Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 192 of 356
Found at i:62575533 original size:89 final size:89
Alignment explanation
Indices: 62575173--62575554 Score: 399
Period size: 89 Copynumber: 4.3 Consensus size: 89
62575163 CGTGGCAAAT
* * * * * *
62575173 CTTATCTCCTTAAAGTTGCAGTTGAGCAGACTGAAGATAGTAGATCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
62575238 GTAGAGCAGATTAAAGCTATAAAC
66 GTAGAGCAGATTAAAGCTATAAAC
* * * * * * * * *
62575262 CTTATCTCCCTGAAGTTGTAATGAAGCA-AGTTAAAAATAAACAAATCTTCTCTCCCTAAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGAT-AGCAAATCTTATCTCCCTGAAGTTG
* *
62575326 CAGTGGAGCAGATTAAAGCCATAAAC
64 CAGTAGAGCAGATTAAAGCTATAAAC
* * ** * *
62575352 CTAATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTA-CAAGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
* * * * * **
62575416 GTGGAGTAGATTGAAGTTACAAGT
66 GTAGAGCAGATTAAAGCTATAAAC
* * *
62575440 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
*
62575505 GTAGAACAGATTAAAGCTATAAAC
66 GTAGAGCAGATTAAAGCTATAAAC
* * *
62575529 CTTATTTCTCTGAAGTTGCAATGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
62575555 AAGATGGAAG
Statistics
Matches: 232, Mismatches: 57, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
88 73 0.31
89 88 0.38
90 71 0.31
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
GTAGAGCAGATTAAAGCTATAAAC
Found at i:62577063 original size:12 final size:12
Alignment explanation
Indices: 62577046--62577072 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62577036 TTTTATTTTA
62577046 ATTCATTTATTT
1 ATTCATTTATTT
62577058 ATTCATTTATTT
1 ATTCATTTATTT
62577070 ATT
1 ATT
62577073 TACTTGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTCATTTATTT
Found at i:62580189 original size:57 final size:57
Alignment explanation
Indices: 62580126--62580288 Score: 229
Period size: 57 Copynumber: 2.8 Consensus size: 57
62580116 GAATAAAGAG
*
62580126 GAACAAGAAATATTCTCTAGCGAAAACAGTAAACATTCCCTGCAAGAAAAGACAAGT
1 GAACAAGAAATATTCTCTAGCGAAAACAGTAAATATTCCCTGCAAGAAAAGACAAGT
* *
62580183 GAACAAGAAATATTTTCTAGC-ATAAACAGTAAATATTCCCTGCAAGAAAAGACGAGT
1 GAACAAGAAATATTCTCTAGCGA-AAACAGTAAATATTCCCTGCAAGAAAAGACAAGT
* * * * *
62580240 GAACAGGAAATATTCTTTGGAGAAAATAGTAAATATTCCCTAGCAAGAA
1 GAACAAGAAATATTCTCTAGCGAAAACAGTAAATATTCCCT-GCAAGAA
62580289 CAGTAAGATG
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
56 1 0.01
57 85 0.90
58 8 0.09
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.21
Consensus pattern (57 bp):
GAACAAGAAATATTCTCTAGCGAAAACAGTAAATATTCCCTGCAAGAAAAGACAAGT
Found at i:62580392 original size:20 final size:20
Alignment explanation
Indices: 62580367--62580405 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
62580357 TATTCTCTGA
62580367 AAAGTTTCAATTATGTAATC
1 AAAGTTTCAATTATGTAATC
62580387 AAAGTTTCAATTATGTAAT
1 AAAGTTTCAATTATGTAAT
62580406 GATATAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAGTTTCAATTATGTAATC
Found at i:62580549 original size:17 final size:17
Alignment explanation
Indices: 62580527--62580580 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 17
62580517 ATCAAAACTC
62580527 GTTTCTCAAAATTTTAA
1 GTTTCTCAAAATTTTAA
*
62580544 GTTTCTCCAAATTTTTAA
1 GTTTCT-CAAAATTTTAA
62580562 GTTT-TCAAAA-TTTAA
1 GTTTCTCAAAATTTTAA
62580577 GTTT
1 GTTT
62580581 TAAATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 9 0.26
16 4 0.12
17 7 0.21
18 14 0.41
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.50
Consensus pattern (17 bp):
GTTTCTCAAAATTTTAA
Found at i:62580559 original size:18 final size:18
Alignment explanation
Indices: 62580527--62580574 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
62580517 ATCAAAACTC
*
62580527 GTTTCT-CAAAATTTTAA
1 GTTTCTCCAAATTTTTAA
62580544 GTTTCTCCAAATTTTTAA
1 GTTTCTCCAAATTTTTAA
*
62580562 GTTT-TCAAAATTT
1 GTTTCTCCAAATTT
62580575 AAGTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (18 bp):
GTTTCTCCAAATTTTTAA
Found at i:62581278 original size:20 final size:18
Alignment explanation
Indices: 62581231--62581338 Score: 64
Period size: 20 Copynumber: 5.8 Consensus size: 18
62581221 CAAGATAAAG
62581231 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
62581248 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
62581268 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
62581287 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
62581304 ATTAAATTTAATATTAAATT
1 ATTAAA-TTAATATTTAA-T
*
62581324 ATTAAAATAATATTT
1 ATTAAATTAATATTT
62581339 TTTTTGAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
16 1 0.01
17 15 0.21
18 9 0.13
19 21 0.30
20 24 0.34
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:62581669 original size:32 final size:32
Alignment explanation
Indices: 62581633--62581696 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
62581623 AATTTTTGGG
62581633 TCTATTAGGCCAATTTTCTAACTTGAAAATTA
1 TCTATTAGGCCAATTTTCTAACTTGAAAATTA
62581665 TCTATTAGGCCAATTTTCTAACTTGAAAATTA
1 TCTATTAGGCCAATTTTCTAACTTGAAAATTA
62581697 ACTTCCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (32 bp):
TCTATTAGGCCAATTTTCTAACTTGAAAATTA
Found at i:62583998 original size:43 final size:42
Alignment explanation
Indices: 62583932--62584049 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
62583922 AGCTCATACA
62583932 ATGCCAAC-GTCCTAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCTAGACAG-GGTCTTACATGTAATCAAATAT-G
*** *
62583975 ATGCCACTGTCCTAGACAGGGTCTTACACAAAATTAAATATG
1 ATGCCACTGTCCTAGACAGGGTCTTACATGTAATCAAATATG
* * * * *
62584017 ATGTCAATGTCCCAGATATGGTCTTACATGTAA
1 ATGCCACTGTCCTAGACAGGGTCTTACATGTAA
62584050 ATCATAAGGC
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
42 28 0.46
43 32 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCACTGTCCTAGACAGGGTCTTACATGTAATCAAATATG
Found at i:62584956 original size:29 final size:29
Alignment explanation
Indices: 62584914--62584972 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
62584904 TATTTTCGGC
*
62584914 AACCATATATGAAAATGAACGAAAATATG
1 AACCATATATGAAAATGAACAAAAATATG
62584943 AACCATATATGAAAATGAACAAAAATATG
1 AACCATATATGAAAATGAACAAAAATATG
62584972 A
1 A
62584973 CTTTGGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.12, T:0.20
Consensus pattern (29 bp):
AACCATATATGAAAATGAACAAAAATATG
Found at i:62591115 original size:38 final size:38
Alignment explanation
Indices: 62591073--62591145 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
62591063 ATCAAACTAT
62591073 AAGTTCAGCCATAATCTAGCCATATCACATGGCATAAC
1 AAGTTCAGCCATAATCTAGCCATATCACATGGCATAAC
62591111 AAGTTCAGCCATAATCTAGCCATATCACATGGCAT
1 AAGTTCAGCCATAATCTAGCCATATCACATGGCAT
62591146 GACATACACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.25
Consensus pattern (38 bp):
AAGTTCAGCCATAATCTAGCCATATCACATGGCATAAC
Found at i:62594372 original size:126 final size:126
Alignment explanation
Indices: 62594167--62594399 Score: 340
Period size: 126 Copynumber: 1.8 Consensus size: 126
62594157 GAAAAAACTG
* * * * * * *
62594167 ACTCTTATTTAAGCGTTGCCTTAGGCATGGATATCCCAACCTTTATATAAAGAGTTTGCCAAAGC
1 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCACAACCCTAAGACAAAGAGTTGGCCAAAGC
* ** *
62594232 GTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGGCATAGTATTAGATAAAACCA
66 GTATGCCGAAAAGTCTATCCCAACACTTAAGAAAGTGTCGGCATAGTATTAGATAAAACCA
* *
62594293 ACTCTTATTTAAGCGTTGCCTTAGGCATGCCTATCACAACCCTAAGACAAAGAGTTGGCCAAAGT
1 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCACAACCCTAAGACAAAGAGTTGGCCAAAGC
*
62594358 GTTTGCCGAAAAGTCTATCCCAACACTTAAGAAAGTGTCGGC
66 GTATGCCGAAAAGTCTATCCCAACACTTAAGAAAGTGTCGGC
62594400 CCAAAAGTTT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
126 93 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (126 bp):
ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCACAACCCTAAGACAAAGAGTTGGCCAAAGC
GTATGCCGAAAAGTCTATCCCAACACTTAAGAAAGTGTCGGCATAGTATTAGATAAAACCA
Found at i:62596364 original size:11 final size:11
Alignment explanation
Indices: 62596348--62596389 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
62596338 ACCAGATTTA
*
62596348 TTTTCTTTATT
1 TTTTCTTTCTT
*
62596359 TTTTCTCTCTT
1 TTTTCTTTCTT
*
62596370 CTTTCTTTCTT
1 TTTTCTTTCTT
62596381 TTTT-TTTCT
1 TTTTCTTTCT
62596390 CTTCATTCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 5 0.19
11 21 0.81
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:62596390 original size:23 final size:22
Alignment explanation
Indices: 62596349--62596399 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
62596339 CCAGATTTAT
62596349 TTTCTTTATTTTTTCTCTCTTC
1 TTTCTTTATTTTTTCTCTCTTC
* *
62596371 TTTCTTTCTTTTTTTTTCTCTTC
1 TTTCTTT-ATTTTTTCTCTCTTC
*
62596394 ATTCTT
1 TTTCTT
62596400 CCATGATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCTTTATTTTTTCTCTCTTC
Found at i:62612753 original size:3 final size:3
Alignment explanation
Indices: 62612745--62612803 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
62612735 GTTGGGAAAT
* * *
62612745 AGA AGA AGA AG- AGA AAA AGTA A-A AAA AGC A-A AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA
62612788 AGA AGA AGA AG- AGA AG
1 AGA AGA AGA AGA AGA AG
62612804 TTGATTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
2 7 0.15
3 37 0.80
4 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.29, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:62615626 original size:26 final size:26
Alignment explanation
Indices: 62615539--62615733 Score: 130
Period size: 26 Copynumber: 7.5 Consensus size: 26
62615529 GCACATAGTA
* * *
62615539 CCTGCTAACTAATCACTGGCTCAAAG
1 CCTGCTAAATAAACACTGGCTCAAGG
* * * * * *
62615565 CCTACTAAACAATCACCGGTTCAAAG
1 CCTGCTAAATAAACACTGGCTCAAGG
62615591 -CTGGCTAAATAAACACTGGCTCAAGG
1 CCT-GCTAAATAAACACTGGCTCAAGG
* *
62615617 CCTGCTAAATTAAA-A-TCAGCTCAACG
1 CCTGCTAAA-TAAACACT-GGCTCAAGG
* * *
62615643 CCTGTTAAATAATCA-TCGGCTCAAGA
