Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 397 of 433
Found at i:123230761 original size:22 final size:22
Alignment explanation
Indices: 123230736--123230777 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
123230726 GTAGCAATAT
*
123230736 AATAACGAAATGGCAACAAAAC
1 AATAACGAAATGACAACAAAAC
*
123230758 AATAGCGAAATGACAACAAA
1 AATAACGAAATGACAACAAA
123230778 GCAGTGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.17, G:0.14, T:0.10
Consensus pattern (22 bp):
AATAACGAAATGACAACAAAAC
Found at i:123231367 original size:11 final size:10
Alignment explanation
Indices: 123231337--123231458 Score: 69
Period size: 10 Copynumber: 12.2 Consensus size: 10
123231327 GTTGATGTAC
123231337 ATAATTTTTGT
1 ATAATTTTT-T
123231348 A-AATTTTTT
1 ATAATTTTTT
123231357 ATAATTCTTTT
1 ATAATT-TTTT
123231368 -T-ATATTTTT
1 ATAAT-TTTTT
*
123231377 ATAATTTCTT
1 ATAATTTTTT
**
123231387 ATACCTTTTT
1 ATAATTTTTT
123231397 AT-ATTTTTT
1 ATAATTTTTT
*
123231406 -GAATTTTTGT
1 ATAATTTTT-T
*
123231416 A-AATTTTCAT
1 ATAATTTT-TT
*
123231426 ATAACTATTTT
1 ATAA-TTTTTT
123231437 AT-ATTTTTT
1 ATAATTTTTT
*
123231446 ATAGATATTTT
1 ATA-ATTTTTT
123231457 AT
1 AT
123231459 TATCATAAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
9 26 0.30
10 37 0.43
11 20 0.23
12 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:123231389 original size:30 final size:29
Alignment explanation
Indices: 123231340--123231404 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
123231330 GATGTACATA
* * *
123231340 ATTTTTGTAAATTTTTTATAATTCTTTTTAT
1 ATTTTTATAAATTTCTTAT-A-CCTTTTTAT
123231371 ATTTTTAT-AATTTCTTATACCTTTTTAT
1 ATTTTTATAAATTTCTTATACCTTTTTAT
123231399 ATTTTT
1 ATTTTT
123231405 TGAATTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 14 0.45
29 1 0.03
30 9 0.29
31 7 0.23
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (29 bp):
ATTTTTATAAATTTCTTATACCTTTTTAT
Found at i:123234023 original size:61 final size:60
Alignment explanation
Indices: 123233909--123234058 Score: 205
Period size: 61 Copynumber: 2.5 Consensus size: 60
123233899 CACCTAACTT
* * * *
123233909 TTAGTGCACTTTCATTTTGGTCACCCAAAATGAATTCTTTGCAATTTTGTCACCCTAGTC
1 TTAGAGCACTTTCATTTTAGTCACCCAAAATGAATTCTTTGCAATTTTCTCACCCTACTC
*
123233969 TTATG-GCACTTTCATTTTAGTCACACTAAAATGAAATTC-TTGCAATTTTCTCACCCTACTC
1 TTA-GAGCACTTTCATTTTAGTCAC-CCAAAATG-AATTCTTTGCAATTTTCTCACCCTACTC
*
123234030 TTAGAGCGCTTTCATTTTAGTCACCCAAA
1 TTAGAGCACTTTCATTTTAGTCACCCAAA
123234059 CGTTAAATCT
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
60 26 0.32
61 49 0.61
62 5 0.06
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (60 bp):
TTAGAGCACTTTCATTTTAGTCACCCAAAATGAATTCTTTGCAATTTTCTCACCCTACTC
Found at i:123236497 original size:17 final size:17
Alignment explanation
Indices: 123236475--123236508 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
123236465 CTTATTAAGC
123236475 AATTAATATACATTGTT
1 AATTAATATACATTGTT
123236492 AATTAATATACATTGTT
1 AATTAATATACATTGTT
123236509 TGTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (17 bp):
AATTAATATACATTGTT
Found at i:123237266 original size:19 final size:20
Alignment explanation
Indices: 123237238--123237291 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
123237228 ATATATTTTC
123237238 ATATATTTTATATTATTCAAA
1 ATATA-TTTATATTATTCAAA
*
123237259 A-ATATTTATATATATTTAAA
1 ATATATTTATAT-TATTCAAA
*
123237279 ATATAATTATATT
1 ATATATTTATATT
123237292 CATATTGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 7 0.24
20 12 0.41
21 10 0.34
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATATTTATATTATTCAAA
Found at i:123237436 original size:8 final size:8
Alignment explanation
Indices: 123237423--123237451 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
123237413 AAATACTAAT
123237423 ATTTTAAA
1 ATTTTAAA
123237431 ATTTTAAA
1 ATTTTAAA
123237439 ATTTTAAA
1 ATTTTAAA
123237447 ATTTT
1 ATTTT
123237452 TTATCCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTTTAAA
Found at i:123240626 original size:16 final size:16
Alignment explanation
Indices: 123240605--123240650 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
123240595 TTTTTTCCCA
123240605 AAGGGTTTAGGGTTTT
1 AAGGGTTTAGGGTTTT
**
123240621 AAGGGTTTAAAGTTTT
1 AAGGGTTTAGGGTTTT
* *
123240637 TAGAGTTTAGGGTT
1 AAGGGTTTAGGGTT
123240651 GAAATTCAGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (16 bp):
AAGGGTTTAGGGTTTT
Found at i:123244590 original size:63 final size:63
Alignment explanation
Indices: 123244516--123244695 Score: 220
Period size: 63 Copynumber: 2.9 Consensus size: 63
123244506 AAATATACCT
* * * *
123244516 GCAGAATGTGTTGATACAGGGTATGATGGTGTATAGTATGGTGCTTATGTAAAAATAAAAG-G
1 GCAGAAGGTGTTGATGCAGGGTATGATGGTGCATAGTGTGGTGCTTATGTAAAAATAAAAGAG
* * * * *
123244578 TGCGGAAGGTGTTGATGCAAGTTA-CAGTGGTGCATTGTGTGGTGCTTATGTAAAAATAAAAGAG
1 -GCAGAAGGTGTTGATGCAGGGTATGA-TGGTGCATAGTGTGGTGCTTATGTAAAAATAAAAGAG
* * *
123244642 GCAGAATGTGTTGATGCAGGGTATGATGGTGCAGAGTGTGGTGCTTGTGTAAAA
1 GCAGAAGGTGTTGATGCAGGGTATGATGGTGCATAGTGTGGTGCTTATGTAAAA
123244696 TTAACGAGGT
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
62 1 0.01
63 94 0.97
64 2 0.02
ACGTcount: A:0.29, C:0.07, G:0.34, T:0.30
Consensus pattern (63 bp):
GCAGAAGGTGTTGATGCAGGGTATGATGGTGCATAGTGTGGTGCTTATGTAAAAATAAAAGAG
Found at i:123248243 original size:30 final size:29
Alignment explanation
Indices: 123248202--123248266 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
123248192 CTTTAAAAAC
*
123248202 TAAAAACTAAAAAATTACCAAAATTATTTT
1 TAAAAACT-AAAAATCACCAAAATTATTTT
* **
123248232 TAAAAATTAAAAATCATTAAAATTATTTT
1 TAAAAACTAAAAATCACCAAAATTATTTT
123248261 TAAAAA
1 TAAAAA
123248267 AATATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (29 bp):
TAAAAACTAAAAATCACCAAAATTATTTT
Found at i:123248266 original size:23 final size:23
Alignment explanation
Indices: 123248240--123248288 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
123248230 TTTAAAAATT
* *
123248240 AAAAATCATTAAAATTATTTTTAA
1 AAAAAT-ATAAAAAATATTTTTAA
123248264 AAAAATATAAAAAATATTTTTAA
1 AAAAATATAAAAAATATTTTTAA
123248287 AA
1 AA
123248289 TTCAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAAATATAAAAAATATTTTTAA
Found at i:123254807 original size:4 final size:5
Alignment explanation
Indices: 123254782--123254810 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
123254772 AATTGCGAAA
123254782 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
123254811 GAAGAACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:123261037 original size:26 final size:26
Alignment explanation
Indices: 123261006--123261057 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
123260996 ATGCGCGAAC
123261006 TTCCAAACCCCATGCTGCTTTACTTT
1 TTCCAAACCCCATGCTGCTTTACTTT
* *
123261032 TTCCAAACCCTATGCTGTTTTACTTT
1 TTCCAAACCCCATGCTGCTTTACTTT
123261058 ATTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.08, T:0.42
Consensus pattern (26 bp):
TTCCAAACCCCATGCTGCTTTACTTT
Found at i:123262232 original size:177 final size:176
Alignment explanation
Indices: 123261945--123262542 Score: 815
Period size: 177 Copynumber: 3.4 Consensus size: 176
123261935 AACTTACTCT
* * * * *
123261945 ACTGCAACTTCAGAGAGATATGGTTGATGACTAAAATCTGCTCCATAGCCGATACATAGAAATAA
1 ACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACAT-GAGATAA
** ** * * *
123262010 GA-TCTGTTATTTTTTATTTGCTCCATAGCCGATACGTGAAGATAAGATCTGTAATTTTCAGTCT
65 GACTC-GCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCT
*
123262074 ACTTCCTGCAACTCCAAGAAGATAAGACTTGCATATTGAGCCTGCTCC
129 ACTTCCTGCAACTTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCC
* * *
123262122 ACTGTAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCTGATACATGTTGATAA
1 ACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATG-AGATAA
* *
123262187 GACTCGCCATTTTCGATCTGCCCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCAGTCTA
65 GACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTA
* * * * *
123262252 CTTCCTGCAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTC
130 CTTCCTGCAACTTCAAGAAGATAAGACTTGCATATTGAGCCTGCTC-C
* * * * *
123262300 -TTGCTACCTCAGAGAGATAAGACTGGTGGCTAAAATCTGTTCCATAGCCGATACATGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACAT-GAGATAA
*
123262364 GACTTGCCA-TTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCT
65 GACTCGCCATTTTC-GATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCT
* *
123262428 GCTTCCTGCAACTTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCT
129 ACTTCCTGCAACTTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCC
* *
123262476 ACTACAACTTCAGAGAGATAAGCCTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAA
1 ACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACAT-GAGATAA
123262541 GA
65 GA
123262543 TCTGTAATTT
Statistics
Matches: 367, Mismatches: 48, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
176 5 0.01
177 358 0.98
178 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (176 bp):
ACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGAGATAAG
ACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTAC
TTCCTGCAACTTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCC
Found at i:123262361 original size:44 final size:43
Alignment explanation
Indices: 123262313--123262410 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 43
123262303 CTACCTCAGA
* *
123262313 GAGATAAGACTGGTGGC-TAAAATCTGTTCCATAGCCGATACATG
1 GAGATAAGACT--TGCCTTAAAATCTGCTCCATAGCCGATACATG
***
123262357 GAGATAAGACTTGCCATTTCTGATCTGCTCCATAGCCGATACATG
1 GAGATAAGACTTGCC--TTAAAATCTGCTCCATAGCCGATACATG
123262402 GAGATAAGA
1 GAGATAAGA
123262411 TCTGTAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.07
44 11 0.24
45 32 0.70
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (43 bp):
GAGATAAGACTTGCCTTAAAATCTGCTCCATAGCCGATACATG
Found at i:123262538 original size:132 final size:132
Alignment explanation
Indices: 123262379--123262670 Score: 502
Period size: 132 Copynumber: 2.2 Consensus size: 132
