Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 162 of 427
Found at i:44957091 original size:556 final size:556
Alignment explanation
Indices: 44956039--44957143 Score: 2147
Period size: 556 Copynumber: 2.0 Consensus size: 556
44956029 TACGGGAGAG
44956039 ATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAAAGTTGTG
1 ATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAAAGTTGTG
44956104 AGATAAATTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGCCGAATT
66 AGATAAATTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGCCGAATT
44956169 ATATGAAATATGATGGTGGGGCTGTGTACTGAAACCATAAAGTATCGAGGATTGATCCGAATTGT
131 ATATGAAATATGATGGTGGGGCTGTGTACTGAAACCATAAAGTATCGAGGATTGATCCGAATTGT
44956234 TCAATGGGATGGTTTTAAGGTGACATTGTAATCATGGACCTATACTTGCGATGTATGAAATGTGG
196 TCAATGGGATGGTTTTAAGGTGACATTGTAATCATGGACCTATACTTGCGATGTATGAAATGTGG
44956299 TGAAAATGAATTGTGATATGCATGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAAGAGTGAAT
261 TGAAAATGAATTGTGATATGCATGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAAGAGTGAAT
*
44956364 TAGCAATAATACTATTTTGGACAGTCACAGTGACGTGAATTTGAAAAATCACCAAAAATAGTAGG
326 TAGCAATAATACTATTTTGGACAATCACAGTGACGTGAATTTGAAAAATCACCAAAAATAGTAGG
44956429 AATTTAATTAGAGGCTGAATGAGATATGAAATTAAAGCTTAATGAGTCTATTCCCATGTAAAAGA
391 AATTTAATTAGAGGCTGAATGAGATATGAAATTAAAGCTTAATGAGTCTATTCCCATGTAAAAGA
*
44956494 AATAGAGCAAGTAAAGGAACTCTATATTTTGCGATATTCATATTTGTGTGTGACTCGCTCAGAAT
456 AATAGAGCAAGTAAAGGAACTCTATATTTTGAGATATTCATATTTGTGTGTGACTCGCTCAGAAT
*
44956559 GACTATGTGATCCCCTGTTCTAACTTTGAGATATTC
521 GACTATGTGATCCCCTGTTCTAAATTTGAGATATTC
*
44956595 ATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGTTGTG
1 ATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAAAGTTGTG
44956660 AGATAAATTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGCCGAATT
66 AGATAAATTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGCCGAATT
* *
44956725 ATATGAAATATGATGGTGGGGCTGTGTGCTGAAACCATCAAGTATCGAGGATTGATCCGAATTGT
131 ATATGAAATATGATGGTGGGGCTGTGTACTGAAACCATAAAGTATCGAGGATTGATCCGAATTGT
44956790 TCAATGGGATGGTTTTAAGGTGACATTGTAATCATGGACCTATACTTGCGATGTATGAAATGTGG
196 TCAATGGGATGGTTTTAAGGTGACATTGTAATCATGGACCTATACTTGCGATGTATGAAATGTGG
44956855 TGAAAATGAATTGTGATATGCATGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAAGAGTGAAT
261 TGAAAATGAATTGTGATATGCATGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAAGAGTGAAT
*
44956920 TAGTAATAATACTATTTTGGACAATCACAGTGACGTGAATTTGAAAAATCACCAAAAATAGTAGG
326 TAGCAATAATACTATTTTGGACAATCACAGTGACGTGAATTTGAAAAATCACCAAAAATAGTAGG
44956985 AATTTAATTAGAGGCTGAATGAGATATGAAATTAAAGCTTAATGAGTCTATTCCCATGTAAAAGA
391 AATTTAATTAGAGGCTGAATGAGATATGAAATTAAAGCTTAATGAGTCTATTCCCATGTAAAAGA
44957050 AATAGAGCAAGTAAAGGAACTCTATATTTTGAGATATTCATATTTGTGTGTGACTCGCTCAGAAT
456 AATAGAGCAAGTAAAGGAACTCTATATTTTGAGATATTCATATTTGTGTGTGACTCGCTCAGAAT
44957115 GACTATGTGATCCCCTGTTCTAAATTTGA
521 GACTATGTGATCCCCTGTTCTAAATTTGA
44957144 AAAATCAATA
Statistics
Matches: 542, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
556 542 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (556 bp):
ATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAAAGTTGTG
AGATAAATTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGCCGAATT
ATATGAAATATGATGGTGGGGCTGTGTACTGAAACCATAAAGTATCGAGGATTGATCCGAATTGT
TCAATGGGATGGTTTTAAGGTGACATTGTAATCATGGACCTATACTTGCGATGTATGAAATGTGG
TGAAAATGAATTGTGATATGCATGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAAGAGTGAAT
TAGCAATAATACTATTTTGGACAATCACAGTGACGTGAATTTGAAAAATCACCAAAAATAGTAGG
AATTTAATTAGAGGCTGAATGAGATATGAAATTAAAGCTTAATGAGTCTATTCCCATGTAAAAGA
AATAGAGCAAGTAAAGGAACTCTATATTTTGAGATATTCATATTTGTGTGTGACTCGCTCAGAAT
GACTATGTGATCCCCTGTTCTAAATTTGAGATATTC
Found at i:44960197 original size:46 final size:46
Alignment explanation
Indices: 44960147--44960322 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
44960137 TGGTTGAGCA
* *
44960147 TCCGAACTCGTTGAGTTGAGTCGGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
44960193 TCCGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* * *
44960240 TCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
44960286 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44960323 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
45 1 0.01
46 63 0.58
47 26 0.24
48 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:44960303 original size:93 final size:93
Alignment explanation
Indices: 44960144--44960313 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
44960134 GGATGGTTGA
* * *
44960144 GCATCCGAACTCGTTGAGTTGAGTCGGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44960209 TGAGTCCGAGTTTGAGAGATGTAACTAG
66 TGAGTCCGAGTTTGAGAGATGTAACTAG
* * * *
44960237 GCATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44960302 TGAGTCCGAGTT
66 TGAGTCCGAGTT
44960314 CACTTATGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGAGAGATGTAACTAG
Found at i:44969281 original size:2 final size:2
Alignment explanation
Indices: 44969274--44969302 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44969264 TTAATAGCCA
44969274 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44969303 CTCATGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44971863 original size:137 final size:137
Alignment explanation
Indices: 44971617--44971869 Score: 364
Period size: 137 Copynumber: 1.8 Consensus size: 137
44971607 AGACTGGATG
* * **
44971617 ATACACTGGATGCAGGAGTCGAGCCCAATTTTTCAGGAATTTTTGCAGCAAAACAATATTAGGGT
1 ATACACTGGATGCAGAAGTCGAGCCCAATTTTTCAAGAATTGGTGCAGCAAAACAATATTAGGGT
* * ** * * *
44971682 ACCTAATTATACACCGGATATGTTTGGACCGACACATATAGAGTAAGAAGATGATGAACAGGAGT
66 ACCTAATTACACACCAGATATGTTCAGACCAAAACATACAGAGTAAGAAGATGATGAACAGGAGT
44971747 CGGGCCA
131 CGGGCCA
44971754 ATACACTGGATGTCA-AAGTCGAGCCCAATTTTTCAAGAATTGGTGCAGCAAAACAATATTAGGG
1 ATACACTGGATG-CAGAAGTCGAGCCCAATTTTTCAAGAATTGGTGCAGCAAAACAATATTAGGG
** *
44971818 TACCTAATTACATGCCAGATATGTTCAGACCAAAACATACAGAGTAGGAAGA
65 TACCTAATTACACACCAGATATGTTCAGACCAAAACATACAGAGTAAGAAGA
44971870 AGAGGAGCAG
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
137 99 0.98
138 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (137 bp):
ATACACTGGATGCAGAAGTCGAGCCCAATTTTTCAAGAATTGGTGCAGCAAAACAATATTAGGGT
ACCTAATTACACACCAGATATGTTCAGACCAAAACATACAGAGTAAGAAGATGATGAACAGGAGT
CGGGCCA
Found at i:44979362 original size:48 final size:48
Alignment explanation
Indices: 44979306--44979402 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
44979296 CATGAAGAGT
44979306 TTCACTTACCAAAGGCACTGAGTTAATGGCACCAACAAGAATAGATGA
1 TTCACTTACCAAAGGCACTGAGTTAATGGCACCAACAAGAATAGATGA
44979354 TTCACTTACCAAAGGCACTGAGTTAATGGCACCAACAAGAATAGATGA
1 TTCACTTACCAAAGGCACTGAGTTAATGGCACCAACAAGAATAGATGA
44979402 T
1 T
44979403 AGCCAAACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.22
Consensus pattern (48 bp):
TTCACTTACCAAAGGCACTGAGTTAATGGCACCAACAAGAATAGATGA
Found at i:44986410 original size:20 final size:20
Alignment explanation
Indices: 44986387--44986442 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
44986377 ATGTACTACG
44986387 ATGCCTCTGATTGCACAATC
1 ATGCCTCTGATTGCACAATC
*
44986407 ATGCCTCTGATTGCAAAATC
1 ATGCCTCTGATTGCACAATC
*
44986427 ATGCCTCTGTTTGCAC
1 ATGCCTCTGATTGCAC
44986443 TTCAAAGCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (20 bp):
ATGCCTCTGATTGCACAATC
Found at i:44993340 original size:26 final size:26
Alignment explanation
Indices: 44993265--44993340 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
44993255 TGCTAGGATG
44993265 GTAAACAAGAGGTAG-CCTGTCGAGATA
1 GTAAACAAG-GGTAGTCC-GTCGAGATA
* * * *
44993292 GAAAACACGGGGAGT-CTTCCGAGATA
1 GTAAACAAGGGTAGTCCGT-CGAGATA
*
44993318 GTAAACATGGGTAGTCCGTCGAG
1 GTAAACAAGGGTAGTCCGTCGAG
44993341 GCAATAAACA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
25 1 0.03
26 28 0.74
27 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.18
Consensus pattern (26 bp):
GTAAACAAGGGTAGTCCGTCGAGATA
Found at i:44993374 original size:26 final size:26
Alignment explanation
Indices: 44993319--44993375 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
44993309 TCCGAGATAG
* * *
44993319 TAAACATGGGTAGTCCGTCGAGGCAA
1 TAAACACGGGGAGTCCGTCCAGGCAA
*
44993345 TAAACACGGGGAGTCCG-CCAGGACAT
1 TAAACACGGGGAGTCCGTCCAGG-CAA
44993371 TAAAC
1 TAAAC
44993376 GTGGGAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (26 bp):
TAAACACGGGGAGTCCGTCCAGGCAA
Found at i:44994704 original size:23 final size:25
Alignment explanation
Indices: 44994652--44994708 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
44994642 ATATATATGT
*
44994652 TTATTTAATGCATACTCTTATATAAT
1 TTATTTAATGCATAC-CTTATATAAC
44994678 TTATTTAATGCATA-CTT-TATAAC
1 TTATTTAATGCATACCTTATATAAC
44994701 TTATTTAA
1 TTATTTAA
44994709 AACTTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 13 0.43
24 3 0.10
26 14 0.47
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.51
Consensus pattern (25 bp):
TTATTTAATGCATACCTTATATAAC
Found at i:44995164 original size:17 final size:16
Alignment explanation
Indices: 44995130--44995161 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44995120 TGTAAAAAGT
44995130 ATTTTTTTTAAACTAA
1 ATTTTTTTTAAACTAA
44995146 ATTTTTTTTAAA-TAA
1 ATTTTTTTTAAACTAA
44995161 A
1 A
44995162 AATATTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTTTTTAAACTAA
Found at i:44996355 original size:45 final size:45
Alignment explanation
Indices: 44996234--44996340 Score: 187
Period size: 45 Copynumber: 2.4 Consensus size: 45
44996224 CCCGCAACGC
