Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 123 of 153
Found at i:38704769 original size:50 final size:54
Alignment explanation
Indices: 38704702--38704849 Score: 169
Period size: 56 Copynumber: 2.8 Consensus size: 54
38704692 TTTCTTGTAC
* * * * * *
38704702 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGA-GT-TC-TCATCTC-GG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTCAGA
*
38704752 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTC-A-GA
* *
38704808 TGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
38704850 TTACCCAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
50 33 0.40
51 1 0.01
52 2 0.02
53 6 0.07
56 40 0.49
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (54 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTCAGA
Found at i:38732546 original size:16 final size:16
Alignment explanation
Indices: 38732525--38732557 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38732515 TAAAACTCCG
38732525 AAAATTACCAAATTAA
1 AAAATTACCAAATTAA
38732541 AAAATTACCAAATTAA
1 AAAATTACCAAATTAA
38732557 A
1 A
38732558 GTTCAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATTACCAAATTAA
Found at i:38739665 original size:15 final size:15
Alignment explanation
Indices: 38739638--38739675 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
38739628 GCATCAACAA
38739638 AAAAATAAAAAAATT
1 AAAAATAAAAAAATT
38739653 AAAGAATAAAAAAATT
1 AAA-AATAAAAAAATT
38739669 AAAAATA
1 AAAAATA
38739676 TTTTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAATAAAAAAATT
Found at i:38740207 original size:78 final size:78
Alignment explanation
Indices: 38740058--38740208 Score: 173
Period size: 78 Copynumber: 1.9 Consensus size: 78
38740048 TAATTTATTT
*** **
38740058 TTTATAAAAGTTTATGGATTTTAATTAATTTCTATTAATTTTATAATTTATTTTTCTATTTTTAT
1 TTTATAAAAGTTTATGGATTTTAATTAATTTCTATTAATTTTATAAAAAATTAATCTATTTTTAT
**
38740123 GGTTTTTAATAAA
66 AATTTTTAATAAA
* *
38740136 TTTATAAAATTTTAT-GTTGTTTAATTAATTTCTATTAATTATTA-AAAAAATTAAT-TATTTTG
1 TTTATAAAAGTTTATGGAT-TTTAATTAATTTCTATTAATT-TTATAAAAAATTAATCTATTTT-
38740198 TATAATTTTTA
63 TATAATTTTTA
38740209 TGTATCTTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
77 8 0.13
78 50 0.82
79 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (78 bp):
TTTATAAAAGTTTATGGATTTTAATTAATTTCTATTAATTTTATAAAAAATTAATCTATTTTTAT
AATTTTTAATAAA
Found at i:38743560 original size:16 final size:16
Alignment explanation
Indices: 38743539--38743569 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38743529 CACTGAAATA
*
38743539 GAATAGAGCTGTAATG
1 GAATAGAACTGTAATG
38743555 GAATAGAACTGTAAT
1 GAATAGAACTGTAAT
38743570 CAGTAATTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (16 bp):
GAATAGAACTGTAATG
Found at i:38743639 original size:44 final size:44
Alignment explanation
Indices: 38743551--38743683 Score: 178
Period size: 44 Copynumber: 3.0 Consensus size: 44
38743541 ATAGAGCTGT
* * *
38743551 AATGGAATAGAACTGTAATCAGTAATTCAAT-TGTTTGGTTGAATGA
1 AATGAAATAAAACTGTAAT-AGT-ATTC-TTGTGTTTGGTTGAATGA
*
38743597 AATGAAATAAAACTGTAATAGTATTCTTGTGTTTGGTAGAATGA
1 AATGAAATAAAACTGTAATAGTATTCTTGTGTTTGGTTGAATGA
* *
38743641 AATGAAATAAAACTGTAATAATATTCTTGTGTTTAGTTGAATG
1 AATGAAATAAAACTGTAATAGTATTCTTGTGTTTGGTTGAATG
38743684 GAATAGATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.01
44 58 0.73
45 3 0.04
46 17 0.22
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (44 bp):
AATGAAATAAAACTGTAATAGTATTCTTGTGTTTGGTTGAATGA
Found at i:38749438 original size:12 final size:13
Alignment explanation
Indices: 38749416--38749448 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38749406 AACCAAAGGT
*
38749416 GAAGAAAAAAGAA
1 GAAGAAAAAGGAA
38749429 GAAGAAAAAGGAA
1 GAAGAAAAAGGAA
38749442 -AAGAAAA
1 GAAGAAAA
38749449 CATGGTCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAGGAA
Found at i:38754922 original size:15 final size:14
Alignment explanation
Indices: 38754873--38754928 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
38754863 TTAGGTAGAT
*
38754873 AATTAAATAATTAGG
1 AATTAAATAATTA-A
* *
38754888 AATTAATTAAGTAA
1 AATTAAATAATTAA
38754902 ATATTAAAATAATTAA
1 A-ATT-AAATAATTAA
38754918 AATTAAA-AATT
1 AATTAAATAATT
38754929 TTGGGTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 4 0.12
14 4 0.12
15 17 0.50
16 9 0.26
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (14 bp):
AATTAAATAATTAA
Found at i:38756149 original size:24 final size:24
Alignment explanation
Indices: 38756120--38756353 Score: 139
Period size: 24 Copynumber: 9.8 Consensus size: 24
38756110 TATTAACCTA
38756120 CGAACCCCTATCACCAGACATGTG
1 CGAACCCCTATCACCAGACATGTG
* * * * ** *
38756144 CAAACCCTTATCACCAAATACATA
1 CGAACCCCTATCACCAGACATGTG
* * * * ** *
38756168 CGAACACTTATCAGCAGATACCTA
1 CGAACCCCTATCACCAGACATGTG
* * ** *
38756192 CAAACCCCTATCACCAGAAACCTA
1 CGAACCCCTATCACCAGACATGTG
* *
38756216 CGAACCCCTATCACTAGAAACT-TG
1 CGAACCCCTATCACCAGACA-TGTG
* *
38756240 CGAACCCCTATCACCA-ATTAGGTG
1 CGAACCCCTATCACCAGA-CATGTG
* * **
38756264 CGAACCCCTATCACCAAATACCTG
1 CGAACCCCTATCACCAGACATGTG
* * * *
38756288 TGAACCCTTATCACTAGTCATGTG
1 CGAACCCCTATCACCAGACATGTG
* *
38756312 CGAACCCTTATCACCAGTCATGTG
1 CGAACCCCTATCACCAGACATGTG
38756336 CGAACCCCTATCACCAGA
1 CGAACCCCTATCACCAGA
38756354 TAGCAACAAA
Statistics
Matches: 168, Mismatches: 38, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
23 1 0.01
24 166 0.99
25 1 0.01
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.20
Consensus pattern (24 bp):
CGAACCCCTATCACCAGACATGTG
Found at i:38756171 original size:48 final size:48
Alignment explanation
Indices: 38756118--38756373 Score: 157
Period size: 48 Copynumber: 5.3 Consensus size: 48
38756108 TTTATTAACC
*
38756118 TACGAACCCCTATCACCAGACATGTGCAAACCCTTATCACCAAATACA
1 TACGAACCCCTATCACCAGACATGTGCAAACCCCTATCACCAAATACA
* * * * ** * *
38756166 TACGAACACTTATCAGCAGATACCTACAAACCCCTATCACCAGAA-ACC
1 TACGAACCCCTATCACCAGACATGTGCAAACCCCTATCACCA-AATACA
* * * * **
38756214 TACGAACCCCTATCACTAGAAACT-TGCGAACCCCTATCACCAATTAGG
1 TACGAACCCCTATCACCAGACA-TGTGCAAACCCCTATCACCAAATACA
* * * * * *
38756262 TGCGAACCCCTATCACCAAATACCTGTG--AACCCTTATCA-CTAGT-CA
1 TACGAACCCCTATCACC--AGACATGTGCAAACCCCTATCACCAAATACA
* * * * *
38756308 TGTGCGAACCCTTATCACCAGTCATGTGCGAACCCCTATCACCAGATAGCA
1 --TACGAACCCCTATCACCAGACATGTGCAAACCCCTATCACCAAATA-CA
*
38756359 -ACAAACCCCTATCAC
1 TACGAACCCCTATCAC
38756374 TAGATACCTA
Statistics
Matches: 154, Mismatches: 41, Indels: 26
0.70 0.19 0.12
Matches are distributed among these distances:
46 6 0.04
47 4 0.03
48 133 0.86
49 5 0.03
50 4 0.03
51 2 0.01
ACGTcount: A:0.34, C:0.35, G:0.11, T:0.20
Consensus pattern (48 bp):
TACGAACCCCTATCACCAGACATGTGCAAACCCCTATCACCAAATACA
Found at i:38756244 original size:72 final size:72
Alignment explanation
Indices: 38756115--38756404 Score: 194
Period size: 72 Copynumber: 4.0 Consensus size: 72
38756105 TGTTTTATTA
* ** * * * * * *
38756115 ACCTACGAACCCCTATCACCAGACATGTGCAAACCCTTATCACCA-AATACATACGAACACTTAT
1 ACCTACGAACCCCTATCACCAGAAACCTACAAACCCCTATCACTAGAA-ACTTGCGAACCCTTAT
*
38756179 CAGCAGAT
65 CACCAGAT
* * *
38756187 ACCTACAAACCCCTATCACCAGAAACCTACGAACCCCTATCACTAGAAACTTGCGAACCCCTATC
1 ACCTACGAACCCCTATCACCAGAAACCTACAAACCCCTATCACTAGAAACTTGCGAACCCTTATC
38756252 ACCA-ATT
66 ACCAGA-T
** * *** * **
38756259 AGGTGCGAACCCCTATCACCA-AATACCTGTGAACCCTTATCACTAGTCA-TGTGCGAACCCTTA
1 ACCTACGAACCCCTATCACCAGAA-ACCTACAAACCCCTATCACTAGAAACT-TGCGAACCCTTA
38756322 TCACCAG-T
64 TCACCAGAT
** * * * * * * ** *
38756330 CATGTGCGAACCCCTATCACCAGATAGCAACAAACCCCTATCACTAGATACCTATGAACCCCTAT
1 -ACCTACGAACCCCTATCACCAGAAACCTACAAACCCCTATCACTAGAAACTTGCGAACCCTTAT
*
38756395 CACTAGAT
65 CACCAGAT
38756403 AC
1 AC
38756405 ATGTGAGCCC
Statistics
Matches: 170, Mismatches: 39, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
71 5 0.03
72 161 0.95
73 4 0.02
ACGTcount: A:0.34, C:0.35, G:0.11, T:0.20
Consensus pattern (72 bp):
ACCTACGAACCCCTATCACCAGAAACCTACAAACCCCTATCACTAGAAACTTGCGAACCCTTATC
ACCAGAT
Found at i:38756419 original size:24 final size:24
Alignment explanation
Indices: 38756194--38756438 Score: 99
Period size: 24 Copynumber: 10.2 Consensus size: 24
38756184 GATACCTACA
* * * *
38756194 AACCCCTATCACCAGAAACCTACG
1 AACCCCTATCACTAGATACATATG
* * **
38756218 AACCCCTATCACTAGAAACTTGCG
1 AACCCCTATCACTAGATACATATG
* ** **
38756242 AACCCCTATCACCA-ATTAGGTGCG
1 AACCCCTATCACTAGA-TACATATG
* * * *
38756266 AACCCCTATCACCAAATACCTGTG
1 AACCCCTATCACTAGATACATATG
* *
38756290 AACCCTTATCACTAG-T-CATGTGCG
1 AACCCCTATCACTAGATACATAT--G
* * *
38756314 AACCCTTATCACCAG-T-CATGTGCG
1 AACCCCTATCACTAGATACATAT--G
* **
38756338 AACCCCTATCACCAGATAGCA-ACA
1 AACCCCTATCACTAGATA-CATATG
*
38756362 AACCCCTATCACTAGATACCTATG
1 AACCCCTATCACTAGATACATATG
*
38756386 AACCCCTATCACTAGATACATGTG
1 AACCCCTATCACTAGATACATATG
* * * *
38756410 AGCCCTTATCACCT-GGTACATACG
1 AACCCCTATCA-CTAGATACATATG
38756434 AACCC
1 AACCC
38756439 TGTATGCTAT
Statistics
Matches: 181, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
22 4 0.02
23 3 0.02
24 168 0.93
25 4 0.02
27 2 0.01
ACGTcount: A:0.32, C:0.35, G:0.12, T:0.21
Consensus pattern (24 bp):
AACCCCTATCACTAGATACATATG
Found at i:38756505 original size:32 final size:32
Alignment explanation
Indices: 38756451--38756548 Score: 117
Period size: 32 Copynumber: 3.1 Consensus size: 32
38756441 TATGCTATGC
* * * *
38756451 GACTATTTATGATGTACAAACCTATGTTGTGT
1 GACTATATGTGATGTGCGAACCTATGTTGTGT
* *
38756483 GACT-TCTTGTGATGTGCGAACCTATGTTATGT
1 GACTAT-ATGTGATGTGCGAACCTATGTTGTGT
*
