Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold407
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: 4418299
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 127125 characters in sequence are not A, C, G, or T
File 6 of 28
Found at i:836814 original size:17 final size:17
Alignment explanation
Indices: 836779--836815 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
836769 TTCAATAAAA
*
836779 AATTAAAATAAAATTAG
1 AATTAAAATAAAATAAG
*
836796 AATTAAAATAACATAAG
1 AATTAAAATAAAATAAG
836813 AAT
1 AAT
836816 AATTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (17 bp):
AATTAAAATAAAATAAG
Found at i:837366 original size:25 final size:26
Alignment explanation
Indices: 837319--837367 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
837309 AAGAATAGTA
* *
837319 ATTTTTAATTTTTTCAAATTATTTCT
1 ATTTTTAATTTTTTAAAAATATTTCT
837345 ATTTTTAA-TTTTTAAAAATATTT
1 ATTTTTAATTTTTTAAAAATATTT
837368 ATTCGTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTTTTAATTTTTTAAAAATATTTCT
Found at i:837561 original size:90 final size:95
Alignment explanation
Indices: 837424--837594 Score: 244
Period size: 90 Copynumber: 1.9 Consensus size: 95
837414 CTTTTATAAA
*
837424 TTTTTTGAATTGTTTAATTCTTTTCTATTTTTGAACTTCTTTAAAAATGATTATGATATTTTT-A
1 TTTTTTGAATTGTTTAATTCTTTTCTATTTTTCAACTTCTTTAAAAATGATTATGATATTTTTAA
*
837488 ATTTTATTTTGATTTTCAAATATTTTTATT
66 ATGTTATTTTGATTTTCAAATATTTTTATT
* * * * *
837518 TTTTTTGAATTGTTT-A-T-TTTTCT-TTTTTCAATTTTTTTAAAAATTATTCTTATATTTTTAA
1 TTTTTTGAATTGTTTAATTCTTTTCTATTTTTCAACTTCTTTAAAAATGATTATGATATTTTTAA
837579 ATGTTATTTTGATTTT
66 ATGTTATTTTGATTTT
837595 TGCATACTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
90 30 0.43
91 22 0.32
92 1 0.01
93 1 0.01
94 15 0.22
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.64
Consensus pattern (95 bp):
TTTTTTGAATTGTTTAATTCTTTTCTATTTTTCAACTTCTTTAAAAATGATTATGATATTTTTAA
ATGTTATTTTGATTTTCAAATATTTTTATT
Found at i:837614 original size:91 final size:94
Alignment explanation
Indices: 837425--837614 Score: 217
Period size: 91 Copynumber: 2.1 Consensus size: 94
837415 TTTTATAAAT
*
837425 TTTTTGAATTGTTTAATTCTTTTCTATTTTTGAACTTCTTTAAAAATGATTATGATATTTTTAAT
1 TTTTTGAATTGTTTAATTCTTTTCTATTTTTCAACTTCTTTAAAAATGATTATGATATTTTTAAT
* * * **
837490 TTTATTTTGATTTTCAAATATTTTTATTT
66 GTTATTTTGATTTTCAAATACTTTAATAA
* * * * *
837519 TTTTTGAATTGTTT-A-T-TTTTCT-TTTTTCAATTTTTTTAAAAATTATTCTTATATTTTTAAA
1 TTTTTGAATTGTTTAATTCTTTTCTATTTTTCAACTTCTTTAAAAATGATTATGATATTTTT-AA
***
837580 TGTTATTTTGATTTTTGCATACTTTAATAA
65 TGTTATTTTGATTTTCAAATACTTTAATAA
837610 TTTTT
1 TTTTT
837615 TAATATTTTA
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
90 30 0.37
91 35 0.43
92 1 0.01
93 1 0.01
94 14 0.17
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.63
Consensus pattern (94 bp):
TTTTTGAATTGTTTAATTCTTTTCTATTTTTCAACTTCTTTAAAAATGATTATGATATTTTTAAT
GTTATTTTGATTTTCAAATACTTTAATAA
Found at i:838118 original size:20 final size:21
Alignment explanation
Indices: 838076--838126 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
838066 TTCAATAATT
*
838076 TGTATTGATACAATAAAGTAA
1 TGTATCGATACAATAAAGTAA
838097 TGTATCGATAC-AT-AAGTGAA
1 TGTATCGATACAATAAAGT-AA
*
838117 TGCATCGATA
1 TGTATCGATA
838127 TAAACTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 4 0.15
20 13 0.48
21 10 0.37
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAATAAAGTAA
Found at i:840122 original size:20 final size:19
Alignment explanation
Indices: 840079--840151 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
840069 TTTTACCCAG
* *
840079 ATGTATCGATACATTTTCA
1 ATGTATCGATACATTATAA
*
840098 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TATAA
*
840118 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATT-ATAA
840138 ATGTATCGATACAT
1 ATGTATCGATACAT
840152 CTAGGTAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
19 15 0.31
20 33 0.69
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGTATCGATACATTATAA
Found at i:841986 original size:11 final size:10
Alignment explanation
Indices: 841960--841986 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
841950 CTAGGAAAAA
841960 GATTTTTAGT
1 GATTTTTAGT
841970 GATTTTTAGT
1 GATTTTTAGT
841980 GATTTTT
1 GATTTTT
841987 GAAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.63
Consensus pattern (10 bp):
GATTTTTAGT
Found at i:848546 original size:27 final size:27
Alignment explanation
Indices: 848510--849969 Score: 1933
Period size: 27 Copynumber: 54.2 Consensus size: 27
848500 CAGTGGCATT
**
848510 CCTTTTAAGTCCACAACTCCGTGATAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
**
848537 ATTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
848564 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
848591 CCTTTTAAGTCCATAACTCCGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
848618 CTTTTTAAGTCCACAACTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
848645 CTTTTTAAGTCCACAACTTCGCGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
848672 CTTTTTAAATCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
848699 ACTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
**
848726 CCTTTTAAGTCCATC-ACTATGTGGCA-
1 CCTTTTAAGTCCA-CAACTCCGTGGCAC
*
848752 TCTTTTAAGTCCACAACTCCGTGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCAC
848778 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
848805 CCTTTTAAGTCCACAGCTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
848832 CCTTTTAAGTCCACAGCTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
848859 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
848886 CCTTTTAAGTCCATAACTTCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
848913 CCTTTTAAGTCCATAACTTCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
848940 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
848967 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
848994 CC-TTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
849020 CC-TTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
849046 CCTTTTAAGTCAACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
849073 CCTTTTAAAGTCCACAGCTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
849101 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
849128 CCTTTTAAGTCCACAACTCCGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
849155 CCTTTTAAGTCCATAACTCTGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
849182 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
849209 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
849237 CCTTTTATAGTCCACAACTCCGTGGCAC
1 CCTTTTA-AGTCCACAACTCCGTGGCAC
849265 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
849293 CCTTTTAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
849320 CCTTTTAAAGTCCATAGCTCTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
849348 CCTTTTAAGTCCATAACTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
849375 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
**
849402 TTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
849429 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
849456 TCTTTAAAGTCCACAACTTCGTGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
849482 TCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
849509 CC-TTTAAGTCCACAACTCCGT--CAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
849533 ATCTTTTAAGTCCATAACTCTGTGGCAC
1 -CCTTTTAAGTCCACAACTCCGTGGCAC
* *
849561 CCTTTTAAAGTCCACAGCTCTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
849589 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
849616 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
849643 CC---T---TCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
849664 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
849691 CCTTTTAAAGTCCACAGCTCTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
849719 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
849746 CCTTTTAAGTCCACAACTCCGTAGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
849773 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
849801 CCTTTTAAGTCCACAACTCCGTGACAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
849828 CCTTTTAAAGTCCACAACTCTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
849856 CCTTTTAAGTCCACAACTTCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
849883 CTTTTTAAGTCTATAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
** * * *
849910 CCTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * **
849937 CCTTTCAAAGTCCACAAATTAGTGGCAC
1 CCTTT-TAAGTCCACAACTCCGTGGCAC
849965 CCTTT
1 CCTTT
849970 CAAAGCCCAC
Statistics
Matches: 1287, Mismatches: 121, Indels: 49
0.88 0.08 0.03
Matches are distributed among these distances:
21 20 0.02
24 5 0.00
25 2 0.00
26 156 0.12
27 849 0.66
28 254 0.20
29 1 0.00
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:849651 original size:21 final size:21
Alignment explanation
Indices: 849598--849667 Score: 86
Period size: 21 Copynumber: 3.0 Consensus size: 21
849588 CCCTTTTAAG
849598 TCCACAACTCCGTGGCATCCTTTT
1 TCCACAACTCCGTGGCATCC---T
849622 AAGTCCACAACTCCGTGGCATCCT
1 ---TCCACAACTCCGTGGCATCCT
849646 TCCACAACTCCGTGGCATCCT
1 TCCACAACTCCGTGGCATCCT
849667 T
1 T
849668 TTAAGTCCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
21 22 0.51
24 1 0.02
27 20 0.47
ACGTcount: A:0.20, C:0.39, G:0.14, T:0.27
Consensus pattern (21 bp):
TCCACAACTCCGTGGCATCCT
Found at i:849951 original size:28 final size:28
Alignment explanation
Indices: 849646--850237 Score: 414
Period size: 28 Copynumber: 21.2 Consensus size: 28
849636 GTGGCATCCT
* * * *
849646 TCCACAACTCCGTGGCATCCTTT-TAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
849673 TCCACAACTCCGTGGCACCCTTTTAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* *
849701 TCCAC-AGCTCTGTGGCACCCTTT-TAAG
1 TCCACAAG-TCAGTGGCACCCTTTCAAAG
* * * *
849728 TCCACAACTCCGTGGCATCCTTT-TAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* * * *
849755 TCCACAACTCCGTAGCACCCTTTTAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
849783 TCCACAACTCCGTGGCACCCTTT-TAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* * * *
849810 TCCACAACTCCGTGACACCCTTTTAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
849838 TCCACAACTCTGTGGCACCCTTT-TAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* * **
849865 TCCACAACTTC-GTGGCA-TCTTTTTAAG
1 TCCACAA-GTCAGTGGCACCCTTTCAAAG
* * * * *
849892 TCTATAACTCCGTGGCATCC-TTCAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
*
849919 CCCACAAGTCAGTGGCACCCTTTCAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* *
849947 TCCACAAATTAGTGGCACCCTTTCAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* ** *
849975 CCCACAAGTTTGTGGCACCTTTTCAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* * * *
850003 CCCATAAATCAATGGCACCCTTTCAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
*
850031 CCCACAAGTCAGTGGCACCCTTTCAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* * * *
850059 CCCAAAAGTTAGTGGCATCCTTTCAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
850087 TCTACAAGTCAGTGGCATTCTTTTCAAA-
1 TCCACAAGTCAGTGGCA-CCCTTTCAAAG
* *
850115 ACCTACAAGTCAGTGGCATCCTTTCAAAAG
1 TCC-ACAAGTCAGTGGCACCCTTTC-AAAG
* * * *
850145 CCCATAAGTGAGTGGCATCCTTTTCAAAG
1 TCCACAAGTCAGTGGCA-CCCTTTCAAAG
* * * *