44996234 AACCACCTCCCTCTCCTACTGTGGCACCACCAGCACCTGCTAATA
1 AACCACCTCCCTCTCCTACTGTGGCACCACCAGCACCTGCTAATA
* * *
44996279 AACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTTCTACTA
1 AACCACCTCCCTCTCCTACTGTGGCACCACCAGCACCTGCTAATA
44996324 AACCACCTCCCTCTCCT
1 AACCACCTCCCTCTCCT
44996341 GCTATAAAAC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (45 bp):
AACCACCTCCCTCTCCTACTGTGGCACCACCAGCACCTGCTAATA
Found at i:44996367 original size:45 final size:45
Alignment explanation
Indices: 44996234--44996355 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 45
44996224 CCCGCAACGC
* *** * * *
44996234 AACCACCTCCCTCTCCTACTGTGGCACCACCAGCACCTGCTAATA
1 AACCACCTCCCTCTCCTACTATAAAACCACCATCACCTTCTACTA
* ***
44996279 AACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTTCTACTA
1 AACCACCTCCCTCTCCTACTATAAAACCACCATCACCTTCTACTA
*
44996324 AACCACCTCCCTCTCCTGCTATAAAACCACCA
1 AACCACCTCCCTCTCCTACTATAAAACCACCA
44996356 CCCTCTCCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.25, C:0.46, G:0.07, T:0.21
Consensus pattern (45 bp):
AACCACCTCCCTCTCCTACTATAAAACCACCATCACCTTCTACTA
Found at i:44996376 original size:24 final size:24
Alignment explanation
Indices: 44996278--44996381 Score: 74
Period size: 24 Copynumber: 4.5 Consensus size: 24
44996268 ACCTGCTAAT
* *
44996278 AAACCACCTCCCTCTCCTACTGTG
1 AAACCACCACCCTCTCCTACTCTG
**
44996302 GCACCACCATCACCT-T-CTA--CT-
1 AAACCACCA-C-CCTCTCCTACTCTG
* * * *
44996323 AAACCACCTCCCTCTCCTGCTATA
1 AAACCACCACCCTCTCCTACTCTG
44996347 AAACCACCACCCTCTCCTACTCTG
1 AAACCACCACCCTCTCCTACTCTG
*
44996371 ACACCACCACC
1 AAACCACCACC
44996382 ACCCTCGCCA
Statistics
Matches: 59, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
19 3 0.05
20 2 0.03
21 8 0.14
22 1 0.02
23 1 0.02
24 39 0.66
25 2 0.03
26 3 0.05
ACGTcount: A:0.25, C:0.49, G:0.05, T:0.21
Consensus pattern (24 bp):
AAACCACCACCCTCTCCTACTCTG
Found at i:45001130 original size:14 final size:14
Alignment explanation
Indices: 45001091--45001130 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
45001081 TTCAAATCCC
45001091 TTCGTTCATACCAT
1 TTCGTTCATACCAT
*
45001105 TTCATTCATACCAT
1 TTCGTTCATACCAT
*
45001119 TTCGTTCGTACC
1 TTCGTTCATACC
45001131 CCTCTTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.42
Consensus pattern (14 bp):
TTCGTTCATACCAT
Found at i:45001524 original size:12 final size:12
Alignment explanation
Indices: 45001507--45001540 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45001497 TACAAGTTTA
45001507 AAAAAAATTTCG
1 AAAAAAATTTCG
* *
45001519 AAAAAAAATCCG
1 AAAAAAATTTCG
45001531 AAAAAAATTT
1 AAAAAAATTT
45001541 GAAGTGAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.06, T:0.21
Consensus pattern (12 bp):
AAAAAAATTTCG
Found at i:45003650 original size:16 final size:15
Alignment explanation
Indices: 45003631--45003674 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
45003621 GGAAGATTGT
45003631 AAAAAAACAAAAGAA
1 AAAAAAACAAAAGAA
* *
45003646 GAAAAAA-ATAAGAA
1 AAAAAAACAAAAGAA
45003660 AAAGAAAACAAAAGA
1 AAA-AAAACAAAAGA
45003675 GATTGAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 8 0.35
15 10 0.43
16 5 0.22
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.02
Consensus pattern (15 bp):
AAAAAAACAAAAGAA
Found at i:45013507 original size:14 final size:13
Alignment explanation
Indices: 45013481--45013513 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
45013471 ATGTATAAAG
45013481 TGAGAGATGAAAAA
1 TGAG-GATGAAAAA
45013495 TGAGGATGAAAAA
1 TGAGGATGAAAAA
45013508 TGAGGA
1 TGAGGA
45013514 AGTGAGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (13 bp):
TGAGGATGAAAAA
Found at i:45018080 original size:16 final size:16
Alignment explanation
Indices: 45018059--45018112 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
45018049 TTCAATAACC
45018059 ATTTCATAAAATCATT
1 ATTTCATAAAATCATT
* *
45018075 ATTTCAT-ATAT-TTT
1 ATTTCATAAAATCATT
*
45018089 ATTTCTTAAAATCATT
1 ATTTCATAAAATCATT
45018105 ATTTCATA
1 ATTTCATA
45018113 TATTTTATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 8 0.27
15 6 0.20
16 16 0.53
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTCATAAAATCATT
Found at i:45018092 original size:14 final size:14
Alignment explanation
Indices: 45018073--45018128 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
45018063 CATAAAATCA
45018073 TTATTTCATATATT
1 TTATTTCATATATT
* * *
45018087 TTATTTCTTAAAATCA
1 TTATTTCAT-ATAT-T
45018103 TTATTTCATATATT
1 TTATTTCATATATT
45018117 TTATTTC-TATAT
1 TTATTTCATATAT
45018129 CCTAATTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
13 5 0.15
14 15 0.44
15 6 0.18
16 8 0.24
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATTTCATATATT
Found at i:45018099 original size:30 final size:30
Alignment explanation
Indices: 45018059--45018124 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
45018049 TTCAATAACC
*
45018059 ATTTCATAAAATCATTATTTCATATATTTT
1 ATTTCTTAAAATCATTATTTCATATATTTT
45018089 ATTTCTTAAAATCATTATTTCATATATTTT
1 ATTTCTTAAAATCATTATTTCATATATTTT
45018119 ATTTCT
1 ATTTCT
45018125 ATATCCTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTCTTAAAATCATTATTTCATATATTTT
Found at i:45018807 original size:23 final size:23
Alignment explanation
Indices: 45018697--45018807 Score: 145
Period size: 23 Copynumber: 4.9 Consensus size: 23
45018687 AGTGCCTAAA
* *
45018697 ACGACACACAAGGTGCCTG--AT
1 ACGACACATAAAGTGCCTGATAT
** * *
45018718 ACGACACACGAGGTGCCTGAAAT
1 ACGACACATAAAGTGCCTGATAT
45018741 ACGACACATAAAGTGCCTGATAT
1 ACGACACATAAAGTGCCTGATAT
45018764 ACGACACATAAAGTGCCTGATAT
1 ACGACACATAAAGTGCCTGATAT
*
45018787 ACGACACATAAAGTGTCTGAT
1 ACGACACATAAAGTGCCTGAT
45018808 CAAAAAAGCC
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
21 18 0.22
23 64 0.78
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (23 bp):
ACGACACATAAAGTGCCTGATAT
Found at i:45019364 original size:70 final size:77
Alignment explanation
Indices: 45019207--45019382 Score: 199
Period size: 70 Copynumber: 2.3 Consensus size: 77
45019197 TTTCCAATCA
* *
45019207 AATTCAAATCACTAATTACTTTT-CAATCAATATACATTTCAAATACTCACATATTTTCTTCATT
1 AATTCAAATCACT-TTTA-TTTTCCAATCAATATACATTTCAAATACTCACATA--TACTTCATT
45019271 CAATTAAATTTGATTC
62 CAATTAAATTTGATTC
*
45019287 AATTCAAATCACTTTTATTTTCCAATCAATATAC-TTTCAAATATTCACATA-AC-TCA-T-AAT
1 AATTCAAATCACTTTTATTTTCCAATCAATATACATTTCAAATACTCACATATACTTCATTCAAT
*
45019347 TCAA-TT-ACTT-
66 TAAATTTGA-TTC
*
45019357 AATTCAAATCACTTTTAATTTCCAAT
1 AATTCAAATCACTTTTATTTTCCAAT
45019383 TTGTTCACAT
Statistics
Matches: 89, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
70 26 0.29
71 4 0.04
72 6 0.07
73 1 0.01
74 3 0.03
75 1 0.01
78 20 0.22
79 15 0.17
80 13 0.15
ACGTcount: A:0.38, C:0.19, G:0.01, T:0.42
Consensus pattern (77 bp):
AATTCAAATCACTTTTATTTTCCAATCAATATACATTTCAAATACTCACATATACTTCATTCAAT
TAAATTTGATTC
Found at i:45020166 original size:14 final size:15
Alignment explanation
Indices: 45020142--45020170 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45020132 GAATGGCTTC
45020142 TGCTATTCTTTCTTT
1 TGCTATTCTTTCTTT
45020157 TGCT-TTCTTTCTTT
1 TGCTATTCTTTCTTT
45020171 ATTTCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.21, G:0.07, T:0.69
Consensus pattern (15 bp):
TGCTATTCTTTCTTT
Found at i:45020226 original size:12 final size:12
Alignment explanation
Indices: 45020211--45020238 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
45020201 GTTAATAACG
45020211 ATAATAATTATA
1 ATAATAATTATA
45020223 ATAATAATTATA
1 ATAATAATTATA
45020235 ATAA
1 ATAA
45020239 ATATCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAATTATA
Found at i:45020866 original size:20 final size:19
Alignment explanation
Indices: 45020820--45020866 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
45020810 GCCTTTTTTT
*
45020820 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
45020840 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
45020860 CCTAATT
1 CCTAATT
45020867 AAACACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Found at i:45021804 original size:48 final size:48
Alignment explanation
Indices: 45021731--45022064 Score: 287
Period size: 48 Copynumber: 7.0 Consensus size: 48
45021721 TAGGTAAATT
* * * *
45021731 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
* * * * * * *
45021779 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTTAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
* * *
45021827 GCCGATGCCATGTCCCAGACATGGTTTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
** * * * * * **
45021875 GTTGATTCCTTGTCCCAAACATGGCCTTACACTAGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAG
* * * * *
45021923 GCCAATGCCATGTCCCAAACATTGTCTTACATTAG-TACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCAAG
* * * **
45021971 GCCAATGCCATGTCCCAGACATGGCCTTACACTAGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAG
* * * *
45022019 GCAGATGTCATGTCCTAGACATGGTCTTACACTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
45022065 CCTAATTGTC
Statistics
Matches: 221, Mismatches: 59, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
47 5 0.02
48 211 0.95
49 5 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
Found at i:45021894 original size:96 final size:96
Alignment explanation
Indices: 45021731--45022064 Score: 418
Period size: 96 Copynumber: 3.5 Consensus size: 96
45021721 TAGGTAAATT
* * * * * *
45021731 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCA
* * ** *
45021796 AACATGGTCTTACACTAGCTCTCGTCTTAAT-
66 AACATGGCCTTACACTAGCTCTCATAAT-GTG
