 TTGTT
66 TTGTT
*
373909 ACCCAAACGTTCCGTGATGATAAACTTGTAGTCAAACTTTATAAGCGAAATTTTGAGATTAAGAA
1 ACCCAAACGTTCCGTGATGATAAACTCGTAGTCAAACTTTATAAGCGAAATTTTGAGATTAAGAA
373974 TTGTT
66 TTGTT
373979 ACCCA
1 ACCCA
373984 CGTAGTTTGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (70 bp):
ACCCAAACGTTCCGTGATGATAAACTCGTAGTCAAACTTTATAAGCGAAATTTTGAGATTAAGAA
TTGTT
Found at i:379412 original size:22 final size:21
Alignment explanation
Indices: 379384--379439 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
379374 GGTTACATAA
*
379384 GTCATTCAGGACATATGTAT-AG
1 GTCATTCGGGACATA-G-ATGAG
*
379406 GTCATTCGGGATATAGATGAG
1 GTCATTCGGGACATAGATGAG
379427 GTCATTCGGGACA
1 GTCATTCGGGACA
379440 AACTTCACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.07
21 15 0.50
22 13 0.43
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (21 bp):
GTCATTCGGGACATAGATGAG
Found at i:384058 original size:20 final size:20
Alignment explanation
Indices: 384033--384125 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
384023 TTTTCCCAAT
384033 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
384053 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
384073 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
384094 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
384115 TCGCAATGCGA
1 TCGCAATGCGA
384126 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:384075 original size:41 final size:41
Alignment explanation
Indices: 384030--384125 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
384020 CGATTTTCCC
384030 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
384071 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
384112 AAATCGCAATGCGA
1 AATTCGCAATGCGA
384126 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:384079 original size:21 final size:20
Alignment explanation
Indices: 384033--384125 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
384023 TTTTCCCAAT
*
384033 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
384053 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
384073 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
384094 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
384115 TCGCAATGCGA
1 TCGCAATGCGA
384126 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:384139 original size:20 final size:20
Alignment explanation
Indices: 384114--384208 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
384104 AATTGGGAAA
*
384114 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
384134 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
384155 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
384175 TTCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
*
384195 TTCGCAACGCGATA
1 ATCGCAACGCGATA
384209 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:384728 original size:20 final size:20
Alignment explanation
Indices: 384703--384740 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
384693 CGATTCTCTC
384703 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
384723 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
384741 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:386080 original size:18 final size:18
Alignment explanation
Indices: 386059--386103 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
386049 TCCACTTCGG
*
386059 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
386077 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
386095 GAGCCATCA
1 GAGCCATCA
386104 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:386624 original size:19 final size:20
Alignment explanation
Indices: 386570--386636 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
386560 TAGTTTACTT
* *
386570 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
386590 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
386610 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
386629 TCGCAACG
1 TCGCAACG
386637 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:386644 original size:14 final size:14
Alignment explanation
Indices: 386625--386682 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
386615 ATGCGAAATG
386625 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
386639 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
386655 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
386671 AAAATCGCAACG
1 AAAATCGCAACG
386683 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:386667 original size:32 final size:33
Alignment explanation
Indices: 386609--386699 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
386599 GGAAATGGCT
*
386609 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
386642 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
386674 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
386700 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:386693 original size:19 final size:19
Alignment explanation
Indices: 386570--386704 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
386560 TAGTTTACTT
* **
386570 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
386590 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
386610 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
386629 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
386643 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
386661 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
386675 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
386694 TCGCAATGCGA
1 TCGCAACGCGA
386705 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:386735 original size:14 final size:14
Alignment explanation
Indices: 386716--386773 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
386706 TTGTGTTTCG
386716 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
386730 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
386746 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
386762 CGTTGCGATTTT
1 CGTTGCGATTTT
386774 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:386745 original size:19 final size:18
Alignment explanation
Indices: 386711--386810 Score: 99
Period size: 19 Copynumber: 5.9 Consensus size: 18
386701 GCGATTTGTG
386711 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
386727 TGT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
386743 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
386759 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
*
386776 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGAT-TTCA
386795 TTTCGCGTTGCGATTT
1 TTTCGCGTTGCGATTT
386811 TAAGTTTCGT
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