123262369 GCCATTTCTG
123262379 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
* *
123262444 AGAAGATAAGACTTGCATATTGAGCCTGCTCTACTACAACTTCAGAGAGATAAGCCTGGTGGCTA
66 AGAAGATAAGACTTGCATATTGAGCCTGCTCCACTACAACTTCAAAGAGATAAGCCTGGTGGCTA
123262509 AA
131 AA
*
123262511 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
* *
123262576 AGAAGATAAGACTTGCATATTGAGCCTGCTCCACTGCAACTTCAAAGAGATAAGGCTGGTGGCTA
66 AGAAGATAAGACTTGCATATTGAGCCTGCTCCACTACAACTTCAAAGAGATAAGCCTGGTGGCTA
123262641 AA
131 AA
*
123262643 AT-T--TGC-TAGCCGATACATGGAGATAAGA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA
123262671 CTCGCCATTT
Statistics
Matches: 153, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
128 21 0.14
129 2 0.01
131 1 0.01
132 129 0.84
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (132 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
AGAAGATAAGACTTGCATATTGAGCCTGCTCCACTACAACTTCAAAGAGATAAGCCTGGTGGCTA
AA
Found at i:123262613 original size:44 final size:45
Alignment explanation
Indices: 123262433--123262629 Score: 121
Period size: 44 Copynumber: 4.5 Consensus size: 45
123262423 AGTCTGCTTC
*
123262433 CTGCAACTTCAAGAAGATAAGACT-TGCATATTGAGCCTGCTCTA
1 CTGCAACTTCAAGAAGATAAGACTGTGCATATTGAGCCTGCTCCA
* * * **
123262477 CTACAACTTC-AGAGAGATAAGCCTGGTGGC-TA--AAATCTGCTCCA
1 CTGCAACTTCAAGA-AGATAAGACT-GT-GCATATTGAGCCTGCTCCA
* * * * * * *
123262521 -TAGCCGA-TACATAG-AGATAAGATCTGT-AATTTTCAGTCTGCTTC-
1 CT-G-CAACTTCA-AGAAGATAAGA-CTGTGCATATTGAGCCTGCTCCA
123262565 CTGCAACTTCAAGAAGATAAGACT-TGCATATTGAGCCTGCTCCA
1 CTGCAACTTCAAGAAGATAAGACTGTGCATATTGAGCCTGCTCCA
123262609 CTGCAACTTCAA-AGAGATAAG
1 CTGCAACTTCAAGA-AGATAAG
123262630 GCTGGTGGCT
Statistics
Matches: 113, Mismatches: 22, Indels: 36
0.66 0.13 0.21
Matches are distributed among these distances:
42 1 0.01
43 24 0.21
44 68 0.60
45 13 0.12
46 5 0.04
47 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (45 bp):
CTGCAACTTCAAGAAGATAAGACTGTGCATATTGAGCCTGCTCCA
Found at i:123264972 original size:28 final size:28
Alignment explanation
Indices: 123264932--123264988 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
123264922 GACATAGTCA
*
123264932 CTGGCTAGCCTTCTCAACGTTCTTTTAT
1 CTGGCTAGCCTTCTCAACATTCTTTTAT
123264960 CTGGCTAGCCTTCTCAACATTCTTTTAT
1 CTGGCTAGCCTTCTCAACATTCTTTTAT
123264988 C
1 C
123264989 ATTTTCTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (28 bp):
CTGGCTAGCCTTCTCAACATTCTTTTAT
Found at i:123265992 original size:16 final size:15
Alignment explanation
Indices: 123265967--123266014 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
123265957 CTATTTTAAG
123265967 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
123265982 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
123265999 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
123266014 T
1 T
123266015 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:123275586 original size:11 final size:11
Alignment explanation
Indices: 123275570--123275595 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
123275560 AACACCCCAT
123275570 AAAAAAAGAAA
1 AAAAAAAGAAA
123275581 AAAAAAAGAAA
1 AAAAAAAGAAA
123275592 AAAA
1 AAAA
123275596 GAAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:123276247 original size:16 final size:15
Alignment explanation
Indices: 123276222--123276269 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
123276212 CTATTTTAAG
123276222 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
123276237 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
123276254 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
123276269 T
1 T
123276270 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:123277189 original size:7 final size:7
Alignment explanation
Indices: 123277177--123277208 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
123277167 TTATTTCATC
123277177 TTTTACT
1 TTTTACT
123277184 TTTTACT
1 TTTTACT
123277191 TTTTACT
1 TTTTACT
123277198 TTTTACGT
1 TTTTAC-T
123277206 TTT
1 TTT
123277209 CTTGTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.72
Consensus pattern (7 bp):
TTTTACT
Found at i:123283637 original size:93 final size:93
Alignment explanation
Indices: 123283525--123283696 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
123283515 GCCCATAAGT
* *
123283525 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
123283590 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
123283618 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
123283683 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
123283697 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:123283692 original size:46 final size:46
Alignment explanation
Indices: 123283517--123283692 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
123283507 TGTAACCCGC
* * *
123283517 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
123283563 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
123283613 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
123283656 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
123283693 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:123288720 original size:154 final size:154
Alignment explanation
Indices: 123288440--123288743 Score: 500
Period size: 154 Copynumber: 2.0 Consensus size: 154
123288430 AAAATGTTAA
* * *
123288440 AATACGATCCCCTTAAAAATGCGTAAACAACTCGAGTTGGATTTTAAGATTCACTTGTTCCAAAG
1 AATACGATCCCCTTAAAAATGCGTAAACAACTCGAGTCGGATTTCAAGATTCACTCGTTCCAAAG
* * *
123288505 GAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAAGCCTTCAAAAACTGAGATCGCC
66 AAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAAGCCTCCAAAAACTGAGATCACC
123288570 TCAAGATTTCCAAAATATGCGATG
131 TCAAGATTTCCAAAATATGCGATG
* * *
123288594 AATACGATCCCCTTAAAAATGTGTGAACAACTTGAGTCGGATTTCAAGATTCACTCGTTCCAAAG
1 AATACGATCCCCTTAAAAATGCGTAAACAACTCGAGTCGGATTTCAAGATTCACTCGTTCCAAAG
* * *
123288659 AAATAAAATACCACATCCATCTCGTTAGGACACGATATTTTAAGCCTCCAAAAACTGAGATCATC
66 AAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAAGCCTCCAAAAACTGAGATCACC
123288724 TCAAGATTTCCAAAATATGC
131 TCAAGATTTCCAAAATATGC
123288744 AACAAAATTT
Statistics
Matches: 138, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
154 138 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (154 bp):
AATACGATCCCCTTAAAAATGCGTAAACAACTCGAGTCGGATTTCAAGATTCACTCGTTCCAAAG
AAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAAGCCTCCAAAAACTGAGATCACC
TCAAGATTTCCAAAATATGCGATG
Found at i:123293866 original size:16 final size:16
Alignment explanation
Indices: 123293795--123293866 Score: 101
Period size: 16 Copynumber: 4.6 Consensus size: 16
123293785 ACAACTGAAT
*
123293795 TATT-CATTACAGGTC
1 TATTCCATTACAGCTC
*
123293810 TATTCTATTACAGCTC
1 TATTCCATTACAGCTC
*
123293826 TATTCCATTACAACTC
1 TATTCCATTACAGCTC
*
123293842 TATTACATTACAGCTC
1 TATTCCATTACAGCTC
123293858 TATTCCATT
1 TATTCCATT
123293867 CCTCCCAACC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 4 0.08
16 45 0.92
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (16 bp):
TATTCCATTACAGCTC
Found at i:123294122 original size:13 final size:13
Alignment explanation
Indices: 123294088--123294123 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
123294078 AAAAAAAATA
*
123294088 AAAAAAGAAAAAG
1 AAAAAAGCAAAAG
123294101 AAAAAAGCAAAAG
1 AAAAAAGCAAAAG
*
123294114 AAAATAGCAA
1 AAAAAAGCAA
123294124 TAAATAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAAAAGCAAAAG
Found at i:123308620 original size:31 final size:31
Alignment explanation
Indices: 123308585--123308645 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
123308575 GCTTAGTAAC
* *
123308585 TTAAATAAAAACTTTTGAATAA-TTCAATGAT
1 TTAAATAAAAACATTCGAATAACTT-AATGAT
*
123308616 TTAAATGAAAACATTCGAATAACTTAATGA
1 TTAAATAAAAACATTCGAATAACTTAATGA
123308646 CCAAATTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (31 bp):
TTAAATAAAAACATTCGAATAACTTAATGAT
Found at i:123309305 original size:60 final size:60
Alignment explanation
Indices: 123309154--123309284 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 60
123309144 CTAATGGTGG
** *
123309154 CCAAAAAAG-ACAAAATTGAATAGTTTG-GTGACCATTTTGTAACTTTCCATAGTTGAGTGA
1 CCAAAAAAGAAC-AAATCAAATAG-TTGAGTGACCATATTGTAACTTTCCATAGTTGAGTGA
* * **
123309214 CCAAAAAAGAACAAATCAAATAATTAAGTGACCATATTGTAACTTTTGATAGTT-AGGTGA
1 CCAAAAAAGAACAAATCAAATAGTTGAGTGACCATATTGTAACTTTCCATAGTTGA-GTGA
*
123309274 TCAAAAAAGAA
1 CCAAAAAAGAA
123309285 ATTTACTAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 3 0.05
60 55 0.92
61 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (60 bp):
CCAAAAAAGAACAAATCAAATAGTTGAGTGACCATATTGTAACTTTCCATAGTTGAGTGA
Found at i:123310561 original size:15 final size:15
Alignment explanation
Indices: 123310510--123310562 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
123310500 TAAAATATAT
123310510 ATTTATATTATTTTTA
1 ATTTATA-TATTTTTA
*
123310526 ATTTA-ATATTTAATA
1 ATTTATATATTT-TTA
*
123310541 ATTTTATATATTTTTT
1 A-TTTATATATTTTTA
123310557 ATTTAT
1 ATTTAT
123310563 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 9 0.29
16 11 0.35
17 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTATATATTTTTA
Found at i:123313987 original size:2 final size:2
Alignment explanation
Indices: 123313980--123314010 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
123313970 GATGGTTTTA
123313980 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
123314011 AAAGTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:123321863 original size:21 final size:21
Alignment explanation
Indices: 123321816--123321872 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
123321806 TTAAGTTTGG
*
123321816 TTTATTTCAAT-TGAGTTTTTCT
1 TTTATTTCAATAT--GTGTTTCT
*
123321838 ATTATTTCAATATGTGTTTCT
1 TTTATTTCAATATGTGTTTCT
123321859 TTTATTTCAATATG
1 TTTATTTCAATATG
123321873 ATCAATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.65
22 10 0.32
23 1 0.03
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTATTTCAATATGTGTTTCT
Found at i:123321932 original size:2 final size:2
Alignment explanation
Indices: 123321925--123321963 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
123321915 TAATTTAGTT
123321925 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
123321964 TATTGCGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:123325816 original size:2 final size:2
Alignment explanation
Indices: 123325809--123325843 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
123325799 TCATTTTCAT
123325809 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
123325844 GTTGAACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:123341732 original size:15 final size:17
Alignment explanation
Indices: 123341702--123341733 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
123341692 TCAAAATAAA
123341702 CAAAAACCATAAACAAC
1 CAAAAACCATAAACAAC
123341719 CAAAAA-CA-AAACAAC
1 CAAAAACCATAAACAAC
123341734 AAATCAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.69, C:0.28, G:0.00, T:0.03
Consensus pattern (17 bp):
CAAAAACCATAAACAAC
Found at i:123344025 original size:20 final size:20
Alignment explanation
Indices: 123344000--123344045 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
123343990 ACTTCATCAT
* * *
123344000 TATTCTTCTCTTTTTTCTAA
1 TATTCTTCACTTCTTACTAA
123344020 TATTCTTCACTTCTTACTAA
1 TATTCTTCACTTCTTACTAA
123344040 T-TTCTT
1 TATTCTT
123344046 GTTTCTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTCTTCACTTCTTACTAA
Found at i:123352170 original size:24 final size:24
Alignment explanation
Indices: 123352129--123352175 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
123352119 TGCATTTCTT
*
123352129 GGGTAAATTTGGAGAAATAAGAGA
1 GGGTAAATGTGGAGAAATAAGAGA
123352153 GGGTAAAATGTGGA-AAATAAGAG
1 GGGT-AAATGTGGAGAAATAAGAG
123352176 GTTAAGGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.19
Consensus pattern (24 bp):
GGGTAAATGTGGAGAAATAAGAGA
Found at i:123352568 original size:17 final size:16
Alignment explanation
Indices: 123352536--123352569 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
123352526 GATGCATTTG
123352536 AAATTTAAAATATATA
1 AAATTTAAAATATATA
*
123352552 AAATTTATAAATTTATA
1 AAATTTA-AAATATATA
123352569 A
1 A
123352570 TAAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTAAAATATATA
Found at i:123353353 original size:9 final size:9
Alignment explanation
Indices: 123353322--123353381 Score: 56
Period size: 9 Copynumber: 7.0 Consensus size: 9
123353312 TTTAATATTT
123353322 TTTTAAA-A
1 TTTTAAATA
*
123353330 TTTTATATAA
1 TTTTAAAT-A
123353340 TTTTAAATA
1 TTTTAAATA
123353349 TTTT--ATA
1 TTTTAAATA
*
123353356 TTTTATATA
1 TTTTAAATA
123353365 TTTTAAAT-
1 TTTTAAATA
*
123353373 TTTAAAATA
1 TTTTAAATA
123353382 ATAATATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
7 7 0.16
8 13 0.30
9 15 0.35
10 8 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTAAATA
Found at i:123353360 original size:16 final size:16
Alignment explanation
Indices: 123353338--123353378 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
123353328 AATTTTATAT
123353338 AATTTTAAATATTTTA
1 AATTTTAAATATTTTA
* *
123353354 TATTTTATATATTTTA
1 AATTTTAAATATTTTA
123353370 AATTTTAAA
1 AATTTTAAA
123353379 ATAATAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTAAATATTTTA
Found at i:123353801 original size:26 final size:26
Alignment explanation
Indices: 123353738--123353898 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
123353728 TGGTACAAAT
*
123353738 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
123353763 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
123353789 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
123353815 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
123353841 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
123353867 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
123353893 TGATAA
1 TGATAA
123353899 GAATATCATG
Statistics
Matches: 126, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
25 19 0.15
26 107 0.85
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:123355923 original size:136 final size:136
Alignment explanation
Indices: 123355679--123356099 Score: 772
Period size: 136 Copynumber: 3.1 Consensus size: 136
123355669 GAGTAGTCTC
123355679 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
123355744 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
123355809 CTGTTA
131 CTGTTA
*
123355815 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
123355880 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
*
123355945 ATGTTA
131 CTGTTA
*
123355951 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCTTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
123356016 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCT-GTACC
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCT-GCCCTAGTACC
123356080 ACTGTTA
130 ACTGTTA
**
123356087 CCTGAATGGGCTT
1 CCCAAATGGGCTT
123356100 AGGCCCAATA
Statistics
Matches: 275, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
136 271 0.99
137 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGCCCTAGTACCA
CTGTTA
Found at i:123356956 original size:18 final size:19
Alignment explanation
Indices: 123356924--123356966 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
123356914 TCTCTATGTG
*
123356924 TTAAAAAATTATATA-TTT
1 TTAAAAAATTATATACATT
123356942 TTAAAAAATGT-TATACATT
1 TTAAAAAAT-TATATACATT
123356961 TTAAAA
1 TTAAAA
123356967 TATTTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TTAAAAAATTATATACATT
Found at i:123359807 original size:19 final size:19
Alignment explanation
Indices: 123359785--123359826 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
123359775 TAATCATACA
123359785 AAAAAATATGAAATATAGT
1 AAAAAATATGAAATATAGT
** *
123359804 AAAACTTATGAAATGTAGT
1 AAAAAATATGAAATATAGT
123359823 AAAA
1 AAAA
123359827 CTACTTTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.26
Consensus pattern (19 bp):
AAAAAATATGAAATATAGT
Found at i:123359827 original size:19 final size:19
Alignment explanation
Indices: 123359791--123359828 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
123359781 TACAAAAAAA
123359791 TATGAAATATAGTAAAACT
1 TATGAAATATAGTAAAACT
*
123359810 TATGAAATGTAGTAAAACT
1 TATGAAATATAGTAAAACT
123359829 ACTTTAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (19 bp):
TATGAAATATAGTAAAACT
Found at i:123359900 original size:12 final size:12
Alignment explanation
Indices: 123359883--123359937 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
123359873 CATAGTATAT
123359883 AACTATTACTAA
1 AACTATTACTAA
*
123359895 AACTATTGCT-A
1 AACTATTACTAA
* *
123359906 CA-TA-TA-TAT
1 AACTATTACTAA
123359915 AACTATTACTAA
1 AACTATTACTAA
123359927 AACTATTACTA
1 AACTATTACTA
123359938 CGTATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
8 1 0.03
9 2 0.06
10 4 0.12
11 4 0.12
12 22 0.67
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (12 bp):
AACTATTACTAA
Found at i:123359916 original size:32 final size:32
Alignment explanation
Indices: 123359873--123359953 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 32
123359863 AATCCCTCCC
*
123359873 CATAGTATATAACTATTACTAAAACTATTGCTA
1 CATA-TATATAACTATTACTAAAACTATTACTA
123359906 CATATATATAACTATTACTAAAACTATTACTA
1 CATATATATAACTATTACTAAAACTATTACTA
*
123359938 CGTATATATAACTATT
1 CATATATATAACTATT
123359954 GTTATATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 42 0.91
33 4 0.09
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (32 bp):
CATATATATAACTATTACTAAAACTATTACTA
Found at i:123360055 original size:5 final size:5
Alignment explanation
Indices: 123360047--123360075 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
123360037 AGTATATTAT
123360047 ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATAT
123360076 AGCATTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:123361237 original size:2 final size:2
Alignment explanation
Indices: 123361230--123361258 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
123361220 GTATTGAGTT
123361230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
123361259 TGAAATTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:123365705 original size:46 final size:45
Alignment explanation
Indices: 123365645--123365946 Score: 339
Period size: 46 Copynumber: 7.0 Consensus size: 45
123365635 TTTGACATGA
* * * * * *
123365645 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** **
123365691 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
123365737 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
123365783 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TAT-A---
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
*
123365823 T--CA--GTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
123365865 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
123365903 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
123365947 AGAGCACACT
Statistics
Matches: 223, Mismatches: 14, Indels: 38
0.81 0.05 0.14
Matches are distributed among these distances:
36 26 0.12
37 3 0.01
38 39 0.17
39 1 0.00
40 4 0.02
42 1 0.00
43 2 0.01
44 8 0.04
45 4 0.02
46 135 0.61
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:123365837 original size:36 final size:36
Alignment explanation
Indices: 123365790--123365862 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
123365780 GGTTGCCATG
123365790 GTATCTTTCAACCATGGTCTTACACATTTTATATCA
1 GTATCTTTCAACCATGGTCTTACACATTTTATATCA
123365826 GTATCTTTCAACCATGGTCTTACACATTTTATATCA
1 GTATCTTTCAACCATGGTCTTACACATTTTATATCA
123365862 G
1 G
123365863 GTTGCCATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (36 bp):
GTATCTTTCAACCATGGTCTTACACATTTTATATCA
Found at i:123365842 original size:82 final size:83
Alignment explanation
Indices: 123365744--123365946 Score: 320
Period size: 82 Copynumber: 2.4 Consensus size: 83
123365734 CATTGCCATG
123365744 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
* * *
