Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 105 of 208
Found at i:35059933 original size:17 final size:17
Alignment explanation
Indices: 35059911--35059945 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35059901 GATATTTATG
* *
35059911 TATATTTTTTTATTTTA
1 TATATTTATTTATCTTA
35059928 TATATTTATTTATCTTA
1 TATATTTATTTATCTTA
35059945 T
1 T
35059946 TTTAGTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TATATTTATTTATCTTA
Found at i:35059948 original size:27 final size:27
Alignment explanation
Indices: 35059890--35059949 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
35059880 TATGGGAGTA
35059890 ATTTTATTTTAGATATTTATGTATATT
1 ATTTTATTTTAGATATTTATGTATATT
* * * *
35059917 TTTTTATTTTATATATTTATTTATCTT
1 ATTTTATTTTAGATATTTATGTATATT
35059944 ATTTTA
1 ATTTTA
35059950 GTTAATGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (27 bp):
ATTTTATTTTAGATATTTATGTATATT
Found at i:35064553 original size:96 final size:95
Alignment explanation
Indices: 35064378--35064562 Score: 273
Period size: 96 Copynumber: 1.9 Consensus size: 95
35064368 AAATTCTTTT
*
35064378 TTTTTTCAATCTTCTTTGTTGTTCTCCTCTTTCTCTCTTCCCTCTAGTTGTAGGCACCGTTGTGT
1 TTTTTTCAATCTTCTTTGTTGTTCTCCTCTTTCTCTCTTCCCTCTAGTTGTAGGCACCATTGTGT
*
35064443 CCAACCATCGATCGATCAGATTTTTTTTCA
66 CCAACCATCGATCGATCAAATTTTTTTTCA
* * * * * *
35064473 TTTTTTCCATC-TCTTTTGTTTTTCTCCTCTTTCTCTCTTCCCCTCTATTTGTTGTCGCCATTGT
1 TTTTTTCAATCTTC-TTTGTTGTTCTCCTCTTTCTCTCTT-CCCTCTAGTTGTAGGCACCATTGT
35064537 GTCCAACCATCGATCGATCAAATTTT
64 GTCCAACCATCGATCGATCAAATTTT
35064563 CACATCGACT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
94 2 0.03
95 34 0.43
96 44 0.55
ACGTcount: A:0.13, C:0.28, G:0.11, T:0.49
Consensus pattern (95 bp):
TTTTTTCAATCTTCTTTGTTGTTCTCCTCTTTCTCTCTTCCCTCTAGTTGTAGGCACCATTGTGT
CCAACCATCGATCGATCAAATTTTTTTTCA
Found at i:35064589 original size:96 final size:94
Alignment explanation
Indices: 35064394--35064589 Score: 207
Period size: 96 Copynumber: 2.1 Consensus size: 94
35064384 CAATCTTCTT
* *
35064394 TGTTGTTCTCCTCTTTCTCTCTTCCCTCTAGTTGTAGGCACCGTTGTGTCCAACCATCGATCGAT
1 TGTTTTTCTCCTCTTTCTCTCTTCCCTCTAGTTGTAGGCACCATTGTGTCCAACCATCGATCGAT
* *** * * **
35064459 CAGATTTTTTTTCATTTTTTCCATCTCTTT
66 CAAATTTTACATCATTATTT-CATCTATAG
* * * *
35064489 TGTTTTTCTCCTCTTTCTCTCTTCCCCTCTATTTGTTGTCGCCATTGTGTCCAACCATCGATCGA
1 TGTTTTTCTCCTCTTTCTCTCTT-CCCTCTAGTTGTAGGCACCATTGTGTCCAACCATCGATCGA
35064554 TCAAATTTTCACATCGACTTATTT-AT-TATAG
65 TCAAATTTT-ACATC-A-TTATTTCATCTATAG
35064585 TGTTT
1 TGTTT
35064590 GAGAGAGAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
95 22 0.27
96 51 0.61
97 4 0.05
98 1 0.01
99 5 0.06
ACGTcount: A:0.15, C:0.27, G:0.12, T:0.47
Consensus pattern (94 bp):
TGTTTTTCTCCTCTTTCTCTCTTCCCTCTAGTTGTAGGCACCATTGTGTCCAACCATCGATCGAT
CAAATTTTACATCATTATTTCATCTATAG
Found at i:35065051 original size:3 final size:3
Alignment explanation
Indices: 35065045--35065090 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
35065035 TGATGGTGAT
* *
35065045 GAG GAG GAG GAG GAG GAA GAG GAG GAG GAG GAG GAG AAG GATG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA-G GAG
35065091 ATGGAGAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.61, T:0.02
Consensus pattern (3 bp):
GAG
Found at i:35067756 original size:16 final size:16
Alignment explanation
Indices: 35067737--35067777 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
35067727 AAACTTAAGG
35067737 TGATTTGAACTAGAAA
1 TGATTTGAACTAGAAA
* * *
35067753 TGATTAGGACTCGAAA
1 TGATTTGAACTAGAAA
35067769 TGATTTGAA
1 TGATTTGAA
35067778 TAAATAATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (16 bp):
TGATTTGAACTAGAAA
Found at i:35070981 original size:16 final size:16
Alignment explanation
Indices: 35070960--35071013 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
35070950 TTTGGTTCAC
35070960 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
**
35070976 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAGG
35070992 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
35071008 CGTAAT
1 TGTAAT
35071014 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.39, C:0.04, G:0.31, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:35071058 original size:45 final size:44
Alignment explanation
Indices: 35070995--35071087 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
35070985 ATAGAACTGT
** *
35070995 AATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAATGA
1 AATGGAATAGAAACGTAATACT-ATTC-ATGTGTTTGGTTGAATGA
* * *
35071040 AATGGAATAGAAATGTAATACTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAAACGTAATACTATTCATGTGTTTGGTTGAATGA
35071084 AATG
1 AATG
35071088 ATGTTGTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.54
45 18 0.44
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAAACGTAATACTATTCATGTGTTTGGTTGAATGA
Found at i:35071309 original size:59 final size:59
Alignment explanation
Indices: 35071245--35071429 Score: 200
Period size: 59 Copynumber: 3.1 Consensus size: 59
35071235 ATTATTATTA
*
35071245 AATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATAATTTAATAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCAT
* * * * * *
35071304 AATAT-ATAATAATATAAAAT-ATAATATAAAATAATTATTATTAAATATAATTTAATAAAA--A
1 AATATAAT-TTAATA-AAATTCTTAATATTAAAT-ATTATTA-T--AT-GAATTTACTAAAATCA
35071365 T
59 T
*
35071366 -ATATAATTTAATAAAATTCTTAATATTAAATATTTTTATATGAATTTACTAAAATCAT
1 AATATAATTTAATAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCAT
35071424 AATATA
1 AATATA
35071430 TAATACTAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 24
0.72 0.10 0.17
Matches are distributed among these distances:
56 11 0.11
57 2 0.02
58 4 0.04
59 26 0.26
60 20 0.20
61 20 0.20
62 4 0.04
63 2 0.02
64 11 0.11
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (59 bp):
AATATAATTTAATAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCAT
Found at i:35071311 original size:61 final size:61
Alignment explanation
Indices: 35071246--35071433 Score: 222
Period size: 61 Copynumber: 3.1 Consensus size: 61
35071236 TTATTATTAA
*
35071246 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCATAAT
* * * * * * ** * *
35071307 ATATAA--TAATATAAAAT-ATAATATAAAATAATTATTAT-TAAATATAATTTAATAAAAAT
1 ATATAATTTAATA-AAATTCTTAATATTAAAT-ATTATTATATGAATTTACTAAAATCATAAT
*
35071366 ATATAATTTAATAAAATTCTTAATATTAAATATTTTTATATGAATTTACTAAAATCATAAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCATAAT
35071427 ATATAAT
1 ATATAAT
35071434 ACTAAAATCA
Statistics
Matches: 99, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
59 35 0.35
60 22 0.22
61 42 0.42
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (61 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCATAAT
Found at i:35071327 original size:22 final size:23
Alignment explanation
Indices: 35071295--35071338 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
35071285 ATGAATTTAC
*
35071295 TAAAATCATAATATATAATAATA
1 TAAAATCATAATATAAAATAATA
35071318 TAAAAT-ATAATATAAAATAAT
1 TAAAATCATAATATAAAATAAT
35071339 TATTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAAATCATAATATAAAATAATA
Found at i:35071456 original size:23 final size:21
Alignment explanation
Indices: 35071412--35071452 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
35071402 TATATGAATT
35071412 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
35071433 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
35071453 TAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:35071469 original size:59 final size:58
Alignment explanation
Indices: 35071286--35071469 Score: 144
Period size: 59 Copynumber: 3.1 Consensus size: 58
35071276 TATTCTTATA
* *
35071286 TGAATTTACTAAAATCATAATATATAATAATATAAAAT-ATAATATAAAATAA-TTATTAT
1 TGAATTTACTAAAATCATAATATATAAT-A-ATAAAATCATAATAT-ATATAATTTATTTT
* * * ** * * *
35071345 TAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT-TA-AATATT-TTTAT
1 TGAATTTACTAAAATCATAATATATAA--TAATAAAA-TCATAATATATATAAT-TTATTT-T
*
35071405 ATGAATTTACTAAAATCATAATATATAATACTAAAATCATAATATATATAATTTAATTTT
1 -TGAATTTACTAAAATCATAATATATAATAATAAAATCATAATATATATAATTT-ATTTT
35071465 TGAAT
1 TGAAT
35071470 GAATGCAAAT
Statistics
Matches: 94, Mismatches: 19, Indels: 24
0.69 0.14 0.18
Matches are distributed among these distances:
58 10 0.11
59 45 0.48
60 9 0.10
61 30 0.32
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (58 bp):
TGAATTTACTAAAATCATAATATATAATAATAAAATCATAATATATATAATTTATTTT
Found at i:35073477 original size:34 final size:34
Alignment explanation
Indices: 35073438--35073506 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
35073428 ATCACAAACT
35073438 TTAGACAGTAATCAAAATACCATGATCAAATATA
1 TTAGACAGTAATCAAAATACCATGATCAAATATA
*
35073472 TTAGACAGTAATTAAAATACCATGATCAAATATA
1 TTAGACAGTAATCAAAATACCATGATCAAATATA
35073506 T
1 T
35073507 CTTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (34 bp):
TTAGACAGTAATCAAAATACCATGATCAAATATA
Found at i:35077065 original size:67 final size:67
Alignment explanation
Indices: 35076935--35077065 Score: 156
Period size: 67 Copynumber: 2.0 Consensus size: 67
35076925 AGAGGTTTAA
* * * *
35076935 AGGTGTAAAACCATAGCTCGGCTATGGCAACCAATAGAATCTACCAGGACATTGAACATGGGGTT
1 AGGTGTAAAACCATAGCTCGACTATGGCAACCAATAGAATCTACCAGGACAATAAACACGGGGTT
35077000 AT
66 AT
* * * * * *
35077002 AGGTGTAAGATCATAGCTCGACTATGGTAACCAATGGAGTCTA-CAGGGACAATAAATACGGGGT
1 AGGTGTAAAACCATAGCTCGACTATGGCAACCAATAGAATCTACCA-GGACAATAAACACGGGGT
35077066 AGTTCATCAG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 2 0.04
67 51 0.96
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (67 bp):
AGGTGTAAAACCATAGCTCGACTATGGCAACCAATAGAATCTACCAGGACAATAAACACGGGGTT
AT
Found at i:35079622 original size:16 final size:16
Alignment explanation
Indices: 35079601--35079635 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
35079591 ACAAAAAGAA
35079601 TTTTTTGCAGTTTACT
1 TTTTTTGCAGTTTACT
35079617 TTTTTTGCAGTTTACT
1 TTTTTTGCAGTTTACT
35079633 TTT
1 TTT
35079636 CTTAGCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.66
Consensus pattern (16 bp):
TTTTTTGCAGTTTACT
Found at i:35087355 original size:27 final size:27
Alignment explanation
Indices: 35087310--35087613 Score: 233
Period size: 27 Copynumber: 11.3 Consensus size: 27
35087300 CAGAACATGC
* * *
35087310 CACAAAAGCAATCCATTCA-AGATACGA
1 CACAAAGGCATTCCTTTCAGAG-TACGA
* * *
35087337 CACAAATGCATTCCTTTCAGAGTAAGC
1 CACAAAGGCATTCCTTTCAGAGTACGA
* * * *
35087364 CAC-AA-GCATTTCTTTTAGAGTATGC
1 CACAAAGGCATTCCTTTCAGAGTACGA
35087389 CACAAAGGCATTCCTTTCAGAGTAC-A
1 CACAAAGGCATTCCTTTCAGAGTACGA
*
35087415 CTACAAAGGCATTCCTTTTAGAGTAC-A
1 C-ACAAAGGCATTCCTTTCAGAGTACGA
* *
35087442 CTACAAAGGCATTCCTTTCAGAGTATGT
1 C-ACAAAGGCATTCCTTTCAGAGTACGA
* * * *
35087470 CACAAAGGCATTCTTTTCAGAATATGC
1 CACAAAGGCATTCCTTTCAGAGTACGA
* * * *
35087497 CATAAATGCATTCCTGTCAGAGTACGC
1 CACAAAGGCATTCCTTTCAGAGTACGA
* ** *
35087524 CATAAAGTTATTCCTTTTAGAGTAC-A
1 CACAAAGGCATTCCTTTCAGAGTACGA
* * *
35087550 CCAAAAAGGCATTTCTTTCAGAGTACGC