1 CCTGCTAAATAAACACT-GGCTCAAGG
*
62615669 CCTGCTAAATAAAGACCT-GCTCAAGG
1 CCTGCTAAATAAACA-CTGGCTCAAGG
* * * *
62615695 CCTACTAAATAATCACCGACTCAAGG
1 CCTGCTAAATAAACACTGGCTCAAGG
*
62615721 CATGCTAAATAAA
1 CCTGCTAAATAAA
62615734 GTACATCTTG
Statistics
Matches: 131, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
25 7 0.05
26 117 0.89
27 6 0.05
28 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.22
Consensus pattern (26 bp):
CCTGCTAAATAAACACTGGCTCAAGG
Found at i:62615652 original size:52 final size:53
Alignment explanation
Indices: 62615595--62615734 Score: 153
Period size: 52 Copynumber: 2.7 Consensus size: 53
62615585 TCAAAGCTGG
* * *
62615595 CTAAATAAACACTGGCTCAAGGCCTGCTAAATTAAA-ATCAGCTCAACGCCTG
1 CTAAATAATCACTGGCTCAAGGCCTGCTAAATTAAAGACCAGCTCAACGCCTA
* * * *
62615647 TTAAATAATCA-TCGGCTCAAGACCTGCTAAA-TAAAGACCTGCTCAAGGCCTA
1 CTAAATAATCACT-GGCTCAAGGCCTGCTAAATTAAAGACCAGCTCAACGCCTA
* * *
62615699 CTAAATAATCACCGACTCAAGGCATGCTAAA-TAAAG
1 CTAAATAATCACTGGCTCAAGGCCTGCTAAATTAAAG
62615735 TACATCTTGC
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
51 5 0.07
52 68 0.93
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (53 bp):
CTAAATAATCACTGGCTCAAGGCCTGCTAAATTAAAGACCAGCTCAACGCCTA
Found at i:62617071 original size:65 final size:64
Alignment explanation
Indices: 62616967--62617096 Score: 188
Period size: 65 Copynumber: 2.0 Consensus size: 64
62616957 CAAAAGGTTT
* *
62616967 ACCTACATCATATCGCGGGGGTATAATACCATTTGAGAGAATTGAGCTAAACACAAGCACTAGAG
1 ACCTACATCATATCGCGGGGGAATAATACCATTTGAGAGAATGGAGCTAAACACAA-CACTAGAG
* * * * *
62617032 ACCTACATCATATTGTGGGGGAATAATATCATTTGAGAGAATGGAGTTAAACACAATACTAGAG
1 ACCTACATCATATCGCGGGGGAATAATACCATTTGAGAGAATGGAGCTAAACACAACACTAGAG
62617096 A
1 A
62617097 TGGCCCATGA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
64 8 0.14
65 50 0.86
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (64 bp):
ACCTACATCATATCGCGGGGGAATAATACCATTTGAGAGAATGGAGCTAAACACAACACTAGAG
Found at i:62620155 original size:46 final size:47
Alignment explanation
Indices: 62620088--62620181 Score: 181
Period size: 46 Copynumber: 2.0 Consensus size: 47
62620078 AATATATTTA
62620088 ACATATTTCACAAAATTGTTTACTTTATG-AAAAAAAAACCTAAACC
1 ACATATTTCACAAAATTGTTTACTTTATGAAAAAAAAAACCTAAACC
62620134 ACATATTTCACAAAATTGTTTACTTTATGAAAAAAAAAACCTAAACC
1 ACATATTTCACAAAATTGTTTACTTTATGAAAAAAAAAACCTAAACC
62620181 A
1 A
62620182 TTGAACTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 29 0.62
47 18 0.38
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (47 bp):
ACATATTTCACAAAATTGTTTACTTTATGAAAAAAAAAACCTAAACC
Found at i:62620964 original size:5 final size:5
Alignment explanation
Indices: 62620954--62620985 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
62620944 AACATTGTGA
62620954 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
62620986 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:62620979 original size:9 final size:9
Alignment explanation
Indices: 62620955--62620985 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
62620945 ACATTGTGAA
62620955 AAATAAAAT
1 AAATAAAAT
62620964 AAAATAAAAT
1 -AAATAAAAT
62620974 AAATAAAAT
1 AAATAAAAT
62620983 AAA
1 AAA
62620986 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:62628209 original size:16 final size:17
Alignment explanation
Indices: 62628182--62628214 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62628172 TATTATAATC
62628182 TATAATATAATAATAGT
1 TATAATATAATAATAGT
*
62628199 TATAA-ATAATAGTAGT
1 TATAATATAATAATAGT
62628215 ACATTATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
TATAATATAATAATAGT
Found at i:62638990 original size:17 final size:20
Alignment explanation
Indices: 62638968--62639007 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
62638958 ATCAACCATG
62638968 CATATT-TAAA-C-TCACAA
1 CATATTATAAATCATCACAA
62638985 CATATTATAAATCATCACAA
1 CATATTATAAATCATCACAA
62639005 CAT
1 CAT
62639008 TCTTGAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 4 0.20
19 1 0.05
20 9 0.45
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (20 bp):
CATATTATAAATCATCACAA
Found at i:62639374 original size:48 final size:48
Alignment explanation
Indices: 62639283--62639417 Score: 143
Period size: 48 Copynumber: 2.8 Consensus size: 48
62639273 TAAGTTTTAT
* * * *
62639283 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATAATGTCGCC
* * *
62639331 GATGCAATGTCCCAAACATGGTCTTACATTGGCACACGA-AATGTCGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCACAC-ATAATGTCGCC
*
62639379 GATGCCATG-CTCTAAACAT-GTCTTACAC-GAGCACACATA
1 GATGCCATGTC-CCAAACATGGTCTTACACTG-GCACACATA
62639418 TCACCCAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
46 2 0.03
47 16 0.22
48 54 0.74
49 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATAATGTCGCC
Found at i:62656038 original size:16 final size:16
Alignment explanation
Indices: 62656013--62656048 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
62656003 GGGATTATCA
62656013 AAGGAAAAAGTTCACC
1 AAGGAAAAAGTTCACC
*
62656029 AAGGAGAAAGTTCACC
1 AAGGAAAAAGTTCACC
62656045 AAGG
1 AAGG
62656049 GCAACTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.25, T:0.11
Consensus pattern (16 bp):
AAGGAAAAAGTTCACC
Found at i:62659035 original size:17 final size:17
Alignment explanation
Indices: 62659005--62659047 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
62658995 GTATTATGTA
62659005 AAAATATTTACAAATAT
1 AAAATATTTACAAATAT
*
62659022 CAAATAATTT-CAAATAT
1 AAAAT-ATTTACAAATAT
62659039 AAAAT-TTTA
1 AAAATATTTA
62659048 ATTAAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATATTTACAAATAT
Found at i:62667122 original size:14 final size:15
Alignment explanation
Indices: 62667103--62667135 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
62667093 TTTTTAAAAA
62667103 AATAT-ATAAAAATT
1 AATATAATAAAAATT
62667117 AATATAATAAAAATT
1 AATATAATAAAAATT
62667132 AATA
1 AATA
62667136 CAACCAAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATATAATAAAAATT
Found at i:62667970 original size:48 final size:47
Alignment explanation
Indices: 62667865--62667994 Score: 129
Period size: 48 Copynumber: 2.7 Consensus size: 47
62667855 TAATTTTAAT
* * *
62667865 TTTTCAATACTATTCGATATTTTTTAATTTATGCAAATTTAAATATAA
1 TTTT-AATACTATTTGATATTTTTTCATTTATGCAAATTTAAATAAAA
* * *
62667913 TTTGCAATACTATTTGATATTTTATTCATATATGC-AATTATAATTAAAA
1 TTT-TAATACTATTTGATATTTT-TTCATTTATGCAAATT-TAAATAAAA
*
62667962 TTTTAATACTACTTGA-ATTGTTTTTCATTTATG
1 TTTTAATACTATTTGATA-T-TTTTTCATTTATG
62667995 ATGTTTGCAT
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
47 1 0.01
48 45 0.66
49 22 0.32
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (47 bp):
TTTTAATACTATTTGATATTTTTTCATTTATGCAAATTTAAATAAAA
Found at i:62668927 original size:9 final size:9
Alignment explanation
Indices: 62668913--62668971 Score: 93
Period size: 9 Copynumber: 6.6 Consensus size: 9
62668903 ATAAGTATAA
62668913 AATTAACCG
1 AATTAACCG
62668922 AATTAACCG
1 AATTAACCG
*
62668931 AATTACCCG
1 AATTAACCG
62668940 AATT-ACCTG
1 AATTAACC-G
62668949 AATTAACCG
1 AATTAACCG
62668958 AATTAACCG
1 AATTAACCG
62668967 AATTA
1 AATTA
62668972 TTTGTATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 2 0.04
9 41 0.89
10 3 0.07
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:62669008 original size:14 final size:14
Alignment explanation
Indices: 62668983--62669029 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
62668973 TTGTATAAAA
62668983 TTATATTTTTTATATT
1 TTATA-TTTTTAT-TT
62668999 TT-TATTTTTATTT
1 TTATATTTTTATTT
*
62669012 TTAGATTTTTATTT
1 TTATATTTTTATTT
62669026 TTAT
1 TTAT
62669030 TTATTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 4 0.14
14 20 0.71
15 2 0.07
16 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (14 bp):
TTATATTTTTATTT
Found at i:62669012 original size:5 final size:6
Alignment explanation
Indices: 62668990--62669031 Score: 57
Period size: 6 Copynumber: 6.5 Consensus size: 6
62668980 AAATTATATT
62668990 TTTTATA TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTT-TA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
62669032 ATTACATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 23 0.70
7 4 0.12
8 6 0.18
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:62669014 original size:20 final size:20
Alignment explanation
Indices: 62668989--62669031 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
62668979 AAAATTATAT
*
62668989 TTTTTATATTTTTATTTTTA
1 TTTTTAGATTTTTATTTTTA
62669009 TTTTTAGATTTTTATTTTTA
1 TTTTTAGATTTTTATTTTTA
62669029 TTT
1 TTT
62669032 ATTACATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTAGATTTTTATTTTTA
Found at i:62670263 original size:18 final size:18
Alignment explanation
Indices: 62670240--62670281 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
62670230 GCTAGGTGCA
*
62670240 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
62670258 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
62670276 TTTCCT
1 TATCCT
62670282 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:62673229 original size:126 final size:126
Alignment explanation
Indices: 62673004--62673258 Score: 456
Period size: 126 Copynumber: 2.0 Consensus size: 126
62672994 TTATAGCCTC
*
62673004 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
*
62673069 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTATCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
62673130 ATTTTTCTATGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* *
62673195 ACCGTGTATCCTGCTTGAAGCGTTATCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTATCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
62673256 ATT
1 ATT
62673259 CTTGCAAAAA
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 123 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTATCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:62673839 original size:19 final size:19
