Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 338 of 344
Found at i:109657256 original size:51 final size:51
Alignment explanation
Indices: 109657190--109657293 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
109657180 GACAAGCAAC
109657190 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
* *
109657241 AAGTGATAAGTGGTAGTTTTAGCTACATTTATCTGATCAGTGACAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
109657292 AA
1 AA
109657294 ATGTGATCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (51 bp):
AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
Found at i:109663905 original size:100 final size:102
Alignment explanation
Indices: 109663600--109663908 Score: 444
Period size: 103 Copynumber: 3.0 Consensus size: 102
109663590 CTTTATTTTT
* * * * *
109663600 TTATAAATCG-CAATTCACCATATTAAGTGTGATCTACGTCCAAATCGTACTAATCTTATTACTG
1 TTATAAATCGACAATTCACCGTACTAAGTGTGGTCTAGGTCCGAATC-TACTAATCTTATTACTG
* * *
109663664 TTAGGATTTTGCCCTCCTCTTTTAATTCACAAATAAAA
65 TTAGGACTTTGTCCTCCTCTTTTAATTCACAAACAAAA
* *
109663702 TTATAAATCGACAATTCACCGTACCAAGTGTGGTCTAGGTCCGAATCATACTAATCTTATTGCTG
1 TTATAAATCGACAATTCACCGTACTAAGTGTGGTCTAGGTCCGAATC-TACTAATCTTATTACTG
*
109663767 TTAGGACTTTATCCTCCTCTTTTAATTCACAAACAAAA
65 TTAGGACTTTGTCCTCCTCTTTTAATTCACAAACAAAA
* *
109663805 TTATAAACCGACAATTCACCGTACTAAATGTGGTCTAGGTCCGAATC-A-TAATCTTATTACTGT
1 TTATAAATCGACAATTCACCGTACTAAGTGTGGTCTAGGTCCGAATCTACTAATCTTATTACTGT
* *
109663868 TAAGACTTTGTCCTCCTTTTTTAATTCACAAACAAAA
66 TAGGACTTTGTCCTCCTCTTTTAATTCACAAACAAAA
109663905 TTAT
1 TTAT
109663909 TTTATAAACT
Statistics
Matches: 187, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
100 52 0.28
101 1 0.01
102 10 0.05
103 124 0.66
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (102 bp):
TTATAAATCGACAATTCACCGTACTAAGTGTGGTCTAGGTCCGAATCTACTAATCTTATTACTGT
TAGGACTTTGTCCTCCTCTTTTAATTCACAAACAAAA
Found at i:109678419 original size:120 final size:120
Alignment explanation
Indices: 109678263--109678501 Score: 433
Period size: 120 Copynumber: 2.0 Consensus size: 120
109678253 TTGAGTAACA
*
109678263 TTAGCCGGTTTAATGTGTTAGGGTTTAGGGTTAATTGTGTGATTGACTTGCTAGGATTTGCTTTG
1 TTAGCCGGTTTAATGTGTTAGGGTTTAGGGTTAATTGTGTGATTGAATTGCTAGGATTTGCTTTG
*
109678328 TTGGACAGGAAGTAGTTGGTCAACGTACAATAGAGGTCACTTTATTATAGGGACG
66 TTGGACAGGAAGTAATTGGTCAACGTACAATAGAGGTCACTTTATTATAGGGACG
* *
109678383 TTAGCCGGTTTACTGTGTTAGGGTTTAGGGTTAATTGTGTGATTGAATTGCTAGGGTTTGCTTTG
1 TTAGCCGGTTTAATGTGTTAGGGTTTAGGGTTAATTGTGTGATTGAATTGCTAGGATTTGCTTTG
*
109678448 TTGGACAGGAAGTAATTGGTCAATGTACAATAGAGGTCACTTTATTATAGGGAC
66 TTGGACAGGAAGTAATTGGTCAACGTACAATAGAGGTCACTTTATTATAGGGAC
109678502 TTCATCAATT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.37
Consensus pattern (120 bp):
TTAGCCGGTTTAATGTGTTAGGGTTTAGGGTTAATTGTGTGATTGAATTGCTAGGATTTGCTTTG
TTGGACAGGAAGTAATTGGTCAACGTACAATAGAGGTCACTTTATTATAGGGACG
Found at i:109678792 original size:29 final size:29
Alignment explanation
Indices: 109678758--109678814 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
109678748 TTTCATTCTT
* * *
109678758 TTTAATAGTATAGGGACTAAATTGATCCC
1 TTTAATAATAGAGGCACTAAATTGATCCC
*
109678787 TTTAATAATAGAGGCACTAATTTGATCC
1 TTTAATAATAGAGGCACTAAATTGATCC
109678815 GGTCCCAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (29 bp):
TTTAATAATAGAGGCACTAAATTGATCCC
Found at i:109682533 original size:16 final size:16
Alignment explanation
Indices: 109682512--109682542 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
109682502 ACTATAAAGT
109682512 TAGTACTTTTTATTAA
1 TAGTACTTTTTATTAA
109682528 TAGTACTTTTTATTA
1 TAGTACTTTTTATTA
109682543 TTTCAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
TAGTACTTTTTATTAA
Found at i:109686961 original size:148 final size:150
Alignment explanation
Indices: 109686791--109687079 Score: 449
Period size: 148 Copynumber: 1.9 Consensus size: 150
109686781 CACATGCATA
* *
109686791 CATACATAGATCCATACATATACATGAAAATGAAGATTAGAGGAACTTTAAAGCAAGGCAAACAT
1 CATACATAGATACATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACAT
* * *
109686856 CTAAAGTACATCAACACG-ATGTATCATGCAAGC-AAGCAAGGG-ATGTTTTACAAATTCCAATT
66 CAAAAGTACATCAACACGTA-GTATCATGCAAACAAAACAAGGGTATGTTTTACAAATTCCAATT
109686918 TGGAGAATGCATGCATACATG
130 TGGAGAATGCATGCATACATG
*
109686939 CATACATAGATACATTCATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACAT
1 CATACATAGATACATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACAT
* * * *
109687004 CAAAAGTACATCAACATGTAGTATCATGCAAACAAAACAAGGGTTTTTTTTACAAATTCTAATTT
66 CAAAAGTACATCAACACGTAGTATCATGCAAACAAAACAAGGGTATGTTTTACAAATTCCAATTT
*
109687069 GGAGATTGCAT
131 GGAGAATGCAT
109687080 ATCCATCCAT
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
148 90 0.71
149 9 0.07
150 28 0.22
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.25
Consensus pattern (150 bp):
CATACATAGATACATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACAT
CAAAAGTACATCAACACGTAGTATCATGCAAACAAAACAAGGGTATGTTTTACAAATTCCAATTT
GGAGAATGCATGCATACATG
Found at i:109688830 original size:145 final size:145
Alignment explanation
Indices: 109688430--109689022 Score: 576
Period size: 145 Copynumber: 4.1 Consensus size: 145
109688420 GTTACATTAG
* *
109688430 AACCCGAAAAACTTCATTACATACA--AGAA-AAAGTTCATCAACCAAATCTATCATGTGAAA-A
1 AACCCG-AAAACTTCATTACATACACCA-AACAAAGTTCATCAACCAAATCTATCACG-CAAACA
* * *
109688491 ACTCGTGTTCACAGAGCCTAGAACAATCGTGTTTGGGTTAAAGCAACATTTGATTACACAGTCT-
63 ACTCTTGTTCAAAGAGCCTAGAACAATCGTGTTTGAGTTAAAGCAACATTTGATTACACAGTCTA
109688555 ---AAGAGCTA-TTGAACT
128 ACCAAGAGCTACTT-AACT
* * * *
109688570 AACCCAAAAACTTCATTACATAAACCAAACAGAGTTCAT-AACCAAATCTATCACGCGAACAACT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGCAAACAACT
* ** * * *
109688634 CTTGTTCAAAGAACCTAGAATGACCATGTTTGAGTTAAAGAAACATTTGATTACACAGTCTAACC
66 CTTGTTCAAAGAGCCTAGAACAATCGTGTTTGAGTTAAAGCAACATTTGATTACACAGTCTAACC
*
109688699 AAAAGCTACTTAACT
131 AAGAGCTACTTAACT
*** *
109688714 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACTGGATGTATCACGCAAACAACT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGCAAACAACT
* * * * * **
109688779 CTTTTTCATACAGCCTAGAACAATTGTGTTCGAGTTAAAGCAACATTTGATTTTACAGTCTAACC
66 CTTGTTCAAAGAGCCTAGAACAATCGTGTTTGAGTTAAAGCAACATTTGATTACACAGTCTAACC
* *
109688844 AAGAGCTACTGAGCT
131 AAGAGCTACTTAACT
* * * *** * * *
109688859 AACCCGGAAACTTCATTACATACACCAAACGAAGTTCATTAATTGAATATATCACGTAAACAAGT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGCAAACAACT
** * * ** * * *
109688924 CACGTTCGAAGAACCTAGAATGATCGTGTTTGAGTTACTGCTTTGAGAAACATTTGATTACAGAG
66 CTTGTTCAAAGAGCCTAGAACAATCGTGTTTGAGTTA-------AAGCAACATTTGATTACACAG
* *
109688989 TCTAACCAAGAGCTAATGAACT
124 TCTAACCAAGAGCTACTTAACT
109689011 AACCCGAAAACT
1 AACCCGAAAACT
109689023 ATTAACTAAA
Statistics
Matches: 369, Mismatches: 67, Indels: 22
0.81 0.15 0.05
Matches are distributed among these distances:
139 19 0.05
140 78 0.21
141 9 0.02
144 47 0.13
145 169 0.46
152 47 0.13
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (145 bp):
AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGCAAACAACT
CTTGTTCAAAGAGCCTAGAACAATCGTGTTTGAGTTAAAGCAACATTTGATTACACAGTCTAACC
AAGAGCTACTTAACT
Found at i:109697299 original size:10 final size:11
Alignment explanation
Indices: 109697276--109697308 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
109697266 TTATATCTTT
*
109697276 AATATATTATA
1 AATATATTAAA
109697287 AATA-ATTAAA
1 AATATATTAAA
109697297 AATATATTAAA
1 AATATATTAAA
109697308 A
1 A
109697309 TTAAGTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATATTAAA
Found at i:109697317 original size:21 final size:21
Alignment explanation
Indices: 109697276--109697317 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
109697266 TTATATCTTT
*
109697276 AATATATTATAAATAATTAAA
1 AATATATTATAAATAAGTAAA
109697297 AATATATTA-AAATTAAGTAAA
1 AATATATTATAAA-TAAGTAAA
109697318 TTTTTTGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATATATTATAAATAAGTAAA
Found at i:109698658 original size:30 final size:30
Alignment explanation
Indices: 109698623--109698701 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
109698613 TTTGTATTTC
109698623 TTTTATAAATTTAAAATTTAGTCATTAAAT
1 TTTTATAAATTTAAAATTTAGTCATTAAAT
* * **
109698653 TTTTAT--TTTTAAAAATTTAGTTATTCTAT
1 TTTTATAAATTT-AAAATTTAGTCATTAAAT
109698682 TTTT-TAAATTATAAAATTTA
1 TTTTATAAATT-TAAAATTTA
109698702 AGTTTAACTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
28 4 0.10
29 19 0.47
30 16 0.40
31 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (30 bp):
TTTTATAAATTTAAAATTTAGTCATTAAAT
Found at i:109700527 original size:4 final size:4
Alignment explanation
Indices: 109700520--109700565 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
109700510 CTAAGGTAGG
* * *
109700520 TACA TACA TACA TACA TACA TGCA TGCA TGCA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
109700566 TACATGTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:109702996 original size:60 final size:59
Alignment explanation
Indices: 109702871--109702996 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 59
109702861 GATAGTTTGG
* * * * *
109702871 GGATGTATTTAGAACATTTTGAAGTTTGAGGATCAATTTAGAATGATAATATTAGTTTA
1 GGATATATTTAAAACATTTTAAAGTTTGAGAATCAATTTAGAATGATAATATTAGTTAA
*
109702930 GAGATATATTTAAAACATTTTAAAGTTTG-GAAATCAATTTA-AACTGATGATATTAGTTCAA
1 G-GATATATTTAAAACATTTTAAAGTTTGAG-AATCAATTTAGAA-TGATAATATTAGTT-AA
109702991 GGATAT
1 GGATAT
109702997 CTAGTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
59 4 0.07
60 51 0.89
61 2 0.04
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.39
Consensus pattern (59 bp):
GGATATATTTAAAACATTTTAAAGTTTGAGAATCAATTTAGAATGATAATATTAGTTAA
Found at i:109707135 original size:26 final size:25
Alignment explanation
Indices: 109707106--109707164 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 25
109707096 AACAATAGTA
109707106 AAATAAT-GATATTAATACCTAAATAT
1 AAATAATAGATA-TAATACCTAAA-AT
*
109707132 AAAT-ATAGATATAATATCTAAAAT
1 AAATAATAGATATAATACCTAAAAT
109707156 ATAATAATA
1 A-AATAATA
109707165 ATGAAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 3 0.10
25 15 0.52
26 11 0.38
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (25 bp):
AAATAATAGATATAATACCTAAAAT
Found at i:109707194 original size:17 final size:18
Alignment explanation
Indices: 109707151--109707196 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
109707141 TATAATATCT
109707151 AAAATAT-AATAATAATG
1 AAAATATAAATAATAATG
109707168 AAAATATAAATACATAA-G
1 AAAATATAAATA-ATAATG
109707186 -AAATATAAATA
1 AAAATATAAATA