123365809 TTACA-CA-TTTTATATCA
66 TTACACCAGGTTGACAT-A
*
123365826 GTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
* *
123365891 TTACACTCAGGTTGCCATG
66 TTACAC-CAGGTTGACATA
123365910 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
123365947 AGAGCACACT
Statistics
Matches: 111, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
82 69 0.62
84 38 0.34
85 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (83 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
TTACACCAGGTTGACATA
Found at i:123365910 original size:38 final size:38
Alignment explanation
Indices: 123365859--123365934 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
123365849 ACATTTTATA
123365859 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
123365897 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
123365935 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:123368095 original size:11 final size:11
Alignment explanation
Indices: 123368079--123368130 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
123368069 TATACTAAAT
123368079 AAATAATAATA
1 AAATAATAATA
*
123368090 AAATAAT-ATT
1 AAATAATAATA
* *
123368100 AAATATCTCATA
1 AAATA-ATAATA
*
123368112 AAATATTAATA
1 AAATAATAATA
123368123 AAATAATA
1 AAATAATA
123368131 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:123369814 original size:48 final size:48
Alignment explanation
Indices: 123369590--123369979 Score: 426
Period size: 48 Copynumber: 8.2 Consensus size: 48
123369580 GACCATGGCA
*
123369590 ATATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAG
1 ATATGTGATATGTGA--TCCGTGTAAGACCATAGCTGGGCTATGGCATC---G
* * * * *
123369643 AGATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCG
1 ATATGTGA-TATGTG-ATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* * * * * *
123369693 --ATGTGATATATGCTACTGTATAAGACCATATCTGGGATATGGCATC-
1 ATATGTGATATGTGAT-CCGTGTAAGACCATAGCTGGGCTATGGCATCG
* * *
123369739 A-GTGAGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* *
123369786 ATATGTGATATGTGATCCGTGTAAGACCATAACTGGGTTATGGCATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
123369834 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* *
123369882 ATATGTGATATGTGATTACGTGTAAGACCATAGCT-GGCTATGGCATCA
1 ATATGTGATATGTGA-TCCGTGTAAGACCATAGCTGGGCTATGGCATCG
*
123369930 ATATGTGA-A--T-AT--GTGTAAGACCATAGCTGGGCTATGTCATC-
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
123369971 ATTATGTGA
1 A-TATGTGA
123369980 AGATGTGTAA
Statistics
Matches: 302, Mismatches: 26, Indels: 29
0.85 0.07 0.08
Matches are distributed among these distances:
41 17 0.06
42 18 0.06
43 1 0.00
44 1 0.00
45 1 0.00
46 27 0.09
47 47 0.16
48 128 0.42
49 18 0.06
50 1 0.00
53 37 0.12
54 6 0.02
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
Found at i:123369977 original size:42 final size:41
Alignment explanation
Indices: 123369889--123370012 Score: 167
Period size: 42 Copynumber: 3.0 Consensus size: 41
123369879 TCGATATGTG
* *
123369889 ATATGTGATTACGTGTAAGACCATAGCTGGCTATGGCATCA
1 ATATGTGAATATGTGTAAGACCATAGCTGGCTATGGCATCA
*
123369930 ATATGTGAATATGTGTAAGACCATAGCTGGGCTATGTCATCA
1 ATATGTGAATATGTGTAAGACCATAGCT-GGCTATGGCATCA
* * * *
123369972 TTATGTGAAGATGTGTAAGACCATAGTTGAACTATGGCATC
1 ATATGTGAATATGTGTAAGACCATAGCTG-GCTATGGCATC
123370013 CAAAAAACGA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
41 27 0.37
42 46 0.63
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (41 bp):
ATATGTGAATATGTGTAAGACCATAGCTGGCTATGGCATCA
Found at i:123376828 original size:32 final size:32
Alignment explanation
Indices: 123376751--123376830 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
123376741 AGTGTGTTGC
* * * * *
123376751 CGTGTGGGTCACATGGCCTAGGCTAATTTTAG
1 CGTGTGGGACACACGGCCTAGGCCAATTTGAA
* *
123376783 CGTGTGGAACACACGTCCTAGGCCAATTTGAA
1 CGTGTGGGACACACGGCCTAGGCCAATTTGAA
*
123376815 CGTGTGGGCCACACGG
1 CGTGTGGGACACACGG
123376831 ATATGTGGGC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (32 bp):
CGTGTGGGACACACGGCCTAGGCCAATTTGAA
Found at i:123383575 original size:25 final size:25
Alignment explanation
Indices: 123383535--123383630 Score: 108
Period size: 25 Copynumber: 3.8 Consensus size: 25
123383525 AACTCGAGAT
123383535 TTCTCTAAAAAGCCTTTG-GAGTGAA
1 TTCTCTAAAAAGCCTTTGTG-GTGAA
*
123383560 TTCTCTAGAAAA-CCTTTGTGGCGAA
1 TTCTCTA-AAAAGCCTTTGTGGTGAA
*
123383585 TTCACTAAAAAGCCTTTGTGGTGAA
1 TTCTCTAAAAAGCCTTTGTGGTGAA
* *
123383610 TTCTTTAGAAAA-CCCTTGTGG
1 TTCTCTA-AAAAGCCTTTGTGG
123383631 CATTGACCGC
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
24 4 0.07
25 48 0.79
26 9 0.15
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (25 bp):
TTCTCTAAAAAGCCTTTGTGGTGAA
Found at i:123383900 original size:18 final size:18
Alignment explanation
Indices: 123383877--123383927 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
123383867 GATCTAAACT
123383877 AATAATAATAATAAAAGA
1 AATAATAATAATAAAAGA
* *
123383895 AATAATTA-AATCAAGAGA
1 AATAATAATAAT-AAAAGA
*
123383913 AATTA-AATAATAAAA
1 AATAATAATAATAAAA
123383928 TATATCAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.24
Consensus pattern (18 bp):
AATAATAATAATAAAAGA
Found at i:123386180 original size:18 final size:18
Alignment explanation
Indices: 123386154--123386326 Score: 120
Period size: 18 Copynumber: 9.6 Consensus size: 18
123386144 AATTGATCGG
*
123386154 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
123386172 TTATGCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAA
* * *
123386189 GTATTCAGTAACAATTAA
1 TTATTCAGTAACAGTCAA
123386207 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAGTCAA
* * * *
123386225 TTCATTCAGTGATAATCAG
1 TT-ATTCAGTAACAGTCAA
*
123386244 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
123386262 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
123386280 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
* * *
123386299 -TATCCAATAACAGTTAA
1 TTATTCAGTAACAGTCAA
123386316 TTATTCAGTAA
1 TTATTCAGTAA
123386327 TAATTAGTTA
Statistics
Matches: 118, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
17 17 0.14
18 85 0.72
19 16 0.14
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:123386217 original size:54 final size:54
Alignment explanation
Indices: 123386153--123386290 Score: 154
Period size: 54 Copynumber: 2.6 Consensus size: 54
123386143 CAATTGATCG
* * *
123386153 GTTATCCAGTAACAGTCAATTATGCAGTAAAATCAGGTATTCAGTAACAATTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAAAATCAGGTATTCAGTAACAATCAA
* * **
123386207 GTTATTCAGTAACAGTC-ATTCATTCAGTGATAATCAGTTATTCAGTAATGATCAA
1 GTTATTCAGTAACAGTCAATT-ATTCAGT-AAAATCAGGTATTCAGTAACAATCAA
* * *
123386262 -TTATTCAGTAATATTCAGTTATTCAGTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAA
123386291 CAGTCTAATA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
53 4 0.06
54 43 0.61
55 23 0.33
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (54 bp):
GTTATTCAGTAACAGTCAATTATTCAGTAAAATCAGGTATTCAGTAACAATCAA
Found at i:123386452 original size:6 final size:6
Alignment explanation
Indices: 123386443--123386473 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
123386433 CCGAAGCCGG
*
123386443 AACAGT AACAGT AACAGT AACAGT AGCAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
123386474 CGGTACACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:123388201 original size:22 final size:22
Alignment explanation
Indices: 123388176--123388226 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
123388166 TTTCATTCTG
*
123388176 TTTCTTTTCTATCTCTTTTTTT
1 TTTCTTTTCTATCTCTTTTGTT
* * *
123388198 TTTCATTTCTTTTTCTTTTGTT
1 TTTCTTTTCTATCTCTTTTGTT
*
123388220 TTACTTT
1 TTTCTTT
123388227 ATATATAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTCTTTTCTATCTCTTTTGTT
Found at i:123388208 original size:16 final size:16
Alignment explanation
Indices: 123388166--123388216 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
123388156 CTCTGTTTCG
* *
123388166 TTTCA-TTCTGTTTCT
1 TTTCATTTCTTTTTTT
*
123388181 TTTCTATCTCTTTTTTT
1 TTTC-ATTTCTTTTTTT
123388198 TTTCATTTCTTTTTCTT
1 TTTCATTTCTTTTT-TT
123388215 TT
1 TT
123388217 GTTTTACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 10 0.34
17 15 0.52
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTCATTTCTTTTTTT
Found at i:123388360 original size:31 final size:32
Alignment explanation
Indices: 123388325--123388387 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
123388315 TAATTTAACA
123388325 TATTT-ATTACATAAA-A-ATTTTATAATATAAT
1 TATTTAATTA-ATAAATATATTTTATAA-ATAAT
*
123388356 TATTTAATTAATAAATATCTTTTATAAATAAT
1 TATTTAATTAATAAATATATTTTATAAATAAT
123388388 AAATATCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 10 0.36
32 10 0.36
33 8 0.29
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TATTTAATTAATAAATATATTTTATAAATAAT
Found at i:123391083 original size:18 final size:18
Alignment explanation
Indices: 123391043--123391083 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
123391033 ACTAGAAACC
*
123391043 CAAAATAAATAATAATAA
1 CAAAATAAATAACAATAA
123391061 CAAAATAAATAAACAATAA
1 CAAAATAAAT-AACAATAA
123391080 -AAAA
1 CAAAA
123391084 CCACATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (18 bp):
CAAAATAAATAACAATAA
Found at i:123394126 original size:131 final size:133
Alignment explanation
Indices: 123393984--123394265 Score: 331
Period size: 132 Copynumber: 2.2 Consensus size: 133
123393974 ATCGAATGTC
* ** * *
123393984 CCTTTAG-AATTTCACTCGTGTTTCCTAAAAACTCTTTGAAATGAAGG-AAGTGTTCGATGTTTG
1 CCTTTAGAAATTTCACTCATGTTTCCTAAAAACTCTTCAAAACGAAGGTAA-TATTCGATGTTTG
* ** ** *
123394047 GCGACTC-GAGAATCGTGCCCTATCGTGCTAGGTTGCGCTTTTTTATTTGTTCAAAACAATCGAA
65 GCAACTCGGAGAATCGTGCCCTATCGTGCTAGGTTGCAATTTCCTATTTGTCCAAAACAATCGAA
123394111 GATT
130 GATT
* * *
123394115 CC-TTCGAAATTTCACTCATGTTTTCTAAAAACTCTTCAAAACGAGGGTAATATTCGATGTTTGG
1 CCTTTAGAAATTTCACTCATGTTTCCTAAAAACTCTTCAAAACGAAGGTAATATTCGATGTTTGG
* * * * * **
123394179 CAATTCGGGGAATCGTGCCCTATTGTGCTGGGTTGCAATTTCCTGTTTGTCCAAAATGATCGAAG