Alignment explanation
Indices: 62673801--62673871 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
62673791 ACGATTATGT
* *
62673801 ATCAAATAACTCTAAATTTA
1 ATCAATTAACCCT-AATTTA
62673821 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
*
62673840 ATCAA-T--CCATAATTTA
1 ATCAATTAACCCTAATTTA
*
62673856 ATCAATTAATCCTAAT
1 ATCAATTAACCCTAAT
62673872 ACCCTAAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 14 0.33
17 1 0.02
18 1 0.02
19 16 0.37
20 11 0.26
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:62673996 original size:15 final size:16
Alignment explanation
Indices: 62673970--62674005 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
62673960 ATTTTAAACA
62673970 CTAAAAACCCCTAACC
1 CTAAAAACCCCTAACC
62673986 CTAAAAA-CCCTAACC
1 CTAAAAACCCCTAACC
*
62674001 TTAAA
1 CTAAA
62674006 TCCTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (16 bp):
CTAAAAACCCCTAACC
Found at i:62676112 original size:45 final size:45
Alignment explanation
Indices: 62676063--62676277 Score: 340
Period size: 45 Copynumber: 4.8 Consensus size: 45
62676053 TTTCACCAGC
* *
62676063 ATTATAGCCTGCTAAGCTCGAAGGCCCGAACAGTATCTCACCGGT
1 ATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGT
62676108 ATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGT
1 ATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGT
* * *
62676153 ATTATAGCCTGCTAGGTTCGAAGACCCGAATAGTATCTCATCGGT
1 ATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGT
* * *
62676198 ATTATAGCCTGCTATGCTCAAAGGCCCGAATAGTATCTCACCGGC
1 ATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGT
* *
62676243 ATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTA
1 ATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTA
62676278 CTGTACGATA
Statistics
Matches: 157, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 157 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (45 bp):
ATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGT
Found at i:62677132 original size:47 final size:47
Alignment explanation
Indices: 62677080--62677274 Score: 345
Period size: 47 Copynumber: 4.1 Consensus size: 47
62677070 AAAATTTTCT
*
62677080 TTAACTAAGTAACTTATCTGGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
62677127 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
62677174 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
* * *
62677221 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAATAAGC
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
62677268 TTTAACT
1 -TTAACT
62677275 TCAACTTATA
Statistics
Matches: 143, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
47 137 0.96
48 6 0.04
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:62683882 original size:18 final size:18
Alignment explanation
Indices: 62683859--62683897 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
62683849 TATAGCCTGC
62683859 TAGGCTCGAAGACCCGAA
1 TAGGCTCGAAGACCCGAA
62683877 TAGGCTCGAAGACCCGAA
1 TAGGCTCGAAGACCCGAA
62683895 TAG
1 TAG
62683898 TATCTCACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.26, G:0.28, T:0.13
Consensus pattern (18 bp):
TAGGCTCGAAGACCCGAA
Found at i:62683913 original size:63 final size:63
Alignment explanation
Indices: 62683814--62683942 Score: 215
Period size: 63 Copynumber: 2.0 Consensus size: 63
62683804 TATAGCCTGC
*
62683814 TAGGCTCGAAGGCCCGAACAGTATCTCACCGTTATTATAGCCTGCTAGGCTCGAAGACCCGAA
1 TAGGCTCGAAGACCCGAACAGTATCTCACCGTTATTATAGCCTGCTAGGCTCGAAGACCCGAA
* *
62683877 TAGGCTCGAAGACCCGAATAGTATCTCACCAG-TATTATAGCCTGCTAGGTTCGAAGACCCGAA
1 TAGGCTCGAAGACCCGAACAGTATCTCACC-GTTATTATAGCCTGCTAGGCTCGAAGACCCGAA
62683940 TAG
1 TAG
62683943 TATCTCATCG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
63 61 0.98
64 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (63 bp):
TAGGCTCGAAGACCCGAACAGTATCTCACCGTTATTATAGCCTGCTAGGCTCGAAGACCCGAA
Found at i:62683946 original size:45 final size:45
Alignment explanation
Indices: 62683877--62684034 Score: 244
Period size: 45 Copynumber: 3.5 Consensus size: 45
62683867 AAGACCCGAA
* *
62683877 TAGGCTCGAAGACCCGAATAGTATCTCACCAGTATTATAGCCTGC
1 TAGGCTCAAAGACCCGAATAGTATCTCACCGGTATTATAGCCTGC
* * *
62683922 TAGGTTCGAAGACCCGAATAGTATCTCATCGGTATTATAGCCTGC
1 TAGGCTCAAAGACCCGAATAGTATCTCACCGGTATTATAGCCTGC
* *
62683967 TAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAGCCTGC
1 TAGGCTCAAAGACCCGAATAGTATCTCACCGGTATTATAGCCTGC
*
62684012 TAGGCTCAAAGACCTGAATAGTA
1 TAGGCTCAAAGACCCGAATAGTA
62684035 CTATACGATA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 103 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (45 bp):
TAGGCTCAAAGACCCGAATAGTATCTCACCGGTATTATAGCCTGC
Found at i:62684891 original size:47 final size:48
Alignment explanation
Indices: 62684837--62684939 Score: 172
Period size: 47 Copynumber: 2.2 Consensus size: 48
62684827 TTAAAATTTT
* *
62684837 CTTTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAG
1 CTTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAA
*
62684885 C-TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAA
1 CTTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAA
62684932 CTTTAACT
1 CTTTAACT
62684940 TCAACTTATA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
47 44 0.86
48 7 0.14
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.30
Consensus pattern (48 bp):
CTTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAA
Found at i:62687604 original size:153 final size:153
Alignment explanation
Indices: 62687326--62687624 Score: 436
Period size: 153 Copynumber: 2.0 Consensus size: 153
62687316 ACACGCCCGT
* * * * *
62687326 GTGGCTAGGTCGTGTGGGCATTCGAAATGAGATCACATGCCCGTGTCTCAACCTATGTCCGACCC
1 GTGGCTAGGCCATGTGGGCATTCGAAATGAGATCACATGCCCATATCTCAACCCATGTCCGACCC
* * * *
62687391 TGTTTAACTCACTAACTTGGGTCACACGGCCAGCCCACACGCCCATGTGCCAGGTCGTGTGCCCT
66 CGTGTAACTCACTAACTTGGGTCACACGGCCAGACCACACGCCCATGTGCCAGGCCGTGTGCCCT
***
62687456 TTGAAATGGCCTCACATGCCTGC
131 CCAAAATGGCCTCACATGCCTGC
* * * *
62687479 GTGGCTAGGCCATGTGGGCATTTGAAATGAGATCACATGGCCATATCTTAACCCGTGTCCGACCC
1 GTGGCTAGGCCATGTGGGCATTCGAAATGAGATCACATGCCCATATCTCAACCCATGTCCGACCC
**
62687544 CGTGTAACTCACTAACTTGGGTCACACGGCCAGACCACACGCCTGTGTGCCAGGCCGTGTGCCCT
66 CGTGTAACTCACTAACTTGGGTCACACGGCCAGACCACACGCCCATGTGCCAGGCCGTGTGCCCT
62687609 CCAAAATGGCCTCACA
131 CCAAAATGGCCTCACA
62687625 CACCCGTGTG
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
153 128 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (153 bp):
GTGGCTAGGCCATGTGGGCATTCGAAATGAGATCACATGCCCATATCTCAACCCATGTCCGACCC
CGTGTAACTCACTAACTTGGGTCACACGGCCAGACCACACGCCCATGTGCCAGGCCGTGTGCCCT
CCAAAATGGCCTCACATGCCTGC
Found at i:62691948 original size:25 final size:25
Alignment explanation
Indices: 62691920--62691997 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
62691910 CTCCTCCGAA
*
62691920 CTGAATATCGGTAAGCTCATATGAG
1 CTGAATATCGGTAAGCTCATACGAG
* *
62691945 CTGAGTATTGGTAAGCTC-TCACGAG
1 CTGAATATCGGTAAGCTCAT-ACGAG
*
62691970 CAGCAA-ATCGGTAAGCTCATACGAG
1 CTG-AATATCGGTAAGCTCATACGAG
62691995 CTG
1 CTG
62691998 TGGTGAGTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 1 0.02
25 40 0.93
26 2 0.05
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (25 bp):
CTGAATATCGGTAAGCTCATACGAG
Found at i:62693597 original size:26 final size:27
Alignment explanation
Indices: 62693554--62693606 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
62693544 ATCCTTTAAC
* * *
62693554 CAAACCCTAAATTTGAATCTTGAACCT
1 CAAACCCTAAAATCGAATATTGAACCT
62693581 CAAACCC-AAAATCGAATATTGAACCT
1 CAAACCCTAAAATCGAATATTGAACCT
62693607 TAAATCATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.25
Consensus pattern (27 bp):
CAAACCCTAAAATCGAATATTGAACCT
Found at i:62697035 original size:104 final size:105
Alignment explanation
Indices: 62696791--62697036 Score: 275
Period size: 104 Copynumber: 2.4 Consensus size: 105
62696781 AATTTGCCCA
* *
62696791 TGTGATTCTAAATCATAAACAATGAGTTAC-ACGACTGAGACACACACCTATGTCCTTGCCTGTG
1 TGTGATTCTAAATCATAAACAATGAGTTACAAGGCCTGAGACACACACCTATGTCCTTGCCTGTG
* * *
62696855 TGGCTCACACGGCCTAGTACATGCCAATGTCATCTACCCG
66 TGGCTCACACAGCCTAGCACATGCCAATGTCATCTAACCG
* * * * * *
62696895 TATGGTTCTAAGTCATAAACAGTGAGTTACACGGCCT-AGACACACACTTATGTCCTTG-CTCGT
1 TGTGATTCTAAATCATAAACAATGAGTTACAAGGCCTGAGACACACACCTATGTCCTTGCCT-GT
* * ** * **
62696958 GTGGCTCA-ACAGCTTGGGCACATGCTTATGTCATTTAATTG
65 GTGGCTCACACAGCCT-AGCACATGCCAATGTCATCTAACCG
*
62696999 TGTGATTCTAAATCATAAAAAATGAGTTACAAGGCCTG
1 TGTGATTCTAAATCATAAACAATGAGTTACAAGGCCTG
62697037 TACACATGCC
Statistics
Matches: 114, Mismatches: 24, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
103 7 0.06
104 104 0.91
105 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (105 bp):
TGTGATTCTAAATCATAAACAATGAGTTACAAGGCCTGAGACACACACCTATGTCCTTGCCTGTG
TGGCTCACACAGCCTAGCACATGCCAATGTCATCTAACCG
Found at i:62704266 original size:225 final size:225
Alignment explanation
Indices: 62703875--62704327 Score: 834
Period size: 225 Copynumber: 2.0 Consensus size: 225
62703865 AAATTTAGAT
*
62703875 TATAAATACATTGTGAAGGTCAGTGCTCGTGTTGGGCAACATTCATGGCCTCAAAAATAAGATTT
1 TATAAATACATTGTGAAGGTCAGTGCTCGTGTTGGGCAACATTCACGGCCTCAAAAATAAGATTT
62703940 AGATCCTATTCAGATACCACACATCCTGAAAACATGCCCATGTCATCTTCCTACGTGGTTATAAA
66 AGATCCTATTCAGATACCACACATCCTGAAAACATGCCCATGTCATCTTCCTACGTGGTTATAAA
62704005 TTATAAACAGTGAGTTACACTGTAACAACCCAGTTTTGGCTAAATCAGAACAGTGGTTTCAGAAC
131 TTATAAACAGTGAGTTACACTGTAACAACCCAGTTTTGGCTAAATCAGAACAGTGGTTTCAGAAC
*
62704070 CATAAATTAAATGTCGAAAAATTATTTTAA
196 CATAAATTAAATGTCAAAAAATTATTTTAA
62704100 TATAAATACATTGTGAAGGTCAGTGCTCGTGTTGGGCAACATTCACGGCCTCAAAAATAAGATTT
1 TATAAATACATTGTGAAGGTCAGTGCTCGTGTTGGGCAACATTCACGGCCTCAAAAATAAGATTT
* *
62704165 AGATCCTATTCAGATACCACACTTCCTGGAAACATGCCCATGTCATCTTCCTACGTGGTTATAAA