109707197 GATGAGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 18 0.67
18 5 0.19
19 4 0.15
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
AAAATATAAATAATAATG
Found at i:109707374 original size:33 final size:33
Alignment explanation
Indices: 109707317--109707393 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
109707307 TAGTAGTAAA
*
109707317 AATATAATAATAATAATATATTAAATAAAA-AAT
1 AATATAATAATAACAATATATTAAA-AAAATAAT
* *
109707350 AATATAATAGTAACAATA-ATTTAAAAAAATGAT
1 AATATAATAATAACAATATA-TTAAAAAAATAAT
109707383 AATAGTAATAA
1 AATA-TAATAA
109707394 AAATAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 5 0.14
33 27 0.73
34 5 0.14
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (33 bp):
AATATAATAATAACAATATATTAAAAAAATAAT
Found at i:109707753 original size:3 final size:3
Alignment explanation
Indices: 109707747--109707793 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
109707737 AAAAGAAGAT
109707747 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
109707794 GTGAGTAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:109709791 original size:11 final size:11
Alignment explanation
Indices: 109709775--109709809 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
109709765 TTACTTGTAC
109709775 TCGGGTGTGAA
1 TCGGGTGTGAA
109709786 TCGGGTGTGAA
1 TCGGGTGTGAA
109709797 TCGGGTGTGAA
1 TCGGGTGTGAA
109709808 TC
1 TC
109709810 TTATACAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.17, C:0.11, G:0.43, T:0.29
Consensus pattern (11 bp):
TCGGGTGTGAA
Found at i:109717917 original size:21 final size:21
Alignment explanation
Indices: 109717881--109717921 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
109717871 TAATTTTAAT
109717881 TTTTATGATGTAAAATTAAATA
1 TTTTATGATGTAAAA-TAAATA
*
109717903 TTTTAT-ATTTAAAATAAAT
1 TTTTATGATGTAAAATAAAT
109717922 TAAAATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTTATGATGTAAAATAAATA
Found at i:109718104 original size:13 final size:13
Alignment explanation
Indices: 109718083--109718116 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
109718073 AAAATAAAAT
109718083 AAATCAAAACCAA
1 AAATCAAAACCAA
* *
109718096 AAATTAAAATCAA
1 AAATCAAAACCAA
109718109 AAATCAAA
1 AAATCAAA
109718117 TTTAAGGACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATCAAAACCAA
Found at i:109719109 original size:38 final size:37
Alignment explanation
Indices: 109719067--109719138 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
109719057 ATTAGTTCAA
**
109719067 TTTAATTTTTGGATAATATGTATAAATTATTAATTAGG
1 TTTAATTTTTGGATAATAAATATAAATTA-TAATTAGG
* *
109719105 TTTAATTTTTGGGTATTAAATATAAATTATAATT
1 TTTAATTTTTGGATAATAAATATAAATTATAATT
109719139 GGATTTGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 5 0.17
38 25 0.83
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (37 bp):
TTTAATTTTTGGATAATAAATATAAATTATAATTAGG
Found at i:109721491 original size:122 final size:122
Alignment explanation
Indices: 109721126--109721491 Score: 423
Period size: 122 Copynumber: 3.0 Consensus size: 122
109721116 TAGCTGAATC
* * * * *
109721126 CCAATGTTTAGCCTACTGTTGATTGGTGCTATCCTCGTAATTCACGTCGTAAATTTGAGTTATGA
1 CCAAAGTTTAGCCTACTGATCATAGGTGCTATCCTCATAATTCACGTCGTAAATTTGAGTTATGA
* * * * * *
109721191 TATGAGTGTGATAGTGATTTATTTCTATTAAGGGTATGTGAATTGTACCATATATAC
66 TGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGAATTGTACCATATATAT
* * * * * * **
109721248 CCAAAGTTTAGCTTACTGGTCATAGGTGCTATCCTCATAATTCATGTTGTAGATTCGAGCCATGA
1 CCAAAGTTTAGCCTACTGATCATAGGTGCTATCCTCATAATTCACGTCGTAAATTTGAGTTATGA
* * *
109721313 TGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTACGT-ACATATATA-TATATATAT
66 TGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGA-AT-TGTACCATATATAT
* * * *
109721370 CCAACA-TTTAGCCTATTGATCATAGGTGCTACCCTCATAATTCACGCCGTAAATTTAAGTTATG
1 CCAA-AGTTTAGCCTACTGATCATAGGTGCTATCCTCATAATTCACGTCGTAAATTTGAGTTATG
* * *
109721434 ATGTGTGTGTGACAGTGATTTGTTTCTATCAAAGATTTGTGAATTGTACCATATATAT
65 ATGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGAATTGTACCATATATAT
109721492 ATATATATAT
Statistics
Matches: 200, Mismatches: 39, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
121 4 0.02
122 191 0.95
123 5 0.03
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (122 bp):
CCAAAGTTTAGCCTACTGATCATAGGTGCTATCCTCATAATTCACGTCGTAAATTTGAGTTATGA
TGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGAATTGTACCATATATAT
Found at i:109728624 original size:26 final size:26
Alignment explanation
Indices: 109728569--109728617 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
109728559 AACTTGATAC
* * *
109728569 TTTTTTCTTAATTTGGTACATTGACA
1 TTTTTTCTTAAGTTGGCACATTAACA
109728595 TTTTTTCTTAAGTTGGCAC-TTAA
1 TTTTTTCTTAAGTTGGCACATTAA
109728618 TCTTTTTGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 3 0.15
26 17 0.85
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.53
Consensus pattern (26 bp):
TTTTTTCTTAAGTTGGCACATTAACA
Found at i:109731122 original size:31 final size:31
Alignment explanation
Indices: 109731052--109731122 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
109731042 TAATTTAGTG
* *
109731052 CAATTATACACATGAAACTTGAATTGTGATT
1 CAATTGTATACATGAAACTTGAATTGTGATT
109731083 C-ATATGTATACATGAAACCTTG-ATAT-TGATT
1 CAAT-TGTATACATGAAA-CTTGAAT-TGTGATT
109731114 CAATTGTAT
1 CAATTGTAT
109731123 TCATTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
30 2 0.06
31 25 0.74
32 7 0.21
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (31 bp):
CAATTGTATACATGAAACTTGAATTGTGATT
Found at i:109738829 original size:16 final size:17
Alignment explanation
Indices: 109738810--109738849 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
109738800 GGATAAAAGA
109738810 ATATGTAAAT-AAAATT
1 ATATGTAAATAAAAATT
*
109738826 ATATG-AATTAAAAATT
1 ATATGTAAATAAAAATT
109738842 ATAT-TAAA
1 ATATGTAAA
109738850 AAATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
ATATGTAAATAAAAATT
Found at i:109740264 original size:23 final size:23
Alignment explanation
Indices: 109740238--109740283 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
109740228 TTCTTTTAAT
109740238 TTTATATT-ATTTTG-AAATAAATA
1 TTTAT-TTAATTTTGTAAA-AAATA
109740261 TTTATTTAATTTTGTAAAAAATA
1 TTTATTTAATTTTGTAAAAAATA
109740284 ATATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 2 0.10
23 16 0.76
24 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTATTTAATTTTGTAAAAAATA
Found at i:109744990 original size:3 final size:3
Alignment explanation
Indices: 109744982--109745008 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
109744972 AAGCATAAAC
109744982 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
109745009 CATTGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:109747084 original size:132 final size:132
Alignment explanation
Indices: 109746894--109747959 Score: 1607
Period size: 132 Copynumber: 8.1 Consensus size: 132
109746884 ATACAGGGAT
** * * *
109746894 AAGATCTGCTTTCTTCGATCTACTTTACCACCAGTATGGGAAGACAAGATTTGTATCTTCGATCC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
109746959 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
66 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
109747024 AC
131 AC
* *
109747026 AAGATCTGCTCTCTTTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
*
109747091 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGAAG
66 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
109747156 AC
131 AC
109747158 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
109747223 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
66 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
109747288 AC
131 AC
*
109747290 AAGATCTGCTCTCTT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
*
109747354 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGAAG
66 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
109747419 AC
131 AC
109747421 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
*
109747486 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGAAG
66 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
109747551 AC
131 AC
109747553 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
109747618 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
66 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
109747683 AC
131 AC
* * * * * * *
109747685 AAGATCTGCTCTCTTTGATCTACTTCTTGCC-CC-----GGG-AGA-TAGAACTATCAGCTTCAA
1 AAGATCTGCTTTCTTCGATCTACTTC--GCCACCAATATGGGAAGACAAGATCT-GCATCTTCGA
** * * * * * ** * * * * * **
109747742 TGTA-CTCC-ACTGTAAT-CAGGGAGGTAAAATCCGCCATCTTCAACCTGCTTTGCTGCCAAATA
63 TCCATTTCCTAC--CAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCAC-GCC-AATA
* *
109747804 CAGGAAGGC
124 CATGAAGAC
** *
109747813 AAGATCTGCAATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
* * *
109747878 ACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAG
66 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
109747943 AC
131 AC
109747945 AAGATCTGCTTTCTT
1 AAGATCTGCTTTCTT
109747960 GACTTCAATC
Statistics
Matches: 845, Mismatches: 70, Indels: 38
0.89 0.07 0.04
Matches are distributed among these distances:
125 2 0.00
126 36 0.04
127 20 0.02
128 37 0.04
131 129 0.15
132 565 0.67
133 19 0.02
134 35 0.04
135 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (132 bp):
AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
AC
Found at i:109747640 original size:395 final size:394
Alignment explanation
Indices: 109746894--109747959 Score: 1614
Period size: 395 Copynumber: 2.7 Consensus size: 394
109746884 ATACAGGGAT
* ** * *
109746894 AAGATCTGCTTTCTTCGATCTACTTTACCACCAGTATGGGAAGACAAGATTTGTATCTTCGATCC
1 AAGATCTGCTCTCTT-GATCTACTTCGCCACCA-TATGGGAAGACAAGATCTGCATCTTCGATCC
*
109746959 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAG
64 ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGAAG
* *
109747024 ACAAGATCTGCTCTCTTTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGAT
129 ACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGAT
109747089 CCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGA
194 CCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGA
109747154 AGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCG
259 AGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCG
109747219 ATCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACAT
324 ATCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACAT
109747284 GAAGAC
389 GAAGAC
109747290 AAGATCTGCTCTCTTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
1 AAGATCTGCTCTCTTGATCTACTTCGCCACC-ATATGGGAAGACAAGATCTGCATCTTCGATCCA