38756515 GACTATATGTGATGTGCGAATCTATGTTGTGT
1 GACTATATGTGATGTGCGAACCTATGTTGTGT
38756547 GA
1 GA
38756549 TTGTGTATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
31 1 0.02
32 55 0.96
33 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.40
Consensus pattern (32 bp):
GACTATATGTGATGTGCGAACCTATGTTGTGT
Found at i:38756611 original size:23 final size:23
Alignment explanation
Indices: 38756585--38756656 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
38756575 ACGTATGGCA
38756585 AACCTATGCTAAAGTGATATGCG
1 AACCTATGCTAAAGTGATATGCG
38756608 AACCTATGCTAAAGTGATATGCG
1 AACCTATGCTAAAGTGATATGCG
* * ** *
38756631 AGCCTATACTAATTTGATATACG
1 AACCTATGCTAAAGTGATATGCG
38756654 AAC
1 AAC
38756657 TGTGATTATG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (23 bp):
AACCTATGCTAAAGTGATATGCG
Found at i:38757299 original size:183 final size:183
Alignment explanation
Indices: 38756984--38757349 Score: 671
Period size: 183 Copynumber: 2.0 Consensus size: 183
38756974 ACAGCACAAG
* * *
38756984 GTGTTAGCATTCATAATAGACTTATATTAGAGATAGCGTAGGGCTCTTTGAGTCAAAATCAATGC
1 GTGTTAGCATTCATAATACACTTATATCAGAGATAGCGTAGGGCTCTTTGAGTCAAAAGCAATGC
38757049 ATTACAAAGAGATCCGTTTATCCAATATGTGGTGATTGAGTCCACTTATAGGGGATGATAGAGTC
66 ATTACAAAGAGATCCGTTTATCCAATATGTGGTGATTGAGTCCACTTATAGGGGATGATAGAGTC
38757114 CCCTATATGTTTCATAATCATAAAAATGCCAATTTATTTCTATTTGAAATATA
131 CCCTATATGTTTCATAATCATAAAAATGCCAATTTATTTCTATTTGAAATATA
* *
38757167 GTGTTATCATTCATGATACACTTATATCAGAGATAGCGTAGGGCTCTTTGAGTCAAAAGCAATGC
1 GTGTTAGCATTCATAATACACTTATATCAGAGATAGCGTAGGGCTCTTTGAGTCAAAAGCAATGC
38757232 ATTACAAAGAGATCCGTTTATCCAATATGTGGTGATTGAGTCCACTTATAGGCGG-TGATAGAGT
66 ATTACAAAGAGATCCGTTTATCCAATATGTGGTGATTGAGTCCACTTATAGG-GGATGATAGAGT
38757296 CCCCTATATGTTTCATAATCATAAAAATGCCAATTTATTTCTATTTGAAATATA
130 CCCCTATATGTTTCATAATCATAAAAATGCCAATTTATTTCTATTTGAAATATA
38757350 TAAGTATGAT
Statistics
Matches: 177, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 175 0.99
184 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (183 bp):
GTGTTAGCATTCATAATACACTTATATCAGAGATAGCGTAGGGCTCTTTGAGTCAAAAGCAATGC
ATTACAAAGAGATCCGTTTATCCAATATGTGGTGATTGAGTCCACTTATAGGGGATGATAGAGTC
CCCTATATGTTTCATAATCATAAAAATGCCAATTTATTTCTATTTGAAATATA
Found at i:38757446 original size:18 final size:18
Alignment explanation
Indices: 38757425--38757467 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
38757415 ACGAGAAATC
38757425 CTTATTTTATGTAAATTT
1 CTTATTTTATGTAAATTT
* * **
38757443 CTTAGTCTATGTGCATTT
1 CTTATTTTATGTAAATTT
38757461 CTTATTT
1 CTTATTT
38757468 ATGAGAACTG
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (18 bp):
CTTATTTTATGTAAATTT
Found at i:38758068 original size:42 final size:42
Alignment explanation
Indices: 38758009--38758095 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
38757999 TGCATGAATG
38758009 TAAAATTGGACAAGTTACGTAAACTGTTAGTTGCCTGCAAAC
1 TAAAATTGGACAAGTTACGTAAACTGTTAGTTGCCTGCAAAC
38758051 TAAAATTGGACAAGTTACGTAAACTGTTAGTTGCCTGCAAAC
1 TAAAATTGGACAAGTTACGTAAACTGTTAGTTGCCTGCAAAC
38758093 TAA
1 TAA
38758096 TTAAATGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (42 bp):
TAAAATTGGACAAGTTACGTAAACTGTTAGTTGCCTGCAAAC
Found at i:38765742 original size:90 final size:92
Alignment explanation
Indices: 38765624--38765842 Score: 264
Period size: 90 Copynumber: 2.4 Consensus size: 92
38765614 CATTTTTTTC
* * * *
38765624 ACTCACTTTGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTTTTAAAAAAAAGC
1 ACTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGGCCCTCAAACTTTTTAAAAAAAAGC
* **
38765689 AATTAA-ACCTC-TGTTTTTATTTTGA
66 AATTAAGACCCCAAATTTTTATTTTGA
* * * *
38765714 ACTCAATTGGGTACTTGAACTTTTAAAATATATAAAAAATGCCCTCAAACTTTTTCAAAAAAAGC
1 ACTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGGCCCTCAAACTTTTTAAAAAAAAGC
* * *
38765779 AATTAAGTCCCCAAATTTTTTTTTTGC
66 AATTAAGACCCCAAATTTTTATTTTGA
* * *
38765806 ACTCAGTTGGGTACTTGAACTGTC-AAATACATCAAAA
1 ACTCAATTGGGTACTTGAACTTTCAAAATACATAAAAA
38765843 GGTCCTTTGA
Statistics
Matches: 108, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
90 63 0.58
91 14 0.13
92 31 0.29
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (92 bp):
ACTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGGCCCTCAAACTTTTTAAAAAAAAGC
AATTAAGACCCCAAATTTTTATTTTGA
Found at i:38766025 original size:12 final size:11
Alignment explanation
Indices: 38766010--38766039 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
38766000 ATAAAAATAT
38766010 AAAAAAATTAG
1 AAAAAAATTAG
38766021 AAAAAAATTAG
1 AAAAAAATTAG
38766032 AAAAAAAT
1 AAAAAAAT
38766040 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAAAAATTAG
Found at i:38766257 original size:12 final size:11
Alignment explanation
Indices: 38766235--38766386 Score: 54
Period size: 11 Copynumber: 15.3 Consensus size: 11
38766225 AGTATGATAA
38766235 TTTTTATAATT
1 TTTTTATAATT
38766246 TTTTTATGAA--
1 TTTTTAT-AATT
38766256 -TTTTAT-ATT
1 TTTTTATAATT
*
38766265 TCTTTAT-ATT
1 TTTTTATAATT
38766275 TTTTTATAATT
1 TTTTTATAATT
*
38766286 TTCTTACT-A--
1 TTTTTA-TAATT
* *
38766295 -CTTTATAA-A
1 TTTTTATAATT
*
38766304 ATTTTATAATT
1 TTTTTATAATT
38766315 TCTTTTAT-A--
1 T-TTTTATAATT
*
38766324 TTTCTAT-A-T
1 TTTTTATAATT
*
38766333 GTTTTATAATT
1 TTTTTATAATT
*
38766344 TTTTTACAA--
1 TTTTTATAATT
38766353 -TTTT-TAATT
1 TTTTTATAATT
*
38766362 TTTTTACAATT
1 TTTTTATAATT
*
38766373 TTTTTAAAATT
1 TTTTTATAATT
38766384 TTT
1 TTT
38766387 AATTTTTTTT
Statistics
Matches: 107, Mismatches: 16, Indels: 36
0.67 0.10 0.23
Matches are distributed among these distances:
7 4 0.04
8 14 0.13
9 12 0.11
10 26 0.24
11 42 0.39
12 9 0.08
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:38766287 original size:10 final size:10
Alignment explanation
Indices: 38766231--38766463 Score: 91
Period size: 10 Copynumber: 23.9 Consensus size: 10
38766221 TTTTAGTATG
38766231 ATAA-TTTTT
1 ATAATTTTTT
38766240 ATAATTTTTTT
1 ATAA-TTTTTT
38766251 ATGAA--TTTT
1 AT-AATTTTTT
38766260 AT-ATTTCTTT
1 ATAATTT-TTT
*
38766270 ATATTTTTTT
1 ATAATTTTTT
*
38766280 ATAATTTTCT
1 ATAATTTTTT
* **
38766290 -TACTACTTT
1 ATAATTTTTT
**
38766299 ATAAAATTTT
1 ATAATTTTTT
38766309 ATAATTTCTTT
1 ATAATTT-TTT
*
38766320 -T-ATATTTCT
1 ATAAT-TTTTT
*
38766329 AT-ATGTTTT
1 ATAATTTTTT
38766338 ATAATTTTTT
1 ATAATTTTTT
*
38766348 -TACAATTTTT
1 ATA-ATTTTTT
*
38766358 A-ATTTTTTT
1 ATAATTTTTT
*
38766367 ACAATTTTTT
1 ATAATTTTTT
**
38766377 -TAAAATTTT
1 ATAATTTTTT
38766386 -TAATTTTTT
1 ATAATTTTTT
* *
38766395 TTAATTTTTA
1 ATAATTTTTT
38766405 ATAAATTTTTT
1 AT-AATTTTTT
*
38766416 A-ATATTTTCT
1 ATA-ATTTTTT
38766426 AT-ATTTTTT
1 ATAATTTTTT
** *
38766435 ATTAAAATTTA
1 A-TAATTTTTT
38766446 ATAA-TTTTT
1 ATAATTTTTT
*
38766455 ATAAATTTT
1 ATAATTTTT
38766464 ATTGATTTTT
Statistics
Matches: 167, Mismatches: 35, Indels: 43
0.68 0.14 0.18
Matches are distributed among these distances:
7 1 0.01
9 61 0.37
10 77 0.46
11 26 0.16
12 2 0.01
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:38766298 original size:29 final size:29
Alignment explanation
Indices: 38766237--38766403 Score: 103
Period size: 29 Copynumber: 5.8 Consensus size: 29
38766227 TATGATAATT
* * *
38766237 TTTATAATTTTTTTATGAA-TTTTATATTTC
1 TTTAT-ATTTTTTTAT-AATTTTTTTACTAC
*
38766267 TTTATATTTTTTTATAATTTTCTTACTAC
1 TTTATATTTTTTTATAATTTTTTTACTAC
***
38766296 TTTATAAAATTTTATAATTTCTTTTA-TA-
1 TTTATATTTTTTTATAATTT-TTTTACTAC
* * *
38766324 TTTCTATATGTTTTATAATTTTTTTAC-AA
1 TTTATAT-TTTTTTATAATTTTTTTACTAC
* * * *
38766353 TTTTTAATTTTTTTACAATTTTTTTA-AAA
1 TTTAT-ATTTTTTTATAATTTTTTTACTAC
*
38766382 TTTTTAATTTTTTT-TAATTTTT
1 TTTAT-ATTTTTTTATAATTTTT
38766404 AATAAATTTT
Statistics
Matches: 114, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
28 20 0.18
29 83 0.73
30 11 0.10
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (29 bp):
TTTATATTTTTTTATAATTTTTTTACTAC
Found at i:38766360 original size:18 final size:18
Alignment explanation
Indices: 38766334--38766375 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
38766324 TTTCTATATG
38766334 TTTTATAATTTTTTTACAA
1 TTTT-TAATTTTTTTACAA
38766353 TTTTTAATTTTTTTACAA
1 TTTTTAATTTTTTTACAA
38766371 TTTTT
1 TTTTT
38766376 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTAATTTTTTTACAA
Found at i:38766392 original size:17 final size:17
Alignment explanation
Indices: 38766372--38766406 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
38766362 TTTTTACAAT
38766372 TTTTTTAAAATTTTTAA
1 TTTTTTAAAATTTTTAA
**
38766389 TTTTTTTTAATTTTTAA
1 TTTTTTAAAATTTTTAA
38766406 T
1 T
38766407 AAATTTTTTA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAAAATTTTTAA
Found at i:38766459 original size:19 final size:19
Alignment explanation
Indices: 38766430--38766475 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38766420 TTTTCTATAT
38766430 TTTTTATTAAAATTTAATAA
1 TTTTTA-TAAAATTTAATAA
* * *
38766450 TTTTTATAAATTTTATTGA
1 TTTTTATAAAATTTAATAA
38766469 TTTTTAT
1 TTTTTAT
38766476 TTTTATCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTATAAAATTTAATAA
Found at i:38766474 original size:29 final size:29
Alignment explanation
Indices: 38766351--38766474 Score: 71
Period size: 29 Copynumber: 4.3 Consensus size: 29
38766341 ATTTTTTTAC
*
38766351 AATTTTTAAT-TTTT-T-TACAATTTTTTT
1 AATTTTTAATATTTTCTATA-AATTTTATT
* * *
38766378 AAAATTTTTAAT-TTTT-TTTAATTTTTAATA
1 --AATTTTTAATATTTTCTATAAATTTT-ATT
**
38766408 AATTTTTTAATATTTTCTATATTTTTTATT
1 AA-TTTTTAATATTTTCTATAAATTTTATT
**
38766438 AAAATTTAATAATTTT-TATAAATTTTATT
1 AATTTTTAAT-ATTTTCTATAAATTTTATT
*
38766467 GATTTTTA