66 CAACTCGGAGAATCGTGCCCTATCGTGCTAGGTTGCAATTTCCTATTTGTCCAAAACAATCGAAG
123394244 ATT
131 ATT
123394247 CCTTTAGAAA-TTCACTCAT
1 CCTTTAGAAATTTCACTCAT
123394266 ACTCTCTAAA
Statistics
Matches: 125, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
130 3 0.02
131 53 0.42
132 63 0.50
133 6 0.05
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (133 bp):
CCTTTAGAAATTTCACTCATGTTTCCTAAAAACTCTTCAAAACGAAGGTAATATTCGATGTTTGG
CAACTCGGAGAATCGTGCCCTATCGTGCTAGGTTGCAATTTCCTATTTGTCCAAAACAATCGAAG
ATT
Found at i:123406489 original size:44 final size:44
Alignment explanation
Indices: 123406439--123406528 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
123406429 AAGAAAATTA
*
123406439 AAATAATTTAATCCCGATAAATTTAAATGTTAGTAAATAAAGAC
1 AAATAATTTAATCCCGATAAATTTAAATGTAAGTAAATAAAGAC
123406483 AAATAATTTAATCCCGATAAATTTAAATGTAAGTAAATAAAGAC
1 AAATAATTTAATCCCGATAAATTTAAATGTAAGTAAATAAAGAC
123406527 AA
1 AA
123406529 TAAATAATGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (44 bp):
AAATAATTTAATCCCGATAAATTTAAATGTAAGTAAATAAAGAC
Found at i:123409677 original size:131 final size:131
Alignment explanation
Indices: 123409515--123409952 Score: 469
Period size: 131 Copynumber: 3.3 Consensus size: 131
123409505 GTAAAACTGA
* * * *
123409515 AACCCAGCACATCAGGGCACGATTCCTCGAATTTCTAAACATCGAGCATTGCCTT-ATTTT-TAG
1 AACCCAGCACAT-AGGGCACGATTCCCCGAATTTCCAAACATCGAGCATTACCTTCGTTTTATAG
** *
123409578 AATTTTTAAGAAACATGAGTGAAATTCTAAAGGGAATATTCGATTATTTAAAACCAACAGGAAAT
65 AATTTTTAAGAAACATGAGTGAAATTCTAAAGGGAATATTCGATTATTTTGAACAAAC-GGAAAT
123409643 TGC
129 TGC
* * *
123409646 AACCCAGCACGATAGGGCATGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAG
1 AACCCAGCAC-ATAGGGCACGATTCCCCGAATTTCCAAACATCGAGCATTACCTTCGTTTTATAG
* * * * **
123409711 AATCTTTAA-AGACATGGGTGAAATT-TCAAA-GGAATATTCGATTGTTTTGAATGAACGGGAAA
65 AATTTTTAAGAAACATGAGTGAAATTCT-AAAGGGAATATTCGATTATTTTGAACAAAC-GGAAA
*
123409773 TCGC
128 TTGC
* * *
123409777 AACCCAACACGATAGGGCACGATT-CCTGAATTTCCAAACATCGAGTATTACCTTCGTTTTATAG
1 AACCCAGCAC-ATAGGGCACGATTCCCCGAATTTCCAAACATCGAGCATTACCTTCGTTTTATAG
* * * * *
123409841 AGTTTTT-AGAAAACATGAATGAAATTCCAAAGGG-ACATTCGATTATTTTGAGCAAACGAGAAA
65 AATTTTTAAG-AAACATGAGTGAAATTCTAAAGGGAATATTCGATTATTTTGAACAAACG-GAAA
123409904 TTGC
128 TTGC
* ** * *
123409908 GACCCAGCACATTAGGGCACGATTCCATGAATTGCCAAATATCGA
1 AACCCAGCACA-TAGGGCACGATTCCCCGAATTTCCAAACATCGA
123409953 ATATCGCCTT
Statistics
Matches: 256, Mismatches: 40, Indels: 21
0.81 0.13 0.07
Matches are distributed among these distances:
129 1 0.00
130 43 0.17
131 159 0.62
132 42 0.16
133 11 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (131 bp):
AACCCAGCACATAGGGCACGATTCCCCGAATTTCCAAACATCGAGCATTACCTTCGTTTTATAGA
ATTTTTAAGAAACATGAGTGAAATTCTAAAGGGAATATTCGATTATTTTGAACAAACGGAAATTG
C
Found at i:123414934 original size:20 final size:21
Alignment explanation
Indices: 123414909--123414953 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
123414899 TGAGTTTGGG
*
123414909 TTTGAAATTG-GGATATATAA
1 TTTGAAATTGTGGACATATAA
* *
123414929 TTTGAACTTGTGGACATTTAA
1 TTTGAAATTGTGGACATATAA
123414950 TTTG
1 TTTG
123414954 GTTTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (21 bp):
TTTGAAATTGTGGACATATAA
Found at i:123429370 original size:17 final size:17
Alignment explanation
Indices: 123429348--123429381 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
123429338 AAATTTAATT
123429348 ATAAAATATAAATATTA
1 ATAAAATATAAATATTA
123429365 ATAAAATATAAATATTA
1 ATAAAATATAAATATTA
123429382 TTATAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAAATATAAATATTA
Found at i:123437967 original size:24 final size:24
Alignment explanation
Indices: 123437940--123437992 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
123437930 GATTAGATTG
* * *
123437940 ATATGAATTTTAATTATAAAATTA
1 ATATAAATATTAATTACAAAATTA
123437964 ATATAAATATTAATTACAAAA-T-
1 ATATAAATATTAATTACAAAATTA
123437986 ATATAAA
1 ATATAAA
123437993 AAAATACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 1 0.04
24 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATAAATATTAATTACAAAATTA
Found at i:123438988 original size:127 final size:125
Alignment explanation
Indices: 123438714--123439277 Score: 648
Period size: 127 Copynumber: 4.5 Consensus size: 125
123438704 AACGGTAAAC
** ** * * * * * * *
123438714 TGAAACCCAGCACGATTGGGCACGATTTATCGAATTTCCAAATACGAAACATTGCCACATTTTAA
1 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTAT
* * * * * **
123438779 ATTGAGAAAACATGGATGGAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAAAAAT
66 TTTAAGAAAGCGTGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
*
123438839 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAGA-ACGAAATATTACCTCGTTTTA
1 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAA-ACACGAAATATTGCCTCGTTTTA
*
123438903 TTTTAAGAAAGCGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAGTGAAAAAT
65 TTTTAAGAAAGCGTGGATGAAATTTC--AAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
* *
123438966 TGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTAT
1 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTAT
* * * * *
123439031 TTTAAGAAAACGCGGATGAATTTTAAAAAAAGGATATTCCATA-TTTAGTCGAATGAACAAAA
66 TTTAAGAAAGCGTGGATGAAATTT--CAAAAGGATATTCCATATTTTAGTCGAATGAA-AAAT
* * * * * *
123439093 CGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCCTTTTA
1 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACT-TCCAAACACGAAATATTGCCTCGTTTT-
* * * * *
123439158 ATTTTTTAA-AAAGCATGGACGAAATTTCCAAAGGATATTCCGTATTTTAGCCGAATGAAAAAT
64 A--TTTTAAGAAAGCGTGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
* * *
123439221 TGAAGCTCAGCACGATTGGGCACGACCTCCCAAACTTCCCAACACGAAATATTGCCT
1 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCT
123439278 TATGCTGAGA
Statistics
Matches: 373, Mismatches: 54, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
125 72 0.19
126 15 0.04
127 181 0.49
128 72 0.19
129 14 0.04
130 13 0.03
131 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (125 bp):
TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTAT
TTTAAGAAAGCGTGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
Found at i:123439219 original size:255 final size:251
Alignment explanation
Indices: 123438714--123439277 Score: 697
Period size: 255 Copynumber: 2.2 Consensus size: 251
123438704 AACGGTAAAC
* * ** * * * * *
123438714 TGAAACCCAGCACGATTGGGCACGATTTATCGAATTTCCAAATACGAAACATTGCCACATTTTAA
1 TGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATTTTAA
* * * ** **
123438779 ATTGAGAAAACATGGATGGAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAAAAATTGAAA
66 ATTAAGAAAACACGGATGGAATTTAAAAAGGATATTCCATATTTTAGTCGAATGAAAAAACGAAA
* *
123438844 CCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAGAACGAAATATTACCTCGTTTTATTTTAA
131 CCCAGCACGATTGGGCACGACCTCCCAAACTCCCAAGAACGAAATATTACCTCCTTTTATTTTAA
* * * *
123438909 GAAAGCGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAGTGAAAAAT
196 GAAAGCATGGACGAAATTTC-AAAAAGGATATTCCATATTTTAGCCGAATGAAAAAT
* *
123438966 TGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTAT
1 TGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATTTTAA
* *
123439031 TTTAAGAAAACGCGGAT-GAATTTTAAAAAAAGGATATTCCATA-TTTAGTCGAATGAACAAAAC
66 ATTAAGAAAACACGGATGGAA-TTT--AAAAAGGATATTCCATATTTTAGTCGAATGAA-AAAAC
* * *
123439094 GAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAA-ATACGAAATATTGCCTCCTTTTA
127 GAAACCCAGCACGATTGGGCACGACCTCCCAAACT-CCCAAGA-ACGAAATATTACCTCCTTTT-
* *
123439158 ATTTTTTAA-AAAGCATGGACGAAATTTC-CAAAGGATATTCCGTATTTTAGCCGAATGAAAAAT
189 A--TTTTAAGAAAGCATGGACGAAATTTCAAAAAGGATATTCCATATTTTAGCCGAATGAAAAAT
* * *
123439221 TGAAGCTCAGCACGATTGGGCACGACCTCCCAAACTTCCCAACACGAAATATTGCCT
1 TGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCT
123439278 TATGCTGAGA
Statistics
Matches: 269, Mismatches: 34, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
251 3 0.01
252 70 0.26
253 14 0.05
254 51 0.19
255 107 0.40
256 1 0.00
257 17 0.06
258 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (251 bp):
TGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATTTTAA
ATTAAGAAAACACGGATGGAATTTAAAAAGGATATTCCATATTTTAGTCGAATGAAAAAACGAAA
CCCAGCACGATTGGGCACGACCTCCCAAACTCCCAAGAACGAAATATTACCTCCTTTTATTTTAA
GAAAGCATGGACGAAATTTCAAAAAGGATATTCCATATTTTAGCCGAATGAAAAAT
Found at i:123442861 original size:45 final size:44
Alignment explanation
Indices: 123442764--123443287 Score: 356
Period size: 45 Copynumber: 11.8 Consensus size: 44
123442754 GTCGATATAT
* * *
123442764 GGAGATAAGA-TCTGTAATTTTCAGTCTGCTTC-CTGTAACTTCA
1 GGAGATAAGACT-TGTCATTTTCAGTCTGCTCCACTGCAACTTCA
* * *
123442807 GGAAGATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCA
1 GG-AGATAAGACTTGTCATTTTCAGTCTGCTCCACTGCAACTTCA
* * *
123442852 GAGAGATAAGACTTGTTATTTTC-GATCTGCTCCA-TAGTCGA-TACA
1 G-GAGATAAGACTTGTCATTTTCAG-TCTGCTCCACT-G-CAACTTCA
* * *
123442897 TGGAGATAAGA-TCTGTAATTTTCAGTTTGCTTC-CTGCAACTTCA
1 -GGAGATAAGACT-TGTCATTTTCAGTCTGCTCCACTGCAACTTCA
* * * *
123442941 GGAAGATAAGACTTGCCGTCTTCAGTCTGCTTCACTGCAACTTCA
1 GG-AGATAAGACTTGTCATTTTCAGTCTGCTCCACTGCAACTTCA
* *
123442986 GGGAGATAAGACTTGTCATTTTC-GATCTGCTCCA-TAGTCGA-TACA
1 -GGAGATAAGACTTGTCATTTTCAG-TCTGCTCCACT-G-CAACTTCA
* * *
123443031 TGGAGATAAGA-TCTGTAACTTTT-AGTCTGCTTC-CTGCATCTTCA
1 -GGAGATAAGACT-TGTCA-TTTTCAGTCTGCTCCACTGCAACTTCA
123443075 GGAAGATAAGACTTG-C-TGTCTTCAGTCTGCTCCACTGCAACTTCAA
1 GG-AGATAAGACTTGTCAT-T-TTCAGTCTGCTCCACTGCAACTTC-A
* * *
123443121 GAAGATAAGACTTGTCATTTTC-GATCTGCTCCA-TAGCCGA-TACA
1 GGAGATAAGACTTGTCATTTTCAG-TCTGCTCCACT-G-CAACTTCA
* * *
123443165 TGGAGATAAGA-TCTGTAACTTTT-AGTCTGCTTC-CTGTAACTTCA
1 -GGAGATAAGACT-TGTCA-TTTTCAGTCTGCTCCACTGCAACTTCA
* *
123443209 GGAAGATAAGACTTG-CTATCTACAGTCTGCTCCACTGCAACTTCA
1 GG-AGATAAGACTTGTC-ATTTTCAGTCTGCTCCACTGCAACTTCA
123443254 GAGAGATAAGACTTGTCATTTTC-GATCTGCTCCA
1 G-GAGATAAGACTTGTCATTTTCAG-TCTGCTCCA
123443288 TAGCCGATAC
Statistics
Matches: 378, Mismatches: 53, Indels: 98