14 19 0.28
15 3 0.04
16 6 0.09
17 2 0.03
18 13 0.19
19 25 0.37
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Found at i:386750 original size:32 final size:33
Alignment explanation
Indices: 386711--386789 Score: 151
Period size: 32 Copynumber: 2.4 Consensus size: 33
386701 GCGATTTGTG
386711 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
386743 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
386776 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
386790 AGTCATTTCG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 27 0.59
33 19 0.41
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:388920 original size:20 final size:20
Alignment explanation
Indices: 388870--388920 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
388860 GCGATATTCT
* *
388870 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCA
388890 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
*
388910 CGTTGCAATAG
1 CGTTGCGATAG
388921 TCAAATGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:389305 original size:14 final size:14
Alignment explanation
Indices: 389286--389321 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
389276 ATTGTTTAAT
389286 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
389300 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
389314 TGATTTGT
1 TGATTTGT
389322 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:389447 original size:14 final size:14
Alignment explanation
Indices: 389428--389481 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
389418 CGAAATGGCT
389428 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
389442 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
389461 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
389475 ATCGCAA
1 ATCGCAA
389482 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:389454 original size:33 final size:33
Alignment explanation
Indices: 389409--389486 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
389399 AAAACAGACT
* ***
389409 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
389442 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
389475 ATCGCAATGCGA
1 ATCGCAATGCGA
389487 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:389548 original size:20 final size:20
Alignment explanation
Indices: 389493--389548 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
389483 GCGATTTTCA
*
389493 TTTCGCGTTGCGATAACCAT
1 TTTCGCGTTGCGATAGCCAT
389513 TTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
389533 TTTCACGTTGCGATAG
1 TTTCGCGTTGCGATAG
389549 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:389671 original size:628 final size:609
Alignment explanation
Indices: 388426--390319 Score: 3237
Period size: 628 Copynumber: 3.1 Consensus size: 609
388416 TGGTAAGTCA
*
388426 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGCACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
388491 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
*
388556 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACAGGGTCACAAAGTTGTTGATTC-
388621 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
195 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
*
388686 AAAGATGATTTGCAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
260 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
*
388751 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACAATCGCAACGCGAAATG
325 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
** ** ** *
388816 GCTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCGATAA
390 GCTATCGCAACGAGAAAATCGCAATGCGATTAACAAATCGCAATGCGATTTTCTCGTTGCGATAA
*
388881 CCATTTTCGCGTTGCGATAGCCATTTTCACGTTGCAATAGTCAAATGAATGTCTAATAAGTGATG
455 CCATTTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATG
388946 ACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTT
520 ACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTT
389011 AAAAGTGCACACATAAAATACACAT
585 AAAAGTGCACACATAAAATACACAT
389036 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
389101 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
*
389166 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACAGGGTCACAAAGTTGTTGATTCT
389231 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
389296 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
389361 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
389426 CTATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGATTTT
391 CTATCGCAACGAGAAAATCGCAATGCG--AT-----T---AAC----AAATCGCAATGCGATTTT
389491 CATTTCGCGTTGCGATAACCATTTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAAATG
442 C---T--CGTTGCGATAACCATTTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAAATG
389556 AATGTCTAATAAGTGATGACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACA
502 AATGTCTAATAAGTGATGACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACA
389621 TGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
567 TGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
389664 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
*
389729 TCAATAATTTGTTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
389794 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACAGGGTCACAAAGTTGTTGATTCT
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACAGGGTCACAAAGTTGTTGATTCT
389859 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
389924 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
389989 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
* * *
390054 TTATCGCAACGAGAAAATCGCAATGCGATT------T-----T-C-A-TTTCGCATTGCG-----
391 CTATCGCAACGAGAAAATCGCAATGCGATTAACAAATCGCAATGCGATTTTCTCGTTGCGATAAC
* * *
390100 -ATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGTCAAATGAA----T--TAAGTGATGA
456 CATTTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATGA
390158 CAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTA
521 CAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTA
390223 AAAGTGCACACATAAAATACACAT
586 AAAGTGCACACATAAAATACACAT
*
390247 AATGCAAGTTTTGTTAACATATATACTCCTTTTGTTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
390312 TCAATAAT
66 TCAATAAT
390320 AATTGTTAAA
Statistics
Matches: 1245, Mismatches: 20, Indels: 65
0.94 0.02 0.05
Matches are distributed among these distances:
583 171 0.14
585 1 0.00
589 44 0.04
595 6 0.00
600 4 0.00
601 1 0.00
602 1 0.00
603 1 0.00
608 1 0.00
609 221 0.18
610 193 0.16
611 2 0.00
616 1 0.00
619 1 0.00
621 1 0.00
623 14 0.01
626 3 0.00
628 579 0.47
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (609 bp):
AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACAGGGTCACAAAGTTGTTGATTCT
TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA
AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG
TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG
CTATCGCAACGAGAAAATCGCAATGCGATTAACAAATCGCAATGCGATTTTCTCGTTGCGATAAC
CATTTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATGA
CAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTA
AAAGTGCACACATAAAATACACAT
Found at i:389933 original size:14 final size:14
Alignment explanation
Indices: 389914--389949 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
389904 ATTGTTTAAT
389914 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
389928 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
389942 TGATTTGT
1 TGATTTGT
389950 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:391244 original size:24 final size:24
Alignment explanation
Indices: 391188--391246 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
391178 AGTCAGTATT
* *
391188 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
391212 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
391236 CGAATTTTGAT
1 CGAAATTTGAT
391247 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:391438 original size:12 final size:12
Alignment explanation
Indices: 391421--391445 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
391411 ATATAATCCT
391421 GAAGAAGAAAAA
1 GAAGAAGAAAAA
391433 GAAGAAGAAAAA
1 GAAGAAGAAAAA
391445 G
1 G
391446 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:393764 original size:19 final size:19
Alignment explanation
Indices: 393742--393839 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
393732 GGAAATTACT
393742 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
393761 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
393775 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
393794 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
393808 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
393827 ATCGCAACGCGAA
1 ATCGCAATGCGAA
393840 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:393784 original size:33 final size:33
Alignment explanation
Indices: 393742--393835 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
393732 GGAAATTACT
393742 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
393775 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
393808 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
393836 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:393870 original size:20 final size:20
Alignment explanation
Indices: 393845--393999 Score: 310
Period size: 20 Copynumber: 7.8 Consensus size: 20
393835 GCGAATTTAA
393845 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
393865 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
393885 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
393905 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
393925 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
393945 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
393965 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
393985 TTTCGCGTTGCGATT
1 TTTCGCGTTGCGATT
394000 CTCTCGTTGC
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 135 1.00
ACGTcount: A:0.10, C:0.20, G:0.21, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:393982 original size:14 final size:14
Alignment explanation
Indices: 393983--394016 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
393973 TGCGATTTTC
393983 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
393997 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
394011 ATTTTC
1 ATTTTC
394017 ATTTTGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:394157 original size:14 final size:14
Alignment explanation
Indices: 394138--394174 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
394128 CATCAATTAA
394138 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
394152 ACAAATCACCTTTT
1 ACAAATCAACTTTT
394166 ACAAATCAA
1 ACAAATCAA
394175 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:395595 original size:21 final size:21
Alignment explanation
Indices: 395529--395595 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
395519 GTGAATCGGG
*
395529 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
395549 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
395571 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
395592 CTCT
1 CTCT
395596 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:395614 original size:42 final size:41
Alignment explanation
Indices: 395529--395651 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
395519 GTGAATCGGG
* * * * *
395529 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
395571 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
395613 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
395652 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:397770 original size:19 final size:19
Alignment explanation
Indices: 397653--397837 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
397643 TCTTTTGGTT
*
397653 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* *
397672 GATAATGAGAATCACAACGC
1 GA-AATGAAAATCGCAACGC
**
397692 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
397710 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
397726 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
397744 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
397759 GAAATGAAAATCGCAACCTC
1 GAAATGAAAATCGCAA-CGC
*
397779 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
397798 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
397817 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
397836 GA
1 GA
397838 TTTTGGTTTC
Statistics
Matches: 134, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 61 0.46
20 42 0.31
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:397802 original size:39 final size:38
Alignment explanation
Indices: 397653--397837 Score: 156
Period size: 33 Copynumber: 5.1 Consensus size: 38
397643 TCTTTTGGTT
* * *
397653 GAAATGAAAATCGCAACGAGATAATGAGAATCACAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** *
397692 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** * *
397726 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
* *
397759 GAAATGAAAATCGCAACCTCGAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
*
397798 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
397836 GA
1 GA
397838 TTTTGGTTTC
Statistics
Matches: 124, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
33 42 0.34
34 15 0.12