1 -CACAAAGGCATTCCTTTCAGAGTACGA
** * * *
35087578 CACAAAGGCATTTATTTCAAAGTATGC
1 CACAAAGGCATTCCTTTCAGAGTACGA
35087605 CACAAAGGC
1 CACAAAGGC
35087614 TAACACGATG
Statistics
Matches: 229, Mismatches: 41, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
25 20 0.09
26 5 0.02
27 201 0.88
28 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (27 bp):
CACAAAGGCATTCCTTTCAGAGTACGA
Found at i:35087477 original size:81 final size:81
Alignment explanation
Indices: 35087306--35087613 Score: 291
Period size: 81 Copynumber: 3.8 Consensus size: 81
35087296 CATACAGAAC
* * * * *
35087306 ATGCCACAAAAGCAATCCATTCA-AGATACGACACAAATGCATTCCTTTCAGAGTA-AGCCAC-A
1 ATGCCACAAAGGCATTCCTTTCAGAG-TACGCCACAAAGGCATTCCTTTCAGAGTACA-CCACAA
*
35087368 A-GCATTTCTTTTAGAGT
64 AGGCATTCCTTTTAGAGT
* * * *
35087385 ATGCCACAAAGGCATTCCTTTCAGAGTACACTACAAAGGCATTCCTTTTAGAGTACACTACAAAG
1 ATGCCACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTCCTTTCAGAGTACACCACAAAG
*
35087450 GCATTCCTTTCAGAGT
66 GCATTCCTTTTAGAGT
* * * * * * * * *
35087466 ATGTCACAAAGGCATTCTTTTCAGAATATGCCATAAATGCATTCCTGTCAGAGTACGCCATAAAG
1 ATGCCACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTCCTTTCAGAGTACACCACAAAG
**
35087531 TTATTCCTTTTAGAGT
66 GCATTCCTTTTAGAGT
** * * ** * **
35087547 ACACCAAAAAGGCATTTCTTTCAGAGTACGCCACAAAGGCATTTATTTCAAAGTATGCCACAAAG
1 ATGCCACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTCCTTTCAGAGTACACCACAAAG
35087612 GC
66 GC
35087614 TAACACGATG
Statistics
Matches: 180, Mismatches: 45, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
79 47 0.26
80 5 0.03
81 128 0.71
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (81 bp):
ATGCCACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTCCTTTCAGAGTACACCACAAAG
GCATTCCTTTTAGAGT
Found at i:35087612 original size:54 final size:54
Alignment explanation
Indices: 35087337--35087613 Score: 299
Period size: 54 Copynumber: 5.2 Consensus size: 54
35087327 CAAGATACGA
* *
35087337 CACAAATGCATTCCTTTCAGAGTAAGCCAC-AA-GCATTTCTTTTAGAGTATGC
1 CACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTTCTTTTAGAGTATGC
* * * **
35087389 CACAAAGGCATTCCTTTCAGAGTACACTACAAAGGCATTCCTTTTAGAGTACAC
1 CACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTTCTTTTAGAGTATGC
* * * *
35087443 TACAAAGGCATTCCTTTCAGAGTATGTCACAAAGGCA-TTCTTTTCAGAATATGC
1 CACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTTCTTTT-AGAGTATGC
* * * * ** * **
35087497 CATAAATGCATTCCTGTCAGAGTACGCCATAAAGTTATTCCTTTTAGAGTACAC
1 CACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTTCTTTTAGAGTATGC
* * * * *
35087551 CAAAAAGGCATTTCTTTCAGAGTACGCCACAAAGGCATTTATTTCAAAGTATGC
1 CACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTTCTTTTAGAGTATGC
35087605 CACAAAGGC
1 CACAAAGGC
35087614 TAACACGATG
Statistics
Matches: 178, Mismatches: 43, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
52 26 0.15
53 8 0.04
54 138 0.78
55 6 0.03
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (54 bp):
CACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTTCTTTTAGAGTATGC
Found at i:35091355 original size:35 final size:36
Alignment explanation
Indices: 35091307--35091381 Score: 134
Period size: 35 Copynumber: 2.1 Consensus size: 36
35091297 GTTCTATGAC
*
35091307 TATATTTTTTAAACACTATTTCTATGAATCAATCCA
1 TATATTTTTTAAACACTATTTCCATGAATCAATCCA
35091343 TATA-TTTTTAAACACTATTTCCATGAATCAATCCA
1 TATATTTTTTAAACACTATTTCCATGAATCAATCCA
35091378 TATA
1 TATA
35091382 ATTTAGTACT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 34 0.89
36 4 0.11
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATTTTTTAAACACTATTTCCATGAATCAATCCA
Found at i:35098219 original size:27 final size:27
Alignment explanation
Indices: 35098200--35098424 Score: 310
Period size: 27 Copynumber: 8.4 Consensus size: 27
35098190 GGGTATAAAA
35098200 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
35098227 ATCATTTTATCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
35098254 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
35098281 GTCATTTTACCTTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
35098308 GTCATTTTACCTTATGGGGGTGTTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
35098335 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
35098362 ATCATTTTACCCTAT-GGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
35098388 ATTATTTTACCCT-TAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
35098414 GTCATTTTACC
1 GTCATTTTACC
35098425 TATTTTAGGG
Statistics
Matches: 176, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
25 1 0.01
26 40 0.23
27 135 0.77
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:35105536 original size:19 final size:21
Alignment explanation
Indices: 35105509--35105551 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
35105499 ATTATAATAT
*
35105509 ATTTATTTTA-AAAAGTTATA
1 ATTTATTTTATAAAAGCTATA
*
35105529 ATTT-TTTTATAAATGCTATA
1 ATTTATTTTATAAAAGCTATA
35105549 ATT
1 ATT
35105552 ATAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTTATTTTATAAAAGCTATA
Found at i:35105555 original size:15 final size:16
Alignment explanation
Indices: 35105535--35105572 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
35105525 TATAATTTTT
*
35105535 TTATAAATGCTATA-A
1 TTATAAATGATATATA
*
35105550 TTATAAATTATATATA
1 TTATAAATGATATATA
35105566 TTATAAA
1 TTATAAA
35105573 ATTATTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
TTATAAATGATATATA
Found at i:35105574 original size:17 final size:15
Alignment explanation
Indices: 35105535--35105577 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
35105525 TATAATTTTT
**
35105535 TTATAAATGCTATAA
1 TTATAAATTATATAA
35105550 TTATAAATTATATATA
1 TTATAAATTATATA-A
35105566 TTATAAAATTAT
1 TTAT-AAATTAT
35105578 TTCTTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.50
16 5 0.21
17 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
TTATAAATTATATAA
Found at i:35110823 original size:44 final size:44
Alignment explanation
Indices: 35110758--35110844 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
35110748 TATGTTTTTA
* * *
35110758 GTTTCTCACTTAAACTCTGATTAGTATAAGTTGTTTTAATATTG
1 GTTTCCCACTTAAACTATGATTAGTATAAGTTATTTTAATATTG
* *
35110802 GTTTCCCACTTAAACTATGATTAGTGTAGGTTATTTTAATATT
1 GTTTCCCACTTAAACTATGATTAGTATAAGTTATTTTAATATT
35110845 ATTTGACCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (44 bp):
GTTTCCCACTTAAACTATGATTAGTATAAGTTATTTTAATATTG
Found at i:35111302 original size:29 final size:29
Alignment explanation
Indices: 35111270--35111326 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
35111260 TATTATAATC
*
35111270 TAATGGTTAAAAATATTTTAATTCTCATG
1 TAATGATTAAAAATATTTTAATTCTCATG
* * *
35111299 TAATGATTGAGAATATTTTAATTTTCAT
1 TAATGATTAAAAATATTTTAATTCTCAT
35111327 AATTCTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (29 bp):
TAATGATTAAAAATATTTTAATTCTCATG
Found at i:35132962 original size:21 final size:21
Alignment explanation
Indices: 35132921--35132963 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
35132911 AATAAAGTAG
*
35132921 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
35132942 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
35132963 A
1 A
35132964 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:35133106 original size:58 final size:57
Alignment explanation
Indices: 35132956--35133108 Score: 159
Period size: 58 Copynumber: 2.7 Consensus size: 57
35132946 TATATTATGA
* * * **
35132956 TTTTAGTAAATTCATA--TAATAATAAATATATTAAGAATTTTATTAAATTATATACTT
1 TTTTATTAAA-TCATATTTAATAATAATTATATTAA-AATATGGTTAAATTATATACTT
* * *
35133013 TTTTATTAAATCATATTTAATAATAATTATGTTAAAATATGGTTAAATTATTTATTAT
1 TTTTATTAAATCATATTTAATAATAATTATATTAAAATATGGTTAAATTATATACT-T
* *
35133071 TTTTATTAAATTATTTTTAATAATAATCT-TATTAAAAT
1 TTTTATTAAATCATATTTAATAATAAT-TATATTAAAAT
35133109 TTAATAACAA
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
56 5 0.06
57 25 0.31
58 50 0.62
59 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (57 bp):
TTTTATTAAATCATATTTAATAATAATTATATTAAAATATGGTTAAATTATATACTT
Found at i:35133296 original size:16 final size:16
Alignment explanation
Indices: 35133275--35133345 Score: 83
Period size: 16 Copynumber: 4.4 Consensus size: 16
35133265 TTGATTACTG
*
35133275 ATTACAGCTTTATT-A
1 ATTACAGCTCTATTCA
35133290 CATTACAGCTCTATTCA
1 -ATTACAGCTCTATTCA
*
35133307 ATTACAGTTCTATTTC-
1 ATTACAGCTCTA-TTCA
*
35133323 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCA
35133339 ATTACAG
1 ATTACAG
35133346 TGAACCAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
15 3 0.06
16 42 0.86
17 4 0.08
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:35133326 original size:32 final size:31
Alignment explanation
Indices: 35133275--35133346 Score: 108
Period size: 32 Copynumber: 2.3 Consensus size: 31
35133265 TTGATTACTG
35133275 ATTACAGCTTTATTACATTACAGCTCTATTCA
1 ATTACAG-TTTATTACATTACAGCTCTATTCA
* *
35133307 ATTACAGTTCTATTTCATTACAGCTCTATTCT
1 ATTACAGTT-TATTACATTACAGCTCTATTCA
35133339 ATTACAGT
1 ATTACAGT
35133347 GAACCAAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 2 0.05
32 35 0.95
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (31 bp):
ATTACAGTTTATTACATTACAGCTCTATTCA
Found at i:35133832 original size:19 final size:19
Alignment explanation
Indices: 35133808--35133846 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
35133798 GGAAAATAAA
35133808 AAAGAAATAAC-TAATTTGG
1 AAAGAAA-AACATAATTTGG
35133827 AAAGAAAAACATTAATTTGG
1 AAAGAAAAACA-TAATTTGG
35133847 TGTTTGGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 7 0.39
20 8 0.44
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (19 bp):
AAAGAAAAACATAATTTGG
Found at i:35134147 original size:10 final size:8
Alignment explanation
Indices: 35134127--35134160 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
35134117 TTTTAATATT
35134127 TTATTTAA
1 TTATTTAA
35134135 TTATTCCTAA
1 TTATT--TAA
35134145 TTATTTAA
1 TTATTTAA
35134153 TTATTTAA
1 TTATTTAA
35134161 CTTAATTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATTTAA
Found at i:35134148 original size:31 final size:31
Alignment explanation
Indices: 35134110--35134168 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
35134100 ATTTTTAATT
* *
35134110 CTAATTATTTTAA-TATTTTATTTAATTATTC
1 CTAATTA-TTTAATTATTTAACTTAATTATTC
35134141 CTAATTATTTAATTATTTAACTTAATTA
1 CTAATTATTTAATTATTTAACTTAATTA
35134169 AGGCTTCTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (31 bp):
CTAATTATTTAATTATTTAACTTAATTATTC
Found at i:35136718 original size:23 final size:21
Alignment explanation
Indices: 35136671--35136725 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
35136661 GTAACTCGGT
*
35136671 CACACGGGCGTGTGTCTCCTC
1 CACACGAGCGTGTGTCTCCTC
* *
35136692 CACACGAGCGTGTGTGTCCTG
1 CACACGAGCGTGTGTCTCCTC
*
35136713 CACACAAGCGTGT
1 CACACGAGCGTGT
35136726 AGACCACCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.33, G:0.29, T:0.22
Consensus pattern (21 bp):
CACACGAGCGTGTGTCTCCTC