850174 CCCAGAAGTCAGTGGCAACTTTTCAAAG
1 TCCACAAGTCAGTGGCACCCTTTCAAAG
* *
850202 -CTCACAAGTCAATGGCAACCATTTTCAAAG
1 TC-CACAAGTCAGTGGC-ACC-CTTTCAAAG
*
850232 CCCACA
1 TCCACA
850238 CAAGTTGGTG
Statistics
Matches: 476, Mismatches: 70, Indels: 35
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.01
27 145 0.30
28 245 0.51
29 59 0.12
30 20 0.04
31 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
TCCACAAGTCAGTGGCACCCTTTCAAAG
Found at i:850054 original size:84 final size:85
Alignment explanation
Indices: 849657--850270 Score: 430
Period size: 82 Copynumber: 7.3 Consensus size: 85
849647 CCACAACTCC
* * * * * *
849657 GTGGCATCCTTTT--AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC-AGCTCTGTGGCAC
1 GTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG-TCAGTGGCAC
* * * **
849719 CCTTT-TAAGTCCACAACTCC
65 CCTTTCAAAGCCCACAAGTTA
* * * * * * * *
849739 GTGGCATCCTTTT--AAGTCCACAACTCCGTAGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 GTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
* * * **
849802 CTTT-TAAGTCCACAACTCC
66 CTTTCAAAGCCCACAAGTTA
* * * * * * * *
849821 GTGACACCCTTTT-AAAGTCCACAACTCTGTGGCACCCTTT-TAAGTCCACAACTTC-GTGGCA-
1 GTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA-GTCAGTGGCAC
* ** * * * * **
849882 TCTTTTTAAGTCTATAACTCC
65 CCTTTCAAAGCCCACAAGTTA
* * *
849903 GTGGCATCC--TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGTCCACAAATTAGTGGCACC
1 GTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
*
849966 CTTTCAAAGCCCACAAGTTT
66 CTTTCAAAGCCCACAAGTTA
* * *
849986 GTGGCA-CCTTTTCAAAGCCCATAAATCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
1 GTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
*
850050 CTTTCAAAGCCCAAAAGTTA
66 CTTTCAAAGCCCACAAGTTA
* * * * * * *
850070 GTGGCATCC-TTTCAAAGTCTACAAGTCAGTGGCATTCTTTTCAAAACCTACAAGTCAGTGGCAT
1 GTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
850134 CCTTTCAAAAGCCCATAAGTGA
65 CCTTTC-AAAGCCCACAAGTTA
* * * * *
850156 GTGGCATCCTTTTCAAAGCCCAGAAGTCAGTGGCAACTTTTCAAAGCTCACAAGTCAATGGCAAC
1 GTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-AC
* *
850221 CATTTTCAAAGCCCACACAAGTTG
65 C-CTTTCAAAG-CC-CACAAGTTA
* ** *
850245 GTGGTATCCTAGTCAAAGCCCGCAAG
1 GTGGCATCCTTTTCAAAGCCCACAAG
850271 AGTTGGCGAC
Statistics
Matches: 447, Mismatches: 67, Indels: 29
0.82 0.12 0.05
Matches are distributed among these distances:
80 2 0.00
81 29 0.06
82 142 0.32
83 45 0.10
84 92 0.21
85 32 0.07
86 44 0.10
87 28 0.06
88 6 0.01
89 27 0.06
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (85 bp):
GTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
CTTTCAAAGCCCACAAGTTA
Found at i:851259 original size:49 final size:51
Alignment explanation
Indices: 851198--851311 Score: 178
Period size: 50 Copynumber: 2.3 Consensus size: 51
851188 TGAACAGTAC
* *
851198 ATGTATCAATACATTCTG-TTTTTGACCCAGATGTATCGATACA-TTTTCA
1 ATGTATCGATACATTCTGTTTTTTGACCCAGATGTAACGATACATTTTTCA
* *
851247 ATGTATCGATACATTCTGTTTTTTTACCCAGATGTAACGATAGATTTTTCA
1 ATGTATCGATACATTCTGTTTTTTGACCCAGATGTAACGATACATTTTTCA
851298 ATGTATCGATACAT
1 ATGTATCGATACAT
851312 CTAGTTAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
49 17 0.29
50 22 0.37
51 20 0.34
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (51 bp):
ATGTATCGATACATTCTGTTTTTTGACCCAGATGTAACGATACATTTTTCA
Found at i:851271 original size:51 final size:49
Alignment explanation
Indices: 851198--851311 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 49
851188 TGAACAGTAC
* *
851198 ATGTATCAATACATTCTGTTTTTGACCCAGATGTATCGATACA-TTTTCA
1 ATGTATCGATACATTCTGTTTTT-ACCCAGATGTAACGATACATTTTTCA
*
851247 ATGTATCGATACATTCTGTTTTTTTACCCAGATGTAACGATAGATTTTTCA
1 ATGTATCGATACATTCTG--TTTTTACCCAGATGTAACGATACATTTTTCA
851298 ATGTATCGATACAT
1 ATGTATCGATACAT
851312 CTAGTTAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
49 17 0.29
50 17 0.29
51 25 0.42
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (49 bp):
ATGTATCGATACATTCTGTTTTTACCCAGATGTAACGATACATTTTTCA
Found at i:853473 original size:24 final size:26
Alignment explanation
Indices: 853446--853495 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
853436 ACTAAAATTT
853446 TATTTAT-C-GGGGATACTCCAACCC
1 TATTTATCCAGGGGATACTCCAACCC
*
853470 TATTTCTCCGAGGGGATACTCCAACC
1 TATTTATCC-AGGGGATACTCCAACC
853496 TCGCTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 1 0.05
27 15 0.68
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (26 bp):
TATTTATCCAGGGGATACTCCAACCC
Found at i:857922 original size:3 final size:3
Alignment explanation
Indices: 857914--857949 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
857904 ATTGAACCTA
857914 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
857950 TTACTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:857978 original size:20 final size:21
Alignment explanation
Indices: 857949--857990 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
857939 ATAATAATAA
*
857949 TTTACTATTTTTTTAAATATT
1 TTTACTATTTATTTAAATATT
857970 TTTA-TATTTATTTAAATATT
1 TTTACTATTTATTTAAATATT
857990 T
1 T
857991 AAAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTACTATTTATTTAAATATT
Found at i:857998 original size:20 final size:20
Alignment explanation
Indices: 857955--857998 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
857945 ATAATTTACT
* ** *
857955 ATTTTTTTAAATATTTTTAT
1 ATTTATTTAAATATTTAAAA
857975 ATTTATTTAAATATTTAAAA
1 ATTTATTTAAATATTTAAAA
857995 ATTT
1 ATTT
857999 TAGATATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTATTTAAATATTTAAAA
Found at i:858118 original size:30 final size:28
Alignment explanation
Indices: 858084--858149 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 28
858074 TTTTATGTAT
*
858084 ATATAATATATATTTTATTAAAGA-ACTTAA
1 ATATAATATATA-TATATTAAA-ATA-TTAA
*
858114 ATATAACATATATATATTAAAATATTAA
1 ATATAATATATATATATTAAAATATTAA
858142 A-ATAATAT
1 ATATAATAT
858150 TAATAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.19
28 6 0.19
29 9 0.28
30 11 0.34
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (28 bp):
ATATAATATATATATATTAAAATATTAA
Found at i:858644 original size:23 final size:22
Alignment explanation
Indices: 858595--858666 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 22
858585 CCTTTTTTGT
* * *
858595 TTTAATTGGGCTTTTAGTTTCAT
1 TTTAAATGAGCTTTTAGTTT-AA
* *
858618 TTTAGATGTGCTTTTAGTTTAGA
1 TTTAAATGAGCTTTTAGTTTA-A
*
858641 TTTAAATGAG-TTTAAGTTTAAA
1 TTTAAATGAGCTTTTAGTTT-AA
858663 TTTA
1 TTTA
858667 TATTTTATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
22 14 0.35
23 26 0.65
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (22 bp):
TTTAAATGAGCTTTTAGTTTAA
Found at i:858697 original size:20 final size:21
Alignment explanation
Indices: 858674--858715 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
858664 TTATATTTTA
*
858674 TTAAATA-TATTTTAAATATT
1 TTAAATATTAATTTAAATATT
*
858694 TTAAATATTAATTTAATTATT
1 TTAAATATTAATTTAAATATT
858715 T
1 T
858716 CAATTTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAATATTAATTTAAATATT
Found at i:858714 original size:21 final size:20
Alignment explanation
Indices: 858661--858715 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
858651 TTTAAGTTTA
858661 AATTTATATT-TTATTAAATAT
1 AATTTA-ATTATT-TTAAATAT
* *
858682 ATTTTAAATATTTTAAATATT
1 AATTTAATTATTTTAAATA-T
858703 AATTTAATTATTT
1 AATTTAATTATTT
858716 CAATTTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTTAATTATTTTAAATAT
Found at i:858975 original size:39 final size:39
Alignment explanation
Indices: 858921--859000 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
858911 CCTTGGAAGA
858921 ATAAACTTTATTTTTTTTATATAAAAACAAATAAAATTT
1 ATAAACTTTATTTTTTTTATATAAAAACAAATAAAATTT
858960 ATAAACTTTATTTTTTTTATATAAAAACAAATAAAATTT
1 ATAAACTTTATTTTTTTTATATAAAAACAAATAAAATTT
858999 AT
1 AT
859001 GACCATACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (39 bp):
ATAAACTTTATTTTTTTTATATAAAAACAAATAAAATTT
Found at i:859209 original size:17 final size:16
Alignment explanation
Indices: 859187--859265 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 16
859177 TTTTAATACG
859187 AATTATTAATATATCAA
1 AATTATTAATATAT-AA
*
859204 AATTATATATAAATATAA
1 AATTAT-TA-ATATATAA
* * *
859222 AA-TAAT-ATAAACAA
1 AATTATTAATATATAA
859236 AATTA-TAATATAATAA
1 AATTATTAATAT-ATAA
859252 AATATATTAATATA
1 AAT-TATTAATATA
859266 ATATGAATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
14 8 0.17
15 5 0.10
16 7 0.15
17 11 0.23
18 12 0.25
19 5 0.10
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTATTAATATATAA
Found at i:859231 original size:5 final size:5
Alignment explanation
Indices: 859210--859277 Score: 50
Period size: 5 Copynumber: 13.2 Consensus size: 5
859200 TCAAAATTAT
* * * *
859210 ATATAA ATATA AAATA ATATAA ACAAA ATTATA ATATA ATAAA ATAT-
1 ATAT-A ATATA ATATA ATAT-A ATATA A-TATA ATATA ATATA ATATA
859257 AT-TA ATATA ATATGA ATATA A
1 ATATA ATATA ATAT-A ATATA A
859278 AAATTATTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
3 1 0.02
4 4 0.08
5 29 0.59
6 15 0.31
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (5 bp):
ATATA
Found at i:859285 original size:26 final size:23
Alignment explanation
Indices: 859239--859287 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
859229 TAAACAAAAT
*
859239 TATAATATAATAAAATATATTAA
1 TATAATATAATAAAAAATATTAA
859262 TATAATATGAATATAAAAATTATTAA
1 TATAATAT-AATA-AAAAA-TATTAA
859288 ATTTATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 4 0.18
25 4 0.18
26 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TATAATATAATAAAAAATATTAA
Found at i:859589 original size:22 final size:22
Alignment explanation
Indices: 859564--859607 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
859554 ATAATTTTTA
859564 TTAAGAATATAAA-TATTAAAAT
1 TTAA-AATATAAATTATTAAAAT
* *
859586 TTAAAATTTAAATTATTTAAAT
1 TTAAAATATAAATTATTAAAAT
859608 ATTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAAAATATAAATTATTAAAAT
Found at i:859632 original size:14 final size:14
Alignment explanation
Indices: 859596--859641 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
859586 TTAAAATTTA
859596 AATTATTTAAATAT
1 AATTATTTAAATAT
* *
859610 TATTTTTTAAA-AGT
1 AATTATTTAAATA-T
859624 AATTATTTAAATA-
1 AATTATTTAAATAT
859637 AATTA
1 AATTA
859642 AATTAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
13 6 0.23
14 19 0.73
15 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
AATTATTTAAATAT
Found at i:859810 original size:18 final size:18
Alignment explanation
Indices: 859760--859817 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
859750 TCTCATATGC
*
859760 TAAAATATTTTTATTTTT
1 TAAAATATTTTTATATTT
* * *
859778 TAAAAAAAATATTTAAATTT
1 T--AAAATATTTTTATATTT
859798 TAAAATATTTTTATATTT
1 TAAAATATTTTTATATTT
859816 TA
1 TA
859818 TTATGTTATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
18 17 0.55
20 14 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAAATATTTTTATATTT
Found at i:862614 original size:21 final size:20
Alignment explanation
Indices: 862582--862624 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
862572 TCGAAGTTTC
862582 ATATAAATATAAATAATATAA
1 ATATAAATATAAATAAT-TAA
*
862603 ATATATAA-ATAAATTATTAA
1 ATATA-AATATAAATAATTAA
862623 AT
1 AT
862625 TAGAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 13 0.65