35 2 0.02
38 23 0.19
39 28 0.23
40 14 0.11
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:397855 original size:19 final size:19
Alignment explanation
Indices: 397833--397878 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
397823 AAAATCGCAA
*
397833 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
397852 TGCGAATTTTTATTTCGCGT
1 TGCG-ATTTTGATTTCGCGT
397872 TGCGATT
1 TGCGATT
397879 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.11, C:0.15, G:0.26, T:0.48
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:398518 original size:20 final size:20
Alignment explanation
Indices: 398433--398526 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
398423 CGCTAAGTAA
*
398433 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
398453 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
398473 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
398494 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
398514 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
398527 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:398545 original size:41 final size:41
Alignment explanation
Indices: 398515--398610 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
398505 ATAGTCAGTA
* * *
398515 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
398556 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
398597 TCGCATTGCGAATT
1 TCGCATTGCGAATT
398611 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:398559 original size:20 final size:20
Alignment explanation
Indices: 398515--398607 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
398505 ATAGTCAGTA
* **
398515 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
398536 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
398556 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
398577 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
398597 TCGCATTGCGA
1 TCGCATTGCGA
398608 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:401924 original size:2 final size:2
Alignment explanation
Indices: 401917--401963 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
401907 CCCAAATCCC
401917 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
401959 AT AT A
1 AT AT A
401964 CACACAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:402378 original size:28 final size:28
Alignment explanation
Indices: 402338--402406 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
402328 CTTAGTCGAG
402338 AATCCCAAGCAGAACAGAACGGGGATAT
1 AATCCCAAGCAGAACAGAACGGGGATAT
402366 AATCCCAAGCAGAACAGAACGGGGATAT
1 AATCCCAAGCAGAACAGAACGGGGATAT
*
402394 AATCCCATGCAGA
1 AATCCCAAGCAGA
402407 CGTTGGAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.12
Consensus pattern (28 bp):
AATCCCAAGCAGAACAGAACGGGGATAT
Found at i:403601 original size:36 final size:36
Alignment explanation
Indices: 403552--403627 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
403542 GTGTTTTCTC
* *
403552 AGTATGCTCAGTCG-GATTAGAGGAATCAGACACTCG
1 AGTATGCTCAGTCGAG-TCAGAAGAATCAGACACTCG
*
403588 AGTATGACT-AGTCGAGTCAGAAGAATCAGATACTCG
1 AGTATG-CTCAGTCGAGTCAGAAGAATCAGACACTCG
403624 AGTA
1 AGTA
403628 CACCCATCCG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 32 0.91
37 3 0.09
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (36 bp):
AGTATGCTCAGTCGAGTCAGAAGAATCAGACACTCG
Found at i:404705 original size:30 final size:30
Alignment explanation
Indices: 404632--404752 Score: 125
Period size: 30 Copynumber: 4.0 Consensus size: 30
404622 CCAAGCAGAA
* *
404632 CAGAATGGGGATATAATCCCATGCATATGT
1 CAGAATGGGGATATAATCTCATGCAGATGT
** *
404662 CAGAACAGTGATATAATCTCATGCAGATGT
1 CAGAATGGGGATATAATCTCATGCAGATGT
* * ** * *
404692 CATAATGGGGATATCATCGAATACAGATTT
1 CAGAATGGGGATATAATCTCATGCAGATGT
* *
404722 CAGAATGGGGATATAATGTCATGCAAATGT
1 CAGAATGGGGATATAATCTCATGCAGATGT
404752 C
1 C
404753 GGAAATGCAT
Statistics
Matches: 69, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (30 bp):
CAGAATGGGGATATAATCTCATGCAGATGT
Found at i:405388 original size:20 final size:20
Alignment explanation
Indices: 405363--405401 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
405353 CAATGGCCAA
405363 GGTCAATAATCAAC-GTCAAT
1 GGTCAA-AATCAACGGTCAAT
*
405383 GGTCAAAGTCAACGGTCAA
1 GGTCAAAATCAACGGTCAA
405402 CGAGTCAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
GGTCAAAATCAACGGTCAAT
Found at i:411707 original size:39 final size:38
Alignment explanation
Indices: 411648--411728 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 38
411638 GTTTTTGATT
* * *
411648 AACCCAACCCGACTCGAAAAATATATACTC-TCCACCCG
1 AACCCAACCCGACCCAAAAAATATATA-TCGTCCACCCA
411686 AACCCAGACCCGACCCAAAAAATATATATCGTCCACCCA
1 AACCCA-ACCCGACCCAAAAAATATATATCGTCCACCCA
411725 AACC
1 AACC
411729 TGACTTGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 8 0.21
39 30 0.79
ACGTcount: A:0.40, C:0.40, G:0.07, T:0.14
Consensus pattern (38 bp):
AACCCAACCCGACCCAAAAAATATATATCGTCCACCCA
Found at i:414872 original size:33 final size:34
Alignment explanation
Indices: 414835--414903 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 34
414825 TTTGATTGTC
*
414835 TGATTTGAACATATGTGGTTGACAATTG-TTTTA
1 TGATTTGAACAAATGTGGTTGACAATTGCTTTTA
* *
414868 TGATTTGAATAAATGTGGTTGGCAATTGCTTTTA
1 TGATTTGAACAAATGTGGTTGACAATTGCTTTTA
414902 TG
1 TG
414904 TTATCATGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 25 0.78
34 7 0.22
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (34 bp):
TGATTTGAACAAATGTGGTTGACAATTGCTTTTA
Found at i:417063 original size:31 final size:32
Alignment explanation
Indices: 416996--417137 Score: 128
Period size: 32 Copynumber: 4.4 Consensus size: 32
416986 TTGGGCGTAG
* * * *
416996 GAGCCAACCTAAGGAAATGCCTTGGGGGCCTTA
1 GAGCCTACCCAAGGAAATACCTT-GGGGCCTAA
*
417029 GAGCCTACCCAA-GAAATACCTTGGGGCCTCA
1 GAGCCTACCCAAGGAAATACCTTGGGGCCTAA
* *
417060 GAGCCTACCCAATGG-AGTACTTTGGGGCCTGAA
1 GAGCCTACCCAA-GGAAATACCTTGGGGCCT-AA
* * * *
417093 G-GCCTGCCCAAGGGAACATCTTGGGGCCTAA
1 GAGCCTACCCAAGGAAATACCTTGGGGCCTAA
*
417124 GAGTCTACCCAAGG
1 GAGCCTACCCAAGG
417138 GTTACCTTAG
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
31 25 0.28
32 52 0.58
33 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.29, T:0.18
Consensus pattern (32 bp):
GAGCCTACCCAAGGAAATACCTTGGGGCCTAA
Found at i:418646 original size:21 final size:20
Alignment explanation
Indices: 418622--418677 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
418612 TATGTAATAT
*
418622 TTTGGAACATATATGCGGTTC
1 TTTGGAACATATAT-CGGTCC
*
418643 TTTGTGACACATAT-TTGGTCC
1 TTTG-GA-ACATATATCGGTCC
*
418664 TTTGGAATATATAT