* * * *
45021827 GCCGATGCCATGTCCCAGACATGGTTTTACACTAGCACACATATCAACGTTGATTCCTTGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCA
45021892 AACATGGCCTTACACTAGCTCTCATAATGTG
66 AACATGGCCTTACACTAGCTCTCATAATGTG
* * * * * * *
45021923 GCCAATGCCATGTCCCAAACATTGTCTTACATTAGTACACATATCAACGCCAATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCA
*
45021988 GACATGGCCTTACACTAGCTCTCATAATGTG
66 AACATGGCCTTACACTAGCTCTCATAATGTG
* * *
45022019 GCAGATGTCATGTCCTAGACATGGTCTTACACTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
45022065 CCTAATTGTC
Statistics
Matches: 202, Mismatches: 35, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
95 1 0.00
96 201 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCA
AACATGGCCTTACACTAGCTCTCATAATGTG
Found at i:45023396 original size:14 final size:14
Alignment explanation
Indices: 45023373--45023412 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
45023363 ACATTTAACT
45023373 ATTATGTCTTTGAA
1 ATTATGTCTTTGAA
*
45023387 ATTATATCTTTTGAA
1 ATTATGTC-TTTGAA
45023402 ATTATGTCTTT
1 ATTATGTCTTT
45023413 TATATTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (14 bp):
ATTATGTCTTTGAA
Found at i:45025024 original size:37 final size:37
Alignment explanation
Indices: 45024971--45025075 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 37
45024961 ATTCAAAAAA
*
45024971 TAATATTATTTTAATAGTTTAATATTAATTTTAAT-T
1 TAATATTATCTTAATAGTTTAATATTAATTTTAATAT
*
45025007 TAATACTTATCTTAATAGTATT-TTATTAA-TTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTTAATAT
*
45025044 TAAAGTGATTATCTTAATA-TTAAAT-TTAATTT
1 T-AA-T-ATTATCTTAATAGTTTAATATTAATTT
45025076 AATGTTTATC
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
36 11 0.19
37 25 0.44
38 8 0.14
39 12 0.21
40 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAATTTTAATAT
Found at i:45025046 original size:11 final size:11
Alignment explanation
Indices: 45024971--45025046 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
45024961 ATTCAAAAAA
*
45024971 TAATATTATTT
1 TAATATTAATT
45024982 TAATAGTTTAATAT
1 TAATA--TTAAT-T
*
45024996 TAATTTTAATT
1 TAATATTAATT
45025007 TAATACTT-ATCT
1 TAATA-TTAAT-T
*
45025019 TAATAGT-ATT
1 TAATATTAATT
45025029 T--TATTAATT
1 TAATATTAATT
45025038 TAATATTAA
1 TAATATTAA
45025047 AGTGATTATC
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 13 0.25
13 4 0.08
14 5 0.10
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:45033748 original size:20 final size:20
Alignment explanation
Indices: 45033720--45033760 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45033710 GTAGCTGGAC
*
45033720 TTTCATTTTACTTTTCTTTT
1 TTTCATTTTACTTTTATTTT
* *
45033740 TTTCTTTTTATTTTTATTTT
1 TTTCATTTTACTTTTATTTT
45033760 T
1 T
45033761 ATTTTTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTCATTTTACTTTTATTTT
Found at i:45033753 original size:12 final size:12
Alignment explanation
Indices: 45033724--45033766 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
45033714 CTGGACTTTC
*
45033724 ATTTTACTTTTCT
1 ATTTTTCTTTT-T
*
45033737 TTTTTTCTTTTT
1 ATTTTTCTTTTT
*
45033749 ATTTTTATTTTT
1 ATTTTTCTTTTT
45033761 ATTTTT
1 ATTTTT
45033767 TTTGTTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (12 bp):
ATTTTTCTTTTT
Found at i:45035779 original size:35 final size:35
Alignment explanation
Indices: 45035740--45036052 Score: 239
Period size: 35 Copynumber: 8.8 Consensus size: 35
45035730 CCTTAGACGT
*
45035740 GTCTATCCCAACCTTTATAAGGTTGCCTTAAATAG
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAAATAG
* * *
45035775 GTCTATCCCAACCATTTTTAAGGTTGGCTTAAACAAA
1 GTCTATCCCAACC-TTTTTAAGGTTGCCTTAAA-TAG
*
45035812 GTCTATCCCAA-CTTTTTAATGTTGCCTTAAACGTA-
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAAA--TAG
* * **
45035847 -TCTATCCCAATCTTTTTAAGGTTGCCTTAGATTT
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAAATAG
*
45035881 GTCTATCCCAACCTTTTTTAAAGATTGCCTT--A-AG
1 GTCTATCCCAACC-TTTTT-AAGGTTGCCTTAAATAG
* * * *
45035915 GTCTATCCCAACCTTGTTAAGGTTGTCTTAGA-CG
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAAATAG
* *
45035949 TGTCTATCCCAATCTTTTTAAGGTTGCCTTAGGCA-AG
1 -GTCTATCCCAACCTTTTTAAGGTTGCCTTA--AATAG
* * * *
45035986 GTTTATCTCAACATTTTTTAAAGGCTGCCTTAGACA-AG
1 GTCTATCCCAAC-CTTTTT-AAGGTTGCCTTA-A-ATAG
** *
45036024 GTCTATCATAACCTTTTTAAGTTTGCCTT
1 GTCTATCCCAACCTTTTTAAGGTTGCCTT
45036053 GATGGGTTTT
Statistics
Matches: 226, Mismatches: 36, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
32 9 0.04
33 5 0.02
34 25 0.11
35 87 0.38
36 42 0.19
37 35 0.15
38 23 0.10
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (35 bp):
GTCTATCCCAACCTTTTTAAGGTTGCCTTAAATAG
Found at i:45035921 original size:69 final size:68
Alignment explanation
Indices: 45035727--45036052 Score: 307
Period size: 71 Copynumber: 4.6 Consensus size: 68
45035717 AGAAAAATAA
*
45035727 TTGCCTTAGACGTGTCTATCCCAACCTTTATAAGGTTGCCTTAAATAGGTCTATCCCAACCATTT
1 TTGCCTTAGACGTGTCTATCCCAACCTTTTTAAGGTTGCCTT-AA-AGGTCTATCCCAACC-TTT
45035792 TTAAGG
63 TTAAGG
* * ** * * *
45035798 TTGGCTTAAACAAAGTCTATCCCAA-CTTTTTAATGTTGCCTTAAACGTATCTATCCCAATCTTT
1 TTGCCTTAGAC-GTGTCTATCCCAACCTTTTTAAGGTTGCCTTAAA-G-GTCTATCCCAACCTTT
45035862 TTAAGG
63 TTAAGG
** * *
45035868 TTGCCTTAGATTTGTCTATCCCAACCTTTTTTAAAGATTGCCTT-AAGGTCTATCCCAACCTTGT
1 TTGCCTTAGACGTGTCTATCCCAACC-TTTTT-AAGGTTGCCTTAAAGGTCTATCCCAACCTTTT
45035932 TAAGG
64 TAAGG
* * * * *
45035937 TTGTCTTAGACGTGTCTATCCCAATCTTTTTAAGGTTGCCTTAGGCAAGGTTTATCTCAACATTT
1 TTGCCTTAGACGTGTCTATCCCAACCTTTTTAAGGTTGCCTTA---AAGGTCTATCCCAAC-CTT
45036002 TTTAAAGG
62 TTT-AAGG
* ** *
45036010 CTGCCTTAGACAAG-GTCTATCATAACCTTTTTAAGTTTGCCTT
1 TTGCCTTAGAC--GTGTCTATCCCAACCTTTTTAAGGTTGCCTT
45036053 GATGGGTTTT
Statistics
Matches: 208, Mismatches: 33, Indels: 25
0.78 0.12 0.09
Matches are distributed among these distances:
67 10 0.05
68 5 0.02
69 53 0.25
70 22 0.11
71 55 0.26
72 24 0.12
73 13 0.06
74 25 0.12
75 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (68 bp):
TTGCCTTAGACGTGTCTATCCCAACCTTTTTAAGGTTGCCTTAAAGGTCTATCCCAACCTTTTTA
AGG
Found at i:45038491 original size:4 final size:4
Alignment explanation
Indices: 45038482--45038548 Score: 73
Period size: 4 Copynumber: 17.0 Consensus size: 4
45038472 TACAAATTGT
* * *
45038482 TTTA TTTA TTTA TTTG TTTA TTTA TTTG TTTA TTTA TCTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
45038530 -TCA TTTT TTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA
45038549 AATCATATTG
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 2 0.04
4 48 0.96
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:45051400 original size:4 final size:4
Alignment explanation
Indices: 45051391--45051448 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
45051381 TACAAATTGT
* * * * * *
45051391 TTTA TTTA TTTA TTTG TTTG TTTG TTTA TCTA TTTA TTTA -TCA TTTC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
45051438 TTTA TTTA TTT
1 TTTA TTTA TTT
45051449 TTAAAAATCA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
3 2 0.04
4 43 0.96
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:45054692 original size:40 final size:40
Alignment explanation
Indices: 45054647--45054776 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
45054637 CGGAATATAA
45054647 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
45054687 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
45054727 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
45054767 CCGGATATAA
1 CCGGATATAA
45054777 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:45054791 original size:40 final size:40
Alignment explanation
Indices: 45054663--45054814 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
45054653 ATAAGCATGT
* * *
45054663 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
45054703 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
45054743 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
45054783 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
45054815 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:45054797 original size:80 final size:80
Alignment explanation
Indices: 45054663--45054814 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
45054653 ATAAGCATGT
* *
45054663 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
45054728 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
45054743 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
45054806 CCCGGATAT
64 CCCGGATAT
45054815 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:45059445 original size:2 final size:2
Alignment explanation
Indices: 45059438--45059486 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
45059428 AGTATATGCT
45059438 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45059480 TA TA TA T
1 TA TA TA T
45059487 TTGTTAAGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45061548 original size:60 final size:62
Alignment explanation
Indices: 45061422--45061558 Score: 208
Period size: 60 Copynumber: 2.2 Consensus size: 62
45061412 AGATGAACCA
*
45061422 AATTATATTAAGAATAATATTAAATTATATATTTTTATTTTTATTTAAATTATATTTAATAAT
1 AATTATATTAA-AATAATATTAAATTATATATTTTTATTTTTATTTAAATTATATTAAATAAT
*
45061485 AATTATATTAAAAT-ATGATTAAATTATTTATTTTTA-TTTTA-TTAAATTATATTAAATAAT
1 AATTATATTAAAATAAT-ATTAAATTATATATTTTTATTTTTATTTAAATTATATTAAATAAT
*
45061545 AATTCTATTAAAAT
1 AATTATATTAAAAT
45061559 TTAATAATAA
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
60 31 0.44
61 7 0.10
62 21 0.30
63 11 0.16
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (62 bp):
