Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 303 of 332
Found at i:100158477 original size:24 final size:24
Alignment explanation
Indices: 100158450--100158504 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
100158440 CTTCTATTTC
100158450 AAAAAAAAAGAAAAAA-AAGAAAAG
1 AAAAAAAAAGAAAAAAGAA-AAAAG
* *
100158474 AAAAAGAGAGAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAGAAAAAAG
100158498 AAAAAAA
1 AAAAAAA
100158505 TAAAAATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAGAAAAAAGAAAAAAG
Found at i:100158487 original size:22 final size:20
Alignment explanation
Indices: 100158450--100158510 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 20
100158440 CTTCTATTTC
100158450 AAAAAAAAAGAAAAAAAAGA
1 AAAAAAAAAGAAAAAAAAGA
*
100158470 AAAGAAAAAGAGAGAAAAAAGA
1 AAA-AAAAA-AGAAAAAAAAGA
100158492 AAAAAGAAAA-AAATAAAAA
1 AAAAA-AAAAGAAA-AAAAA
100158511 TGGAGAGACC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 5 0.14
21 13 0.37
22 17 0.49
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAAGA
Found at i:100158510 original size:9 final size:9
Alignment explanation
Indices: 100158451--100158504 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
100158441 TTCTATTTCA
100158451 AAAAAAAAG
1 AAAAAAAAG
100158460 AAAAAAAAG
1 AAAAAAAAG
100158469 AAAAGAAAAAG
1 -AAA-AAAAAG
100158480 AGAGAAAAAAG
1 A-A-AAAAAAG
100158491 --AAAAAAG
1 AAAAAAAAG
100158498 AAAAAAA
1 AAAAAAA
100158505 TAAAAATGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
7 7 0.18
9 14 0.36
10 4 0.10
11 13 0.33
12 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:100160082 original size:207 final size:207
Alignment explanation
Indices: 100159727--100160463 Score: 1161
Period size: 207 Copynumber: 3.6 Consensus size: 207
100159717 CAAGTTAAAG
* *
100159727 CATAGCAGATCAGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGCCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * * * *
100159792 GCTTACAAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTC
*
100159857 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
100159922 GGAGGGCAGACA
196 GGAGGGCAGACA
100159934 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * *
100159999 GCTTACAAGGAACAAATCGAAAACATAGCTGATTTGACTTTCATGTGTTTACGTTGAAGCAAGTC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTC
* *
100160064 TAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAT
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
100160129 GGAGGGCAGACA
196 GGAGGGCAGACA
* * * * *
100160141 TATAGTAGGTCTGGCCTTCAGATGTTTATACTGAAACAAGATCCAAGATGGTTTGGCATCTTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
*
100160206 GGTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTC
* *
100160271 TAAGATGATTTGGTATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
*
100160336 GGAGGACAGACA
196 GGAGGGCAGACA
* ** * * * * *
100160348 TATAGCAGATCTAACCTTCAGATGATTAGACTAAAGC-AGATCCAAGATGGTTCGGTATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * * *
100160412 GCTTATAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCGCATGTTTAC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAC
100160464 ATCTGTTGGG
Statistics
Matches: 487, Mismatches: 43, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
206 71 0.15
207 416 0.85
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (207 bp):
CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
GGAGGGCAGACA
Found at i:100170054 original size:164 final size:166
Alignment explanation
Indices: 100169783--100170121 Score: 517
Period size: 164 Copynumber: 2.1 Consensus size: 166
100169773 AAATCTAAGA
100169783 TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAG
1 TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAG
* * *
100169848 CAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGC-AGATCCAAGATGATTTGGCAT
66 CAGATACATAGCAGATCACACCTTCAGATATTTACACTGAAGCAAGATCCAAGATGATTTGGCAT
* * *
100169912 CCTTG-T-GCTTACAAGGAACAAATCGAAGACATAGC
131 CCTTGTTGGC-CACAAGGAACAAATCAAAGACAAAGC
*
100169947 TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGATAGG-GA
1 TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAAT-GGAGA
* *
100170011 GCAGATACATGGCAGATCACACCTTCGGATAATTT-CACTGAAGCAAGATCCAAGATGATTTGGC
65 GCAGATACATAGCAGATCACACCTTCAGAT-ATTTACACTGAAGCAAGATCCAAGATGATTTGGC
*
100170075 ATCCTTGTTGGCCACAAGGAGCAAATCAAAGACAAAGC
129 ATCCTTGTTGGCCACAAGGAACAAATCAAAGACAAAGC
*
100170113 AGATTTGGC
1 TGATTTGGC
100170122 TTTCACGTGT
Statistics
Matches: 159, Mismatches: 11, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
164 95 0.60
165 31 0.19
166 31 0.19
167 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (166 bp):
TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAG
CAGATACATAGCAGATCACACCTTCAGATATTTACACTGAAGCAAGATCCAAGATGATTTGGCAT
CCTTGTTGGCCACAAGGAACAAATCAAAGACAAAGC
Found at i:100171861 original size:15 final size:13
Alignment explanation
Indices: 100171822--100171875 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
100171812 TAAACCTTAT
100171822 TTTTATATTATATA
1 TTTTATATTAT-TA
*
100171836 TTGTATA--ATTA
1 TTTTATATTATTA
100171847 TTTTATGATATATTA
1 TTTTAT-AT-TATTA
100171862 -TTTATATTATTA
1 TTTTATATTATTA
100171874 TT
1 TT
100171876 ACTTATTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
11 7 0.21
12 8 0.24
13 3 0.09
14 11 0.33
15 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (13 bp):
TTTTATATTATTA
Found at i:100172027 original size:13 final size:13
Alignment explanation
Indices: 100171904--100172028 Score: 68
Period size: 13 Copynumber: 9.7 Consensus size: 13
100171894 TTTCACAAAT
100171904 TATTATTATTTTA
1 TATTATTATTTTA
*
100171917 CATTATTA-TTTA
1 TATTATTATTTTA
*
100171929 TATCATTATTTTA
1 TATTATTATTTTA
*
100171942 T-TT-TTACTTGTA
1 TATTATTA-TTTTA
*
100171954 TTATATATTA-ATTA
1 -TAT-TATTATTTTA
100171968 TATATATTATTTT-
1 TAT-TATTATTTTA
* *
100171981 TACATATATACTTTCA
1 TA-TTAT-TA-TTTTA
*
100171997 TATTA-TATATTA
1 TATTATTATTTTA
100172009 TA--ATTATTTTA
1 TATTATTATTTTA
100172020 TATTATTAT
1 TATTATTAT
100172029 GTCACTTTTA
Statistics
Matches: 84, Mismatches: 14, Indels: 28
0.67 0.11 0.22
Matches are distributed among these distances:
10 1 0.01
11 11 0.13
12 20 0.24
13 34 0.40
14 7 0.08
15 6 0.07
16 5 0.06
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.61
Consensus pattern (13 bp):
TATTATTATTTTA
Found at i:100172028 original size:19 final size:19
Alignment explanation
Indices: 100171999--100172074 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
100171989 TACTTTCATA
100171999 TTATA-TATTATAATTATT
1 TTATATTATTATAATTATT
* *
100172017 TTATATTATTAT-GTCACTT
1 TTATATTATTATAATTA-TT
* *
100172036 TTATACTATTATATATATTTT
1 TTATATTATTATA-AT-TATT
*
100172057 TCTATATTATTATCATTA
1 T-TATATTATTATAATTA
100172075 AAAGTTTTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
18 7 0.16
19 19 0.44
20 1 0.02
21 6 0.14
22 10 0.23
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (19 bp):
TTATATTATTATAATTATT
Found at i:100172280 original size:20 final size:22
Alignment explanation
Indices: 100172210--100172281 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 22
100172200 CATTAATTAC
* *
100172210 TTATTTCATAT-TATTCTA-AA
1 TTATTTTATATATATTATATAA
100172230 CTTATATTTATATATATTATATAA
1 -TTAT-TTTATATATATTATATAA
*
100172254 TTATTTTAT-TATTTTATA-AA
1 TTATTTTATATATATTATATAA
*
100172274 TTCTTTTA
1 TTATTTTA
100172282 CATACTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.20
21 12 0.27
22 11 0.25
23 10 0.23
24 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATTTTATATATATTATATAA
Found at i:100182147 original size:40 final size:40
Alignment explanation
Indices: 100182069--100182232 Score: 240
Period size: 40 Copynumber: 4.1 Consensus size: 40
100182059 CGGATGATAA
* * *
100182069 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * *
100182109 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
100182149 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
100182189 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
100182229 CCGG
1 CCGG
100182233 CTGAATCCCG
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.02
40 106 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:100182513 original size:22 final size:22
Alignment explanation
Indices: 100182473--100182514 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
100182463 GAATGTGCAT
*
100182473 ATATGAAGTTATTCATTTAGCA
1 ATATGAAGTTATACATTTAGCA
100182495 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
100182515 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCA
Found at i:100189410 original size:18 final size:17
Alignment explanation
Indices: 100189389--100189437 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
100189379 TCTAACGTTA
100189389 CTTTTTGTTCTTCTTTCT
1 CTTTTT-TTCTTCTTTCT
*
100189407 CTTTTTTT-TTCTGTCT
1 CTTTTTTTCTTCTTTCT
100189423 CTTCTTTTTCTTCTT
1 CTT-TTTTTCTTCTT
100189438 CAATTCTGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 10 0.37
17 7 0.26
18 10 0.37
ACGTcount: A:0.00, C:0.22, G:0.04, T:0.73
Consensus pattern (17 bp):
CTTTTTTTCTTCTTTCT
Found at i:100189412 original size:19 final size:20
Alignment explanation
Indices: 100189390--100189431 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
100189380 CTAACGTTAC
100189390 TTTTTGTTCT-TCT-TTCTCT
1 TTTTTGTTCTGTCTCTTCT-T
*
100189409 TTTTTTTTCTGTCTCTTCTT
1 TTTTTGTTCTGTCTCTTCTT
100189429 TTT
1 TTT
100189432 CTTCTTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTGTTCTGTCTCTTCTT
Found at i:100197158 original size:20 final size:20
Alignment explanation
Indices: 100197133--100197173 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
100197123 TCAAGAAGCT
*