109747355 TTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGAAGA
65 TTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGAAGA
*
109747420 CAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
130 CAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
109747485 CATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGAA
195 CATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGAA
109747550 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
260 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
109747615 TCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATG
325 TCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATG
109747680 AAGAC
390 AAGAC
* * * * *
109747685 AAGATCTGCTCTCTTTGATCTACTTCTTGCC-CC----GGG-AGA-TAGAACTATCAGCTTCAAT
1 AAGATCTGCTCTC-TTGATCTACTTC--GCCACCATATGGGAAGACAAGATCT-GCATCTTCGAT
** * * * * * ** * * * * * *
109747743 GTA-CTCC-ACTGTAAT-CAGGGAGGTAAAATCCGCCATCTTCAACCTGCTTTGC-TGCCAAATA
62 CCATTTCCTAC--CAATATAGGAAGATAGGATCAGCTATCTTCGATCT-ATTT-CACGCC-AATA
* * * *
109747804 CAGGAAGGCAAGATCTGCAATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTAT
122 CATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
* * * *
109747869 CTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAA
187 CTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAA
109747934 TACATGAAGACAAGATCTGCTTTCTT
252 TACATGAAGACAAGATCTGCTTTCTT
109747960 GACTTCAATC
Statistics
Matches: 623, Mismatches: 37, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
389 2 0.00
390 29 0.05
391 21 0.03
392 155 0.25
395 384 0.62
396 27 0.04
397 2 0.00
398 3 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (394 bp):
AAGATCTGCTCTCTTGATCTACTTCGCCACCATATGGGAAGACAAGATCTGCATCTTCGATCCAT
TTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGAAGAC
AAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
ATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTATTTCACGCCAATACATGAAG
ACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGAT
CCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGA
AGAC
Found at i:109747882 original size:44 final size:44
Alignment explanation
Indices: 109747800--109747959 Score: 178
Period size: 44 Copynumber: 3.6 Consensus size: 44
109747790 TTTGCTGCCA
* * *
109747800 AATACAGGAAGGCAAGATCTGCAATCTTCGATCTACTTCGCCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CCACC
* * *
109747845 AATATGGGAAGACAAGATCTG-TATCTTCGATCCACTTCCTACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
* * * * *
109747888 AATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
* * *
109747932 AATACATGAAGACAAGATCTGCTTTCTT
1 AATATAGGAAGACAAGATCTGCTATCTT
109747960 GACTTCAATC
Statistics
Matches: 94, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
43 22 0.23
44 54 0.57
45 18 0.19
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
Found at i:109748877 original size:1 final size:1
Alignment explanation
Indices: 109748871--109748918 Score: 96
Period size: 1 Copynumber: 48.0 Consensus size: 1
109748861 GGCCTCTCCC
109748871 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
109748919 AGGCAAAGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:109760075 original size:3 final size:3
Alignment explanation
Indices: 109760067--109760096 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
109760057 AAGCATAAAC
109760067 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
109760097 CATTGGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:109764900 original size:13 final size:13
Alignment explanation
Indices: 109764879--109764908 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
109764869 TAATTATTAT
*
109764879 AAATGTGTTTTAA
1 AAATATGTTTTAA
109764892 AAATATGTTTTAA
1 AAATATGTTTTAA
109764905 AAAT
1 AAAT
109764909 TATTTCTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (13 bp):
AAATATGTTTTAA
Found at i:109771012 original size:126 final size:126
Alignment explanation
Indices: 109770787--109771032 Score: 395
Period size: 126 Copynumber: 2.0 Consensus size: 126
109770777 ATTTCACTAT
* *
109770787 TGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTAGCATTGCATCATGCTTG
1 TGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTACTAGCAGTGCATCATGCTTG
* * *
109770852 AAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTGAAAATTATTTTTTCAGGAATTAC
66 AAGCGTTTTTGACACTATCTGTTCAAAAACGTCTTCTAAAAATTATTTTTGCAGGAATTAC
* * *
109770913 TGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCT-GACAGTGCATTATGCTT
1 TGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTACTAG-CAGTGCATCATGCTT
*
109770977 GAAGCGTTTTTGACACTATCTGTTCAGAAACGTCTTCTAAAAATTATTTTTGCAGG
65 GAAGCGTTTTTGACACTATCTGTTCAAAAACGTCTTCTAAAAATTATTTTTGCAGG
109771033 GTAAAAATAG
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
125 1 0.01
126 109 0.99
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (126 bp):
TGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTACTAGCAGTGCATCATGCTTG
AAGCGTTTTTGACACTATCTGTTCAAAAACGTCTTCTAAAAATTATTTTTGCAGGAATTAC
Found at i:109771225 original size:27 final size:29
Alignment explanation
Indices: 109771163--109771218 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
109771153 ATCTTAAACC
109771163 CTAAATTATTTTAACAACCTAAACCCTAAAT
1 CTAAATTATTTTAACAA-C-AAACCCTAAAT
109771194 CTAAATTATTTTAAC-A-AAACCCTAA
1 CTAAATTATTTTAACAACAAACCCTAA
109771219 TCATAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 9 0.36
30 1 0.04
31 15 0.60
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (29 bp):
CTAAATTATTTTAACAACAAACCCTAAAT
Found at i:109774364 original size:16 final size:17
Alignment explanation
Indices: 109774345--109774378 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
109774335 TGCATTATAT
109774345 TTTTAAA-AAAAATTAA
1 TTTTAAATAAAAATTAA
*
109774361 TTTTAAATAAATATTAA
1 TTTTAAATAAAAATTAA
109774378 T
1 T
109774379 ATAAACAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTAAATAAAAATTAA
Found at i:109778285 original size:49 final size:50
Alignment explanation
Indices: 109778206--109778306 Score: 143
Period size: 49 Copynumber: 2.0 Consensus size: 50
109778196 GTCACTTTTC
*
109778206 TTTAAAAAATAATCATTTTAGTGTTGAAAACCAACTGAATTGATTAAAAA
1 TTTAAAAAATAATCATTTTAGTATTGAAAACCAACTGAATTGATTAAAAA
* * *
109778256 TTTAAAAATTAATC-TTTTAAGTATT-AAAACCGATTGAATTGATTAAAAA
1 TTTAAAAAATAATCATTTT-AGTATTGAAAACCAACTGAATTGATTAAAAA
109778305 TT
1 TT
109778307 AAACTCAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
49 28 0.61
50 18 0.39
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (50 bp):
TTTAAAAAATAATCATTTTAGTATTGAAAACCAACTGAATTGATTAAAAA
Found at i:109780402 original size:14 final size:14
Alignment explanation
Indices: 109780383--109780413 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
109780373 TATCCACTTT
109780383 TTATATTATTATTA
1 TTATATTATTATTA
*
109780397 TTATATTATTTTTA
1 TTATATTATTATTA
109780411 TTA
1 TTA
109780414 CTATGGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATATTATTATTA
Found at i:109780808 original size:21 final size:21
Alignment explanation
Indices: 109780782--109780821 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
109780772 ATACATGTTT
*
109780782 CTAATATTA-TGTTGTATATTC
1 CTAATACTATTGTT-TATATTC
109780803 CTAATACTATTGTTTATAT
1 CTAATACTATTGTTTATAT
109780822 ATCTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (21 bp):
CTAATACTATTGTTTATATTC
Found at i:109785134 original size:58 final size:59
Alignment explanation
Indices: 109785022--109785138 Score: 191
Period size: 59 Copynumber: 2.0 Consensus size: 59
109785012 TACACATAGT
*
109785022 AAAATCTCGAACTTTGTCTACCTTTCTAGTGCCAAAGCCTATTAACATCACTACCTATA
1 AAAATCTCGAACTTGGTCTACCTTTCTAGTGCCAAAGCCTATTAACATCACTACCTATA
* * *
109785081 AAAATCTTGAACTTGGTCTGCCTTTCTAGTGCCAAAGCCT-TTAACATTACTACCTATA
1 AAAATCTCGAACTTGGTCTACCTTTCTAGTGCCAAAGCCTATTAACATCACTACCTATA
109785139 CTTTTTTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
58 17 0.31
59 37 0.69
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (59 bp):
AAAATCTCGAACTTGGTCTACCTTTCTAGTGCCAAAGCCTATTAACATCACTACCTATA
Found at i:109789254 original size:64 final size:62
Alignment explanation
Indices: 109789082--109789254 Score: 226
Period size: 64 Copynumber: 2.8 Consensus size: 62
109789072 ATAAGAAAAT
* *
109789082 GAATGGCAAGGTAGACATACAAGTTCAAAAACAAAATTGCAAC-AAA-ACTGTACATAATAAA
1 GAATGGCAGGGTAAACATAC-AGTTCAAAAACAAAATTGCAACAAAATACTGTACATAATAAA
* * * *
109789143 GAATGGCAGGGTAAACATACAGTTCAAAAACAAAACTACAACAAAAATACT-TAGAGATAATAGA
1 GAATGGCAGGGTAAACATACAGTTCAAAAACAAAATTGCAAC-AAAATACTGT--ACATAATAAA
109789207 GAATGGCAGGGTAAACATACAGTTCAAAAAACAAAATTGCAACAAAAT
1 GAATGGCAGGGTAAACATACAGTTC-AAAAACAAAATTGCAACAAAAT
109789255 TAAGACTACT
Statistics
Matches: 98, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
60 20 0.20
61 18 0.18
62 4 0.04
63 3 0.03
64 38 0.39
65 15 0.15
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.17
Consensus pattern (62 bp):
GAATGGCAGGGTAAACATACAGTTCAAAAACAAAATTGCAACAAAATACTGTACATAATAAA
Found at i:109794401 original size:21 final size:21
Alignment explanation
Indices: 109794359--109794408 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
109794349 CTAAATAAAT
* *
109794359 AATTTAAAAAGCCTGAACTAA
1 AATTTAAAAAACATGAACTAA
109794380 AATTTAAAATAACATGAA-TAA
1 AATTTAAAA-AACATGAACTAA
109794401 AATATTAA
1 AAT-TTAA
109794409 CCTAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (21 bp):
AATTTAAAAAACATGAACTAA
Found at i:109801441 original size:5 final size:5
Alignment explanation
Indices: 109801427--109801458 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
109801417 CAGTAACTAT
*
109801427 AATAA GATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
109801459 AAGTCAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:109801796 original size:15 final size:14
Alignment explanation
Indices: 109801737--109801836 Score: 64
Period size: 15 Copynumber: 6.9 Consensus size: 14
109801727 GTATTAGTAC
109801737 AATAGTAATAAATAA
1 AATAGTAAT-AATAA
109801752 AA-AG-AA-AATAA
1 AATAGTAATAATAA
*
109801763 AACTAATAATAATTAA
1 AA-TAGTAATAA-TAA
109801779 TAATAGTAATAATAA
1 -AATAGTAATAATAA
***
109801794 TAATAACCATAATAA
1 -AATAGTAATAATAA
109801809 TAATAAGCTAATAATAA
1 -AAT-AG-TAATAATAA
109801826 AATA-TAATAAT
1 AATAGTAATAAT
109801837 GTAATAATGA
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
11 7 0.10
13 10 0.14
14 4 0.06
15 24 0.35
16 15 0.22
17 9 0.13
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (14 bp):
AATAGTAATAATAA
Found at i:109801844 original size:3 final size:3
Alignment explanation
Indices: 109801766--109801836 Score: 74