22 2 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATAAATATAAATAATTAA
Found at i:862702 original size:31 final size:31
Alignment explanation
Indices: 862667--862730 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
862657 TATAAATTAC
*
862667 ATAATAT-ACATTAAATAATAAGAAATAAGAA
1 ATAATATGAC-TTAAATAATAAGAAATAACAA
*
862698 ATAATATGACTTCAATAATAAGAAATAACAA
1 ATAATATGACTTAAATAATAAGAAATAACAA
862729 AT
1 AT
862731 TCACTCTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (31 bp):
ATAATATGACTTAAATAATAAGAAATAACAA
Found at i:863889 original size:47 final size:47
Alignment explanation
Indices: 863838--863934 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
863828 TACAAGACAA
*
863838 CAAAGGAGATGTATTTTCTTAATTTCTAATTTTGATATTAAACCTTC
1 CAAAGGAGATGTATATTCTTAATTTCTAATTTTGATATTAAACCTTC
863885 CAAAGGAGATGTATATTCTTAATTTCTAATTTTGATATTAAACCTTC
1 CAAAGGAGATGTATATTCTTAATTTCTAATTTTGATATTAAACCTTC
863932 CAA
1 CAA
863935 TTAATTATTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.42
Consensus pattern (47 bp):
CAAAGGAGATGTATATTCTTAATTTCTAATTTTGATATTAAACCTTC
Found at i:863940 original size:25 final size:25
Alignment explanation
Indices: 863911--863983 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 25
863901 TCTTAATTTC
863911 TAATTTTGATATTAAACCTTCCAAT
1 TAATTTTGATATTAAACCTTCCAAT
* *
863936 TAATTATTCATATGTTAAACCTTTCAAT
1 TAATT-TTGATA--TTAAACCTTCCAAT
* *
863964 AAATTTTGATATTTAACCTT
1 TAATTTTGATATTAAACCTT
863984 TTTAATTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 13 0.32
26 5 0.12
27 5 0.12
28 17 0.43
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.47
Consensus pattern (25 bp):
TAATTTTGATATTAAACCTTCCAAT
Found at i:868779 original size:24 final size:24
Alignment explanation
Indices: 868722--868770 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
868712 GCAAGAAACT
* *
868722 AATATGATATTCTCTTTAAACATG
1 AATATGATATTCACTATAAACATG
868746 AATATGATATTCACTATAAACATG
1 AATATGATATTCACTATAAACATG
868770 A
1 A
868771 CTTGCATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (24 bp):
AATATGATATTCACTATAAACATG
Found at i:870705 original size:2 final size:2
Alignment explanation
Indices: 870700--870732 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
870690 ATATATGGAA
870700 AT AT AT AT 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 AT AT AT AT A
870733 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:870737 original size:2 final size:2
Alignment explanation
Indices: 870732--870761 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
870722 ATATATATAT
870732 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
870762 TAGTGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:871857 original size:21 final size:20
Alignment explanation
Indices: 871832--871883 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
871822 TATTTTTATT
871832 TAAATTTAATTATAAAATTTA
1 TAAATTTAA-TATAAAATTTA
* *
871853 TAAATATTAATATAAATTTTT
1 TAAAT-TTAATATAAAATTTA
871874 TATAATTTAA
1 TA-AATTTAA
871884 ATATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAATTTAATATAAAATTTA
Found at i:871884 original size:16 final size:17
Alignment explanation
Indices: 871860--871911 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
871850 TTATAAATAT
871860 TAATATAAAT-TTTTTA
1 TAATATAAATATTTTTA
*
871876 TAATTTAAATATTTTTA
1 TAATATAAATATTTTTA
*
871893 -AATAATAAAATATATTTA
1 TAAT-AT-AAATATTTTTA
871911 T
1 T
871912 TTGTTTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 12 0.41
17 7 0.24
18 10 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATATAAATATTTTTA
Found at i:872063 original size:19 final size:20
Alignment explanation
Indices: 872036--872082 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
872026 TTTAATGTAA
872036 ATATTTATATTTTAT-TATGT
1 ATATTTATATTTTATATAT-T
872056 AT-TTTATATTTTATATATT
1 ATATTTATATTTTATATATT
872075 ATATTTAT
1 ATATTTAT
872083 GTAATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATATTTATATTTTATATATT
Found at i:879406 original size:347 final size:345
Alignment explanation
Indices: 878806--881208 Score: 3623
Period size: 347 Copynumber: 7.0 Consensus size: 345
878796 ATTTTCACGT
* * *
878806 AAAATTTTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATAAAATTTTCCAC
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCCC
* *
878871 TTAATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAAATTT
66 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAGATTT
****
878936 CACTCATAGGGCTTTTTTTAAAAAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTTT
131 CACTCATAGGGCTTTTTTTTTTTAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTTT
879001 TTCACATATGAAATTCTAAATCGAATTTATATATATATTTATATATCATTCTTGATTGAATTCTC
196 TTCACATATGAAATTCTAAATCGAATTTATATATATATTTATATATCATTCTTGATTGAATTCTC
879066 ATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACATGGA
261 ATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACATGGA
879131 ATTCCAATTTAACATGGTGA
326 ATTCCAATTTAACATGGTGA
*
879151 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAAATTTCCCC
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCCC
* *
879216 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTATAATTTATTGAATTAAATTT
66 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAGATTT
* *
879281 CACTCGTAGGGCTTTTTTTTTTTTTAAAAAAAATAACTCTGAGTACAAGATTTCAATTAGAATTT
131 CACTCATAGGGC--TTTTTTTTTTTAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTT
879346 TTTTCACATATGAAATTCTAAATCGAATTTATATATATATTTATATATCATTCTTGATTGAATTC
194 TTTTCACATATGAAATTCTAAATCGAATTTATATATATATTTATATATCATTCTTGATTGAATTC
879411 TCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACATG
259 TCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACATG
879476 GAATTCCAATTTAACATGGTGA
324 GAATTCCAATTTAACATGGTGA
* *
879498 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATGCATGAAAATTTCCCC
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCCC
*
879563 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTATAATTTATTGAATTAGATTT
66 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAGATTT
* * *
879628 CACTCATAGAGCTTTTTTTTTTTAAAAAAAAAAA--CTGAGTACAAGATTTCAATTATATTTTTT
131 CACTCATAGGGCTTTTTTTTTTTAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTTT
*
879691 TTCACATATGAAATTCTAAATTGAATTTATATATATATATATATATTTATATATCATTCTTGATT
196 TTCACATATGAAATTCTAAATCG-----A-AT-T-TATATATATATTTATATATCATTCTTGATT
879756 GAATTCTCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTG
253 GAATTCTCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTG
879821 CACATGGAATTCCAATTTAACATGGTGA
318 CACATGGAATTCCAATTTAACATGGTGA
*
879849 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTTCCC
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCCC
* * * *
879914 TTGATACTTTAAATGTAGGCTTCTCAATTAGACTTTTTGTATTTATAATTTGTTGAATTAGATTT
66 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAGATTT
* * *
879979 CACTCATAGGG-TTTTTTTTTTTAAAAAAAAAATAATTCTAAGTACAAGATTTCAATTAAAATTT
131 CACTCATAGGGCTTTTTTTTTTT-AAAAAAAAA-AACTCTGAGTACAAGATTTCAATTAGAATTT
* *
880043 TTTTCACATATGAAATGCTCAATCGAATTTATATATATATTTATATATCATTCTTGATTGAATTC
194 TTTTCACATATGAAATTCTAAATCGAATTTATATATATATTTATATATCATTCTTGATTGAATTC
* * * * *
880108 TCATAAATGAAA-TTTTCTACTAGGCAATTTAAATATAGGATTTTTAATT---CT--TCGCACAT
259 TCATAAATGAAATTTTTC-ACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACAT
* *
880167 GGAATTTCAATTTAACATAGTGA
323 GGAATTCCAATTTAACATGGTGA
*
880190 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAA-GGAAATTTTCATACATGAAATTTTCCA
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGG-AATTTTCATACATGAAATTTTCCC
*
880254 CTTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAAATT
65 CTTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAGATT
* *
880319 TCACTCATAGGGCTTTTTTTTTTAAAAAAAAAAAACTCTAAGTACAAGATTTCAATTAGAATTTT
130 TCACTCATAGGGCTTTTTTTTTTTAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTT
*
880384 TTTCACATATGAAATTCTAAATTGAATTTATATATATATATTTATATATCATTCTTGATTGAATT
195 TTTCACATATGAAATTCTAAATCGAA-TT-TATATATATATTTATATATCATTCTTGATTGAATT
880449 CTCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACAT
258 CTCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACAT
880514 GGAATTCCAATTTAACATGGTGA
323 GGAATTCCAATTTAACATGGTGA
880537 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCCC
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCCC
880602 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAGATTT
66 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAGATTT
* *
880667 CACTCATA-GGCTTTTTTTTTTTTTAAAAAAAAGAAAATAACTCTAAGTGCAAGATTTCAATTAG
131 CACTCATAGGGC--TTTTTTTTTTT---AAAAA-AAAA-AACTCTGAGTACAAGATTTCAATTAG
* * *
880731 AAATTTTTTCACATATGAAATGCTCAATCG-----A-AT-T-TA--TATATATCATTCTTGATTG
189 AATTTTTTTCACATATGAAATTCTAAATCGAATTTATATATATATTTATATATCATTCTTGATTG
* * * **
880786 AATTCTCATAAAT-AAAATTTTCTACTAGGCAATTTAAGTGTAGGATTTTTAATTCAACTCCCCG
254 AATTCTCATAAATGAAATTTTTC-ACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTG
* * * *
880850 TACATGGAATTTCAATTTAACATAGTGG
318 CACATGGAATTCCAATTTAACATGGTGA
* * * * *
880878 AAAATTCTTTTCTTTGAATCTTTTATTTAATTCTTGATGAAATTTTCATACATGAAATTTTACAC
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCCC
* * *
880943 TTGATACTTTAAATGTAGACTTTT-AAGTTAGTCTTTTCGTATTTAGAATTCATTGAATTAGATT
66 TTGATACTTTAAATGTAGACTTTTCAA-TTAGACTTTTTGTATTTAGAATTTATTGAATTAGATT
* * *
881007 TCACTCATAGGAC--TTTTTTTTTAAATAAAAAAAACTTTGAGTACAAGATTTCAATTAGAAGTT
130 TCACTCATAGGGCTTTTTTTTTTTAAA-AAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTT
*
881070 TTTTCACATATGAAATTCTCAATCCG-------ATATATA--TATATATCATTCTTGATTGAATT
194 TTTTCACATATGAAATTCTAAAT-CGAATTTATATATATATTTATATATCATTCTTGATTGAATT
* * * * ** * *
881126 CTCGTAAATGAAAATTTTCACTAGGCAATTTAAGTGTAGGATTTTTAATTCAACTCCCAGTACGT
258 CTCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACAT
*
881191 GGAATTTCAATTTAACAT
323 GGAATTCCAATTTAACAT
881209 AGTTTTTTTT
Statistics
Matches: 1923, Mismatches: 94, Indels: 91
0.91 0.04 0.04
Matches are distributed among these distances:
334 51 0.03
335 10 0.01
336 97 0.05
337 9 0.00
338 9 0.00
340 65 0.03
341 390 0.20
342 87 0.05
343 58 0.03
344 1 0.00
345 165 0.09
346 79 0.04
347 498 0.26
348 15 0.01
349 3 0.00
350 12 0.01
351 271 0.14
352 6 0.00
353 51 0.03
354 46 0.02
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (345 bp):
AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCCC
TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAGATTT
CACTCATAGGGCTTTTTTTTTTTAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTTT
TTCACATATGAAATTCTAAATCGAATTTATATATATATTTATATATCATTCTTGATTGAATTCTC
ATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACATGGA
ATTCCAATTTAACATGGTGA
Found at i:880605 original size:688 final size:688
Alignment explanation
Indices: 878806--881208 Score: 3755
Period size: 688 Copynumber: 3.5 Consensus size: 688
878796 ATTTTCACGT
* *
878806 AAAATTTTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATAAAATTTTCCAC
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCAC
*
878871 TTAATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAAATTT
66 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAAATTT
***
878936 CACTCATAGGGCTTTTTTTAAAAAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTTT
131 CACTCATAGGGCTTTTTTTTTTAAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTTT
879001 TTCACATATGAAATTCTAAATCGAATTTATATATATATTTATATATCATTCTTGATTGAATTCTC
196 TTCACATATGAAATTCTAAATCGAATTTATATATATATTTATATATCATTCTTGATTGAATTCTC
879066 ATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACATGGA
261 ATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACATGGA
879131 ATTCCAATTTAACATGGTGAAAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTT
326 ATTCCAATTTAACATGGTGAAAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTT
*
879196 TCATACATGAAAATTTCCCCTTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTA
391 TCATACATGAAATTTTCCCCTTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTA
* * ** *
879261 TAATTTATTGAATTAAATTTCACTCGTAGGGCTTTTTTTTTTTTTAAAAAAAATAACTCTGAGTA
456 TAATTTATTGAATTAGATTTCACTCATAGGG-TTTTTTTTTTTAAAAAAAAAATAACTCTAAGTA
* * *
879326 CAAGATTTCAATTAGAATTTTTTTCACATATGAAATTCTAAATCGAATTTATATATATATTTATA
520 CAAGATTTCAATTAAAATTTTTTTCACATATGAAATGCTCAATCGAATTTATATATATATTTATA
* *
879391 TATCATTCTTGATTGAATTCTCATAAATGAAATTTT-TCACTAGGTAATTTAAGTGTAGGAATTT
585 TATCATTCTTGATTGAATTCTCATAAATGAAATTTTCT-ACTAGGCAATTTAAGTGTAGGATTTT
* * *
879455 TAATTCAACTCCTTGCACATGGAATTCCAATTTAACATGGTGA
649 TAATT--ACT-CTCGCACATGGAATTTCAATTTAACATAGTGA
* * *
879498 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATGCATGAAAATTTCCCC
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCAC
* *
879563 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTATAATTTATTGAATTAGATTT
66 TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAAATTT
* * * *
879628 CACTCATAGAGCTTTTTTTTTTTAAAAAAAAAAA--CTGAGTACAAGATTTCAATTATATTTTTT
131 CACTCATAGGGCTTTTTTTTTTAAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTTT
*
879691 TTCACATATGAAATTCTAAATTGAATTTATATATATATATATATATTTATATATCATTCTTGATT
196 TTCACATATGAAATTCTAAATCG-----A-AT-T-TATATATATATTTATATATCATTCTTGATT
879756 GAATTCTCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTG
253 GAATTCTCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTG
879821 CACATGGAATTCCAATTTAACATGGTGAAAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAA
318 CACATGGAATTCCAATTTAACATGGTGAAAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAA
* * *
879886 TGGAATTTTCATACATGAAATTTTTCCCTTGATACTTTAAATGTAGGCTTCTCAATTAGACTTTT
383 TGGAATTTTCATACATGAAATTTTCCCCTTGATACTTTAAATGTAGACTTTTCAATTAGACTTTT
* *
879951 TGTATTTATAATTTGTTGAATTAGATTTCACTCATAGGGTTTTTTTTTTTAAAAAAAAAATAATT
448 TGTATTTATAATTTATTGAATTAGATTTCACTCATAGGGTTTTTTTTTTTAAAAAAAAAATAACT
880016 CTAAGTACAAGATTTCAATTAAAATTTTTTTCACATATGAAATGCTCAATCGAATTTATATATAT
513 CTAAGTACAAGATTTCAATTAAAATTTTTTTCACATATGAAATGCTCAATCGAATTTATATATAT
* *
880081 ATTTATATATCATTCTTGATTGAATTCTCATAAATGAAATTTTCTACTAGGCAATTTAAATATAG
578 ATTTATATATCATTCTTGATTGAATTCTCATAAATGAAATTTTCTACTAGGCAATTTAAGTGTAG
880146 GATTTTTAATT-CT-TCGCACATGGAATTTCAATTTAACATAGTGA
643 GATTTTTAATTACTCTCGCACATGGAATTTCAATTTAACATAGTGA
880190 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAA-GGAAATTTTCATACATGAAATTTTCCA
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGG-AATTTTCATACATGAAATTTTCCA
880254 CTTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAAATT
65 CTTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAAATT
*
880319 TCACTCATAGGGCTTTTTTTTTTAAAAAAAAAAAACTCTAAGTACAAGATTTCAATTAGAATTTT
130 TCACTCATAGGGCTTTTTTTTTTAAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTT
*
880384 TTTCACATATGAAATTCTAAATTGAATTTATATATATATATTTATATATCATTCTTGATTGAATT
195 TTTCACATATGAAATTCTAAATCGAA-TT-TATATATATATTTATATATCATTCTTGATTGAATT
880449 CTCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACAT
258 CTCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACAT
880514 GGAATTCCAATTTAACATGGTGAAAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAA
323 GGAATTCCAATTTAACATGGTGAAAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAA
880579 TTTTCATACATGAAATTTTCCCCTTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTAT
388 TTTTCATACATGAAATTTTCCCCTTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTAT
* *
880644 TTAGAATTTATTGAATTAGATTTCACTCATAGGCTTTTTTTTTTTTTAAAAAAAAGAAAATAACT
453 TTATAATTTATTGAATTAGATTTCACTCATAGG--GTTTTTTTTTTT--AAAAAA-AAAATAACT
*
880709 CTAAGTGCAAGATTTCAATTAGAAA-TTTTTTCACATATGAAATGCTCAATCG-----A-AT-T-
513 CTAAGTACAAGATTTCAATTA-AAATTTTTTTCACATATGAAATGCTCAATCGAATTTATATATA
*
880765 TA--TATATATCATTCTTGATTGAATTCTCATAAATAAAATTTTCTACTAGGCAATTTAAGTGTA
577 TATTTATATATCATTCTTGATTGAATTCTCATAAATGAAATTTTCTACTAGGCAATTTAAGTGTA
* * *
880828 GGATTTTTAATTCAACTCCCCGTACATGGAATTTCAATTTAACATAGTGG
642 GGATTTTTAATT--ACT-CTCGCACATGGAATTTCAATTTAACATAGTGA
* * * *
880878 AAAATTCTTTTCTTTGAATCTTTTATTTAATTCTTGATGAAATTTTCATACATGAAATTTTACAC
1 AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCAC
* * * *
880943 TTGATACTTTAAATGTAGACTTTT-AAGTTAGTCTTTTCGTATTTAGAATTCATTGAATTAGATT
66 TTGATACTTTAAATGTAGACTTTTCAA-TTAGACTTTTTGTATTTAGAATTTATTGAATTAAATT
* * * *
881007 TCACTCATAGGAC-TTTTTTTTTAAATAAAAAAAACTTTGAGTACAAGATTTCAATTAGAAGTTT
130 TCACTCATAGGGCTTTTTTTTTTAAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTT
*
881071 TTTCACATATGAAATTCTCAATCCG-------ATATATA--TATATATCATTCTTGATTGAATTC
195 TTTCACATATGAAATTCTAAAT-CGAATTTATATATATATTTATATATCATTCTTGATTGAATTC
* * * * ** * *
881127 TCGTAAATGAAAATTTTCACTAGGCAATTTAAGTGTAGGATTTTTAATTCAACTCCCAGTACGTG
259 TCATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACATG
*
881192 GAATTTCAATTTAACAT
324 GAATTCCAATTTAACAT
881209 AGTTTTTTTT
Statistics
Matches: 1599, Mismatches: 85, Indels: 69
0.91 0.05 0.04
Matches are distributed among these distances:
677 97 0.06
679 7 0.00
683 70 0.04
685 2 0.00
686 3 0.00
687 72 0.05
688 419 0.26
689 3 0.00
690 60 0.04
691 2 0.00
692 339 0.21
693 55 0.03
694 54 0.03
695 1 0.00
696 2 0.00
697 155 0.10
698 258 0.16
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (688 bp):
AAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTTTCATACATGAAATTTTCCAC
TTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTAGAATTTATTGAATTAAATTT
CACTCATAGGGCTTTTTTTTTTAAAAAAAAAAAACTCTGAGTACAAGATTTCAATTAGAATTTTT
TTCACATATGAAATTCTAAATCGAATTTATATATATATTTATATATCATTCTTGATTGAATTCTC
ATAAATGAAATTTTTCACTAGGTAATTTAAGTGTAGGAATTTTAATTCAACTCCTTGCACATGGA
ATTCCAATTTAACATGGTGAAAAATTCTTTTCTTTGAATCTTTTATATAATTCTTAATGGAATTT
TCATACATGAAATTTTCCCCTTGATACTTTAAATGTAGACTTTTCAATTAGACTTTTTGTATTTA
TAATTTATTGAATTAGATTTCACTCATAGGGTTTTTTTTTTTAAAAAAAAAATAACTCTAAGTAC
AAGATTTCAATTAAAATTTTTTTCACATATGAAATGCTCAATCGAATTTATATATATATTTATAT
ATCATTCTTGATTGAATTCTCATAAATGAAATTTTCTACTAGGCAATTTAAGTGTAGGATTTTTA
ATTACTCTCGCACATGGAATTTCAATTTAACATAGTGA
Found at i:882058 original size:75 final size:75
Alignment explanation
Indices: 881879--882087 Score: 224
Period size: 75 Copynumber: 2.8 Consensus size: 75
881869 ATTATTATAC
* * * *
881879 CCTGATCGCCAACACTCATTCTGGCTGTCAGATCTATGCTCGCCACTTAAACCCTGGTCGCTATA
1 CCTGATCGCCAACACTCACTCTGGCTGCCAAATCTATGCTCGCCACTTAAACCCTAGTCGCTATA
***
881944 AGGATGGAAT
66 AGGACAAAAT
* * * * * *
881954 TCTAATCGCCAACACTCAC-CTTAGTTGCCAAA-CTTATGGTTGCCACTTAAACCCTAGTCGCTA
1 CCTGATCGCCAACACTCACTC-TGGCTGCCAAATC-TATGCTCGCCACTTAAACCCTAGTCGCTA
882017 TAAGGACAAAAT
64 TAAGGACAAAAT
* * ** *
882029 CCTGATCGCCAACACTCACTCTGGCTGCCAGACCTATGCTCGCCGGTTAAATCCTAGTC
1 CCTGATCGCCAACACTCACTCTGGCTGCCAAATCTATGCTCGCCACTTAAACCCTAGTC
882088 ACCAGAAAGA
Statistics
Matches: 107, Mismatches: 23, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
74 2 0.02
75 103 0.96
76 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (75 bp):
CCTGATCGCCAACACTCACTCTGGCTGCCAAATCTATGCTCGCCACTTAAACCCTAGTCGCTATA
AGGACAAAAT
Found at i:884757 original size:29 final size:29
Alignment explanation
Indices: 884715--884786 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
884705 TGACACCAAG
*
884715 TCACTCTAATCCTGCTCACCATC-ATGGCT
1 TCACTCTGATCCTGCTCACCA-CAATGGCT
**
884744 TCACTCTGATCCTGCTCGTCACAATGGCT
1 TCACTCTGATCCTGCTCACCACAATGGCT
884773 TCACTCTGATCCTG
1 TCACTCTGATCCTG
884787 ATCGCCACCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.18, C:0.36, G:0.14, T:0.32
Consensus pattern (29 bp):
TCACTCTGATCCTGCTCACCACAATGGCT
Found at i:884882 original size:52 final size:52
Alignment explanation
Indices: 884825--884982 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
884815 CACCACCTTA
* * *
884825 GCATCAATATTATTAGTGACACCAAGTCACTCTAATCCTGCTCGCCACAATG
1 GCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGCTCGCCACCATG
* * * * *
884877 GCATCAATACTGTCCGTGACACCAAGTCACTCTGATCTTGATCGCCACCATG
1 GCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGCTCGCCACCATG
* * *
884929 GCATCAATATTATCAGTGACACCAAGTCACTTTGATCGTGCTCACCACCATG
1 GCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGCTCGCCACCATG
884981 GC
1 GC
884983 TTCACCTCAA
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 91 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (52 bp):
GCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGCTCGCCACCATG
Found at i:884939 original size:104 final size:107
Alignment explanation
Indices: 884744--884982 Score: 281
Period size: 104 Copynumber: 2.3 Consensus size: 107
884734 CATCATGGCT
* * * * *
884744 TCACTCTGATCCTGCTCGTCACAATGGCTTCACTCTGATCCTGATCGCCACCAAGTCATTCCAAT
1 TCACTCTGATCCTGCTCGCCACAATGGCATCAATCTGATCCTGATCGACACCAAGTCACTCCAAT
* *
884809 TCTGATCACCACCTTAGCATCAATATTATTAGTGACACCAAG
66 TCTGATCACCACCATAGCATCAATATTATCAGTGACACCAAG
* **
884851 TCACTCTAATCCTGCTCGCCACAATGGCATCAATACTG-TCC-G-T-GACACCAAGTCACTCTGA
1 TCACTCTGATCCTGCTCGCCACAATGGCATCAAT-CTGATCCTGATCGACACCAAGTCACTCCAA
* *
884912 -TCTTGATCGCCACCATGGCATCAATATTATCAGTGACACCAAG
65 TTC-TGATCACCACCATAGCATCAATATTATCAGTGACACCAAG
* * * *
884955 TCACTTTGATCGTGCTCACCACCATGGC
1 TCACTCTGATCCTGCTCGCCACAATGGC
884983 TTCACCTCAA
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
103 2 0.02
104 73 0.65
105 1 0.01
106 1 0.01
107 33 0.29
108 3 0.03
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (107 bp):
TCACTCTGATCCTGCTCGCCACAATGGCATCAATCTGATCCTGATCGACACCAAGTCACTCCAAT
TCTGATCACCACCATAGCATCAATATTATCAGTGACACCAAG
Found at i:885047 original size:52 final size:52
Alignment explanation
Indices: 884990--885113 Score: 158
Period size: 52 Copynumber: 2.4 Consensus size: 52
884980 GGCTTCACCT
* *
884990 CAATCCTGATCGCTACCATGGCATCAATACTGTCAATGACACCAAGTCACTC
1 CAATCCTGATCGCCACCATGGCATCAATACTATCAATGACACCAAGTCACTC
* * * * * *
885042 CAATCCTAATCGCCACCTTGGCATCAATATTATCAGTGACGCCGAGTCACTC
1 CAATCCTGATCGCCACCATGGCATCAATACTATCAATGACACCAAGTCACTC
**
885094 TGATCCTGATCGCCACCATG
1 CAATCCTGATCGCCACCATG
885114 ACATTCCGAT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (52 bp):
CAATCCTGATCGCCACCATGGCATCAATACTATCAATGACACCAAGTCACTC
Found at i:885058 original size:81 final size:81
Alignment explanation
Indices: 884915--885063 Score: 190
Period size: 81 Copynumber: 1.8 Consensus size: 81
884905 ACTCTGATCT
* * *** * **
884915 TGATCGCCACCATGGCATCAATATTATCAGTGACACCAAGTCACTTTGATCGTGCTCACCACCAT
1 TGATCGCCACCATGGCATCAATACTATCAATGACACCAAGTCACTCCAATCCTAATCACCACCAT
884980 GGCTTCACCTCAATCC
66 GGCTTCACCTCAATCC
* * * *
884996 TGATCGCTACCATGGCATCAATACTGTCAATGACACCAAGTCACTCCAATCCTAATCGCCACCTT
1 TGATCGCCACCATGGCATCAATACTATCAATGACACCAAGTCACTCCAATCCTAATCACCACCAT