100197133 CAAGTCTGTTTTGACTTAGG
1 CAAGTCTGTTCTGACTTAGG
100197153 CAAGTCTGTTCTGACTTAGG
1 CAAGTCTGTTCTGACTTAGG
100197173 C
1 C
100197174 TCCTATTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (20 bp):
CAAGTCTGTTCTGACTTAGG
Found at i:100202519 original size:42 final size:42
Alignment explanation
Indices: 100202472--100202639 Score: 230
Period size: 42 Copynumber: 4.0 Consensus size: 42
100202462 TAGCGGCGTT
** *
100202472 GACCAGGACTTTTAGCGGTGCTTTTATAAAAACACCGCTAAA
1 GACCAGGACTTTTAGCGGCACTTTTATAAAAACGCCGCTAAA
100202514 GACCAGGACTTTTAGCGGCACTTTTATAAAAACGCCGCTAAA
1 GACCAGGACTTTTAGCGGCACTTTTATAAAAACGCCGCTAAA
* * * *
100202556 GACCAAGACTTTTAGCGGCATTTTTATAAAAACGCCGCGATA
1 GACCAGGACTTTTAGCGGCACTTTTATAAAAACGCCGCTAAA
* *
100202598 GA-CACGGACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
1 GACCA-GGACTTTTAGCGGCACTTTTAT-AAAAACGCCGCTAA
100202640 TTTGCCCAGT
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
41 2 0.02
42 97 0.87
43 12 0.11
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (42 bp):
GACCAGGACTTTTAGCGGCACTTTTATAAAAACGCCGCTAAA
Found at i:100210455 original size:183 final size:183
Alignment explanation
Indices: 100210147--100210515 Score: 702
Period size: 183 Copynumber: 2.0 Consensus size: 183
100210137 CCTAGAACAG
100210147 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
* *
100210212 ATCAGTACCAAATATTAATTCGAAGATTAAATGATAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGACAGCTTCAGTTGAAACAATAGTTGCAGGAGG
100210277 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
100210330 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
100210395 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGACAGCTTCAGTTGAAACAATAGTTGCAGGAGG
*
100210460 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAGTACAGACAC
131 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
100210513 ATG
1 ATG
100210516 GAACTATATC
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 182 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGACAGCTTCAGTTGAAACAATAGTTGCAGGAGG
AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:100210605 original size:14 final size:13
Alignment explanation
Indices: 100210586--100210615 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
100210576 CAATATAATT
100210586 TTACTTCATATATA
1 TTACTTCATATA-A
100210600 TTACTTCATATAA
1 TTACTTCATATAA
100210613 TTA
1 TTA
100210616 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:100212454 original size:6 final size:6
Alignment explanation
Indices: 100212443--100212478 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
100212433 TAAGACAGAA
*
100212443 AGAGGG AGAGGG AGAGGA AGAGGG AGAGGG AGAGGG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG
100212479 GAGAAAGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
AGAGGG
Found at i:100212465 original size:18 final size:18
Alignment explanation
Indices: 100212442--100212477 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
100212432 CTAAGACAGA
100212442 AAGAGGGAGAGGGAGAGG
1 AAGAGGGAGAGGGAGAGG
100212460 AAGAGGGAGAGGGAGAGG
1 AAGAGGGAGAGGGAGAGG
100212478 GGAGAAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (18 bp):
AAGAGGGAGAGGGAGAGG
Found at i:100213213 original size:28 final size:29
Alignment explanation
Indices: 100213156--100213227 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
100213146 TTAATCAAAA
*
100213156 CTCTAAACCTTAAACCATTAAACTATATC
1 CTCTAAACCTTAAACCACTAAACTATATC
*
100213185 C-CTATAACCTTAAACC-CTAAAGTATATC
1 CTCTA-AACCTTAAACCACTAAACTATATC
*
100213213 CTCTAAACCCTAAAC
1 CTCTAAACCTTAAAC
100213228 TATATCCCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.40, C:0.31, G:0.01, T:0.28
Consensus pattern (29 bp):
CTCTAAACCTTAAACCACTAAACTATATC
Found at i:100213219 original size:21 final size:21
Alignment explanation
Indices: 100213186--100213247 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
100213176 AACTATATCC
*
100213186 CTATAACCT-TAAACCCTAAA
1 CTATATCCTCTAAACCCTAAA
*
100213206 GTATATCCTCTAAACCCTAAA
1 CTATATCCTCTAAACCCTAAA
* *
100213227 CTATATCCCCT-AACCATAAA
1 CTATATCCTCTAAACCCTAAA
100213247 C
1 C
100213248 CACAAAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.40, C:0.32, G:0.02, T:0.26
Consensus pattern (21 bp):
CTATATCCTCTAAACCCTAAA
Found at i:100213264 original size:28 final size:28
Alignment explanation
Indices: 100213215--100213282 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
100213205 AGTATATCCT
* * *
100213215 CTAAACC-CTAAACTATATCCCCTAA-C
1 CTAAACCACAAAACAATAACCCCTAAGC
100213241 CATAAACCACAAAACAATAACCCCTAAGC
1 C-TAAACCACAAAACAATAACCCCTAAGC
*
100213270 CTTAACCACAAAA
1 CTAAACCACAAAA
100213283 TGTATGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 6 0.17
28 26 0.74
29 2 0.06
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.16
Consensus pattern (28 bp):
CTAAACCACAAAACAATAACCCCTAAGC
Found at i:100213497 original size:207 final size:203
Alignment explanation
Indices: 100213137--100213596 Score: 805
Period size: 207 Copynumber: 2.2 Consensus size: 203
100213127 TTAATATTAT
100213137 TAACACTAATTAATCAAAACTCTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAAACCC
1 TAACACTAATTAATCAAAACTCTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAAACCC
100213202 TAAAGTATATCCTCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTA
66 TAAAGTATATCCTCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTA
100213267 AGCCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATCCTTAAACCA
131 AGCCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATCCTTAAACCA
100213332 CAAAATAA
196 CAAAATAA
*
100213340 TAACACTAATTAATCAAAACTGTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAAACCC
1 TAACACTAATTAATCAAAACTCTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAAACCC
* *
100213405 TAAAGTATATATATCCAT-TAAACCCTAAACTATATCCCCTAACCATAAACCATAAAATAATAAC
66 TAAAG----TATATCC-TCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAAC
** *
100213469 CTTTAAGCCTTAACCACAAAATGTATGAATTAATCATACCCCTAAACTATATCCCTTGATCCTTA
126 CCCTAAGCCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATCCTTA
100213534 AACCACAAAATAA
191 AACCACAAAATAA
*
100213547 TAACACTAATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCC
1 TAACACTAATTAATCAAAACTCTAAACCTTAAACCATTAAACTATATCCC
100213597 CTACTAAAGT
Statistics
Matches: 244, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
203 69 0.28
207 174 0.71
208 1 0.00
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (203 bp):
TAACACTAATTAATCAAAACTCTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAAACCC
TAAAGTATATCCTCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTA
AGCCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATCCTTAAACCA
CAAAATAA
Found at i:100213678 original size:15 final size:15
Alignment explanation
Indices: 100213648--100213696 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
100213638 ACAAAATAAA
*
100213648 AACCCCT-AAGCATT
1 AACCCCTAAACCATT
100213662 AACCCCTAAACCATT
1 AACCCCTAAACCATT
* * *
100213677 AACCCATAACCCATA
1 AACCCCTAAACCATT
100213692 AACCC
1 AACCC
100213697 TTAATCACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 7 0.23
15 23 0.77
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (15 bp):
AACCCCTAAACCATT
Found at i:100213697 original size:29 final size:29
Alignment explanation
Indices: 100213665--100213751 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
100213655 AAGCATTAAC
100213665 CCCTAAACCATTAACCCATAACCCATAAA
1 CCCTAAACCATTAACCCATAACCCATAAA
* * * * *
100213694 CCCTTAATCACTAGCCCATAACCCTTAAA
1 CCCTAAACCATTAACCCATAACCCATAAA
* * * * *
100213723 CCC-CAACCCTTAAACCATAAGCCGTAAA
1 CCCTAAACCATTAACCCATAACCCATAAA
100213751 C
1 C
100213752 ATAATCCCTA
Statistics
Matches: 45, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
28 18 0.40
29 27 0.60
ACGTcount: A:0.39, C:0.39, G:0.03, T:0.18
Consensus pattern (29 bp):
CCCTAAACCATTAACCCATAACCCATAAA
Found at i:100213786 original size:15 final size:15
Alignment explanation
Indices: 100213662--100213780 Score: 56
Period size: 15 Copynumber: 8.3 Consensus size: 15
100213652 CCTAAGCATT
* * *
100213662 AACCCCTAAACCATT
1 AACCCATAAACCCTA
100213677 AACCCAT-AACCCATA
1 AACCCATAAACCC-TA
* * *
100213692 AACCCTTAATCACT-
1 AACCCATAAACCCTA
*
100213706 AGCCCAT-AACCCTTA
1 AACCCATAAACCC-TA
*
100213721 AACCC--CAACCCTTA
1 AACCCATAAACCC-TA
* *
100213735 AA-CCATAAGCCGTA
1 AACCCATAAACCCTA
*
100213749 AA--CATAATCCCTA
1 AACCCATAAACCCTA
100213762 AACCCATAAACCCTA
1 AACCCATAAACCCTA
100213777 AACC
1 AACC
100213781 TTTAAATAGT
Statistics
Matches: 78, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
13 16 0.21
14 24 0.31
15 35 0.45
16 3 0.04
ACGTcount: A:0.41, C:0.39, G:0.03, T:0.18
Consensus pattern (15 bp):
AACCCATAAACCCTA
Found at i:100214396 original size:40 final size:40
Alignment explanation
Indices: 100214330--100214570 Score: 305
Period size: 40 Copynumber: 6.0 Consensus size: 40
100214320 TGCTTAATCT
100214330 TTTAGCGGCG-TTT-TTAAAAAAGCGCCGCTAATGCTCGATC
1 TTTAGCGGCGCTTTCTT-AAAAA-CGCCGCTAATGCTCGATC
**
100214370 TTTAGTAGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTC-GATC
*
100214411 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCAGATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTC-GATC
*
100214452 TTTAGCGGCG---T-TTAACAAAGCGCCGCTAATGCTTGATC
1 TTTAGCGGCGCTTTCTTAA-AAA-CGCCGCTAATGCTCGATC
*
100214490 TTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTCGATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATC
* * * *
100214530 TTTAGCGGCGCTTTGTTAAAAACCCCACTAATGCTAGATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATC
100214570 T
1 T
100214571 ATTCGATTTT
Statistics