Period size: 3 Copynumber: 23.3 Consensus size: 3
109801756 AAAATAAAAC
* **
109801766 TAA TAA TAA TTAA TAA TAG TAA TAA TAA TAA TAA CCA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
109801812 TAA GCTAA TAA TAA -AA T-A TAA TAA T
1 TAA --TAA TAA TAA TAA TAA TAA TAA T
109801837 GTAATAATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 4 0.07
3 47 0.82
4 3 0.05
5 3 0.05
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:109803594 original size:54 final size:54
Alignment explanation
Indices: 109803536--109803638 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
109803526 GGCTTCAATC
* *
109803536 TGATGTAATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATT
1 TGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATT
* *
109803590 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTT
1 TGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
109803639 CAATCCGCTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (54 bp):
TGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATT
Found at i:109803669 original size:44 final size:44
Alignment explanation
Indices: 109803597--109803887 Score: 178
Period size: 44 Copynumber: 6.7 Consensus size: 44
109803587 ATTTGATGCG
* * *
109803597 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTCA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCTCTTATTTCA
** * ** * * *
109803641 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGCATCTTT-G
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCTCTTATTTCA
* * * ***
109803684 ATCTGCTCCGCTGCAA-TCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGGGAGATAAGATCTCTTATTTCA
* * * *** *
109803728 ATCTGCTTCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCTCTTA-T-TTCA
* * * * * * *
109803774 GTCTACTCCACGGTAACCTCAAGGAGATAAGA-C-CTGA-TGCG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCTCTTATTTCA
** * * *
109803815 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCTCTTATTTCA
* *
109803859 ATCCACTCCACTGTAACTTTAGGGAGATA
1 ATCTACTCCACTGTAACTTCAGGGAGATA
109803888 GGATAGTGTC
Statistics
Matches: 181, Mismatches: 58, Indels: 16
0.71 0.23 0.06
Matches are distributed among these distances:
41 28 0.15
42 2 0.01
43 32 0.18
44 88 0.49
45 1 0.01
46 30 0.17
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTTCAGGGAGATAAGATCTCTTATTTCA
Found at i:109804100 original size:88 final size:89
Alignment explanation
Indices: 109803959--109804565 Score: 831
Period size: 88 Copynumber: 6.9 Consensus size: 89
109803949 AGCTCCAATG
* * *
109803959 CAACCGATG-GAGGCGAGGCTT-TGTCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATC
1 CAACCGA-GAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATC
** *
109804022 TTTTGTCTTCAACCAGCTCTATC-A
65 TGCTGTCTTCAACCAGCTCTAGCTA
* * *
109804046 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
** *
109804111 TTTGTCTTCAACCAGCTCTATC-A
66 GCTGTCTTCAACCAGCTCTAGCTA
* ** *
109804134 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCGATACAGGAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
* * *
109804199 GTTGTCTTCAACCAGCTCCA-CCA
66 GCTGTCTTCAACCAGCTCTAGCTA
*
109804222 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
*
109804287 GCTGTTTTCAACCAGCTCTA-CTA
66 GCTGTCTTCAACCAGCTCTAGCTA
* *
109804310 CACCCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAGGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
* *
109804375 GATGTTTTCAACCAGCTCT-GCTA
66 GCTGTCTTCAACCAGCTCTAGCTA
* *
109804398 CACCCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATACAGGAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
*
109804463 GCTGTTTTCAACCAGCTCT-GCTA
66 GCTGTCTTCAACCAGCTCTAGCTA
* * * *
109804486 CACCCGAGAGAGGCAAGGTTTGT-T-TTCGATCTGCTTCGTTGTTAACGCTGGAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
*
109804549 GCT-TCTTTAACCAGCTC
66 GCTGTCTTCAACCAGCTC
109804566 CACTGCAACC
Statistics
Matches: 483, Mismatches: 33, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
85 12 0.02
86 38 0.08
87 19 0.04
88 414 0.86
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (89 bp):
CAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
GCTGTCTTCAACCAGCTCTAGCTA
Found at i:109804104 original size:44 final size:44
Alignment explanation
Indices: 109804056--109804458 Score: 148
Period size: 44 Copynumber: 9.2 Consensus size: 44
109804046 CAACCGAAAG
*
109804056 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * ** ** * * *
109804100 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGCAGGA
* *
109804144 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCGATACAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * ** *
109804188 AGGCAAGATCTGTTGTCTTCAACCAGCTCCAC-CACAA--CCGAGA
1 AGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAATGCAG-GA
* *
109804231 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGTTGTTAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * * * *
109804276 AGGCAAGATCTGCTGTTTTCAACCAGC-TCTACT-AC-A-CCCGAGA
1 AGGCAAGGTTTG-TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
*
109804319 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * * * *
109804364 GGGCAAGATCTGATGTTTTCAACCAGC-TCTGCT-AC-A-CCCGAGA
1 AGGCAAGGTTTG-TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
* *
109804407 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATACAGGA
1 -AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
109804452 AGGCAAG
1 AGGCAAG
109804459 ATCTGCTGTT
Statistics
Matches: 239, Mismatches: 94, Indels: 52
0.62 0.24 0.14
Matches are distributed among these distances:
42 6 0.03
43 61 0.26
44 104 0.44
45 62 0.26
46 6 0.03
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
Found at i:109804500 original size:44 final size:43
Alignment explanation
Indices: 109804276--109804502 Score: 142
Period size: 44 Copynumber: 5.2 Consensus size: 43
109804266 TAATGCAGGA
*
109804276 AGGCAAGATCTGCTGTTTTCAACCAGCTCTACTACACCCGAGAG
1 AGGCAAGATCTG-TGTTTTCAACCAGCTCTGCTACACCCGAGAG
* * * * * * * **
109804320 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTA-ATGC-AG-G
1 AGGCAAGATCTGTGTTTTCAACCAGC-T--CTGCTACACCCGAGAG
109804363 AGGGCAAGATCTGATGTTTTCAACCAGCTCTGCTACACCCGAGAG
1 A-GGCAAGATCTG-TGTTTTCAACCAGCTCTGCTACACCCGAGAG
* * * * * * * **
109804408 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTA-ATAC-AG-G
1 AGGCAAGATCTGTGTTTTCAACCAGC-T--CTGCTACACCCGAGAG
109804451 AAGGCAAGATCTGCTGTTTTCAACCAGCTCTGCTACACCCGAGAG
1 -AGGCAAGATCTG-TGTTTTCAACCAGCTCTGCTACACCCGAGAG
109804496 AGGCAAG
1 AGGCAAG
109804503 GTTTGTTTTC
Statistics
Matches: 130, Mismatches: 37, Indels: 32
0.65 0.19 0.16
Matches are distributed among these distances:
42 10 0.08
43 27 0.21
44 57 0.44
45 27 0.21
46 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (43 bp):
AGGCAAGATCTGTGTTTTCAACCAGCTCTGCTACACCCGAGAG
Found at i:109805873 original size:1 final size:1
Alignment explanation
Indices: 109805859--109805893 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
109805849 ATTCTTCATC
* *
109805859 TTTTTCTTTCTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
109805894 GAACTTCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:109810766 original size:5 final size:5
Alignment explanation
Indices: 109810752--109810783 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
109810742 CAGTAACTAT
*
109810752 AATAA GATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
109810784 AAGTCAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:109811122 original size:15 final size:14
Alignment explanation
Indices: 109811063--109811162 Score: 64
Period size: 15 Copynumber: 6.9 Consensus size: 14
109811053 GTATTAGTAC
109811063 AATAGTAATAAATAA
1 AATAGTAAT-AATAA
109811078 AA-AG-AA-AATAA
1 AATAGTAATAATAA
*
109811089 AACTAATAATAATTAA
1 AA-TAGTAATAA-TAA
109811105 TAATAGTAATAATAA
1 -AATAGTAATAATAA
***
109811120 TAATAACCATAATAA
1 -AATAGTAATAATAA
109811135 TAATAAGCTAATAATAA
1 -AAT-AG-TAATAATAA
109811152 AATA-TAATAAT
1 AATAGTAATAAT
109811163 GTAATAATGA
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
11 7 0.10
13 10 0.14
14 4 0.06
15 24 0.35
16 15 0.22
17 9 0.13
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (14 bp):
AATAGTAATAATAA
Found at i:109811170 original size:3 final size:3
Alignment explanation
Indices: 109811092--109811162 Score: 74
Period size: 3 Copynumber: 23.3 Consensus size: 3
109811082 AAAATAAAAC
* **
109811092 TAA TAA TAA TTAA TAA TAG TAA TAA TAA TAA TAA CCA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
109811138 TAA GCTAA TAA TAA -AA T-A TAA TAA T
1 TAA --TAA TAA TAA TAA TAA TAA TAA T
109811163 GTAATAATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 4 0.07
3 47 0.82
4 3 0.05
5 3 0.05
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:109812566 original size:9 final size:9
Alignment explanation
Indices: 109812552--109812628 Score: 84
Period size: 9 Copynumber: 8.6 Consensus size: 9
109812542 ATAAGTATAA
109812552 AATTAACCG
1 AATTAACCG
*
109812561 AATTAATCG
1 AATTAACCG
*
109812570 AATTAACTG
1 AATTAACCG
*
109812579 AATTACCCG
1 AATTAACCG
*
109812588 AATT-ACTCA
1 AATTAAC-CG
109812597 AATTAACCG
1 AATTAACCG
*
109812606 AATTAATCG
1 AATTAACCG
*
109812615 AATTAACGG
1 AATTAACCG
109812624 AATTA
1 AATTA
109812629 TTTGTATAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
8 1 0.02
9 52 0.95
10 2 0.04
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:109812582 original size:27 final size:27
Alignment explanation
Indices: 109812552--109812628 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
109812542 ATAAGTATAA
*
109812552 AATTAACCGAATTAATCGAATTAACTG
1 AATTAACCGAATTAATCGAATTAACCG
* * *
109812579 AATTACCCGAATTACTCAAATTAACCG
1 AATTAACCGAATTAATCGAATTAACCG
*
109812606 AATTAATCGAATTAA-CGGAATTA
1 AATTAACCGAATTAATC-GAATTA
109812629 TTTGTATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (27 bp):
AATTAACCGAATTAATCGAATTAACCG
Found at i:109812663 original size:5 final size:6
Alignment explanation
Indices: 109812648--109812688 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
109812638 AATTATATGT
*
109812648 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
109812689 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:109817618 original size:3 final size:3
Alignment explanation
Indices: 109817610--109817658 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
109817600 CCAAAAATTG
109817610 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
109817658 A
1 A
109817659 AGGAAATCGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:109818666 original size:17 final size:18
Alignment explanation