885061 GGC
66 GGC
885064 ATCAATATTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 56 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.25
Consensus pattern (81 bp):
TGATCGCCACCATGGCATCAATACTATCAATGACACCAAGTCACTCCAATCCTAATCACCACCAT
GGCTTCACCTCAATCC
Found at i:885166 original size:78 final size:78
Alignment explanation
Indices: 885044--885188 Score: 227
Period size: 78 Copynumber: 1.9 Consensus size: 78
885034 AGTCACTCCA
* * * *
885044 ATCCTAATCGCCACCTTGGCATCAATATTATCAGTGACGCCGAGTCACTCTGATCCTGATCGCCA
1 ATCCTAATCGCCACCATGGCATCAATATTATCAATGACGCCGAGTCACTCCGATCCTGATCACCA
885109 CCATGACATTCCG
66 CCATGACATTCCG
* * *
885122 ATCCTTATCGCCACCATGGCATCAATATTATCAATGATGTCGAGTCACTCCGATCCTGATCACCA
1 ATCCTAATCGCCACCATGGCATCAATATTATCAATGACGCCGAGTCACTCCGATCCTGATCACCA
885187 CC
66 CC
885189 CTGGCATCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (78 bp):
ATCCTAATCGCCACCATGGCATCAATATTATCAATGACGCCGAGTCACTCCGATCCTGATCACCA
CCATGACATTCCG
Found at i:885188 original size:130 final size:131
Alignment explanation
Indices: 884858--885243 Score: 461
Period size: 133 Copynumber: 2.9 Consensus size: 131
884848 AAGTCACTCT
* * * ** * *
884858 AATCCTGCTCGCCACAATGGCATCAATACTGTCCGTGACACCAAGTCACTCTGATCTTGATCGCC
1 AATCCTGATCGCCACCATGGCATCAATACTATCAATGACACCAAGTCACTCCGATCCTGATCGCC
* * * * *
884923 ACCATGGCATCAATATTATCAGTGACACCAAGTCACTTTGATCGTGCTCACCACCATGGCTTCAC
66 ACCATGGCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGATCGCCACCATGACTT--C
884988 CTC
129 CTC
* * * *
884991 AATCCTGATCGCTACCATGGCATCAATACTGTCAATGACACCAAGTCACTCCAATCCTAATCGCC
1 AATCCTGATCGCCACCATGGCATCAATACTATCAATGACACCAAGTCACTCCGATCCTGATCGCC
* * *
885056 ACCTTGGCATCAATATTATCAGTGACGCCGAGTCACTCTGATCCTGATCGCCACCATGACATT-C
66 ACCATGGCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGATCGCCACCATGAC-TTCC
885120 -C
130 TC
* * * *** * *
885121 GATCCTTATCGCCACCATGGCATCAATATTATCAATGATGTCGAGTCACTCCGATCCTGATCACC
1 AATCCTGATCGCCACCATGGCATCAATACTATCAATGACACCAAGTCACTCCGATCCTGATCGCC
* * *
885186 ACCCTGGCATCAATATTGTCAGTGACACCAAGTCACTCTGATCCTAATCGCCACCATG
66 ACCATGGCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGATCGCCACCATG
885244 GCATCAATAT
Statistics
Matches: 218, Mismatches: 34, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
130 107 0.49
131 1 0.00
133 108 0.50
134 2 0.01
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (131 bp):
AATCCTGATCGCCACCATGGCATCAATACTATCAATGACACCAAGTCACTCCGATCCTGATCGCC
ACCATGGCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGATCGCCACCATGACTTCCT
C
Found at i:885196 original size:52 final size:52
Alignment explanation
Indices: 885118--885315 Score: 243
Period size: 52 Copynumber: 3.8 Consensus size: 52
885108 ACCATGACAT
* *
885118 TCCGATCCTTATCGCCACCATGGCATCAATATTATCAATGATGTCGAGTCAC
1 TCCGATCCTGATCGCCACCATGGCATCAATATTATCAATGACGTCGAGTCAC
* * * * ** *
885170 TCCGATCCTGATCACCACCCTGGCATCAATATTGTCAGTGACACCAAGTCAC
1 TCCGATCCTGATCGCCACCATGGCATCAATATTATCAATGACGTCGAGTCAC
* * * * *
885222 TCTGATCCTAATCGCCACCATGGCATCAATATTATTAATGACGTTGCGTCAC
1 TCCGATCCTGATCGCCACCATGGCATCAATATTATCAATGACGTCGAGTCAC
* * *
885274 TCCGATCCTGATCGCCATCATGGCATCAATATGATCAGTGAC
1 TCCGATCCTGATCGCCACCATGGCATCAATATTATCAATGAC
885316 ACCAAGTTGC
Statistics
Matches: 119, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 119 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (52 bp):
TCCGATCCTGATCGCCACCATGGCATCAATATTATCAATGACGTCGAGTCAC
Found at i:885336 original size:104 final size:104
Alignment explanation
Indices: 885121--885322 Score: 316
Period size: 104 Copynumber: 1.9 Consensus size: 104
885111 ATGACATTCC
* *
885121 GATCCTTATCGCCACCATGGCATCAATATTATCAATGATGTCGAGTCACTCCGATCCTGATCACC
1 GATCCTAATCGCCACCATGGCATCAATATTATCAATGACGTCGAGTCACTCCGATCCTGATCACC
*
885186 ACCCTGGCATCAATATTGTCAGTGACACCAAGTCACTCT
66 ACCATGGCATCAATATTGTCAGTGACACCAAGTCACTCT
* * * *
885225 GATCCTAATCGCCACCATGGCATCAATATTATTAATGACGTTGCGTCACTCCGATCCTGATCGCC
1 GATCCTAATCGCCACCATGGCATCAATATTATCAATGACGTCGAGTCACTCCGATCCTGATCACC
*
885290 ATCATGGCATCAATA-TGATCAGTGACACCAAGT
66 ACCATGGCATCAATATTG-TCAGTGACACCAAGT
885323 TGCTTAGATC
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 2 0.02
104 87 0.98
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (104 bp):
GATCCTAATCGCCACCATGGCATCAATATTATCAATGACGTCGAGTCACTCCGATCCTGATCACC
ACCATGGCATCAATATTGTCAGTGACACCAAGTCACTCT
Found at i:886197 original size:75 final size:75
Alignment explanation
Indices: 886007--886227 Score: 252
Period size: 75 Copynumber: 2.9 Consensus size: 75
885997 ATTGTTATAC
* * * *
886007 CCTGATCGCCAACACTCACTCTGGCTGCCAG-ATCTGTACTCGCCACTTAAATCCTGG-CTGCTA
1 CCTGATCGCCAACACTCACTCTGGCTGCCAGAAT-AGTGCTCGCTACTTAAATCCTGGTC-GCCA
* * *
886070 GAAAGATGGAAT
64 TAAGGACGGAAT
* * *
886082 CCTGATCACCAACACTCACCCTGGCTGCCAGACCTA-TGCTCGCTACTTAAATCCTGGTCGCCAT
1 CCTGATCGCCAACACTCACTCTGGCTGCCAGA-ATAGTGCTCGCTACTTAAATCCTGGTCGCCAT
886146 AAGGACGGAAT
65 AAGGACGGAAT
* * * *
886157 CCTGATCGCCAACACTTACTCTGGCTGCCAGAATAGTGCTCG-TCAGTTAAATCCTAGTCACCAT
1 CCTGATCGCCAACACTCACTCTGGCTGCCAGAATAGTGCTCGCT-ACTTAAATCCTGGTCGCCAT
886221 AAGGACG
65 AAGGACG
886228 AAATTCTAAC
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
74 3 0.02
75 119 0.96
76 1 0.01
77 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (75 bp):
CCTGATCGCCAACACTCACTCTGGCTGCCAGAATAGTGCTCGCTACTTAAATCCTGGTCGCCATA
AGGACGGAAT
Found at i:890071 original size:33 final size:33
Alignment explanation
Indices: 890034--890100 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
890024 TTCAACGATT
890034 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
890067 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
890100 T
1 T
890101 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:890072 original size:13 final size:13
Alignment explanation
Indices: 890054--890078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
890044 CATAAAATGT
890054 TGTATCGATACAA
1 TGTATCGATACAA
890067 TGTATCGATACA
1 TGTATCGATACA
890079 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:890304 original size:52 final size:52
Alignment explanation
Indices: 890176--890296 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
890166 TACTGATCTT
*
890176 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
890228 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
890280 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
890297 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:893651 original size:21 final size:20
Alignment explanation
Indices: 893602--893685 Score: 73
Period size: 21 Copynumber: 4.1 Consensus size: 20
893592 CCGTTGGGCT
*
893602 AATTGCATCGATACAATTCTG
1 AATTGTATCGATAC-ATTCTG
893623 AA-TGTATCGATACATTCTAG
1 AATTGTATCGATACATTCT-G
* * *
893643 AATTGTATCAATATATTCTT
1 AATTGTATCGATACATTCTG
*
893663 ATGTGTGTATCGATACATT-TG
1 A-AT-TGTATCGATACATTCTG
893684 AA
1 AA
893686 GGATAGCTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
19 5 0.10
20 14 0.28
21 19 0.38
22 12 0.24
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (20 bp):
AATTGTATCGATACATTCTG
Found at i:896324 original size:13 final size:13
Alignment explanation
Indices: 896306--896331 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
896296 ACATTAAAAT
896306 TGTATCGATACAA
1 TGTATCGATACAA
896319 TGTATCGATACAA
1 TGTATCGATACAA
896332 ATTACTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:896378 original size:48 final size:49
Alignment explanation
Indices: 896318--896426 Score: 132
Period size: 48 Copynumber: 2.2 Consensus size: 49
896308 TATCGATACA
*
896318 ATGTATCGATACAAATTACTTTGTATCGATACAATT-TGAAAAA-CCCAG
1 ATGTATCGATACAAATTACTTTGTATCGACAC-ATTCTGAAAAATCCCAG
* ** * *
896366 ATGTATCAATACATTTTGCTTTGTATCGACACATTCTGAAAAATTCCAG
1 ATGTATCGATACAAATTACTTTGTATCGACACATTCTGAAAAATCCCAG
*
896415 AAGTATCGATAC
1 ATGTATCGATAC
896427 TTTGAGCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
47 3 0.06
48 34 0.67
49 14 0.27
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (49 bp):
ATGTATCGATACAAATTACTTTGTATCGACACATTCTGAAAAATCCCAG
Found at i:902544 original size:33 final size:33
Alignment explanation
Indices: 902479--902545 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
902469 ACCTTCACAT
* *
902479 AATGTATCGATACATTGCAATTTATATCGATAC
1 AATGTATCAATACATTGCAACTTATATCGATAC
* * * *
902512 AATGTATCAATATATTGTAACTTGTATTGATAC
1 AATGTATCAATACATTGCAACTTATATCGATAC
902545 A
1 A
902546 TCTGCATGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (33 bp):
AATGTATCAATACATTGCAACTTATATCGATAC
Found at i:903042 original size:15 final size:14
Alignment explanation
Indices: 902983--903038 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
902973 TATGTTTAAA
* *
902983 ATATTTTATATTTT
1 ATATTATATAATTT
902997 ATATTTATATCAATTT
1 ATA-TTATAT-AATTT
903013 ATACATTA-ATAATTT
1 AT--ATTATATAATTT
903028 ATATTATATAA
1 ATATTATATAA
903039 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 4 0.11
14 7 0.20
15 12 0.34
16 8 0.23
17 3 0.09
18 1 0.03
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTATATAATTT
Found at i:903055 original size:30 final size:32
Alignment explanation
Indices: 902989--903056 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 32
902979 TAAAATATTT
* * * *
902989 TATATTTTATATTTATATCAATTTATACATTA
1 TATAATTTATATTTATATAAATTTATAAAATA
903021 -ATAATTTATA-TTATATAAATTT-TAAAATA
1 TATAATTTATATTTATATAAATTTATAAAATA
903050 TATAATT
1 TATAATT
903057 ATGTCACATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 5 0.16
30 17 0.55
31 9 0.29
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (32 bp):
TATAATTTATATTTATATAAATTTATAAAATA
Found at i:903866 original size:13 final size:14
Alignment explanation
Indices: 903847--903897 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
903837 ATATATTTTT
*
903847 TATTTTTTAATTAA
1 TATTTTTTAATAAA
903861 -ATTTTTTAATAAA
1 TATTTTTTAATAAA
*
903874 TATTTTTTAAAATAA
1 TATTTTTTAATA-AA
*
903889 TCTTTTTTA
1 TATTTTTTA
903898 CATGCAATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.38
14 10 0.31
15 10 0.31
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTTTTAATAAA
Found at i:903887 original size:16 final size:15
Alignment explanation
Indices: 903847--903897 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
903837 ATATATTTTT
*
903847 TATTTTTT-AATTAA
1 TATTTTTTAAAATAA
*
903861 -ATTTTTTAATA-AA
1 TATTTTTTAAAATAA
903874 TATTTTTTAAAATAA
1 TATTTTTTAAAATAA
*
903889 TCTTTTTTA
1 TATTTTTTA
903898 CATGCAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 9 0.30
14 11 0.37
15 10 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTTTTAAAATAA
Found at i:906149 original size:15 final size:16
Alignment explanation
Indices: 906120--906154 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
906110 TTTTAAATTT
*
906120 TTTAAAATATTTTATG
1 TTTAAAATATTTTATA
906136 TTTAAAAT-TTTTATA
1 TTTAAAATATTTTATA
906151 TTTA
1 TTTA
906155 TATAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTAAAATATTTTATA
Found at i:906173 original size:27 final size:26
Alignment explanation
Indices: 906139--906219 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 26
906129 TTTTATGTTT
906139 AAAATTTTTATATTTATATAAATTT-
1 AAAATTTTTATATTTATATAAATTTG
* * **
906164 AACACGTTTTT-TACGTTATATTCATGTTG
1 AA-A-ATTTTTATA-TTTATATAAAT-TTG
