Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 184 of 325
Found at i:58104867 original size:40 final size:40
Alignment explanation
Indices: 58104810--58105170 Score: 553
Period size: 40 Copynumber: 9.1 Consensus size: 40
58104800 CGAATACACG
* * * *
58104810 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * *
58104850 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
58104890 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
58104930 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
58104970 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
58105010 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
58105050 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
58105090 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
58105130 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
58105169 TC
1 TC
58105171 GTCGAGACCT
Statistics
Matches: 295, Mismatches: 26, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 4 0.01
40 291 0.99
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:58107651 original size:27 final size:27
Alignment explanation
Indices: 58107619--58107700 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
58107609 ATTAGGCCTT
58107619 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
* * *
58107646 ATCAC----ATAT-C-CATTCGGCCTT-
1 ATCACATATATATACACTTTC-ACATTC
58107667 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
58107694 ATCACAT
1 ATCACAT
58107701 TGGCCATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
21 9 0.22
22 4 0.10
23 4 0.10
25 4 0.10
26 4 0.10
27 16 0.39
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.35
Consensus pattern (27 bp):
ATCACATATATATACACTTTCACATTC
Found at i:58107729 original size:48 final size:47
Alignment explanation
Indices: 58107430--58107765 Score: 417
Period size: 47 Copynumber: 7.3 Consensus size: 47
58107420 CCCTTCGGGA
* * * * * *
58107430 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58107477 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58107524 CTCATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58107570 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
58107616 CTTATCACATATATATACACTTTCACATTCATCACAT-ATCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58107664 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
58107714 CTTATCAC--ATAT--A---T-ACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58107752 CTTATCACATATAT
1 CTTATCACATATAT
58107766 TACATTCACA
Statistics
Matches: 264, Mismatches: 18, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
38 13 0.05
39 5 0.02
40 17 0.06
41 1 0.00
44 1 0.00
46 65 0.25
47 74 0.28
48 71 0.27
49 3 0.01
50 14 0.05
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58107761 original size:38 final size:41
Alignment explanation
Indices: 58107688--58107773 Score: 142
Period size: 38 Copynumber: 2.2 Consensus size: 41
58107678 ATACACTTTC
*
58107688 ACATTCATCACATTGGCCATTTCGGCCTTATCACATATA-T
1 ACATTCATCACATTGGCCATTTAGGCCTTATCACATATATT
58107728 ACATTCATCACA-TGGCCA-TTAGGCCTTATCACATATATT
1 ACATTCATCACATTGGCCATTTAGGCCTTATCACATATATT
58107767 ACATTCA
1 ACATTCA
58107774 CATCACAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
38 18 0.41
39 14 0.32
40 12 0.27
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (41 bp):
ACATTCATCACATTGGCCATTTAGGCCTTATCACATATATT
Found at i:58108216 original size:40 final size:40
Alignment explanation
Indices: 58108160--58108292 Score: 173