1 AATTTTTA
38766475 TTTTTATCAT
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
28 2 0.03
29 50 0.66
30 16 0.21
31 8 0.11
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (29 bp):
AATTTTTAATATTTTCTATAAATTTTATT
Found at i:38766711 original size:91 final size:87
Alignment explanation
Indices: 38766549--38766755 Score: 256
Period size: 91 Copynumber: 2.3 Consensus size: 87
38766539 TTAGGGGCAA
* *
38766549 TTCAAGTACCCAATTGAGTGCAAAA-AAAAGGAGCTTAATTGCTTTTATTGAAAAAGTTTGAGGG
1 TTCAAGTATCCAATTGAGTGCAAAATAAAAGGAGCTTAATTGCTTTTATTGAAAAAGTTTGAGGA
38766613 CCATTTTGATGCATTTTAAAAG
66 CCATTTTGATGCATTTTAAAAG
* *
38766635 -TCTAAGTATCCAATTGAGTGCAAAATAGAAGCAGAGGCTTAATTGCTGTTTTTTGAAAAAGTTT
1 TTC-AAGTATCCAATTGAGTGCAAAATAAAAG--GA-GCTTAATTGCT-TTTATTGAAAAAGTTT
*** *
38766699 GAGGATTTTTTTGATGCATTTTGAAAG
61 GAGGACCATTTTGATGCATTTTAAAAG
* * *
38766726 TTCAAATATCCAAGTGAATGCAAAATAAAA
1 TTCAAGTATCCAATTGAGTGCAAAATAAAA
38766756 ACAGGGACTT
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
85 2 0.02
86 21 0.21
87 4 0.04
89 2 0.02
90 11 0.11
91 60 0.59
92 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (87 bp):
TTCAAGTATCCAATTGAGTGCAAAATAAAAGGAGCTTAATTGCTTTTATTGAAAAAGTTTGAGGA
CCATTTTGATGCATTTTAAAAG
Found at i:38766767 original size:91 final size:90
Alignment explanation
Indices: 38766581--38766785 Score: 243
Period size: 91 Copynumber: 2.3 Consensus size: 90
38766571 AAAAAAAGGA
* * *
38766581 GCTTAATTGCTTTTATTGAAAAAGTTTGAGGGCCATTTTGATGCATTTTAAAAGTCTAAGTATCC
1 GCTTAATTGCTTTTTTTGAAAAAGTTTGAGGACCATTTTGATGCATTTTAAAAGTCTAAATATCC
* * * *
38766646 AATTGAGTGCAAAATAGAAGCAGAG
66 AAGTGAATGCAAAATAAAAACAGAG
*** *
38766671 GCTTAATTGCTGTTTTTTGAAAAAGTTTGAGGATTTTTTTGATGCATTTTGAAAGT-TCAAATAT
1 GCTTAATTGCT-TTTTTTGAAAAAGTTTGAGGACCATTTTGATGCATTTTAAAAGTCT-AAATAT
38766735 CCAAGTGAATGCAAAATAAAAACAG-G
64 CCAAGTGAATGCAAAATAAAAACAGAG
* *
38766761 GACTTAATAGCTTTATTTTAAAAAA
1 G-CTTAATTGCTTT-TTTTGAAAAA
38766786 ATTGAGGGCA
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
90 16 0.16
91 82 0.84
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (90 bp):
GCTTAATTGCTTTTTTTGAAAAAGTTTGAGGACCATTTTGATGCATTTTAAAAGTCTAAATATCC
AAGTGAATGCAAAATAAAAACAGAG
Found at i:38770890 original size:16 final size:16
Alignment explanation
Indices: 38770869--38770902 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
38770859 AATAAATACT
*
38770869 AAATCTTTTATAAAGA
1 AAATCTTTTAGAAAGA
38770885 AAATCTTTTAGAAAGA
1 AAATCTTTTAGAAAGA
38770901 AA
1 AA
38770903 TTATATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (16 bp):
AAATCTTTTAGAAAGA
Found at i:38771364 original size:11 final size:11
Alignment explanation
Indices: 38771343--38771459 Score: 67
Period size: 11 Copynumber: 11.4 Consensus size: 11
38771333 AAAAATTAAA
38771343 AAAATATATTTT
1 AAAA-ATATTTT
38771355 AAAAATATTTT
1 AAAAATATTTT
38771366 -AAAATA----
1 AAAAATATTTT
**
38771372 AAAAA-AAATT
1 AAAAATATTTT
38771382 AAAAATGTATTTT
1 AAAAA--TATTTT
*
38771395 AAAATTATTTT
1 AAAAATATTTT
38771406 AAAAATATTTT
1 AAAAATATTTT
38771417 -AAAATA----
1 AAAAATATTTT
* **
38771423 AAAAAAATTAA
1 AAAAATATTTT
38771434 AAAAATATTTT
1 AAAAATATTTT
*
38771445 AAAAGTATTTT
1 AAAAATATTTT
38771456 AAAA
1 AAAA
38771460 TTAAAAAAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 27
0.70 0.08 0.23
Matches are distributed among these distances:
6 1 0.01
7 9 0.11
10 17 0.20
11 45 0.54
12 4 0.05
13 7 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:38771425 original size:40 final size:41
Alignment explanation
Indices: 38771344--38771466 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 41
38771334 AAAATTAAAA
****
38771344 AAATATATTTTAAAAATATTTT-AAAATAAAAAAAAATTAA
1 AAATATATTTTAAAAATATTTTAAAAATATTTTAAAATTAA
* *
38771384 AAATGTATTTTAAAATTATTTTAAAAATATTTTAAAA-TAA
1 AAATATATTTTAAAAATATTTTAAAAATATTTTAAAATTAA
* ** *
38771424 AAA-AAATTAAAAAAATATTTTAAAAGTATTTTAAAATTAA
1 AAATATATTTTAAAAATATTTTAAAAATATTTTAAAATTAA
38771464 AAA
1 AAA
38771467 AATAAAAATA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 27 0.39
40 32 0.46
41 10 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (41 bp):
AAATATATTTTAAAAATATTTTAAAAATATTTTAAAATTAA
Found at i:38771447 original size:50 final size:51
Alignment explanation
Indices: 38771343--38771459 Score: 191
Period size: 50 Copynumber: 2.3 Consensus size: 51
38771333 AAAAATTAAA
**
38771343 AAAATATATTTTAAAAATATTTTAAAATAAAAAAAAATTAAAAATGTATTTT
1 AAAAT-TATTTTAAAAATATTTTAAAATAAAAAAAAATTAAAAAAATATTTT
38771395 AAAATTATTTTAAAAATATTTTAAAAT-AAAAAAAATTAAAAAAATATTTT
1 AAAATTATTTTAAAAATATTTTAAAATAAAAAAAAATTAAAAAAATATTTT
*
38771445 AAAAGTATTTTAAAA
1 AAAATTATTTTAAAA
38771460 TTAAAAAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 35 0.56
51 22 0.35
52 5 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (51 bp):
AAAATTATTTTAAAAATATTTTAAAATAAAAAAAAATTAAAAAAATATTTT
Found at i:38771454 original size:39 final size:38
Alignment explanation
Indices: 38771395--38771474 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 38
38771385 AATGTATTTT
*
38771395 AAAATTATTTTAAAAATATTTTAAAATAAAAAAAATTAA
1 AAAAATATTTTAAAAATATTTTAAAATAAAAAAAA-TAA
* *
38771434 AAAAATATTTTAAAAGTATTTTAAAATTAAAAAAATAA
1 AAAAATATTTTAAAAATATTTTAAAATAAAAAAAATAA
38771472 AAA
1 AAA
38771475 TATTTTCTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 6 0.16
39 32 0.84
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (38 bp):
AAAAATATTTTAAAAATATTTTAAAATAAAAAAAATAA
Found at i:38773506 original size:35 final size:35
Alignment explanation
Indices: 38773467--38773538 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
38773457 GAACAAGGGG
38773467 AAATAGGGTTTCAAAGTTTTAAGCTTTCATCCCTT
1 AAATAGGGTTTCAAAGTTTTAAGCTTTCATCCCTT
38773502 AAATAGGGTTTCAAAGTTTTAAGCTTTCATCCCTT
1 AAATAGGGTTTCAAAGTTTTAAGCTTTCATCCCTT
38773537 AA
1 AA
38773539 TTTGGTAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (35 bp):
AAATAGGGTTTCAAAGTTTTAAGCTTTCATCCCTT
Found at i:38774366 original size:9 final size:9
Alignment explanation
Indices: 38774352--38774397 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
38774342 GTTAAACGAA
38774352 TCGAGTTAT
1 TCGAGTTAT
38774361 TCGAGTTAT
1 TCGAGTTAT
38774370 TCGAGTTAT
1 TCGAGTTAT
*
38774379 TCGAGTTAA
1 TCGAGTTAT
38774388 TCGAGTTAT
1 TCGAGTTAT
38774397 T
1 T
38774398 TGAATCAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:38776945 original size:6 final size:7
Alignment explanation
Indices: 38776918--38776944 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
38776908 AGTACATGAA
38776918 AATTTTT
1 AATTTTT
38776925 AATTTTT
1 AATTTTT
38776932 AATTTTT
1 AATTTTT
38776939 AATTTT
1 AATTTT
38776945 AGTATTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
AATTTTT
Found at i:38777064 original size:21 final size:19
Alignment explanation
Indices: 38777013--38777071 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
38777003 AAAATTATGA
*
38777013 AAAATATAAAAATTTCTAT
1 AAAATATAAAAATTTTTAT
* *
38777032 AAAATTTTAAAATTTTTATT
1 AAAATATAAAAATTTTTA-T
*
38777052 GAAAATATGAAAATATTTTA
1 -AAAATATAAAAAT-TTTTA
38777072 CTTTTTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 15 0.47
20 1 0.03
21 11 0.34
22 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (19 bp):
AAAATATAAAAATTTTTAT
Found at i:38778281 original size:27 final size:28
Alignment explanation
Indices: 38778232--38778284 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
38778222 AACCTCTTAC
38778232 ACATTAAACCAAAACCAAAATAACAAAG
1 ACATTAAACCAAAACCAAAATAACAAAG
38778260 ACATTAAACC-AAACCAAAATAACAA
1 ACATTAAACCAAAACCAAAATAACAA
38778285 TGATACAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.64, C:0.23, G:0.02, T:0.11
Consensus pattern (28 bp):
ACATTAAACCAAAACCAAAATAACAAAG
Found at i:38787149 original size:17 final size:17
Alignment explanation
Indices: 38787127--38787160 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38787117 AGCGGTAGGC
*
38787127 AGTTAGCTGTTAACTTT
1 AGTTAGCAGTTAACTTT
*
38787144 AGTTAGCAGTTATCTTT
1 AGTTAGCAGTTAACTTT
38787161 GTATATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (17 bp):
AGTTAGCAGTTAACTTT
Found at i:38792518 original size:254 final size:253
Alignment explanation
Indices: 38792063--38792569 Score: 847
Period size: 254 Copynumber: 2.0 Consensus size: 253
38792053 GTTCAAGAGT
* * * *
38792063 TATTGAACCTGACTCTGATACTATCAAATGTAGCAATCTGGCCCGGTCGCCAAGCCCGAATAATA
1 TATTGAACCTGACTCTGATACCACCAAATGTAGCAATCTGGCCCGGTCACCAAGCCCAAATAATA
38792128 GGACGCTACACCACCGTCTTACATCGATTTCATCACAATTGTCACATTTAGTATACAGACCTCTT
66 GGACGCTACACCACCGTCTTACATCGATTTCATCACAATTGTCACATTTAGTATACAGACCTCTT
*
38792193 TTATTTTCTTTTATTACTATAACATTCATACGAATATTAAGTCATGCAAGCTCAAATTAATGTTC
131 TTATTTTCTTTTATTACTATAACATTCATACGAATATTAAGTCATGCAAGATCAAATTAATGTTC
*
38792258 AGTCAAGCTGTCAAATGACAAATGAACATAAAATAGGCATAAATCAAGCCTTGAAACC
196 AGTCAAGCTGTCAAATGACAAATGAACATAAAATAAGCATAAATCAAGCCTTGAAACC
* *
38792316 TATTGAACCTGACTCTGATACCACCAAATGTAGC-ATACTTGGCCTGGTCACCAAGCCCAAATAC
1 TATTGAACCTGACTCTGATACCACCAAATGTAGCAAT-C-TGGCCCGGTCACCAAGCCCAAATAA
*
38792380 TAGGACGCTACACCACCGTCTTACATCGATTTCATCACAATTGTCACATTTAGTATACATG-CTT
64 TAGGACGCTACACCACCGTCTTACATCGATTTCATCACAATTGTCACATTTAGTATACA-GACCT
* *
38792444 CTTTTCTTTTCTTTTATTACTATAGCATTCATACGAATATTAAGTCATGCAAGATCAAATTAATG
128 CTTTTATTTTCTTTTATTACTATAACATTCATACGAATATTAAGTCATGCAAGATCAAATTAATG
* * *
38792509 TTTAGTCAAGTTGTCAAATGACAAATGAACATAAAATAAGCATAAATCAAGCCTTGGAACC
193 TTCAGTCAAGCTGTCAAATGACAAATGAACATAAAATAAGCATAAATCAAGCCTTGAAACC
38792570 ACTTATCAAA
Statistics