1 TTTGGAACATATAT
418678 AAGATCCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 5 0.17
20 3 0.10
21 12 0.41
22 3 0.10
23 6 0.21
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (20 bp):
TTTGGAACATATATCGGTCC
Found at i:423672 original size:31 final size:29
Alignment explanation
Indices: 423632--423702 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
423622 TCTACGTCCA
423632 AGTGGTATAATTGAAACAAAA-AACAAAGTTT
1 AGTGGTATAATTG--ACAAAATAA-AAAGTTT
* *
423663 AGTGTTATAATTGACAAAATTAAAAGTTT
1 AGTGGTATAATTGACAAAATAAAAAGTTT
423692 AGTGGTATAAT
1 AGTGGTATAAT
423703 GATACAACGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 23 0.64
30 1 0.03
31 12 0.33
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.32
Consensus pattern (29 bp):
AGTGGTATAATTGACAAAATAAAAAGTTT
Found at i:427234 original size:12 final size:12
Alignment explanation
Indices: 427228--427262 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
427218 ATTGTTATCG
*
427228 TTGTTGTTGTTA
1 TTGTTGTTGTCA
427240 TTGTTGTTGTCA
1 TTGTTGTTGTCA
427252 TTGTTGTTGTC
1 TTGTTGTTGTC
427263 TAAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.06, G:0.26, T:0.63
Consensus pattern (12 bp):
TTGTTGTTGTCA
Found at i:427239 original size:15 final size:15
Alignment explanation
Indices: 427219--427249 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
427209 GAGTTTATTA
427219 TTGTTATCGTTGTTG
1 TTGTTATCGTTGTTG
*
427234 TTGTTATTGTTGTTG
1 TTGTTATCGTTGTTG
427249 T
1 T
427250 CATTGTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.03, G:0.26, T:0.65
Consensus pattern (15 bp):
TTGTTATCGTTGTTG
Found at i:431582 original size:3 final size:3
Alignment explanation
Indices: 431569--431640 Score: 126
Period size: 3 Copynumber: 23.7 Consensus size: 3
431559 TTTTTACCCA
431569 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
431615 TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
431641 AATATATTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:432097 original size:12 final size:12
Alignment explanation
Indices: 432060--432097 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 12
432050 CGAACCTGAA
432060 AAAAAAAAG-AG
1 AAAAAAAAGAAG
432071 AAAAAAAAGACAG
1 AAAAAAAAGA-AG
432084 AAAAAAAAGAAG
1 AAAAAAAAGAAG
432096 AA
1 AA
432098 CACAGAGCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 9 0.36
12 4 0.16
13 12 0.48
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:432806 original size:30 final size:30
Alignment explanation
Indices: 432760--432820 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
432750 ATTAAAATAA
432760 TATATTTAGGATAAATAACAGATTTAATCCCT
1 TATATTTA-GATAAATAACA-ATTTAATCCCT
* *
432792 TATATTTA-ATAAATAATATTTTAATCCCT
1 TATATTTAGATAAATAACAATTTAATCCCT
432821 AGTTTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 10 0.37
30 9 0.33
32 8 0.30
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (30 bp):
TATATTTAGATAAATAACAATTTAATCCCT
Found at i:444451 original size:10 final size:9
Alignment explanation
Indices: 444436--444495 Score: 59
Period size: 10 Copynumber: 6.1 Consensus size: 9
444426 ATGCTTGAAG
444436 AAAAGAAAGA
1 AAAAGAAA-A
444446 AAAAGAAAA
1 AAAAGAAAA
444455 AGAGAA-AAAA
1 A-A-AAGAAAA
444465 AAAAGAAAAA
1 AAAAG-AAAA
444475 AAATAGAAAAA
1 AAA-AG-AAAA
444486 AAAAGAAAA
1 AAAAGAAAA
444495 A
1 A
444496 GGAGGGTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
8 2 0.04
9 8 0.18
10 23 0.51
11 12 0.27
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:444471 original size:11 final size:11
Alignment explanation
Indices: 444436--444495 Score: 68
Period size: 11 Copynumber: 5.3 Consensus size: 11
444426 ATGCTTGAAG
*
444436 AAAAGAAAGAAA
1 AAAAAAAAG-AA
444448 AAGAAAAAGAGAA
1 AA-AAAAA-AGAA
444461 AAAAAAAAGAA
1 AAAAAAAAGAA
*
444472 AAAAAATAG-A
1 AAAAAAAAGAA
444482 AAAAAAAAGAA
1 AAAAAAAAGAA
444493 AAA
1 AAA
444496 GGAGGGTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
10 9 0.21
11 16 0.38
12 7 0.17
13 8 0.19
14 2 0.05
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:444475 original size:21 final size:20
Alignment explanation
Indices: 444436--444495 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
444426 ATGCTTGAAG
*
444436 AAAAG-AAAGAAAAAG-AAA
1 AAAAGAAAAAAAAAAGAAAA
*
444454 AAGAGAAAAAAAAAAGAAAA
1 AAAAGAAAAAAAAAAGAAAA
*
444474 AAAATAGAAAAAAAAAGAAAA
1 AAAAGA-AAAAAAAAAGAAAA
444495 A
1 A
444496 GGAGGGTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.11
19 9 0.26
20 7 0.20
21 15 0.43
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAAAAAAAGAAAA
Found at i:445771 original size:83 final size:83
Alignment explanation
Indices: 445632--446292 Score: 1240
Period size: 83 Copynumber: 8.0 Consensus size: 83
445622 GAAAGAGACT
445632 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
445697 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
445715 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
445780 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
445798 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
445863 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
* *
445881 CAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAA-CAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
445945 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
445963 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
446028 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
446046 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
*
446111 TTTAGAAGATGAATTAGC
66 TTTAGAAGATGAATTTGC
*
446129 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
446193 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
446211 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG-ACCAATCATTGA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAATCATTGA
*
446274 ATTTGGAAGATGAATTTGC
65 ATTTAGAAGATGAATTTGC
446293 TCATAGTAAA
Statistics
Matches: 566, Mismatches: 9, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
81 1 0.00
82 180 0.32
83 385 0.68
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (83 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
TTTAGAAGATGAATTTGC
Found at i:446041 original size:165 final size:166
Alignment explanation
Indices: 445632--446292 Score: 1240
Period size: 165 Copynumber: 4.0 Consensus size: 166
445622 GAAAGAGACT
445632 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
445697 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
445762 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
131 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