Period size: 39 Copynumber: 3.4 Consensus size: 40
58108150 GAGATATCCG
58108160 CGAAGGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCT
1 CGAA-GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCT
* *
58108201 CGAAGAGCATTCGTGCTCGTGATGTATCCGGACTAAGT-T
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCT
* * * * *
58108240 CGAAGAGCATTCATGCTAGTGATATATCCGTGCTAA-CCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCT
58108279 CGAA-AGCATTCGTG
1 CGAAGAGCATTCGTG
58108293 GCTGGTGTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
38 9 0.11
39 36 0.44
40 32 0.40
41 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCT
Found at i:58108262 original size:39 final size:40
Alignment explanation
Indices: 58108160--58108269 Score: 168
Period size: 40 Copynumber: 2.8 Consensus size: 40
58108150 GAGATATCCG
*
58108160 CGAAGGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCT
1 CGAA-GAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCT
*
58108201 CGAAGAGCATTCGTGCTCGTGATGTATCCGGACTAAGT-T
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCT
* *
58108240 CGAAGAGCATTCATGCTAGTGATATATCCG
1 CGAAGAGCATTCGTGCTAGTGATGTATCCG
58108270 TGCTAACCCC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 28 0.44
40 32 0.50
41 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCT
Found at i:58108309 original size:79 final size:80
Alignment explanation
Indices: 58108160--58108319 Score: 191
Period size: 79 Copynumber: 2.0 Consensus size: 80
58108150 GAGATATCCG
* * * * *
58108160 CGAAGGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTCGTGATG
1 CGAAGGAGCATTCATGCTAGTGATATATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTCGTGATA
58108225 TATCCGGACTAAGTT
66 TATCCGGACTAAGTT
* * *
58108240 CGAA-GAGCATTCATGCTAGTGATATATCCGTGCTAA-CCCCGAA-AGCATTCGTGGCTGGTGTT
1 CGAAGGAGCATTCATGCTAGTGATATATCCGGGCTAAGCCCCGAAGAGCATTCGT-GCTCGTGAT
* *
58108302 ATAATCCGGGCTAGGTT
65 AT-ATCCGGACTAAGTT
58108319 C
1 C
58108320 CCAAAGACAA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 9 0.13
78 13 0.19
79 42 0.62
80 4 0.06
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
CGAAGGAGCATTCATGCTAGTGATATATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTCGTGATA
TATCCGGACTAAGTT
Found at i:58128117 original size:7 final size:6
Alignment explanation
Indices: 58128071--58128113 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
58128061 ATATAAAAAA
58128071 TTAAAGT TTAAAT TGTAAAT TTAAAT TTAAAT TTAAAT TTAAA
1 TTAAA-T TTAAAT T-TAAAT TTAAAT TTAAAT TTAAAT TTAAA
58128114 ATTTTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 24 0.69
7 11 0.31
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:58128820 original size:3 final size:3
Alignment explanation
Indices: 58128812--58128846 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
58128802 GGATGAAATT
58128812 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
58128847 GAAAACAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:58130132 original size:37 final size:37
Alignment explanation
Indices: 58130088--58130162 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
58130078 ATAAAAACAA
58130088 ACGTAAAAGACTATTATCTTGAGATTTGATGTAAAAT
1 ACGTAAAAGACTATTATCTTGAGATTTGATGTAAAAT
* *
58130125 ACGTAAAAGACTATTTTCTTGAGATTTTATGTAAAAT
1 ACGTAAAAGACTATTATCTTGAGATTTGATGTAAAAT
58130162 A
1 A
58130163 TACTTATCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (37 bp):
ACGTAAAAGACTATTATCTTGAGATTTGATGTAAAAT
Found at i:58130458 original size:18 final size:18