Matches: 181, Mismatches: 11, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
37 3 0.02
38 18 0.10
39 13 0.07
40 77 0.43
41 64 0.35
42 6 0.03
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (40 bp):
TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATC
Found at i:100219769 original size:16 final size:16
Alignment explanation
Indices: 100219730--100219770 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
100219720 CAATTAACTT
100219730 TTTTTTATAACAATCA
1 TTTTTTATAACAATCA
*
100219746 CTTTTTATAACAA-CA
1 TTTTTTATAACAATCA
100219761 TTTTATTATA
1 TTTT-TTATA
100219771 TAAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTTTATAACAATCA
Found at i:100230402 original size:25 final size:25
Alignment explanation
Indices: 100230357--100230427 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
100230347 AATTTTCTCG
* *
100230357 AAATTTTATTGGGGGTAAAATCGTCA
1 AAATTTTACT-GGGGTAAAATCATCA
* *
100230383 CAATTTTACTGGGGTAAAATCATTA
1 AAATTTTACTGGGGTAAAATCATCA
* *
100230408 AAATTATACTGGAGTAAAAT
1 AAATTTTACTGGGGTAAAAT
100230428 TGGGATGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 30 0.79
26 8 0.21
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (25 bp):
AAATTTTACTGGGGTAAAATCATCA
Found at i:100231930 original size:27 final size:27
Alignment explanation
Indices: 100231900--100231953 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
100231890 TTATCGAACG
100231900 GAGTGAGTTGATGCTA-TAACTAAGGGA
1 GAGTGAGTTGATGCTATTAA-TAAGGGA
* * *
100231927 GAGTGTGTTTATGGTATTAATAAGGGA
1 GAGTGAGTTGATGCTATTAATAAGGGA
100231954 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.31, C:0.04, G:0.33, T:0.31
Consensus pattern (27 bp):
GAGTGAGTTGATGCTATTAATAAGGGA
Found at i:100234131 original size:68 final size:66
Alignment explanation
Indices: 100233991--100234149 Score: 174
Period size: 68 Copynumber: 2.4 Consensus size: 66
100233981 ATTTATATAA
* * * * * *
100233991 TAACAAATCAAGCTCTCAATATTTACATGTTTTTTTTTGGTCAAGCAATATTTACGTGTGTAGTA
1 TAACAAATTAAACCCTCAATATTTAAATGTTTTTTTTTGGTCAAGCAATATTTACATGTGTAATA
100234056 T
66 T
** * *
100234057 TAACAAATTAAACCCTCAATATTTAAATGTTTTTGTTTTTGGTTGAGCAATATTTATATGTTTAA
1 TAACAAATTAAACCCTCAATATTTAAATG-TTTT-TTTTTGGTCAAGCAATATTTACATGTGTAA
100234122 TAT
64 TAT
* * * *
100234125 TTACAAATTAAGCCTTCAGTATTTA
1 TAACAAATTAAACCCTCAATATTTA
100234150 TAGATTTAGT
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
66 25 0.32
67 4 0.05
68 48 0.62
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (66 bp):
TAACAAATTAAACCCTCAATATTTAAATGTTTTTTTTTGGTCAAGCAATATTTACATGTGTAATA
T
Found at i:100248894 original size:2 final size:2
Alignment explanation
Indices: 100248887--100248982 Score: 174
Period size: 2 Copynumber: 48.0 Consensus size: 2
100248877 AAGAAAAATA
*
100248887 GT GT GT GT AT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
100248929 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
*
100248971 GT GT GT AT GT GT
1 GT GT GT GT GT GT
100248983 CTACTCCAAG
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 90 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
GT
Found at i:100251845 original size:43 final size:43
Alignment explanation
Indices: 100251797--100251994 Score: 360
Period size: 43 Copynumber: 4.6 Consensus size: 43
100251787 CCAGCATTAC
* *
100251797 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
100251840 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
100251883 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
100251926 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
100251969 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
100251995 TAATACCAGC
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 149 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:100252035 original size:38 final size:38
Alignment explanation
Indices: 100251987--100252089 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
100251977 GGCACGAAGG
* * * *
100251987 CCCGAATATAATACCAGCACTAGGCCTGC-GAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCAG-GATTTAA
*
100252025 CCCTGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
**
100252063 CCCGGATATTTTACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCT
100252090 AGAGGTCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 55 0.98
39 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:100252038 original size:86 final size:86
Alignment explanation
Indices: 100251797--100252018 Score: 349
Period size: 86 Copynumber: 2.6 Consensus size: 86
100251787 CCAGCATTAC
* * *
100251797 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCATGAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCGAGGCACGAAGGCCCA
100251862 AATACACATCACCGGCACGAA
66 AATACACATCACCGGCACGAA
* * *
100251883 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGGCACGAAGGCCCA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCGAGGCACGAAGGCCCA
100251948 AATACACATCACCGGCACGAA
66 AATACACATCACCGGCACGAA
* * *
100251969 GCCTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTGCGAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCGAG
100252019 ATTTATCCCT
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
84 15 0.12
85 2 0.02
86 109 0.87
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (86 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCGAGGCACGAAGGCCCA
AATACACATCACCGGCACGAA
Found at i:100254168 original size:27 final size:27
Alignment explanation
Indices: 100254112--100254268 Score: 152
Period size: 27 Copynumber: 5.8 Consensus size: 27
100254102 TAGAAACTTG
* ****
100254112 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTTTGTAAATCAAGGGTAAAACA
100254139 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTTTGTAAATCAAGGGTAAAACA
* * *
100254166 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTTTGTAAATCAAGGGTAAAACA
*** * *
100254193 GTAATTCCATAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCAAGGGTAAAACA
** *
100254220 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTTTGTAAATCAAGGGTAAAACA
* *
100254247 GTAATTATGTAAATCAGGGGTA
1 GTAATTTTGTAAATCAAGGGTA
100254269 CTTTGGTAAT
Statistics
Matches: 110, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTTTGTAAATCAAGGGTAAAACA
Found at i:100259260 original size:20 final size:20
Alignment explanation
Indices: 100259219--100259274 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
100259209 CTCTTTGGTT
* *
100259219 AATCGATTGTTCTCTCATTTC
1 AATCGATTGTT-TCTTACTTC
100259240 AAT-GATTGCTTTCTTACTTC
1 AATCGATTG-TTTCTTACTTC
100259260 AATCGATTGTTTCTT
1 AATCGATTGTTTCTT
100259275 GTTTTCATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.50
Consensus pattern (20 bp):
AATCGATTGTTTCTTACTTC
Found at i:100259281 original size:21 final size:20
Alignment explanation
Indices: 100259187--100259274 Score: 74
Period size: 21 Copynumber: 4.3 Consensus size: 20
100259177 AATCGTTTCT
* *
100259187 TTTCCTATTTCAATTGATTG
1 TTTCTTATTTCAATCGATTG
100259207 TTCTCTT-TGGTT-AATCGATTG
1 TT-TCTTAT--TTCAATCGATTG
*
100259228 TTCTCTCATTTCAAT-GATTG
1 TT-TCTTATTTCAATCGATTG
*
100259248 CTTTCTTACTTCAATCGATTG
1 -TTTCTTATTTCAATCGATTG
100259269 TTTCTT
1 TTTCTT
100259275 GTTTTCATCG
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
20 26 0.46
21 27 0.48
22 3 0.05
ACGTcount: A:0.17, C:0.18, G:0.11, T:0.53
Consensus pattern (20 bp):
TTTCTTATTTCAATCGATTG
Found at i:100260922 original size:3 final size:3
Alignment explanation
Indices: 100260914--100260951 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
100260904 CTAGACCGAT
100260914 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
100260952 CAAACTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:100264056 original size:15 final size:15
Alignment explanation
Indices: 100264036--100264069 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
100264026 ATTGAAGAAC
* *
100264036 TTTGCTTGTATTTGG
1 TTTGCTTCTATTTCG
100264051 TTTGCTTCTATTTCG
1 TTTGCTTCTATTTCG
100264066 TTTG
1 TTTG
100264070 AAACATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.21, T:0.62
Consensus pattern (15 bp):
TTTGCTTCTATTTCG
Found at i:100268758 original size:40 final size:40
Alignment explanation
Indices: 100268699--100268779 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
100268689 GGTTATTGAC
100268699 TTAGGTCACACGGCCGACCACACGCCCATGTGCCAGCCAG
1 TTAGGTCACACGGCCGACCACACGCCCATGTGCCAGCCAG
*
100268739 TTAGGTCACACGGCTGACCACACGCCCATGTGCCAGCCAG
1 TTAGGTCACACGGCCGACCACACGCCCATGTGCCAGCCAG
100268779 T
1 T
100268780 ATGCCACACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.22, C:0.38, G:0.25, T:0.15
Consensus pattern (40 bp):
TTAGGTCACACGGCCGACCACACGCCCATGTGCCAGCCAG
Found at i:100269226 original size:19 final size:20
Alignment explanation
Indices: 100269194--100269239 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
100269184 CGAAAAATGA
100269194 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
100269214 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
100269233 TTTCTGG
1 TTTCTGG
100269240 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:100270712 original size:31 final size:31
Alignment explanation
Indices: 100270677--100270739 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
100270667 AACATCAACA
100270677 CATAGATTCAATAAAAAGTATCTTCATTTGG
1 CATAGATTCAATAAAAAGTATCTTCATTTGG
100270708 CATAGATTCAATAAAAAGTATCTTCATTTGG
1 CATAGATTCAATAAAAAGTATCTTCATTTGG
100270739 C
1 C
100270740 CATTGACTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (31 bp):
CATAGATTCAATAAAAAGTATCTTCATTTGG
Found at i:100273633 original size:43 final size:43
Alignment explanation
Indices: 100273586--100273701 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