Found at i:35142927 original size:30 final size:31
Alignment explanation
Indices: 35142891--35142964 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
35142881 TTATTTTTTA
35142891 TTTTTTATTTTAAAATATTTTTAAAAT-ACT
1 TTTTTTATTTTAAAATATTTTTAAAATAACT
** * *
35142921 TTTTTTATTATTTTATTATTTTTAAAATAAATT
1 TTTTTTATT-TTAAAATATTTTTAAAAT-AACT
35142954 TTTTTTATTTT
1 TTTTTTATTTT
35142965 TTTATTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 9 0.24
31 15 0.41
32 2 0.05
33 11 0.30
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (31 bp):
TTTTTTATTTTAAAATATTTTTAAAATAACT
Found at i:35142957 original size:33 final size:32
Alignment explanation
Indices: 35142906--35142982 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 32
35142896 TATTTTAAAA
35142906 TATTTTTAAAAT-ACTTTTTTTATTATTTTAT
1 TATTTTTAAAATAACTTTTTTTATTATTTTAT
* *
35142937 TATTTTTAAAATAAATTTTTTTTATTTTTTTAT
1 TATTTTTAAAAT-AACTTTTTTTATTATTTTAT
*
35142970 TATTTTAAAAATA
1 TATTTTTAAAATA
35142983 TTTCGGGCCG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
31 12 0.29
32 1 0.02
33 28 0.68
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (32 bp):
TATTTTTAAAATAACTTTTTTTATTATTTTAT
Found at i:35143286 original size:19 final size:19
Alignment explanation
Indices: 35143263--35143302 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
35143253 AATTACTTTT
35143263 ATTTTTA-AAAAAAATTGA
1 ATTTTTACAAAAAAATTGA
35143281 ATTTTTACAAAAAAATTGA
1 ATTTTTACAAAAAAATTGA
35143300 ATT
1 ATT
35143303 ATTCAGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (19 bp):
ATTTTTACAAAAAAATTGA
Found at i:35145356 original size:17 final size:18
Alignment explanation
Indices: 35145330--35145363 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35145320 AAATTTGAAA
35145330 ATAAAAAAATAA-AAATC
1 ATAAAAAAATAAGAAATC
*
35145347 ATAAATAAATAAGAAAT
1 ATAAAAAAATAAGAAAT
35145364 AGAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAAAAAATAAGAAATC
Found at i:35146673 original size:22 final size:22
Alignment explanation
Indices: 35146645--35146691 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
35146635 AGAGCTCAAA
35146645 TGACGAATAGCCAGTTGTAGAG
1 TGACGAATAGCCAGTTGTAGAG
35146667 TGACGAATAGCCAGTTGTAGAG
1 TGACGAATAGCCAGTTGTAGAG
35146689 TGA
1 TGA
35146692 ATAGATCGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (22 bp):
TGACGAATAGCCAGTTGTAGAG
Found at i:35148259 original size:50 final size:50
Alignment explanation
Indices: 35148201--35148394 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 50
35148191 CATTGAGGTT
* * *
35148201 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
* ** * *
35148251 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
* * *
35148301 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * * * *
35148350 AAGAAAAATCCCATGTAAGACTATGTCTGGGACATGGCTTTGGCA
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35148395 TGTTATTATC
Statistics
Matches: 123, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 39 0.32
50 83 0.67
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:35151787 original size:23 final size:22
Alignment explanation
Indices: 35151727--35151791 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
35151717 CTTGATCAAT
*
35151727 ATACGACACATAAGTGCCT-GA
1 ATACGACACATAAGTGCCTAAA
* *
35151748 A-ACGACACACGAGGTGCCTAAA
1 ATACGACACA-TAAGTGCCTAAA
35151770 ATACGACACATAAAGTGCCTAA
1 ATACGACACAT-AAGTGCCTAA
35151792 TCGGTAGAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 8 0.23
21 8 0.23
22 2 0.06
23 17 0.49
ACGTcount: A:0.42, C:0.25, G:0.18, T:0.15
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTAAA
Found at i:35153279 original size:25 final size:24
Alignment explanation
Indices: 35153212--35153279 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
35153202 ATGAAAATGT
*
35153212 TATTGTATAAATAAAATTA-CAAA
1 TATTGTAAAAATAAAATTATCAAA
* * * *
35153235 TA-TATAAAAATGGAATTTATGAATA
1 TATTGTAAAAAT-AAAATTATCAA-A
35153260 TATTGTAAAAATAAAATTAT
1 TATTGTAAAAATAAAATTAT
35153280 AAAAATGTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 7 0.21
23 7 0.21
24 2 0.06
25 9 0.27
26 8 0.24
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (24 bp):
TATTGTAAAAATAAAATTATCAAA
Found at i:35153443 original size:12 final size:12
Alignment explanation
Indices: 35153427--35153462 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
35153417 AATAACATCT
35153427 ATAATAATAGTA
1 ATAATAATAGTA
*
35153439 GTAATAATAGTA
1 ATAATAATAGTA
35153451 ATAATAATAGTA
1 ATAATAATAGTA
35153463 TTATAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:35153477 original size:24 final size:24
Alignment explanation
Indices: 35153427--35153483 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
35153417 AATAACATCT
**
35153427 ATAATAATAGTAGTAATAATAGTA
1 ATAATAATAGTAGTAATAATAAAA
*
35153451 ATAATAATAGTA-TTATAACTAAAA
1 ATAATAATAGTAGTAATAA-TAAAA
*
35153475 ATAAGAATA
1 ATAATAATA
35153484 AAAAAAGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (24 bp):
ATAATAATAGTAGTAATAATAAAA
Found at i:35154118 original size:18 final size:18
Alignment explanation
Indices: 35154092--35154131 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35154082 ATGAAAAGAG
35154092 AAAAGAAAACAAAAGAAA
1 AAAAGAAAACAAAAGAAA
* * *
35154110 AAAATAAAATAAAATAAA
1 AAAAGAAAACAAAAGAAA
35154128 AAAA
1 AAAA
35154132 CATGAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.85, C:0.03, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAAGAAAACAAAAGAAA
Found at i:35154342 original size:17 final size:17
Alignment explanation
Indices: 35154312--35154344 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35154302 TTTCCTTTTT
35154312 CTATTGCCTTTTGTTTG
1 CTATTGCCTTTTGTTTG
35154329 CTATT-CCTTCTTGTTT
1 CTATTGCCTT-TTGTTT
35154345 TTTCCCTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.06, C:0.21, G:0.12, T:0.61
Consensus pattern (17 bp):
CTATTGCCTTTTGTTTG
Found at i:35155117 original size:44 final size:43
Alignment explanation
Indices: 35155021--35155288 Score: 191
Period size: 44 Copynumber: 6.2 Consensus size: 43
35155011 ACTTGATGCG
* * *
35155021 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTACTTCA
* * * *
35155065 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-TACTTCA
* * *
35155109 ATCTGCTCCACTGCAACCTCAAGGAGATAAGATT-TGCTTCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT--TACTTCA
* * ** * * * * *
35155153 GTCTGCCCCACTGTGACTTCAGGGGGATAAGACT-TGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTACTTCA
** * * * *
35155194 ATCCACTCTACTGCAACGTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTACTTCA
* * * * *
35155238 ATCCGCTCCACTACAACTTCAGGGAAATAGGATTATAAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTA-CTTCA
35155282 ATCTGCT
1 ATCTGCT
35155289 TCCTTACACT
Statistics
Matches: 167, Mismatches: 51, Indels: 12
0.73 0.22 0.05
Matches are distributed among these distances:
41 24 0.14
42 1 0.01
43 10 0.06
44 132 0.79
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTACTTCA
Found at i:35155396 original size:128 final size:128
Alignment explanation
Indices: 35155276--35155787 Score: 808
Period size: 128 Copynumber: 4.0 Consensus size: 128
35155266 AGGATTATAA
* *
35155276 GCTTCAATCTGCTTCCTTACACTTGAAGATAAGATTCACCATCTTCAATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCT
*
35155341 TAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
66 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
* *** * ***
35155404 GCTTAAATCTGCTTCTTTACACTTGAAGATAAGATTTTTCGTCTTCAATCTGCTCTATTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCT
*
35155469 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTACTGGTCAGGGACATAGGACTTGTG
66 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
* * * *
35155532 GTTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGGTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCT
* *
35155597 TAGGGAGACAAGATCTACAGTTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
66 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
* * * *
35155660 GCTTAAATCTGCTTCTTTACACTTGAAGATAAGATTTGCCATCTTCGATCTGCTTCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCT
* *
35155725 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGCCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
35155788 ATTTCACCGA
Statistics
Matches: 350, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
128 350 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (128 bp):
GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCT
TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
Found at i:35156967 original size:7 final size:7
Alignment explanation
Indices: 35156952--35156992 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
35156942 CCGTCATTAC
35156952 TTTTCAT
1 TTTTCAT
*
35156959 TTTTTAT
1 TTTTCAT
35156966 TTTTCA-
1 TTTTCAT
35156972 TTTTCAT
1 TTTTCAT
*
35156979 TTTTAAT
1 TTTTCAT
35156986 TTTTCAT
1 TTTTCAT
35156993 CCCCCCCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCAT
Found at i:35156977 original size:20 final size:20
Alignment explanation
Indices: 35156952--35156992 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
35156942 CCGTCATTAC
*
35156952 TTTTCATTTTTTATTTTTCA
1 TTTTCATTTTTAATTTTTCA
35156972 TTTTCATTTTTAATTTTTCA
1 TTTTCATTTTTAATTTTTCA
35156992 T
1 T
35156993 CCCCCCCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCATTTTTAATTTTTCA
Found at i:35157890 original size:29 final size:29
Alignment explanation
Indices: 35157856--35157920 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
35157846 CTTTTTTCTC
35157856 TTTTTC-ATATTTTTATTTTGACTTTAAT
1 TTTTTCTATATTTTTATTTTGACTTTAAT
* * * *
35157884 TTATTTCTCTTTTTTTCTTTTGACTTTGAT
1 TT-TTTCTATATTTTTATTTTGACTTTAAT
35157914 TTTTTCT
1 TTTTTCT
35157921 TTTTTTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 2 0.06
29 9 0.29
30 20 0.65
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.71
Consensus pattern (29 bp):
TTTTTCTATATTTTTATTTTGACTTTAAT
Found at i:35157926 original size:22 final size:21
Alignment explanation
Indices: 35157893--35157938 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
35157883 TTTATTTCTC
35157893 TTTTTTTCTTTTGACTTTGAT
1 TTTTTTTCTTTTGACTTTGAT
* **
35157914 TTTTTCTTTTTTTGTTTTTGAT
1 TTTTT-TTCTTTTGACTTTGAT
35157936 TTT
1 TTT
35157939 GATTTTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.78
Consensus pattern (21 bp):
TTTTTTTCTTTTGACTTTGAT
Found at i:35157931 original size:6 final size:6
Alignment explanation
Indices: 35157923--35157955 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
35157913 TTTTTTCTTT
*
35157923 TTTTGT TTTTGA TTTTGA TTTTGA -TTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
35157956 TTTTATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (6 bp):
TTTTGA
Found at i:35162889 original size:15 final size:17
Alignment explanation
Indices: 35162853--35162896 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
35162843 ATGATAAAGG