Alignment explanation
Indices: 58130435--58130470 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58130425 ATTAAAAACG
58130435 AAAGTTTTTAATTTTTAA
1 AAAGTTTTTAATTTTTAA
58130453 AAAGTTTTTAATTTTTAA
1 AAAGTTTTTAATTTTTAA
58130471 TATTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
AAAGTTTTTAATTTTTAA
Found at i:58131440 original size:28 final size:25
Alignment explanation
Indices: 58131432--58131506 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 25
58131422 AATTATAAAT
*
58131432 AAATAAAAATATTACTAAATATTATAAA
1 AAAT-AAAA-ATTAATAAA-ATTATAAA
58131460 AATATAAAAATCTAAT-AAATTATAAAA
1 AA-ATAAAAAT-TAATAAAATTAT-AAA
58131487 AAATATAAAATTAATAAAAT
1 AAATA-AAAATTAATAAAAT
58131507 ATATTTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
26 12 0.29
27 18 0.44
28 9 0.22
29 2 0.05
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATAAAAATTAATAAAATTATAAA
Found at i:58131501 original size:26 final size:26
Alignment explanation
Indices: 58131421--58131509 Score: 90
Period size: 28 Copynumber: 3.3 Consensus size: 26
58131411 AATTGATATA
* * *
58131421 AAATTATAAATAAATAAAAATATTACT
1 AAATTATAAAAAAATATAAA-ATTAAT
*
58131448 AAA-TATTATAAAAATATAAAAATCTAAT
1 AAATTA-TAAAAAAATAT-AAAAT-TAAT
58131476 AAATTATAAAAAAATATAAAATTAAT
1 AAATTATAAAAAAATATAAAATTAAT
*
58131502 AAAATATA
1 AAATTATA
58131510 TTTAAAATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
26 13 0.25
27 18 0.35
28 19 0.37
29 2 0.04
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATTATAAAAAAATATAAAATTAAT
Found at i:58131516 original size:28 final size:29
Alignment explanation
Indices: 58131450--58131516 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
58131440 ATATTACTAA
58131450 ATATTATAAAAATATAAAAATCTAATAAAT
1 ATATT-TAAAAATATAAAAATCTAATAAAT
**
58131480 -TATAAAAAAATAT-AAAAT-TAATAAAAT
1 ATATTTAAAAATATAAAAATCTAAT-AAAT
58131507 ATATTTAAAA
1 ATATTTAAAA
58131517 TTTTATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 4 0.13
27 9 0.29
28 15 0.48
29 3 0.10
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (29 bp):
ATATTTAAAAATATAAAAATCTAATAAAT
Found at i:58135247 original size:21 final size:21
Alignment explanation
Indices: 58135223--58135275 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
58135213 TGCTATTTTT
*
58135223 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
58135244 AATCTCACCACTACAGTAACT
1 AATCTCACCGCTACAGTAACC
*
58135265 AATTTCACCGC
1 AATCTCACCGC
58135276 CACTGCTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:58136280 original size:11 final size:12
Alignment explanation
Indices: 58136264--58136296 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
58136254 TTGTTTCTCT
58136264 TTTTCTTTTTC-
1 TTTTCTTTTTCA
58136275 TTTTCTTTTTCA
1 TTTTCTTTTTCA
*
58136287 ATTTCTTTTT
1 TTTTCTTTTT
58136297 TGATTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:58136302 original size:12 final size:12
Alignment explanation
Indices: 58136265--58136308 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
58136255 TGTTTCTCTT
*
58136265 TTTCTTTTTC-T
1 TTTCTTTTTCAA
58136276 TTTCTTTTTCAA
1 TTTCTTTTTCAA
**
58136288 TTTCTTTTTTGA
1 TTTCTTTTTCAA
58136300 TTTCTTTTT
1 TTTCTTTTT
58136309 ATTTCTCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:58141269 original size:17 final size:17
Alignment explanation
Indices: 58141247--58141280 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58141237 TTTTTAATAC
* *
58141247 ATTTTTTTATGTTTTAT
1 ATTTTTTAATATTTTAT
58141264 ATTTTTTAATATTTTAT