0.71 0.10 0.19
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 16 0.04
44 108 0.29
45 224 0.59
46 27 0.07
47 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
GGAGATAAGACTTGTCATTTTCAGTCTGCTCCACTGCAACTTCA
Found at i:123442912 original size:134 final size:134
Alignment explanation
Indices: 123442746--123443474 Score: 1043
Period size: 134 Copynumber: 5.5 Consensus size: 134
123442736 GCTAAAATCC
* * *
123442746 GCTCCATAGTCGATATATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCCTGTAACTTCAGGA
1 GCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTT-AGTCTGCTTCCTGCAACTTCAGGA
*
123442810 AGATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTTATTTTC
65 AGATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTCATTTTC
123442875 GATCT
130 GATCT
* *
123442880 GCTCCATAGTCGATACATGGAGATAAGATCTGTAA-TTTTCAGTTTGCTTCCTGCAACTTCAGGA
1 GCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTT-AGTCTGCTTCCTGCAACTTCAGGA
* * *
123442944 AGATAAGACTTGCCGTCTTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTTGTCATTTTC
65 AGATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTCATTTTC
123443009 GATCT
130 GATCT
* *
123443014 GCTCCATAGTCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCATCTTCAGGAA
1 GCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCAGGAA
* *
123443079 GATAAGACTTGCTGTCTTCAGTCTGCTCCACTGCAACTTCA-AGAAGATAAGACTTGTCATTTTC
66 GATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCAGAG-AGATAAGACTTGTCATTTTC
123443143 GATCT
130 GATCT
*
123443148 GCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGTAACTTCAGGAA
1 GCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCAGGAA
123443213 GATAAGACTTG-C-TATCTACAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTCATTTT
66 GATAAGACTTGCCGTAT-T-CAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTCATTTT
123443276 CGATCT
129 CGATCT
*
123443282 GCTCCATAGCCGATACATGGAGCTAAGATCTGTAACTTTTAGTCTGCTTCC-GCAACTTCAGGAA
1 GCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCAGGAA
* * * *** * * *
123443346 GATAAGACTAGTGGC-TA--AAATCTGCTCCA-TAGCCGGTACATG-GAGATAAGACTCGCCA-T
66 GATAAGACT--TGCCGTATTCAGTCTGCTCCACT-GCAACTTCA-GAGAGATAAGACTTGTCATT
123443405 TTCTGATCT
127 TTC-GATCT
*
123443414 GCTCCATAGCCGATATATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCCTGCAACTTCA
1 GCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTT-AGTCTGCTTCCTGCAACTTCA
123443475 AGACAATAAG
Statistics
Matches: 553, Mismatches: 29, Indels: 27
0.91 0.05 0.04
Matches are distributed among these distances:
131 9 0.02
132 80 0.14
133 33 0.06
134 420 0.76
135 8 0.01
136 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (134 bp):
GCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCAGGAA
GATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTCATTTTCG
ATCT
Found at i:123443283 original size:89 final size:87
Alignment explanation
Indices: 123442766--123443284 Score: 299
Period size: 89 Copynumber: 5.8 Consensus size: 87
123442756 CGATATATGG
* * * * * *
123442766 AGATAAGA-TCTGTAATTTTCAGTCTGCTTC-CTGTAACTTCAGGAAGATAAGACTTGCCGTATT
1 AGATAAGACT-TGT-ATCTTCAGTCTGCTCCACTGCAACTTCAGG-AGATAAGACTTGTCATTTT
*
123442829 C-AGTCTGCTCCACTGCAACTTCA-GA
63 CGA-TCTGCTTC-CTGCAACTTCAGGA
* * * *
123442854 GAGATAAGACTTGTTATTTTC-GATCTGCTCCA-TAGTCGA-TACATGGAGATAAGA-TCTGTAA
1 -AGATAAGACTTG-TATCTTCAG-TCTGCTCCACT-G-CAACTTCA-GGAGATAAGACT-TGTCA
*
123442915 TTTTC-AGTTTGCTTCCTGCAACTTCAGGA
59 TTTTCGA-TCTGCTTCCTGCAACTTCAGGA
** *
123442944 AGATAAGACTTGCCGTCTTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTTGTCATTTTC
1 AGATAAGACTTG-TATCTTCAGTCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGTCATTTTC
* *
123443009 GATCTGC-TCCATAGTCGA-TACATGG-
64 GATCTGCTTCC-T-G-CAACTTCA-GGA
* * * *
123443034 AGATAAGA-TCTGTAACTTTTAGTCTGCTTC-CTGCATCTTCAGGAAGATAAGACTTG-C-TGTC
1 AGATAAGACT-TGTATC-TTCAGTCTGCTCCACTGCAACTTCAGG-AGATAAGACTTGTCAT-T-
* *
123443095 TTC-AGTCTGCTCCACTGCAACTTCAAGA
61 TTCGA-TCTGCTTC-CTGCAACTTCAGGA
* * * *
123443123 AGATAAGACTTGTCATTTTC-GATCTGCTCCA-TAGCCGA-TACATGGAGATAAGA-TCTGTAAC
1 AGATAAGACTTGT-ATCTTCAG-TCTGCTCCACT-G-CAACTTCA-GGAGATAAGACT-TGTCA-
* *
123443184 TTTTAG-TCTGCTTCCTGTAACTTCAGGA
59 TTTTCGATCTGCTTCCTGCAACTTCAGGA
*
123443212 AGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTCATTTTC
1 AGATAAGACTTG-TATCTTCAGTCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGTCATTTTC
123443277 GATCTGCT
64 GATCTGCT
123443285 CCATAGCCGA
Statistics
Matches: 334, Mismatches: 49, Indels: 94
0.70 0.10 0.20
Matches are distributed among these distances:
87 1 0.00
88 23 0.07
89 206 0.62
90 89 0.27
91 13 0.04
92 1 0.00
93 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (87 bp):
AGATAAGACTTGTATCTTCAGTCTGCTCCACTGCAACTTCAGGAGATAAGACTTGTCATTTTCGA
TCTGCTTCCTGCAACTTCAGGA
Found at i:123443663 original size:64 final size:64
Alignment explanation
Indices: 123443553--123443676 Score: 180
Period size: 64 Copynumber: 1.9 Consensus size: 64
123443543 TCATGTATCT
*
123443553 ATGCTTATGCCAAATAACTAGGATGCTATGATCAAAATAATCCAAGTGCTCCTAGCTAGACGTG
1 ATGCTTATACCAAATAACTAGGATGCTATGATCAAAATAATCCAAGTGCTCCTAGCTAGACGTG
* * *
123443617 ATGCTTATATCAAATAATTAGGATGCTATGA-CTAGAATGAAT-CAAGTGCTCCTAGCTAGA
1 ATGCTTATACCAAATAACTAGGATGCTATGATC-AAAAT-AATCCAAGTGCTCCTAGCTAGA
123443677 TGTATTATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
63 1 0.02
64 50 0.93
65 3 0.06
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (64 bp):
ATGCTTATACCAAATAACTAGGATGCTATGATCAAAATAATCCAAGTGCTCCTAGCTAGACGTG
Found at i:123454584 original size:41 final size:41
Alignment explanation
Indices: 123454539--123454656 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
123454529 TGAAAGATAA
123454539 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
123454580 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
123454610 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
123454651 ATGTAG
1 ATGTAG
123454657 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:123454595 original size:71 final size:71
Alignment explanation
Indices: 123454507--123454670 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
123454497 GAGATGTATC
123454507 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
123454572 AGGACA
66 AGGACA
123454578 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
123454643 AGGACA
66 AGGACA
123454649 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
123454671 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:123462082 original size:41 final size:41
Alignment explanation
Indices: 123462037--123462154 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
123462027 TGAAAGATAA
123462037 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
123462078 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
123462108 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
123462149 ATGTAG
1 ATGTAG
123462155 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:123462093 original size:71 final size:71
Alignment explanation
Indices: 123462005--123462168 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
123461995 GAGATGTATC
123462005 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
123462070 AGGACA
66 AGGACA
123462076 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
123462141 AGGACA
66 AGGACA
123462147 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
123462169 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:123469654 original size:41 final size:41
Alignment explanation
Indices: 123469609--123469726 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
123469599 TGAAAGATAA
123469609 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
123469650 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
123469680 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
123469721 ATGTAG
1 ATGTAG
123469727 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:123469665 original size:71 final size:71
Alignment explanation
Indices: 123469577--123469740 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
123469567 GAGATGTATC
123469577 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
123469642 AGGACA
66 AGGACA
123469648 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
123469713 AGGACA
66 AGGACA
123469719 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
123469741 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:123481302 original size:30 final size:30
Alignment explanation
Indices: 123481268--123481327 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
123481258 TTGAATACAA
123481268 AGCAAAGAATAACAATTAAAGCATTTCTTC
1 AGCAAAGAATAACAATTAAAGCATTTCTTC
**
123481298 AGCAAAGAATAACAATTAAAGTGTTTCTTC
1 AGCAAAGAATAACAATTAAAGCATTTCTTC
123481328 TTTGGAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (30 bp):
AGCAAAGAATAACAATTAAAGCATTTCTTC
Found at i:123482912 original size:21 final size:21
Alignment explanation
Indices: 123482887--123482928 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
123482877 AAATTTTAAA
* *
123482887 AAATAAATGGAGGGCTAAATT
1 AAATAAATGAAGGACTAAATT
*
123482908 AAATAGATGAAGGACTAAATT
1 AAATAAATGAAGGACTAAATT
123482929 GAGATTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (21 bp):
AAATAAATGAAGGACTAAATT
Found at i:123483102 original size:12 final size:12
Alignment explanation
Indices: 123483085--123483109 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
123483075 GTACAGGGAC
123483085 TTAGAGGGTAAT
1 TTAGAGGGTAAT
123483097 TTAGAGGGTAAT
1 TTAGAGGGTAAT
123483109 T
1 T
123483110 ATCCCGACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (12 bp):
TTAGAGGGTAAT
Found at i:123497282 original size:43 final size:44
Alignment explanation
Indices: 123497192--123497313 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 44
123497182 GCAAAAATTT
* * *
123497192 GATGCATTGGAAGAATCTTGAAACAAACTTTGTAATTTAAATGA
1 GATGCATTGGAACAAACTTGGAACAAACTTTGTAATTTAAATGA
* * *
123497236 GATGCATTGTACCAAACTTGGAACAAA-TTTGTAATTTAAATTA