Indices: 109818632--109818675 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
109818622 TGTAACTTTT
109818632 TAAAGTAAAATCTAAAAA
1 TAAAGTAAAATCTAAAAA
109818650 TAAAGTAAAAT-TAAAAA
1 TAAAGTAAAATCTAAAAA
*
109818667 AAAAG-AAAA
1 TAAAGTAAAA
109818676 AAGTGAACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.16
17 10 0.40
18 11 0.44
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (18 bp):
TAAAGTAAAATCTAAAAA
Found at i:109818676 original size:17 final size:18
Alignment explanation
Indices: 109818633--109818675 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
109818623 GTAACTTTTT
*
109818633 AAAGTAAAATCTAAAAAT
1 AAAGTAAAATCTAAAAAA
109818651 AAAGTAAAAT-TAAAAAA
1 AAAGTAAAATCTAAAAAA
109818668 AAAG-AAAA
1 AAAGTAAAA
109818676 AAGTGAACGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.17
17 10 0.42
18 10 0.42
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAGTAAAATCTAAAAAA
Found at i:109824644 original size:50 final size:50
Alignment explanation
Indices: 109824569--109824745 Score: 275
Period size: 50 Copynumber: 3.5 Consensus size: 50
109824559 CCATTGCAAC
109824569 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
109824619 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
109824669 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * *
109824719 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
109824746 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
50 92 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:109824869 original size:31 final size:31
Alignment explanation
Indices: 109824721--109824861 Score: 219
Period size: 31 Copynumber: 4.5 Consensus size: 31
109824711 GCAAATGACA
* *
109824721 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
109824752 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
109824783 AGTGAAAGGTGGTAGCTCCGGTTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
109824814 AGTGAAAAGTGGTAGCACCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
109824845 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
109824862 TTGGCTACAA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 100 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:109824964 original size:47 final size:46
Alignment explanation
Indices: 109824895--109825064 Score: 225
Period size: 47 Copynumber: 3.7 Consensus size: 46
109824885 AGTGATTTCC
*
109824895 GTATAAGATCATATCTGGGATATGGCATCGGTGTGATATATGCCACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CACT
109824942 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGC-ACT
* * * * *
109824989 GTATAAGACCATATCTGAGATATGGCATCAGTGAGATATGTG-ATT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCACT
* * *
109825034 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTATAAGACCATATCTGGGATATGGCATCG
109825065 ATATGTGATA
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
45 2 0.02
46 26 0.24
47 82 0.75
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (46 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCACT
Found at i:109825093 original size:49 final size:48
Alignment explanation
Indices: 109824898--109825128 Score: 186
Period size: 47 Copynumber: 4.8 Consensus size: 48
109824888 GATTTCCGTA
* * * * ** *
109824898 TAAGATCATATCTGGGATATGGCATCG-GTGTGATATATG-CCACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTG
* * * * *
109824945 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTG
* * * *
109824992 TAAGACCATATCTGAGATATGGCATC-AGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
*
109825038 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTACGTG
* * * *
109825087 TAAGACCATAGTTGGGCTATGGTATCGATATATGAATATGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTG-ATATGTG
109825129 TGAGACCATA
Statistics
Matches: 163, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
46 25 0.15
47 82 0.50
48 14 0.09
49 35 0.21
50 7 0.04
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (48 bp):
TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
Found at i:109825135 original size:42 final size:43
Alignment explanation
Indices: 109825035--109825198 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 43
109825025 TATGTGATTC
* *
109825035 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGTTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
* *
109825082 ACGTGTAAGACCATAGTTGGGCTATGGTATCGA-TATATGAATAT
1 --GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
* *
109825126 GTGTGAGACCATAGTTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
**
109825168 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
109825199 GAAAACGAAG
Statistics
Matches: 101, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 62 0.61
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 28 0.28
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
Found at i:109827084 original size:16 final size:16
Alignment explanation
Indices: 109827065--109827131 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
109827055 CCTTTTCTCC
109827065 TTTCTTTCTTTTTCTT
1 TTTCTTTCTTTTTCTT
**
109827081 TTTCTTTCTTTTTAAT
1 TTTCTTTCTTTTTCTT
* * **
109827097 TTGCTTGGCTTTGGCTT
1 TTTCTT-TCTTTTTCTT
*
109827114 TGTCTTTCTTTTTCTT
1 TTTCTTTCTTTTTCTT
109827130 TT
1 TT
109827132 ACTTAATCGA
Statistics
Matches: 36, Mismatches: 14, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
16 27 0.75
17 9 0.25
ACGTcount: A:0.03, C:0.16, G:0.09, T:0.72
Consensus pattern (16 bp):
TTTCTTTCTTTTTCTT
Found at i:109827280 original size:95 final size:89
Alignment explanation
Indices: 109827107--109827284 Score: 212
Period size: 89 Copynumber: 1.9 Consensus size: 89
109827097 TTGCTTGGCT
*
109827107 TTGGCTTTGTCTTTCTTTTTCTTTTACTTAATCGATTTATTATTATATAATATATATTTCCTTTC
1 TTGGCTTTGTCTTTCTTTTTCTTTTACCTAATCGATTTATTATTATATAATATATATTTCCTTTC
**** **
109827172 TTTCTTTTTCTTTTTTTAATTTGC
66 TTAAGATAACTTTTTTTAATTTGC
* * *
109827196 TTGGCTTTGTCTTTCTTTTTCTTTTACCTAATTGGTTTATTATTATTATATAATATATATTTTCT
1 TTGGCTTTGTCTTTCTTTTTCTTTTACCTAA-TCG-AT-TTATTATTATATAATATATATTTCCT
109827261 TAATACTTAAGATAACTTTTTTTA
63 T--T-CTTAAGATAACTTTTTTTA
109827285 TTTTTGGTGA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
89 30 0.41
90 2 0.03
91 1 0.01
92 26 0.36
94 1 0.01
95 13 0.18
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.61
Consensus pattern (89 bp):
TTGGCTTTGTCTTTCTTTTTCTTTTACCTAATCGATTTATTATTATATAATATATATTTCCTTTC
TTAAGATAACTTTTTTTAATTTGC
Found at i:109827428 original size:38 final size:38
Alignment explanation
Indices: 109827386--109827458 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
109827376 TACTAAGGAA
*
109827386 GCAAAGGTATAATTCTTTCTTTAGTCCCTTCAATTATT
1 GCAAAGGTATAATTCCTTCTTTAGTCCCTTCAATTATT
*
109827424 GCAAAGGTATAATTCCTTCTTTAGTCCCTTTAATT
1 GCAAAGGTATAATTCCTTCTTTAGTCCCTTCAATT
109827459 TTTCTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (38 bp):
GCAAAGGTATAATTCCTTCTTTAGTCCCTTCAATTATT
Found at i:109831621 original size:21 final size:21
Alignment explanation
Indices: 109831595--109831635 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109831585 AGACGAGCAA
* *
109831595 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
109831616 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
109831636 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:109838041 original size:30 final size:30
Alignment explanation
Indices: 109838007--109838067 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
109837997 ATTTGTGTCA
109838007 GTTTGATTCGTTTGGTGAATTGGTTTCCAT
1 GTTTGATTCGTTTGGTGAATTGGTTTCCAT
*
109838037 GTTTGATTCGTTTGTTGAATTGGTTTCCAT
1 GTTTGATTCGTTTGGTGAATTGGTTTCCAT
109838067 G
1 G
109838068 CTATTCTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.10, G:0.26, T:0.51
Consensus pattern (30 bp):
GTTTGATTCGTTTGGTGAATTGGTTTCCAT
Found at i:109845933 original size:41 final size:41
Alignment explanation
Indices: 109845887--109845968 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
109845877 TGTCTGTTGA
109845887 TAAGTTAAATTAAAAAGGGGTTGAAAAGTCAAAAATGGTGG
1 TAAGTTAAATTAAAAAGGGGTTGAAAAGTCAAAAATGGTGG
109845928 TAAGTTAAATTAAAAAGGGGTTGAAAAGTCAAAAATGGTGG
1 TAAGTTAAATTAAAAAGGGGTTGAAAAGTCAAAAATGGTGG
109845969 GAGGTGCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.24
Consensus pattern (41 bp):
TAAGTTAAATTAAAAAGGGGTTGAAAAGTCAAAAATGGTGG
Found at i:109848800 original size:21 final size:21
Alignment explanation
Indices: 109848774--109848814 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109848764 AGACGAGCAA
* *
109848774 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
109848795 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
109848815 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:109858224 original size:130 final size:130
Alignment explanation
Indices: 109857991--109858338 Score: 348
Period size: 130 Copynumber: 2.7 Consensus size: 130
109857981 AATTTTGAAG
* * * *
109857991 GGATATTTGATTATTTTAAAC-AATCGGGAAATTGCTACCCAACACGTTAGGGCACGA-TCTCGC
1 GGATATTTGATTATTTTGAACAAAT-GCGAAATTGCAACCCAACACGTTAGGGCACAATTC-CGC
* * * * * *
109858054 GAATTGCCAAATATCACATATCGCGTTCGTTTTAGAGATTTTAAAAGACACGA-GAA-AAATTTT
64 GAATTGCCAAACATCAAATATCGCGTTCATTTAAGAGATTTTAAAA-A-AAGATGAAGAAATTTC
109858117 AAAA
127 AAAA
* *
109858121 TGATATTCGATTATTTTGAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGA
1 GGATATTTGATTATTTTGAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGA
* * * * * * *
109858186 ATTTCCAAACATCAAATCTCATC-TTCATTTAAGGGATTTTAAAAAAATATGAATGAAGTTTCGA
66 ATTGCCAAACATCAAATATC-GCGTTCATTTAAGAGATTTTAAAAAAAGATGAA-GAAATTTCAA
*
109858250 AG
129 AA
* * * *
109858252 GGAAATTTGATTATTTTGAGCAAATACGAAATCGCAACCCAACACGTTAGGGCA-AGATTCCGCG
1 GGATATTTGATTATTTTGAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACA-ATTCCGCG
* * *
109858316 AATCGCCGAACATCAAATTTCGC
65 AATTGCCAAACATCAAATATCGC
109858339 CTCCATTTTG
Statistics
Matches: 180, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
128 2 0.01
129 4 0.02
130 88 0.49
131 86 0.48
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (130 bp):
GGATATTTGATTATTTTGAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGA
ATTGCCAAACATCAAATATCGCGTTCATTTAAGAGATTTTAAAAAAAGATGAAGAAATTTCAAAA
Found at i:109865712 original size:7 final size:7
Alignment explanation
Indices: 109865688--109865787 Score: 87
Period size: 7 Copynumber: 13.9 Consensus size: 7
109865678 CTATATATAA
*
109865688 GGTTTAT
1 GGTTTAG
*
109865695 GGATTATG
1 GGTTTA-G
109865703 GGTTTAG
1 GGTTTAG
109865710 GGTTTATG
1 GGTTTA-G
*
109865718 GGTTTAT
1 GGTTTAG
*
109865725 GGTTTAT
1 GGTTTAG
109865732 GGTTTAAG