1 ATTTTTTAATATTTTAT
58141281 TTAATTGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTTAATATTTTAT
Found at i:58141663 original size:9 final size:8
Alignment explanation
Indices: 58141655--58141716 Score: 54
Period size: 9 Copynumber: 7.2 Consensus size: 8
58141645 TAAGACTTAT
58141655 TAATTTTA
1 TAATTTTA
58141663 TATATTTTA
1 TA-ATTTTA
58141672 TAA-TTTA
1 TAATTTTA
58141679 TTAGATTTTCA
1 -TA-ATTTT-A
*
58141690 TATTTTTA
1 TAATTTTA
58141698 TAATATTTA
1 TAAT-TTTA
*
58141707 TAAGTTTA
1 TAATTTTA
58141715 TA
1 TA
58141717 TCAATTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 4 0.09
8 15 0.33
9 20 0.44
10 5 0.11
11 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (8 bp):
TAATTTTA
Found at i:58141677 original size:17 final size:17
Alignment explanation
Indices: 58141655--58141748 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 17
58141645 TAAGACTTAT
58141655 TAATTTTATATATTTTA
1 TAATTTTATATATTTTA
*
58141672 TAA-TTTATTAGATTTTCA
1 TAATTTTA-TATATTTT-A
*
58141690 TATTTTTATA-ATATTTA
1 TAATTTTATATAT-TTTA
*
58141707 TAAGTTTATATCAATTTTA
1 TAATTTTATAT--ATTTTA
*
58141726 -ATATTTTA-ATTTTTTA
1 TA-ATTTTATATATTTTA
*
58141742 TGATTTT
1 TAATTTT
58141749 TTTTATATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
16 14 0.23
17 21 0.34
18 11 0.18
19 13 0.21
20 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (17 bp):
TAATTTTATATATTTTA
Found at i:58141692 original size:25 final size:26
Alignment explanation
Indices: 58141651--58141701 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
58141641 TAAATAAGAC
*
58141651 TTATTAATTTTATATA-TTTTATAAT
1 TTATTAATTTTACATATTTTTATAAT
58141676 TTATTAGATTTT-CATATTTTTATAAT
1 TTATTA-ATTTTACATATTTTTATAAT
58141702 ATTTATAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
TTATTAATTTTACATATTTTTATAAT
Found at i:58149766 original size:20 final size:19
Alignment explanation
Indices: 58149737--58149788 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 19
58149727 ATAATAGTTC
*
58149737 TATCTCTTGATGAACAATTG
1 TATCTATTG-TGAACAATTG
58149757 TATCT-TT-TGAACAATTG
1 TATCTATTGTGAACAATTG
58149774 TATCTATTGGTGAAC
1 TATCTATT-GTGAAC
58149789 TTATTCATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 15 0.52
18 2 0.07
19 2 0.07
20 10 0.34
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (19 bp):
TATCTATTGTGAACAATTG
Found at i:58150730 original size:16 final size:15
Alignment explanation
Indices: 58150709--58150738 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58150699 GAAAATAACT
58150709 ATTTTATTCAATGAAC
1 ATTTTATTC-ATGAAC
58150725 ATTTTATTCATGAA
1 ATTTTATTCATGAA
58150739 GAATTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (15 bp):
ATTTTATTCATGAAC
Found at i:58160502 original size:43 final size:43
Alignment explanation
Indices: 58160454--58160540 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
58160444 CCACAAAGAG
58160454 TTAGAGTTTTTATTTAGTTAGCTTTTAAACAAAGACTTCTCAC
1 TTAGAGTTTTTATTTAGTTAGCTTTTAAACAAAGACTTCTCAC
58160497 TTAGAGTTTTTATTTAGTTAGCTTTTAAACAAAGACTTCTCAC
1 TTAGAGTTTTTATTTAGTTAGCTTTTAAACAAAGACTTCTCAC
58160540 T
1 T
58160541 AGCTCGGAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (43 bp):
TTAGAGTTTTTATTTAGTTAGCTTTTAAACAAAGACTTCTCAC
Found at i:58161798 original size:23 final size:23
Alignment explanation
Indices: 58161763--58161818 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
58161753 TATTCAATTT
58161763 ATAA-AAAATATTATTAA-TATCAA
1 ATAATAAAATATTA--AACTATCAA
58161786 ATAATAAAA-ATTAAACCTATCAA