AATTATATTAAAATAATATTAAATTATATATTTTTATTTTTATTTAAATTATATTAAATAAT
Found at i:45074672 original size:10 final size:10
Alignment explanation
Indices: 45074642--45074672 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
45074632 ACCCAAAATT
45074642 CATATATATA
1 CATATATATA
*
45074652 TATATATATA
1 CATATATATA
45074662 CATATATATA
1 CATATATATA
45074672 C
1 C
45074673 TAACAGGGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (10 bp):
CATATATATA
Found at i:45079076 original size:14 final size:14
Alignment explanation
Indices: 45079056--45079089 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
45079046 TTGTTTCATT
45079056 AAAAATAATTTTTA
1 AAAAATAATTTTTA
*
45079070 GAAAATAATTTTTA
1 AAAAATAATTTTTA
45079084 AAAAAT
1 AAAAAT
45079090 GACTTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:45080825 original size:16 final size:16
Alignment explanation
Indices: 45080804--45080837 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
45080794 TCAAGGTCAT
45080804 ATATGTAGCTTACGGA
1 ATATGTAGCTTACGGA
45080820 ATATGTAGCTTACGGA
1 ATATGTAGCTTACGGA
45080836 AT
1 AT
45080838 TATCAGAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (16 bp):
ATATGTAGCTTACGGA
Found at i:45083288 original size:41 final size:41
Alignment explanation
Indices: 45083231--45083311 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
45083221 ACCTAATTGA
*
45083231 GAAAATAATTCCCTTATTCTAATAAGCTACTAAAAGATAAG
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAG
45083272 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
45083312 AATAAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (41 bp):
GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAG
Found at i:45097619 original size:44 final size:44
Alignment explanation
Indices: 45097556--45097648 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 44
45097546 TGATAAGGAT
45097556 GAAGGGATCACCAATAATGTTGAGCCTGAACCAAAGGACCACAC
1 GAAGGGATCACCAATAATGTTGAGCCTGAACCAAAGGACCACAC
45097600 GAAGGGATCACCAATAATGTTGAGCCTGAACCAAAGGACCACAC
1 GAAGGGATCACCAATAATGTTGAGCCTGAACCAAAGGACCACAC
*
45097644 TAAGG
1 GAAGG
45097649 ATGTTATCCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (44 bp):
GAAGGGATCACCAATAATGTTGAGCCTGAACCAAAGGACCACAC
Found at i:45099537 original size:16 final size:15
Alignment explanation
Indices: 45099493--45099545 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 15
45099483 ACTTATCGGA
45099493 TTTTTATTTTTAAATT
1 TTTTTATTTTTAAA-T
45099509 TACTTAATTATTTTTATAAT
1 T--TT--TTATTTTTA-AAT
45099529 TTTTTATTTTTAAAT
1 TTTTTATTTTTAAAT
45099544 TT
1 TT
45099546 ACACTTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
15 5 0.16
16 10 0.31
18 4 0.12
20 11 0.34
21 2 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATTTTTAAAT
Found at i:45101810 original size:12 final size:12
Alignment explanation
Indices: 45101793--45101818 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45101783 ATAAACTAAG
45101793 TTTTAATTTAGT
1 TTTTAATTTAGT
45101805 TTTTAATTTAGT
1 TTTTAATTTAGT
45101817 TT
1 TT
45101819 GCTACAGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTAATTTAGT
Found at i:45102878 original size:51 final size:51
Alignment explanation
Indices: 45102823--45102958 Score: 191
Period size: 51 Copynumber: 2.7 Consensus size: 51
45102813 TGGAAACATG
*
45102823 ATCTTAAAAGATATGATTTTATAATATTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAAGATATGATTTTATAATATTAGAGATCTTAGATAAGATATGTA
* * * * *
45102874 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATGATTTTATAATATTAGAGATCTTAGATAAGATATGTA
* * *
45102925 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATTTTATAATATTAGAGAT
45102959 TTGATTGTAG
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (51 bp):
ATCTTAAAAGATATGATTTTATAATATTAGAGATCTTAGATAAGATATGTA
Found at i:45102928 original size:19 final size:19
Alignment explanation
Indices: 45102855--45102932 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
45102845 AATATTAGAG
*
45102855 ATCTTAGATATGATATGTA
1 ATCTTAGATAAGATATGTA
45102874 ATCTT--ATAAGATAT-T-
1 ATCTTAGATAAGATATGTA
* **
45102889 AT-TT-TATAAGAT-TACA
1 ATCTTAGATAAGATATGTA
45102905 TATCTTAGATAAGATATGTA
1 -ATCTTAGATAAGATATGTA
45102925 ATCTTAGA
1 ATCTTAGA
45102933 AGATATGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
14 3 0.06
15 9 0.19
16 1 0.02
17 10 0.21
18 2 0.04
19 20 0.43
20 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (19 bp):
ATCTTAGATAAGATATGTA
Found at i:45108077 original size:51 final size:51
Alignment explanation
Indices: 45108022--45108157 Score: 182
Period size: 51 Copynumber: 2.7 Consensus size: 51
45108012 TGGAAACATG
* *
45108022 ATCTTAAAATATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * ** * *
45108073 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* *
45108124 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGAT
45108158 TTGATTGTAG
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (51 bp):
ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
Found at i:45108127 original size:19 final size:19
Alignment explanation
Indices: 45108054--45108131 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
45108044 AATCTTAGAG
*
45108054 ATCTTAGATATGATATGTA
1 ATCTTAGATAAGATATGTA
45108073 ATCTT--ATAAGATAT-T-
1 ATCTTAGATAAGATATGTA
* **
45108088 AT-TT-TATAAGAT-TACA
1 ATCTTAGATAAGATATGTA
45108104 TATCTTAGATAAGATATGTA
1 -ATCTTAGATAAGATATGTA
45108124 ATCTTAGA
1 ATCTTAGA
45108132 AGATATGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
14 3 0.06
15 9 0.19
16 1 0.02
17 10 0.21
18 2 0.04
19 20 0.43
20 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (19 bp):
ATCTTAGATAAGATATGTA
Found at i:45118724 original size:30 final size:30
Alignment explanation
Indices: 45118683--45118739 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
45118673 CTTTCGAGCA
* *
45118683 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTATCAAAGTC
45118713 TAGGGGCAAAATGGTCATTTTATCAAA
1 TAGGGGCAAAATGGTCATTTTATCAAA
45118740 TATGTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTATCAAAGTC
Found at i:45119339 original size:49 final size:49
Alignment explanation
Indices: 45119265--45119388 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 49
45119255 TAAGTTTCGT
*
45119265 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCC-CGTATACATGAGA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCG-ATACA-GAGA
** *
45119313 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCGATGGAGATA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCGATACAGAGA
* *
45119362 GCCAGCGTAAGACCATGTTTGGGACAT
1 GCTAGTGTAAGACCATGTTTGGGACAT
45119389 AGCAGCGGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 12 0.18
49 41 0.61
50 12 0.18
51 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCGATACAGAGA
Found at i:45121114 original size:42 final size:43
Alignment explanation
Indices: 45121057--45121162 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 43
45121047 TGAAATTTAT
*
45121057 GTGTAAGACCATGTCTGGGACATCA-GCATCG-TATCTGAATT-C
1 GTGTAAGACCATGTCTAGGACA-CAGGCATCGATA-CTGAATTAC
* * *
45121099 GTGTAAGACCCTGTCTAGGATAGAGGCATCGATACTGAATTAC
1 GTGTAAGACCATGTCTAGGACACAGGCATCGATACTGAATTAC
*
45121142 ATGTAAGACCATGTCTAGGAC
1 GTGTAAGACCATGTCTAGGAC
45121163 GTCGGCATTG
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 32 0.59
43 21 0.39
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAGGACACAGGCATCGATACTGAATTAC
Found at i:45128615 original size:40 final size:39
Alignment explanation
Indices: 45128447--45128617 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
45128437 AGAAATTGAA
* *
45128447 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
45128487 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
45128527 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
45128567 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
45128607 TGATATCCGGG
1 TGATATCCGGG
45128618 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:45136629 original size:40 final size:39
Alignment explanation
Indices: 45136461--45136631 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
45136451 AGAAATTGAA
* *
45136461 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
45136501 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
45136541 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
45136581 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
45136621 TGATATCCGGG
1 TGATATCCGGG
45136632 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:45143173 original size:40 final size:40
Alignment explanation
Indices: 45143128--45143293 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
45143118 CGGAATATAA
45143128 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
45143168 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
45143208 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
45143248 CCGGATATAATTC-C-AGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA-TCACTAGCACAAATGCCTTCGGGTCTTAGC
45143286 CCGGATAT
1 CCGGATAT
45143294 CATTCAATTT
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
38 13 0.12
39 17 0.16
40 77 0.71
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45150568 original size:21 final size:20
Alignment explanation
Indices: 45150544--45150585 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
45150534 GATCCAAACT
45150544 TATAAAGTTCA-TATTAATATA
1 TATAAA-TTCATTATTAA-ATA
*
45150565 TATATATTCATTATTAAATA
1 TATAAATTCATTATTAAATA
45150585 T