1 GGTTT-AG
109865740 GG-TTAG
1 GGTTTAG
* *
109865746 AGTTTAA
1 GGTTTAG
109865753 GGTTTAAG
1 GGTTT-AG
109865761 GG-TTAG
1 GGTTTAG
109865767 GGATTTAG
1 GG-TTTAG
109865775 GGTTTAG
1 GGTTTAG
109865782 GGTTTA
1 GGTTTA
109865788 TATTTTATGG
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
6 7 0.09
7 46 0.60
8 24 0.31
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:109865716 original size:22 final size:21
Alignment explanation
Indices: 109865688--109865785 Score: 99
Period size: 22 Copynumber: 4.6 Consensus size: 21
109865678 CTATATATAA
* *
109865688 GGTTTATGGATTATGGGTTTAG
1 GGTTTAAGGGTTA-GGGTTTAG
* * *
109865710 GGTTTATGGGTTTATGGTTTAT
1 GGTTTAAGGG-TTAGGGTTTAG
* *
109865732 GGTTTAAGGGTTAGAGTTTAA
1 GGTTTAAGGGTTAGGGTTTAG
109865753 GGTTTAAGGGTTAGGGATTTAG
1 GGTTTAAGGGTTAGGG-TTTAG
109865775 GGTTT-AGGGTT
1 GGTTTAAGGGTT
109865786 TATATTTTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
21 29 0.45
22 33 0.51
23 3 0.05
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGGTTTAG
Found at i:109865737 original size:14 final size:14
Alignment explanation
Indices: 109865688--109865812 Score: 83
Period size: 15 Copynumber: 8.6 Consensus size: 14
109865678 CTATATATAA
* *
109865688 GGTTTATGGATTAT
1 GGTTTAGGGTTTAT
109865702 GGGTTTAGGGTTTAT
1 -GGTTTAGGGTTTAT
*
109865717 GGGTTTATGGTTTAT
1 -GGTTTAGGGTTTAT
109865732 GGTTTAAGGG-TTA-
1 GGTTT-AGGGTTTAT
* *
109865745 GAGTTTAAGGTTTAA
1 G-GTTTAGGGTTTAT
* *
109865760 GGGTTAGGGATTTAG
1 GGTTTAGGG-TTTAT
109865775 GGTTTAGGGTTTAT
1 GGTTTAGGGTTTAT
** * *
109865789 ATTTTATGGTTTAA
1 GGTTTAGGGTTTAT
109865803 GGTTTTAGGG
1 GG-TTTAGGG
109865813 ATGGCGGTCA
Statistics
Matches: 87, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
13 4 0.05
14 35 0.40
15 48 0.55
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGTTTAT
Found at i:109865801 original size:7 final size:7
Alignment explanation
Indices: 109865688--109865807 Score: 80
Period size: 7 Copynumber: 16.7 Consensus size: 7
109865678 CTATATATAA
109865688 GGTTTAT
1 GGTTTAT
*
109865695 GGATTAT
1 GGTTTAT
*
109865702 GGGTTTAG
1 -GGTTTAT
109865710 GGTTTAT
1 GGTTTAT
109865717 GGGTTTAT
1 -GGTTTAT
109865725 GGTTTAT
1 GGTTTAT
*
109865732 GGTTTAA
1 GGTTTAT
*
109865739 GGGTTA-
1 GGTTTAT
*
109865745 GAGTTTAA
1 G-GTTTAT
*
109865753 GGTTTAA
1 GGTTTAT
* *
109865760 GGGTTAG
1 GGTTTAT
*
109865767 GGATTTAG
1 GG-TTTAT
*
109865775 GGTTTAG
1 GGTTTAT
109865782 GGTTTAT
1 GGTTTAT
**
109865789 ATTTTAT
1 GGTTTAT
*
109865796 GGTTTAA
1 GGTTTAT
109865803 GGTTT
1 GGTTT
109865808 TAGGGATGGC
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
6 1 0.01
7 72 0.78
8 19 0.21
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (7 bp):
GGTTTAT
Found at i:109866522 original size:7 final size:7
Alignment explanation
Indices: 109866449--109866556 Score: 53
Period size: 7 Copynumber: 15.4 Consensus size: 7
109866439 CAAACTCTTA
*
109866449 AAACTCT
1 AAACCCT
*
109866456 AAACACT
1 AAACCCT
109866463 AAACCAC-
1 AAACC-CT
*
109866470 AACCCCT
1 AAACCCT
109866477 AAACTCC-
1 AAAC-CCT
*
109866484 AAACCTT
1 AAACCCT
**
109866491 AATTCCT
1 AAACCCT
*
109866498 -AACACT
1 AAACCCT
109866504 -AACCCAT
1 AAACCC-T
109866511 AAACCCT
1 AAACCCT
109866518 AAACCCT
1 AAACCCT
*
109866525 AAACCTT
1 AAACCCT
*
109866532 AAACTCTT
1 AAAC-CCT
*
109866540 AAACCAT
1 AAACCCT
*
109866547 AAACCTT
1 AAACCCT
109866554 AAA
1 AAA
109866557 ATCTAAAAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
6 9 0.11
7 55 0.70
8 15 0.19
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:109867047 original size:115 final size:115
Alignment explanation
Indices: 109866721--109867049 Score: 360
Period size: 115 Copynumber: 2.9 Consensus size: 115
109866711 GGCGTTTTAG
* * * ** **
109866721 AACGTCACAAAAGGATAGCCTTTAGTGGCGTTTTCA-CA-AACAATACCGCAATTATGTTTTAAG
1 AACGCCACAAAAGGATATCCTTTAGTGGCATTTT-ATCATAA-AACGCCGCAAAAATGTTTTAAG
* * * *** *
109866784 A-GAGTGCAAAACACTACCGTTTTTGTCTACCAATTAGTGGCGTTTTTACTAA
64 ACTA-TGCAAAACGCTACCGTTTTTATCTACTTTTTAATGGCGTTTTTACTAA
* * *
109866836 AACGCCATAAAAGGATATCCTTTAGTGGCATTTTCTCATAAAACGCCACAAAAATGTTTTAAGAC
1 AACGCCACAAAAGGATATCCTTTAGTGGCATTTTATCATAAAACGCCGCAAAAATGTTTTAAGAC
* * * * *
109866901 TGTGCAAAACGCTGCCGCTTTTAT-TGGCTTTTTAATGGTGTTTTTACTAA
66 TATGCAAAACGCTACCGTTTTTATCT-ACTTTTTAATGGCGTTTTTACTAA
** *
109866951 AATTCCACAAAAAGATATCCTTTAGTGGCATTTTATCATAAAACGCCGCAAAAATGTTTTAAGAC
1 AACGCCACAAAAGGATATCCTTTAGTGGCATTTTATCATAAAACGCCGCAAAAATGTTTTAAGAC
*
109867016 TATGCAAAACGCTATCGTTTTTATCTACTTTTTA
66 TATGCAAAACGCTACCGTTTTTATCTACTTTTTA
109867050 CTAAAACGCC
Statistics
Matches: 176, Mismatches: 33, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
114 1 0.01
115 172 0.98
116 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (115 bp):
AACGCCACAAAAGGATATCCTTTAGTGGCATTTTATCATAAAACGCCGCAAAAATGTTTTAAGAC
TATGCAAAACGCTACCGTTTTTATCTACTTTTTAATGGCGTTTTTACTAA
Found at i:109867264 original size:62 final size:62
Alignment explanation
Indices: 109867181--109867321 Score: 187
Period size: 62 Copynumber: 2.3 Consensus size: 62
109867171 TAGCCCCGAA
* * * * *
109867181 TTTC-CCTAGTTTTCCCTCAAATTAGATTACTCTAATTTCATTCCCCCAATTTCTCAATTTCT
1 TTTCTCCTA-TTTTCCCCCAAATCAGATTACCCCAATTTCATTCCCCCAATTTCCCAATTTCT
* *
109867243 TTTCT-CTCATTTTCCCCCAAATCAGATTACCCCGATTTCATTCCCCCAGTTTCCCAATTTCT
1 TTTCTCCT-ATTTTCCCCCAAATCAGATTACCCCAATTTCATTCCCCCAATTTCCCAATTTCT
109867305 TTTCTCCTATTTTCCCC
1 TTTCTCCTATTTTCCCC
109867322 AACGGCGTCT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
62 66 0.96
63 3 0.04
ACGTcount: A:0.19, C:0.34, G:0.04, T:0.43
Consensus pattern (62 bp):
TTTCTCCTATTTTCCCCCAAATCAGATTACCCCAATTTCATTCCCCCAATTTCCCAATTTCT
Found at i:109868425 original size:43 final size:43
Alignment explanation
Indices: 109868378--109868495 Score: 174
Period size: 38 Copynumber: 2.9 Consensus size: 43
109868368 TTTAATAGAT
109868378 CATTAATGGATCATGTTTTTAACTTATTTAATTCTTGAAAATA
1 CATTAATGGATCATGTTTTTAACTTATTTAATTCTTGAAAATA
** *
109868421 CATTAATGGATCA--TTAAT-A-TTGTTT-ATTCTTGAAAATA
1 CATTAATGGATCATGTTTTTAACTTATTTAATTCTTGAAAATA
109868459 CATTAATGGATCATGTTTTTAACTTATTTAATTCTTG
1 CATTAATGGATCATGTTTTTAACTTATTTAATTCTTG
109868496 TTTATCCTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
38 26 0.41
39 5 0.08
40 4 0.06
41 4 0.06
42 5 0.08
43 20 0.31
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.47
Consensus pattern (43 bp):
CATTAATGGATCATGTTTTTAACTTATTTAATTCTTGAAAATA
Found at i:109873465 original size:26 final size:26
Alignment explanation
Indices: 109873429--109873483 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
109873419 CATACTAAGG
*
109873429 AAGATTTTCTTGGCCTGATTTTCTTT
1 AAGATTTTCTTGGCCTAATTTTCTTT
109873455 AAGATTTTCTTGGCCTAATTTTCTTT
1 AAGATTTTCTTGGCCTAATTTTCTTT
109873481 AAG
1 AAG
109873484 CCAAAGAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (26 bp):
AAGATTTTCTTGGCCTAATTTTCTTT
Found at i:109876800 original size:3 final size:3
Alignment explanation
Indices: 109876792--109876883 Score: 62
Period size: 3 Copynumber: 30.0 Consensus size: 3
109876782 TTAATTTTGC
* *
109876792 TAT TAT TAT TA- TAT TAT TGT CACT TAT TAT TAT GTAT ATAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT -TAT TAT TAT
* * * * * *
109876838 ATAC TAT TCT TAA TAT TAA TAT TAA TAT TAA TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
109876884 ATTTACTATT
Statistics
Matches: 67, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
2 3 0.04
3 56 0.84
4 8 0.12
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:109877093 original size:3 final size:3
Alignment explanation
Indices: 109877072--109877115 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
109877062 ATACTTTTAC
* *
109877072 TAT TAT TGT TAT TAG TAT TAT TAT TAT TATT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
109877116 TGTTTGTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:109877439 original size:15 final size:14
Alignment explanation
Indices: 109877398--109877452 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 14
109877388 TGTATATGCA
109877398 TATATATATTTTTAT
1 TATATATATTTTT-T
* *
109877413 GTACATACATTTTTT
1 -TATATATATTTTTT
109877428 TATATAGTATTTTTT
1 TATATA-TATTTTTT
109877443 TATATATATT
1 TATATATATT
109877453 ATTATGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 9 0.26
15 14 0.41
16 11 0.32
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (14 bp):
TATATATATTTTTT
Found at i:109877442 original size:17 final size:17
Alignment explanation
Indices: 109877422--109877455 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
109877412 TGTACATACA
109877422 TTTTTT-TATATAGTAT
1 TTTTTTATATATAGTAT
*
109877438 TTTTTTATATATATTAT
1 TTTTTTATATATAGTAT
109877455 T
1 T
109877456 ATGTATATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTTATATATAGTAT
Found at i:109881564 original size:27 final size:26
Alignment explanation
Indices: 109881506--109881576 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
109881496 TTCCTGTCTT
* *
109881506 ATTTTTTATTTTTAATATTAATATAATT
1 ATTTTTTA--TTTAATATTAATAAAATA
109881534 A-TTTTTATTTAATATTAACATAAAATA
1 ATTTTTTATTTAATATT-A-ATAAAATA
109881561 ATTTTTTATTT-ATATT
1 ATTTTTTATTTAATATT
109881577 TTCACGGGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 9 0.24
26 1 0.03
27 18 0.47
28 10 0.26
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTTTATTTAATATTAATAAAATA
Found at i:109884365 original size:25 final size:25
Alignment explanation
Indices: 109884332--109884420 Score: 67
Period size: 25 Copynumber: 3.6 Consensus size: 25
109884322 TAAGGATAAA
*
109884332 TATAGAAAATATATACATGAAATAG
1 TATAAAAAATATATACATGAAATAG
* * * *
109884357 TATAAAAAATATAAACCT--TATTG
1 TATAAAAAATATATACATGAAATAG
* * *
109884380 TATTTAAAAACATGTACATGAAATAG
1 TA-TAAAAAATATATACATGAAATAG
109884406 TA-AAAGAAATATATA
1 TATAAA-AAATATATA
109884421 ACAAATAACA
Statistics
Matches: 45, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
23 5 0.11
24 13 0.29
25 22 0.49
26 5 0.11
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (25 bp):
TATAAAAAATATATACATGAAATAG
Found at i:109892695 original size:14 final size:14
Alignment explanation
Indices: 109892676--109892702 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
109892666 ATAAAACAAT
109892676 GAAAATATTTTACG
1 GAAAATATTTTACG
109892690 GAAAATATTTTAC
1 GAAAATATTTTAC
109892703 ATACAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (14 bp):
GAAAATATTTTACG
Found at i:109902346 original size:18 final size:18
Alignment explanation
Indices: 109902298--109902372 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