906193 AAAATTTTTATATTTATATAAATTTG
1 AAAATTTTTATATTTATATAAATTTG
906219 A
1 A
906220 CATGTTGATA
Statistics
Matches: 42, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
25 2 0.05
26 7 0.17
27 26 0.62
28 5 0.12
29 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (26 bp):
AAAATTTTTATATTTATATAAATTTG
Found at i:906225 original size:34 final size:31
Alignment explanation
Indices: 906186--906248 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 31
906176 ACGTTATATT
906186 CATGTTGAAAATTTTTATATTTATATAAATTTGA
1 CATGTTGAAAA--TTTATA-TTATATAAATTTGA
*
906220 CATGTTGATAATTTATATTATATAAATTT
1 CATGTTGAAAATTTATATTATATAAATTT
906249 TTATAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 12 0.43
32 6 0.21
34 10 0.36
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (31 bp):
CATGTTGAAAATTTATATTATATAAATTTGA
Found at i:908207 original size:21 final size:21
Alignment explanation
Indices: 908167--908208 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
908157 GCCAATATTG
*
908167 TATTGATACATACACCTAAAA
1 TATTGATACATACACATAAAA
* *
908188 TATTGATACATTCATATAAAA
1 TATTGATACATACACATAAAA
908209 ATTAATTCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (21 bp):
TATTGATACATACACATAAAA
Found at i:913953 original size:15 final size:15
Alignment explanation
Indices: 913933--913963 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
913923 AATTATTTTC
*
913933 AATTATTATTAAATT
1 AATTATAATTAAATT
913948 AATTATAATTAAATT
1 AATTATAATTAAATT
913963 A
1 A
913964 TATGTTAATC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTATAATTAAATT
Found at i:914419 original size:13 final size:13
Alignment explanation
Indices: 914401--914425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
914391 AAAATAAAAA
914401 TATTTTAAAATTT
1 TATTTTAAAATTT
914414 TATTTTAAAATT
1 TATTTTAAAATT
914426 AATACATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTTAAAATTT
Found at i:914504 original size:16 final size:16
Alignment explanation
Indices: 914470--914509 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
914460 TATCATATGT
914470 ACTTGAATTAAAATATA
1 ACTT-AATTAAAATATA
* *
914487 ACTTAATTAGAATTTA
1 ACTTAATTAAAATATA
914503 ACTTAAT
1 ACTTAAT
914510 AATAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (16 bp):
ACTTAATTAAAATATA
Found at i:916590 original size:22 final size:21
Alignment explanation
Indices: 916547--916586 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
916537 TATTTTTATT
916547 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
916568 TAAATATTAA-TATAAAATA
1 TAAAT-TTAATTATAAAATA
916587 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:919410 original size:37 final size:38
Alignment explanation
Indices: 919338--919410 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
919328 TAATAAATTT
*
919338 AAATATTTAAAAGTAAATTTTGCAAATTTTGAATTTCA
1 AAATATTTAAAAGTAAATTTTGAAAATTTTGAATTTCA
* *
919376 AAATATTTAAAA-TACATTTTTTAAAATTTT-AATTT
1 AAATATTTAAAAGTA-AATTTTGAAAATTTTGAATTT
919411 AATATGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 7 0.23
38 24 0.77
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (38 bp):
AAATATTTAAAAGTAAATTTTGAAAATTTTGAATTTCA
Found at i:919411 original size:27 final size:25
Alignment explanation
Indices: 919380--919433 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
919370 ATTTCAAAAT
*
919380 ATTTAAAATACATTTTTTAAAATTTTA
1 ATTTAAAAT-CA-TTTTTAAAATATTA
* *
919407 ATTTAATATGATTTTTAAAATATTA
1 ATTTAAAATCATTTTTAAAATATTA
919432 AT
1 AT
919434 GATAAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.62
26 1 0.04
27 8 0.33
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTAAAATCATTTTTAAAATATTA
Found at i:920147 original size:19 final size:19
Alignment explanation
Indices: 920110--920147 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
920100 TATGTCTCAT
*
920110 TTTTTTAAATTATTTTTTA
1 TTTTTTAAATTATATTTTA
920129 TTTTTTAGAA-TATATTTTA
1 TTTTTTA-AATTATATTTTA
920148 AAAGGCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTTTAAATTATATTTTA
Found at i:921033 original size:9 final size:9
Alignment explanation
Indices: 921019--921049 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
921009 TTTATTTTTA
921019 ATTTAATTT
1 ATTTAATTT
921028 ATTTAATTT
1 ATTTAATTT
921037 ATTTATATTT
1 ATTTA-ATTT
921047 ATT
1 ATT
921050 ATTAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTAATTT
Found at i:921115 original size:21 final size:21
Alignment explanation
Indices: 921077--921116 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
921067 ATTTAAAAAT
*
921077 TATTTTTAATTTATATTTATA
1 TATTTTTAATTTAAATTTATA
921098 TATTTTATAA-TTAAATTTA
1 TATTTT-TAATTTAAATTTA
921117 AATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTAATTTAAATTTATA
Found at i:921497 original size:40 final size:41
Alignment explanation
Indices: 921442--921524 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 41
921432 CCTACATGAA
921442 AAAAAATTGA-TTTTTTTTTTTAGTTTTTGAATTAAAATTT
1 AAAAAATTGATTTTTTTTTTTTAGTTTTTGAATTAAAATTT
* *
921482 AAAATATTGATTTTTTTTTTTTTAGTTTTTGAATTGAAATTT
1 AAAAAATTGA-TTTTTTTTTTTTAGTTTTTGAATTAAAATTT
921524 A
1 A
921525 TGTCACTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 9 0.23
42 30 0.77
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (41 bp):
AAAAAATTGATTTTTTTTTTTTAGTTTTTGAATTAAAATTT
Found at i:922076 original size:28 final size:28
Alignment explanation
Indices: 922014--922077 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
922004 TATCAATATT
*
922014 TATAAATTTTATAATTAAATTTAAAAAA
1 TATAAATTTTATAATTAAATTAAAAAAA
*
922042 TAAAAATATTT-TAATTAAATTAAAATAAA
1 TATAAAT-TTTATAATTAAATTAAAA-AAA
922071 T-TAAATT
1 TATAAATT
922078 AGTAAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 1 0.03
28 23 0.74
29 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TATAAATTTTATAATTAAATTAAAAAAA
Found at i:922515 original size:26 final size:25
Alignment explanation
Indices: 922463--922523 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
922453 AATTTATTAA
** * *
922463 TTATATAAAAATATAAAATTTATAT
1 TTATATATTAATATAAAATATAAAT
*
922488 TTAATATATTAATATAATATATAAAT
1 TT-ATATATTAATATAAAATATAAAT
922514 TTATATATTA
1 TTATATATTA
922524 TCAATAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTATATATTAATATAAAATATAAAT
Found at i:924516 original size:32 final size:33
Alignment explanation
Indices: 924460--924538 Score: 115
Period size: 32 Copynumber: 2.4 Consensus size: 33
924450 AATAAAAAAT
* *
924460 TATATAAATATATAAATATTTTAAAATTTATATA
1 TATATAAA-ATATTAATATATTAAAATTTATATA
*
924494 -ATATAGAATATTAATATATTAAAATTTATATA
1 TATATAAAATATTAATATATTAAAATTTATATA
924526 TATATAAAATATT
1 TATATAAAATATT
924539 TTAAATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
32 23 0.57
33 17 0.43
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (33 bp):
TATATAAAATATTAATATATTAAAATTTATATA
Found at i:924526 original size:14 final size:14
Alignment explanation
Indices: 924475--924526 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
924465 AAATATATAA
*
924475 ATATTTTAAAATTT
1 ATATATTAAAATTT
*
924489 ATATAATATAGAATATTA
1 ATAT-AT-TA-AA-ATTT
924507 ATATATTAAAATTT
1 ATATATTAAAATTT
924521 ATATAT
1 ATATAT
924527 ATATAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 13 0.42
15 3 0.10
16 4 0.13
17 4 0.13
18 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:924528 original size:18 final size:18
Alignment explanation
Indices: 924465--924550 Score: 65
Period size: 18 Copynumber: 5.0 Consensus size: 18
924455 AAAATTATAT
* *
924465 AAATATATAAATATTTTA
1 AAATTTATAAATATATTA
*
924483 AAATTTATATA-ATA-TA
1 AAATTTATAAATATATTA
* *
924499 GAA--TATTAATATATTA
1 AAATTTATAAATATATTA
*
924515 AAATTTATATATATA-TA
1 AAATTTATAAATATATTA
*
924532 AAATATTTTAAATATATTA
1 AAAT-TTATAAATATATTA
924551 TAGATGTAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
14 4 0.08
15 3 0.06
16 8 0.16
17 8 0.16
18 26 0.51
19 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
AAATTTATAAATATATTA
Found at i:924872 original size:41 final size:40
Alignment explanation
Indices: 924817--924897 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 40
924807 TTATTTTTAT
** * * *
924817 TTAATTATTTTAATATTTTTTATTATTGATATTTATTATAA
1 TTAATTATAATAATATTTATTA-TATTGATAATTATAATAA
*
924858 TTAATTATAATAATATTTATTATATTTATAATTATAATAA
1 TTAATTATAATAATATTTATTATATTGATAATTATAATAA
924898 ATAACTCGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 15 0.44
41 19 0.56
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (40 bp):
TTAATTATAATAATATTTATTATATTGATAATTATAATAA
Found at i:924897 original size:27 final size:25
Alignment explanation
Indices: 924845--924897 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 25
924835 TTTATTATTG
924845 ATATTTATTATAATTAATTATAATA
1 ATATTTATTATAATTAATTATAATA
*
924870 ATATTTATTATATTTATAATTATAATA
1 ATATTTATTATA-AT-TAATTATAATA
924897 A
1 A
924898 ATAACTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 12 0.48
26 1 0.04
27 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATTTATTATAATTAATTATAATA
Found at i:926428 original size:51 final size:51
Alignment explanation
Indices: 926369--926484 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
926359 TGAACAGTAC
*
926369 ATGTATCGATACATTATATTTTTTT-ACCAAGATATATCGATAC-ATTGTTCA
1 ATGTATCGATACATTATATTTTTTTGACC-ACATATATCGATACAATT-TTCA
* * * *
926420 ATGTATCGATACATTCTGTTTTTTTGTCCACATGTATCGATACAATTTTCA
1 ATGTATCGATACATTATATTTTTTTGACCACATATATCGATACAATTTTCA
926471 ATGTATCGATACAT
1 ATGTATCGATACAT
926485 CTAATTAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
51 53 0.91
52 5 0.09
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (51 bp):
ATGTATCGATACATTATATTTTTTTGACCACATATATCGATACAATTTTCA
Found at i:927967 original size:20 final size:21
Alignment explanation
Indices: 927938--927979 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
927928 TTTCGTATTG
*
927938 AAAAATAATTTTAAAATTTTT
1 AAAAATAATTTCAAAATTTTT
*
927959 AAAAA-AATTTCAAATTTTTT
1 AAAAATAATTTCAAAATTTTT
927979 A
1 A
927980 GTATTTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAAATAATTTCAAAATTTTT
Found at i:928825 original size:97 final size:97
Alignment explanation
Indices: 928676--928902 Score: 337
Period size: 97 Copynumber: 2.3 Consensus size: 97
928666 GGGATACCCT
* *
928676 AACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATT
1 AACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTCAAACACATCAAAGTTTAAATCTTATT
928741 CTAACTTAAATTGTCATCATCGAGGACACTCC
66 CTAACTTAAATTGTCATCATCGAGGACACTCC
* * * *
928773 AACCCCATTCCTTCGAGGGGATACTCCAACCTCGCTTTCAAATACATTAAAGTTTAAATCTTATT
1 AACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTCAAACACATCAAAGTTTAAATCTTATT
* * * * *
928838 CTCACTTAAATTGTCATCATTGGGGACATTCT
66 CTAACTTAAATTGTCATCATCGAGGACACTCC
* *
928870 AATCCCATTCCTCCGAGAGGATACTCCAACCCC
1 AACCCCATTCCTCCGAGGGGATACTCCAACCCC
928903 ATTTTTTTCA
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 115 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.30
Consensus pattern (97 bp):
AACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTCAAACACATCAAAGTTTAAATCTTATT
CTAACTTAAATTGTCATCATCGAGGACACTCC
Found at i:929394 original size:24 final size:25
Alignment explanation
Indices: 929366--929413 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