Matches: 237, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
252 2 0.01
253 33 0.14
254 201 0.85
255 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (253 bp):
TATTGAACCTGACTCTGATACCACCAAATGTAGCAATCTGGCCCGGTCACCAAGCCCAAATAATA
GGACGCTACACCACCGTCTTACATCGATTTCATCACAATTGTCACATTTAGTATACAGACCTCTT
TTATTTTCTTTTATTACTATAACATTCATACGAATATTAAGTCATGCAAGATCAAATTAATGTTC
AGTCAAGCTGTCAAATGACAAATGAACATAAAATAAGCATAAATCAAGCCTTGAAACC
Found at i:38796167 original size:11 final size:11
Alignment explanation
Indices: 38796151--38796178 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
38796141 GTCGTCTCTT
38796151 CCTTCGTTCTA
1 CCTTCGTTCTA
38796162 CCTTCGTTCTA
1 CCTTCGTTCTA
38796173 CCTTCG
1 CCTTCG
38796179 CCTCTCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.39, G:0.11, T:0.43
Consensus pattern (11 bp):
CCTTCGTTCTA
Found at i:38803025 original size:92 final size:91
Alignment explanation
Indices: 38802868--38803076 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
38802858 TTGATTTTAG
* * *
38802868 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
38802933 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
38802960 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
38803024 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
38803052 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
38803077 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:38803039 original size:24 final size:25
Alignment explanation
Indices: 38803004--38803051 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
38802994 TTATGAAATT
38803004 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
38803028 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
38803052 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:38803247 original size:16 final size:16
Alignment explanation
Indices: 38803226--38803267 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38803216 TTATTAAATT
*
38803226 ATATATTTTAATTATA
1 ATATATTTTAATAATA
38803242 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
38803257 AT-TATGTTTAA
1 ATATAT-TTTAA
38803268 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:38803252 original size:15 final size:15
Alignment explanation
Indices: 38803217--38803258 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38803207 TTAAGAATTT
*
38803217 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38803231 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38803245 TATTTAATAATAAT
1 TATTTAATTATAAT
38803259 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:38803423 original size:16 final size:16
Alignment explanation
Indices: 38803402--38803436 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
38803392 ATATATTAAA
38803402 TAACAATAACAATATT
1 TAACAATAACAATATT
38803418 TAACAATAACAATATT
1 TAACAATAACAATATT
38803434 TAA
1 TAA
38803437 TAATTTACCA
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:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (16 bp):
TAACAATAACAATATT
Found at i:38803501 original size:18 final size:18
Alignment explanation
Indices: 38803473--38803523 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
38803463 ATTATTAAGA
38803473 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
38803490 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
38803506 A-TTTAATAATAATTATAT
1 ATTTTAATTA-AATTATAT
38803524 TTAAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 5 0.17
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:38803767 original size:16 final size:16
Alignment explanation
Indices: 38803742--38803777 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
38803732 GATTTGCTAT
38803742 TACACATCTAATCCAA
1 TACACATCTAATCCAA
*
38803758 TACACCTCTAATCCAA
1 TACACATCTAATCCAA
38803774 TACA
1 TACA
38803778 GCGAACCAAA
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:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACATCTAATCCAA
Found at i:38807028 original size:23 final size:23
Alignment explanation
Indices: 38806994--38807045 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
38806984 TAGATTTTTC
*
38806994 CTAAATATTATCACTAAATAATT
1 CTAAATACTATCACTAAATAATT
*
38807017 CTAAATACTATCATTAAATAATT
1 CTAAATACTATCACTAAATAATT
*
38807040 CAAAAT
1 CTAAAT
38807046 TTAAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATACTATCACTAAATAATT
Found at i:38810097 original size:17 final size:17
Alignment explanation
Indices: 38810075--38810109 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38810065 CTTGTAATAG
38810075 AAGAATCCATCGAATCA
1 AAGAATCCATCGAATCA
38810092 AAGAATCCATCGAATCA
1 AAGAATCCATCGAATCA
38810109 A
1 A
38810110 CCTAATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (17 bp):
AAGAATCCATCGAATCA
Found at i:38810610 original size:33 final size:33
Alignment explanation
Indices: 38810559--38810624 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
38810549 CTTATCGACC
38810559 GTGATCCCTTCAGCGCAAACAATATTCCCTAAA
1 GTGATCCCTTCAGCGCAAACAATATTCCCTAAA
* * *
38810592 GTGATCTCTTTAGTGCAAACAATATTCCCTAAA
1 GTGATCCCTTCAGCGCAAACAATATTCCCTAAA
38810625 ATCAATCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (33 bp):
GTGATCCCTTCAGCGCAAACAATATTCCCTAAA
Found at i:38814330 original size:18 final size:19
Alignment explanation
Indices: 38814291--38814333 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
38814281 TTAAATCAAG
*
38814291 AAAAAAACAAAAATATAGA
1 AAAAAAACAAAAATAGAGA
38814310 AAAAAAACAAAAA-AG-GA
1 AAAAAAACAAAAATAGAGA
38814327 AAAAAAA
1 AAAAAAA
38814334 GAAACCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
19 13 0.57
ACGTcount: A:0.84, C:0.05, G:0.07, T:0.05
Consensus pattern (19 bp):
AAAAAAACAAAAATAGAGA
Found at i:38814800 original size:42 final size:42
Alignment explanation
Indices: 38814740--38815077 Score: 396
Period size: 42 Copynumber: 8.1 Consensus size: 42
38814730 AAGGAAAACA
* *
38814740 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCATTCACTT
*
38814782 TTCATTGCATTCAAAGACCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCATTCACTT
* * * *
38814824 TTCGTTGCATTTAGAA-ACCCAGTTCTGGAAGTCCATTCACTT
1 TTCATTGCATTTA-AAGACCCAGGTGTGGAGGTCCATTCACTT
* * * *
38814866 TTCATTGCATCTAGAGACCCAGGTGTAGAGGTCTATTCACTT
1 TTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCATTCACTT
* *
38814908 TTCATTACATTTAGAA-ACCTAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTA-AAGACCCAGGTGTGGAGGTCCATTCACTT
* *
38814950 TTCATTGCATCTAGAGACCCAGGTGTGGAGGT-CATTCACTT
1 TTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCATTCACTT
* * * * * *
38814991 TTCATTGCAGTTAGAGACCCAGGTGCGGAGGTTCTTTGACTT
1 TTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCATTCACTT
* * * *
38815033 TTCATTGCATTTAGAA-ACCCAAGTGTAGAGGTCCGTTTACTT
1 TTCATTGCATTTA-AAGACCCAGGTGTGGAGGTCCATTCACTT
38815075 TTC
1 TTC
38815078 TAGTTTACTT
Statistics
Matches: 251, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
41 40 0.16
42 207 0.82
43 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (42 bp):
TTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCATTCACTT
Found at i:38814970 original size:126 final size:124
Alignment explanation
Indices: 38814740--38815077 Score: 446
Period size: 126 Copynumber: 2.7 Consensus size: 124
38814730 AAGGAAAACA
* * *
38814740 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTCA-AAGACCCAG
1 TTCATTGCA-TTAGAGACCCAGGTGTGGAGGTCTATTCACTTTTCATTGCATTTAGAA-ACCCAG
* * *
38814804 GTGTGGAGGTCCATTCACTTTTCGTTGCATTTAGAAACCCAGTTCTGGAAGTCCATTCACTT
64 GTGTGGAGGTCCATTCACTTTTCATTGCATCTAGAAACCCAGGTCTGGAAGT-CATTCACTT
* * *
38814866 TTCATTGCATCTAGAGACCCAGGTGTAGAGGTCTATTCACTTTTCATTACATTTAGAAACCTAGG
1 TTCATTGCAT-TAGAGACCCAGGTGTGGAGGTCTATTCACTTTTCATTGCATTTAGAAACCCAGG
* * *
38814931 TGTGGAGGTCCATTCACTTTTCATTGCATCTAGAGACCCAGGTGTGGAGGTCATTCACTT
65 TGTGGAGGTCCATTCACTTTTCATTGCATCTAGAAACCCAGGTCTGGAAGTCATTCACTT
* * *
38814991 TTCATTGCAGTTAGAGACCCAGGTGCGGAGGTTCT-TTGACTTTTCATTGCATTTAGAAACCCAA
1 TTCATTGCA-TTAGAGACCCAGGTGTGGAGG-TCTATTCACTTTTCATTGCATTTAGAAACCCAG
* * *
38815055 GTGTAGAGGTCCGTTTACTTTTC
64 GTGTGGAGGTCCATTCACTTTTC
38815078 TAGTTTACTT
Statistics
Matches: 187, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
125 82 0.44
126 103 0.55
127 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (124 bp):
TTCATTGCATTAGAGACCCAGGTGTGGAGGTCTATTCACTTTTCATTGCATTTAGAAACCCAGGT
GTGGAGGTCCATTCACTTTTCATTGCATCTAGAAACCCAGGTCTGGAAGTCATTCACTT
Found at i:38815105 original size:16 final size:16
Alignment explanation
Indices: 38815084--38815114 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38815074 TTTCTAGTTT
38815084 ACTTTTCATTGCATTG
1 ACTTTTCATTGCATTG
38815100 ACTTTTCATTGCATT
1 ACTTTTCATTGCATT
38815115 TAGAGGCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (16 bp):
ACTTTTCATTGCATTG
Found at i:38815484 original size:3 final size:3
Alignment explanation
Indices: 38815478--38815514 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
38815468 TATTATCATC
38815478 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
38815515 GTAGTAGCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ACT
Found at i:38815595 original size:5 final size:5
Alignment explanation
Indices: 38815585--38815610 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
38815575 ATATATAAAC
38815585 ATGAA ATGAA ATGAA ATGAA ATGAA A
1 ATGAA ATGAA ATGAA ATGAA ATGAA A
38815611 AAAGGAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
ATGAA
Found at i:38816135 original size:31 final size:30
Alignment explanation