100273576 TATCACATAT
* *
100273586 CGATGCCACTGTCCCAGACAGGGTCTTACACGA-AATCGATT-A-A
1 CGATGCCAATGTCCCAGACATGGTCTTACAC-ATAATC--TTAATA
* *
100273629 CGATGTCAATGTCCTAGACATGGTCTTACACATAATCTTAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACATAATCTTAATA
* *
100273672 CAATACCAATGTCCCAGACATGGTCTTACA
1 CGATGCCAATGTCCCAGACATGGTCTTACA
100273702 TGTAATCACA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
41 2 0.03
42 2 0.03
43 58 0.94
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACATAATCTTAATA
Found at i:100282766 original size:196 final size:195
Alignment explanation
Indices: 100282426--100282796 Score: 634
Period size: 196 Copynumber: 1.9 Consensus size: 195
100282416 ACGTAGCTGG
*
100282426 CTCCCAAGTTAAACGGTCAGGCTGAGTGCCCTCATTAACTGTCAACCACCACTGATATGCTTCGT
1 CTCCCAAGTCAAACGGTCAGGCTGAGTGCCCTCATTAACTGTCAACCACCACTGATATGCTTCGT
* ** * ** *
100282491 CGCGAAGAAAAGAGATTGCACCCTTTAATTTCTGCTCAGTGGTACAGTCCAGATTATCCATAATC
66 CACGAAGAAAAGAGATTAAACCCTTTAATTTCTACTCAGCAGTACAGTCCAGACTATCCATAATC
* * *
100282556 CTCTTGGTGGCCTCCAACTAGTACTCAGCCACATTAGGGGTGACTCTGAAATGTAGTCTTCAAGA
131 CTCTCGGAGGCCTCCAA-TAGTACTCAGCCACATTAGAGGTGACTCTGAAATGTAGTCTTCAAGA
100282621 A
195 A
100282622 CTCCCAAGTCAAACGGTCAGGCTGAGTGCCCTCATTAACTGTCAACCACCACTGATATGCTTCGT
1 CTCCCAAGTCAAACGGTCAGGCTGAGTGCCCTCATTAACTGTCAACCACCACTGATATGCTTCGT
100282687 CACGAAGAAAAGAGATTAAACCCTTTAATTTCTACTCAGCAGTACAGTCCAGACTATCCATAATC
66 CACGAAGAAAAGAGATTAAACCCTTTAATTTCTACTCAGCAGTACAGTCCAGACTATCCATAATC
100282752 CTCTCGGAGGCCTCCAATAGTACTCAGCCACATTAGAGGTGACTC
131 CTCTCGGAGGCCTCCAATAGTACTCAGCCACATTAGAGGTGACTC
100282797 ATGTGACACC
Statistics
Matches: 164, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
195 27 0.16
196 137 0.84
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (195 bp):
CTCCCAAGTCAAACGGTCAGGCTGAGTGCCCTCATTAACTGTCAACCACCACTGATATGCTTCGT
CACGAAGAAAAGAGATTAAACCCTTTAATTTCTACTCAGCAGTACAGTCCAGACTATCCATAATC
CTCTCGGAGGCCTCCAATAGTACTCAGCCACATTAGAGGTGACTCTGAAATGTAGTCTTCAAGAA
Found at i:100283692 original size:15 final size:16
Alignment explanation
Indices: 100283672--100283703 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
100283662 AAATCGTTCT
100283672 ATATTTTTAGA-AAAA
1 ATATTTTTAGATAAAA
100283687 ATATTTTTAGATAAAA
1 ATATTTTTAGATAAAA
100283703 A
1 A
100283704 CCGTCATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
ATATTTTTAGATAAAA
Found at i:100285432 original size:10 final size:10
Alignment explanation
Indices: 100285413--100285461 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
100285403 TTAAATTCTA
100285413 AAAGATAAAT
1 AAAGATAAAT
100285423 ACAA-ATAAAT
1 A-AAGATAAAT
100285433 AAAGATAAAT
1 AAAGATAAAT
*
100285443 AAGGATAAAT
1 AAAGATAAAT
100285453 AAAGATAAA
1 AAAGATAAA
100285462 AGCTAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:100291208 original size:18 final size:19
Alignment explanation
Indices: 100291170--100291208 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
100291160 TGTTTCAAGC
*
100291170 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
100291189 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
100291207 TT
1 TT
100291209 CTTAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:100291544 original size:24 final size:23
Alignment explanation
Indices: 100291511--100291555 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
100291501 ACACGGATCC
*
100291511 CAACCCAAACACACCAGTAATATA
1 CAACCAAAACACACCAG-AATATA
100291535 CAACCAAAACACACCAGAATA
1 CAACCAAAACACACCAGAATA
100291556 ATCATGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.53, C:0.33, G:0.04, T:0.09
Consensus pattern (23 bp):
CAACCAAAACACACCAGAATATA
Found at i:100293065 original size:54 final size:52
Alignment explanation
Indices: 100292983--100293143 Score: 162
Period size: 52 Copynumber: 3.1 Consensus size: 52
100292973 CGGATCACAT
** * *
100292983 ATCATACCGATGCCATATACTAGATATGGTCTTATACAGAATCACATTTATCAC
1 ATCATACCGATGCCATAGCCCAGATATGGTCTTATACAGAATCACA--AATCAC
* * *
100293037 ATCACACCGATGCCATAGCCCAGTTATGGTCTTATACGAGGA-CACAAATCAC
1 ATCATACCGATGCCATAGCCCAGATATGGTCTTATAC-AGAATCACAAATCAC
** * * * * *
100293089 ATGGTACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCATATATCAC
1 ATCATACCGATGCCATAGCCCAGATATGGTCTTATACAGAATCACAAATCAC
100293141 ATC
1 ATC
100293144 TTTTCCATCA
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
51 2 0.02
52 47 0.53
54 36 0.41
55 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGATATGGTCTTATACAGAATCACAAATCAC
Found at i:100299575 original size:20 final size:20
Alignment explanation
Indices: 100299543--100299594 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
100299533 AGGGGCACAC
* *
100299543 GCCCGTATGGCCTGGAACCT
1 GCCCGTGTGGCCTGGAACAT
*
100299563 GCCTGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
100299583 GCCCGTGTGGCC
1 GCCCGTGTGGCC
100299595 AGCCTATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.33, G:0.35, T:0.21
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:100300476 original size:52 final size:50
Alignment explanation
Indices: 100300319--100300478 Score: 156
Period size: 52 Copynumber: 3.3 Consensus size: 50
100300309 TTTCACATTG
* * * * *
100300319 TCACACATCACA-CACCGAAGCCATAGCCCTGCTATGGTCTTACACGG-A
1 TCACATATCACATTACCGATGCCATAGCCCAGCTATGGTCTTACGCGGAA
100300367 TCACATAT--CA-TACCGATGCCATAGCCCAGCTATGGTCTTATACG-GGAA
1 TCACATATCACATTACCGATGCCATAGCCCAGCTATGGTC-T-TACGCGGAA
*
100300415 -CACGA-ATCACATGGTACCGATGCCATAGCCCGGCTATGGTCTTACGCGGAA
1 TCAC-ATATCACAT--TACCGATGCCATAGCCCAGCTATGGTCTTACGCGGAA
*
100300466 TCATATATCACAT
1 TCACATATCACAT
100300479 CTTTTCCATC
Statistics
Matches: 93, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
46 26 0.28
47 8 0.09
48 12 0.13
49 2 0.02
50 4 0.04
51 6 0.06
52 35 0.38
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (50 bp):
TCACATATCACATTACCGATGCCATAGCCCAGCTATGGTCTTACGCGGAA
Found at i:100302217 original size:46 final size:46
Alignment explanation
Indices: 100301915--100302210 Score: 439
Period size: 46 Copynumber: 6.4 Consensus size: 46
100301905 TGCCATAGCG
** **
100301915 TCTTTCAAATATGGTCTTATTCATTTCCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTT-CATGTCATGTTGCCATGGTA
* **
100301962 TCTTTAAACCATGGTCTTATTCATTTCATGTCACATTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
*
100302008 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
*
100302054 TCTTTCAACCATGGTCTTATTCCTTTCATGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
* * * *
100302100 TATTTAAACCATGGTCTTATTCATTTCATGTCAGGTTGCCATGATA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
* *
100302146 TCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
*
100302192 TCTTTCAATCATGGTCTTA
1 TCTTTCAACCATGGTCTTA
100302211 CACATTTGAA
Statistics
Matches: 226, Mismatches: 23, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
46 203 0.90
47 23 0.10
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
Found at i:100302256 original size:45 final size:45
Alignment explanation
Indices: 100302207--100302307 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
100302197 CAATCATGGT
*
100302207 CTTACACATTTGAATCGCGATGCCATAGCGTCTTTCAGCTATAGC
1 CTTACTCATTTGAATCGCGATGCCATAGCGTCTTTCAGCTATAGC
* * * * * *
100302252 CTTACTCGTCTGAATCGTGATGCCATAGCTTCTTTCAGCTATGGT
1 CTTACTCATTTGAATCGCGATGCCATAGCGTCTTTCAGCTATAGC
100302297 CTTACTCATTT
1 CTTACTCATTT
100302308 CTGGTATGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (45 bp):
CTTACTCATTTGAATCGCGATGCCATAGCGTCTTTCAGCTATAGC
Found at i:100306266 original size:64 final size:64
Alignment explanation
Indices: 100306193--100306403 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
100306183 CTAGGCCAGA
*
100306193 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * **** ** *
100306257 GCCCATTTCAAAATAC-ATGCAACATCAGTAAATATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTGGGCCT-TA-GC---CCCTTATTCAGATAACA---GT
* *
100306319 ACTGGGCCAGA-
54 A-TGGCCCATAG
* *
100306330 GCCCTTTTCAGATTACAATGAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
100306394 GCCCATTTCA
1 GCCCATTTCA
100306404 AAATACATGC
Statistics
Matches: 102, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.25
65 5 0.05
66 1 0.01
67 12 0.12
68 4 0.04
69 4 0.04
70 12 0.12
71 1 0.01
72 4 0.04
73 16 0.16
74 9 0.09
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:100306405 original size:137 final size:137
Alignment explanation
Indices: 100306159--100306445 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
100306149 GATTTGGCCT
**
100306159 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
100306224 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
100306289 TATATGC
131 CATATGC
* *
100306296 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATGAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
100306361 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
100306426 CATATGC
131 CATATGC
100306433 AAGCCCATTTGGG
1 AAGCCCATTTGGG
100306446 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:100308271 original size:26 final size:26
Alignment explanation
Indices: 100308235--100308344 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
100308225 CATGAAATTC
100308235 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
100308261 TTATCATGAAACATTTACCTATCCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100308287 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
100308313 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100308339 TTATCA
1 TTATCA
100308345 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100312483 original size:137 final size:137
Alignment explanation