66 AGATCCTATTCAGATACCACACATCCTGAAAACATGCCCATGTCATCTTCCTACGTGGTTATAAA
* *
62704230 TTATAAACAGTGAGTTACACTGTAATAGCCCAGTTTTGGCTAAATCAGAACAGTGGTTTCAGAAC
131 TTATAAACAGTGAGTTACACTGTAACAACCCAGTTTTGGCTAAATCAGAACAGTGGTTTCAGAAC
**
62704295 CATAAATTCGATGTCAAAAAATTATTTTAA
196 CATAAATTAAATGTCAAAAAATTATTTTAA
62704325 TAT
1 TAT
62704328 TATTTTATGT
Statistics
Matches: 220, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
225 220 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (225 bp):
TATAAATACATTGTGAAGGTCAGTGCTCGTGTTGGGCAACATTCACGGCCTCAAAAATAAGATTT
AGATCCTATTCAGATACCACACATCCTGAAAACATGCCCATGTCATCTTCCTACGTGGTTATAAA
TTATAAACAGTGAGTTACACTGTAACAACCCAGTTTTGGCTAAATCAGAACAGTGGTTTCAGAAC
CATAAATTAAATGTCAAAAAATTATTTTAA
Found at i:62707842 original size:46 final size:46
Alignment explanation
Indices: 62707790--62707882 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
62707780 GTTGAGTAAG
*
62707790 TATGCCAGGGAATATTTTTCTACCGAAGAGATTATGTGTAAGCGGT
1 TATGCCAGGGAATAGTTTTCTACCGAAGAGATTATGTGTAAGCGGT
*
62707836 TATGCCAGGGAATAGTTTTCTACTGAAGAGATTATGTGTAAGCGGT
1 TATGCCAGGGAATAGTTTTCTACCGAAGAGATTATGTGTAAGCGGT
62707882 T
1 T
62707883 CGTCGACGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (46 bp):
TATGCCAGGGAATAGTTTTCTACCGAAGAGATTATGTGTAAGCGGT
Found at i:62714746 original size:39 final size:39
Alignment explanation
Indices: 62714692--62714899 Score: 319
Period size: 39 Copynumber: 5.3 Consensus size: 39
62714682 TAATGGAGAA
62714692 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
62714731 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
62714770 TTATATCCGGGCTAAGTCCCGAAGTCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
62714809 CTATATCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
62714848 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
62714887 TTATATCCAGGCT
1 TTATATCCGGGCT
62714900 TAAAGTCTCG
Statistics
Matches: 154, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 142 0.92
40 12 0.08
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:62731625 original size:151 final size:151
Alignment explanation
Indices: 62731428--62731711 Score: 417
Period size: 151 Copynumber: 1.9 Consensus size: 151
62731418 TTCTCAAAAA
* * * * * *
62731428 AATAATATTTTATTATTTTTAAATTTTAATAATGTGACACTTTTTTATTGGCGTC-TAAAATTAT
1 AATAATATTTTATTATTTTTAAAATTTAATAATGTGACACTATTTTATTAGCGCCAAAAAAATAT
* * *
62731492 ATTTTTTAGATCATCTTAATATAATTTATTTTTTTAAAATGAAGGATGGGGTTTTATATTGAAAT
66 ATTTTTTAGATAATCTTAATATAATTTATTTTTTTAAAACGAAGGAT-GGGTTTTATACTGAAAT
62731557 TAATAGATATAGATGAGTGTAT
130 TAATAGATATAGATGAGTGTAT
* * ** *
62731579 AATAATATTTTGTTATTTTTAAAATTTAATGATGTGGTACTATTTTATTAGTGCCAAAAAAATAT
1 AATAATATTTTATTATTTTTAAAATTTAATAATGTGACACTATTTTATTAGCGCCAAAAAAATAT
*
62731644 ATTTTTTAGATAATCTTAATATAATTTATTTTTTTTAAACGAAGGATGGGTTTTATACTGAAATT
66 ATTTTTTAGATAATCTTAATATAATTTATTTTTTTAAAACGAAGGATGGGTTTTATACTGAAATT
62731709 AAT
131 AAT
62731712 GGAATAATTT
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
151 66 0.56
152 51 0.44
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (151 bp):
AATAATATTTTATTATTTTTAAAATTTAATAATGTGACACTATTTTATTAGCGCCAAAAAAATAT
ATTTTTTAGATAATCTTAATATAATTTATTTTTTTAAAACGAAGGATGGGTTTTATACTGAAATT
AATAGATATAGATGAGTGTAT
Found at i:62737582 original size:23 final size:24
Alignment explanation
Indices: 62737531--62737586 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
62737521 TCAGCTCGTA
* * *
62737531 AGAGCTTACTGTTTTCAACTCGTT
1 AGAGCTTACTGATTTCAACTCATC
*
62737555 GGAGCTTACTGATTT-AACTCATC
1 AGAGCTTACTGATTTCAACTCATC
62737578 AGAGCTTAC
1 AGAGCTTAC
62737587 CGTTTCAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (24 bp):
AGAGCTTACTGATTTCAACTCATC
Found at i:62744354 original size:22 final size:22
Alignment explanation
Indices: 62744293--62744346 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
62744283 AGCTGGAAAT
62744293 AGGAAGCTCTATTGAGCTGAAC
1 AGGAAGCTCTATTGAGCTGAAC
*
62744315 GGGAAGCTCTATTGAGCTGAAC
1 AGGAAGCTCTATTGAGCTGAAC
62744337 AGGAAGCTCT
1 AGGAAGCTCT
62744347 TACGAGCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (22 bp):
AGGAAGCTCTATTGAGCTGAAC
Found at i:62751887 original size:25 final size:25
Alignment explanation
Indices: 62751838--62751889 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
62751828 AAAATTGTTT
*
62751838 TAAGAATTTTATTTCTAAAAGAAAA
1 TAAGAATTTTATTTCGAAAAGAAAA
*
62751863 TAAGAATTTTATTT-GAAATGTAAAA
1 TAAGAATTTTATTTCGAAAAG-AAAA
62751888 TA
1 TA
62751890 TAATGGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (25 bp):
TAAGAATTTTATTTCGAAAAGAAAA
Found at i:62758041 original size:23 final size:23
Alignment explanation
Indices: 62758011--62758073 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
62758001 CAACTCGTAT
62758011 GAGCTTACCGATTCAGCCCATAA
1 GAGCTTACCGATTCAGCCCATAA
* * **
62758034 GAGCTTACCGTTTCAGCTCATTG
1 GAGCTTACCGATTCAGCCCATAA
* *
62758057 GAGATTATCGATTCAGC
1 GAGCTTACCGATTCAGC
62758074 TTGATAGAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (23 bp):
GAGCTTACCGATTCAGCCCATAA
Found at i:62758086 original size:46 final size:47
Alignment explanation
Indices: 62758033--62758147 Score: 135
Period size: 46 Copynumber: 2.4 Consensus size: 47
62758023 TCAGCCCATA
* * * *
62758033 AGAGCTTACCGTTTCAGCTCATTGGAGATTATCG-ATTCAGCTTGAT
1 AGAGCTTACTGTTTCAGCTCAATAGAGATTATCGTATTCAGCTTAAT
* * *
62758079 AGAGCTTACTGTTT-AGCTCAATAGAGCTTATCGTTTTCAGGTTAAT
1 AGAGCTTACTGTTTCAGCTCAATAGAGATTATCGTATTCAGCTTAAT
62758125 AGAGCTTACTGTTTATCAGCTCA
1 AGAGCTTACTG-TT-TCAGCTCA
62758148 GGAGGAGCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
45 16 0.28
46 33 0.57
47 2 0.03
48 1 0.02
49 6 0.10
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (47 bp):
AGAGCTTACTGTTTCAGCTCAATAGAGATTATCGTATTCAGCTTAAT
Found at i:62758138 original size:24 final size:24
Alignment explanation
Indices: 62758068--62758145 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
62758058 AGATTATCGA
*
62758068 TTCAGCTTGATAGAGCTTACTG-T
1 TTCAGCTTAATAGAGCTTACTGTT
*
62758091 TT-AGCTCAATAGAGCTTA-TCGTT
1 TTCAGCTTAATAGAGCTTACT-GTT
*
62758114 TTCAGGTTAATAGAGCTTACTGTT
1 TTCAGCTTAATAGAGCTTACTGTT
62758138 TATCAGCT
1 T-TCAGCT
62758146 CAGGAGGAGC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
21 1 0.02
22 15 0.33
23 5 0.11
24 18 0.40
25 6 0.13
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (24 bp):
TTCAGCTTAATAGAGCTTACTGTT
Found at i:62758344 original size:20 final size:20
Alignment explanation
Indices: 62758321--62758382 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
62758311 GTTATTATTG
62758321 ATGAATTACTGGTTATACGA
1 ATGAATTACTGGTTATACGA
* * *
62758341 ATGAACTACTAGTTATATGA
1 ATGAATTACTGGTTATACGA
* *
62758361 ATGAATTACAGTTTATACGA
1 ATGAATTACTGGTTATACGA
62758381 AT
1 AT
62758383 AGAAATGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGAATTACTGGTTATACGA
Found at i:62761632 original size:24 final size:24
Alignment explanation
Indices: 62761594--62761641 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
62761584 TATTAAACAT
*
62761594 ATAATATAATATTTATATAATAAA
1 ATAATATAATATTTAAATAATAAA
62761618 ATAA-ATAATATTTTAAATAATAAA
1 ATAATATAATA-TTTAAATAATAAA
62761642 TCTTTCACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATATAATATTTAAATAATAAA
Found at i:62763745 original size:18 final size:20
Alignment explanation
Indices: 62763707--62763748 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
62763697 TTGCAAAAGG
*
62763707 TGTAAAATATGTGGTAAAAA
1 TGTAAAATATATGGTAAAAA
62763727 TGTAAAATA-ATGG-AAAAA
1 TGTAAAATATATGGTAAAAA
62763745 TGTA
1 TGTA
62763749 GGCTGCCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 3 0.14
20 9 0.43
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (20 bp):
TGTAAAATATATGGTAAAAA
Found at i:62764306 original size:44 final size:44
Alignment explanation
Indices: 62764240--62764357 Score: 175
Period size: 44 Copynumber: 2.7 Consensus size: 44
62764230 CGTTGCAGAA
* *
62764240 AAGGATTTAGCCCGGACGGGTAATCCGTTGATCTCAAATATAGG
1 AAGGATTTAGCCCAGACAGGTAATCCGTTGATCTCAAATATAGG
*
62764284 AAGGATTTAGCCTAGACAGGTAATCCGTTGATCTCAAATATAGG
1 AAGGATTTAGCCCAGACAGGTAATCCGTTGATCTCAAATATAGG
* * *
62764328 AAGGATTTAGCCCGGACGGGTATTCC-TTGA
1 AAGGATTTAGCCCAGACAGGTAATCCGTTGA
62764358 GTGATCGAGC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
43 4 0.06
44 63 0.94
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (44 bp):
AAGGATTTAGCCCAGACAGGTAATCCGTTGATCTCAAATATAGG
Found at i:62775773 original size:35 final size:35
Alignment explanation
Indices: 62775746--62775873 Score: 157
Period size: 35 Copynumber: 3.5 Consensus size: 35
62775736 CATGGAAAAG
*
62775746 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
* *
62775781 TGTAAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
62775816 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
**
62775856 TAAGAAATGTAGGTATGG
1 TGTGAAATGTAGGTATGG
62775874 CATTTCCCTT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
35 49 0.61
38 3 0.04
40 28 0.35
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:62775836 original size:40 final size:40
Alignment explanation
Indices: 62775757--62775873 Score: 122
Period size: 40 Copynumber: 3.0 Consensus size: 40
62775747 GTGAAATGTA
* *
62775757 GGTATGGTATCATCCATACTGAGTTGTAAAATGTAGGTAT
1 GGTATGGTATAATCCATACTGAGTTGTGAAATGTAGGTAT
*
62775797 GGTA---T-T-ATCCATACTGAGCTGTGAAATGTAGGTAT
1 GGTATGGTATAATCCATACTGAGTTGTGAAATGTAGGTAT
**
62775832 GGTAT--TATCAAATCCATACTGAGTTAAGAAATGTAGGTAT
1 GGTATGGTAT--AATCCATACTGAGTTGTGAAATGTAGGTAT
62775872 GG
1 GG
62775874 CATTTCCCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
35 31 0.46
36 2 0.03
37 2 0.03
40 32 0.48
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (40 bp):
GGTATGGTATAATCCATACTGAGTTGTGAAATGTAGGTAT
Found at i:62775866 original size:75 final size:75
Alignment explanation
Indices: 62775746--62775916 Score: 196