Indices: 38816077--38816136 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
38816067 AAAGAAAGTC
*
38816077 TAACTTTTTAAAATAAAATTTTGATTTTTT
1 TAACTTTTTAAAATAAAATTTTAATTTTTT
* **
38816107 TAACTATTTTGAAATAAGGTTTTAATTTTT
1 TAACT-TTTTAAAATAAAATTTTAATTTTT
38816137 AAGAAAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (30 bp):
TAACTTTTTAAAATAAAATTTTAATTTTTT
Found at i:38816156 original size:148 final size:150
Alignment explanation
Indices: 38815878--38816156 Score: 377
Period size: 148 Copynumber: 1.9 Consensus size: 150
38815868 AAAAAGAGAA
* * *
38815878 TTTAGATTTTGAAAAAAAAATCTATTTTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAAT
1 TTTAGATTTTGAAAAAAAAATCTATTTTTTTAGTCATTTAAAAAGAAAGTCTAAAATTTTAAAAT
* * *
38815943 AAAGTTTTGAATTTTTTCAACTATTTCAAAATAAAATGTTTAATCTTTAAGGAAAATAGTGTTTT
66 AAAATTTTGAATTTTTTCAACTATTTCAAAATAAAATGTTTAATCTTTAAGAAAAATAATGTTTT
38816008 TTTTCTAAAAAGGGAGAAAG
131 TTTTCTAAAAAGGGAGAAAG
* **
38816028 TTTAGATTTTGAAAAATAAAT-T-TTTTTTTAGTCATTTAAAAAGAAAGTCTAACTTTTTAAAAT
1 TTTAGATTTTGAAAAAAAAATCTATTTTTTTAGTCATTTAAAAAGAAAGTCTAAAATTTTAAAAT
* ** ** * *
38816091 AAAATTTTG-ATTTTTTTAACTATTTTGAAATAAGGT-TTTAATTTTTAAGAAAAAGTAATGATT
66 AAAATTTTGAATTTTTTCAACTATTTCAAAATAAAATGTTTAATCTTTAAGAAAAA-TAATGTTT
38816154 TTT
130 TTT
38816157 AAGAAAATTA
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
146 16 0.14
147 31 0.28
148 44 0.39
149 1 0.01
150 20 0.18
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.45
Consensus pattern (150 bp):
TTTAGATTTTGAAAAAAAAATCTATTTTTTTAGTCATTTAAAAAGAAAGTCTAAAATTTTAAAAT
AAAATTTTGAATTTTTTCAACTATTTCAAAATAAAATGTTTAATCTTTAAGAAAAATAATGTTTT
TTTTCTAAAAAGGGAGAAAG
Found at i:38816163 original size:19 final size:20
Alignment explanation
Indices: 38816131--38816175 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
38816121 TAAGGTTTTA
38816131 ATTTTTAAGAAAAAGTAATG
1 ATTTTTAAGAAAAAGTAATG
*
38816151 ATTTTTAAG-AAAATTAATG
1 ATTTTTAAGAAAAAGTAATG
38816170 ATTTTT
1 ATTTTT
38816176 TAAAAAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (20 bp):
ATTTTTAAGAAAAAGTAATG
Found at i:38816182 original size:19 final size:18
Alignment explanation
Indices: 38816140--38816182 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
38816130 AATTTTTAAG
38816140 AAAAAGTAATGATTTTTA
1 AAAAAGTAATGATTTTTA
*
38816158 AGAAAATTAATGATTTTTTA
1 A-AAAAGTAATGA-TTTTTA
38816178 AAAAA
1 AAAAA
38816183 ACTTTGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 14 0.64
20 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (18 bp):
AAAAAGTAATGATTTTTA
Found at i:38816183 original size:20 final size:20
Alignment explanation
Indices: 38816132--38816201 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
38816122 AAGGTTTTAA
*
38816132 TTTTTAAGAAAAAGTAATGA-
1 TTTTTAA-AAAAATTAATGAT
*
38816152 TTTTTAAGAAAATTAATGAT
1 TTTTTAAAAAAATTAATGAT
38816172 TTTTTAAAAAAACTT--TGAT
1 TTTTTAAAAAAA-TTAATGAT
38816191 TTTTCTAAAAA
1 TTTT-TAAAAA
38816202 GAAAGAACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 18 0.41
20 24 0.55
21 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.43
Consensus pattern (20 bp):
TTTTTAAAAAAATTAATGAT
Found at i:38817525 original size:3 final size:3
Alignment explanation
Indices: 38817517--38817542 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
38817507 AATCTTTTAA
38817517 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
38817543 AAGATCGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:38824672 original size:23 final size:22
Alignment explanation
Indices: 38824629--38824672 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
38824619 TTCTAAGTCG
38824629 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
38824652 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
38824673 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:38824767 original size:45 final size:45
Alignment explanation
Indices: 38824717--38824810 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
38824707 AACAGATATT
* * * * *
38824717 CGGTGGATTCAGCACATAGCAACCACTTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
*
38824762 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
38824807 CGGT
1 CGGT
38824811 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
Found at i:38827672 original size:15 final size:17
Alignment explanation
Indices: 38827642--38827678 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
38827632 TGTTTGTTAG
38827642 TTTTTATAATAATTTC-
1 TTTTTATAATAATTTCA
*
38827658 TTTTTATAAT-TTTTCA
1 TTTTTATAATAATTTCA
38827674 TTTTT
1 TTTTT
38827679 TGAATTTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTATAATAATTTCA
Found at i:38828359 original size:103 final size:97
Alignment explanation
Indices: 38828161--38828372 Score: 228
Period size: 98 Copynumber: 2.1 Consensus size: 97
38828151 TCAGTTTACG
* * * * * * *
38828161 AATTTATTATTATTATTTTTTCGTATATTGATATATGATTCTGACACGATTTTTTTTAAGTTGTA
1 AATTT-TTATTTTTATTTTTTCATATACTGATATATGACTCTAACACAATTTTTTTTAAATTGTA
*
38828226 CTAGGTGCCATCCATTGACAGACCAACACCCAAA
65 CTAGGTGCCAGCCATTGACAGACCAACACCC-AA
*
38828260 AATTTTTATTTTTATTTTTTCATATACTGATATCTGACTCTAACACAAATTTTTTTTAAAAAAAT
1 AATTTTTATTTTTATTTTTTCATATACTGATATATGACTCTAACAC-AATTTTTTTT----AAAT
* * ** *
38828325 TGTACTGGGTGCCGGCCATTGACAGGTCAGCACCCAA
61 TGTACTAGGTGCCAGCCATTGACAGACCAACACCCAA
38828362 AATTTTT-TTTT
1 AATTTTTATTTT
38828373 CGTTTTTCGT
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
98 35 0.37
99 14 0.15
101 4 0.04
102 9 0.10
103 32 0.34
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (97 bp):
AATTTTTATTTTTATTTTTTCATATACTGATATATGACTCTAACACAATTTTTTTTAAATTGTAC
TAGGTGCCAGCCATTGACAGACCAACACCCAA
Found at i:38834776 original size:95 final size:95
Alignment explanation
Indices: 38834591--38834769 Score: 340
Period size: 95 Copynumber: 1.9 Consensus size: 95
38834581 AATGTGTGGA
38834591 TTTGATAATACAGGAATTAGAGAAGAGAAAGATCACTAATGCATACACTCTTGCTTATCAGGTAC
1 TTTGATAATACAGGAATTAGAGAAGAGAAAGATCACTAATGCATACACTCTTGCTTATCAGGTAC
38834656 TTATATTTGGAATATTACTCTAGACTAATC
66 TTATATTTGGAATATTACTCTAGACTAATC
* *
38834686 TTTGATAATAGAGGAATTAGAGAAGAGAAAGATCACTAATGCATACACTCTTGCTTATCGGGTAC
1 TTTGATAATACAGGAATTAGAGAAGAGAAAGATCACTAATGCATACACTCTTGCTTATCAGGTAC
38834751 TTATATTTGGAATATTACT
66 TTATATTTGGAATATTACT
38834770 TCAGACTCAT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.33
Consensus pattern (95 bp):
TTTGATAATACAGGAATTAGAGAAGAGAAAGATCACTAATGCATACACTCTTGCTTATCAGGTAC
TTATATTTGGAATATTACTCTAGACTAATC
Found at i:38840968 original size:14 final size:14
Alignment explanation
Indices: 38840949--38840977 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38840939 AAATTTTTTC
38840949 CGCTCATTTTACCA
1 CGCTCATTTTACCA
38840963 CGCTCATTTTACCA
1 CGCTCATTTTACCA
38840977 C
1 C
38840978 TAGAGGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.38, G:0.07, T:0.34
Consensus pattern (14 bp):
CGCTCATTTTACCA
Found at i:38841181 original size:47 final size:47
Alignment explanation
Indices: 38841112--38841207 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
38841102 CAATTGATTT
38841112 TTATATACATCAGTAGGATTTAAAGGAGCAAAAGTGAATTTTCTACC
1 TTATATACATCAGTAGGATTTAAAGGAGCAAAAGTGAATTTTCTACC
38841159 TTATATACATCAGTAGGATTTAAAGGAGCAAAAGTGAATTTTCTACC
1 TTATATACATCAGTAGGATTTAAAGGAGCAAAAGTGAATTTTCTACC
38841206 TT
1 TT
38841208 TAAACATAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (47 bp):
TTATATACATCAGTAGGATTTAAAGGAGCAAAAGTGAATTTTCTACC
Found at i:38846002 original size:22 final size:23
Alignment explanation
Indices: 38845977--38846036 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
38845967 TGGACTGAAT
38845977 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
38845999 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
38846021 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
38846037 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:38846004 original size:4 final size:4
Alignment explanation
Indices: 38845986--38846019 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
38845976 TATAAAAATT
38845986 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
38846020 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:38847425 original size:23 final size:22
Alignment explanation
Indices: 38847373--38847425 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38847363 TCCACGTCTT
*
38847373 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38847395 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38847418 TTTCTTTT
1 TTTCTTTT
38847426 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38857625 original size:146 final size:146
Alignment explanation
Indices: 38855363--38857563 Score: 4366
Period size: 146 Copynumber: 15.1 Consensus size: 146
38855353 TACCACTCTC
* * * *