Indices: 100312237--100312521 Score: 516
Period size: 137 Copynumber: 2.1 Consensus size: 137
100312227 TTGGGCCTAT
**
100312237 GCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAG
1 GCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAG
*
100312302 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACA
66 CCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACA
100312367 TATGCAA
131 TATGCAA
* *
100312374 GCCCATTTGGGTAACAGTGGTACTGGGCCAGGGCCCTTTTCAGATTACAATAAACTGGGCCTTAG
1 GCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAG
*
100312439 CCCTTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACA
66 CCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACA
100312504 TATGCAA
131 TATGCAA
100312511 GCCCATTTGGG
1 GCCCATTTGGG
100312522 GAGACTACTC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
GCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAG
CCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACA
TATGCAA
Found at i:100312805 original size:24 final size:26
Alignment explanation
Indices: 100312769--100312819 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
100312759 TCAAACATGC
100312769 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
100312795 ATTT-GGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
100312819 A
1 A
100312820 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 3 0.13
26 4 0.17
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:100314345 original size:26 final size:26
Alignment explanation
Indices: 100314309--100314418 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
100314299 CATGAAATTC
100314309 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
100314335 TTATCATGAAACATTTACCTATCCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100314361 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
100314387 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100314413 TTATCA
1 TTATCA
100314419 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100317667 original size:30 final size:30
Alignment explanation
Indices: 100317633--100317795 Score: 203
Period size: 30 Copynumber: 5.6 Consensus size: 30
100317623 AACCAAAATG
*
100317633 AGAATCAGAATCAGAATTAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGTATTAGTAAC
100317663 AGAATCAGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGTATTAGTAAC
** *
100317693 AGAATCAGAATCAGAATCAAAATTACGTGAC
1 AGAATCAGAATCAGAATCAGTATTA-GTAAC
100317724 AGAATCAGAATCAGAATC------AGTAAC
1 AGAATCAGAATCAGAATCAGTATTAGTAAC
* *
100317748 AGAATCAGAATCAGAATCAGAATTACGTGAC
1 AGAATCAGAATCAGAATCAGTATTA-GTAAC
*
100317779 AGAATCAGAATTAGAAT
1 AGAATCAGAATCAGAAT
100317796 GTGAATGCAA
Statistics
Matches: 118, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
24 22 0.19
25 1 0.01
30 53 0.45
31 42 0.36
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGTATTAGTAAC
Found at i:100317746 original size:55 final size:55
Alignment explanation
Indices: 100317668--100317795 Score: 220
Period size: 55 Copynumber: 2.3 Consensus size: 55
100317658 GTAACAGAAT
* *
100317668 CAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAAAATTACGTGA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAAAATTACGTGA
*
100317723 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAAAATTACGTGA
*
100317778 CAGAATCAGAATTAGAAT
1 CAGAATCAGAATCAGAAT
100317796 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (55 bp):
CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAAAATTACGTGA
Found at i:100317789 original size:6 final size:6
Alignment explanation
Indices: 100317633--100317770 Score: 131
Period size: 6 Copynumber: 22.8 Consensus size: 6
100317623 AACCAAAATG
* * *
100317633 AGAATC AGAATC AGAATT AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * * * *
100317681 AGTATT AGTAA-C AGAATC AGAATC AGAATC AAAATT ACGTGA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
100317730 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
100317771 TACGTGACAG
Statistics
Matches: 109, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
5 7 0.06
6 96 0.88
7 5 0.05
8 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:100317950 original size:27 final size:26
Alignment explanation
Indices: 100317913--100317978 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
100317903 AGCATGGCTG
*
100317913 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
100317939 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
100317966 CCAGAATCAGATA
1 CCAGAA-CAGATA
100317979 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:100317983 original size:27 final size:27
Alignment explanation
Indices: 100317913--100317986 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
100317903 AGCATGGCTG
* *
100317913 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
100317939 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
100317966 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
100317987 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:100317993 original size:27 final size:27
Alignment explanation
Indices: 100317937--100317994 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
100317927 GTGACAGAGT
* * *
100317937 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
100317964 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
100317991 CACC
1 CACC
100317995 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:100318376 original size:27 final size:26
Alignment explanation
Indices: 100318297--100318379 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
100318287 TCGATTGGTC
* * *
100318297 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
100318323 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
100318350 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
100318377 AAC
1 AAC
100318380 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:100318608 original size:27 final size:27
Alignment explanation
Indices: 100318578--100318773 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
100318568 GGGGCAAAAT
* * *
100318578 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
100318605 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
100318632 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
100318659 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
100318686 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
100318713 AGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
100318740 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
100318767 AGTAATT
1 GGTAATT
100318774 TCACAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:100318722 original size:81 final size:81
Alignment explanation
Indices: 100318580--100318773 Score: 264
Period size: 81 Copynumber: 2.4 Consensus size: 81
100318570 GGCAAAATGG
* * * * * *
100318580 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
100318645 TACAAGGGTATTTCGA
66 TACAAGGGTATTTCGA
* * *
100318661 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTC-AGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACC
*
100318725 CTATAAGGGTATTTCGA
65 CTACAAGGGTATTTCGA
* *
100318742 AAATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
100318774 TCACAATCAA
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 98 0.99
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
TACAAGGGTATTTCGA
Found at i:100318808 original size:27 final size:27
Alignment explanation
Indices: 100318778--100319268 Score: 596
Period size: 27 Copynumber: 18.2 Consensus size: 27
100318768 GTAATTTCAC
*
100318778 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
100318805 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
100318832 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
** * **
100318859 AATTAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
100318886 AATCGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
100318913 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
100318940 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * *
100318967 AATCGAGGGTAAAATAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
100318994 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
100319021 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
100319048 AATCGAGAGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
100319075 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
100319102 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
100319129 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
100319156 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
100319183 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
100319210 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
100319237 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
100319264 AATCG
1 AATCG
100319269 GGAGTACTTT
Statistics
Matches: 400, Mismatches: 54, Indels: 20
0.84 0.11 0.04
Matches are distributed among these distances:
26 8 0.02
27 385 0.96
28 7 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:100320682 original size:27 final size:27
Alignment explanation
Indices: 100320644--100320701 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
100320634 TATTTATAGG
*
100320644 CATAAGAAGTATATAAG-AGTTAGAGAT
1 CATAAGAAGTATAAAAGAAG-TAGAGAT
100320671 CATAAGAAGTATAAAAGAAGTAGAGAT
1 CATAAGAAGTATAAAAGAAGTAGAGAT
100320698 -ATAA
1 CATAA
100320702 TTCTAATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 4 0.14
27 23 0.79
28 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.21, T:0.22
Consensus pattern (27 bp):
CATAAGAAGTATAAAAGAAGTAGAGAT
Found at i:100327961 original size:87 final size:86
Alignment explanation
Indices: 100327807--100327969 Score: 236