1 T
45150586 CACCTTGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (20 bp):
TATAAATTCATTATTAAATA
Found at i:45152092 original size:43 final size:42
Alignment explanation
Indices: 45151947--45152106 Score: 205
Period size: 42 Copynumber: 3.8 Consensus size: 42
45151937 TTAGGGTTAC
* * **
45151947 TGAGATTACGTGCAAGACCATATCTGGGATATGGAATTTATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
*
45151989 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
45152031 TGAGACTT-CGTGTGAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
45152074 CGAGATTACATGTAAGACCATATCTGGGATATG
1 TGAGATTACGTGTAAGACCATATCTGGGATATG
45152107 TCATTGTTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 66 0.65
43 36 0.35
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:45154403 original size:27 final size:27
Alignment explanation
Indices: 45154365--45154417 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
45154355 ATATATACGG
*
45154365 CATATAGGGGCAAAACAGTCATCTTAC
1 CATATAAGGGCAAAACAGTCATCTTAC
45154392 CATATAAGGGCAAAACAGTCATCTTA
1 CATATAAGGGCAAAACAGTCATCTTA
45154418 TCATTCATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (27 bp):
CATATAAGGGCAAAACAGTCATCTTAC
Found at i:45157342 original size:40 final size:40
Alignment explanation
Indices: 45157262--45157442 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
45157252 ACCCAAGTTT
* * * *
45157262 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
45157301 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
45157341 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
45157381 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
45157421 CTTCGGGTCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
45157443 CATTCAAATG
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 119 0.92
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:45165338 original size:40 final size:40
Alignment explanation
Indices: 45165258--45165438 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
45165248 ACCCAAGTTT
* * * *
45165258 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
45165297 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
45165337 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
45165377 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
45165417 CTTCGGGTCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
45165439 CATTCAAATG
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 119 0.92
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:45168569 original size:40 final size:40
Alignment explanation
Indices: 45168248--45168550 Score: 477
Period size: 40 Copynumber: 7.6 Consensus size: 40
45168238 GATGATAACA
*
45168248 GGGCTATGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
*
45168288 GGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
*
45168328 GGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
45168368 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
45168408 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
45168448 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
* *
45168488 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTAAT-TCC
45168528 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
45168551 AGCGTGTAGC
Statistics
Matches: 252, Mismatches: 9, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 2 0.01
40 248 0.98
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
Found at i:45170299 original size:66 final size:68
Alignment explanation
Indices: 45170229--45170415 Score: 263
Period size: 71 Copynumber: 2.7 Consensus size: 68
45170219 TAGTACCACT
*
45170229 CATGCGACCTAAC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAACAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
45170291 CACG
65 CACG
*
45170295 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAAC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
45170360 ATCACG
63 ATCACG
*
45170366 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAAC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
45170416 GATACATCTC
Statistics
Matches: 113, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
66 12 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAACACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:45170338 original size:71 final size:71
Alignment explanation
Indices: 45170252--45170415 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
45170242 CGATTTGTCT
45170252 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
45170317 CTTTCA
66 CTTTCA
45170323 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
45170388 CTTTCA
66 CTTTCA
45170394 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
45170416 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:45170453 original size:71 final size:70
Alignment explanation
Indices: 45170252--45170449 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
45170242 CGATTTGTCT
* * * *
45170252 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
45170317 CTTTCA
65 CTTTCA
* * * *
45170323 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
45170388 CTTTCA
65 CTTTCA
* *
45170394 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
45170450 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:45175657 original size:31 final size:31
Alignment explanation
Indices: 45175616--45175679 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
45175606 CCTTTTCATA
*
45175616 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
45175647 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
45175678 TT
1 TT
45175680 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:45175922 original size:24 final size:24
Alignment explanation
Indices: 45175871--45175989 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
45175861 GCTTTATCAT
*
45175871 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
45175896 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
45175920 ATAACTGAGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
45175943 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
45175967 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
45175990 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 22 0.26
24 51 0.60
25 12 0.14
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:45175953 original size:47 final size:48
Alignment explanation
Indices: 45175871--45175989 Score: 161
Period size: 47 Copynumber: 2.5 Consensus size: 48
45175861 GCTTTATCAT
*
45175871 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACT-GAGGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
45175920 ATAACTGAGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
*
45175967 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGAGGCATAAGCCCTTTT
45175990 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
47 43 0.67
48 11 0.17
49 10 0.16
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (48 bp):
ATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:45176064 original size:20 final size:20
Alignment explanation
Indices: 45176039--45176099 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
45176029 TTATGATTAC
45176039 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
45176059 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
45176079 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
45176099 A
1 A
45176100 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:45177448 original size:27 final size:27
Alignment explanation
Indices: 45177427--45178009 Score: 581
Period size: 27 Copynumber: 21.6 Consensus size: 27
45177417 AAGGGTATTT
*
45177427 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
45177454 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
45177481 CAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
45177508 TGGAAATACTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
45177535 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
45177562 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * *
45177589 TGGTAATTATGTAAAT-TAGGGGTAAAA
1 TAGTAATTCTGTAAATCGA-GGGTAAAA
* *
45177616 TGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
45177643 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
45177670 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
45177697 -CGATAATT-T-TACAGATCGAGGGTAAAA
1 TAG-TAATTCTGTA-A-ATCGAGGGTAAAA
** *
45177724 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
45177751 CAGTAATTCTGTAAATCAATGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
45177778 CAATAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
45177805 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
45177832 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
45177859 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
45177886 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** *
45177913 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
45177940 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
45177967 CAGTAATTCTATAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
45177994 CGGTAATTCTGTAAAT
1 TAGTAATTCTGTAAAT
45178010 TGGGAGTACT
Statistics
Matches: 486, Mismatches: 52, Indels: 35
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.00
26 8 0.02
27 466 0.96
28 8 0.02
29 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:45177522 original size:81 final size:81
Alignment explanation
Indices: 45177429--45178009 Score: 719
Period size: 81 Copynumber: 7.2 Consensus size: 81
45177419 GGGTATTTTA