35162853 AATAAAATTCATAATAA
1 AATAAAATTCATAATAA
*
35162870 AATAAAATT-A-AATTA
1 AATAAAATTCATAATAA
35162885 AATAAATATTCA
1 AATAAA-ATTCA
35162897 AACTAATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 4 0.17
17 10 0.42
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAAAATTCATAATAA
Found at i:35162935 original size:12 final size:12
Alignment explanation
Indices: 35162919--35162954 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
35162909 AATAACATCT
35162919 ATAATAATAGTA
1 ATAATAATAGTA
*
35162931 GTAATAATAGTA
1 ATAATAATAGTA
35162943 ATAATAATAGTA
1 ATAATAATAGTA
35162955 TTATAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:35168355 original size:17 final size:16
Alignment explanation
Indices: 35168333--35168374 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
35168323 ACCCACATAA
35168333 TATTTTTTATTTTTCTT
1 TATTTTTTA-TTTTCTT
35168350 TATTTTTCGTATTTTCTT
1 TATTTTT--TATTTTCTT
35168368 T-TTTTTT
1 TATTTTTT
35168375 TTGTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
17 12 0.52
18 8 0.35
19 2 0.09
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.81
Consensus pattern (16 bp):
TATTTTTTATTTTCTT
Found at i:35168364 original size:19 final size:20
Alignment explanation
Indices: 35168340--35168384 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
35168330 TAATATTTTT
35168340 TATTTTTC-TTTATTTTTCG
1 TATTTTTCTTTTATTTTTCG
* *
35168359 TA-TTTTCTTTTTTTTTTTG
1 TATTTTTCTTTTATTTTTCG
35168378 TATTTTT
1 TATTTTT
35168385 TCGATCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 13 0.59
20 4 0.18
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.80
Consensus pattern (20 bp):
TATTTTTCTTTTATTTTTCG
Found at i:35168382 original size:28 final size:26
Alignment explanation
Indices: 35168333--35168384 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
35168323 ACCCACATAA
35168333 TATTTTTTATTTTTCTTTATTTTTCG
1 TATTTTTTATTTTTCTTTATTTTTCG
* *
35168359 TATTTTCTTTTTTTTTTTGTATTTTT
1 TATTTT-TTATTTTTCTT-TATTTTT
35168385 TCGATCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 9 0.41
28 7 0.32
ACGTcount: A:0.10, C:0.06, G:0.04, T:0.81
Consensus pattern (26 bp):
TATTTTTTATTTTTCTTTATTTTTCG
Found at i:35171472 original size:18 final size:15
Alignment explanation
Indices: 35171435--35171473 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
35171425 ATAAAGGTTA
35171435 TAATAATAATAAAAG
1 TAATAATAATAAAAG
35171450 TAATAATAATAAAAG
1 TAATAATAATAAAAG
35171465 -AATCAATAA
1 TAAT-AATAA
35171474 AGAAATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (15 bp):
TAATAATAATAAAAG
Found at i:35177703 original size:24 final size:24
Alignment explanation
Indices: 35177659--35177705 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35177649 ATTGAAATGG
* *
35177659 ATTGATTTTGTATGTGATGAATTT
1 ATTGAATTTATATGTGATGAATTT
35177683 ATTGAATTTATAT-TGATTGAATT
1 ATTGAATTTATATGTGA-TGAATT
35177706 GAATAGGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (24 bp):
ATTGAATTTATATGTGATGAATTT
Found at i:35188537 original size:26 final size:27
Alignment explanation
Indices: 35188500--35188560 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
35188490 CAATTTGAAT
*
35188500 ATTTTTTGTAATT-TTAAATAAAT-TTA
1 ATTTTTTATAATTCTT-AATAAATGTTA
*
35188526 ATTTTTTATAATTCTTAATAATTGTTA
1 ATTTTTTATAATTCTTAATAAATGTTA
35188553 ATTATTTT
1 ATT-TTTT
35188561 TTCATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 18 0.60
27 8 0.27
28 4 0.13
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (27 bp):
ATTTTTTATAATTCTTAATAAATGTTA
Found at i:35191276 original size:19 final size:19
Alignment explanation
Indices: 35191252--35191291 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
35191242 TTAATACTAG
35191252 TTGCATTGCTATTAAGGCA
1 TTGCATTGCTATTAAGGCA
35191271 TTGCATTGCTATTAAGGCA
1 TTGCATTGCTATTAAGGCA
35191290 TT
1 TT
35191292 AGCTTGATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (19 bp):
TTGCATTGCTATTAAGGCA
Found at i:35200962 original size:24 final size:24
Alignment explanation
Indices: 35200924--35201223 Score: 142
Period size: 24 Copynumber: 12.8 Consensus size: 24
35200914 TGAATTGGAT
* *
35200924 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
35200949 AATTTGAAATAATAATACAT-ATA
1 AATTTAAAATAATAATATATGATA
* * *
35200972 AAATTCAAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * **
35200993 AATTCTAGAATAATCATACGTGATA
1 AATT-TAAAATAATAATATATGATA
** * *
35201018 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
35201042 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* * *
35201063 AATTTGAAATAA-ATATACATGACA
1 AATTTAAAATAATA-ATATATGATA
** * *
35201087 AATTTAAAATAATGTTA-ACGATG
1 AATTTAAAATAATAATATATGATA
35201110 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
35201133 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
* **
35201157 AATCTAAAATAATAATATACAATA
1 AATTTAAAATAATAATATATGATA
* * * *
35201181 AACTT-AGATAATATTA-ATGATT
1 AATTTAAAATAATAATATATGATA
*
35201203 AATTTAATGATAATAAGTATA
1 AATTTAA-AATAATAA-TATA
35201224 AACATTCAAA
Statistics
Matches: 202, Mismatches: 53, Indels: 39
0.69 0.18 0.13
Matches are distributed among these distances:
20 1 0.00
21 15 0.07
22 28 0.14
23 63 0.31
24 78 0.39
25 16 0.08
26 1 0.00
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:35201192 original size:70 final size:69
Alignment explanation
Indices: 35201013--35201206 Score: 176
Period size: 70 Copynumber: 2.8 Consensus size: 69
35201003 TAATCATACG
* * * * * **
35201013 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAAATA
1 TGATAAATCTAAAATAATAATATACAATAAATTTAATAATAATAATGATAAATTACAAATAAATA
*
35201078 TACA
66 AACA
* * ** * * *
35201082 TGACAAATTTAAAATAATGTTA-ACGATGAATTTAAAATAATAATATTGATAAATTACAAAT-AA
1 TGATAAATCTAAAATAATAATATACAATAAATTT--AATAATAATAATGATAAATTACAAATAAA
35201145 TAAAACA
64 T-AAACA
* * *
35201152 TGATAAATCTAAAATAATAATATACAATAAACTTAGATAATATTAATGATTAATT
1 TGATAAATCTAAAATAATAATATACAATAAATTTA-ATAATAATAATGATAAATT
35201207 TAATGATAAT
Statistics
Matches: 96, Mismatches: 24, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
68 8 0.08
69 21 0.22
70 59 0.61
71 8 0.08
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (69 bp):
TGATAAATCTAAAATAATAATATACAATAAATTTAATAATAATAATGATAAATTACAAATAAATA
AACA
Found at i:35202006 original size:19 final size:19
Alignment explanation
Indices: 35201973--35202042 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
35201963 TTGATTTCTT
35201973 TTTTCCTCCCTTTACACTGA
1 TTTTCC-CCCTTTACACTGA
** *
35201993 TTTTTTCTCTTTACACTGA
1 TTTTCCCCCTTTACACTGA
35202012 TTTTCCCCCTTTACACTGA
1 TTTTCCCCCTTTACACTGA
35202031 -TTTCCTCCCTTT
1 TTTTCC-CCCTTT
35202043 TTTATGAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 5 0.12
19 34 0.79
20 4 0.09
ACGTcount: A:0.13, C:0.33, G:0.04, T:0.50
Consensus pattern (19 bp):
TTTTCCCCCTTTACACTGA
Found at i:35208087 original size:82 final size:82
Alignment explanation
Indices: 35207950--35208113 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
35207940 CCAATGAGGC
35207950 AAGATGGAATGTACCTTTGGTTTAGAGCTTACTTTCAGATGTTGAGGCCAAACGTGTTTTATGTA
1 AAGATGGAATGTACCTTTGGTTTAGAGCTTACTTTCAGATGTTGAGGCCAAACGTGTTTTATGTA
35208015 TCCCATTGGCTCTTTCG
66 TCCCATTGGCTCTTTCG
35208032 AAGATGGAATGTACCTTTGGTTTAGAGCTTACTTTCAGATGTTGAGGCCAAACGTGTTTTATGTA
1 AAGATGGAATGTACCTTTGGTTTAGAGCTTACTTTCAGATGTTGAGGCCAAACGTGTTTTATGTA
35208097 TCCCATTGGCTCTTTCG
66 TCCCATTGGCTCTTTCG
35208114 GGTCAAGAGG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (82 bp):
AAGATGGAATGTACCTTTGGTTTAGAGCTTACTTTCAGATGTTGAGGCCAAACGTGTTTTATGTA
TCCCATTGGCTCTTTCG
Found at i:35209656 original size:18 final size:18
Alignment explanation
Indices: 35209598--35209657 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 18
35209588 AAATATAAAT
35209598 TATTCTATTTATATTT-TA
1 TATT-TATTTATATTTATA
* **
35209616 T-TTTATATATATAAATAA
1 TATTTATTTATATTTAT-A
35209634 TTATTTATTTATATTTATA
1 -TATTTATTTATATTTATA
35209653 TATTT
1 TATTT
35209658 TCTTCACTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 8 0.25
17 3 0.09
18 7 0.22
19 2 0.06
20 12 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTATTTATATTTATA
Found at i:35210272 original size:30 final size:30
Alignment explanation
Indices: 35210236--35210293 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
35210226 ACCTACAAGA
35210236 TTATGATTGTCTTGTGACTGAAGATAATGT
1 TTATGATTGTCTTGTGACTGAAGATAATGT
35210266 TTATGATTGTCTTGTGACTGAAGATAAT
1 TTATGATTGTCTTGTGACTGAAGATAAT
35210294 ATTTTTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (30 bp):
TTATGATTGTCTTGTGACTGAAGATAATGT
Found at i:35217712 original size:13 final size:13
Alignment explanation
Indices: 35217694--35217718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35217684 AAAACTGTTT
35217694 TGAGTGCTGCTCA
1 TGAGTGCTGCTCA
35217707 TGAGTGCTGCTC
1 TGAGTGCTGCTC
35217719 TTGTTAAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (13 bp):
TGAGTGCTGCTCA
Found at i:35218176 original size:16 final size:16
Alignment explanation
Indices: 35218155--35218196 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
35218145 TTATTAAATT
*
35218155 ATATATTTTAATTATA
1 ATATATTTTAATAATA
35218171 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
35218186 AT-TATGTTTAA
1 ATATAT-TTTAA
35218197 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:35218181 original size:15 final size:15
Alignment explanation
Indices: 35218146--35218187 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35218136 TTAAGAATTT
*
35218146 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35218160 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35218174 TATTTAATAATAAT
1 TATTTAATTATAAT
35218188 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35218327 original size:18 final size:17
Alignment explanation
Indices: 35218299--35218333 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35218289 ATTATTAAGA
*
35218299 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
35218316 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
35218334 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:35218332 original size:157 final size:157
Alignment explanation
Indices: 35218130--35218439 Score: 575
Period size: 157 Copynumber: 2.0 Consensus size: 157
35218120 ATAAGAATAT
*
35218130 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
35218195 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAAATTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAA
35218260 TAATAATTTACCAAAACAAATTTCTGA
131 TAATAATTTACCAAAACAAATTTCTGA
35218287 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
35218352 AAATATGATTAAATTATTTATTTTTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAA
*
35218417 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
35218440 ATGCTAAGGG
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 148 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGA
Found at i:35218581 original size:45 final size:43
Alignment explanation