445798 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
* *
445863 TTTAGAAGATGAATTTGCCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAG
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
445928 ACAGAA-CAATCATTGAATTTAGAAGATGAATTTGC
131 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
445963 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
446028 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
*
446093 ACAGAACCAATCATTGAATTTAGAAGATGAATTAGC
131 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
*
446129 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
446193 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTG
*
446258 G-CAG-ACCAATCATTGAATTTGGAAGATGAATTTGC
130 GACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
446293 TCATAGTAAA
Statistics
Matches: 485, Mismatches: 8, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
164 29 0.06
165 237 0.49
166 219 0.45
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (166 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
Found at i:446078 original size:248 final size:248
Alignment explanation
Indices: 445632--446292 Score: 1245
Period size: 248 Copynumber: 2.7 Consensus size: 248
445622 GAAAGAGACT
445632 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAA
445697 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
65 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
445762 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGA
130 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGA
*
445827 GTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
195 GTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAATTAGC
* *
445881 CAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACAATCATTGAAT
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAAT
445946 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
66 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
446011 CAGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
131 CAGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
446076 TTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAATTAGC
196 TTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAATTAGC
*
446129 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAGT
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAAT
446194 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
66 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGG
*
446259 -CAG-ACCAATCATTGAATTTGGAAGATGAATTTGC
130 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
446293 TCATAGTAAA
Statistics
Matches: 404, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
247 30 0.07
248 319 0.79
249 55 0.14
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (248 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAAT
TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
CAGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAATTAGC
Found at i:447521 original size:112 final size:113
Alignment explanation
Indices: 447095--447788 Score: 823
Period size: 112 Copynumber: 6.0 Consensus size: 113
447085 ACTCAAATCT
* ** *
447095 ATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCAATTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * * **
447160 GAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
* ** *
447208 ATCATTTGATGGATCAACATTACCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCAATTGATGGATCAACATTTTCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * *
447272 GGAAG-AGAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC-TCAAATCC
62 GGAAGAAG-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAT-GAATTC
*
447324 ATC-ATTAGATGGATCAGC-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 ATCAATT-GATGGATCAACATTTT-CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
447387 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTC
64 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
*
447437 ATCAATTGATGGATCAACATTTTCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
1 ATCAATTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
447501 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGCAT-AATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
** * *
447548 TATCACAGAAGGAGATAGATTAACATCAGCCTTTCTAGAGAAAGTTCATAATGAGAAGAACTCAT
1 -AT--C--AA-TTGATGGATCAACAT-----TTTC-AGAGAAAGTTCATAATGAGAAGAACTCAT
* *
447613 CTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTACATGAATTC
54 CTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
* *
447673 ATCAATTGATGGATCAACATTTTCAGAG-AAGTTCATAATGAGAAGAACCCATCTGAAGAAGAAA
1 ATCAATTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
447737 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGCAT-AATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
447784 TATCA
1 -ATCA
447789 CAGAAGGAGA
Statistics
Matches: 504, Mismatches: 47, Indels: 61
0.82 0.08 0.10
Matches are distributed among these distances:
111 10 0.02
112 148 0.29
113 121 0.24
114 16 0.03
115 8 0.02
116 89 0.18
117 12 0.02
119 11 0.02
120 2 0.00
122 5 0.01
123 6 0.01
124 71 0.14
125 5 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (113 bp):
ATCAATTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
Found at i:447604 original size:124 final size:122
Alignment explanation
Indices: 447457--447849 Score: 540
Period size: 124 Copynumber: 3.3 Consensus size: 122
447447 GGATCAACAT
447457 TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
1 TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
447522 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAACATCAGCC
66 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAACATCAGCC
* *
447579 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAG
1 TTTC-AGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG-AAGTTCATAATAAG
** * * ** * *
447643 AAGAGCTTGTTCAACCTTTTACATGAATTC-AT--C--AA-TTGATGGATCAACAT-----
63 AAGAATTTGTTCAACTTTTTGCAT-AATTCTATCACAGAAGGAGATAGATTAACATCAGCC
*
447693 TTTCAGAGAAGTTCATAATGAGAAGAACCCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
1 TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
*
447758 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
66 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAACATCAGCC
447815 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC
1 TTTC-AGAG-AAGTTCATAATGAGAAGAACTCATC
447850 AAAAGCTTAT
Statistics
Matches: 230, Mismatches: 23, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
111 5 0.02
112 70 0.30
113 6 0.03
114 5 0.02
116 2 0.01
117 10 0.04
119 11 0.05
120 2 0.01
122 9 0.04
123 10 0.04
124 95 0.41