* * *
45177429 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
45177494 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * * *
45177510 GAAATACTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTAT
* *
45177574 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAACG
* * * * * *
45177591 GTAATTATGTAAAT-TAGGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
45177655 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAACG
* *
45177672 GTAATTCTGTAAATCGAGGGTAAAACGATAATT-T-TACAGATCGAGGGTAAAACGGTAATTCTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA-A-ATCGAGGGTAAAACAGTAATTCTA
*
45177735 TAAATCGAGGGTAAAACA
64 TAAATCGAGGGTAAAACG
* * ** * *
45177753 GTAATTCTGTAAATCAATGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTAT
**
45177817 AAATCGAGGGTAAAATA
65 AAATCGAGGGTAAAACG
* * *
45177834 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTAC
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
45177898 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
* * **
45177915 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
45177980 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAACG
45177996 GTAATTCTGTAAAT
1 GTAATTCTGTAAAT
45178010 TGGGAGTACT
Statistics
Matches: 437, Mismatches: 48, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.00
80 8 0.02
81 418 0.96
82 7 0.02
83 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:45178028 original size:54 final size:54
Alignment explanation
Indices: 45177429--45178009 Score: 717
Period size: 54 Copynumber: 10.8 Consensus size: 54
45177419 GGGTATTTTA
* * * *
45177429 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
45177483 GTAATTCTATAAATCGAGGGTAAAATGGAAATACTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
45177537 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * **
45177591 GTAATTATGTAAAT-TAGGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
45177645 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
45177699 ATAATT-T-TACAGATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTA-A-ATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * **
45177753 GTAATTCTGTAAATCAATGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
**
45177807 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
* **
45177861 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * ** *
45177915 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
45177969 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAAT
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAAT
45178010 TGGGAGTACT
Statistics
Matches: 462, Mismatches: 54, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
52 2 0.00
53 5 0.01
54 448 0.97
55 5 0.01
56 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:45183905 original size:20 final size:20
Alignment explanation
Indices: 45183858--45183905 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
45183848 AGTAAGCTCG
*
45183858 GTTGAGCTCAAATGAGCTTA
1 GTTGAGCTCAAATGAGCTGA
****
45183878 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
45183898 GTTGAGCT
1 GTTGAGCT
45183906 GGACAGAGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (20 bp):
GTTGAGCTCAAATGAGCTGA
Found at i:45186570 original size:15 final size:15
Alignment explanation
Indices: 45186550--45186617 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
45186540 GGTATCATGA
45186550 TTGGATTTTCTTGTT
1 TTGGATTTTCTTGTT
45186565 TTGGA-TTTCTT-TAT
1 TTGGATTTTCTTGT-T
*
45186579 GTTGGATTTT-TATATT
1 -TTGGATTTTCT-TGTT
45186595 TTGGA-TTTCTTCGTT
1 TTGGATTTTCTT-GTT
*
45186610 ATGGATTT
1 TTGGATTT
45186618 CCTTATCGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
13 1 0.02
14 11 0.26
15 23 0.53
16 7 0.16
17 1 0.02
ACGTcount: A:0.13, C:0.06, G:0.19, T:0.62
Consensus pattern (15 bp):
TTGGATTTTCTTGTT
Found at i:45192800 original size:15 final size:15
Alignment explanation
Indices: 45192780--45192808 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45192770 ACAATTTTGA
45192780 AATAAAACGTACCTT
1 AATAAAACGTACCTT
45192795 AATAAAACGTACCT
1 AATAAAACGTACCT
45192809 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:45197072 original size:15 final size:15
Alignment explanation
Indices: 45197052--45197083 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45197042 AAATAATAAT
*
45197052 TTATATATATTTATC
1 TTATATACATTTATC
45197067 TTATATACATTTATC
1 TTATATACATTTATC
45197082 TT
1 TT
45197084 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:45197916 original size:18 final size:18
Alignment explanation
Indices: 45197868--45197916 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 18
45197858 CTTCAAATAC
*
45197868 TAGTTAACTCCTAAACCG
1 TAGTTAACTCCTAAACCA
*
45197886 TA--T-A-TCTTAAACCA
1 TAGTTAACTCCTAAACCA
45197900 TAGTTAACTCCTAAACC
1 TAGTTAACTCCTAAACC
45197917 TGCTTAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 8
0.69 0.09 0.23
Matches are distributed among these distances:
14 10 0.42
15 1 0.04
16 2 0.08
17 1 0.04
18 10 0.42
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (18 bp):
TAGTTAACTCCTAAACCA
Found at i:45197945 original size:14 final size:14
Alignment explanation
Indices: 45197921--45197965 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
45197911 TAAACCTGCT
45197921 TAAACCTTAAACCA
1 TAAACCTTAAACCA
* *
45197935 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
45197949 TAAACCTTAAACTA
1 TAAACCTTAAACCA
45197963 TAA
1 TAA
45197966 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:45198217 original size:40 final size:40
Alignment explanation
Indices: 45198123--45198258 Score: 218
Period size: 40 Copynumber: 3.4 Consensus size: 40
45198113 GTTATATGAC
* *
45198123 TTTTAGCGGCATTTTACTAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
45198164 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
**
45198204 TTTTAGCGGCGTTTTACCAAAAGCGGAGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
*
45198244 TTTTAGTGGCGTTTT
1 TTTTAGCGGCGTTTT
45198259 TTTTAAAACG
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 54 0.60
41 36 0.40
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:45202025 original size:40 final size:40
Alignment explanation
Indices: 45201980--45202147 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
45201970 CGGAATATAA
45201980 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
45202020 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
45202060 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
45202100 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
45202140 CCGGATAT
1 CCGGATAT
45202148 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45202130 original size:80 final size:80
Alignment explanation
Indices: 45201996--45202145 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
45201986 ATAACCACGT
* *
45201996 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
45202061 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
45202076 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
45202139 CCCGGAT
64 CCCGGAT
45202146 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:45209978 original size:40 final size:40
Alignment explanation
Indices: 45209933--45210099 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
45209923 CGGAATATAA
45209933 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
45209973 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
45210013 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
45210053 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
45210092 CCGGATAT
1 CCGGATAT
45210100 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 88 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45210083 original size:80 final size:79
Alignment explanation
Indices: 45209949--45210097 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
45209939 ATAACCACGT
*
45209949 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
45210014 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
45210029 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
45210092 CCGGAT
64 CCGGAT
45210098 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:45220025 original size:40 final size:40
Alignment explanation
Indices: 45219959--45220125 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
45219949 AAATTGAATG
* * *
45219959 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
45219998 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
45220038 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
45220078 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
45220118 ATATCCGG
1 ATATCCGG
45220126 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:45223583 original size:13 final size:13
Alignment explanation
Indices: 45223565--45223591 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45223555 ACTATCACCC
45223565 GGGAAAGGCTAAT
1 GGGAAAGGCTAAT
45223578 GGGAAAGGCTAAT
1 GGGAAAGGCTAAT
45223591 G
1 G
45223592 CTGTTGCTGA
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:0.37, C:0.07, G:0.41, T:0.15
Consensus pattern (13 bp):
GGGAAAGGCTAAT
Found at i:45227099 original size:19 final size:19
Alignment explanation
Indices: 45227063--45227101 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45227053 TTTTCATCAT
* *
45227063 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
45227082 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
45227101 A
1 A
45227102 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:45227605 original size:55 final size:56