1 ATAATAAAATATTAAA-CTATCAA
58161809 ATAATAAAAT
1 ATAATAAAAT
58161819 CAAACCCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.07
23 23 0.79
24 4 0.14
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAATAAAATATTAAACTATCAA
Found at i:58161823 original size:22 final size:23
Alignment explanation
Indices: 58161780--58161824 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
58161770 ATATTATTAA
*
58161780 TATCAAATAATAAAAATTAAACC
1 TATCAAATAATAAAAATCAAACC
58161803 TATCAAATAAT-AAAATCAAACC
1 TATCAAATAATAAAAATCAAACC
58161825 CTTTTATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (23 bp):
TATCAAATAATAAAAATCAAACC
Found at i:58162509 original size:14 final size:14
Alignment explanation
Indices: 58162490--58162517 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58162480 GTTCTTCTTC
58162490 CAAATATTTAATTA
1 CAAATATTTAATTA
58162504 CAAATATTTAATTA
1 CAAATATTTAATTA
58162518 TTATATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
CAAATATTTAATTA
Found at i:58162529 original size:21 final size:21
Alignment explanation
Indices: 58162505--58162618 Score: 80
Period size: 21 Copynumber: 5.5 Consensus size: 21
58162495 ATTTAATTAC
58162505 AAATATTTAATTATTATATTT
1 AAATATTTAATTATTATATTT
58162526 AAATATTTAA--A-TATAGTTT
1 AAATATTTAATTATTATA-TTT
* *
58162545 ATATATTCTAATTAAATT-TA-AT
1 AAATATT-TAATT--ATTATATTT
* *
58162567 AAATATTCAA-TATCTA-ATTAC
1 AAATATTTAATTAT-TATATT-T
*
58162588 AAATATTTAATTGTTATATTT
1 AAATATTTAATTATTATATTT
58162609 AAATATTTAA
1 AAATATTTAA
58162619 ATAGAATTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 26
0.67 0.08 0.25
Matches are distributed among these distances:
18 6 0.08
19 12 0.17
20 4 0.06
21 33 0.46
22 12 0.17
24 3 0.04
25 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATATTTAATTATTATATTT
Found at i:58162633 original size:19 final size:19
Alignment explanation
Indices: 58162605--58162648 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
58162595 TAATTGTTAT
58162605 ATTTAAATATT-TAAATAGA
1 ATTTAAATATTCTAAATA-A
* *
58162624 ATTTACATATTCTAATTAA
1 ATTTAAATATTCTAAATAA
58162643 ATTTAA
1 ATTTAA
58162649 TAAATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTAAATATTCTAAATAA
Found at i:58162634 original size:83 final size:82
Alignment explanation
Indices: 58162492--58162669 Score: 286
Period size: 83 Copynumber: 2.1 Consensus size: 82
58162482 TCTTCTTCCA
* * *
58162492 AATATTTAATTACAAATATTTAATTATTATATTTAAATATTTAAATATAGTTTATATATTCTAAT
1 AATA-TTAATTACAAATATTTAATTATTATATTTAAATATTTAAATAGAATTTACATATTCTAAT
58162557 TAAATTTAATAAAT-ATT
65 TAAATTTAATAAATAATT
*
58162574 CAATATCTAATTACAAATATTTAATTGTTATATTTAAATATTTAAATAGAATTTACATATTCTAA
1 -AATAT-TAATTACAAATATTTAATTATTATATTTAAATATTTAAATAGAATTTACATATTCTAA
58162639 TTAAATTTAATAAATAATT
64 TTAAATTTAATAAATAATT
58162658 AATATTAATTAC
1 AATATTAATTAC
58162670 TTAGAAATGT
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
82 8 0.09
83 78 0.88
84 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (82 bp):
AATATTAATTACAAATATTTAATTATTATATTTAAATATTTAAATAGAATTTACATATTCTAATT
AAATTTAATAAATAATT
Found at i:58162653 original size:41 final size:41
Alignment explanation
Indices: 58162525--58162667 Score: 125
Period size: 41 Copynumber: 3.5 Consensus size: 41
58162515 TTATTATATT
* *
58162525 TAAATATTTAAATATAGTTTATATATTCTAATTAAATTTAA
1 TAAATATTTAAATATAATTTACATATTCTAATTAAATTTAA
* * * *
58162566 TAAATATTCAATATCTAA-TTACAAATATT-TAATT--GTTATATT
1 TAAATATTTAA-ATATAATTTAC--ATATTCTAATTAAATT-TA-A