Period size: 87 Copynumber: 1.9 Consensus size: 86
100327797 TGTGTAAGGA
100327807 TGAGTTTTTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTACTGAAACGGACTTAAT
1 TGAGTTTTTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTACTGAAACGGACTTAAT
100327872 GAATTCACCGACGTGAGAGGT
66 GAATTCACCGACGTGAGAGGT
* * * * * * * * *
100327893 TGAGTTTATTACTCTTAATGAGTTCATATCCTAGAGTTTGGGTGGTCTTATTGAGATGGACTTGA
1 TGAGTTT-TTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTACTGAAACGGACTTAA
100327958 TGAATTCACCGA
65 TGAATTCACCGA
100327970 ACTTAAATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
86 7 0.10
87 60 0.90
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTACTGAAACGGACTTAAT
GAATTCACCGACGTGAGAGGT
Found at i:100330316 original size:28 final size:28
Alignment explanation
Indices: 100330247--100330319 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
100330237 AGCAACAACA
*
100330247 TTTTGCTTACATTTAATGTCTTAATAGT
1 TTTTTCTTACATTTAATGTCTTAATAGT
* *
100330275 TTTTTCATGCATTTAATGTCTTAAT-GT
1 TTTTTCTTACATTTAATGTCTTAATAGT
*
100330302 CTTTTTCTTATATTTAAT
1 -TTTTTCTTACATTTAAT
100330320 ATATTTTTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.23, C:0.11, G:0.08, T:0.58
Consensus pattern (28 bp):
TTTTTCTTACATTTAATGTCTTAATAGT
Found at i:100330570 original size:13 final size:16
Alignment explanation
Indices: 100330538--100330577 Score: 59
Period size: 13 Copynumber: 2.7 Consensus size: 16
100330528 TGACCCATCC
100330538 TATTTTTATAATTAAT
1 TATTTTTATAATTAAT
100330554 TATTTTT-TAA-T-AT
1 TATTTTTATAATTAAT
100330567 TATTTTTATAA
1 TATTTTTATAA
100330578 AAAAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 3 0.13
16 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTATAATTAAT
Found at i:100331835 original size:29 final size:29
Alignment explanation
Indices: 100331803--100331867 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
100331793 CAGACAGTGT
* *
100331803 AAAGAGTGAGTCAAAGTGGCA-GACAAGCC
1 AAAGAGTAAGACAAAGTGGCATG-CAAGCC
100331832 AAAGAGTAAGACAAAGTGGCATGCAAGCC
1 AAAGAGTAAGACAAAGTGGCATGCAAGCC
100331861 AAA-AGTA
1 AAAGAGTA
100331868 TAAGCCAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 4 0.12
29 28 0.85
30 1 0.03
ACGTcount: A:0.46, C:0.15, G:0.28, T:0.11
Consensus pattern (29 bp):
AAAGAGTAAGACAAAGTGGCATGCAAGCC
Found at i:100336443 original size:20 final size:20
Alignment explanation
Indices: 100336403--100336446 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
100336393 ACACAATGTA
*
100336403 TAAATATTAACGCTAACAAT
1 TAAATATTAACACTAACAAT
* *
100336423 TAAATATTAACATTAATAAT
1 TAAATATTAACACTAACAAT
100336443 TAAA
1 TAAA
100336447 AGCAATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAATATTAACACTAACAAT
Found at i:100339021 original size:89 final size:89
Alignment explanation
Indices: 100338897--100339064 Score: 284
Period size: 89 Copynumber: 1.9 Consensus size: 89
100338887 CGCTAATTTG
*
100338897 ATTTGCTCCACTACAATTCCAGAGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTA
1 ATTTGCTCCACTACAATTCCAGAGAGGCAAGATCTGTAATTTTCAACCTATTACCCTACTGCTTA
100338962 GGGGGTTAAGGCTTAGTGGCTTGA
66 GGGGGTTAAGGCTTAGTGGCTTGA
* * *
100338986 ATTTGCTTCACTGCAACTT-CAGGGAGGCAAGATCTGTAATTTTCAACCTATTACCCTACTGCTT
1 ATTTGCTCCACTACAA-TTCCAGAGAGGCAAGATCTGTAATTTTCAACCTATTACCCTACTGCTT
100339050 AGGGGGTTAAGGCTT
65 AGGGGGTTAAGGCTT
100339065 GTAAATTTGG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
89 72 0.97
90 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (89 bp):
ATTTGCTCCACTACAATTCCAGAGAGGCAAGATCTGTAATTTTCAACCTATTACCCTACTGCTTA
GGGGGTTAAGGCTTAGTGGCTTGA
Found at i:100339083 original size:43 final size:44
Alignment explanation
Indices: 100339036--100339152 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 44
100339026 TTTCAACCTA
* *
100339036 TTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAAT-TTGGCT-TG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTGT-AATCTTCGATCTG
* * * *
100339079 TTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTGTAATCTTCGATCTG
* *
100339123 TTTCCCTACTGCTTAGGGGGTTGAGGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTG
100339153 GTGGCTTAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.03
43 32 0.52
44 27 0.44
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (44 bp):
TTACCCTACTGCTTAGGGGGTTAAGGCTTGTAATCTTCGATCTG
Found at i:100347366 original size:19 final size:20
Alignment explanation
Indices: 100347330--100347371 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
100347320 GTCTTTTCAC
*
100347330 GAAATTTAATGCACATG-AT
1 GAAATATAATGCACATGAAT
100347349 GAAATATAATGCGA-ATGAAT
1 GAAATATAATGC-ACATGAAT
100347369 GAA
1 GAA
100347372 TGCAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
GAAATATAATGCACATGAAT
Found at i:100351373 original size:12 final size:12
Alignment explanation
Indices: 100351356--100351383 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
100351346 ATATAATAAG
100351356 AATAGTGATATT
1 AATAGTGATATT
100351368 AATAGTGATATT
1 AATAGTGATATT
100351380 AATA
1 AATA
100351384 ATAATAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (12 bp):
AATAGTGATATT
Found at i:100351682 original size:18 final size:18
Alignment explanation
Indices: 100351659--100351735 Score: 66
Period size: 18 Copynumber: 4.1 Consensus size: 18
100351649 ATTAAATAGC
*
100351659 AAAAAGGTAATAATAATA
1 AAAAAGATAATAATAATA
*
100351677 AAAAAGATAATAGTAATA
1 AAAAAGATAATAATAATA
* *
100351695 AAAATA-AAAATAATAGTA
1 AAAA-AGATAATAATAATA
*
100351713 ATGAAAATGGTAATAATAATA
1 A--AAAA-GATAATAATAATA
100351734 AA
1 AA
100351736 TAGTAGTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
18 30 0.65
19 3 0.07
20 3 0.07
21 10 0.22
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.23
Consensus pattern (18 bp):
AAAAAGATAATAATAATA
Found at i:100351688 original size:15 final size:15
Alignment explanation
Indices: 100351667--100351709 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
100351657 GCAAAAAGGT
100351667 AATAATAATAA-AAA
1 AATAATAATAATAAA
*
100351681 AGATAATAGTAATAAA
1 A-ATAATAATAATAAA
*
100351697 AATAAAAATAATA
1 AATAATAATAATA
100351710 GTAATGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 1 0.04
15 19 0.79
16 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (15 bp):
AATAATAATAATAAA
Found at i:100351730 original size:21 final size:21
Alignment explanation
Indices: 100351669--100351720 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
100351659 AAAAAGGTAA
*
100351669 TAATAATAAA-AAAGATAATAG
1 TAATAA-AAATAAAAATAATAG
100351690 TAATAAAAATAAAAATAATAG
1 TAATAAAAATAAAAATAATAG
*
100351711 TAATGAAAAT
1 TAATAAAAAT
100351721 GGTAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (21 bp):
TAATAAAAATAAAAATAATAG
Found at i:100351783 original size:14 final size:14
Alignment explanation
Indices: 100351723--100351859 Score: 57
Period size: 14 Copynumber: 9.7 Consensus size: 14
100351713 ATGAAAATGG
100351723 TAATAATAATAAAT
1 TAATAATAATAAAT
* * **
100351737 AGTAGTATTAATACCT
1 --TAATAATAATAAAT
**
100351753 TAATAATAATATGT
1 TAATAATAATAAAT
*
100351767 TAATAATAGTAAAT
1 TAATAATAATAAAT
100351781 TAATGAATTAAT-AA-
1 TAAT-AA-TAATAAAT
**
100351795 TAA-AACCATAAAT
1 TAATAATAATAAAT
* * *
100351808 AAATAAAAATAAAG
1 TAATAATAATAAAT
*
100351822 T-ATAATTATAATAT
1 TAATAATAATAA-AT
* * *
100351836 TAATATTAACAAAA
1 TAATAATAATAAAT
100351850 TAATAATAAT
1 TAATAATAAT
100351860 GACATATTAA
Statistics
Matches: 86, Mismatches: 28, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
11 2 0.02
12 4 0.05
13 10 0.12
14 46 0.53
15 11 0.13
16 13 0.15
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:100353427 original size:3 final size:3
Alignment explanation
Indices: 100353419--100353618 Score: 54
Period size: 3 Copynumber: 65.3 Consensus size: 3
100353409 TTAATATGTC
* * * *
100353419 ATT ATT ATT ATT ATT -TT GTT AAT ATT AAT ATT ATA ATT A-T ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * * * *
100353463 TTT ATTT ATTT ATTT ATG GTT -TT ATT ATT AATT CATT AAT -TT ACT
1 ATT A-TT A-TT A-TT ATT ATT ATT ATT ATT -ATT -ATT ATT ATT ATT
** * * * *
100353508 ATT ATT AAC A-T ATT ATT ATT ATT AAGGT ATT AAT ACT ACT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -A-TT ATT ATT ATT ATT A-TT ATT
** * * * *
100353555 ATT ATT ACC ATT -TT CATT ACT ATT ATT TTT ATT TTT ATT ACT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
100353600 ATCT -TT TTT ATT ATT ATT A
1 AT-T ATT ATT ATT ATT ATT A
100353619 CCTTTTTGCT
Statistics
Matches: 144, Mismatches: 38, Indels: 30
0.68 0.18 0.14
Matches are distributed among these distances:
2 11 0.08
3 107 0.74
4 25 0.17
5 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:100353580 original size:21 final size:21
Alignment explanation
Indices: 100353554--100353601 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
100353544 TACTATTTAT
100353554 TATTATTACCATTTTCATTAC
1 TATTATTACCATTTTCATTAC
*** *
100353575 TATTATTTTTATTTTTATTAC
1 TATTATTACCATTTTCATTAC
100353596 TATTAT
1 TATTAT
100353602 CTTTTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTACCATTTTCATTAC
Found at i:100353607 original size:18 final size:18
Alignment explanation
Indices: 100353549--100353625 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
100353539 AATACTACTA
* *
100353549 TTTATTATTATTACCATT
1 TTTATTACTATTACCTTT
* **
100353567 TTCATTACTATTATTTTTATT
1 TTTATTACTATTA--CCT-TT
*
100353588 TTTATTACTATTATCTTT
1 TTTATTACTATTACCTTT
*
100353606 TTTATTATTATTACCTTT
1 TTTATTACTATTACCTTT
100353624 TT
1 TT
100353626 GCTATTTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
18 31 0.66
19 2 0.04
21 14 0.30
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTATTACTATTACCTTT
Found at i:100353613 original size:21 final size:21
Alignment explanation
Indices: 100353570--100353615 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
100353560 TACCATTTTC
*
100353570 ATTACTATTATTTTTATTTTT
1 ATTACTATTATTTTTATTATT
100353591 ATTACTATTATCTTTT-TTATT
1 ATTACTATTAT-TTTTATTATT
100353612 ATTA
1 ATTA
100353616 TTACCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTACTATTATTTTTATTATT
Found at i:100353874 original size:3 final size:3
Alignment explanation
Indices: 100353868--100353981 Score: 65
Period size: 3 Copynumber: 38.0 Consensus size: 3
100353858 TAATTTAATG
* * * * * * *
100353868 TAT TAT TTT CTAT TAT TAT TAT TAA TAT CAC TAT TAA TAT CAC TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
100353914 TAT TA- TAT TA- TAA TACCT CT-T TAT TAT TAT TAC TAT T-G TAT TAT
1 TAT TAT TAT TAT TAT TA--T -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
100353958 TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
100353982 ATTTTTCCTT
Statistics
Matches: 82, Mismatches: 21, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
2 6 0.07
3 73 0.89
4 2 0.02
6 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:100353928 original size:22 final size:22
Alignment explanation
Indices: 100353902--100353945 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
100353892 ATATCACTAT
*
100353902 TAATATCACTATTATTA-TATTA
1 TAATACCACT-TTATTATTATTA
*
100353924 TAATACCTCTTTATTATTATTA
1 TAATACCACTTTATTATTATTA
100353946 CTATTGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATACCACTTTATTATTATTA
Found at i:100359225 original size:19 final size:19
Alignment explanation
Indices: 100359179--100359226 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
100359169 GTATATATTT
100359179 TAAA-TTTATTTAGATAGA
1 TAAATTTTATTTAGATAGA
* *
100359197 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGATAGA
*
100359216 TAAGTTTTATT
1 TAAATTTTATT
100359227 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGATAGA
Found at i:100359302 original size:42 final size:42
Alignment explanation
Indices: 100359243--100359331 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
100359233 CTAGGAATAT
* * *
100359243 TTTTATTTTATCTTTTAGTAGTTTATTAGGACAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
*
100359285 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
100359327 TTTTC
1 TTTTC
100359332 CCAATTAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
Found at i:100359719 original size:15 final size:15
Alignment explanation
Indices: 100359695--100359725 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100359685 CTTCAATTCC
*
100359695 TAACTCATCCAATAA
1 TAACTAATCCAATAA
100359710 TAACTAATCCAATAA
1 TAACTAATCCAATAA
100359725 T
1 T
100359726 CCTTCTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (15 bp):
TAACTAATCCAATAA
Found at i:100363135 original size:19 final size:19
Alignment explanation
Indices: 100363089--100363136 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
100363079 GTATATATTT
100363089 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
100363107 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
100363126 TAAGTTTTATT
1 TAAATTTTATT
100363137 CATATTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:100363212 original size:42 final size:42
Alignment explanation
Indices: 100363153--100363241 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
100363143 CTAAGAATAT
* * *
100363153 TTTTATTTTATCTTTTAGTAGTTTATTAGGACAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
*
100363195 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
100363237 TTTTC
1 TTTTC
100363242 CCAATTAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
Found at i:100369560 original size:3 final size:3
Alignment explanation
Indices: 100369552--100369583 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
100369542 GGGTTAATAT
100369552 AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
100369584 GGGTGTAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:100373437 original size:202 final size:201
Alignment explanation
Indices: 100373091--100373496 Score: 749
Period size: 202 Copynumber: 2.0 Consensus size: 201
100373081 ATCCTCAGAA
* *
100373091 ATAGGCGAGTCAGTGTGACGGAGGCTCTGCGGTGACCACTAGTTCATGAACTGTCTTAAATAATG
1 ATAGGCGAGTCAGTGTGACGGAGGCTCTGCGGTGACCACTAATTCATGAACTATCTTAAATAATG
*
100373156 GTTTTTATTTAAAATATGGATTATTTCTGAAAGTTTTGTAATTCTTGGACTCTCCGGACTATTGA
66 GTTTTTATTTAAAATATCGATTATTTCTGAAAGTTTTGTAATTCTTGGACTCTCCGGACTATTGA
100373221 TTTTAATTTTGGTTTTGGGATGTGTTTTTTTATTTTCATACTGCAATGTTTAACAAAAACCACGA
131 TTTTAATTTTGGTTTTGGGATGTGTTTTTTTATTTTCATACTGCAATGTTTAACAAAAACCACGA
100373286 ATTTGAC
196 ATTTG-C
* *
100373293 ATAGGCGAGTCGGTGTGACGGAGGCTCTGCGGTGACCACTAATTCGTGAACTATCTTAAATAATG
1 ATAGGCGAGTCAGTGTGACGGAGGCTCTGCGGTGACCACTAATTCATGAACTATCTTAAATAATG
100373358 GTTTTTATTTAAAATATCGATTATTTCTGAAAGTTTTGTAATTCTTGGACTCTCCGGACTATTGA
66 GTTTTTATTTAAAATATCGATTATTTCTGAAAGTTTTGTAATTCTTGGACTCTCCGGACTATTGA
*
100373423 TTTTAATTTTGGTTTTGGGATGTGTTTTTTTATTTTCATACTGCAATGTTTGACAAAAACCACGA
131 TTTTAATTTTGGTTTTGGGATGTGTTTTTTTATTTTCATACTGCAATGTTTAACAAAAACCACGA
100373488 ATTTGC
196 ATTTGC
100373494 ATA
1 ATA
100373497 AACAAATGTT
Statistics
Matches: 198, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
201 4 0.02
202 194 0.98
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (201 bp):
ATAGGCGAGTCAGTGTGACGGAGGCTCTGCGGTGACCACTAATTCATGAACTATCTTAAATAATG
GTTTTTATTTAAAATATCGATTATTTCTGAAAGTTTTGTAATTCTTGGACTCTCCGGACTATTGA
TTTTAATTTTGGTTTTGGGATGTGTTTTTTTATTTTCATACTGCAATGTTTAACAAAAACCACGA
ATTTGC
Found at i:100378113 original size:117 final size:117
Alignment explanation
Indices: 100377985--100378226 Score: 371
Period size: 117 Copynumber: 2.1 Consensus size: 117
100377975 AATAATTATT
* *
100377985 ATTATATTAAGAATCCTATTAAATTATGTTTTATTTTATTAAATTATATTTAATAAT-TATGTTA
1 ATTATATTAAGAATCCTATTAAATTATATATTATTTTATTAAATTATATTTAATAATATATGTTA
100378049 AAATATGATTAAATCATTTATTATGATTTTTATT-AATTCATATTTTAATAATA
66 AAATATGATTAAATCATTTATTATGATTTTTATTAAATT-ATA-TTTAATAATA
**
100378102 ATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTATATTTAATAATAACTATGT
1 ATTATATTAAGAATCCTATTAAATTATATATTATTTTATTAAATTATATTTAATAAT-A-TATGT
* * *
100378167 TAAAATATGATTAAATTATTTATTTTTATTTTTATTAAATTATATTTAATAATA
64 TAAAATATGATTAAATCATTTATTATGATTTTTATTAAATTATATTTAATAATA
100378221 ATTATA
1 ATTATA
100378227 ATAGCTCAAT
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
117 53 0.46
119 16 0.14
120 41 0.36
121 4 0.04
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (117 bp):
ATTATATTAAGAATCCTATTAAATTATATATTATTTTATTAAATTATATTTAATAATATATGTTA
AAATATGATTAAATCATTTATTATGATTTTTATTAAATTATATTTAATAATA
Found at i:100378220 original size:61 final size:59
Alignment explanation
Indices: 100378015--100378222 Score: 257
Period size: 58 Copynumber: 3.5 Consensus size: 59
100378005 AAATTATGTT
*
100378015 TTATTTTATTAAATTATATTTAATAAT--TATGTTAAAATATGATTAAATCATTTATTA
1 TTATTTTATTAAATTATATTTAATAATAATATGTTAAAATATGATTAAATTATTTATTA
* * * *
100378072 TGATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAATTA--TA-TA
1 TTA-TTTTATTAAATT-ATA-TTTAATAATAA-TATGTTAA-AATATGATTAAATTATTTATTA
*
100378132 TTATTTTATTAAATTATATTTAATAATAACTATGTTAAAATATGATTAAATTATTTATTT
1 TTATTTTATTAAATTATATTTAATAATAA-TATGTTAAAATATGATTAAATTATTTATTA
100378192 TTATTTTTATTAAATTATATTTAATAATAAT
1 TTA-TTTTATTAAATTATATTTAATAATAAT
100378223 TATAATAGCT
Statistics
Matches: 128, Mismatches: 11, Indels: 21
0.80 0.07 0.13
Matches are distributed among these distances:
57 19 0.15
58 28 0.22
59 21 0.16
60 13 0.10
61 28 0.22
62 7 0.05
63 12 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (59 bp):
TTATTTTATTAAATTATATTTAATAATAATATGTTAAAATATGATTAAATTATTTATTA
Found at i:100379103 original size:18 final size:18
Alignment explanation
Indices: 100379080--100379114 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
100379070 GAGTTAAACG
*
100379080 AATCAAGTTATTTGAGTT
1 AATCAAGTTATTCGAGTT
100379098 AATCAAGTTATTCGAGT
1 AATCAAGTTATTCGAGT
100379115 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (18 bp):
AATCAAGTTATTCGAGTT
Found at i:100380976 original size:3 final size:3
Alignment explanation
Indices: 100380968--100380995 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
100380958 GTATTTTTTG
100380968 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
100380996 AACATGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:100381101 original size:17 final size:18
Alignment explanation
Indices: 100381079--100381129 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
100381069 AGCATAGCAT
100381079 TTTTATTTTATCT-TTTA
1 TTTTATTTTATCTATTTA
*
100381096 TTTTATTTTATTTATTTA
1 TTTTATTTTATCTATTTA
*
100381114 -TTTA-TTTATTTATTTA
1 TTTTATTTTATCTATTTA
100381130 CCTCTCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 12 0.38
17 16 0.50
18 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTATTTTATCTATTTA
Found at i:100381111 original size:4 final size:4
Alignment explanation
Indices: 100381092--100381129 Score: 58
Period size: 4 Copynumber: 9.0 Consensus size: 4
100381082 TATTTTATCT
100381092 TTTA TTTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
100381130 CCTCTCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.73
5 9 0.27
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:100392999 original size:44 final size:44
Alignment explanation
Indices: 100392936--100393027 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
100392926 TACCATAGCG
100392936 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTACA
* *
100392980 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTACA
100393024 AATC
1 AATC
100393028 CTGCAACTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTACA
Found at i:100393015 original size:94 final size:92
Alignment explanation
Indices: 100392789--100393017 Score: 246
Period size: 94 Copynumber: 2.4 Consensus size: 92
100392779 CAGTGAAACC
*
100392789 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAATCAACATAGCGAATCTTATCTCT
1 ACAAATCCTAT-CCCCTGAAGTTGCAGTGGG-CAGATTGAAATCAACATAGCGAATCTTATCTCC
* * * *
100392854 TTGAAGTTGCAGTGGAATAGATTGAAGCT
64 CTGAAGTTGCAGTAGAACAAATTGAAGCT
* * * * * * *
100392883 ACAAATCCTGCA-ACCCTAAAGTTG-TGATGGGGCGGATTGAATTTACCATAGCGAATCTTATCT
1 ACAAATCCT--ATCCCCTGAAGTTGCAG-T-GGGCAGATTGAAATCAACATAGCGAATCTTATCT
*
100392946 CCCTGAAGTTGCAGTAGAGCAAATTGAAGCT
62 CCCTGAAGTTGCAGTAGAACAAATTGAAGCT
*
100392977 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 ACAAATCCTATC-CCCTGAAGTTGCAGTGG-GCAGATTGAA
100393018 GCTACAAATC
Statistics
Matches: 109, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
92 1 0.01
93 3 0.03
94 100 0.92
95 4 0.04
96 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (92 bp):
ACAAATCCTATCCCCTGAAGTTGCAGTGGGCAGATTGAAATCAACATAGCGAATCTTATCTCCCT
GAAGTTGCAGTAGAACAAATTGAAGCT
Found at i:100393041 original size:44 final size:43
Alignment explanation
Indices: 100392947--100393044 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 43
100392937 ATCTTATCTC
* *
100392947 CCTGAAGTTGCAGTAGAGCAAATTGAAGCTACAAATCTTATCT
1 CCTGAAGTTGCAGTAGAGCAAATTGAAGCTACAAATCTCAACT
* *
100392990 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCCTGCAACT
1 -CCTGAAGTTGCAGTAGAGCAAATTGAAGCTACAAAT-CT-CAACT
*
100393036 -TTGAAGTTG
1 CCTGAAGTTG
100393045 TGATGGGACG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 42 0.89
45 2 0.04
46 3 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (43 bp):
CCTGAAGTTGCAGTAGAGCAAATTGAAGCTACAAATCTCAACT
Found at i:100393128 original size:137 final size:138
Alignment explanation
Indices: 100392842--100393166 Score: 474
Period size: 137 Copynumber: 2.4 Consensus size: 138
100392832 CAACATAGCG
* *
100392842 AATCTTATCTCTTTGAAGTTGCAGTGGAATAGATTGAAGCTACAAATCCTGCAACCCTAAAGTTG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTGCAACCCTAAAGTTG
* * * *
100392907 TGATGGGGCGGATTGAATTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTG
66 TGATGGGACGGATCGAATTTACCATAGCGAATCTTATCTCCCTGAAGTTCCAATAGAGCAAATTG
100392972 AAGCTACA
131 AAGCTACA
* * ** *
100392980 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCCTGCAACTTTGAAGTTG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTGCAACCCTAAAGTTG
* *
100393045 TGATGGGAC-GATCGAATTTATCATAGCGAATCTTATCT-CCTTATAGTTCCAATAGAGCAAATT
66 TGATGGGACGGATCGAATTTACCATAGCGAATCTTATCTCCCTGA-AGTTCCAATAGAGCAAATT
100393108 GAAGCTACA
130 GAAGCTACA
* * * *
100393117 AGTCTTATCTCCTTCAAGTTACAGTGGAGTATATTGAAGCTACAAATCCT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCT
100393167 ATACCCCTAA
Statistics
Matches: 167, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
136 4 0.02
137 97 0.58
138 66 0.40
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (138 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTGCAACCCTAAAGTTG
TGATGGGACGGATCGAATTTACCATAGCGAATCTTATCTCCCTGAAGTTCCAATAGAGCAAATTG
AAGCTACA
Found at i:100393450 original size:44 final size:44
Alignment explanation
Indices: 100393387--100393501 Score: 104
Period size: 44 Copynumber: 2.6 Consensus size: 44
100393377 TACCATAGTG
* * * ** *
100393387 AATCTTATCTTCTTAAAGTTGTAGTGGAGGAGATTGAAACTATA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAACTACA
* * *
100393431 AATCTTATCTCCCTGAAGTTATAGTAGAACAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAACTACA
* ** * *
100393475 ATTCGCATATCCCTGAAGTTGCAGTGG
1 AATCTTATCTCCCTGAAGTTGTAGTGG
100393502 GTTAGAATGA
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAACTACA
Found at i:100396481 original size:14 final size:14
Alignment explanation
Indices: 100396462--100396490 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
100396452 AAACATGCTG
100396462 TAAATGAGCTACCA
1 TAAATGAGCTACCA
100396476 TAAATGAGCTACCA
1 TAAATGAGCTACCA
100396490 T
1 T
100396491 CACACGAAAG
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:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (14 bp):
TAAATGAGCTACCA
Found at i:100400630 original size:20 final size:20
Alignment explanation
Indices: 100400584--100400622 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
100400574 TATAAAATAT
100400584 AAATTTTAAAAATTATTTTG
1 AAATTTTAAAAATTATTTTG
*
100400604 AAATTTTGAAAATTATTTT
1 AAATTTTAAAAATTATTTT
100400623 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AAATTTTAAAAATTATTTTG
Found at i:100411694 original size:46 final size:48
Alignment explanation
Indices: 100411622--100411744 Score: 151
Period size: 48 Copynumber: 2.6 Consensus size: 48
100411612 GACAGGACAG
* * *
100411622 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGA
* *
100411668 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGA
* * **
100411716 GACAAGAATAATTCATGTAAGTCCATATC
1 GACAGGAATGAGCCATGTAAGTCCATATC
100411745 GAAGACATGG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 27 0.42
47 1 0.02
48 36 0.56
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGA
Found at i:100415689 original size:46 final size:48
Alignment explanation
Indices: 100415585--100415698 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 48
100415575 TGTCTTCGAC
** * * *
100415585 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
* * * *
100415633 ATGGGCTTACATGGCTCATTCCTATCTTCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
*
100415679 ATGGACTTACATGGCACATT
1 ATGGACTTACATGGCTCATT
100415699 TCTGTCATGT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 21 0.38
47 1 0.02
48 33 0.60
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
Found at i:100422632 original size:39 final size:39
Alignment explanation
Indices: 100422571--100422697 Score: 135
Period size: 39 Copynumber: 3.5 Consensus size: 39
100422561 TCGTGATCTA
* * * * *
100422571 AAGCCCAAAGTCTAGCTAAAGCACATAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
* *
100422610 AAGCCCGAAGGCTAATTGAAGCACACAAGTGTTAAAC--
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
100422647 -A----GAA-GCTAACTGAAGCACACAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
100422680 AAGCCCGAAGGCTAACTG
1 AAGCCCGAAGGCTAACTG
100422698 GAGCTCATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
31 25 0.35
32 3 0.04
34 1 0.01
36 1 0.01
38 3 0.04
39 38 0.54
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
Found at i:100422655 original size:31 final size:31
Alignment explanation
Indices: 100422620--100422683 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
100422610 AAGCCCGAAG
* *
100422620 GCTAATTGAAGCACACAAGTGTTAAACAGAA
1 GCTAACTGAAGCACACAAGTGCTAAACAGAA
*
100422651 GCTAACTGAAGCACACAAGTGCTAAACGGAA
1 GCTAACTGAAGCACACAAGTGCTAAACAGAA
100422682 GC
1 GC
100422684 CCGAAGGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (31 bp):
GCTAACTGAAGCACACAAGTGCTAAACAGAA
Found at i:100426224 original size:15 final size:15
Alignment explanation
Indices: 100426200--100426231 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100426190 TTCCAAATAT
100426200 TAGTTATTCTCAACA
1 TAGTTATTCTCAACA
*
100426215 TAGTTGTTCTCAACA
1 TAGTTATTCTCAACA
100426230 TA
1 TA
100426232 TTTTCCCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (15 bp):
TAGTTATTCTCAACA
Found at i:100427037 original size:3 final size:3
Alignment explanation
Indices: 100427029--100427057 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
100427019 TAAGTCCCTT
100427029 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
100427058 TTTTGCCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:100427466 original size:21 final size:20
Alignment explanation
Indices: 100427436--100427493 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
100427426 TTAGGATCTA
100427436 ATTT-TTTTTTAAATTATAAC
1 ATTTATTTTTTAAATT-TAAC
* * *
100427456 ATTTATTTTTTTCAATTTTAT
1 ATTTA-TTTTTTAAATTTAAC
*
100427477 ATTTATTTTTAAAATTT
1 ATTTATTTTTTAAATTT
100427494 CCAAAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 14 0.45
21 7 0.23
22 10 0.32
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTATTTTTTAAATTTAAC
Found at i:100427467 original size:22 final size:21
Alignment explanation
Indices: 100427439--100427486 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
100427429 GGATCTAATT
100427439 TTTTTTTAAATTATAACATTTA
1 TTTTTTTAAATT-TAACATTTA
* * *
100427461 TTTTTTTCAATTTTATATTTA
1 TTTTTTTAAATTTAACATTTA
100427482 TTTTT
1 TTTTT
100427487 AAAATTTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTTTAAATTTAACATTTA
Found at i:100427701 original size:20 final size:20
Alignment explanation
Indices: 100427664--100427701 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
100427654 TTAATTAAAT
*
100427664 AAATAATGTTTTGTTATTAA
1 AAATAATGTTTTGATATTAA
100427684 AAATAAT-TTATTGATATT
1 AAATAATGTT-TTGATATT
100427702 TATTCTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (20 bp):
AAATAATGTTTTGATATTAA
Found at i:100430539 original size:44 final size:45
Alignment explanation
Indices: 100430473--100430566 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
100430463 TGACACGGGC
* * *
100430473 GTGTCTCTTGGCTGTGTGAGAGACATGGCCTGGCCACACGAGCAT
1 GTGTCTCTTGGCCGTGTGAGAGAAACGGCCTGGCCACACGAGCAT
* *
100430518 GTGTCTCTT-GCCGTGTGAGAGAAACGGCCTGGTCACACGGGCAT
1 GTGTCTCTTGGCCGTGTGAGAGAAACGGCCTGGCCACACGAGCAT
100430562 GTGTC
1 GTGTC
100430567 CCTTACACTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (45 bp):
GTGTCTCTTGGCCGTGTGAGAGAAACGGCCTGGCCACACGAGCAT
Done.