Period size: 75 Copynumber: 2.4 Consensus size: 75
62775736 CATGGAAAAG
* *
62775746 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTAAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATT-TC
*
62775805 CCATACTGAGC
65 CCATACCGAGC
62775816 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAGAAATGTAGGTATGGCATTTC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAA-AAATGTAGGTATGGCATTTC
* *
62775880 CCTTACCGAGT
65 CCATACCGAGC
** *
62775891 TGAAAAAAGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
62775917 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 6 0.07
75 58 0.67
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:62781165 original size:47 final size:47
Alignment explanation
Indices: 62781101--62781211 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
62781091 GACATTGAGT
*
62781101 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
62781148 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
62781195 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
62781212 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:62783058 original size:17 final size:17
Alignment explanation
Indices: 62783036--62783069 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62783026 TAATGGAAAC
62783036 TAATCTTAGAAGATTTG
1 TAATCTTAGAAGATTTG
*
62783053 TAATCTTATAAGATTTG
1 TAATCTTAGAAGATTTG
62783070 ATTTTGTAAT
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:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (17 bp):
TAATCTTAGAAGATTTG
Found at i:62788604 original size:20 final size:19
Alignment explanation
Indices: 62788564--62788616 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
62788554 CATTAAAGAC
*
62788564 AAATATTAATAAATTATTTA
1 AAATATTAA-AAATTAATTA
*
62788584 AACATATTAAATATTAATTA
1 AA-ATATTAAAAATTAATTA
62788604 AAATTATTAAAAA
1 AAA-TATTAAAAA
62788617 AATTCTCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.71
21 7 0.25
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATATTAAAAATTAATTA
Found at i:62793316 original size:112 final size:114
Alignment explanation
Indices: 62793157--62793382 Score: 377
Period size: 112 Copynumber: 2.0 Consensus size: 114
62793147 CATCAGTTAA
*
62793157 ATGGTATGCTATGTATCCGTAGAATCTTAGCTGTAGCTTGATGGTAGTTAAAGTACTAATTAAC-
1 ATGGTATGCTATGTATCCGTAGAATCTTAGCTGTAGCTTGATAGTAGTTAAAGTACTAATTAACG
62793221 G-GCAATTTACGAGTGATAAATATAGTCAAGAACATAGATCAAGCTTTAG
66 GTGCAATTTACGAGTGAT-AATATAGTCAAGAACATAGATCAAGCTTTAG
62793270 ATGGTATGCTATGTAT-CGTAGAATCTTAGCTGTAGCTTGATAGTAGTTAAAGTACTAATTAACG
1 ATGGTATGCTATGTATCCGTAGAATCTTAGCTGTAGCTTGATAGTAGTTAAAGTACTAATTAAC-
62793334 GAAGGTGCAATTTACGAGTGATAATATAGTCAAGAACATAGATCAAGCT
65 ---GGTGCAATTTACGAGTGATAATATAGTCAAGAACATAGATCAAGCT
62793383 CCCTCGCTCA
Statistics
Matches: 106, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
112 46 0.43
113 16 0.15
117 28 0.26
118 16 0.15
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (114 bp):
ATGGTATGCTATGTATCCGTAGAATCTTAGCTGTAGCTTGATAGTAGTTAAAGTACTAATTAACG
GTGCAATTTACGAGTGATAATATAGTCAAGAACATAGATCAAGCTTTAG
Found at i:62795450 original size:15 final size:15
Alignment explanation
Indices: 62795408--62795452 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
62795398 AAGAAAATTG
* *
62795408 GAAAGATGGAAAATT
1 GAAAGATAGAAAATA
*
62795423 GAAAGGGTAGAAAATA
1 GAAA-GATAGAAAATA
62795439 GAAAGATAGAAAAT
1 GAAAGATAGAAAAT
62795453 GTAATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.16
Consensus pattern (15 bp):
GAAAGATAGAAAATA
Found at i:62806560 original size:58 final size:59
Alignment explanation
Indices: 62806487--62806608 Score: 201
Period size: 58 Copynumber: 2.1 Consensus size: 59
62806477 AATTTTTCCA
* *
62806487 ACACATTAATAAATTACACTAGACTTTAAAATTGTTGTGGTTTA-GTTTCCTTTAGTAG
1 ACACATTAATAAATTACACTAAACTTTAAAAATGTTGTGGTTTAGGTTTCCTTTAGTAG
*
62806545 ACACATTAATCAATTACACTAAACTTTAAAAATGTTGTGGTTTAGGTTTCCTTTAGTAG
1 ACACATTAATAAATTACACTAAACTTTAAAAATGTTGTGGTTTAGGTTTCCTTTAGTAG
*
62806604 CCACA
1 ACACA
62806609 AGACTAATGG
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 41 0.69
59 18 0.31
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (59 bp):
ACACATTAATAAATTACACTAAACTTTAAAAATGTTGTGGTTTAGGTTTCCTTTAGTAG
Found at i:62813192 original size:26 final size:25
Alignment explanation
Indices: 62813152--62813213 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
62813142 ACATATTTTC
*
62813152 TCAAAATTTTTCCAAAGGC-AAAATCG
1 TCAAAATTTTACC-AA-GCAAAAATCG
*
62813178 TTAAAATTTTACCAAGCATAAAATCG
1 TCAAAATTTTACCAAGCA-AAAATCG
62813204 TCAAAATTTT
1 TCAAAATTTT
62813214 GTTAGAGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 2 0.06
25 2 0.06
26 27 0.87
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACCAAGCAAAAATCG
Found at i:62824900 original size:17 final size:17
Alignment explanation
Indices: 62824851--62824913 Score: 53
Period size: 19 Copynumber: 3.8 Consensus size: 17
62824841 ATATATCCAA
*
62824851 AAAAATATTAAAAATCAAT
1 AAAAATATTATAAA--AAT
*
62824870 AAAAATATTTTAAAAAT
1 AAAAATATTATAAAAAT
62824887 AAAACA-ATTAT--AAAT
1 AAAA-ATATTATAAAAAT
62824902 AAAAATA-TATAA
1 AAAAATATTATAA
62824914 TTTAAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
14 4 0.11
15 9 0.24
17 11 0.30
18 1 0.03
19 12 0.32
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATATTATAAAAAT
Found at i:62830391 original size:451 final size:458
Alignment explanation
Indices: 62829553--62830433 Score: 1215
Period size: 451 Copynumber: 1.9 Consensus size: 458
62829543 CCATGTTAGA
* **
62829553 AGGATAAGATCGTACTATGAGACTTTCTAGCATTATTTTGGGGAGCTTTCCCCTTTTTCAGTTTT
1 AGGATAAGATCGTACAACAAGACTTTCTAGCATTATTTTGGGGAGCTTTCCCC--TTTCAGTTTT
* * * *
62829618 TGGACTGTTGATGAAGGAACTCATGGGGCTGAGCATCGGTTGGAATGGATAGGTTTTAAACAAAT
64 TGGACTGTTGATGAAGGAACTCATGGGGCTGAGCATCGATTGGAACGAATAGGTTTTAAACAAAG
* * *
62829683 ATTTTTTTATTTTACAAAATTGGGTTAGTTCCTAACAAAGGAAATTTCTGAACTAAAGCTCTAAA
129 ATTTCTTTATTTTACAAAATTGGGTTAGTTCCTAACAAAGGAAATTTCTAAACTAAAACTCTAAA
*
62829748 TTTCACATATTGGACTAAGTGTTTTAAAAAGAAATTTTTTTTCTTTTGTTGCAAATTTACTTCAG
194 -TT---ATATTGGACTAAGTGTTTTAAAAAGAAATTTTTTTTCTTTTGTTGCAAATTTACTTCAA
* * * **
62829813 TATGTAATAAAAAAAATTTCAAATTGTGGGGTTGGGTCCAGCACATGCATTCTGTAACTGTGGAT
255 TATGTAATAAAAAAAATTTCAAATTGTGGGGTTGAGTCCAGCACACGCATGCCATAACTGTGGAT
* ** ** * *
62829878 TTAAGTTCTTCATTGATTCCTTCATTGATTTTTCAATCCAGCCTTTGAAAACAAAGAAGAAAAAA
320 CTAAACTCTTCATCAATTCCTTCATCGATTTTTCAATCCAGCCTTTGAAAACAAAAAAGAAAAAA
*
62829943 GAAAACTCAAAAATTAGCTATGAATTTAAGCTTGAAAAAAACTCAAACTAGATTATTATTTCATC
385 GAAAACCCAAAAATTAGCTATGAATTTAAGCTTGAAAAAAACTCAAACTAGATTATTATTTCATC
62830008 TATATCAAG
450 TATATCAAG
* * **
62830017 AGGATAAGATCGTACAACAAGAC-TTCTTGGCATTATTTTGGGGAGCTTTTCCC-TTCCTTTTTT
1 AGGATAAGATCGTACAACAAGACTTTC-TAGCATTATTTTGGGGAGCTTTCCCCTTTCAGTTTTT
* * * * *
62830080 GGATTGTTGATGGAGGAACTCATGGGGTTGAGCATCGATTGGAACGAATGGGTTTTTAACAAAGA
65 GGACTGTTGATGAAGGAACTCATGGGGCTGAGCATCGATTGGAACGAATAGGTTTTAAACAAAGA
* * *
62830145 TATTCTTTATTTTACAGATTTGGGTTAGTTCCTAACAAAGGAAATTTCTAAACTAAAATTCTAAA
130 T-TTCTTTATTTTACAAAATTGGGTTAGTTCCTAACAAAGGAAATTTCTAAACTAAAACTCTAAA
* * * *
62830210 -T-T-TT-G-C-AAGTGTTTTACAAAGAAA-TTTTTTTCTTTTGTTGCAAATTTGCTTCAATGTT
194 TTATATTGGACTAAGTGTTTTAAAAAGAAATTTTTTTTCTTTTGTTGCAAATTTACTTCAATATG
* * *
62830268 TAATAAAGAAATTTTCAAATTTTGGGGTTGAGTCCAGCACACGCATGCCATAACTGTGGATCTAA
259 TAATAAAAAAAATTTCAAATTGTGGGGTTGAGTCCAGCACACGCATGCCATAACTGTGGATCTAA
*
62830333 ACTCTT-ATCCAATTCCTTCATCGATTTTTCAATTCAGCCTTTGAAAACAAAAAAGAAAAAAGAA
324 ACTCTTCAT-CAATTCCTTCATCGATTTTTCAATCCAGCCTTTGAAAACAAAAAAGAAAAAAGAA
62830397 AACCCAAAAATTAGCTATGAATTTAAGCTTGAAAAAA
388 AACCCAAAAATTAGCTATGAATTTAAGCTTGAAAAAA
62830434 TATGAAATCA
Statistics
Matches: 370, Mismatches: 44, Indels: 19
0.85 0.10 0.04
Matches are distributed among these distances:
450 2 0.01
451 176 0.48
452 17 0.05
453 1 0.00
454 1 0.00
455 2 0.01
456 1 0.00
460 1 0.00
461 65 0.18
462 57 0.15
463 3 0.01
464 44 0.12
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (458 bp):
AGGATAAGATCGTACAACAAGACTTTCTAGCATTATTTTGGGGAGCTTTCCCCTTTCAGTTTTTG
GACTGTTGATGAAGGAACTCATGGGGCTGAGCATCGATTGGAACGAATAGGTTTTAAACAAAGAT
TTCTTTATTTTACAAAATTGGGTTAGTTCCTAACAAAGGAAATTTCTAAACTAAAACTCTAAATT
ATATTGGACTAAGTGTTTTAAAAAGAAATTTTTTTTCTTTTGTTGCAAATTTACTTCAATATGTA
ATAAAAAAAATTTCAAATTGTGGGGTTGAGTCCAGCACACGCATGCCATAACTGTGGATCTAAAC
TCTTCATCAATTCCTTCATCGATTTTTCAATCCAGCCTTTGAAAACAAAAAAGAAAAAAGAAAAC
CCAAAAATTAGCTATGAATTTAAGCTTGAAAAAAACTCAAACTAGATTATTATTTCATCTATATC
AAG
Found at i:62835469 original size:130 final size:130
Alignment explanation
Indices: 62835332--62835633 Score: 374
Period size: 130 Copynumber: 2.3 Consensus size: 130
62835322 GCAAAAATTG
* * *
62835332 TTCATGATCGTAAAGCAATGAACTTAGGCTGTGATCATAAATCAACAAGCCTTAACAATATTAGT
1 TTCATGATCGTAAATCAATGAACTTAGGCTGTGATCGTAAATCAACAAGCCTTAACAATATCAGT
** * * * * * *
62835397 TATGATCA-TAAATCAGTGATCTGTTTGGAGTTG-TACTCGTAAATCAGTTAACTCAAGGAAGAT
66 TATGAT-AGTAAATCAACGAGCTGTTAGGAGCTGCGA-TCATAAATCAGCTAACTCAAGGAAGAT
62835460 TT
129 TT
* * * *
62835462 TTCATGATCGTAAATCAATAAACTTTGGCTGTGATCGTAAATCAACGAGCCTTAATAATATCAGT
1 TTCATGATCGTAAATCAATGAACTTAGGCTGTGATCGTAAATCAACAAGCCTTAACAATATCAGT
* * *
62835527 TGTGATAGTAAATTAACGAGCTGTTAGGAGCTGCGATCATAAATCAGCTAACTCAGGGAAGATTT
66 TATGATAGTAAATCAACGAGCTGTTAGGAGCTGCGATCATAAATCAGCTAACTCAAGGAAGATTT
* * **
62835592 TTCATGATTGTAAATCAATGAGCTCGGGCTGTGATCGTAAAT
1 TTCATGATCGTAAATCAATGAACTTAGGCTGTGATCGTAAAT
62835634 TAGCTAACTT
Statistics
Matches: 147, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
129 1 0.01
130 145 0.99
131 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (130 bp):
TTCATGATCGTAAATCAATGAACTTAGGCTGTGATCGTAAATCAACAAGCCTTAACAATATCAGT
TATGATAGTAAATCAACGAGCTGTTAGGAGCTGCGATCATAAATCAGCTAACTCAAGGAAGATTT
Found at i:62835709 original size:192 final size:191
Alignment explanation