Alignment explanation
Indices: 45227540--45227653 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 56
45227530 AGCATGGATG
* * * *
45227540 CCAGATACAGA-AAATGTGATAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
45227596 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
45227651 CCA
1 CCA
45227654 AGACGCTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.57
56 20 0.41
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:45227651 original size:28 final size:27
Alignment explanation
Indices: 45227565--45227653 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 27
45227555 GTGATAGAGT
*
45227565 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
45227594 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
45227621 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
45227649 CACCA
1 CACCA
45227654 AGACGCTTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:45227807 original size:28 final size:28
Alignment explanation
Indices: 45227760--45227852 Score: 152
Period size: 28 Copynumber: 3.3 Consensus size: 28
45227750 AAATTAACCC
*
45227760 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
45227788 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
45227816 TAGGGGTATAATGATAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
45227844 TAGGGGTAT
1 TAGGGGTAT
45227853 TCTAGTACAT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:45235775 original size:19 final size:19
Alignment explanation
Indices: 45235739--45235777 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45235729 TTTTCATCAT
* *
45235739 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
45235758 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
45235777 A
1 A
45235778 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:45236281 original size:55 final size:56
Alignment explanation
Indices: 45236216--45236330 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
45236206 AGCATGGCTG
* * *
45236216 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
45236272 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
45236327 CCAG
1 CCAG
45236331 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:45236327 original size:28 final size:27
Alignment explanation
Indices: 45236241--45236330 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
45236231 GTGACAGAGT
*
45236241 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
45236270 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
45236297 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
45236325 CACCAG
1 CACCAG
45236331 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:45236489 original size:28 final size:28
Alignment explanation
Indices: 45236436--45236526 Score: 159
Period size: 27 Copynumber: 3.3 Consensus size: 28
45236426 AAATTAACCC
*
45236436 TAGGGGTATAA-GGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
45236463 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
45236491 TAGGGGTATAAT-GTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
45236518 TAGGGGTAT
1 TAGGGGTAT
45236527 TCTAGTACAT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 35 0.56
28 27 0.44
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:45238628 original size:79 final size:81
Alignment explanation
Indices: 45238486--45238668 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
45238476 TACTCGTTCA
* * **
45238486 AATGCCTTCGGGACATAGCCCGG-GTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACCCAACCCGGA
* *
45238550 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
45238566 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCCCAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CCCAACCCGG
*
45238628 ATATAGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
45238645 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
45238669 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACCCAACCCGGA
TATAGTAACTTAGCAC
Found at i:45238668 original size:40 final size:40
Alignment explanation
Indices: 45238465--45238668 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
45238455 CGGAATTTAA
** *
45238465 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45238505 CCGGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45238545 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
45238584 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCCCAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
45238624 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
45238664 CCGGA
1 CCGGA
45238669 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45245946 original size:46 final size:47
Alignment explanation
Indices: 45245766--45246040 Score: 202
Period size: 46 Copynumber: 5.7 Consensus size: 47
45245756 GGGTAGAATA
* * ** *
45245766 CCGATGCCATGTCCTAGACATGGTCTTACACTAAC-TATCATCATCGAGG
1 CCGATG-CATGTCCCAAACATGGTCTTACACTGGCTTAT-GTC-TCGAGG
* * * ** * ** *
45245815 CCGACGTCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTTATG
1 CCGATG-CATGTCCCAAACATGGTCTTACACTGGCT-T-ATGTCTCGAGG
* * * *
45245865 CTGATGCCATGTTCTAGACATGGTCTTACACTGGCTTATGTCTCGAGG
1 CCGATG-CATGTCCCAAACATGGTCTTACACTGGCTTATGTCTCGAGG
*
45245913 CCAATGCATGT-CCAAGACAT-GTCTTACACTGGCTTATGTCTCGAGG
1 CCGATGCATGTCCCAA-ACATGGTCTTACACTGGCTTATGTCTCGAGG
* * * *
45245959 CTGATGCATGTCCCAAACAT-GTCTTACACTAGCTCTCA--TCTCAATG
1 CCGATGCATGTCCCAAACATGGTCTTACACTGGCT-T-ATGTCTCGAGG
45246005 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 CCGATG-CATGTCCCAAACATGGTCTTACACTGGCT
45246041 CATAATAACC
Statistics
Matches: 185, Mismatches: 32, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
46 65 0.35
47 28 0.15
48 23 0.12
49 32 0.17
50 33 0.18
51 3 0.02
52 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CCGATGCATGTCCCAAACATGGTCTTACACTGGCTTATGTCTCGAGG
Found at i:45246034 original size:140 final size:145
Alignment explanation
Indices: 45245773--45246040 Score: 350
Period size: 140 Copynumber: 1.9 Consensus size: 145
45245763 ATACCGATGC
* *
45245773 CATGTCCTAGACATGGTCTTACACTAACTATCATCATCGAGGCCGACGTCATGTCCCAGACATGG
1 CATGTCCAAGACATGGTCTTACACTAACTATCATCATCGAGGCCGACGTCATGTCCCAAACATGG
** * * * *
45245838 TCTTACACTAGCTCTCACATATTTATGCTGATGCCATGTTCTAGACATGGTCTTACACTGGCTTA
66 TCTTACACTAGCTCT-ACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTA
45245903 TGTCTCGAGGCCAATG
130 TGTCTCGAGGCCAATG
** * * *
45245919 CATGTCCAAGACAT-GTCTTACACTGGCTTAT-GTC-TCGAGGCTGATG-CATGTCCCAAACAT-
1 CATGTCCAAGACATGGTCTTACACTAAC-TATCATCATCGAGGCCGACGTCATGTCCCAAACATG
*
45245979 GTCTTACACTAGCTCT-CATCTCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
65 GTCTTACACTAGCTCTACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
45246041 CATAATAACC
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
140 39 0.36
142 16 0.15
143 13 0.12
144 10 0.09
145 13 0.12
146 16 0.15
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (145 bp):
CATGTCCAAGACATGGTCTTACACTAACTATCATCATCGAGGCCGACGTCATGTCCCAAACATGG
TCTTACACTAGCTCTACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTAT
GTCTCGAGGCCAATG
Found at i:45254627 original size:50 final size:50
Alignment explanation
Indices: 45254542--45254675 Score: 141
Period size: 50 Copynumber: 2.7 Consensus size: 50
45254532 AAAGGGTAAA
* ** * * *
45254542 ATGTCGATGGCATGTCCCGGACATGGTCTTACACTGTCTCTTAT-AC-ATCG
1 ATGTC-ATGCCATGTCCCAAACATGGTCTTACACTGACACATATAACAAT-G
*
45254592 GTGTCAATGCCATGTCCCAAACATGGTCTTACACTGACACATATAACAATG
1 ATGTC-ATGCCATGTCCCAAACATGGTCTTACACTGACACATATAACAATG
*
45254643 ATG--ATGCCATGTTCCAAACATGGTCTTACACTG
1 ATGTCATGCCATGTCCCAAACATGGTCTTACACTG
45254676 GCTCACATGT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 29 0.40
50 36 0.50
51 5 0.07
52 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (50 bp):
ATGTCATGCCATGTCCCAAACATGGTCTTACACTGACACATATAACAATG
Found at i:45254696 original size:48 final size:48
Alignment explanation
Indices: 45254598--45254704 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 48
45254588 ATCGGTGTCA
* *
45254598 ATGCCATGTCCCAAACATGGTCTTACACTGACACATATAACAATGATG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACACACATAACAAGGATG
* * * ** * *
45254646 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACACACATAACAAGGATG
45254694 ATGCCATGTCC
1 ATGCCATGTCC
45254705 TTACTCTGGC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGACACACATAACAAGGATG
Found at i:45257085 original size:42 final size:41
Alignment explanation
Indices: 45256926--45257087 Score: 153
Period size: 42 Copynumber: 3.9 Consensus size: 41
45256916 ATACCAATGT
* * * **
45256926 CATATCCCAGATATGGTCTTACATGGGATCTCATATTGATGC
1 CATATCCCAGATATGGTCTTACA-CGAAACTCATAACGATGC
* * ** *
45256968 CAATAGCCCAGCTATGGTCTTACACGATTCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAACTCATAACGATGC
** * *
45257010 CAGGTCCCAGACATGGTCTTACACGAAATCTCATAACGATGG
1 CATATCCCAGATATGGTCTTACACGAAA-CTCATAACGATGC
*
45257052 CATATCCCAGATATGGTCTTACACTTAAACTCATAA
1 CATATCCCAGATATGGTCTTACAC-GAAACTCATAA
45257088 TCCTATTGCC
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 20 0.20
42 55 0.56
43 23 0.23
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACACGAAACTCATAACGATGC
Found at i:45257085 original size:84 final size:84
Alignment explanation
Indices: 45256930--45257086 Score: 190
Period size: 84 Copynumber: 1.9 Consensus size: 84
45256920 CAATGTCATA
* * ** ** *
45256930 TCCCAGATATGGTCTTACATGGGATCTCATATTGATGCCAATAGCCCAGCTATGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGAAATCTCATAACGATGCCAATAGCCCAGATATGGTCTTACACGA