1 GATGCATTGGAACAAACTTGGAACAAACTTTGTAATTTAAATGA
* * *
123497279 GATGCATTGGAATAAACTTTGAACAAACTCTGTAA
1 GATGCATTGGAACAAACTTGGAACAAACTTTGTAA
123497314 AATATATATC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 38 0.58
44 28 0.42
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.32
Consensus pattern (44 bp):
GATGCATTGGAACAAACTTGGAACAAACTTTGTAATTTAAATGA
Found at i:123500855 original size:16 final size:16
Alignment explanation
Indices: 123500813--123500856 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
123500803 TCTAAATATT
*
123500813 TAATTTAATATTTTTA
1 TAATTTAATATTTTAA
* *
123500829 TAAATTGATATTTTAA
1 TAATTTAATATTTTAA
*
123500845 TATTTTAATATT
1 TAATTTAATATT
123500857 GAATTATTTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TAATTTAATATTTTAA
Found at i:123504000 original size:20 final size:20
Alignment explanation
Indices: 123503975--123504014 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
123503965 AGCAACAATA
123503975 TTTAATGTGGGAGTGGTTTG
1 TTTAATGTGGGAGTGGTTTG
123503995 TTTAATGTGGGAGTGGTTTG
1 TTTAATGTGGGAGTGGTTTG
123504015 GTTGATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (20 bp):
TTTAATGTGGGAGTGGTTTG
Found at i:123504022 original size:20 final size:20
Alignment explanation
Indices: 123503976--123504022 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
123503966 GCAACAATAT
*
123503976 TTAATGTGGGAGTGGTTTGT
1 TTAATGTGGGAGTGGTTTGG
123503996 TTAATGTGGGAGTGGTTTGG
1 TTAATGTGGGAGTGGTTTGG
*
123504016 TTGATGT
1 TTAATGT
123504023 TTAGGCTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (20 bp):
TTAATGTGGGAGTGGTTTGG
Found at i:123504456 original size:23 final size:22
Alignment explanation
Indices: 123504413--123504456 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
123504403 ATAAAAAATT
**
123504413 AATATTTTAATAAATGGATAAA
1 AATATTTTAATAAATAAATAAA
*
123504435 AATATTTTATGTAAATAAATAA
1 AATATTTTA-ATAAATAAATAA
123504457 GTTTGATCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (22 bp):
AATATTTTAATAAATAAATAAA
Found at i:123507786 original size:27 final size:28
Alignment explanation
Indices: 123507749--123507915 Score: 195
Period size: 27 Copynumber: 6.2 Consensus size: 28
123507739 AGCATGGCTG
* *
123507749 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
123507775 CCAGATACAGATA-ATCGTGGCAGGGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
123507803 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
123507830 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
123507857 CCAGAT-CAAATATTTGTGGCAAAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
123507884 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
123507911 CCAGA
1 CCAGA
123507916 ACGCTCCCTC
Statistics
Matches: 128, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
26 5 0.04
27 107 0.84
28 16 0.12
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:123507808 original size:54 final size:54
Alignment explanation
Indices: 123507749--123507917 Score: 232
Period size: 54 Copynumber: 3.1 Consensus size: 54
123507739 AGCATGGCTG
* * * * *
123507749 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGGGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
123507803 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
* * * * *
123507857 CCAGATCAAATATTTGTGGCAAAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
123507911 CCAGAAC
1 CCAGAAC
123507918 GCTCCCTCCA
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 85 0.83
55 18 0.17
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
Found at i:123509579 original size:26 final size:26
Alignment explanation
Indices: 123509533--123509670 Score: 222
Period size: 26 Copynumber: 5.2 Consensus size: 26
123509523 CATGAAATTC
123509533 TTATCATGAAAAACATTTACCTAACCCA
1 TTATCATG--AAACATTTACCTAACCCA
123509561 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
123509587 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
123509613 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
123509639 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
123509665 TTATCA
1 TTATCA
123509671 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 96 0.92
28 8 0.08
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:123509616 original size:52 final size:52
Alignment explanation
Indices: 123509544--123509670 Score: 245
Period size: 52 Copynumber: 2.4 Consensus size: 52
123509534 TATCATGAAA
*
123509544 AACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGG
1 AACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGG
123509596 AACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGG
1 AACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGG
123509648 AACATTTACCTAACCTATTATCA
1 AACATTTACCTAACCTATTATCA
123509671 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (52 bp):
AACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGG
Found at i:123511058 original size:33 final size:33
Alignment explanation
Indices: 123511016--123511079 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
123511006 TACACAAAAT
*
123511016 CAAAATAGGTGACTTAGAACCACATGCCCATAG
1 CAAAATAGGTGACTTAGAACCACACGCCCATAG
123511049 CAAAATAGGTGACTTAGAACCACACGCCCAT
1 CAAAATAGGTGACTTAGAACCACACGCCCAT
123511080 GTGCTATGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (33 bp):
CAAAATAGGTGACTTAGAACCACACGCCCATAG
Found at i:123511934 original size:14 final size:14
Alignment explanation
Indices: 123511917--123511950 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
123511907 AAAAATATTA
123511917 AAAATAAAATAAAT
1 AAAATAAAATAAAT
*
123511931 AAAACAAAATAAAT
1 AAAATAAAATAAAT
123511945 ACAAAT
1 A-AAAT
123511951 TTAACTAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:123513762 original size:2 final size:2
Alignment explanation
Indices: 123513755--123513789 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
123513745 AGTTTACTTT
123513755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
123513790 TAGTTTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:123515496 original size:3 final size:3
Alignment explanation
Indices: 123515488--123515543 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
123515478 TTATGTTTTT
123515488 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
123515536 ATC ATC AT
1 ATC ATC AT
123515544 TATTATTATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:123515548 original size:3 final size:3
Alignment explanation
Indices: 123515542--123515582 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
123515532 CATCATCATC
123515542 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
123515583 AAATCGACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:123522867 original size:41 final size:41
Alignment explanation
Indices: 123522814--123522894 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
123522804 TAATTTTTAG
123522814 AACTAATTCAGAGTAATGTTCAAAACACACTTATTTCTTTT
1 AACTAATTCAGAGTAATGTTCAAAACACACTTATTTCTTTT
*
123522855 AACTAATTCAGAGTAATGTTCAAAACACATTTATTTCTTT
1 AACTAATTCAGAGTAATGTTCAAAACACACTTATTTCTTT
123522895 AAGTATGGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (41 bp):
AACTAATTCAGAGTAATGTTCAAAACACACTTATTTCTTTT
Found at i:123527315 original size:14 final size:14
Alignment explanation
Indices: 123527296--123527322 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
123527286 TCATTCTGAT
123527296 CATAACATCCTAAC
1 CATAACATCCTAAC
123527310 CATAACATCCTAA
1 CATAACATCCTAA
123527323 TCGCTTGGCA
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:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (14 bp):
CATAACATCCTAAC
Found at i:123527719 original size:138 final size:137
Alignment explanation
Indices: 123527464--123527779 Score: 407
Period size: 138 Copynumber: 2.3 Consensus size: 137
123527454 AGTGAATCTT
* * * * *
123527464 ATCTCCCTAAAGTTGTAATGGAGCATATTGAAGCTACATATATTATCTCCCTAAAGTTAAGTAGA
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAACTACAAATATTATCTCCCTAAAGTTAAGTAGA
* ** * * *
123527529 GCAGATTAAAATAAAAAATCCTATATTTTTGAAGTTGCAGTGGGTCGGATTAAATCTACCATAAC
66 GCAGATTAAAACAAAAAATCCTATACCTCTAAAGTTGCAGTGGGTCGAATTAAATCTACCATAAC
123527594 GAGTCTC
131 GAGTCTC
* * * ** * *
123527601 ATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAACTATAAATCTTATCTCGTTAAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAACTACAAATATTATCTCCCTAAAGTT-AAGTAG
* *
123527666 AGCAGATTAAAACAACAAATCCTATACCTCTAAAGTTGCAGTGGGTCGAATTAAATCTACCATAG
65 AGCAGATTAAAACAAAAAATCCTATACCTCTAAAGTTGCAGTGGGTCGAATTAAATCTACCATAA
123527731 CGAGTCTC
130 CGAGTCTC
** * *
123527739 ATCTCCCTGAAGTTACAGTTGAGCAGATTGAAACAACAAAT
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAACTACAAAT
123527780 CCTATACCTC
Statistics
Matches: 152, Mismatches: 26, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
137 48 0.32
138 104 0.68
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (137 bp):
ATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAACTACAAATATTATCTCCCTAAAGTTAAGTAGA
GCAGATTAAAACAAAAAATCCTATACCTCTAAAGTTGCAGTGGGTCGAATTAAATCTACCATAAC
GAGTCTC
Found at i:123527752 original size:94 final size:94
Alignment explanation
Indices: 123527654--123527860 Score: 333
Period size: 94 Copynumber: 2.2 Consensus size: 94
123527644 TATCTCGTTA
123527654 AAGTTGCAGTGGAGCAGATTAAAACAACAAATCCTATACCTCTAAAGTTGCAGTGGGTCGAATTA
1 AAGTTGCAGTGGAGCAGATTAAAACAACAAATCCTATACCTCTAAAGTTGCAGTGGGTCGAATTA
123527719 AATCTACCATAGCGAGTCTCATCTCCCTG
66 AATCTACCATAGCGAGTCTCATCTCCCTG
* * * ** *
123527748 AAGTTACAGTTGAGCAGATTGAAACAACAAATCCTATACCTCTAAAGTTTTAGTGGGTCGGATTA
1 AAGTTGCAGTGGAGCAGATTAAAACAACAAATCCTATACCTCTAAAGTTGCAGTGGGTCGAATTA
* **
123527813 AATTTACCATAGCGAGTCTCATCTCTTTG
66 AATCTACCATAGCGAGTCTCATCTCCCTG
123527842 AAGTTGCAGTGGAGCAGAT
1 AAGTTGCAGTGGAGCAGAT
123527861 AGAAGCTACA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 102 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (94 bp):
AAGTTGCAGTGGAGCAGATTAAAACAACAAATCCTATACCTCTAAAGTTGCAGTGGGTCGAATTA