38855363 TAGTCTCAATGCAATACAAAGATAATTAATGAAGATAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38855428 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38855493 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38855509 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38855574 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38855639 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38855655 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38855720 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38855785 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38855801 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38855866 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38855931 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38855947 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38856012 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38856077 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38856093 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38856158 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38856223 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38856239 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38856304 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38856369 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38856385 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38856450 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38856515 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38856531 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38856596 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38856661 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38856677 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38856742 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38856807 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38856823 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38856888 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38856953 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38856969 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38857034 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38857099 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38857115 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38857180 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38857245 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38857261 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38857326 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38857391 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38857407 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
1 TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
38857472 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
66 TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
38857537 GTATATATTGATGCCT
131 GTATATATTGATGCCT
38857553 TAGTCACACTG
1 TAGTCACACTG
38857564 GTTATCTTAA
Statistics
Matches: 2051, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 2051 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (146 bp):
TAGTCACACTGCAATACAGAGATAATTAATGAAGAGAAGTGTAAATTTTCAAAAGCTGCAACTTA
TATTCATTCTATTAGAGTATTTTTAATAGGTAAAGTACATTGGATGCTAAGATATATTTATGTAT
GTATATATTGATGCCT
Found at i:38867416 original size:12 final size:12
Alignment explanation
Indices: 38867399--38867424 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38867389 AAATACAACA
38867399 CATAATGAATAG
1 CATAATGAATAG
38867411 CATAATGAATAG
1 CATAATGAATAG
38867423 CA
1 CA
38867425 AACACTACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (12 bp):
CATAATGAATAG
Found at i:38885308 original size:85 final size:86
Alignment explanation
Indices: 38885134--38885393 Score: 289
Period size: 85 Copynumber: 3.0 Consensus size: 86
38885124 TTATATCATT
* * * * * *
38885134 AAATCAAAATAAAATC-TATTAAACTACAGGAATAAATCTCGAAATAGA-ATTATTTGA-TT-AT
1 AAATC-AAATAAAATCTTGTTAAACTACGGGAATAAATCTTGAAACAGATTTTATTTAATTTAAT
***
38885195 TTCTTTGTTTGGAAACAAAACA
65 TTCTGAATTTGGAAACAAAACA
* *
38885217 ATATCAAATAAAATCTTGTTAAACTGCGGGAATAAATCTTGAAACAGATTTTATTTAATTTAATT
1 AAATCAAATAAAATCTTGTTAAACTACGGGAATAAATCTTGAAACAGATTTTATTTAATTTAATT
*
38885282 TC-GAATTTGGAAACAAAATA
66 TCTGAATTTGGAAACAAAACA
* *
38885302 AAATCAAATAAAATCTTGTTAAACAACGAGAATAAAT-TTCGAAACAGATTTTATTTAATTTAAT
1 AAATCAAATAAAATCTTGTTAAACTACGGGAATAAATCTT-GAAACAGATTTTATTTAATTTAAT
* * *
38885366 TTCTCATTTTTGGCAACAAAATCA
65 TTCTGA-ATTTGGAAACAAAA-CA
38885390 AAAT
1 AAAT
38885394 GTAATAAATC
Statistics
Matches: 149, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
82 10 0.07
83 31 0.21
84 9 0.06
85 76 0.51
86 6 0.04
87 12 0.08
88 5 0.03
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (86 bp):
AAATCAAATAAAATCTTGTTAAACTACGGGAATAAATCTTGAAACAGATTTTATTTAATTTAATT
TCTGAATTTGGAAACAAAACA
Found at i:38885634 original size:79 final size:78
Alignment explanation
Indices: 38885436--38885842 Score: 440
Period size: 77 Copynumber: 5.2 Consensus size: 78
38885426 TCGAAATGGA
* * * * *
38885436 TTTTATGTTACTCGTTTTTGGAAATAAAACAAATTTGAAATAAAATAGTTGAACAGCGGAAATCA
1 TTTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCA
* * *
38885501 ATCTCGAAAGGATTTT
66 ATCCCGAAA-CA--AT
* *
38885517 TTTTATTTTTCTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCA
1 TTTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCA
38885582 ATCCCGAAACAATT
66 ATCCCGAAACAA-T
* * ** **
38885596 TTTTATTTTACTTGTTTTTAGAAATAAAACAAATTTGGAATAAAATTTTTGAACGGCGGGAATTT
1 TTTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCA
38885661 ATCCCGAAACAA-
66 ATCCCGAAACAAT
* * * * *
38885673 TTTTATTTTACTCGTTTTTGGAAATAAAACAATTTTAGAATAAAATCGTTGAACGACAGGAATCG
1 TTTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCA
* * *
38885738 ATCTCGGAACGA-
66 ATCCCGAAACAAT
* * * * **
38885750 TTTTATTTTACTCGTTTTAGGAAATAAAAAAAAAAATTTGGAATAAAATCATTGAATGGCACGAA
1 TTTTATTTTACTCGTTTTTGGAAAT---AAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAA
* **
38885815 TCAATCCCAAAATGAT
63 TCAATCCCGAAACAAT
38885831 TTTTATTTTACT
1 TTTTATTTTACT
38885843 TTAAATTTCC
Statistics
Matches: 277, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
77 88 0.32
79 70 0.25
80 41 0.15
81 78 0.28
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (78 bp):
TTTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCA
ATCCCGAAACAAT
Found at i:38887411 original size:33 final size:33
Alignment explanation
Indices: 38887364--38887434 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
38887354 GATGAAAAAT
* * * *
38887364 AATATTTAATTAATTTAATTTAATAATACATGA
1 AATATTCAAATAATTTAATATAATAATACATAA
* *
38887397 AATATTCAAATAATTTAATATAATGATATATAA
1 AATATTCAAATAATTTAATATAATAATACATAA
38887430 AATAT
1 AATAT
38887435 AAAGTAGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (33 bp):
AATATTCAAATAATTTAATATAATAATACATAA
Found at i:38891695 original size:24 final size:24
Alignment explanation
Indices: 38891668--38891714 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
38891658 GCAAGACTTG
38891668 TTGCAAAGGGTTACAGCCAAATTT
1 TTGCAAAGGGTTACAGCCAAATTT
38891692 TTGCAAAGGGTTACAGCCAAATT
1 TTGCAAAGGGTTACAGCCAAATT
38891715 CCAGGAGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
TTGCAAAGGGTTACAGCCAAATTT
Found at i:38892774 original size:29 final size:29
Alignment explanation
Indices: 38892732--38892788 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
38892722 TTATAGAAGA
* * *
38892732 GATGGAGAACTTGTTCGTTGAGAGTTCGC
1 GATGAAGAACTTGTTCATTGAGAATTCGC
38892761 GATGAAGAACTTGTTCATTGAGAATTCG
1 GATGAAGAACTTGTTCATTGAGAATTCG
38892789 TGTCAAGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (29 bp):
GATGAAGAACTTGTTCATTGAGAATTCGC
Found at i:38896152 original size:12 final size:12
Alignment explanation
Indices: 38896124--38896163 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
38896114 ACTCGATTTC
*
38896124 TTTTCAAGCTCT
1 TTTTCAATCTCT
* *
38896136 CTTTCAATTTCT
1 TTTTCAATCTCT
38896148 TTTTCAATCTCT
1 TTTTCAATCTCT
38896160 TTTT
1 TTTT
38896164 GCTTTTCACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.60
Consensus pattern (12 bp):
TTTTCAATCTCT
Found at i:38896290 original size:22 final size:20
Alignment explanation
Indices: 38896262--38896314 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
38896252 CTCACTCTCA
*
38896262 CTCTCATTTTCTTTTTCTTTTT
1 CTCTCA-TTTCTTTTT-TTCTT
38896284 CTCTCATTTCTTTTTTTCTT
1 CTCTCATTTCTTTTTTTCTT
38896304 CTCTCAATTTC
1 CTCTC-ATTTC
38896315 ATCCAAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.31
21 14 0.48
22 6 0.21
ACGTcount: A:0.08, C:0.26, G:0.00, T:0.66
Consensus pattern (20 bp):
CTCTCATTTCTTTTTTTCTT
Found at i:38896297 original size:20 final size:21
Alignment explanation
Indices: 38896262--38896314 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
38896252 CTCACTCTCA
38896262 CTCTCATTTTCTTTTTCTTT-TT
1 CTCTCA-TTTCTTTTT-TTTCTT
38896284 CTCTCATTTC-TTTTTTTCTT
1 CTCTCATTTCTTTTTTTTCTT
38896304 CTCTCAATTTC
1 CTCTC-ATTTC
38896315 ATCCAAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.10
20 11 0.38
21 9 0.31
22 6 0.21
ACGTcount: A:0.08, C:0.26, G:0.00, T:0.66
Consensus pattern (21 bp):
CTCTCATTTCTTTTTTTTCTT
Found at i:38900996 original size:29 final size:30
Alignment explanation
Indices: 38900952--38901012 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
38900942 TACTGATAGT
* *
38900952 CACTCAATTATAAAAAGATTT-CATTTTAAG
1 CACTCAATAATAAAAAG-TTTGCAATTTAAG
38900982 CACTCAA-AATAAAAAGTTTGCAATTTAAG
1 CACTCAATAATAAAAAGTTTGCAATTTAAG
38901011 CA
1 CA
38901013 TCCACACTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 18 0.64
30 7 0.25
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (30 bp):
CACTCAATAATAAAAAGTTTGCAATTTAAG
Found at i:38901262 original size:24 final size:23
Alignment explanation
Indices: 38901231--38901278 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
38901221 ATAAAAATGC
**
38901231 ATAAATATTTTCAAATAAATAAA
1 ATAAATATTTAAAAATAAATAAA
*
38901254 ATAATATATTTAAAAATATATAAA
1 ATAA-ATATTTAAAAATAAATAAA
38901278 A
1 A
38901279 ATATTGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAAATATTTAAAAATAAATAAA
Found at i:38901454 original size:23 final size:22
Alignment explanation