Indices: 35218479--35218588 Score: 111
Period size: 45 Copynumber: 2.6 Consensus size: 43
35218469 TTTTTCATTA
35218479 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * * ***
35218518 TACTATTACGCTTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
35218563 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
35218589 CCTCTAATCC
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
44 16 0.29
45 22 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:35218590 original size:16 final size:16
Alignment explanation
Indices: 35218569--35218620 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
35218559 GATTTGCTAT
*
35218569 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
35218585 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
35218601 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35218617 TACA
1 TACA
35218621 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35218808 original size:19 final size:17
Alignment explanation
Indices: 35218767--35218803 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
35218757 ATTATTATTC
35218767 TATTTAAAATAAAATAT
1 TATTTAAAATAAAATAT
35218784 TATTTATAAATAAAA-AT
1 TATTTA-AAATAAAATAT
35218801 TAT
1 TAT
35218804 ATTTACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTTAAAATAAAATAT
Found at i:35219516 original size:19 final size:19
Alignment explanation
Indices: 35219494--35219535 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
35219484 AAAATATTTA
*
35219494 TTTTGATGT-TTTTAGTATT
1 TTTTGATGTATTATA-TATT
*
35219513 TTTTTATGTATTATATATT
1 TTTTGATGTATTATATATT
35219532 TTTT
1 TTTT
35219536 AAAATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (19 bp):
TTTTGATGTATTATATATT
Found at i:35219566 original size:12 final size:12
Alignment explanation
Indices: 35219536--35219568 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
35219526 TATATTTTTT
35219536 AAAATT-ATATA
1 AAAATTAATATA
35219547 AAAA-TAATATA
1 AAAATTAATATA
35219558 AAAATTAATAT
1 AAAATTAATAT
35219569 GGAAGGGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:35222466 original size:9 final size:9
Alignment explanation
Indices: 35222452--35222476 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35222442 AAACAAAAAG
35222452 ATAATAACA
1 ATAATAACA
35222461 ATAATAACA
1 ATAATAACA
35222470 ATAATAA
1 ATAATAA
35222477 TAATTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:35223969 original size:44 final size:43
Alignment explanation
Indices: 35223906--35224273 Score: 185
Period size: 44 Copynumber: 8.4 Consensus size: 43
35223896 TCCGACCTAT
* * *
35223906 TGCAACTTCAGAGG-TATAGGATTCACCATTTTAATCCGCTCCAC
1 TGCAACTTCAG-GGAGATAGGATTCA-TATTTCAATCCGCTCCAC
* * *
35223950 TGCAACTTTAGGGAGATAGGATT-AGTAGCTTCAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAGGATTCA-TA-TTTCAATCCGCTCCAC
* * * * *
35223994 TGTAACTTCAGGGAGATAAGGTTTGATATCTTCAGTCTGCTCCAC
1 TGCAACTTCAGGGAGAT-AGGATTCATAT-TTCAATCCGCTCCAC
* * * * * *
35224039 TGCAACTTCAGAGAGATAAGA-TCTGTGGTTTTAATCCGCTCCGC
1 TGCAACTTCAGGGAGATAGGATTC-AT-ATTTCAATCCGCTCCAC
* ** *
35224083 TGCAACTTCAGGGAGATAGGATTGACT-TCTTCTTTCTGCTCCAC
1 TGCAACTTCAGGGAGATAGGATTCA-TAT-TTCAATCCGCTCCAC
* * * * ** * * *
35224127 TACAACTTCAAGGAGATAAGACT-GGA-TGCAATCTGCTCTAC
1 TGCAACTTCAGGGAGATAGGATTCATATTTCAATCCGCTCCAC
* * * * * *
35224168 TGAAACTTCAGAGAGATAAGA-TCTATGGTTTTAATCCGTTCCAC
1 TGCAACTTCAGGGAGATAGGATTC-AT-ATTTCAATCCGCTCCAC
* * * *
35224212 TGCAACTTCAGGGAGATTGGATTGACT-TCTTCTATCTGCTCCAC
1 TGCAACTTCAGGGAGATAGGATTCA-TAT-TTCAATCCGCTCCAC
*
35224256 TGTAACTTCAGGGAGATA
1 TGCAACTTCAGGGAGATA
35224274 AGACTGGATG
Statistics
Matches: 241, Mismatches: 65, Indels: 36
0.70 0.19 0.11
Matches are distributed among these distances:
40 1 0.00
41 28 0.12
43 7 0.03
44 163 0.68
45 41 0.17
46 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (43 bp):
TGCAACTTCAGGGAGATAGGATTCATATTTCAATCCGCTCCAC
Found at i:35224143 original size:88 final size:89
Alignment explanation
Indices: 35223982--35224338 Score: 231
Period size: 85 Copynumber: 4.1 Consensus size: 89
35223972 TAGTAGCTTC
* * * *
35223982 AATCTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGATATCTTCAGTCTGCTCCACTGCAACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGGATTGATATCTTCAGTCTGCTCCACTACAACTT
35224047 CAGAGAGATAAGATCTGTGGTTTT
66 CAGAGAGATAAGATCTGTGGTTTT
* **
35224071 AATCCGCTCCGCTGCAACTTCAGGGAGAT-AGGATTGACT-TCTTCTTTCTGCTCCACTACAACT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGGATTGA-TATCTTCAGTCTGCTCCACTACAACT
* **
35224134 TCA-AGGAGATAAGA-C--TGGATGC
65 TCAGA-GAGATAAGATCTGTGGTTTT
* * * * * * * * * *
35224156 AATCTGCTCTACTGAAACTTCAGAGAGATAA-GATCT-ATGGT-TTTAATCCGTTCCACTGCAAC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGGAT-TGAT-ATCTTCAGTCTGCTCCACTACAAC
* ** **
35224218 TTCAGGGAGATTGGAT-TG-ACTTCTT
64 TTCAGAGAGATAAGATCTGTGGTT-TT
* * * * * * * * * *
35224243 CTATCTGCTCCACTGTAACTTCAGGGAGATAA-GACTG-GA--TGCGGTCTACTCTACTGCAACT
1 -AATCCGCTCCACTGCAACTTCAGGGAGATAAGGATTGATATCTTCAGTCTGCTCCACTACAACT
35224304 TCAGAGAGATAAGATCTGTGGTTTT
65 TCAGAGAGATAAGATCTGTGGTTTT
35224329 AAATCCGCTC
1 -AATCCGCTC
35224339 GCCACGGAAG
Statistics
Matches: 201, Mismatches: 52, Indels: 33
0.70 0.18 0.12
Matches are distributed among these distances:
84 1 0.00
85 84 0.42
86 15 0.07
87 5 0.02
88 69 0.34
89 27 0.13
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (89 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAAGGATTGATATCTTCAGTCTGCTCCACTACAACTT
CAGAGAGATAAGATCTGTGGTTTT
Found at i:35224219 original size:129 final size:129
Alignment explanation
Indices: 35223934--35224338 Score: 560
Period size: 129 Copynumber: 3.1 Consensus size: 129
35223924 GGATTCACCA
* * * *
35223934 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATT-AGTAGCTTCAATCTGCTCCACTGTA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACT-TCTTCTATCTGCTCCACTGTA
** * * *
35223998 ACTTCAGGGAGATAAGGTTTGATATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
65 ACTTCAGGGAGATAA-GACTG-GA--TGCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
35224063 GTGG
126 GTGG
* * **
35224067 TTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTGACTTCTTCTTTCTGCTCCACTACAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCTATCTGCTCCACTGTAA
* * * *
35224132 CTTCAAGGAGATAAGACTGGATGCAATCTGCTCTACTGAAACTTCAGAGAGATAAGATCTATGG
66 CTTCAGGGAGATAAGACTGGATGCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* *
35224196 TTTTAATCCGTTCCACTGCAACTTCAGGGAGATTGGATTGACTTCTTCTATCTGCTCCACTGTAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCTATCTGCTCCACTGTAA
* *
35224261 CTTCAGGGAGATAAGACTGGATGCGGTCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
66 CTTCAGGGAGATAAGACTGGATGCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
35224325 TTTTAAATCCGCTC
1 TTTT-AATCCGCTC
35224339 GCCACGGAAG
Statistics
Matches: 240, Mismatches: 30, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
129 159 0.66
130 8 0.03
131 1 0.00
132 3 0.01
133 67 0.28
134 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (129 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCTATCTGCTCCACTGTAA
CTTCAGGGAGATAAGACTGGATGCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
Found at i:35224432 original size:50 final size:50
Alignment explanation
Indices: 35224344--35225078 Score: 527
Period size: 50 Copynumber: 14.7 Consensus size: 50
35224334 CGCTCGCCAC
* * * ** *
35224344 GGAAGTAAGATTCGCTGTTGTAGCTTCAATATACTTAACTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * * *
35224394 GGAAACAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAACGCCTG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * * *
35224444 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * ** * * * *
35224494 GGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGTACCGCCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * * * *
35224544 GGAAGTAAGATTCGCCGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * ** * * * *
35224594 GGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGTACCGCCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * * * * *
35224644 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * * ** * * *
35224694 GGAAACAAGATTCGCCATTGTAGTTTCAATATGTTCCACTGCACCGCCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * * * * * * *
35224744 AGAAGTAAGATTAGCCGTTGTGGCTTCAATTTTTTTAATTACAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * ** * ** *
35224794 GGAAGCAAGATTCGCCGTTATAGTTTCAATCTGTTCCACTGCACCACCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * * * * * *
35224844 AGAAGTAAAATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * ** * ** *
35224894 GGAAGCAAGATTTGCCGTTGTAGCTTCAATCTGTTTCACTATACCACCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * ** * *
35224944 GAAAGTAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGC-ACCTCTTG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTC-GG
* * * * * * *
35224994 GGAAGTAAGATTCGCCGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGA
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
**
35225044 GGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTT
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTT
35225079 CCACTACACC
Statistics
Matches: 502, Mismatches: 181, Indels: 4
0.73 0.26 0.01
Matches are distributed among these distances:
49 2 0.00
50 497 0.99
51 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
Found at i:35224517 original size:100 final size:100
Alignment explanation
Indices: 35224338--35224975 Score: 871
Period size: 100 Copynumber: 6.4 Consensus size: 100
35224328 TAAATCCGCT
* * * * ** * *
35224338 CGCCACGGAAGTAAGATTCGCTGTTGTAGCTTCAATATACTTAACTGCAATGTCGGGGAAACAAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
* * ** *
35224403 ATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAA
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
*
35224438 CGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
* * *
35224503 ATTCACTGTTGTAGCTTCAATCTGTTCCACTGTAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
*
35224538 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
* * *
35224603 ATTCACCATTGTAGCTTCAATCTGTTCCACTGTAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * *
35224638 CGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAACAAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
* * *
35224703 ATTCGCCATTGTAGTTTCAATATGTTCCACTGCAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * *
35224738 CGCCAGAGAAGTAAGATTAGCCGTTGTGGCTTCAATTTTTTTAATTACAATGTCGGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
* *
35224803 ATTCGCCGTTATAGTTTCAATCTGTTCCACTGCAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * *
35224838 CACCAGAGAAGTAAAATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
* * **
35224903 ATTTGCCGTTGTAGCTTCAATCTGTTTCACTATAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * *
35224938 CACCAGGAAAGTAAGATTCGTCGTTGTAGCTTCAATCT
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCT
35224976 GTTCCACTGC
Statistics
Matches: 485, Mismatches: 53, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 485 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
Found at i:35225297 original size:44 final size:43
Alignment explanation
Indices: 35225249--35225581 Score: 181
Period size: 44 Copynumber: 7.6 Consensus size: 43
35225239 ATATTCGATA
*
35225249 TGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCT-CAATCTTCAACC
* *
35225293 TGCTCCACTACTGCTTAGGGAGATAGGA-CT-AATGGCTTAAATCTAC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTCAAT--CTTCAA-C--C
* ** **
35225339 TTCTCCACTAC--CTT-GGGAAGATAAGAT-TCACTATCTTTGATT
1 TGCTCCACTACTGCTTAGGG-AGATAAGATCTCA--ATCTTCAACC
* *
35225381 TGCTCTACTACTGCTTAGGGAGA-CAGAATCTGCAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAG-ATCT-CAATCTTCAACC
* * * *
35225425 TACTCCACTACTGCTTAAGGAGATAGGA-CT-AATGACTTAAATCTGC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTCAAT--CTTCAA-C--C
* * * *
35225471 TTCTCCACTA-T-CTT-GGGAAGATAATAT-TCACCATCTTCGATC
1 TGCTCCACTACTGCTTAGGG-AGATAAGATCTCA--ATCTTCAACC
* * *
35225513 TGCTCCACTACTGCTTAGGGAGA-CAGAATATGCAATCTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAG-ATCT-CAATCTTCAACC
*
35225557 TACTCCACTACTGCTTAGGGAGATA
1 TGCTCCACTACTGCTTAGGGAGATA
35225582 GGACTAATGG
Statistics
Matches: 218, Mismatches: 37, Indels: 67
0.68 0.11 0.21
Matches are distributed among these distances:
41 6 0.03
42 19 0.09
43 23 0.11
44 121 0.56
45 20 0.09
46 25 0.11
47 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTCAATCTTCAACC
Found at i:35225391 original size:132 final size:132
Alignment explanation
Indices: 35225092--35225655 Score: 841
Period size: 132 Copynumber: 4.3 Consensus size: 132
35225082 CTACACCACC
** * *
35225092 TGGGAAG-TAAGATTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGAGACAGAATATGTAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGCAAT
** * * *
35225156 CTTTGACCTACTCCATTACTGCTTAGGGAGATA-GA--AGTGGTTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
35225218 CT
131 CT
* * * *
35225220 TGGGAATATAAGATTCACCATATTCGATATGCTCCACTACTGCTTAGGGAGACA-AGATCTGCAA
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATATGCAA
* *
35225284 TCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTA
65 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
*
35225349 CCT
130 TCT
* * * * *
35225352 TGGGAAGATAAGATTCACTATCTTTGATTTGCTCTACTACTGCTTAGGGAGACAGAATCTGCAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGCAAT
* *
35225417 CTTCAACCTACTCCACTACTGCTTAAGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
35225482 CT
131 CT
*
35225484 TGGGAAGATAATATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGCAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGCAAT
*
35225549 CTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
35225614 CT
131 CT
* *
35225616 TGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTAC
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTAC
35225656 AACTTCAGGG
Statistics
Matches: 391, Mismatches: 39, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
128 7 0.02
129 77 0.20
130 2 0.01
132 304 0.78
133 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGCAAT
CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
CT
Found at i:35226043 original size:100 final size:100
Alignment explanation
Indices: 35225870--35226883 Score: 1362
Period size: 100 Copynumber: 10.1 Consensus size: 100
35225860 CGCTCACCAC
** * * ** * * *
35225870 GGAAGTAAGATTCGTTGTTGTAGCTTCAATATACTTAACTGCAATGTCAGGGAAACAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
** * ** * *
35225935 TATTGTAGCTTCAATCTATTTAACTGCAACGCCTG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* *
35225970 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
* * *
35226035 TGTTGTAGCTTCAATCTGTTCCATTGTACCGCCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * * *
35226070 GGAAGTAAGATTCGCTGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
*
35226135 CATTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * * *
35226170 GGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCGT
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
35226235 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * * * **
35226270 AGAAGTAAGATTAGCCGTTGTGGCTTCAATTTTTTTTAATTACAATGTCGGGGAAGTAAGATTCG
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAA-TCTTTTTAATTGCAATGTCGGGGAAACAAGATTCG
* *
35226335 CCGTTATAGTTTCAATCTGTTCCACTGCACCGCCAG
65 CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * * *
35226371 AGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
* *
35226436 CGTTGTAGCTTCAATCTGTTCCACTACACCGCAAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * *
35226471 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGATGTCGGGAAAATAAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
* * *
35226536 CATTGTAGCTTCAATCTGTTCCACTGCACCTCAAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * *
35226571 GGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGCGATGTCGGGGAAACAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
* * *
35226636 TGTTGTAGCTTCAATCTGTTCCACTGCACTGCAAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
** * * **
35226671 GGAAGTAAGATTCGTTGTTATGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGTAAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
* * **
35226736 CGCTGTAGCTTTAATCTGTTCCACTGCACCGCTTG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * * *
35226771 GGAAGTAAGATTCGTCGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGAGGAAACAAGATTCGT
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
* * *
35226836 TGTTGTAGCTTCAATCTGTTCCACTACACCGCCTG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
35226871 GGAAGTAAGATTC
1 GGAAGTAAGATTC
35226884 ACTGTCTTCG
Statistics
Matches: 815, Mismatches: 98, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
100 723 0.89
101 92 0.11
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
Found at i:35226881 original size:50 final size:50
Alignment explanation
Indices: 35225870--35226883 Score: 657
Period size: 50 Copynumber: 20.3 Consensus size: 50
35225860 CGCTCACCAC
** * ** *
35225870 GGAAGTAAGATTCGTTGTTGTAGCTTCAATATACTTAACTGCAATGTCAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
** * ** * * *
35225920 GGAAACAAGATTCACTATTGTAGCTTCAATCTATTTAACTGCAACGCCTG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * * * *
35225970 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * * ** * * **
35226020 GGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCATTGTACCGCCAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * * * * * *
35226070 GGAAGTAAGATTCGCTGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * * ** **
35226120 GGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * * * * * * *
35226170 GGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTACAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
** * ** **
35226220 GGAAACAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * * * * * * * *
35226270 AGAAGTAAGATTAGCCGTTGTGGCTTCAATTTTTTTTAATTACAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAA-TCTGTTTAACTGCAATGCCAG
* * ** **
35226321 GGAAGTAAGATTCGCCGTTATAGTTTCAATCTGTTCCACTGCACCGCCAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * * * * * *
35226371 AGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * ** * ** *
35226421 GGAAGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTACACCGCAAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * * * *
35226471 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGATGTC-G
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * ** * *
35226520 GGAAAATAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCT-CAAG
1 GG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCA-ATGCCAG
* * * * * * *
35226571 GGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGCGATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
** * * ** * *
35226621 GGAAACAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCACTGCAAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
** * * * * * * *
35226671 GGAAGTAAGATTCGTTGTTATGGCTTCAATCTTTTTAATTGTAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * ** ** **
35226721 GGAAGTAAGATTCGCCGCTGTAGCTTTAATCTGTTCCACTGCACCGCTTG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
* * * * * *
35226771 GGAAGTAAGATTCGTCGTTGTGGCTTCAATTTTTTTAATTGCAATGTC-G
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
** ** ** * ** *
35226820 AGGAAACAAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCGCCTG
1 -GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
35226871 GGAAGTAAGATTC
1 GGAAGTAAGATTC
35226884 ACTGTCTTCG
Statistics
Matches: 702, Mismatches: 255, Indels: 14
0.72 0.26 0.01
Matches are distributed among these distances:
49 5 0.01
50 657 0.94
51 40 0.06
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAATGCCAG
Found at i:35227074 original size:44 final size:43
Alignment explanation
Indices: 35227026--35227490 Score: 185
Period size: 44 Copynumber: 10.6 Consensus size: 43
35227016 ATATTCGATA
*
35227026 TGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCT-CAATCTTCAACC
* * *
35227070 TGCTCCACCACTGCTTAGGGAGATAGGA-CT-AATGGCTTAAATCTAC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTCAAT--CTTCAA-C--C
** * ** **
35227116 TTATCCACTA-T-CTTAGGAAGATAAGAT-TCACTATCTTTGATT
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTCA--ATCTTCAACC
* * *
35227158 TGCTCTACTACTGCTGAGGGAGA-CAGAATCTGCAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAG-ATCT-CAATCTTCAACC
* * *
35227202 TACTCCACTACTGCTTAGGGAGATAGGA-CT-AATGACTTAAATCTGC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTCAAT--CTTCAA-C--C
* * * *
35227248 TTCTCCACTA-T-CTT-GGGAAGATAATAT-TCACCATCTTCGATC
1 TGCTCCACTACTGCTTAGGG-AGATAAGATCTCA--ATCTTCAACC
* * * *
35227290 TGCTCCACTGCTGCTTAGGGAGA-CAGAATATGCAATCTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAG-ATCT-CAATCTTCAACC
* * * *
35227334 TACTCTACTACTGCTTAGGGAGATAGGA-CT-AATGGCTTAAATCTGC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTCAAT--CTTCAA-C--C
* * ** *
35227380 TTCTCCACTA-T-CTT-GGGAAGATAAGAT-TCACCGTCTTTGATC
1 TGCTCCACTACTGCTTAGGG-AGATAAGATCTCA--ATCTTCAACC
* * *
35227422 TGCTCCACTACTGCTTAGAGAGACAATATCTGCAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCT-CAATCTTCAACC
* *
35227466 TACTCTACTACTGCTTAGGGAGATA
1 TGCTCCACTACTGCTTAGGGAGATA
35227491 GGACTAATGG
Statistics
Matches: 305, Mismatches: 69, Indels: 94
0.65 0.15 0.20
Matches are distributed among these distances:
41 9 0.03
42 26 0.09
43 31 0.10
44 173 0.57
45 28 0.09
46 33 0.11
47 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTCAATCTTCAACC
Found at i:35227179 original size:132 final size:132
Alignment explanation
Indices: 35226869--35227503 Score: 940
Period size: 132 Copynumber: 4.8 Consensus size: 132
35226859 CTACACCGCC
** *
35226869 TGGGAAG-TAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