**
45256995 TTCTCATATCGATGCCAGG
66 AACTCATATCGATGCCAGG
* * *
45257014 TCCCAGACATGGTCTTACACGAAATCTCATAACGATGGC-ATATCCCAGATATGGTCTTACACTT
1 TCCCAGACATGGTCTTACACGAAATCTCATAACGATGCCAATAGCCCAGATATGGTCTTACAC-G
45257078 AAACTCATA
65 AAACTCATA
45257087 ATCCTATTGC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
83 21 0.35
84 39 0.65
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (84 bp):
TCCCAGACATGGTCTTACACGAAATCTCATAACGATGCCAATAGCCCAGATATGGTCTTACACGA
AACTCATATCGATGCCAGG
Found at i:45259614 original size:20 final size:20
Alignment explanation
Indices: 45259565--45259616 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
45259555 ACAGGGGTCA
45259565 ACGCCTGTGTGGCTTAGGAC
1 ACGCCTGTGTGGCTTAGGAC
* * *
45259585 ATGCTTGTGTGGCTTGGGAC
1 ACGCCTGTGTGGCTTAGGAC
*
45259605 ACGCCCGTGTGG
1 ACGCCTGTGTGG
45259617 GCAGGCCGTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.12, C:0.23, G:0.38, T:0.27
Consensus pattern (20 bp):
ACGCCTGTGTGGCTTAGGAC
Found at i:45262408 original size:93 final size:93
Alignment explanation
Indices: 45262296--45262467 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
45262286 GCCCATAAGT
* *
45262296 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45262361 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
45262389 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45262454 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
45262468 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45262463 original size:46 final size:46
Alignment explanation
Indices: 45262288--45262463 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
45262278 TGTAACCCGC
* * *
45262288 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
45262334 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
45262384 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
45262427 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45262464 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:45264891 original size:30 final size:30
Alignment explanation
Indices: 45264847--45264935 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
45264837 CAAAGATAAC
45264847 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
45264876 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
45264906 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
45264936 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:45264895 original size:15 final size:15
Alignment explanation
Indices: 45264847--45264926 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
45264837 CAAAGATAAC
*
45264847 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
45264861 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
45264876 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
45264891 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
45264906 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
45264921 AAGAAA
1 AAGAAA
45264927 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:45264935 original size:15 final size:15
Alignment explanation
Indices: 45264858--45264935 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
45264848 AGAAAACCGA
45264858 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
45264873 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
45264887 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
45264902 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
45264918 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
45264933 ATA
1 ATA
45264936 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:45267999 original size:93 final size:93
Alignment explanation
Indices: 45267887--45268058 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
45267877 GCCCATAAGT
* *
45267887 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45267952 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
45267980 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45268045 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
45268059 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45268054 original size:46 final size:46
Alignment explanation
Indices: 45267879--45268054 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
45267869 TGTAACCCGC
* * *
45267879 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
45267925 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
45267975 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
45268018 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45268055 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:45270479 original size:30 final size:30
Alignment explanation
Indices: 45270435--45270523 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
45270425 CAAAGATAAC
45270435 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
45270464 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
45270494 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
45270524 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:45270483 original size:15 final size:15
Alignment explanation
Indices: 45270435--45270514 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
45270425 CAAAGATAAC
*
45270435 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
45270449 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
45270464 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
45270479 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
45270494 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
45270509 AAGAAA
1 AAGAAA
45270515 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:45270523 original size:15 final size:15
Alignment explanation
Indices: 45270446--45270523 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
45270436 AGAAAACCGA
45270446 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
45270461 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
45270475 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
45270490 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
45270506 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
45270521 ATA
1 ATA
45270524 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:45273511 original size:46 final size:46
Alignment explanation
Indices: 45273452--45273615 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 46
45273442 CCCCCCATAA
*
45273452 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGT
* ** * *
45273498 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGG--GCGT-TCGCATCCATAAGT
* *
45273544 GAACTCGGACTCAACTCAACGAGTTC-GACGCTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGT
45273589 GAACTC-GACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
45273616 ATGCCCAAAT
Statistics
Matches: 98, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
42 4 0.04
43 2 0.02
44 21 0.21
45 8 0.08
46 53 0.54
47 2 0.02
48 4 0.04
49 4 0.04
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGT
Found at i:45273617 original size:90 final size:92
Alignment explanation
Indices: 45273452--45273620 Score: 297
Period size: 90 Copynumber: 1.9 Consensus size: 92
45273442 CCCCCCATAA
* *
45273452 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45273517 CGAGTTCGGATGCCTATTACATCTCAC
66 CGAGTTCGGATGCCTATTACATCTCAC
*
45273544 GAACTCGGACTCAACTCAACGAGTTC-GACGCTCGCATCCATAAGTGAACTC-GACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45273607 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
45273621 CAAATATCCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
90 26 0.35
91 23 0.31
92 25 0.34
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTATTACATCTCAC
Found at i:45278093 original size:40 final size:39
Alignment explanation
Indices: 45277928--45278111 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
45277918 AAATTGAATG
* * *
45277928 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
45277968 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
45278008 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
45278048 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
45278087 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
45278112 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:45278136 original size:80 final size:81
Alignment explanation
Indices: 45277968--45278156 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
45277958 GCTGGAAATT
* * * *
45277968 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
45278033 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
45278049 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
45278112 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
45278128 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
45278157 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:45282361 original size:28 final size:29
Alignment explanation
Indices: 45282250--45282369 Score: 145
Period size: 29 Copynumber: 4.2 Consensus size: 29
45282240 GAAAGCATGT
* *
45282250 ATATGAATGTA-ATTTGGGCCTACTGGGTC
1 ATATGAATG-AGATTTGGGCCTAGTGGGCC
* * * *
45282279 GTATGAATGTGATTTGGGCCCAATGGGCC
1 ATATGAATGAGATTTGGGCCTAGTGGGCC
* *
45282308 ATACGAATGTGATTTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAGTGGGCC
45282337 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAGTGGGCC
45282365 ATATG
1 ATATG
45282370 CATATATGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 21 0.27
29 58 0.73
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAGTGGGCC
Done.