929356 GGGTTCATAT
*
929366 TGAAAT-AATATTGAGTCGAAACAA
1 TGAAATCAATATTGAGTCAAAACAA
929390 TGAAATCAATATTGAGTCAAAACA
1 TGAAATCAATATTGAGTCAAAACA
929414 TAGCTAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (25 bp):
TGAAATCAATATTGAGTCAAAACAA
Found at i:933942 original size:13 final size:13
Alignment explanation
Indices: 933924--933954 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
933914 TTCTGGTCAT
933924 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
*
933937 AAAAAAAGAAGAG
1 AAAAAAAGAAAAG
933950 AAAAA
1 AAAAA
933955 TTTCACCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:936282 original size:158 final size:158
Alignment explanation
Indices: 936023--936419 Score: 439
Period size: 158 Copynumber: 2.5 Consensus size: 158
936013 ACTCCCTTAG
* * ** * *
936023 AAATAACGAAGTTAAAGTATCCCCAACGGTGGAAAATT-G-ATGTTT-AGGAAATAAAACTAGGG
1 AAATAACGAGGTTAGAGTATCCCCAATTGTGAAAAATTAGTAT-TTTGA-G-AATAAAACTAAGG
* * * * * * *
936085 TTAAAGTAT-CCTTTCGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTG
63 TTAGAGTATCCCCTT-GAAAATAACAGGGTTGAAGTATCCCCAATTGTGAAAAATTGATGTTTTA
* * *
936149 GAAATAAAACC-GAGGTTGGAGTATCCTTTCAA
127 AAAATAAAACCAG-GGTTAGAATATCCTTTCAA
* * * *
936181 AAATAACGAGGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTGA-AAGTAAAA-TCAAGGT
1 AAATAACGAGGTTAGAGTATCCCCAATTGTGAAAAATTAGTATTTTGAGAA-TAAAACT-AAGGT
* *
936244 TGGAGTATCCCCTTGAAAATAACGGGGTTGAAGTATCCCCAATTGTGAAAAATTGATGTTTTAAA
64 TAGAGTATCCCCTTGAAAATAACAGGGTTGAAGTATCCCCAATTGTGAAAAATTGATGTTTTAAA
* *
936309 AATAAAATCAGGGTTAGAATATCCTTTCGA
129 AATAAAACCAGGGTTAGAATATCCTTTCAA
* *
936339 AAATAATGGGGTTAGAGTATCCCCAATTGTGAAAAATTAGTATTTTGAGAATAAAACTAAGGTTA
1 AAATAACGAGGTTAGAGTATCCCCAATTGTGAAAAATTAGTATTTTGAGAATAAAACTAAGGTTA
*
936404 GAGTATTCCCTTGAAA
66 GAGTATCCCCTTGAAA
936420 TAAAAATATG
Statistics
Matches: 199, Mismatches: 31, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
157 3 0.02
158 182 0.91
159 12 0.06
160 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (158 bp):
AAATAACGAGGTTAGAGTATCCCCAATTGTGAAAAATTAGTATTTTGAGAATAAAACTAAGGTTA
GAGTATCCCCTTGAAAATAACAGGGTTGAAGTATCCCCAATTGTGAAAAATTGATGTTTTAAAAA
TAAAACCAGGGTTAGAATATCCTTTCAA
Found at i:936392 original size:79 final size:78
Alignment explanation
Indices: 936038--936405 Score: 368
Period size: 79 Copynumber: 4.7 Consensus size: 78
936028 ACGAAGTTAA
** * * *
936038 AGTATCCCCAACGGTGGAAAATTGATGTTTAG-GAAATAAAACTAGGGTTA-AAGTATCCTTTCG
1 AGTATCCCCAATTGTGAAAAATTGGTGTTTTGAG-AATAAAAC-AGGGTTAGAA-TATCCTTTCG
* *
936101 GAAATAACAGGGTTGG
63 AAAATAACGGGGTTGG
* * * * *
936117 AGTATCCCCGATTGTGAAAAATTGGTGTTTTG-GAAATAAAACCGAGGTTGGAGTATCCTTTCAA
1 AGTATCCCCAATTGTGAAAAATTGGTGTTTTGAG-AATAAAACAG-GGTTAGAATATCCTTTCGA
*
936181 AAATAACGAGGTTGG
64 AAATAACGGGGTTGG
* * * * *
936196 AGTATCCTCAATTGTGAAAAATTGGTGTTTTGA-AAGTAAAATCAAGGTTGGAGTATCCCCTT-G
1 AGTATCCCCAATTGTGAAAAATTGGTGTTTTGAGAA-TAAAA-CAGGGTTAGAATAT-CCTTTCG
*
936259 AAAATAACGGGGTTGA
63 AAAATAACGGGGTTGG
* * *
936275 AGTATCCCCAATTGTGAAAAATTGATGTTTTAAAAATAAAATCAGGGTTAGAATATCCTTTCGAA
1 AGTATCCCCAATTGTGAAAAATTGGTGTTTTGAGAATAAAA-CAGGGTTAGAATATCCTTTCGAA
* *
936340 AATAATGGGGTTAG
65 AATAACGGGGTTGG
* * *
936354 AGTATCCCCAATTGTGAAAAATTAGTATTTTGAGAATAAAACTAAGGTTAGA
1 AGTATCCCCAATTGTGAAAAATTGGTGTTTTGAGAATAAAAC-AGGGTTAGA
936406 GTATTCCCTT
Statistics
Matches: 243, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
78 8 0.03
79 227 0.93
80 8 0.03
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (78 bp):
AGTATCCCCAATTGTGAAAAATTGGTGTTTTGAGAATAAAACAGGGTTAGAATATCCTTTCGAAA
ATAACGGGGTTGG
Found at i:937159 original size:13 final size:13
Alignment explanation
Indices: 937141--937167 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
937131 ATATTATGCT
937141 TTGTATCGATACA
1 TTGTATCGATACA
937154 TTGTATCGATACA
1 TTGTATCGATACA
937167 T
1 T
937168 GCTTACTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:938887 original size:3 final size:3
Alignment explanation
Indices: 938879--938908 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
938869 TGAAGAGGAA
*
938879 GAT GAT GAT GAT GAT GAT GAT GAT GGT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
938909 TCAGATGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:939112 original size:25 final size:25
Alignment explanation
Indices: 939078--939136 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
939068 TTTGATTGTC
939078 TAAACCTAAAGAAGAAAAATGTGAG
1 TAAACCTAAAGAAGAAAAATGTGAG
939103 TAAACCTAAAGAAGAAAAATGTGAG
1 TAAACCTAAAGAAGAAAAATGTGAG
*
939128 CAAACCTAA
1 TAAACCTAA
939137 GAAAAATGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (25 bp):
TAAACCTAAAGAAGAAAAATGTGAG
Found at i:939138 original size:21 final size:22
Alignment explanation
Indices: 939089--939151 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 22
939079 AAACCTAAAG
*
939089 AAGAAAAATGTGAGTAAACCTAAA
1 AAGAAAAATGTGAGCAAACCT--A
939113 GAAGAAAAATGTGAGCAAACCT-
1 -AAGAAAAATGTGAGCAAACCTA
*
939135 AAGAAAAATGAGAGCAA
1 AAGAAAAATGTGAGCAA
939152 GAAGCAACGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.44
25 20 0.56
ACGTcount: A:0.57, C:0.10, G:0.21, T:0.13
Consensus pattern (22 bp):
AAGAAAAATGTGAGCAAACCTA
Found at i:941905 original size:13 final size:13
Alignment explanation
Indices: 941887--941912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
941877 TACACCAAGT
941887 ATGTATCGATACA
1 ATGTATCGATACA
941900 ATGTATCGATACA
1 ATGTATCGATACA
941913 CTAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:948239 original size:20 final size:20
Alignment explanation
Indices: 948196--948241 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
948186 AAATCTTTTG
948196 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
948217 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
948237 CAAAA
1 CAAAA
948242 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:950672 original size:21 final size:20
Alignment explanation
Indices: 950626--950678 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
950616 GTAACCAAAC
**
950626 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACCAAAAA
950646 -TGTATCGATACACCAAAAAA
1 TTGTATCGATACACC-AAAAA
950666 TTGTATCGATACA
1 TTGTATCGATACA
950679 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.48
20 3 0.10
21 12 0.41
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACCAAAAA
Found at i:953267 original size:19 final size:20
Alignment explanation
Indices: 953245--953286 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
953235 TTGATGTTTG
953245 TTATGATTGTATGAT-TGAA
1 TTATGATTGTATGATATGAA
* *
953264 TTATGTTTGTTTGATATGAA
1 TTATGATTGTATGATATGAA
953284 TTA
1 TTA
953287 GGGTCTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (20 bp):
TTATGATTGTATGATATGAA
Found at i:953450 original size:13 final size:13
Alignment explanation
Indices: 953412--953466 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
953402 ACAACATTCT
*
953412 TTGTATCGATACC
1 TTGTATCGATACA
* *
953425 TTATATCGGTACA
1 TTGTATCGATACA
*
953438 TTGTATTGATACA
1 TTGTATCGATACA
953451 TTGTATCGATACA
1 TTGTATCGATACA
953464 TTG
1 TTG
953467 GCTACTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:955874 original size:33 final size:33
Alignment explanation
Indices: 955836--955902 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
955826 GTTACAAGCT
955836 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
*
955869 ATGTATCGATATATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
955902 A
1 A
955903 AGAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:955957 original size:21 final size:21
Alignment explanation
Indices: 955930--956004 Score: 79
Period size: 20 Copynumber: 3.7 Consensus size: 21
955920 ACTGCCAATT
*
955930 TCATGTATCGATACAATT-TA
1 TCATGTATCGATACAATTGAA
955950 TCCATGTATCGATAC-ATTGAA
1 T-CATGTATCGATACAATTGAA
*
955971 T-ATGTATCGATACAA-GGCAA
1 TCATGTATCGATACAATTG-AA
955991 -CATGTATCGATACA
1 TCATGTATCGATACA
956005 TCTGGGTATG
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
19 13 0.27
20 20 0.42
21 15 0.31
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (21 bp):
TCATGTATCGATACAATTGAA
Found at i:956565 original size:19 final size:18
Alignment explanation
Indices: 956543--956598 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 18
956533 AAAAAAATAT
956543 TCTCCCCCTTAAACGATTA
1 TCTCCCCCTTAAA-GATTA
* * * *
956562 TCTCCTCTTTAAAAAAT-
1 TCTCCCCCTTAAAGATTA
956579 TCTCCCCCTTAAATGATTA
1 TCTCCCCCTTAAA-GATTA
956598 T
1 T
956599 TTTCTCCCCT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
17 11 0.41
18 4 0.15
19 12 0.44
ACGTcount: A:0.29, C:0.30, G:0.04, T:0.38
Consensus pattern (18 bp):
TCTCCCCCTTAAAGATTA
Found at i:958474 original size:13 final size:13
Alignment explanation
Indices: 958456--958481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
958446 TAGTACCCAT
958456 TGTATCGATACAA
1 TGTATCGATACAA
958469 TGTATCGATACAA
1 TGTATCGATACAA
958482 GGAATGTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:964342 original size:13 final size:13
Alignment explanation
Indices: 964324--964354 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
964314 ACATTTCTTT
964324 ATGTATCGATACA
1 ATGTATCGATACA
964337 ATGTATCGATACA
1 ATGTATCGATACA
*
964350 TTGTA
1 ATGTA
964355 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:964425 original size:21 final size:21
Alignment explanation
Indices: 964399--964452 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
964389 CTGCCAATTT
964399 CATGTATCGATACAATTTATC
1 CATGTATCGATACAATTTATC
*
964420 CATGTATCGTTACAATTTATC
1 CATGTATCGATACAATTTATC
964441 CATGTATCGATA
1 CATGTATCGATA
964453 AAAGGCAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (21 bp):
CATGTATCGATACAATTTATC
Found at i:965640 original size:13 final size:13
Alignment explanation
Indices: 965622--965648 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
965612 ACATTATGCT
965622 TTGTATCGATACA
1 TTGTATCGATACA
965635 TTGTATCGATACA
1 TTGTATCGATACA
965648 T
1 T
965649 GCTCACTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:965764 original size:21 final size:20
Alignment explanation
Indices: 965717--965771 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 20
965707 CTATCACTAT
965717 TTGTATCGATACATAAGAAA
1 TTGTATCGATACATAAGAAA
* *
965737 ATATATCGATACATAAGGAAA
1 TTGTATCGATACATAA-GAAA
965758 TTGTATCGATACAT
1 TTGTATCGATACAT
965772 TGCTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATAAGAAA
Found at i:967345 original size:8 final size:8
Alignment explanation
Indices: 967332--967357 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
967322 AAAGCCACAA
967332 GAATGCAT
1 GAATGCAT
967340 GAATGCAT
1 GAATGCAT
967348 GAATGCAT
1 GAATGCAT
967356 GA
1 GA
967358 GAGTCCTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (8 bp):
GAATGCAT
Found at i:968140 original size:30 final size:30
Alignment explanation
Indices: 968067--968141 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
968057 ATACATTGAG
*
968067 AAATGTATCAATACATCTAGGTAAAACCCA
1 AAATGTATCGATACATCTAGGTAAAACCCA
* *
968097 TAATGTACCGATACATCTAGGTAAAACCCA
1 AAATGTATCGATACATCTAGGTAAAACCCA
*
968127 AAATGTATTGATACA
1 AAATGTATCGATACA
968142 ATGAACAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (30 bp):
AAATGTATCGATACATCTAGGTAAAACCCA