* * * *
35226933 CTTCGACCTACTCCATTACTGCTTAGGGAGATAGG---AGTGGTTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
35226995 CT
131 CT
* * *
35226997 TGGGAATATAAGATTCACCATATTCGATATGCTCCACTACTGCTTAGGGAGACA-AGATCTGCAA
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATCTGCAA
* * * *
35227061 TCTTCAACCTGCTCCACCACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTATCCACTA
65 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
35227126 TCT
130 TCT
* * * * * *
35227129 TAGGAAGATAAGATTCACTATCTTTGATTTGCTCTACTACTGCTGAGGGAGACAGAATCTGCAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
*
35227194 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
35227259 CT
131 CT
* * *
35227261 TGGGAAGATAATATTCACCATCTTCGATCTGCTCCACTGCTGCTTAGGGAGACAGAATATGCAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
* *
35227326 CTTCAGCCTACTCTACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
35227391 CT
131 CT
* * *
35227393 TGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGAGAGACA-ATATCTGCAA
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATCTGCAA
*
35227457 TCTTCAACCTACTCTACTACTGCTTAGGGAGATAGGACTAATGGCTT
65 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTT
35227504 CATCGATCTG
Statistics
Matches: 454, Mismatches: 46, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
128 7 0.02
129 81 0.18
131 1 0.00
132 364 0.80
133 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
CT
Found at i:35228764 original size:7 final size:7
Alignment explanation
Indices: 35228736--35228825 Score: 60
Period size: 7 Copynumber: 12.7 Consensus size: 7
35228726 CGGCCTCTTC
35228736 TTTTTC-
1 TTTTTCT
35228742 TTTTTCT
1 TTTTTCT
**
35228749 TATGCTCT
1 T-TTTTCT
35228757 TTTTTCT
1 TTTTTCT
*
35228764 TCCTTTCT
1 T-TTTTCT
*
35228772 TCCTTTCT
1 T-TTTTCT
*
35228780 TTCTTCT
1 TTTTTCT
*
35228787 TTCTTCT
1 TTTTTCT
35228794 TTTTTCT
1 TTTTTCT
35228801 TCTTTT-T
1 T-TTTTCT
*
35228808 TCTTT-T
1 TTTTTCT
35228814 TTTTTCT
1 TTTTTCT
35228821 TTTTT
1 TTTTT
35228826 AAATATTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
6 14 0.20
7 32 0.46
8 23 0.33
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTCT
Found at i:35228779 original size:37 final size:34
Alignment explanation
Indices: 35228738--35228822 Score: 100
Period size: 37 Copynumber: 2.4 Consensus size: 34
35228728 GCCTCTTCTT
35228738 TTTCTTTTTCTTATGC-TCTTTTTTCTTCCTTTCTTCC
1 TTTCTTTTTCTT-T-CTTCTTTTTTCTT-CTTT-TTCC
*
35228775 TTTCTTTCTTCTTTCTTCTTTTTTCTTCTTTTTTC
1 TTTCTTT-TTCTTTCTTCTTTTTTCTTCTTTTTCC
*
35228810 TTTTTTTTTCTTT
1 TTTCTTTTTCTTT
35228823 TTTAAATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
34 6 0.14
35 9 0.20
36 5 0.11
37 19 0.43
38 5 0.11
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.75
Consensus pattern (34 bp):
TTTCTTTTTCTTTCTTCTTTTTTCTTCTTTTTCC
Found at i:35228784 original size:27 final size:26
Alignment explanation
Indices: 35228754--35228822 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
35228744 TTTCTTATGC
35228754 TCTTTTTTCTTCCTTTCTTC-CTTTCTT
1 TCTTTTTTCTT-CTTTCTTCTCTTT-TT
* *
35228781 TCTTCTTTCTTCTTTTTTCTTCTTTTT
1 TCTTTTTTCTTCTTTCTTC-TCTTTTT
*
35228808 TCTTTTTTTTTCTTT
1 TCTTTTTTCTTCTTT
35228823 TTTAAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.19
27 25 0.69
28 4 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (26 bp):
TCTTTTTTCTTCTTTCTTCTCTTTTT
Found at i:35228799 original size:10 final size:10
Alignment explanation
Indices: 35228754--35228825 Score: 71
Period size: 10 Copynumber: 7.6 Consensus size: 10
35228744 TTTCTTATGC
35228754 TCTTTTTTCT
1 TCTTTTTTCT
*
35228764 TC--CTTTCT
1 TCTTTTTTCT
* *
35228772 TCCTTTCT-T
1 TCTTTTTTCT
*
35228781 TCTTCTTTCT
1 TCTTTTTTCT
35228791 TCTTTTTTCT
1 TCTTTTTTCT
35228801 TCTTTTTTCT
1 TCTTTTTTCT
*
35228811 TTTTTTTTCT
1 TCTTTTTTCT
35228821 T-TTTT
1 TCTTTT
35228826 AAATATTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
8 7 0.14
9 10 0.20
10 34 0.67
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TCTTTTTTCT
Found at i:35228803 original size:20 final size:20
Alignment explanation
Indices: 35228731--35228821 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
35228721 CACATCGGCC
*
35228731 TCTTC-TTTTTCTTTTTCTT
1 TCTTCTTTTTTCTTCTTCTT
35228750 ATGC-TCTTTTTTCTTC--CTT
1 -T-CTTCTTTTTTCTTCTTCTT
* *
35228769 TCTTCCTTTCT-TTCTTCTT
1 TCTTCTTTTTTCTTCTTCTT
*
35228788 TCTTCTTTTTTCTTCTTTTT
1 TCTTCTTTTTTCTTCTTCTT
*
35228808 TCTTTTTTTTTCTT
1 TCTTCTTTTTTCTT
35228822 TTTTAAATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
17 4 0.07
18 7 0.12
19 15 0.26
20 23 0.40
21 9 0.16
ACGTcount: A:0.01, C:0.23, G:0.01, T:0.75
Consensus pattern (20 bp):
TCTTCTTTTTTCTTCTTCTT
Found at i:35234045 original size:3 final size:3
Alignment explanation
Indices: 35234039--35234070 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
35234029 TAATAACACT
35234039 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
35234071 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:35236228 original size:12 final size:12
Alignment explanation
Indices: 35236208--35236237 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35236198 AAACAAGAAC
*
35236208 AGAACAAAATAA
1 AGAAGAAAATAA
35236220 AGAAGAAAATAA
1 AGAAGAAAATAA
35236232 AGAAGA
1 AGAAGA
35236238 TATATGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (12 bp):
AGAAGAAAATAA
Found at i:35238694 original size:17 final size:17
Alignment explanation
Indices: 35238669--35238702 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35238659 AACTCACTAT
*
35238669 TTTGGAATTAGAGTCAC
1 TTTGAAATTAGAGTCAC
35238686 TTTGAAATTAGAGTCAC
1 TTTGAAATTAGAGTCAC
35238703 ACGGGCCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (17 bp):
TTTGAAATTAGAGTCAC
Found at i:35238981 original size:108 final size:108
Alignment explanation
Indices: 35238847--35239057 Score: 314
Period size: 108 Copynumber: 2.0 Consensus size: 108
35238837 TGTTGAGTTG
*
35238847 TGTGCTAGACCGTGTAACTTACTGTTTTGAGCCACATGGGCGTGTGTTAAGACATGTGACAGGCC
1 TGTGCTAGACCGTGTAACTCACTGTTTTGAGCCACATGGGCGTGTGTTAAGACATGTGACAGGCC
* * *
35238912 GTGTGCGACATTGAGGTAGGCCACGCAGGTGTGTGCTACGCCT
66 ATGTACGACATTGAGGTAGGCCACACAGGTGTGTGCTACGCCT
* * * * * * *
35238955 TGTGCTAGACCGTGTAACTCATTGTTTTGAGCCACATGGGTGTGTGTTAGGCCGTGTGATAGGTC
1 TGTGCTAGACCGTGTAACTCACTGTTTTGAGCCACATGGGCGTGTGTTAAGACATGTGACAGGCC
*
35239020 ATGTACGACATTGAGGTAGGCCACACGGGTGTGTGCTA
66 ATGTACGACATTGAGGTAGGCCACACAGGTGTGTGCTA
35239058 GGCCGTGTAG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 91 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (108 bp):
TGTGCTAGACCGTGTAACTCACTGTTTTGAGCCACATGGGCGTGTGTTAAGACATGTGACAGGCC
ATGTACGACATTGAGGTAGGCCACACAGGTGTGTGCTACGCCT
Found at i:35240329 original size:19 final size:19
Alignment explanation
Indices: 35240307--35240346 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35240297 AAACTAAATC
35240307 AGAAAAAAAAAAAGAAAAA
1 AGAAAAAAAAAAAGAAAAA
* * *
35240326 AGAAAAAGAAGAAGAAGAA
1 AGAAAAAAAAAAAGAAAAA
35240345 AG
1 AG
35240347 TGTTTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AGAAAAAAAAAAAGAAAAA
Found at i:35241306 original size:19 final size:19
Alignment explanation
Indices: 35241277--35241330 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
35241267 AATTTTTGAG
*
35241277 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
35241296 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
35241315 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
35241331 ATATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:35242943 original size:98 final size:98
Alignment explanation
Indices: 35242820--35243014 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
35242810 AAAAATCATG
*
35242820 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
35242885 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
35242918 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
35242983 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
35243015 TTTATTGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:35253808 original size:19 final size:20
Alignment explanation
Indices: 35253772--35253810 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35253762 CTGAGTTTTG
*
35253772 GTAAAATTAATTTTGATCAA
1 GTAAAATTAATATTGATCAA
35253792 GTAAAATTAA-ATTGATCAA
1 GTAAAATTAATATTGATCAA
35253811 ATCAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (20 bp):
GTAAAATTAATATTGATCAA
Found at i:35262741 original size:17 final size:17
Alignment explanation
Indices: 35262719--35262758 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
35262709 TCATAATTTA
35262719 TTTTTCTATTTCACTTT
1 TTTTTCTATTTCACTTT
* *
35262736 TTTTTCTTTTTCCCTTT
1 TTTTTCTATTTCACTTT
35262753 TATTTT
1 T-TTTT
35262759 ATTCTTTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTCTATTTCACTTT
Found at i:35262766 original size:19 final size:17
Alignment explanation
Indices: 35262727--35262771 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
35262717 TATTTTTCTA
* *
35262727 TTTCACTTTTTTTTCTT
1 TTTCCCTTTTTTTTATT
35262744 TTTCCCTTTTATTTTATT
1 TTTCCCTTTT-TTTTATT
35262762 CTTTCCCTTT
1 -TTTCCCTTT
35262772 CCCTTTCCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 6 0.25
19 9 0.38
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCCCTTTTTTTTATT
Found at i:35262801 original size:7 final size:7
Alignment explanation
Indices: 35262791--35262826 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
35262781 GTTTCCATTT
35262791 TCTTTTC
1 TCTTTTC
35262798 TCTTTTC
1 TCTTTTC
35262805 TCTTTTC
1 TCTTTTC
35262812 TCTTTTC
1 TCTTTTC
35262819 TCTTTTC
1 TCTTTTC
35262826 T
1 T
35262827 TTTCTTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTTC
Found at i:35263409 original size:30 final size:31
Alignment explanation
Indices: 35263367--35263424 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
35263357 TTATAGATTG
*
35263367 ATGGATTTTTGTTTGTTATGTTAATTTTTTA
1 ATGGATTTTTGTTTGTGATGTTAATTTTTTA
35263398 ATGGA-TTTTGTTTGTGATGTTAATTTT
1 ATGGATTTTTGTTTGTGATGTTAATTTT
35263425 CGTGATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (31 bp):
ATGGATTTTTGTTTGTGATGTTAATTTTTTA
Found at i:35266199 original size:11 final size:11
Alignment explanation
Indices: 35266183--35266208 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35266173 TATTTTTTAA
35266183 TTTTAAAATAC
1 TTTTAAAATAC
35266194 TTTTAAAATAC
1 TTTTAAAATAC
35266205 TTTT
1 TTTT
35266209 TTTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:35266238 original size:11 final size:12
Alignment explanation
Indices: 35266224--35266255 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
35266214 ATTTTTTTAA
35266224 TTTTAAAATA-T
1 TTTTAAAATACT
35266235 TTTTAAAATACT
1 TTTTAAAATACT
35266247 TTTTAAAAT
1 TTTTAAAAT
35266256 TTTAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:35267076 original size:72 final size:73
Alignment explanation
Indices: 35266994--35267131 Score: 170