109902288 CCCAACTACT
* *
109902298 GTATACGTGAACAGTACC
1 GTATATGTGAATAGTACC
109902316 GTATATGTGAATAGTACC
1 GTATATGTGAATAGTACC
* * *
109902334 GTATATGTAAATAGTGCT
1 GTATATGTGAATAGTACC
* *
109902352 GTATACGTGAATAGTGCC
1 GTATATGTGAATAGTACC
109902370 GTA
1 GTA
109902373 AACGGTCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (18 bp):
GTATATGTGAATAGTACC
Found at i:109905898 original size:12 final size:12
Alignment explanation
Indices: 109905881--109905905 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109905871 CCATTGGAAA
109905881 ACCTTGACTTGG
1 ACCTTGACTTGG
109905893 ACCTTGACTTGG
1 ACCTTGACTTGG
109905905 A
1 A
109905906 AATTAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (12 bp):
ACCTTGACTTGG
Found at i:109911195 original size:18 final size:18
Alignment explanation
Indices: 109911172--109911260 Score: 142
Period size: 18 Copynumber: 4.9 Consensus size: 18
109911162 CCCAACTACT
109911172 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
109911190 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
109911208 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
**
109911226 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
109911244 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
109911261 TGTAAACGGT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:109911261 original size:36 final size:36
Alignment explanation
Indices: 109911172--109911264 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
109911162 CCCAACTACT
*
109911172 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
*
109911208 GTATACGTGAATAGTACTGTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
109911244 GTATACGTGAATAGTACTGTA
1 GTATACGTGAATAGTACTGTA
109911265 AACGGTCGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (36 bp):
GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
Found at i:109916098 original size:189 final size:189
Alignment explanation
Indices: 109915778--109916296 Score: 840
Period size: 189 Copynumber: 2.7 Consensus size: 189
109915768 GCGGTTGCCC
* * *
109915778 AATTGAAGAAGTGTCGTTGCCTTTCGACCCCCTATGTAATCTTCAGCACTTAAAAATGAGTGGCT
1 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
109915843 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
66 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
* *
109915908 ATGGTCAAATTTCCAGAAATCCCAGGAAGCTTAATAAAATTAAACTTATCTGGCACTCA
131 ATGGTCGAATTTCCAGAAATCCCAGAAAGCTTAATAAAATTAAACTTATCTGGCACTCA
* * * **
109915967 AATTGAAAAAGTATCGTTGCCTTTCGAATCTCTATGTAATCTTCAGCTTTTAAATATGAGTGGCT
1 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
*
109916032 CAGCAGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
66 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
* **
109916097 ATGGTCGAATTTCCAGAAATCCCAGAAAGTTTAATGGAATTAAACTTATCTGGCACTCA
131 ATGGTCGAATTTCCAGAAATCCCAGAAAGCTTAATAAAATTAAACTTATCTGGCACTCA
*
109916156 AATTGAAGAAGTGTCGTTGCCTTTTGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
1 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
* * * * * *
109916221 CAGTGGTCAAAAATGTATCGATCAAGTTGGAATCTCTTCATTATCTGGATCTTAGTGGTTGCCCA
66 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
*
109916286 AAGGTCGAATT
131 ATGGTCGAATT
109916297 ACTCTCAGAG
Statistics
Matches: 302, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
189 302 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (189 bp):
AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
ATGGTCGAATTTCCAGAAATCCCAGAAAGCTTAATAAAATTAAACTTATCTGGCACTCA
Found at i:109917284 original size:21 final size:20
Alignment explanation
Indices: 109917260--109917298 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
109917250 TATTATCAGA
*
109917260 CATTTTTCCATATTTTCATTT
1 CATTTTT-CATATTGTCATTT
109917281 CATTTTTCATATTGTCAT
1 CATTTTTCATATTGTCAT
109917299 ACTTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.59
Consensus pattern (20 bp):
CATTTTTCATATTGTCATTT
Found at i:109920524 original size:33 final size:33
Alignment explanation
Indices: 109920482--109920551 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
109920472 TACAACACCA
* *
109920482 TCCCTATCAGCTTCCACTATTTCAATATCACTC
1 TCCCAATCAGCTTCCACTATTTCAACATCACTC
* * *
109920515 TCCCAATCAGTTTCTACTCTTTCAACATCACTC
1 TCCCAATCAGCTTCCACTATTTCAACATCACTC
109920548 TCCC
1 TCCC
109920552 CAGTAGTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.39, G:0.03, T:0.36
Consensus pattern (33 bp):
TCCCAATCAGCTTCCACTATTTCAACATCACTC
Found at i:109923650 original size:27 final size:26
Alignment explanation
Indices: 109923590--109923651 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
109923580 ATTTTATTTT
109923590 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
109923616 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
109923644 ATTTTATT
1 ATTTTATT
109923652 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:109932809 original size:3 final size:3
Alignment explanation
Indices: 109932801--109932871 Score: 108
Period size: 3 Copynumber: 23.7 Consensus size: 3
109932791 CGTTTACCCT
*
109932801 GAA GAA GAA GAA GAA GAT GAA GAA GAA GAA GAA GATA -AA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA GAA GAA
*
109932846 GAA GAT GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
109932872 TTATGAAGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 1 0.02
3 60 0.97
4 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:109932823 original size:18 final size:18
Alignment explanation
Indices: 109932800--109932886 Score: 120
Period size: 18 Copynumber: 4.8 Consensus size: 18
109932790 ACGTTTACCC
109932800 TGAAGAAGAAGAAGAAGA
1 TGAAGAAGAAGAAGAAGA
109932818 TGAAGAAGAAGAAGAAGA
1 TGAAGAAGAAGAAGAAGA
* *
109932836 TAAAGAAGAAGAAGATGA
1 TGAAGAAGAAGAAGAAGA
*
109932854 AGAAGAAGAAGAAGAAGA
1 TGAAGAAGAAGAAGAAGA
* * *
109932872 TTATGAAGTAGAAGA
1 TGAAGAAGAAGAAGA
109932887 CGATTTCAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.60, C:0.00, G:0.31, T:0.09
Consensus pattern (18 bp):
TGAAGAAGAAGAAGAAGA
Found at i:109932972 original size:9 final size:9
Alignment explanation
Indices: 109932958--109932993 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
109932948 GCAGAGAGTT
109932958 ATACAGATG
1 ATACAGATG
109932967 ATACAGATG
1 ATACAGATG
*
109932976 CTACAGATG
1 ATACAGATG
109932985 ATACAGATG
1 ATACAGATG
109932994 CTACTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (9 bp):
ATACAGATG
Found at i:109932980 original size:18 final size:18
Alignment explanation
Indices: 109932959--109932997 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
109932949 CAGAGAGTTA
109932959 TACAGATGATACAGATGC
1 TACAGATGATACAGATGC
109932977 TACAGATGATACAGATGC
1 TACAGATGATACAGATGC
109932995 TAC
1 TAC
109932998 TGAAAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (18 bp):
TACAGATGATACAGATGC
Found at i:109937375 original size:28 final size:28
Alignment explanation
Indices: 109937335--109937391 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
109937325 TCCTTGCAGT
109937335 AGATTTTGGATATATCTATTGGATAAGA
1 AGATTTTGGATATATCTATTGGATAAGA
*
109937363 AGATTTTGGATATATCTCTTGGATAAGA
1 AGATTTTGGATATATCTATTGGATAAGA
109937391 A
1 A
109937392 TGATAATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (28 bp):
AGATTTTGGATATATCTATTGGATAAGA
Found at i:109941379 original size:11 final size:11
Alignment explanation
Indices: 109941363--109941394 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
109941353 GTACTGCCCA
109941363 AAGTAAGTAGT
1 AAGTAAGTAGT
109941374 AAGTAAGTAGT
1 AAGTAAGTAGT
109941385 AAGTAAGTAG
1 AAGTAAGTAG
109941395 ACAATGCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (11 bp):
AAGTAAGTAGT
Found at i:109943244 original size:16 final size:17
Alignment explanation
Indices: 109943217--109943251 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
109943207 TGACTGAAAA
*
109943217 TTAATATTTTTAATGAT
1 TTAATATTTTTAATCAT
109943234 TTAAT-TTTTTAATCAT
1 TTAATATTTTTAATCAT
109943250 TT
1 TT
109943252 TTTATAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (17 bp):
TTAATATTTTTAATCAT
Found at i:109955142 original size:18 final size:18
Alignment explanation
Indices: 109955119--109955155 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
109955109 GTTTTTGAGA
109955119 AGGTATGTGAGTCAACCT
1 AGGTATGTGAGTCAACCT
109955137 AGGTATGTGAGTCAACCT
1 AGGTATGTGAGTCAACCT
109955155 A
1 A
109955156 TAGGAGCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (18 bp):
AGGTATGTGAGTCAACCT
Found at i:109970293 original size:22 final size:22
Alignment explanation
Indices: 109970266--109970312 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
109970256 CGAAATCAAA
*
109970266 TAAATTTGAAAT-AATTCAAATT
1 TAAA-TTGAAATCAATTCAAAAT
*
109970288 TAAATTGGAATCAATTCAAAAT
1 TAAATTGAAATCAATTCAAAAT
109970310 TAA
1 TAA
109970313 TCTTATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.36
Consensus pattern (22 bp):
TAAATTGAAATCAATTCAAAAT
Found at i:109972936 original size:26 final size:21
Alignment explanation
Indices: 109972889--109972931 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
109972879 ACAATCATTT
109972889 ACGGATTTCATTTGAACCGAA
1 ACGGATTTCATTTGAACCGAA
109972910 ACGGATTTCATTTGAACCGAA
1 ACGGATTTCATTTGAACCGAA
109972931 A
1 A
109972932 TGAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (21 bp):
ACGGATTTCATTTGAACCGAA
Found at i:109974454 original size:3 final size:3
Alignment explanation
Indices: 109974446--109974471 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
109974436 AATTCATCAA
109974446 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
109974472 ATCTAAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:109975153 original size:40 final size:40
Alignment explanation
Indices: 109975109--109975186 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
109975099 GCAGATACGG
* * * *
109975109 CTTGCGACCTCGTCCCTACGAGGTTTACTCGAGCTCTCTT
1 CTTGCGACCTCATCCCTACGAAGCTTACGCGAGCTCTCTT
*
109975149 CTTGCGACCTCATTCCTACGAAGCTTACGCGAGCTCTC
1 CTTGCGACCTCATCCCTACGAAGCTTACGCGAGCTCTC
109975187 CTTATGGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.15, C:0.36, G:0.19, T:0.29
Consensus pattern (40 bp):
CTTGCGACCTCATCCCTACGAAGCTTACGCGAGCTCTCTT
Found at i:109978118 original size:69 final size:69
Alignment explanation
Indices: 109978006--109978395 Score: 313
Period size: 69 Copynumber: 5.7 Consensus size: 69
109977996 GTCTTACAGT
* * * * * *** *
109978006 TGGGAGCTTTGCTCTTA-CTAACTATGTTTGAGGCCGTGGCTCTTCACTTGTGAACATTAATTTT
1 TGGGAGCTTTACTC-TAGCTAACTATGTTGGAGGTCGCGACTCTTCACTTACAAACCTTAATTTT
109978070 ACAAC
65 ACAAC