Indices: 62835455--62835801 Score: 478
Period size: 192 Copynumber: 1.8 Consensus size: 191
62835445 TAACTCAAGG
* * *
62835455 AAGATTTTTCATGATCGTAAATCAATAAACTTTGGCTGTGATCGTAAATCAACGAGCCTTAATAA
1 AAGATTGTTCATAATCGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAACGAGCCTTAATAA
* * * * *
62835520 TATCAGTTGTGATAGTAAATTAACGAGCTGTTAGGAGCTGCGATCATAAATCAGCTAACTCAGGG
66 TATCAGTTGTGATAATAAATCAACGAGCTATTAGAAGCTGCGATCATAAATCAGCTAACTCA-GA
* **
62835585 AAGATTTTTCATGATTGTAAATCAATGAGCTCGGGCTGTGATCGTAAATTAGCTAACTTAAA
130 AAGATTATTCATGATCATAAATCAATGAGCTCGGGCTGTGATCGTAAATTAGCTAACTTAAA
* * * * * **
62835647 AAGATTGTTCATAATTGTAAATCAGTGAACTTAGGTTGTGGTCGTAAATCAGTGAGCCTTAATAA
1 AAGATTGTTCATAATCGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAACGAGCCTTAATAA
* * * * *
62835712 TATCAGTTGTGATAATGAATCAACGAGCTATTTGAAGTTGCTATCGTAAATCAGCTAACTCAGAA
66 TATCAGTTGTGATAATAAATCAACGAGCTATTAGAAGCTGCGATCATAAATCAGCTAACTCAGAA
62835777 AGATTATTCATGATCATAAATCAAT
131 AGATTATTCATGATCATAAATCAAT
62835802 TAACTTAGGT
Statistics
Matches: 132, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
191 24 0.18
192 108 0.82
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (191 bp):
AAGATTGTTCATAATCGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAACGAGCCTTAATAA
TATCAGTTGTGATAATAAATCAACGAGCTATTAGAAGCTGCGATCATAAATCAGCTAACTCAGAA
AGATTATTCATGATCATAAATCAATGAGCTCGGGCTGTGATCGTAAATTAGCTAACTTAAA
Found at i:62835861 original size:192 final size:192
Alignment explanation
Indices: 62835467--62835863 Score: 440
Period size: 192 Copynumber: 2.1 Consensus size: 192
62835457 GATTTTTCAT
*
62835467 GATCGTAAATCAATAAACTTTGGCTGTGATCGTAAATCAACGAGCCTTAATAATATCAGTTGTGA
1 GATCGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAACGAGCCTTAATAATATCAGTTGTGA
* * * * * *
62835532 TAGTAAATTAACGAGCTGTTAGGAGCTGCGATCATAAATCAGCTAACTCAGGGAAGATTTTTCAT
66 TAATAAATCAACGAGCTATTAGAAGCTGCGATCATAAATCAGCTAACTCAGGAAAGATTATTCAT
** * * * * * *
62835597 GATTGTAAATCAATGAGCTCGGGCTGTGATCGTAAATTAGCTAACTTAAAAAGATTGTTCAT
131 GATCATAAATCAATGAACTCAGGCTGTGATCATAAATCAGCTAACTTAAAAAGATTGCTCAG
* * * * * * **
62835659 AATTGTAAATCAGTGAACTTAGGTTGTGGTCGTAAATCAGTGAGCCTTAATAATATCAGTTGTGA
1 GATCGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAACGAGCCTTAATAATATCAGTTGTGA
* * * * *
62835724 TAATGAATCAACGAGCTATTTGAAGTTGCTATCGTAAATCAGCTAACTCA-GAAAGATTATTCAT
66 TAATAAATCAACGAGCTATTAGAAGCTGCGATCATAAATCAGCTAACTCAGGAAAGATTATTCAT
* * * * **
62835788 GATCATAAATCAATTAACTTAGGTTGTGATCATAAATCAG-TGAGACTTAATAATTTTAGCT-AG
131 GATCATAAATCAATGAACTCAGGCTGTGATCATAAATCAGCT-A-ACTTAAAAAGATT-GCTCAG
62835851 GATCGTAAATCAA
1 GATCGTAAATCAA
62835864 CGAGCTGTTT
Statistics
Matches: 165, Mismatches: 37, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
190 1 0.01
191 44 0.27
192 118 0.72
193 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (192 bp):
GATCGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAACGAGCCTTAATAATATCAGTTGTGA
TAATAAATCAACGAGCTATTAGAAGCTGCGATCATAAATCAGCTAACTCAGGAAAGATTATTCAT
GATCATAAATCAATGAACTCAGGCTGTGATCATAAATCAGCTAACTTAAAAAGATTGCTCAG
Found at i:62835989 original size:128 final size:129
Alignment explanation
Indices: 62835637--62836034 Score: 489
Period size: 129 Copynumber: 3.1 Consensus size: 129
62835627 CGTAAATTAG
* * * * * *
62835637 CTAACTTAAAAAGATTGTTCATAATTGTAAATCAGTGAACTTAGGTTGTGGTCGTAAATCAGTGA
1 CTAACTCAGAAAGATTGTTCATAATCGTAAATCAATGAACTTAGGTTGTGATCATAAATCAGTGA
* * * * *
62835702 GCCTTAATAATATCAGTTGTGATAATG-AATCAACGAGCTATTTGAAGTTGCTATCGTAAATCAG
66 GCCTTAATAATATCAGTTGTGATCA-GAAATCAACGAGCTATTTGGAGTTGCAATCATAAATCAA
* * * *
62835766 CTAACTCAGAAAGATTATTCATGATCATAAATCAATTAACTTAGGTTGTGATCATAAATCAGTGA
1 CTAACTCAGAAAGATTGTTCATAATCGTAAATCAATGAACTTAGGTTGTGATCATAAATCAGTGA
* * * * * *
62835831 GACTTAATAATTTTAGCTAG-GATC-GTAAATCAACGAGCTGTTTGGAGTTGCGATCATAAATCA
66 GCCTTAATAATATCAG-TTGTGATCAG-AAATCAACGAGCTATTTGGAGTTGCAATCATAAATCA
62835894 A
129 A
* * * *
62835895 CTAACTCAGAAAGATTGTT-TTAATCGTAAATAAATGAACTTAGGTTGTGATCCTAAATCAGCGA
1 CTAACTCAGAAAGATTGTTCATAATCGTAAATCAATGAACTTAGGTTGTGATCATAAATCAGTGA
* *
62835959 GCCTTAATAATATCAGTTGTGATCAGAAATCAACGAGCTATTTGGAGTTACAATCATAAATCAT
66 GCCTTAATAATATCAGTTGTGATCAGAAATCAACGAGCTATTTGGAGTTGCAATCATAAATCAA
*
62836023 CTAACTTAGAAA
1 CTAACTCAGAAA
62836035 AAGGTTATTC
Statistics
Matches: 227, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
127 3 0.01
128 100 0.44
129 122 0.54
130 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (129 bp):
CTAACTCAGAAAGATTGTTCATAATCGTAAATCAATGAACTTAGGTTGTGATCATAAATCAGTGA
GCCTTAATAATATCAGTTGTGATCAGAAATCAACGAGCTATTTGGAGTTGCAATCATAAATCAA
Found at i:62841900 original size:16 final size:17
Alignment explanation
Indices: 62841869--62841902 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
62841859 CGGGTTTGGG
62841869 ACACGGGCGTATGTGACC
1 ACACGGGCG-ATGTGACC
62841887 ACACGGGC-ATGTGACC
1 ACACGGGCGATGTGACC
62841903 CTTGTTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (17 bp):
ACACGGGCGATGTGACC
Found at i:62846945 original size:33 final size:33
Alignment explanation
Indices: 62846892--62846960 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
62846882 CCTGCATGGT
* * * *
62846892 GATGGGAACCCATCATGTGTGAGCTCATGAAAG
1 GATGCGAACCCATCACGTGTGAACCCATGAAAG
* *
62846925 GATGCGAACTCATCACGTGTGAACCCATGTAAG
1 GATGCGAACCCATCACGTGTGAACCCATGAAAG
62846958 GAT
1 GAT
62846961 ACAAACGGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (33 bp):
GATGCGAACCCATCACGTGTGAACCCATGAAAG
Found at i:62848678 original size:24 final size:23
Alignment explanation
Indices: 62848622--62848679 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
62848612 TTTAAATGAT
62848622 TAAATATCAAATTTAACAAAAAA
1 TAAATATCAAATTTAACAAAAAA
*
62848645 TAAA-AGTCAAA-TTAATAAAAAA
1 TAAATA-TCAAATTTAACAAAAAA
62848667 TGTAAATATCAAA
1 --TAAATATCAAA
62848680 AATTAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 11 0.37
23 9 0.30
24 9 0.30
25 1 0.03
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (23 bp):
TAAATATCAAATTTAACAAAAAA
Found at i:62849909 original size:13 final size:13
Alignment explanation
Indices: 62849876--62849900 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62849866 TAGACTTTTT
62849876 TTTAAAAAAAACC
1 TTTAAAAAAAACC
62849889 TTTAAAAAAAAC
1 TTTAAAAAAAAC
62849901 TTGTGAAAAC
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:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (13 bp):
TTTAAAAAAAACC
Found at i:62850808 original size:31 final size:31
Alignment explanation
Indices: 62850773--62850839 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
62850763 AACAATCCAA
*
62850773 TGACTTAAATAAAAA-TATTTGAATAGTTCAG
1 TGACTTAAATAAAAACT-TTCGAATAGTTCAG
*
62850804 TGACTTAAATAAAAACTTTCGAATAGTTTAG
1 TGACTTAAATAAAAACTTTCGAATAGTTCAG
62850835 TGACT
1 TGACT
62850840 GAATTATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAGTTCAG
Found at i:62864488 original size:16 final size:17
Alignment explanation
Indices: 62864452--62864488 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
62864442 AATTTTATTT
*
62864452 TAATAATAAATTTTAAA
1 TAATAATAAAGTTTAAA
62864469 -AATAAT-AAGTTTAAA
1 TAATAATAAAGTTTAAA
62864484 TAATA
1 TAATA
62864489 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAAGTTTAAA
Found at i:62864541 original size:15 final size:15
Alignment explanation
Indices: 62864521--62864577 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
62864511 ATTCAATATT
62864521 AATATTTTAATAATA
1 AATATTTTAATAATA
*
62864536 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
62864555 AATATATTAATAATA
1 AATATTTTAATAATA
*
62864570 AATGTTTT
1 AATATTTT
62864578 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:62865442 original size:63 final size:63
Alignment explanation
Indices: 62865305--62865469 Score: 287
Period size: 63 Copynumber: 2.6 Consensus size: 63
62865295 TTATTAAATT
*
62865305 TTAATAGAATTATTATTAAAATATGAATTAATAAAAAT-AAAATATATAATTTAATAACATTA
1 TTAATATAATTATTATTAAAATATGAATTAATAAAAATAAAAATATATAATTTAATAACATTA
* * *
62865367 TTAATATGATTATCATTAAAATATGAATTAATAAAAATAAAAATATATAATTTAATAACATTC
1 TTAATATAATTATTATTAAAATATGAATTAATAAAAATAAAAATATATAATTTAATAACATTA
62865430 TTAATATAATTATTATTAAAATATGAATTAATAAAAATAA
1 TTAATATAATTATTATTAAAATATGAATTAATAAAAATAA
62865470 TAATTAATAA
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 35 0.36
63 61 0.64
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (63 bp):
TTAATATAATTATTATTAAAATATGAATTAATAAAAATAAAAATATATAATTTAATAACATTA
Found at i:62869131 original size:18 final size:18
Alignment explanation
Indices: 62869108--62869144 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
62869098 CCATGGGTCA
62869108 AGTTACACGGGATTACCG
1 AGTTACACGGGATTACCG
62869126 AGTTACACGGGATTACCG
1 AGTTACACGGGATTACCG
62869144 A
1 A
62869145 ATGAGCTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (18 bp):
AGTTACACGGGATTACCG
Found at i:62874510 original size:45 final size:45
Alignment explanation
Indices: 62874459--62874549 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
62874449 AATTCATAAC
62874459 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
62874504 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
62874549 A
1 A
62874550 ATTTGAGACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (45 bp):
ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
Found at i:62880200 original size:116 final size:116
Alignment explanation
Indices: 62879992--62880218 Score: 355
Period size: 116 Copynumber: 2.0 Consensus size: 116
62879982 TTGGTGTGGT
* * *
62879992 TGACAAAACAGCCACTCTGATTTCAATTCAGTGACTCAACTTTCGAAAAATAACAAATCAACCCT
1 TGACAAAACAGCCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAACCAT
* *
62880057 TTTAATCATTTTCCATTACAAATGTAATAGAAAAATGACATGACATGTAGC
66 TTTAACCATTTTCCATTACAAACGTAATAGAAAAATGACATGACATGTAGC
* **