125 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (122 bp):
TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAACATCAGCC
Found at i:447640 original size:236 final size:236
Alignment explanation
Indices: 447114--447849 Score: 1072
Period size: 236 Copynumber: 3.1 Consensus size: 236
447104 TGGATTGACA
447114 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAG
* * *** * **
447178 AAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTACCAG-GTAGAGTT
65 AAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAG-A-AGTT
* * **
447242 CATAATGAGAAGAACTCGTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAGCTTGTTC
128 CATAATGAGAAGAA--C-TCATCTGAAGAAGAAAGAAG-AAGTTCATAATAAGAAGAATTTGTTC
* ** * * *
447306 AACCTTTTGC-TCAA----ATC-C---ATCA-TTAGA-T-GGATCAGCT
189 AACTTTTTGCAT-AATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
447343 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA-AGAAGTTCATAATGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGA-AAGTTCATAATGAG
447407 AAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCA
65 AAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCA
447472 TAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTT
130 TAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTT
*
447537 TTGCATAATTCTATCACAGAAGGAGATAGATTAACATCAGCC
195 TTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
*
447579 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAGTTCATAATGAGA
*
447644 AGAGCTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCAT
66 AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCAT
*
447709 AATGAGAAGAACCCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
131 AATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
447774 TGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
196 TGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
*
447815 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC
447850 AAAAGCTTAT
Statistics
Matches: 467, Mismatches: 23, Indels: 27
0.90 0.04 0.05
Matches are distributed among these distances:
225 50 0.11
226 4 0.01
227 1 0.00
228 21 0.04
229 110 0.24
230 2 0.00
233 2 0.00
234 4 0.01
235 1 0.00
236 271 0.58
237 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (236 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCAT
AATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
TGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
Found at i:448105 original size:3 final size:3
Alignment explanation
Indices: 448092--448159 Score: 111
Period size: 3 Copynumber: 22.7 Consensus size: 3
448082 TTTTTACCCA
448092 TAT TAAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
448137 TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
448160 AATATATTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 56 0.92
4 3 0.05
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:452414 original size:24 final size:24
Alignment explanation
Indices: 452387--452434 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
452377 ACTTCCAAAC
452387 GTTCTAATCGAAACCTCGAAGTTT
1 GTTCTAATCGAAACCTCGAAGTTT
*
452411 GTTCTAATCGAATCCTCGAAGTTT
1 GTTCTAATCGAAACCTCGAAGTTT
452435 CATCTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (24 bp):
GTTCTAATCGAAACCTCGAAGTTT
Found at i:453028 original size:2 final size:2
Alignment explanation
Indices: 453021--453047 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
453011 GCTTAGTCAT
453021 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
453048 CAGCTGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:456580 original size:15 final size:15
Alignment explanation
Indices: 456560--456609 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
456550 CGCCCCGCAT
*
456560 CCGCCCCGCATCCAC
1 CCGCCCCGCATCCGC
456575 CCG-CCCGCATCCGC
1 CCGCCCCGCATCCGC
*
456589 CCGCCCCACATCCGC
1 CCGCCCCGCATCCGC
456604 CCGCCC
1 CCGCCC
456610 AACTAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 13 0.41
15 19 0.59
ACGTcount: A:0.10, C:0.68, G:0.16, T:0.06
Consensus pattern (15 bp):
CCGCCCCGCATCCGC
Found at i:456583 original size:14 final size:14
Alignment explanation
Indices: 456548--456609 Score: 67
Period size: 14 Copynumber: 4.5 Consensus size: 14
456538 TGAGACCTCA
456548 CCCGCCCCGCATCCG
1 CCCG-CCCGCATCCG
*
456563 --C-CCCGCATCCA
1 CCCGCCCGCATCCG
456574 CCCGCCCGCATCCG
1 CCCGCCCGCATCCG
*
456588 CCCGCCCCACATCCG
1 CCCG-CCCGCATCCG
456603 CCCGCCC
1 CCCGCCC
456610 AACTAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.22
13 2 0.05
14 16 0.40
15 13 0.32
ACGTcount: A:0.10, C:0.68, G:0.16, T:0.06
Consensus pattern (14 bp):
CCCGCCCGCATCCG
Found at i:456603 original size:25 final size:25
Alignment explanation
Indices: 456546--456607 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 25
456536 TTTGAGACCT
*
456546 CACCCGCCCCGCATCCGCCCCGCATC
1 CACCCG-CCCGCATCCGCCCCGCACC
456572 CACCCGCCCGCATCCG-CCCGC-CC
1 CACCCGCCCGCATCCGCCCCGCACC
456595 CACATCCGCCCGC
1 CAC--CCGCCCGC
456608 CCAACTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 4 0.12
24 5 0.15
25 18 0.55
26 6 0.18
ACGTcount: A:0.11, C:0.66, G:0.16, T:0.06
Consensus pattern (25 bp):
CACCCGCCCGCATCCGCCCCGCACC
Found at i:459148 original size:2 final size:2
Alignment explanation
Indices: 459133--459201 Score: 124
Period size: 2 Copynumber: 35.5 Consensus size: 2
459123 ATGTTAAATG
459133 TA TA -A TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
459173 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
459202 TAAAAAATCA
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 63 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:464167 original size:168 final size:168
Alignment explanation
Indices: 463889--464732 Score: 1294
Period size: 168 Copynumber: 5.0 Consensus size: 168
463879 TTCATCGTTT
** *
463889 TCTTGAATGACACTCTGCAACTCAGTTTCTTTATAGAACAAACTCTCCTTTAATTTCGTGCTCTC
1 TCTTGAATGACACTCTGCAACTCAGTTTCTTTATCCAACAAACTCTCCTTTAATTTCATGCTCTC
* *
463954 AATCTTGACTTCCTCTAGAGATTCTTGCAGATAAATCACCTTAGATTCAACTTCCTTTAGGCTAT
66 AGTCTTGACTTCCTCTAGAGCTTCTTGCAGATAAATCACCTTAGATTCAACTTCCTTTAGGCTAT
*
464019 CCTTCAACCGAATTTCTTCCTCCTTGGACTCAGAAGCC
131 CCTTCAACCGAGTTTCTTCCTCCTTGGACTCAGAAGCC
* * * * * * *
464057 TCTTGAATGACACTCTGCAACTCCGTTTCTTTAGCCAGCAACCTCTCGTCTAGTTTCATGCTCTC
1 TCTTGAATGACACTCTGCAACTCAGTTTCTTTATCCAACAAACTCTCCTTTAATTTCATGCTCTC
* * * * *
464122 GGCCTTGACTTTCTCTAGGGCTTCTTGCAGATAAATCACCTTAGATTTAACTTCCTTTAGGCTAT
66 AGTCTTGACTTCCTCTAGAGCTTCTTGCAGATAAATCACCTTAGATTCAACTTCCTTTAGGCTAT
* *
464187 CCTTCAACAGAGTTTCTTCCTCCTTGGACTCGGAAGCC
131 CCTTCAACCGAGTTTCTTCCTCCTTGGACTCAGAAGCC