Indices: 38901424--38901470 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
38901414 ATAAACCTTC
*
38901424 CCTTCCC-TCTCCTCCTTCCCCA
1 CCTTCCCTTCTCC-CCCTCCCCA
38901446 CCTTGCCCTTCTCCCCCTCCCCA
1 CCTT-CCCTTCTCCCCCTCCCCA
38901469 CC
1 CC
38901471 ACCGCTCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 13 0.59
24 5 0.23
ACGTcount: A:0.04, C:0.66, G:0.02, T:0.28
Consensus pattern (22 bp):
CCTTCCCTTCTCCCCCTCCCCA
Found at i:38909989 original size:17 final size:17
Alignment explanation
Indices: 38909975--38910023 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
38909965 TTTTCATATG
38909975 AAATAACAGTTCATACC
1 AAATAACAGTTCATACC
* *
38909992 AAATGACAGTTCATTCC
1 AAATAACAGTTCATACC
* *
38910009 AATTAATAGTTCATA
1 AAATAACAGTTCATA
38910024 ACACGTAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (17 bp):
AAATAACAGTTCATACC
Found at i:38910275 original size:20 final size:20
Alignment explanation
Indices: 38910250--38910292 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
38910240 ATGCTCACAC
38910250 TCTGCAAACATACCACGCTA
1 TCTGCAAACATACCACGCTA
38910270 TCTGCAAACATACCACGCTA
1 TCTGCAAACATACCACGCTA
38910290 TCT
1 TCT
38910293 TTTCAATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.35, G:0.09, T:0.23
Consensus pattern (20 bp):
TCTGCAAACATACCACGCTA
Found at i:38912361 original size:21 final size:20
Alignment explanation
Indices: 38912335--38912380 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
38912325 CAGTTTCTTC
38912335 CCTTTTTCAAATAGATCCTT
1 CCTTTTTCAAATAGATCCTT
38912355 CCTTTTTCAAATAGATCCTT
1 CCTTTTTCAAATAGATCCTT
*
38912375 ACTTTT
1 CCTTTT
38912381 CAATTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.48
Consensus pattern (20 bp):
CCTTTTTCAAATAGATCCTT
Found at i:38915784 original size:18 final size:17
Alignment explanation
Indices: 38915754--38915787 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
38915744 TTTGGTTTAT
38915754 TTATTTTTATTTAATTA
1 TTATTTTTATTTAATTA
*
38915771 TTATTTATTCTTTAATT
1 TTATTT-TTATTTAATT
38915788 TTTGTGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTTATTTAATTA
Found at i:38925499 original size:17 final size:18
Alignment explanation
Indices: 38925466--38925507 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
38925456 TGGAATAGTT
*
38925466 AATAAT-AATTTATATTC
1 AATAATCAATTCATATTC
38925483 AATAATCAATTCA-ATTC
1 AATAATCAATTCATATTC
*
38925500 CATAATCA
1 AATAATCA
38925508 CAAGTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAATCAATTCATATTC
Found at i:38954716 original size:14 final size:14
Alignment explanation
Indices: 38954697--38954723 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38954687 CATTTCTTGG
38954697 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
38954711 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
38954724 ATTGGATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:38958060 original size:14 final size:14
Alignment explanation
Indices: 38958041--38958067 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38958031 CATTTCTTGG
38958041 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
38958055 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
38958068 ATTGGATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:38959411 original size:22 final size:22
Alignment explanation
Indices: 38959386--38959431 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
38959376 TTACTCTATG
38959386 AATTGATATATGT-TTATAAATT
1 AATTGA-ATATGTGTTATAAATT
* *
38959408 AATTGAATATTTGTTCTAAATT
1 AATTGAATATGTGTTATAAATT
38959430 AA
1 AA
38959432 GACAAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (22 bp):
AATTGAATATGTGTTATAAATT
Found at i:38961981 original size:27 final size:27
Alignment explanation
Indices: 38961958--38962173 Score: 179
Period size: 27 Copynumber: 8.0 Consensus size: 27
38961948 ACGTTTATCG
* *
38961958 TTGAAGGGTATTTCGGTCATTTTAACC
1 TTGAGGGGTATTTCGGTCATTTTACCC
* *
38961985 TTCG-GGGGTATTTTGGTCATTTTACCT
1 TT-GAGGGGTATTTCGGTCATTTTACCC
** * * *
38962012 TTCCGGGGTATTTTGATCATTTTACCT
1 TTGAGGGGTATTTCGGTCATTTTACCC
*
38962039 TTCG-GGGGTATTTCGATCATTTTACCC
1 TT-GAGGGGTATTTCGGTCATTTTACCC
* *
38962066 TTCAGGGGTATTTCGGTTATTTTACCC
1 TTGAGGGGTATTTCGGTCATTTTACCC
* * *
38962093 TTCAGGGTTATTTCGGTTATTTTACCC
1 TTGAGGGGTATTTCGGTCATTTTACCC
* * * *
38962120 TTTGA-AGGTATTTCGATGATTTTATCC
1 -TTGAGGGGTATTTCGGTCATTTTACCC
* * *
38962147 TT-CGGGATATTTCGGTCAGTTTACCC
1 TTGAGGGGTATTTCGGTCATTTTACCC
38962173 T
1 T
38962174 CCGAAATTAT
Statistics
Matches: 157, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
26 19 0.12
27 134 0.85
28 4 0.03
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (27 bp):
TTGAGGGGTATTTCGGTCATTTTACCC
Found at i:38962045 original size:54 final size:53
Alignment explanation
Indices: 38961963--38962173 Score: 219
Period size: 54 Copynumber: 3.9 Consensus size: 53
38961953 TATCGTTGAA
* * *
38961963 GGGTATTTCGGTCATTTTAACCTTCGGGGGTATTTTGGTCATTTTACCTTTCCG
1 GGGTATTTCGGTCATTTT-ACCTTCGGGGGTATTTCGGTCATTTTACCCTTCAG
* * *
38962017 GGGTATTTTGATCATTTTACCTTTCGGGGGTATTTCGATCATTTTACCCTTCAG
1 GGGTATTTCGGTCATTTTACC-TTCGGGGGTATTTCGGTCATTTTACCCTTCAG
* * * * *
38962071 GGGTATTTCGGTTATTTTACCCTTCAGGGTTATTTCGGTTATTTTACCCTT-TG
1 GGGTATTTCGGTCATTTTA-CCTTCGGGGGTATTTCGGTCATTTTACCCTTCAG
* * * * *
38962124 AAGGTATTTCGATGATTTTATCCTTC-GGGATATTTCGGTCAGTTTACCCT
1 -GGGTATTTCGGTCATTTTA-CCTTCGGGGGTATTTCGGTCATTTTACCCT
38962174 CCGAAATTAT
Statistics
Matches: 133, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
53 25 0.19
54 106 0.80
55 2 0.02
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (53 bp):
GGGTATTTCGGTCATTTTACCTTCGGGGGTATTTCGGTCATTTTACCCTTCAG
Found at i:38962105 original size:81 final size:80
Alignment explanation
Indices: 38961962--38962173 Score: 246
Period size: 81 Copynumber: 2.6 Consensus size: 80
38961952 TTATCGTTGA
* * * * *
38961962 AGGGTATTTCGGTCATTTTAACCTTCGGGGGTATTTTGGTCATTTTACCTTTCCGGGGTATTTTG
1 AGGGTATTTCGATCATTTTAACCTTC-GGGGTATTTCGGTCATTTTACCCTTCAGGGGTATTTCG
38962027 ATCATTTTA-CCTTTCG
65 ATCATTTTACCCTTT-G
* * * *
38962043 GGGGTATTTCGATCATTTTACCCTTCAGGGGTATTTCGGTTATTTTACCCTTCAGGGTTATTTCG
1 AGGGTATTTCGATCATTTTAACCTTC-GGGGTATTTCGGTCATTTTACCCTTCAGGGGTATTTCG
* *
38962108 GTTATTTTACCCTTTG
65 ATCATTTTACCCTTTG
* * * * *
38962124 AAGGTATTTCGATGATTTTATCCTTCGGGATATTTCGGTCAGTTTACCCT
1 AGGGTATTTCGATCATTTTAACCTTCGGGGTATTTCGGTCATTTTACCCT
38962174 CCGAAATTAT
Statistics
Matches: 111, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
80 21 0.19
81 85 0.77
82 5 0.05
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (80 bp):
AGGGTATTTCGATCATTTTAACCTTCGGGGTATTTCGGTCATTTTACCCTTCAGGGGTATTTCGA
TCATTTTACCCTTTG
Found at i:38962212 original size:80 final size:80
Alignment explanation
Indices: 38961963--38962212 Score: 202
Period size: 81 Copynumber: 3.1 Consensus size: 80
38961953 TATCGTTGAA
* * * * * * * ***
38961963 GGGTATTTCGGTCATTTTAACCTTCGGGGGTATTTTGGTCATTTTACCTTTCC-GGGGTATTTTG
1 GGGTATTTCGATCATTTTACCCTTCAGGGATATTTCGGTCAGTTTACC-CTCCAGAATTATTTTG
*
38962027 ATCATTTTA-CCTTTCGG
65 GTCATTTTACCCTTT--G
* * * * ** *
38962044 GGGTATTTCGATCATTTTACCCTTCAGGGGTATTTCGGTTATTTTACCCTTCAGGGTTATTTCGG
1 GGGTATTTCGATCATTTTACCCTTCAGGGATATTTCGGTCAGTTTACCCTCCAGAATTATTTTGG
*
38962109 TTATTTTACCCTTTG
66 TCATTTTACCCTTTG
* * *
38962124 AAGGTATTTCGATGATTTTATCCTTC-GGGATATTTCGGTCAGTTTACCCTCC-GAAATTATTTT
1 -GGGTATTTCGATCATTTTACCCTTCAGGGATATTTCGGTCAGTTTACCCTCCAG-AATTATTTT
* *
38962187 GGTCATATTACCCTATG
64 GGTCATTTTACCCTTTG
38962204 GGGATATTT
1 GGG-TATTT
38962213 TGGTCATAAC
Statistics
Matches: 139, Mismatches: 25, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
79 3 0.02
80 50 0.36
81 81 0.58
82 5 0.04
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (80 bp):
GGGTATTTCGATCATTTTACCCTTCAGGGATATTTCGGTCAGTTTACCCTCCAGAATTATTTTGG
TCATTTTACCCTTTG
Found at i:38967509 original size:17 final size:17
Alignment explanation
Indices: 38967487--38967519 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38967477 GTTAGTGCAC
38967487 ATTGTCATTGCATTTTT
1 ATTGTCATTGCATTTTT
38967504 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
38967520 AATGTTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:38983534 original size:9 final size:9
Alignment explanation
Indices: 38983514--38983543 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38983504 ATCAATAAGG
38983514 AAAATAAT-
1 AAAATAATA
38983522 AAAATAATA
1 AAAATAATA
38983531 AAAATAATA
1 AAAATAATA
38983540 AAAA
1 AAAA
38983544 CAACAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAATAATA
Found at i:38985948 original size:22 final size:22
Alignment explanation
Indices: 38985923--38985965 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
38985913 GCCTTAGGTA
*
38985923 GTGCTAAAATG-TTGATTTAAGT
1 GTGC-AAAATGCTTAATTTAAGT
*
38985945 GTGCAGAATGCTTAATTTAAG
1 GTGCAAAATGCTTAATTTAAG
38985966 GCCCGGTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (22 bp):
GTGCAAAATGCTTAATTTAAGT
Found at i:38992317 original size:13 final size:13
Alignment explanation
Indices: 38992299--38992364 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
38992289 AGTTCTTCAT
*
38992299 TGCTTTTGAAAAC
1 TGCTTTTGAAAAG
38992312 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
38992325 TG-TTATGGAAAAG
1 TGCTT-TTGAAAAG
* *
38992338 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
38992351 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
38992364 T
1 T
38992365 TCGGTTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:38998079 original size:6 final size:6