62880108 TGACAAAACAGTCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAGTCAT
1 TGACAAAACAGCCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAACCAT
* * *
62880173 TTTAACCATTTTCCGTTACAAACGTAATGGAAAAGTGACATGACAT
66 TTTAACCATTTTCCATTACAAACGTAATAGAAAAATGACATGACAT
62880219 CCTATTGTGT
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 100 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (116 bp):
TGACAAAACAGCCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAACCAT
TTTAACCATTTTCCATTACAAACGTAATAGAAAAATGACATGACATGTAGC
Found at i:62881202 original size:29 final size:31
Alignment explanation
Indices: 62881142--62881202 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
62881132 GGAAAAGAAG
*
62881142 AAGTATAAACATATTGGGCCATTTATGCAAA
1 AAGTATAAACATATTGGGCCATTTATGAAAA
* *
62881173 AAGTA-AAA-ATATTGGGTCATTTATTAAAA
1 AAGTATAAACATATTGGGCCATTTATGAAAA
62881202 A
1 A
62881203 GAAAAGGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 19 0.70
30 3 0.11
31 5 0.19
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (31 bp):
AAGTATAAACATATTGGGCCATTTATGAAAA
Found at i:62883655 original size:26 final size:26
Alignment explanation
Indices: 62883626--62883714 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 26
62883616 ATGAGTATCT
62883626 CGATAAATGGCTCTTCGTGAGCTTTC
1 CGATAAATGGCTCTTCGTGAGCTTTC
* *
62883652 CGATTAAA-GGCTCTTTGTAAGC-TTC
1 CGA-TAAATGGCTCTTCGTGAGCTTTC
* * *
62883677 CTG-TTAATGGCTCTCCG-GAGCTTCC
1 C-GATAAATGGCTCTTCGTGAGCTTTC
62883702 CGATAAATGGCTC
1 CGATAAATGGCTC
62883715 ACAAGAGCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
24 7 0.14
25 23 0.46
26 16 0.32
27 4 0.08
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (26 bp):
CGATAAATGGCTCTTCGTGAGCTTTC
Found at i:62883779 original size:25 final size:25
Alignment explanation
Indices: 62883671--62883789 Score: 109
Period size: 25 Copynumber: 4.8 Consensus size: 25
62883661 GCTCTTTGTA
* * **
62883671 AGCTTCCTGTTA-ATGGCTCTCCGG
1 AGCTTCCCGTTATATGGCTCACAAG
* *
62883695 AGCTTCCCGATAAATGGCTCACAAG
1 AGCTTCCCGTTATATGGCTCACAAG
* ** *
62883720 AGCTTCCCATTATACAGCTCACATG
1 AGCTTCCCGTTATATGGCTCACAAG
62883745 AGCTTCCCGTTATATGGCTCGA-AAG
1 AGCTTCCCGTTATATGGCTC-ACAAG
62883770 AGCTTCCCGTT-TATGTGCTC
1 AGCTTCCCGTTATATG-GCTC
62883790 GTATGAGTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
24 14 0.18
25 62 0.81
26 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACAAG
Found at i:62883802 original size:26 final size:25
Alignment explanation
Indices: 62883748--62883804 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
62883738 TCACATGAGC
*
62883748 TTCCCGTTATATGGCTCGAAAGAGC
1 TTCCCGTTATATGGCTCGAAAGAGA
* *
62883773 TTCCCGTT-TATGTGCTCGTATGAGTA
1 TTCCCGTTATATG-GCTCGAAAGAG-A
62883799 TTCCCG
1 TTCCCG
62883805 AATATGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
25 17 0.63
26 6 0.22
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (25 bp):
TTCCCGTTATATGGCTCGAAAGAGA
Found at i:62885531 original size:33 final size:32
Alignment explanation
Indices: 62885456--62885536 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
62885446 CGTAAGGGTG
**
62885456 ACACTTGAAAAGGAAATGTACACTTTGTGTGT
1 ACACTTGAAAAGGAAACATACACTTTGTGTGT
62885488 ACACTTGAAAAGGAAACATACACTTTGTGTGT
1 ACACTTGAAAAGGAAACATACACTTTGTGTGT
62885520 ACCACTTGAAAATGGAA
1 A-CACTTGAAAA-GGAA
62885537 TGTGCACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 31 0.69
33 10 0.22
34 4 0.09
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (32 bp):
ACACTTGAAAAGGAAACATACACTTTGTGTGT
Found at i:62886649 original size:19 final size:19
Alignment explanation
Indices: 62886625--62886680 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
62886615 GTCCTAAGCC
62886625 ACACGGGCGTGTGTAATCT
1 ACACGGGCGTGTGTAATCT
*
62886644 ACAC-GGC---T-TAAAC-
1 ACACGGGCGTGTGTAATCT
62886657 ACACGGGCGTGTGTAATCT
1 ACACGGGCGTGTGTAATCT
62886676 ACACG
1 ACACG
62886681 ACCTAAACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 1 0.03
17 1 0.03
18 7 0.24
19 9 0.31
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (19 bp):
ACACGGGCGTGTGTAATCT
Found at i:62886664 original size:32 final size:32
Alignment explanation
Indices: 62886624--62886697 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
62886614 TGTCCTAAGC
* *
62886624 CACACGGGCGTGTGTAATCTACACGGCTTAAA
1 CACACGGGCGTGTGTAATCTACACGACCTAAA
62886656 CACACGGGCGTGTGTAATCTACACGACCTAAA
1 CACACGGGCGTGTGTAATCTACACGACCTAAA
62886688 CACACGGGCG
1 CACACGGGCG
62886698 CGTATGGTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (32 bp):
CACACGGGCGTGTGTAATCTACACGACCTAAA
Found at i:62887328 original size:138 final size:138
Alignment explanation
Indices: 62887080--62887356 Score: 536
Period size: 138 Copynumber: 2.0 Consensus size: 138
62887070 GTAAATGTCT
* *
62887080 TCCAACCAAGCAAGAGCTGAATCAGAGGAAGCTGAGAGTGCTTCTCAAGCTTTCGTGCTACGAGC
1 TCCAACCAAGCAAGAGCTGAATCAGAGGAAGCTGAGAGTGCTTCTCAAGCTTCCATGCTACGAGC
62887145 TACAGATAGTAGTAGTAGAAGGTCCGAATCAAAGGGCCGAGTGAATATGCTAAAGAAGTTTTCTT
66 TACAGATAGTAGTAGTAGAAGGTCCGAATCAAAGGGCCGAGTGAATATGCTAAAGAAGTTTTCTT
62887210 TGAAATGA
131 TGAAATGA
62887218 TCCAACCAAGCAAGAGCTGAATCAGAGGAAGCTGAGAGTGCTTCTCAAGCTTCCATGCTACGAGC
1 TCCAACCAAGCAAGAGCTGAATCAGAGGAAGCTGAGAGTGCTTCTCAAGCTTCCATGCTACGAGC
62887283 TACAGATAGTAGTAGTAGAAGGTCCGAATCAAAGGGCCGAGTGAATATGCTAAAGAAGTTTTCTT
66 TACAGATAGTAGTAGTAGAAGGTCCGAATCAAAGGGCCGAGTGAATATGCTAAAGAAGTTTTCTT
62887348 TGAAATGA
131 TGAAATGA
62887356 T
1 T
62887357 GGATAAATGT
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 137 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (138 bp):
TCCAACCAAGCAAGAGCTGAATCAGAGGAAGCTGAGAGTGCTTCTCAAGCTTCCATGCTACGAGC
TACAGATAGTAGTAGTAGAAGGTCCGAATCAAAGGGCCGAGTGAATATGCTAAAGAAGTTTTCTT
TGAAATGA
Found at i:62889724 original size:25 final size:23
Alignment explanation
Indices: 62889696--62889751 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
62889686 TTTGAAGTAT
* * *
62889696 TTTTTTATATTATATTATTTTGACA
1 TTTTTTATAATAT-TTAGTTT-AAA
*
62889721 TTTTGTATAATATTTAGTTTAAA
1 TTTTTTATAATATTTAGTTTAAA
62889744 TTTTTTAT
1 TTTTTTAT
62889752 TATCTGTACA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 9 0.35
24 6 0.23
25 11 0.42
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (23 bp):
TTTTTTATAATATTTAGTTTAAA
Found at i:62896188 original size:33 final size:32
Alignment explanation
Indices: 62896112--62896189 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
62896102 CGTAAGGGTG
62896112 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
1 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
62896144 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
1 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
*
62896176 ACCACTTTAAAAGG
1 A-CACTTGAAAAGG
62896190 GAATGTGCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 33 0.75
33 11 0.25
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (32 bp):
ACACTTGAAAAGGAAACGTACACTTTGTGTGT
Found at i:62902362 original size:94 final size:94
Alignment explanation
Indices: 62902235--62902411 Score: 264
Period size: 94 Copynumber: 1.9 Consensus size: 94
62902225 GTTATGTGAG
* * * * *
62902235 AGCCAGTGTAAGACCATATCTGGGGCATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATATCTAGGACATGGCATCAGCATAGAGACGAGGGCCAGTGTAAGACGTG
62902300 TCTAGGACATGCATCAGCCACATTACGAT
66 TCTAGGACATGCATCAGCCACATTACGAT
* * * *
62902329 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCGTAGAGATGAGTGCCAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATATCTAGGACATGGCATCAGCATAGAGACGAGGGCCAGTGTAAGACGTG
*
62902394 TCTGGGACATGCATCAGC
66 TCTAGGACATGCATCAGC
62902412 TAAGCTTCGT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 73 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATATCTAGGACATGGCATCAGCATAGAGACGAGGGCCAGTGTAAGACGTG
TCTAGGACATGCATCAGCCACATTACGAT
Found at i:62902440 original size:44 final size:44
Alignment explanation
Indices: 62902287--62902451 Score: 154
Period size: 44 Copynumber: 3.6 Consensus size: 44
62902277 GACGAGGGCT
* *
62902287 AGTGTAAGACGTGTCTAGGACATGCATCAGC-CA-CATTACGATAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCTAAGC-TT-CG-T-GCC
* **
62902333 AGTGTAAGACCATGTCTAGGACATGGCATCAGCGTAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGC-TA-AGCTTCGTGCC
* * *
62902381 AGTGTAAGACGTGTCTGGGACATGCATCAGCTAAGCTTCGTGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAGCTAAGCTTCGTGCC
* *
62902425 AGTGTAAGATATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTAGGACATGCAT
62902452 TACACAAGAG
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 32 0.32
45 2 0.02
46 17 0.17
47 25 0.25
48 20 0.20
49 1 0.01
50 1 0.01
51 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCTAAGCTTCGTGCC
Found at i:62903407 original size:55 final size:55
Alignment explanation
Indices: 62903292--62903410 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 55
62903282 CTTAAACTTT
* * * * *
62903292 TAAGTTAGTATTGTCCACGGGTAGGCCACATGGGCGTGCGTCATAGCCGTGTCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCATGCGTCATAGCCATGCCTA
* * *
62903347 TAAGTCAGTATTGTTCACGGGTAGGCCACACGGGCATGTGTCATGGCCATGCCCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCATGCGTCATAGCCATG-CCTA
62903403 -AAGTCAGT
1 TAAGTCAGT
62903411 GTTGCACATG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 52 0.95
56 3 0.05
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCATGCGTCATAGCCATGCCTA
Found at i:62906129 original size:67 final size:67
Alignment explanation
Indices: 62906053--62906186 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
62906043 TTTCTTTATT
62906053 TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
1 TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
62906118 AG
66 AG
*
62906120 TTAAGTTTTAATATATTTTTAATTAATAAAACTTTAATTAATTATTTATTTTAATGAAATTTCTC
1 TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