*
58162608 TAAATATTTAAATAGAATTTACATATTCTAATTAAATTTAA
1 TAAATATTTAAATATAATTTACATATTCTAATTAAATTTAA
*
58162649 TAAATAATT-AATATTAATT
1 TAAATATTTAAATA-TAATT
58162668 ACTTAGAAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
40 11 0.14
41 36 0.46
42 25 0.32
43 7 0.09
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (41 bp):
TAAATATTTAAATATAATTTACATATTCTAATTAAATTTAA
Found at i:58165011 original size:19 final size:19
Alignment explanation
Indices: 58164982--58165029 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
58164972 ATAGAAAATT
58164982 ATTTA-AAAA-TTATTAAGA
1 ATTTATAAAATTTATTAA-A
*
58165000 ATTTATAAAATTTATTTAA
1 ATTTATAAAATTTATTAAA
58165019 ATTTATTAAAA
1 ATTTA-TAAAA
58165030 ATAACATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 11 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATTTATAAAATTTATTAAA
Found at i:58165333 original size:25 final size:28
Alignment explanation
Indices: 58165304--58165360 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
58165294 AATCAAGTTA
58165304 ATAAATCTT-A-TTTTAT-TAATTTATT
1 ATAAATCTTAATTTTTATATAATTTATT
*
58165329 ATAAATCTTAATTTTTTTATAATTTATT
1 ATAAATCTTAATTTTTATATAATTTATT
58165357 ATAA
1 ATAA
58165361 TTCAACCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 9 0.32
26 1 0.04
27 5 0.18
28 13 0.46
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (28 bp):
ATAAATCTTAATTTTTATATAATTTATT
Found at i:58168453 original size:15 final size:16
Alignment explanation
Indices: 58168426--58168455 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58168416 ATATATTAAA
58168426 ATATATCAAAATATAT
1 ATATATCAAAATATAT
58168442 ATATAT-AAAATATA
1 ATATATCAAAATATA
58168456 CAAAAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATATCAAAATATAT
Found at i:58168467 original size:24 final size:24
Alignment explanation
Indices: 58168416--58168468 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
58168406 CTTCTCATTC
*
58168416 ATATATTAAAATATATCAAAATAT
1 ATATATTAAAATATATCAAAATAA
58168440 ATATATATAAAATATA-CAAAA-AGA
1 ATATAT-TAAAATATATCAAAATA-A
58168464 ATATA
1 ATATA
58168469 CAAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 1 0.04
24 16 0.62
25 9 0.35
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (24 bp):
ATATATTAAAATATATCAAAATAA
Found at i:58168484 original size:15 final size:13
Alignment explanation
Indices: 58168448--58168477 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
58168438 ATATATATAT
58168448 AAAATATACAAAA
1 AAAATATACAAAA
*
58168461 AGAATATACAAAA
1 AAAATATACAAAA
58168474 AAAA
1 AAAA
58168478 ATAATACCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAATATACAAAA
Found at i:58169262 original size:20 final size:20
Alignment explanation
Indices: 58169239--58169313 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
58169229 TATTAATATC
* *
58169239 ATATTATGCATATTTTTTAA
1 ATATTATGTATATATTTTAA
* *
58169259 ATATTATATATATATTTTAC
1 ATATTATGTATATATTTTAA
58169279 ATATTATGTATATA-TTTAA
1 ATATTATGTATATATTTTAA
*
58169298 TGTATTATGTATATAT
1 -ATATTATGTATATAT
58169314 ATTATGTACG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
19 4 0.09
20 42 0.91
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTATATATTTTAA
Found at i:58169294 original size:31 final size:31
Alignment explanation
Indices: 58169225--58169321 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 31
58169215 ATATTACATA
* * *
58169225 TATATATTAATATCATATTATGCATATTTTT
1 TATATATTAATATCATATTATACATATTATG
* *