* * * * * *
464225 TCTTGAATGGCACTCTGCAACTCAGCTTCTTTATCCAACAAAGTC-CTTTTTAATTCCATGCTAT
1 TCTTGAATGACACTCTGCAACTCAGTTTCTTTATCCAACAAACTCTC-CTTTAATTTCATGCTCT
* * * * *
464289 CGGTCCTGACTTTCTCCAGAGCTTCTTGCAGATAAATCACTTTAGATTCAACTTCCTTTAGGCTA
65 CAGTCTTGACTTCCTCTAGAGCTTCTTGCAGATAAATCACCTTAGATTCAACTTCCTTTAGGCTA
*
464354 TCCTTCAACCGAGTTTCTTCCTCCTTGGACTCGGAAGCC
130 TCCTTCAACCGAGTTTCTTCCTCCTTGGACTCAGAAGCC
*
464393 TCTTGAATGGCACTCTGCAACTCAGTTTCTTTATCCAACAAACTCTCCTTTAATTTCATGCTCTC
1 TCTTGAATGACACTCTGCAACTCAGTTTCTTTATCCAACAAACTCTCCTTTAATTTCATGCTCTC
*
464458 AGTCTTGACTTCCTCTAGAGCTTCTTGCAGATAAATCACCTTAGATTCAACTTCCTTAAGGCTAT
66 AGTCTTGACTTCCTCTAGAGCTTCTTGCAGATAAATCACCTTAGATTCAACTTCCTTTAGGCTAT
464523 CCTTCAACCGAGTTTCTTCCTCCTTGGACTCAGAAGCC
131 CCTTCAACCGAGTTTCTTCCTCCTTGGACTCAGAAGCC
* * *
464561 TCTTGAATGACACTCTGCAACTCGGTTTCTTTATCCAACAAACTCTCCTTTAATTTCGTGCTATC
1 TCTTGAATGACACTCTGCAACTCAGTTTCTTTATCCAACAAACTCTCCTTTAATTTCATGCTCTC
* *
464626 AGTCTTGAGTTCCTCCAGAGCTTCTTGCAGATAAATCACCTTAGATTCAACTTCCTTTAGGCTAT
66 AGTCTTGACTTCCTCTAGAGCTTCTTGCAGATAAATCACCTTAGATTCAACTTCCTTTAGGCTAT
* **
464691 CCTTCAACCGAGCTTCTTCCTCCTTGGACGAAGAAGCC
131 CCTTCAACCGAGTTTCTTCCTCCTTGGACTCAGAAGCC
464729 TCTT
1 TCTT
464733 CCTCGGATTG
Statistics
Matches: 613, Mismatches: 61, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
167 1 0.00
168 611 1.00
169 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.35
Consensus pattern (168 bp):
TCTTGAATGACACTCTGCAACTCAGTTTCTTTATCCAACAAACTCTCCTTTAATTTCATGCTCTC
AGTCTTGACTTCCTCTAGAGCTTCTTGCAGATAAATCACCTTAGATTCAACTTCCTTTAGGCTAT
CCTTCAACCGAGTTTCTTCCTCCTTGGACTCAGAAGCC
Found at i:467524 original size:2 final size:2
Alignment explanation
Indices: 467519--467551 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
467509 TTTTTAAGCT
467519 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
467552 TATTTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:469148 original size:222 final size:221
Alignment explanation
Indices: 468762--469397 Score: 848
Period size: 222 Copynumber: 2.8 Consensus size: 221
468752 CTTATTCATA
* *
468762 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTC--G-GG-TTTCTAATTCATATATTC
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGGTGGATTTCTAATTCATATATTC
* *
468823 GAGTCGGGTC-G--GGTGAAACTTTATTTTGGTCGGGTCGGATCTGATTTTTTTAAGTGTGATAT
66 GGGTCGGGTCGGATGGTGAAACTTTATTTTGGTCGGGT--G-TCGGATTTTTTTAAGTGTGATAT
*
468885 TCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCTGAAAATATATATAATT
128 TCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATT
468950 CAGGTCGGATCGGATTAAGTCACTGTTTT
193 CAGGTCGGATCGGATTAAGTCACTGTTTT
*
468979 TATTAAATAAAAATAATTTTTTATTATTTCGGGCCGGGTCGGGTTGGATTTCTAATTCATATATT
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGG-TGGATTTCTAATTCATATATT
*
469044 CGGGTCGGGTCGGATCGGATGAAACTTTATTTTGTTCGGGT-T-GGATTTTTTTAAGTGTGATAT
65 CGGGTCGGGTCGGAT-GG-TGAAACTTTATTTTGGTCGGGTGTCGGATTTTTTTAAGTGTGATAT
* *
469107 TCGGTTCGGGTCGGGTTCGGTTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATT
128 TCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATT
* *
469172 CGGGTCGGGTCGGATTAAGTCACTGTTTT
193 CAGGTCGGATCGGATTAAGTCACTGTTTT
*
469201 TATTAAATAAAAATAATTTTTAATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATT
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGGT-GGATTTCTAATTCATATATT
*
469266 CGGGTCGGGTCGGA---TGAAACTTTATTTTTTTCGGGTCGGGTCGAGTAGGGTCGGGTTTTTTT
65 CGGGTCGGGTCGGATGGTGAAACTTTA---TTTT--GGTC--G--G-GT---GTCGGATTTTTTT
* * * *
469328 AAGTGTGATATTCGGGTCAGGTCGGGTTCGGGTTTAGGATGAAAAAAA-TGGACCAACCCGAAAA
117 AAGTGTGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAA
469392 TATATA
182 TATATA
469398 ATTTTACCTT
Statistics
Matches: 372, Mismatches: 21, Indels: 38
0.86 0.05 0.09
Matches are distributed among these distances:
217 47 0.13
219 1 0.00
220 4 0.01
221 3 0.01
222 214 0.58
223 2 0.01
224 1 0.00
226 3 0.01
227 23 0.06
231 21 0.06
232 53 0.14
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (221 bp):
TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGGTGGATTTCTAATTCATATATTC
GGGTCGGGTCGGATGGTGAAACTTTATTTTGGTCGGGTGTCGGATTTTTTTAAGTGTGATATTCG
GGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAG
GTCGGATCGGATTAAGTCACTGTTTT
Found at i:469890 original size:22 final size:22
Alignment explanation
Indices: 469860--469901 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
469850 TCTGACATGT
*
469860 CTGCGAACCAAACAGAATATTC
1 CTGCCAACCAAACAGAATATTC
*
469882 CTGCCAACCAAACATAATAT
1 CTGCCAACCAAACAGAATAT
469902 GGAATTGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.19
Consensus pattern (22 bp):
CTGCCAACCAAACAGAATATTC
Found at i:481188 original size:2 final size:2
Alignment explanation
Indices: 481181--481225 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
481171 AATAAATTTA
* * * *
481181 AG AG AG AG AG AG AG AG AG AG AC AG AC AG AC AG AC AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
481223 AG A
1 AG A
481226 ACAAATGTGC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.09, G:0.40, T:0.00
Consensus pattern (2 bp):
AG
Found at i:484721 original size:21 final size:22
Alignment explanation
Indices: 484697--484742 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
484687 TGAAATTTTC
*
484697 TAAAATTCGAA-TTTTCTTCTT
1 TAAAATTCGAAGTTTTCTTCAT
*
484718 TAAAATTTGAAGTTTTCTTCAT
1 TAAAATTCGAAGTTTTCTTCAT
484740 TAA
1 TAA
484743 TATATTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.50
Consensus pattern (22 bp):
TAAAATTCGAAGTTTTCTTCAT
Found at i:485760 original size:31 final size:31
Alignment explanation
Indices: 485684--485752 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
485674 AAATTACGTA
*
485684 TTTAGTATATAAACTATCAATTTTAATTTAT
1 TTTAGTATATAAATTATCAATTTTAATTTAT
* * *
485715 TTTAATATTTAAATTATCAATTTTGATTTAT
1 TTTAGTATATAAATTATCAATTTTAATTTAT
485746 TTTAGTA
1 TTTAGTA
485753 CCTAAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (31 bp):
TTTAGTATATAAATTATCAATTTTAATTTAT
Found at i:488638 original size:23 final size:23
Alignment explanation
Indices: 488572--488654 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
488562 GAAAAAATTG
* *
488572 AAACGTGCCACAAAGACAGAGAT
1 AAACGTGCAACACAGACAGAGAT
**
488595 AAACGTGTC-ACGA-AGGTAGAGAT
1 AAACGTG-CAAC-ACAGACAGAGAT
488618 AAACGTGCAACACAGACAGAGAT
1 AAACGTGCAACACAGACAGAGAT
* *
488641 AAACATGCAGCACA
1 AAACGTGCAACACA
488655 TACAAACTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
22 2 0.04
23 46 0.92
24 2 0.04
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (23 bp):
AAACGTGCAACACAGACAGAGAT
Done.