Found at i:968433 original size:27 final size:28
Alignment explanation
Indices: 968394--968604 Score: 224
Period size: 27 Copynumber: 7.7 Consensus size: 28
968384 GTGTCTATAA
* * *
968394 CATCCTTTAAAGTCTACAACTCT-GTGG
1 CATCCTTTTAAGTCCACAACTCTCATGG
*
968421 CATCCTTTTAAGTCCACAACTCT-GTGG
1 CATCCTTTTAAGTCCACAACTCTCATGG
968448 CA-CCATTTTAAAGTCCACAAC-CTCATGG
1 CATCC-TTTT-AAGTCCACAACTCTCATGG
968476 CATCCTTTTAAGTCCACAACTC-CATGG
1 CATCCTTTTAAGTCCACAACTCTCATGG
*
968503 CATCCTTTTTAAGTCCATAAC-CTCATGG
1 CATCC-TTTTAAGTCCACAACTCTCATGG
* *
968531 TATCCTTTTAAGTCCACAACT-TCGTGG
1 CATCCTTTTAAGTCCACAACTCTCATGG
968558 CA-CCATTTTAAAGTCCACAAC-CTCATGG
1 CATCC-TTTT-AAGTCCACAACTCTCATGG
* * *
968586 CAACCATTTAAGTCTACAA
1 CATCCTTTTAAGTCCACAA
968605 GTCAGTAGCA
Statistics
Matches: 161, Mismatches: 11, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.02
27 88 0.55
28 65 0.40
29 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (28 bp):
CATCCTTTTAAGTCCACAACTCTCATGG
Found at i:968483 original size:55 final size:55
Alignment explanation
Indices: 968399--968688 Score: 284
Period size: 55 Copynumber: 5.3 Consensus size: 55
968389 TATAACATCC
* *
968399 TTTAAAGTCTACAA-CTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCAT
1 TTTAAAGTCCACAACCTC-ATGGCATCCTTTTAAGTCCACAACTCTGTGGCACCAT
**
968454 TTTAAAGTCCACAACCTCATGGCATCCTTTTAAGTCCACAACTCCATGGCATCC-T
1 TTTAAAGTCCACAACCTCATGGCATCCTTTTAAGTCCACAACTCTGTGGCA-CCAT
* * *
968509 TTTTAAGTCCATAACCTCATGGTATCCTTTTAAGTCCACAACT-TCGTGGCACCAT
1 TTTAAAGTCCACAACCTCATGGCATCCTTTTAAGTCCACAACTCT-GTGGCACCAT
* * * * * * *
968564 TTTAAAGTCCACAACCTCATGGCAACCATTTAAGTCTACAAGTCAGTAGCACCCT
1 TTTAAAGTCCACAACCTCATGGCATCCTTTTAAGTCCACAACTCTGTGGCACCAT
* ** * * * *
968619 TTCAAAACCCACAA-GTCAGTGACATCCTTTCAAAGTCCACAAAT-TAGTGGCACCAT
1 TTTAAAGTCCACAACCTCA-TGGCATCCTTT-TAAGTCCACAACTCT-GTGGCACCAT
**
968675 TTCCAAGTCCACAA
1 TTTAAAGTCCACAA
968689 ATTAATGGCA
Statistics
Matches: 192, Mismatches: 35, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
54 5 0.03
55 153 0.80
56 34 0.18
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (55 bp):
TTTAAAGTCCACAACCTCATGGCATCCTTTTAAGTCCACAACTCTGTGGCACCAT
Found at i:968647 original size:28 final size:27
Alignment explanation
Indices: 968601--969311 Score: 504
Period size: 28 Copynumber: 25.1 Consensus size: 27
968591 ATTTAAGTCT
* *
968601 ACAAGTCAGTAGCACCCTTTCAAAACCC
1 ACAAGTCAGTGGCA-CCTTTCAAAGCCC
* *
968629 ACAAGTCAGTGACATCCTTTCAAAGTCC
1 ACAAGTCAGTGGCA-CCTTTCAAAGCCC
* * * *
968657 ACAAATTAGTGGCACCATTTCCAAGTCC
1 ACAAGTCAGTGGCACC-TTTCAAAGCCC
* * * *
968685 ACAAATTAATGGCACCTTTTCAAAGACC
1 ACAAGTCAGTGGCACC-TTTCAAAGCCC
* * *
968713 ATATGTCAGTGGCATCTTTTCAAAGCCC
1 ACAAGTCAGTGGCA-CCTTTCAAAGCCC
* *
968741 ACAAGTTAGTGGCATCTTTTCAAAGCCC
1 ACAAGTCAGTGGCA-CCTTTCAAAGCCC
* *
968769 ATAAGTCAGTGGCACCTTTCGAAAGCCA
1 ACAAGTCAGTGGCACCTTTC-AAAGCCC
** * * * *
968797 ATGAGTTAGTGGAACTTTTTCACAGCCC
1 ACAAGTCAGTGGCAC-CTTTCAAAGCCC
** * * * *
968825 ATGAGACAGTGACACTATTTCACAGCCC
1 ACAAGTCAGTGGCAC-CTTTCAAAGCCC
**
968853 ACAAGTCAGTGGCATATTTTCAAAGCCC
1 ACAAGTCAGTGGCA-CCTTTCAAAGCCC
* *
968881 ACAAGTGAGTGACACCTCTTTCAAAGCCC
1 ACAAGTCAGTGGCA-C-CTTTCAAAGCCC
* *
968910 ACAAGTCAATCGCACCTTTTCAAAAGCCC
1 ACAAGTCAGTGGCACC-TTTC-AAAGCCC
* *
968939 ACGAGTTAGTGGCACCCTTTTCAAAGCCC
1 ACAAGTCAGTGGCA-CC-TTTCAAAGCCC
**
968968 ATGAGTCAGTGGCACCCTTTCAAAAGCCC
1 ACAAGTCAGTGGCA-CCTTTC-AAAGCCC
* *
968997 ACAAGTTAGTGGCACCCTTTCAAAGCTC
1 ACAAGTCAGTGGCA-CCTTTCAAAGCCC
* * * *
969025 ATAAGTTAGTGGTATCCTTTCAAAGTCC
1 ACAAGTCAGTGGCA-CCTTTCAAAGCCC
* * * *
969053 ACAAATCAGTGGTACCTTTTCCAAGTCC
1 ACAAGTCAGTGGCACC-TTTCAAAGCCC
* * *
969081 ACAAATTAGTGGCACCTTTTTAAAGCCC
1 ACAAGTCAGTGGCACC-TTTCAAAGCCC
* * * *
969109 ACAAATTAGTGGCATCTTTTCAAAGCTC
1 ACAAGTCAGTGGCA-CCTTTCAAAGCCC
* * *
969137 ACAAGTCAATGACAGCTTTTCAAAAGCCC
1 ACAAGTCAGTGGCA-CCTTTC-AAAGCCC
* * *
969166 ACAAATCAGTGGCACTTTTTCACAGCCC
1 ACAAGTCAGTGGCAC-CTTTCAAAGCCC
969194 ACAAGTCAGTGGCACCTTTCGAAAGCCC
1 ACAAGTCAGTGGCACCTTTC-AAAGCCC
* *
969222 ATAAGTTAGTGGCACCTTTTCAAAGCCC
1 ACAAGTCAGTGGCACC-TTTCAAAGCCC
* *
969250 ACGAGTTAGTGGCACACCTTTCAAAGCCC
1 ACAAGTCAGTGG--CACCTTTCAAAGCCC
*
969279 ACAAGTCAATGGCAACCATTTTCAAAGCCC
1 ACAAGTCAGTGGC-ACC--TTTCAAAGCCC
969309 ACA
1 ACA
969312 CAAGTTGGTG
Statistics
Matches: 561, Mismatches: 101, Indels: 40
0.80 0.14 0.06
Matches are distributed among these distances:
27 15 0.03
28 384 0.68
29 137 0.24
30 25 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (27 bp):
ACAAGTCAGTGGCACCTTTCAAAGCCC
Found at i:968706 original size:56 final size:56
Alignment explanation
Indices: 968601--969326 Score: 616
Period size: 56 Copynumber: 12.8 Consensus size: 56
968591 ATTTAAGTCT
* * * * * *
968601 ACAAGTCAGTAGCACCCTTTCAAAACCCACAAGTCAGTGACATCC-TTTCAAAGTCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTCAAAGCCC
* * * * * * * *
968657 ACAAATTAGTGGCACCATTTCCAAGTCCACAAATTAATGGCACCTTTTCAAAGACC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCC
* * * *
968713 ATATGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCC
* * ** * * *
968769 ATAAGTCAGTGGCACC-TTTCGAAAGCCAATGAGTTAGTGGAACTTTTTCACAGCCC
1 ACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCC
** * * * * **
968825 ATGAGACAGTGACA-CTATTTCACAGCCCACAAGTCAGTGGCATATTTTCAAAGCCC
1 ACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCC
* * * * *
968881 ACAAGTGAGTGACACCTCTTTCAAAGCCCACAAGTCAATCGCACCTTTTCAAAAGCCC
1 ACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTTAGTGGCACCTTTTC-AAAGCCC
* * ** * *
968939 ACGAGTTAGTGGCACCCTTTTCAAAGCCCATGAGTCAGTGGCACCCTTTCAAAAGCCC
1 ACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTC-AAAGCCC
* * * * * *
968997 ACAAGTTAGTGGCACCCTTTCAAAGCTCATAAGTTAGTGGTATCC-TTTCAAAGTCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTCAAAGCCC
* * * * * *
969053 ACAAATCAGTGGTACCTTTTCCAAGTCCACAAATTAGTGGCACCTTTTTAAAGCCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCC
* * * * * * * *
969109 ACAAATTAGTGGCATCTTTTCAAAGCTCACAAGTCAATGACAGCTTTTCAAAAGCCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTC-AAAGCCC
* * * *
969166 ACAAATCAGTGGCACTTTTTCACAGCCCACAAGTCAGTGGCACC-TTTCGAAAGCCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTC-AAAGCCC
* * * *
969222 ATAAGTTAGTGGCACCTTTTCAAAGCCCACGAGTTAGTGGCACACCTTTCAAAGCCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCAC-CTTTTCAAAGCCC
* *
969279 ACAAGTCAATGGCAACCATTTTCAAAGCCCACACAAGTTGGTGGCACC
1 ACAAGTCAGTGGC-ACC-TTTTCAAAG-CC-CACAAGTTAGTGGCACC
969327 CTAGTCAAAG
Statistics
Matches: 539, Mismatches: 115, Indels: 28
0.79 0.17 0.04
Matches are distributed among these distances:
55 9 0.02
56 305 0.57
57 121 0.22
58 75 0.14
59 12 0.02
60 3 0.01
61 14 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (56 bp):
ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCC
Found at i:968782 original size:84 final size:84
Alignment explanation
Indices: 968601--969311 Score: 631
Period size: 84 Copynumber: 8.4 Consensus size: 84
968591 ATTTAAGTCT
* * * * * *
968601 ACAAGTCAGTAGCACCCTTTCAAAACCCACAAGTCAGTGACATCC-TTTCAAAGTCCACAAATTA
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTTA
* * *
968665 GTGGCACCATTTCCAAGTCC
65 GTGGCACCTTTTCAAAGCCC
* * * * * * *
968685 ACAAATTAATGGCACCTTTTCAAAGACCATATGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAG
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAG
*
968750 TGGCATCTTTTCAAAGCCC
66 TGGCACCTTTTCAAAGCCC
* * ** * * * * ** **
968769 ATAAGTCAGTGGCACC-TTTCGAAAGCCAATGAGTTAGTGGAACTTTTTCACAGCCCATGAGACA
1 ACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTA
* *
968833 GTGACA-CTATTTCACAGCCC
65 GTGGCACCT-TTTCAAAGCCC
** * * *
968853 ACAAGTCAGTGGCATATTTTCAAAGCCCACAAGTGAGTGACACCTCTTTCAAAGCCCACAAGTCA
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTTA
* *
968918 ATCGCACCTTTTCAAAAGCCC
65 GTGGCACCTTTTC-AAAGCCC
* * ** *
968939 ACGAGTTAGTGGCACCCTTTTCAAAGCCCATGAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTT
1 ACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTT
* *
969004 AGTGGCACCCTTTCAAAGCTC
64 AGTGGCACCTTTTCAAAGCCC
* * * * * * * * *
969025 ATAAGTTAGTGGTATCC-TTTCAAAGTCCACAAATCAGTGGTACCTTTTCCAAGTCCACAAATTA
1 ACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTA
*
969089 GTGGCACCTTTTTAAAGCCC
65 GTGGCACCTTTTCAAAGCCC
* * * * * * * * *
969109 ACAAATTAGTGGCATCTTTTCAAAGCTCACAAGTCAATGACAGCTTTTCAAAAGCCCACAAATCA
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTTA
* *
969174 GTGGCACTTTTTCACAGCCC
65 GTGGCACCTTTTCAAAGCCC
* * *
969194 ACAAGTCAGTGGCACC-TTTCGAAAGCCCATAAGTTAGTGGCACCTTTTCAAAGCCCACGAGTTA
1 ACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTA
*
969258 GTGGCACACCTTTCAAAGCCC
65 GTGGCAC-CTTTTCAAAGCCC
*
969279 ACAAGTCAATGGCAACCATTTTCAAAGCCCACA
1 ACAAGTCAGTGGC-ACC-TTTTCAAAGCCCACA
969312 CAAGTTGGTG
Statistics
Matches: 493, Mismatches: 118, Indels: 29
0.77 0.18 0.05
Matches are distributed among these distances:
83 8 0.02
84 240 0.49
85 138 0.28
86 46 0.09
87 57 0.12
88 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (84 bp):
ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAG
TGGCACCTTTTCAAAGCCC
Found at i:969489 original size:7 final size:7
Alignment explanation
Indices: 969477--969508 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
969467 GGACAAACCC
969477 AAAAAAT
1 AAAAAAT
969484 AAAAAAT
1 AAAAAAT
969491 AAAAAAT
1 AAAAAAT
*
969498 AAAAAAG
1 AAAAAAT
969505 AAAA
1 AAAA
969509 GAAAGAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (7 bp):
AAAAAAT
Found at i:970383 original size:19 final size:19
Alignment explanation
Indices: 970359--970426 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
970349 AATTCAACGA
970359 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
970378 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
970393 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
970410 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
970427 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:970397 original size:32 final size:32
Alignment explanation
Indices: 970361--970423 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
970351 TTCAACGATT
*
970361 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
970393 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
970424 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:970398 original size:13 final size:13
Alignment explanation
Indices: 970380--970404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
970370 ACATAAGTTT
970380 TGTATCGATACAA
1 TGTATCGATACAA
970393 TGTATCGATACA
1 TGTATCGATACA
970405 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:970484 original size:13 final size:13
Alignment explanation
Indices: 970466--970491 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
970456 CATTTTTCTG
970466 TGTATCGATACAT
1 TGTATCGATACAT
970479 TGTATCGATACAT
1 TGTATCGATACAT
970492 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:970488 original size:33 final size:33
Alignment explanation
Indices: 970446--970512 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
970436 GCCAAGGAAA
***
970446 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
970479 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
970512 T
1 T
970513 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Done.