Period size: 72 Copynumber: 1.9 Consensus size: 73
35266984 GTTTCCAAGC
* * * *
35266994 TTTTGAGGATTCAGCGACGTTTTTAATCAAGCGCCACTAATAATCCTAAGCCAAACGGTGTCGTT
1 TTTTGAGGATTCAGCGACGTTTTTAAGCAAGCACCACTAAAAAACCTAAGCCAAACGGTGTCGTT
35267059 TCCGTAGT
66 TCCGTAGT
* * ** * **
35267067 TTTTG-GGATTTAGCGGCGTTTTTGGGGAAGCACTGCTAAAAAACCTAAGCCAAACGGTGTCGTT
1 TTTTGAGGATTCAGCGACGTTTTTAAGCAAGCACCACTAAAAAACCTAAGCCAAACGGTGTCGTT
35267131 T
66 T
35267132 TCTCAGCTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
72 49 0.91
73 5 0.09
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (73 bp):
TTTTGAGGATTCAGCGACGTTTTTAAGCAAGCACCACTAAAAAACCTAAGCCAAACGGTGTCGTT
TCCGTAGT
Found at i:35267180 original size:72 final size:72
Alignment explanation
Indices: 35267038--35267183 Score: 161
Period size: 72 Copynumber: 2.0 Consensus size: 72
35267028 CACTAATAAT
* * * * * * *
35267038 CCTAAGCCAAACGGTGTCGTTTCCGTAGTTTTTGGGATTTAGCGGCGTTTTTGGGGAAGCACTGC
1 CCTAAGCCAAACGGTGTCGTTTCCGTAGCTTTCGGGAATTAGCGGCGTCTTTGCGAAAGCACCGC
35267103 TAAAAAA
66 TAAAAAA
* *
35267110 CCTAAGCCAAACGGTGTCGTTTTC-TCAGCTTTCGTGGAATTAGCGGCG-CTTTGACGAAAGCGC
1 CCTAAGCCAAACGGTGTCGTTTCCGT-AGCTTTCG-GGAATTAGCGGCGTCTTTG-CGAAAGCAC
*
35267173 CGCAAAAAAA
63 CGCTAAAAAA
35267183 C
1 C
35267184 ATATGTCCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
71 1 0.02
72 33 0.54
73 27 0.44
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (72 bp):
CCTAAGCCAAACGGTGTCGTTTCCGTAGCTTTCGGGAATTAGCGGCGTCTTTGCGAAAGCACCGC
TAAAAAA
Found at i:35267700 original size:7 final size:7
Alignment explanation
Indices: 35267690--35267752 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
35267680 GATTTAAAAT
35267690 TTAGGGG
1 TTAGGGG
*
35267697 TTAGGTG
1 TTAGGGG
* **
35267704 TTATGTT
1 TTAGGGG
35267711 TTAGGGG
1 TTAGGGG
35267718 TTAGGGG
1 TTAGGGG
35267725 TTAGGGG
1 TTAGGGG
35267732 ATTTAGGGG
1 --TTAGGGG
*
35267741 TTA-CGG
1 TTAGGGG
35267747 TTAGGG
1 TTAGGG
35267753 TTTCAACGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
6 5 0.11
7 33 0.73
9 7 0.16
ACGTcount: A:0.16, C:0.02, G:0.46, T:0.37
Consensus pattern (7 bp):
TTAGGGG
Found at i:35267925 original size:20 final size:20
Alignment explanation
Indices: 35267902--35267951 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
35267892 GTGTTAGAGA
35267902 TTGAGTTTGGGGTTTAAGGT
1 TTGAGTTTGGGGTTTAAGGT
* *
35267922 TTGAGTTTAGGGTTTTAGGGT
1 TTGAGTTT-GGGGTTTAAGGT
35267943 TT-AGTTTGG
1 TTGAGTTTGG
35267952 AAATTGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 13 0.48
21 12 0.44
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (20 bp):
TTGAGTTTGGGGTTTAAGGT
Found at i:35268106 original size:14 final size:14
Alignment explanation
Indices: 35268081--35268134 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
35268071 TAAAAAATAT
35268081 GGTTTA-GGTTTAC
1 GGTTTAGGGTTTAC
35268094 GGTTTAGGGTTTAC
1 GGTTTAGGGTTTAC
* *
35268108 GATTTAGAGTTTTA-
1 GGTTTAG-GGTTTAC
*
35268122 GGTTTGGGGTTTA
1 GGTTTAGGGTTTA
35268135 GGATTTATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
13 11 0.32
14 18 0.53
15 5 0.15
ACGTcount: A:0.17, C:0.04, G:0.33, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGTTTAC
Found at i:35268125 original size:28 final size:28
Alignment explanation
Indices: 35268089--35268155 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
35268079 ATGGTTTAGG
35268089 TTTACGGTTTAGGGTTTACGATTTA-GAGT
1 TTTA-GGTTTAGGGTTTACGATTTATGA-T
* *
35268118 TTTAGGTTTGGGGTTTAGGATTTATGAT
1 TTTAGGTTTAGGGTTTACGATTTATGAT
*
35268146 TTAAGGTTTA
1 TTTAGGTTTA
35268156 TGGTATATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 27 0.82
29 6 0.18
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.48
Consensus pattern (28 bp):
TTTAGGTTTAGGGTTTACGATTTATGAT
Found at i:35269642 original size:173 final size:169
Alignment explanation
Indices: 35269357--35269699 Score: 521
Period size: 173 Copynumber: 2.0 Consensus size: 169
35269347 TCGTTTTTTT
*
35269357 CCCATACATTTTACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCC
1 CCCATACATTTAACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCC
* * *
35269422 AAATCCCTAAATTTCCCCTAATCCAGATTTCCCCAAAGCCGACCTCTTGCAACGTTGCCGTTTCC
66 AAATCACTAAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCGTTTCC
35269487 TCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
131 TCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
*
35269526 CCCATACATTTAACCGAAACTTAAACCCCAACTATTGTGACTTAT-CCCCAAAAT-CCATTTCTC
1 CCCATACATTTAACCGAAACTTAAA-CCC--CTATCGTGACTTATCCCCCAAAATCCCA-TTCTC
*** *
35269589 CTTGAAAT-ATTGAGAAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGC
62 CCCCAAATCACT---AAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGC
35269653 CGTTTCCTCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
124 CGTTTCCTCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
35269699 C
1 C
35269700 GCAACAATCG
Statistics
Matches: 158, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
169 24 0.15
170 7 0.04
171 19 0.12
172 13 0.08
173 95 0.60
ACGTcount: A:0.22, C:0.39, G:0.11, T:0.28
Consensus pattern (169 bp):
CCCATACATTTAACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCC
AAATCACTAAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCGTTTCC
TCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
Found at i:35271424 original size:9 final size:9
Alignment explanation
Indices: 35271337--35271699 Score: 170
Period size: 9 Copynumber: 40.6 Consensus size: 9
35271327 TTTAATTTAA
*
35271337 TACATAATT
1 TACATAACT
35271346 TACATAACT
1 TACATAACT
*
35271355 CACATAACTT
1 TACATAAC-T
* *
35271365 TA-AAAAGT
1 TACATAACT
* *
35271373 CACAT-ACA
1 TACATAACT
35271381 TACATAACT
1 TACATAACT
*
35271390 TA-ATAAAT
1 TACATAACT
*
35271398 GGTACATAGCT
1 --TACATAACT
*
35271409 TATATAACT
1 TACATAACT
35271418 TACATAA--
1 TACATAACT
35271425 TACATAACT
1 TACATAACT
* *
35271434 TAAATAA-A
1 TACATAACT
35271442 TACATAACT
1 TACATAACT
**
35271451 TATTTAA--
1 TACATAACT
*
35271458 TACATTACT
1 TACATAACT
35271467 TACATAATAACT
1 TAC---ATAACT
*
35271479 TACATAGCT
1 TACATAACT
*
35271488 TATATAACT
1 TACATAACT
35271497 TACATAACT
1 TACATAACT
*
35271506 TATATAACT
1 TACATAACT
35271515 TACAT-AC-
1 TACATAACT
*
35271522 TCCATAACT
1 TACATAACT
*
35271531 TACATAATT
1 TACATAACT
*
35271540 TACTTAA--
1 TACATAACT
35271547 TACATAA-T
1 TACATAACT
*
35271555 CAACATATA-T
1 -TACATA-ACT
*
35271565 TAATCTTAACT
1 T-A-CATAACT
35271576 TACATAATAACT
1 TAC---ATAACT
*
35271588 TACATAGCT
1 TACATAACT
* *
35271597 TATAATAACC
1 TA-CATAACT
35271607 TACATAACT
1 TACATAACT
35271616 TACATAACT
1 TACATAACT
35271625 TACAT-AC-
1 TACATAACT
35271632 TACATAACT
1 TACATAACT
*
35271641 TACATATCT
1 TACATAACT
**
35271650 TTTAT-ACTAT
1 TACATAAC--T
35271660 ATACATAACT
1 -TACATAACT
*
35271670 TACATAATT
1 TACATAACT
*
35271679 TACTTAA--
1 TACATAACT
35271686 TACATAACT
1 TACATAACT
35271695 TACAT
1 TACAT
35271700 TGAGAAAAAT
Statistics
Matches: 263, Mismatches: 57, Indels: 68
0.68 0.15 0.18
Matches are distributed among these distances:
7 32 0.12
8 27 0.10
9 157 0.60
10 17 0.06
11 12 0.05
12 18 0.07
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:35271433 original size:16 final size:16
Alignment explanation
Indices: 35271412--35271646 Score: 109
Period size: 16 Copynumber: 14.8 Consensus size: 16
35271402 CATAGCTTAT
35271412 ATAACTTACATAATAC
1 ATAACTTACATAATAC
*
35271428 ATAACTTAAATAAATAC
1 ATAACTTACAT-AATAC
**
35271445 ATAACTTATTTAATAC
1 ATAACTTACATAATAC
*
35271461 ATTACTTAC---ATA-
1 ATAACTTACATAATAC
* *
35271473 ATAACTTACATAGCTTAT
1 ATAACTTACATA--ATAC
*
35271491 ATAACTTACATAACTTAT
1 ATAACTTACATAA--TAC
* *
35271509 ATAACTTACATACTCC
1 ATAACTTACATAATAC
35271525 ATAACTTACATAAT--
1 ATAACTTACATAATAC
*
35271539 -TTACTTA-ATACATA-
1 ATAACTTACATA-ATAC
* *
35271553 ATCAACATATATTAAT-C
1 AT-AACTTACA-TAATAC
*
35271570 TTAACTTACATAATA-
1 ATAACTTACATAATAC
* * *
35271585 ACTTACATAGC-TTATA-
1 A-TAACTTA-CATAATAC
*
35271601 ATAACCTACATAACTTAC
1 ATAACTTACATAA--TAC
*
35271619 ATAACTTACATACTAC
1 ATAACTTACATAATAC
35271635 ATAACTTACATA
1 ATAACTTACATA
35271647 TCTTTTATAC
Statistics
Matches: 169, Mismatches: 27, Indels: 46
0.70 0.11 0.19
Matches are distributed among these distances:
12 11 0.07
13 11 0.07
14 1 0.01
15 12 0.07
16 71 0.42
17 23 0.14
18 40 0.24
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:35271435 original size:25 final size:25
Alignment explanation
Indices: 35271400--35271699 Score: 108
Period size: 25 Copynumber: 12.6 Consensus size: 25
35271390 TAATAAATGG
* *
35271400 TACATAGCTTATATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
35271425 TACATAACTTAAATAA-ATACAT-A
1 TACATAACTTACATAACTTACATAA
* * *
35271448 -AC-TTATTTA-AT-ACATTACTTACA
1 TACATAACTTACATAAC-TTACATA-A
* *
35271471 TA-ATAACTTACATAGCTTATATAA
1 TACATAACTTACATAACTTACATAA
* *
35271495 CTTACATAACTTATATAACTTACATAC
1 --TACATAACTTACATAACTTACATAA
* * *
35271522 TCCATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
* *
35271547 TACATAA-TCAACAT-A--TA-TTAA
1 TACATAACT-TACATAACTTACATAA
* *
35271568 T-CTTAACTTACATAA-TAAC-T--
1 TACATAACTTACATAACTTACATAA
* * *
35271588 TACATAGCTTATAATAACCTACATAA
1 TACATAACTTA-CATAACTTACATAA
35271614 CTTACATAACTTACAT-AC-TACATAA
1 --TACATAACTTACATAACTTACATAA
* **
35271639 CTTACATATCTTTTAT-AC-T--AT-A
1 --TACATAACTTACATAACTTACATAA
* *
35271661 TACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
35271686 TACATAACTTACAT
1 TACATAACTTACAT
35271700 TGAGAAAAAT
Statistics
Matches: 205, Mismatches: 41, Indels: 58
0.67 0.13 0.19
Matches are distributed among these distances:
19 1 0.00
20 22 0.11
21 24 0.12
22 12 0.06
23 6 0.03
24 16 0.08
25 89 0.43
26 5 0.02
27 20 0.10
28 10 0.05
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:35271721 original size:110 final size:109
Alignment explanation
Indices: 35271464--35271739 Score: 271
Period size: 110 Copynumber: 2.5 Consensus size: 109
35271454 TTAATACATT
*** * *
35271464 ACTTACATAATAACTTACATAGCTTAT-ATAACTTACATAACTTATATAACTTACATACTCCATA
1 ACTTACATAATAACTTACATAGAAAATAATAACTTACATAACTTACATAACTTACATACTACATA
*
35271528 ACTTACATAATTTACTTAATACATAATCAACATATATTAATCTTA
66 ACTTACATAATTTA-TTAATACATAATCAACATACATTAATCTTA
*** *
35271573 ACTTACATAATAACTTACATAGCTTATAATAACCTACATAACTTACATAACTTACATACTACATA
1 ACTTACATAATAACTTACATAGAAAATAATAACTTACATAACTTACATAACTTACATACTACATA
* *
35271638 ACTTACAT-ATCTT-TTATACTATATACAT-AACTTACA-TAAT-TT-
66 ACTTACATAAT-TTATTA-A-TACATA-ATCAACATACATTAATCTTA
*
35271680 ACTTA-ATACATAACTTACATTGAGAAAAATATTAACTTACATAATAACTTACATAACTTA
1 ACTTACATA-ATAACTTACA-T-AG-AAAATAATAACTTAC---ATAACTTACATAACTTA
35271740 GTTATACTTA
Statistics
Matches: 144, Mismatches: 11, Indels: 20
0.82 0.06 0.11
Matches are distributed among these distances:
106 3 0.02
107 15 0.10
108 6 0.04
109 36 0.25
110 65 0.45
111 2 0.01
113 17 0.12
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (109 bp):
ACTTACATAATAACTTACATAGAAAATAATAACTTACATAACTTACATAACTTACATACTACATA
ACTTACATAATTTATTAATACATAATCAACATACATTAATCTTA
Done.