AATCTACCATAGCGAGTCTCATCTCCCTG
Found at i:123527831 original size:232 final size:230
Alignment explanation
Indices: 123527508--123528011 Score: 648
Period size: 232 Copynumber: 2.2 Consensus size: 230
123527498 TACATATATT
* * * ** * *
123527508 ATCTCCCTAAAGTTAAGTAGAGCAGATTAAAATAAAAAATCCTATATTTTTGAAGTTGCAGTGGG
1 ATCTCCCTAAAGTTAAGTAGAGCAGATTGAAACAACAAATCCTATACCTCTAAAGTTGCAGTGGG
* * * *
123527573 TCGGATTAAATCTACCATAACGAGTCTCATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAACTAT
66 TCGGATTAAATCTACCATAACGAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAACTAC
*** *
123527638 AAATCTTATCTCGTTAAAGTTGCAGTGGAGCAGATTAAAACAACAAATCCTATACCTCTAAAGTT
131 AAATCTTATCTCCCAAAAGTTACAGTGGAGCAGATTAAAACAACAAATCCTATACCTCTAAAGTT
*
123527703 GCAGTGGGTCGAATTAAATCTACCATAGCGAGTCTC
196 GCAATGGGT-GAATTAAATCTACCATAGCGAGTCTC
* * **
123527739 ATCTCCCTGAAGTTACAGTTGAGCAGATTGAAACAACAAATCCTATACCTCTAAAGTTTTAGTGG
1 ATCTCCCTAAAGTTA-AGTAGAGCAGATTGAAACAACAAATCCTATACCTCTAAAGTTGCAGTGG
* * ** *
123527804 GTCGGATTAAATTTACCATAGCGAGTCTCATCTCTTTGAAGTTGCAGTGGAGCAGATAGAAGCTA
65 GTCGGATTAAATCTACCATAACGAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAACTA
* * *
123527869 CAAATCTTATCTCCCAAAAGTTACAGTGGAGTAGATTGAAACAACAAATCCTATAGCTCTAAAGT
130 CAAATCTTATCTCCCAAAAGTTACAGTGGAGCAGATTAAAACAACAAATCCTATACCTCTAAAGT
* * *
123527934 TTCAATGGGTGGATTAAATTTACCATAGCGAGTCTC
195 TGCAATGGGTGAATTAAATCTACCATAGCGAGTCTC
* * * * * *
123527970 ATCTCCTTCAAGTTGTAGTGGAGCAGATTGAAGCTACAAATC
1 ATCTCCCTAAAGTT-AAGTAGAGCAGATTGAAACAACAAATC
123528012 TTGTCTCCCT
Statistics
Matches: 234, Mismatches: 37, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
231 73 0.31
232 161 0.69
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (230 bp):
ATCTCCCTAAAGTTAAGTAGAGCAGATTGAAACAACAAATCCTATACCTCTAAAGTTGCAGTGGG
TCGGATTAAATCTACCATAACGAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAACTAC
AAATCTTATCTCCCAAAAGTTACAGTGGAGCAGATTAAAACAACAAATCCTATACCTCTAAAGTT
GCAATGGGTGAATTAAATCTACCATAGCGAGTCTC
Found at i:123528005 original size:137 final size:138
Alignment explanation
Indices: 123527739--123528047 Score: 467
Period size: 137 Copynumber: 2.2 Consensus size: 138
123527729 AGCGAGTCTC
* * * * *
123527739 ATCTCCCTGAAGTTACAGTTGAGCAGATTGAAACAACAAATCCTATACCTCTAAAGTTTTAGTGG
1 ATCTCCCTAAAGTTACAGTAGAGTAGATTGAAACAACAAATCCTATACCTCTAAAGTTTCAATGG
* *
123527804 GTCGGATTAAATTTACCATAGCGAGTCTCATCTCTTTGAAGTTGCAGTGGAGCAGATAGAAGCTA
66 GTCGGATTAAATTTACCATAGCGAGTCTCATCTCCTTCAAGTTGCAGTGGAGCAGATAGAAGCTA
123527869 CAAATCTT
131 CAAATCTT
* * *
123527877 ATCTCCCAAAAGTTACAGTGGAGTAGATTGAAACAACAAATCCTATAGCTCTAAAGTTTCAATGG
1 ATCTCCCTAAAGTTACAGTAGAGTAGATTGAAACAACAAATCCTATACCTCTAAAGTTTCAATGG
* *
123527942 GT-GGATTAAATTTACCATAGCGAGTCTCATCTCCTTCAAGTTGTAGTGGAGCAGATTGAAGCTA
66 GTCGGATTAAATTTACCATAGCGAGTCTCATCTCCTTCAAGTTGCAGTGGAGCAGATAGAAGCTA
123528006 CAAATCTT
131 CAAATCTT
* * * *
123528014 GTCTCCCTAAAGTTGCAGCAGAGTAGATTAAAAC
1 ATCTCCCTAAAGTTACAGTAGAGTAGATTGAAAC
123528048 TACTCATGAA
Statistics
Matches: 154, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
137 94 0.61
138 60 0.39
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (138 bp):
ATCTCCCTAAAGTTACAGTAGAGTAGATTGAAACAACAAATCCTATACCTCTAAAGTTTCAATGG
GTCGGATTAAATTTACCATAGCGAGTCTCATCTCCTTCAAGTTGCAGTGGAGCAGATAGAAGCTA
CAAATCTT
Found at i:123534701 original size:18 final size:18
Alignment explanation
Indices: 123534678--123534719 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
123534668 GAAATAATGA
*
123534678 AATAAAGGGAAGGACTTC
1 AATAAAGCGAAGGACTTC
*
123534696 AATAAATCGAAGGACTTC
1 AATAAAGCGAAGGACTTC
123534714 AATAAA
1 AATAAA
123534720 TCTATAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (18 bp):
AATAAAGCGAAGGACTTC
Found at i:123534720 original size:18 final size:18
Alignment explanation
Indices: 123534686--123534721 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
123534676 GAAATAAAGG
123534686 GAAGGACTTCAATAAATC
1 GAAGGACTTCAATAAATC
123534704 GAAGGACTTCAATAAATC
1 GAAGGACTTCAATAAATC
123534722 TATAGAAAAA
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:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
GAAGGACTTCAATAAATC
Found at i:123538659 original size:20 final size:20
Alignment explanation
Indices: 123538631--123538684 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
123538621 ACAGTATTTG
* *
123538631 AAAGAAAGAAGAAGAAAGGGA
1 AAAG-AAGAAGAAAAAACGGA
* *
123538652 AAAGAAGAAAAAAAAACGTA
1 AAAGAAGAAGAAAAAACGGA
123538672 AAAGAAGAAGAAA
1 AAAGAAGAAGAAA
123538685 GGGGGAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.72, C:0.02, G:0.24, T:0.02
Consensus pattern (20 bp):
AAAGAAGAAGAAAAAACGGA
Found at i:123541165 original size:19 final size:19
Alignment explanation
Indices: 123541141--123541181 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
123541131 TTAGTCTTAG
*
123541141 AATAAATTAAGATATCATC
1 AATAAATCAAGATATCATC
*
123541160 AATAAATCAAGATATCGTC
1 AATAAATCAAGATATCATC
123541179 AAT
1 AAT
123541182 GAAAATGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.29
Consensus pattern (19 bp):
AATAAATCAAGATATCATC
Found at i:123544207 original size:22 final size:22
Alignment explanation
Indices: 123544182--123544253 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
123544172 GCAAAATAGT
*
123544182 TGCAGAACAAATCAGATACAGG
1 TGCAGAACAAATCAGATACAGA
* *
123544204 TGCAGAACAAAT-AAATTTCAGA
1 TGCAGAACAAATCAGA-TACAGA
* *
123544226 TGCAGAACAGATCAGATACAAA
1 TGCAGAACAAATCAGATACAGA
123544248 TGCAGA
1 TGCAGA
123544254 TTCCTACCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 2 0.05
22 37 0.90
23 2 0.05
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (22 bp):
TGCAGAACAAATCAGATACAGA
Found at i:123545616 original size:17 final size:17
Alignment explanation
Indices: 123545590--123545622 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
123545580 TTGAAAGAAG
*
123545590 AAGAAGAAAGAGAAAAT
1 AAGAAAAAAGAGAAAAT
123545607 AAGAAAAAAGAGAAAA
1 AAGAAAAAAGAGAAAA
123545623 AAAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAGAAAAAAGAGAAAAT
Found at i:123548723 original size:27 final size:27
Alignment explanation
Indices: 123548685--123548795 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
123548675 AGGAAGCGTC
123548685 CTGGTGGCTCTGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
*
123548712 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACATTTATCTGA-T
* *
123548739 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* * *
123548766 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
123548792 CTGG
1 CTGG
123548796 CAGCAATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 14 0.18
27 62 0.82
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:123548769 original size:54 final size:53
Alignment explanation
Indices: 123548685--123548795 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
123548675 AGGAAGCGTC
* *
123548685 CTGGTGGCTCTGCCACATTTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTATT
* * *
123548739 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTATT
123548792 CTGG
1 CTGG
123548796 CAGCAATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 11 0.21
54 41 0.79
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTATT
Found at i:123555084 original size:24 final size:24
Alignment explanation
Indices: 123555052--123555146 Score: 154
Period size: 24 Copynumber: 4.0 Consensus size: 24
123555042 CTGTCAAGAA
*
123555052 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCTGATAAGGGAT
*
123555076 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCTGATAAGGGAT
*
123555100 AGGATTTAGGAGCTGATAAGGGAG
1 AGGATTTAGGAGCTGATAAGGGAT
*
123555124 AGGATTTAGGAGCTGATTAGGGA
1 AGGATTTAGGAGCTGATAAGGGA
123555147 GAACAGTGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.33, C:0.02, G:0.39, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGCTGATAAGGGAT
Found at i:123557555 original size:40 final size:40
Alignment explanation
Indices: 123557481--123557626 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
123557471 CCGCACCAAG
* * * * * *
123557481 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
123557521 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
123557561 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
123557601 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
123557627 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:123557641 original size:40 final size:40
Alignment explanation
Indices: 123557513--123557664 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
123557503 ATCACGATTT
* * * * *
123557513 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
123557553 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
123557593 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
123557633 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
123557665 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:123565749 original size:39 final size:40
Alignment explanation
Indices: 123565571--123565753 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
123565561 CCGCACCAAG
* * * * * * * *
123565571 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
123565611 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
123565651 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
123565691 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
123565730 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
123565754 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:123573711 original size:80 final size:80
Alignment explanation
Indices: 123573627--123573775 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
123573617 TATGGTAACC
* * * *
123573627 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
123573691 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
123573707 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
123573772 CCGG
66 CCGG
123573776 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Done.