62906185 AG
66 AG
62906187 GTAACATGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (67 bp):
TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
AG
Found at i:62909401 original size:5 final size:6
Alignment explanation
Indices: 62909386--62909411 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
62909376 TCAAAAACAT
62909386 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
62909412 TTGTATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:62926472 original size:16 final size:16
Alignment explanation
Indices: 62926451--62926485 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
62926441 CATACCTGTC
62926451 CAAAGTGTCCATTTCA
1 CAAAGTGTCCATTTCA
62926467 CAAAGTGTCCATTTCA
1 CAAAGTGTCCATTTCA
62926483 CAA
1 CAA
62926486 CACTTACCAA
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:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (16 bp):
CAAAGTGTCCATTTCA
Found at i:62926753 original size:46 final size:48
Alignment explanation
Indices: 62926631--62926760 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 48
62926621 TTTAACCCGC
62926631 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * *
62926681 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-C-A-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
62926724 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62926761 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 1 0.01
45 2 0.03
46 29 0.42
47 29 0.42
48 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:62933880 original size:46 final size:46
Alignment explanation
Indices: 62933705--62933880 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
62933695 TGTAACCCGC
* * * * *
62933705 CCATTAGTGAAATCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
62933751 CCATAAGTGAACCCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
62933801 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
62933844 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62933881 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62936224 original size:5 final size:5
Alignment explanation
Indices: 62936214--62936249 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
62936204 TTATGTGTTC
62936214 TTTAT TTTAT TTTA- -TTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
62936250 TCGCACCTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
5 26 0.90
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:62936233 original size:13 final size:13
Alignment explanation
Indices: 62936215--62936242 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62936205 TATGTGTTCT
62936215 TTATTTTATTTTA
1 TTATTTTATTTTA
62936228 TTATTTTATTTTA
1 TTATTTTATTTTA
62936241 TT
1 TT
62936243 TTATTTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:62936472 original size:30 final size:30
Alignment explanation
Indices: 62936436--62936495 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
62936426 AAACCTCAAA
62936436 GTTTTTATTCCTTGCATTTAGGTCCTTACT
1 GTTTTTATTCCTTGCATTTAGGTCCTTACT
62936466 GTTTTTATTCCTTGCATTTAGGTCCTTACT
1 GTTTTTATTCCTTGCATTTAGGTCCTTACT
62936496 AACACTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (30 bp):
GTTTTTATTCCTTGCATTTAGGTCCTTACT
Found at i:62955965 original size:18 final size:18
Alignment explanation
Indices: 62955939--62955973 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62955929 ACAGAAATAG
*
62955939 TAATCAGTGTAGTAACAA
1 TAATCAGTGCAGTAACAA
*
62955957 TAATTAGTGCAGTAACA
1 TAATCAGTGCAGTAACA
62955974 GTATACAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
TAATCAGTGCAGTAACAA
Found at i:62956029 original size:23 final size:24
Alignment explanation
Indices: 62955989--62956033 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
62955979 CAAGTCCTAC
*
62955989 CCATCCAGCCTCTACACTCCATCT
1 CCATCCAACCTCTACACTCCATCT
62956013 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACTCCAT
62956034 GTGGGGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.24, C:0.51, G:0.02, T:0.22
Consensus pattern (24 bp):
CCATCCAACCTCTACACTCCATCT
Found at i:62956368 original size:27 final size:27
Alignment explanation
Indices: 62956288--62956368 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
62956278 TATATGCATA
*
62956288 TACCACATAAGGGCAAAATAGTCATCT
1 TACCACATAAGGGCAAAATAGTCATTT
*
62956315 TACC-CTATAAGGGCAAAATAGTTATTT
1 TACCAC-ATAAGGGCAAAATAGTCATTT
62956342 TACCACATAAGGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
62956369 ATTTAATTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 1 0.02
27 47 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (27 bp):
TACCACATAAGGGCAAAATAGTCATTT
Found at i:62963291 original size:40 final size:40
Alignment explanation
Indices: 62963238--62963436 Score: 245
Period size: 40 Copynumber: 5.0 Consensus size: 40
62963228 TTGAGAGTTA
62963238 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
62963278 TATATCCAGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
** * * *
62963318 TATATCCGGGCTAAGTCTAGAAGAGCATTCCTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
62963358 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * * * *
62963398 CATATCTGGGCTAGGTCCCGAAGAGTAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
62963437 ATGTGTATTC
Statistics
Matches: 138, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:62963650 original size:25 final size:25
Alignment explanation
Indices: 62963600--62963650 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
62963590 TGTGTAACAA
* *
62963600 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
62963625 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
62963650 C
1 C
62963651 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:62974353 original size:17 final size:17
Alignment explanation
Indices: 62974331--62974381 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
62974321 ATTTGGGTCA
*
62974331 TGTGGGCCACACGGGTG
1 TGTGGGCCACACGGGCG
* *
62974348 TGTGGGCCATAGGGGCG
1 TGTGGGCCACACGGGCG
*
62974365 TGTAGGCCCACACGGGC
1 TGT-GGGCCACACGGGC
62974382 AAACAACATG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.14, C:0.25, G:0.45, T:0.16
Consensus pattern (17 bp):
TGTGGGCCACACGGGCG
Found at i:62975440 original size:6 final size:6
Alignment explanation
Indices: 62975413--62975478 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
62975403 TATCAGGACT
* * * *
62975413 AGAATC AAAATG AGAATT AGAATC AGAATC AGGTGAT- AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
62975462 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
62975479 TAGGTGACAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 2 0.04
6 44 0.88
7 2 0.04
8 2 0.04
ACGTcount: A:0.50, C:0.11, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:62975466 original size:37 final size:37
Alignment explanation
Indices: 62975412--62975512 Score: 123
Period size: 37 Copynumber: 2.7 Consensus size: 37
62975402 TTATCAGGAC
* *
62975412 TAGAATCAAAATGAGAATTAGAATCAGAATCAGGTGA
1 TAGAATCAGAATCAGAATTAGAATCAGAATCAGGTGA
* *
62975449 TAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
1 TAGAATCAGAATCAGAATTAGAATCAGAATCAGGTGA
* * *
62975486 CAAAAGT-AGAATCAGAATTAGTATCAG
1 TAGAA-TCAGAATCAGAATTAGAATCAG
62975513 GTAACAGAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
37 54 0.98
38 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.22
Consensus pattern (37 bp):
TAGAATCAGAATCAGAATTAGAATCAGAATCAGGTGA
Found at i:62975530 original size:31 final size:31
Alignment explanation
Indices: 62975455--62975534 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
62975445 GTGATAGAAT
* *
62975455 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
62975486 CAAAAGT-AGAATCAGAATTAGTATCAGGTAA
1 CAGAA-TCAGAATCAGAATCAGAATCAGGTAA
*
62975517 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
62975535 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 1 0.03
31 38 0.95
32 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:62975534 original size:37 final size:35
Alignment explanation
Indices: 62975413--62975534 Score: 110
Period size: 37 Copynumber: 3.5 Consensus size: 35
62975403 TATCAGGACT
* *
62975413 AGAATCAAAATGAGAATTAGAATCAGAATCAGGTGA
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGT-A
* *
62975449 TAGAATCAGAATCAGAATCAGAATCAGAATTAGGT-
1 -AGAATCAAAATCAGAATCAGAATCAGAATCAGGTA
* *
62975484 -G-A-CAAAAGT-AGAATCAGAATTAGTATCAGGTAA
1 AGAATCAAAA-TCAGAATCAGAATCAGAATCAGGT-A
62975517 CAGAATCAAAATCAGAAT
1 -AGAATCAAAATCAGAAT
62975535 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
31 23 0.33
32 2 0.03
33 1 0.01
35 1 0.01
36 2 0.03
37 40 0.58
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (35 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTA
Found at i:62977461 original size:25 final size:24
Alignment explanation
Indices: 62977427--62977496 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
62977417 AATCAAAATG
62977427 AGAATTAGAATCAGAATCAGGTGAC
1 AGAA-TAGAATCAGAATCAGGTGAC
*
62977452 AGAATCAGAATCAGAATTAGGTGAC
1 AGAAT-AGAATCAGAATCAGGTGAC
62977477 AGAAGTAGAATCAGAATCAG
1 AGAA-TAGAATCAGAATCAG
62977497 TATCAGGTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (24 bp):
AGAATAGAATCAGAATCAGGTGAC
Found at i:62977468 original size:31 final size:30
Alignment explanation
Indices: 62977427--62977524 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 30
62977417 AATCAAAATG
*
62977427 AGAATTAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
62977458 AGAATCAGAAT----T-AGGTGACAGAAGT-
1 AGAATCAGAATCAGATCAGGTGACAGAA-TC
* *
62977483 AGAATCAGAATCAGTATCAGGTAAAAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
62977514 AAAATCAGAAT
1 AGAATCAGAAT
62977525 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
25 22 0.40
26 2 0.04
30 2 0.04
31 29 0.53
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGATCAGGTGACAGAATC
Done.