* * * * * * * *
109978075 TGGGAACTTTGA-TCTTGCTATCTGTATTGGACGCCGCGACTCTTCACCTACAAACCTTAATTTT
1 TGGGAGCTTT-ACTCTAGCTAACTATGTTGGAGGTCGCGACTCTTCACTTACAAACCTTAATTTT
*
109978139 ACAGC
65 ACAAC
* * * *
109978144 TGGGAGCTTTACTCTAGCTAACTATGTTGAAGGTCGCGACTTTTCACATACGAACCTTAATTTTA
1 TGGGAGCTTTACTCTAGCTAACTATGTTGGAGGTCGCGACTCTTCACTTACAAACCTTAATTTTA
*
109978209 CAAT
66 CAAC
* * * * *
109978213 TGGGAGCTTTACTCTCGCTAACTATGTTGGAGGTCACGGCTCTTCGCTTGCAAACCTTAATTTTA
1 TGGGAGCTTTACTCTAGCTAACTATGTTGGAGGTCGCGACTCTTCACTTACAAACCTTAATTTTA
109978278 CAAC
66 CAAC
* * ** * **
109978282 TGGGAGCTTTGCTCTCA-CTAACTATGTTGAAGGTCGTAACTCCTCA-TCTATGAACCTTAATTT
1 TGGGAGCTTTACTCT-AGCTAACTATGTTGGAGGTCGCGACTCTTCACT-TACAAACCTTAATTT
*
109978345 TACAGC
64 TACAAC
* ** * * * *
109978351 TGGGACCTTTGTTCTCA-CTAATTGTGTTGGAGGTCACGGCTCTTC
1 TGGGAGCTTTACTCT-AGCTAACTATGTTGGAGGTCGCGACTCTTC
109978396 GCCTGTGAAC
Statistics
Matches: 254, Mismatches: 62, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
68 3 0.01
69 251 0.99
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (69 bp):
TGGGAGCTTTACTCTAGCTAACTATGTTGGAGGTCGCGACTCTTCACTTACAAACCTTAATTTTA
CAAC
Found at i:109978379 original size:138 final size:137
Alignment explanation
Indices: 109978006--109978415 Score: 450
Period size: 138 Copynumber: 3.0 Consensus size: 137
109977996 GTCTTACAGT
* * * * *
109978006 TGGGAGCTTTGCTCTTACTAACTATGTTTG-AGGCCGTGGCTCTTCACTTGTGAACATTAATTTT
1 TGGGAGCTTTGCTC-TACTAACTATG-TTGAAGGTCGTGACTCTTCACATATGAACCTTAATTTT
* * * * * * * *
109978070 ACAACTGGGAACTTTGATCTTGCT-ATCTGTATTGGACGCCGCGACTCTTCACCTACAAACCTTA
64 ACAACTGGGAACTTTGATCTCGCTAAT-TGTGTTGGAGGTCACGGCTCTTCGCCTGCAAACCTTA
*
109978134 ATTTTACAGC
128 ATTTTACAAC
* * * *
109978144 TGGGAGCTTTACTCTAGCTAACTATGTTGAAGGTCGCGACTTTTCACATACGAACCTTAATTTTA
1 TGGGAGCTTTGCTCTA-CTAACTATGTTGAAGGTCGTGACTCTTCACATATGAACCTTAATTTTA
* * * * *
109978209 CAATTGGGAGCTTT-ACTCTCGCTAACTATGTTGGAGGTCACGGCTCTTCGCTTGCAAACCTTAA
65 CAACTGGGAACTTTGA-TCTCGCTAATTGTGTTGGAGGTCACGGCTCTTCGCCTGCAAACCTTAA
109978273 TTTTACAAC
129 TTTTACAAC
* *
109978282 TGGGAGCTTTGCTCTCACTAACTATGTTGAAGGTCGTAACTCCTCATC-TATGAACCTTAATTTT
1 TGGGAGCTTTGCTCT-ACTAACTATGTTGAAGGTCGTGACTCTTCA-CATATGAACCTTAATTTT
* * * * **
109978346 ACAGCTGGGACCTTTGTTCTCACTAATTGTGTTGGAGGTCACGGCTCTTCGCCTGTGAACCTTAA
64 ACAACTGGGAACTTTGATCTCGCTAATTGTGTTGGAGGTCACGGCTCTTCGCCTGCAAACCTTAA
109978411 TTTTA
129 TTTTA
109978416 TAGACGATAA
Statistics
Matches: 226, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
137 6 0.03
138 217 0.96
139 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (137 bp):
TGGGAGCTTTGCTCTACTAACTATGTTGAAGGTCGTGACTCTTCACATATGAACCTTAATTTTAC
AACTGGGAACTTTGATCTCGCTAATTGTGTTGGAGGTCACGGCTCTTCGCCTGCAAACCTTAATT
TTACAAC
Found at i:109978405 original size:69 final size:69
Alignment explanation
Indices: 109978111--109978415 Score: 315
Period size: 69 Copynumber: 4.4 Consensus size: 69
109978101 TTGGACGCCG
* *
109978111 CGACTCTTCACCTACAAACCTTAATTTTACAGCTGGGAGCTTTACTCT-AGCTAACTATGTTGAA
1 CGACTCTTCACCTACGAACCTTAATTTTACAACTGGGAGCTTTACTCTCA-CTAACTATGTTGAA
*
109978175 GGTCG
65 GGTCA
* * * * *
109978180 CGACTTTTCACATACGAACCTTAATTTTACAATTGGGAGCTTTACTCTCGCTAACTATGTTGGAG
1 CGACTCTTCACCTACGAACCTTAATTTTACAACTGGGAGCTTTACTCTCACTAACTATGTTGAAG
109978245 GTCA
66 GTCA
* * * * * *
109978249 CGGCTCTTCGCTTGCAAACCTTAATTTTACAACTGGGAGCTTTGCTCTCACTAACTATGTTGAAG
1 CGACTCTTCACCTACGAACCTTAATTTTACAACTGGGAGCTTTACTCTCACTAACTATGTTGAAG
*
109978314 GTCG
66 GTCA
** * * * * * ** * * *
109978318 TAACTCCTCATCTATGAACCTTAATTTTACAGCTGGGACCTTTGTTCTCACTAATTGTGTTGGAG
1 CGACTCTTCACCTACGAACCTTAATTTTACAACTGGGAGCTTTACTCTCACTAACTATGTTGAAG
109978383 GTCA
66 GTCA
* * **
109978387 CGGCTCTTCGCCTGTGAACCTTAATTTTA
1 CGACTCTTCACCTACGAACCTTAATTTTA
109978416 TAGACGATAA
Statistics
Matches: 192, Mismatches: 43, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
69 192 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (69 bp):
CGACTCTTCACCTACGAACCTTAATTTTACAACTGGGAGCTTTACTCTCACTAACTATGTTGAAG
GTCA
Found at i:109978408 original size:207 final size:207
Alignment explanation
Indices: 109977999--109978415 Score: 449
Period size: 207 Copynumber: 2.0 Consensus size: 207
109977989 AACCTTGGTC
* * * * ** **
109977999 TTACAGTTGGGAGCTTTGCTCTTACTAACTATGTTTGAGGCCGTGGCTCTTCACTTGTGAACATT
1 TTACAATTGGGAGCTTTACTCTCACTAACTATGTTGGAGGCCACGGCTCTTCACTTGCAAACATT
** * * * * *
109978064 AATTTTACAACTGGGAACTTTGATCTTGCTATCTGTATTGGACGCCGCGACTCTTCACCTACAAA
66 AATTTTACAACTGGGAACTTTGATCTCACTAACTATATTGAACGCCGCAACTCCTCACCTACAAA
* * *
109978129 CCTTAATTTTACAGCTGGGAGCTTTACTCTAGCTAACTATGTTGAAGGTCGCGACTTTTCACATA
131 CCTTAATTTTACAGCTGGGACCTTTACTCTAGCTAACTATGTTGAAGGTCACGACTCTTCACATA
109978194 CGAACCTTAATT
196 CGAACCTTAATT
* * * *
109978206 TTACAATTGGGAGCTTTACTCTCGCTAACTATGTTGGAGGTCACGGCTCTTCGCTTGCAAACCTT
1 TTACAATTGGGAGCTTTACTCTCACTAACTATGTTGGAGGCCACGGCTCTTCACTTGCAAACATT
* * * * * * * **
109978271 AATTTTACAACTGGGAGCTTTGCTCTCACTAACTATGTTGAAGGTCGTAACTCCTCATCTATGAA
66 AATTTTACAACTGGGAACTTTGATCTCACTAACTATATTGAACGCCGCAACTCCTCACCTACAAA
** * * * * * *
109978336 CCTTAATTTTACAGCTGGGACCTTTGTTCTCA-CTAATTGTGTTGGAGGTCACGGCTCTTCGCCT
131 CCTTAATTTTACAGCTGGGACCTTTACTCT-AGCTAACTATGTTGAAGGTCACGACTCTTCACAT
**
109978400 GTGAACCTTAATT
195 ACGAACCTTAATT
109978413 TTA
1 TTA
109978416 TAGACGATAA
Statistics
Matches: 168, Mismatches: 41, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
207 167 0.99
208 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (207 bp):
TTACAATTGGGAGCTTTACTCTCACTAACTATGTTGGAGGCCACGGCTCTTCACTTGCAAACATT
AATTTTACAACTGGGAACTTTGATCTCACTAACTATATTGAACGCCGCAACTCCTCACCTACAAA
CCTTAATTTTACAGCTGGGACCTTTACTCTAGCTAACTATGTTGAAGGTCACGACTCTTCACATA
CGAACCTTAATT
Found at i:109986092 original size:21 final size:21
Alignment explanation
Indices: 109986067--109986131 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
109986057 TAGCCTTTGG
109986067 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
109986088 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
*
109986106 GCTTCCGTTTAACACTTATGT
1 GCTTCCGTTTAGCACTTATGT
109986127 GCTTC
1 GCTTC
109986132 AGCTAGACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 8 0.24
21 12 0.35
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:109986095 original size:39 final size:39
Alignment explanation
Indices: 109986049--109986145 Score: 158
Period size: 39 Copynumber: 2.5 Consensus size: 39
109986039 GCTCTGATGA
* *
109986049 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
109986088 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
* *
109986127 GCTTCAGCTAGACTTCGGG
1 GCTTCAGTTAGCCTTCGGG
109986146 TTTTAGATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
Found at i:109989757 original size:15 final size:15
Alignment explanation
Indices: 109989737--109989769 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
109989727 CTACTAATAA
109989737 TTCTTGTCA-TTCTTC
1 TTCTTGT-ATTTCTTC
109989752 TTCTTGTATTTCTTC
1 TTCTTGTATTTCTTC
109989767 TTC
1 TTC
109989770 AGAAGTACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 16 0.94
ACGTcount: A:0.06, C:0.24, G:0.06, T:0.64
Consensus pattern (15 bp):
TTCTTGTATTTCTTC
Found at i:109992984 original size:13 final size:13
Alignment explanation
Indices: 109992966--109992992 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
109992956 AAACTTCTTG
109992966 TAATAAAAAAGTA
1 TAATAAAAAAGTA
109992979 TAATAAAAAAGTA
1 TAATAAAAAAGTA
109992992 T
1 T
109992993 GGTCAATTAG
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:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (13 bp):
TAATAAAAAAGTA
Found at i:110003374 original size:23 final size:23
Alignment explanation
Indices: 110003343--110003391 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
110003333 ACCATCAAAC
*
110003343 ACTGAAGGTGGAGGTGGAGTGAA
1 ACTGAAGGTGGAGGTAGAGTGAA
*
110003366 ACTGGAGGTGGAGGTAGAGTGAA
1 ACTGAAGGTGGAGGTAGAGTGAA
110003389 ACT
1 ACT
110003392 CATCCTGCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.45, T:0.18
Consensus pattern (23 bp):
ACTGAAGGTGGAGGTAGAGTGAA
Found at i:110004811 original size:28 final size:26
Alignment explanation
Indices: 110004755--110004823 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
110004745 GAGGGGTTAT
* *
110004755 TTTTTATTTTAATATTAATATAATTAA
1 TTTTTA-TTTAATATTAATAAAATAAA
110004782 TTTTTATTTAATATTAACATAAAATAAA
1 TTTTTATTTAATATT-A-ATAAAATAAA
*
110004810 TTTTTAATT-ATATT
1 TTTTTATTTAATATT
110004824 TTAACGGGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 9 0.24
27 12 0.32
28 16 0.43
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTTTATTTAATATTAATAAAATAAA
Found at i:110005697 original size:51 final size:51
Alignment explanation
Indices: 110005621--110005777 Score: 280
Period size: 51 Copynumber: 3.1 Consensus size: 51
110005611 CCATGGTGCA
*
110005621 TCTCTTTTGCCTCAATC-GCACAATCCATACTCTTTGACTTCTTCTTCTTCT
1 TCTCTTTTGCCTCAATCAG-ACAATCCATACTCTTTGGCTTCTTCTTCTTCT
110005672 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGCTTCTTCTTCTTCT
1 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGCTTCTTCTTCTTCT
*
110005723 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGTTTCTTCTTCTTCT
1 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGCTTCTTCTTCTTCT
110005774 TCTC
1 TCTC
110005778 GTCAAATGAA
Statistics
Matches: 103, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
51 102 0.99
52 1 0.01
ACGTcount: A:0.15, C:0.32, G:0.07, T:0.46
Consensus pattern (51 bp):
TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGCTTCTTCTTCTTCT
Found at i:110009092 original size:72 final size:74
Alignment explanation
Indices: 110008974--110009153 Score: 215
Period size: 72 Copynumber: 2.5 Consensus size: 74
110008964 TCCCAGAAAT
* * *
110008974 TCTACGAAGA-CCGAAAAACCTAAAGAGCCTGAAAAGCGCCAGCCATGTTCCTCGAT-ATACTAT
1 TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCAGCCATGTTCATCG-TCATACTAT
*
110009037 TT-CTC-CCC
65 TTCCCCACCC
* ** *
110009045 TCTACCGAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCTTCCATGTTCATCGTCATCCTATT
1 TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCAGCCATGTTCATCGTCATACTATT
110009110 TCCCCCACCC
66 T-CCCCACCC
* * *
110009120 TTTACCAAGACCCAAAAAACCTAAAGCGCCTGAA
1 TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAA
110009154 GCGAAAAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
71 9 0.10
72 48 0.52
74 2 0.02
75 33 0.36
ACGTcount: A:0.33, C:0.34, G:0.13, T:0.20
Consensus pattern (74 bp):
TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCAGCCATGTTCATCGTCATACTATT
TCCCCACCC
Done.