Alignment explanation
Indices: 38998068--38998105 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
38998058 AATATATGTC
38998068 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTAT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTT-T TCTTTT T
38998106 TTATTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (6 bp):
TCTTTT
Found at i:38999913 original size:107 final size:108
Alignment explanation
Indices: 38999705--38999918 Score: 236
Period size: 107 Copynumber: 2.0 Consensus size: 108
38999695 TATACGACAC
*
38999705 TACTAACATGCTGTAGACATTAAAATAATAATAAAATAAATATTTCCACATCAGATTTGTGGTCC
1 TACTAACATGCTATAGACATTAAAATAATAATAAAAT--ATATTTCCACATCAGATTTGTGGTCC
* * * ***
38999770 TAAAACCACTATTCTGATTTTACAAAAAATGGGTTGTTACAATAA
64 CAAAACCACTATTCTGATGTCACAAAAAACAAGTTGTTACAATAA
** *
38999815 TACTAACATGCTATAGACATTAAAATAATAA-AACAAT-TATTTTTACATCCGATTTGTGGTCCC
1 TACTAACATGCTATAGACATTAAAATAATAATAA-AATATATTTCCACATCAGATTTGTGGTCCC
* * ***
38999878 GAAACTACTATT-TCGATGTCATTGAAAACAAGTTGTTACAA
65 AAAACCACTATTCT-GATGTCACAAAAAACAAGTTGTTACAA
38999919 CTCTCCCCCT
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
106 1 0.01
107 51 0.59
109 2 0.02
110 33 0.38
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (108 bp):
TACTAACATGCTATAGACATTAAAATAATAATAAAATATATTTCCACATCAGATTTGTGGTCCCA
AAACCACTATTCTGATGTCACAAAAAACAAGTTGTTACAATAA
Found at i:39007242 original size:18 final size:19
Alignment explanation
Indices: 39007221--39007266 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
39007211 ATATTCAATT
* *
39007221 AATAATAAATTTC-ATATC
1 AATAATAAAATTCTACATC
*
39007239 AATAAAAAAATTCTACATC
1 AATAATAAAATTCTACATC
39007258 AA-AATAAAA
1 AATAATAAAA
39007267 ATATAAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (19 bp):
AATAATAAAATTCTACATC
Found at i:39007475 original size:29 final size:29
Alignment explanation
Indices: 39007406--39007472 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
39007396 TCATATATTT
* *
39007406 AGAATTTAGT-TCATCTACTTTTATTTTCA
1 AGAATTTAATATC-TCTACTTTTATTATCA
39007435 AGAATTTAATATCTCTACTTTTTATATATCA
1 AGAATTTAATATCTCTAC-TTTTAT-TATCA
39007466 A-AATTTA
1 AGAATTTA
39007473 TATTTAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 14 0.42
30 14 0.42
31 5 0.15
ACGTcount: A:0.34, C:0.12, G:0.04, T:0.49
Consensus pattern (29 bp):
AGAATTTAATATCTCTACTTTTATTATCA
Found at i:39017476 original size:14 final size:14
Alignment explanation
Indices: 39017445--39017489 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
39017435 TTCGTTTCTT
*
39017445 TCTTTTTCTTTTCAC
1 TCTTTTTCTTTT-TC
*
39017460 TCTTTTTGTTTTTC
1 TCTTTTTCTTTTTC
39017474 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
39017488 TC
1 TC
39017490 GCTCAATAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.73
Consensus pattern (14 bp):
TCTTTTTCTTTTTC
Found at i:39018192 original size:54 final size:54
Alignment explanation
Indices: 39018128--39018234 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
39018118 TCCTTGACAC
39018128 TTGAAACACTTGATATCGCGAGAATGATTCGAAGCAGCCTCATTTTCATTTTTT
1 TTGAAACACTTGATATCGCGAGAATGATTCGAAGCAGCCTCATTTTCATTTTTT
* *
39018182 TTGAAACACTTGATATCGCGAGAATGATTCGAAGCAGCCTCGTTTTTATTTTT
1 TTGAAACACTTGATATCGCGAGAATGATTCGAAGCAGCCTCATTTTCATTTTT
39018235 GCTAGCTTCG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
TTGAAACACTTGATATCGCGAGAATGATTCGAAGCAGCCTCATTTTCATTTTTT
Found at i:39019630 original size:11 final size:11
Alignment explanation
Indices: 39019600--39019629 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
39019590 TGAACACAAT
39019600 AATTTTTTTCG
1 AATTTTTTTCG
39019611 AATTTTTTTCG
1 AATTTTTTTCG
39019622 -ATTTTTTT
1 AATTTTTTT
39019630 TTATAATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (11 bp):
AATTTTTTTCG
Found at i:39024607 original size:21 final size:20
Alignment explanation
Indices: 39024581--39024627 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
39024571 AATTTCCTTT
*
39024581 TAATAATCGAAATTTATTTTA
1 TAATAATCGAAA-ATATTTTA
*
39024602 TAATAA--GAAAATATTTTG
1 TAATAATCGAAAATATTTTA
39024620 TAATAATC
1 TAATAATC
39024628 AATGTCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 12 0.55
19 4 0.18
21 6 0.27
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (20 bp):
TAATAATCGAAAATATTTTA
Found at i:39024653 original size:16 final size:17
Alignment explanation
Indices: 39024634--39024665 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
39024624 AATCAATGTC
39024634 ATAAATAAA-CTTAATA
1 ATAAATAAAGCTTAATA
39024650 ATAAATAAAGCTTAAT
1 ATAAATAAAGCTTAAT
39024666 TAAAACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAAATAAAGCTTAATA
Found at i:39024789 original size:23 final size:25
Alignment explanation
Indices: 39024762--39024823 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 25
39024752 TTATTTAAAC
39024762 AAATATTCATATTTATA-TA-ATTA
1 AAATATTCATATTTATACTAGATTA
*
39024785 AAATATTCATTTATTTATACTAGGTTA
1 AAATATTCA--TATTTATACTAGATTA
39024812 AAATATGTCATA
1 AAATAT-TCATA
39024824 AGTCCTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 9 0.27
25 8 0.24
26 4 0.12
27 9 0.27
28 3 0.09
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (25 bp):
AAATATTCATATTTATACTAGATTA
Found at i:39024816 original size:27 final size:24
Alignment explanation
Indices: 39024762--39024822 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 24
39024752 TTATTTAAAC
39024762 AAATATTCA-TATTTATATAATTA
1 AAATATTCATTATTTATATAATTA
*
39024785 AAATATTCATTTATTTATACTAGGTTA
1 AAATATTCA-TTATTTATA-TA-ATTA
39024812 AAATATGTCAT
1 AAATAT-TCAT
39024823 AAGTCCTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 9 0.28
25 8 0.25
26 2 0.06
27 10 0.31
28 3 0.09
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.46
Consensus pattern (24 bp):
AAATATTCATTATTTATATAATTA
Found at i:39026134 original size:21 final size:20
Alignment explanation
Indices: 39026092--39026140 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
39026082 TGATTATAGC
39026092 ACATTATATTTAAAAATTAAT
1 ACATTA-ATTTAAAAATTAAT
39026113 AC-TTAATTTAACAAATTTAAT
1 ACATTAATTTAA-AAA-TTAAT
39026134 ACATTAA
1 ACATTAA
39026141 AATCATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.24
20 6 0.24
21 9 0.36
22 4 0.16
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ACATTAATTTAAAAATTAAT
Found at i:39026666 original size:25 final size:24
Alignment explanation
Indices: 39026638--39026685 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
39026628 TATGTCCATA
39026638 TTTTAAATATTGTATAAAATACTTT
1 TTTTAAATATTGTA-AAAATACTTT
*
39026663 TTTTAAATATTGTAAAATTACTT
1 TTTTAAATATTGTAAAAATACTT
39026686 GATTTATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTTAAATATTGTAAAAATACTTT
Found at i:39026691 original size:24 final size:25
Alignment explanation
Indices: 39026639--39026691 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
39026629 ATGTCCATAT
**
39026639 TTTAAATATTGTATAAAATACTTTT
1 TTTAAATATTGTATAAAATACTTGA
*
39026664 TTTAAATATTGTA-AAATTACTTGA
1 TTTAAATATTGTATAAAATACTTGA
39026688 TTTA
1 TTTA
39026692 TGATTTGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.51
Consensus pattern (25 bp):
TTTAAATATTGTATAAAATACTTGA
Found at i:39027094 original size:12 final size:12
Alignment explanation
Indices: 39027077--39027103 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39027067 GCACGAAGTA
39027077 TACATAAATTAT
1 TACATAAATTAT
39027089 TACATAAATTAT
1 TACATAAATTAT
39027101 TAC
1 TAC
39027104 GCCAATATCA
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:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (12 bp):
TACATAAATTAT
Found at i:39029261 original size:32 final size:32
Alignment explanation
Indices: 39029220--39029284 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
39029210 CTGCATGAAT
*
39029220 TGTTTCTTCATTTTTTTTACCCAAATTCAAGA
1 TGTTTCTTCATTTTTCTTACCCAAATTCAAGA
39029252 TGTTTCTTCATTTTTCTTACCCAAATTCAAGA
1 TGTTTCTTCATTTTTCTTACCCAAATTCAAGA
39029284 T
1 T
39029285 TTTGCTTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.49
Consensus pattern (32 bp):
TGTTTCTTCATTTTTCTTACCCAAATTCAAGA
Found at i:39037694 original size:47 final size:47
Alignment explanation
Indices: 39037625--39037767 Score: 277
Period size: 47 Copynumber: 3.0 Consensus size: 47
39037615 TATGAGATAG
*
39037625 CAGAACCAACCGGTAAAAGCTAAGCATGTCATAAAAGTGGCCATTAC
1 CAGAACCAACCAGTAAAAGCTAAGCATGTCATAAAAGTGGCCATTAC
39037672 CAGAACCAACCAGTAAAAGCTAAGCATGTCATAAAAGTGGCCATTAC
1 CAGAACCAACCAGTAAAAGCTAAGCATGTCATAAAAGTGGCCATTAC
39037719 CAGAACCAACCAGTAAAAGCTAAGCATGTCATAAAAGTGGCCATTAC
1 CAGAACCAACCAGTAAAAGCTAAGCATGTCATAAAAGTGGCCATTAC
39037766 CA
1 CA
39037768 AATAAATAAA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 95 1.00
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (47 bp):
CAGAACCAACCAGTAAAAGCTAAGCATGTCATAAAAGTGGCCATTAC
Found at i:39042171 original size:30 final size:31
Alignment explanation
Indices: 39042135--39042231 Score: 105
Period size: 29 Copynumber: 3.3 Consensus size: 31
39042125 TAGCGCAACC
* * *
39042135 TAAAGAAGTGTCTTTGTGGCTATCTTTGAT-
1 TAAAGAAGAGTCTTTGTGGCGATCTCTGATA
*
39042165 TAAAGAA-AGTCTTTGTGGCGATCTCTGTTA
1 TAAAGAAGAGTCTTTGTGGCGATCTCTGATA
*
39042195 TAAAG-A-AGCCTTTGTGGCGATCTCT-ATTA
1 TAAAGAAGAGTCTTTGTGGCGATCTCTGA-TA
39042224 TAAAGAAG
1 TAAAGAAG
39042232 CCTCTATGGC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 44 0.77
30 13 0.23
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (31 bp):
TAAAGAAGAGTCTTTGTGGCGATCTCTGATA
Done.