58169256 TAAATATTATATAT-ATATTTTACATATTATG
1 TATATATTA-ATATCATATTATACATATTATG
* *
58169287 TATATATTTAATGT-ATTATGTATATATATTATG
1 TATATA-TTAATATCA-TAT-TATACATATTATG
58169320 TA
1 TA
58169322 CGTACGTTTC
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
31 30 0.57
32 10 0.19
33 13 0.25
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (31 bp):
TATATATTAATATCATATTATACATATTATG
Found at i:58169312 original size:22 final size:22
Alignment explanation
Indices: 58169214--58169316 Score: 74
Period size: 20 Copynumber: 4.9 Consensus size: 22
58169204 TATTATGCTC
** *
58169214 CATATTACATATATATATTAATAT
1 CATATTATGTATATATATT--TAA
* *
58169238 CATATTATGCATAT-TTTTTAA
1 CATATTATGTATATATATTTAA
*
58169259 -ATATTA--TATATATATTTTA
1 CATATTATGTATATATATTTAA
58169278 CATATTATG--TATATATTTAA
1 CATATTATGTATATATATTTAA
**
58169298 TGTATTATGTATATATATT
1 CATATTATGTATATATATT
58169317 ATGTACGTAC
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
18 4 0.06
19 5 0.08
20 29 0.47
21 2 0.03
22 8 0.13
23 3 0.05
24 11 0.18
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (22 bp):
CATATTATGTATATATATTTAA
Found at i:58169316 original size:42 final size:42
Alignment explanation
Indices: 58169222--58169313 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 42
58169212 TCCATATTAC
*
58169222 ATATATATATTAATATCATATTATGCATATTTTTTAAATATT
1 ATATATATATTAATATCATATTATGCATATTATTTAAATATT
* * *
58169264 ATATATATATT-TTA-CATATTATGTATA-TATTTAATGTATT
1 ATATATATATTAATATCATATTATGCATATTATTTAA-ATATT
*
58169304 ATGTATATAT
1 ATATATATAT
58169314 ATTATGTACG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
39 6 0.14
40 25 0.57
41 2 0.05
42 11 0.25
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (42 bp):
ATATATATATTAATATCATATTATGCATATTATTTAAATATT
Found at i:58169736 original size:3 final size:3
Alignment explanation
Indices: 58169730--58169758 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
58169720 CTAATATCAC
58169730 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
58169759 CTGTATTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:58172020 original size:19 final size:19
Alignment explanation
Indices: 58171998--58172043 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
58171988 ATTCCTTTAT
*
58171998 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
58172017 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
58172036 TTTGCATT
1 TTTGCATT
58172044 AGACTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:58176636 original size:66 final size:66
Alignment explanation
Indices: 58176530--58176659 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 66
58176520 ATTCATATAT
* *
58176530 CATTCATAACACATCCAATTAGAAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGAA
1 CATTCATAACACATCCAATTAGAAGCATTTGATTCATTTCGATCACAGCATCCTAATCATTTGAA
58176595 A
66 A
* * * * * *
58176596 CATTCATAACACATCTAGTTAGGAGCATTTGATTTATTTCGATTACAGTATCCTAATCATTTGA
1 CATTCATAACACATCCAATTAGAAGCATTTGATTCATTTCGATCACAGCATCCTAATCATTTGA
58176660 CATAAGCATA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (66 bp):
CATTCATAACACATCCAATTAGAAGCATTTGATTCATTTCGATCACAGCATCCTAATCATTTGAA
A
Found at i:58176869 original size:87 final size:87
Alignment explanation
Indices: 58176723--58176926 Score: 295
Period size: 87 Copynumber: 2.3 Consensus size: 87
58176713 GAATTCACAA
** * *
58176723 GCCTTAAACCCCTAAATAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTTG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAG
58176788 GGAAACAAATCGAATG-TGAAGG
66 GGAAACAAATCGAA-GATGAAGG
58176810 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAG
* *
58176875 GGAAACAGATCGAAGATGATGG
66 GGAAACAAATCGAAGATGAAGG
** *
58176897 ATCTT-AACACCCTAAGCAGTAGGGAAACAG
1 GCCTTAAAC-CCCTAAGCAGTAGGGTAACAG
58176927 ATCAAAGATG
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
86 4 0.04
87 102 0.96
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (87 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAG
GGAAACAAATCGAAGATGAAGG
Found at i:58176958 original size:131 final size:130
Alignment explanation
Indices: 58176765--58177249 Score: 571
Period size: 131 Copynumber: 3.7 Consensus size: 130
58176755 TGAATTTACA
* * * *
58176765 GATCTTAACCCCCTAAGCAGTTGGGAAACAAATCGAATGTGAAGGGCCTTAAACCCCTAAGCAGT
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-AAAGTGATGGGCCTTAAACCCCTAAGCAGT
*
58176830 AGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAT
65 AGGGTAACAAGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAT
58176895 G
130 G
*
58176896 GATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCCTTAAACCCCTAAGCAGT
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAG-TGATGGGCCTTAAACCCCTAAGCAGT
* * * *
58176961 AGAGTAACAGGCTAAAGTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAT
65 AGGGTAACAAGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAT
58177026 G
130 G
* * * * * * *
58177027 GATTTTAACCCCTTAAGTAGTAGGGAAACAGATCGAAGGTAATGGG-CTTTAACCTCCTAAGTAG
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-AAAGTGATGGGCCTTAAACC-CCTAAGCAG
** * * * * * * *
58177091 TAGGGTAACAAGCCGAATTTACAGACCTTAACCACCTAAGCAGTAGGGTAGCAG-GCTGAA-TTT
64 TAGGGTAACAAGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATG
**
58177154 ACA
128 ATG
* * * *
58177157 GATCTTAACCCCCTAAGCAGTAGGGAAACATATCAGAAGTGATGGGCCTTAAGCTCCTAAGCAAT
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCA-AAGTGATGGGCCTTAAACCCCTAAGCAGT
* * *
58177222 AGGGTCACAAGCTGAAAATTACAAATCT
65 AGGGTAACAAGCT-AAATTTACAGATCT
58177250 CTTCTCCTTG
Statistics
Matches: 300, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
129 1 0.00
130 70 0.23
131 226 0.75
132 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (130 bp):
GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGTGATGGGCCTTAAACCCCTAAGCAGTA
GGGTAACAAGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATG
Found at i:58176987 original size:87 final size:86
Alignment explanation
Indices: 58176855--58177237 Score: 292
Period size: 87 Copynumber: 4.4 Consensus size: 86
58176845 ATTTACAGAT
* * * * ** *
58176855 CTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGATGATGGATCTTAACACCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAAG-TTACAGATCTTAACCCCCTAAGCAGTAG
58176919 GGAAACAGATCAAAGATGATGGGC
64 GGAAACAGATCAAAG-TGATGGGC
* *
58176943 CTTAAACCCCTAAGCAGTAGAGTAACAGGCTAAAGTTACAGATCTTAACCCCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGTTACAGATCTTAACCCCCTAAGCAGTAGGG
* *
58177008 AAACAGATCGAAGGTGAT-GGA
66 AAACAGATC-AAAGTGATGGGC
* * * * * * ** * *
58177029 TTTTAACCCCTTAAGTAGTAGGGAAACA-GATCGAAGGTA-ATGGGCTTTAACCTCCTAAGTAGT
1 CTTAAACCCC-TAAGCAGTAGGGTAACAGGCT-GAAGTTACA-GATC-TTAACCCCCTAAGCAGT
* * * * * ** *
58177092 AGGGTAACA-AGCCGAATTTACAGAC
62 AGGGAAACAGA-TCAAAGTGATGGGC
* *
58177117 CTT-AACCACCTAAGCAGTAGGGTAGCAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
1 CTTAAACC-CCTAAGCAGTAGGGTAACAGGCTGAAGTTACAGATCTTAACCCCCTAAGCAGTAGG
*
58177181 GAAACATATCAGAAGTGATGGGC
65 GAAACAGATCA-AAGTGATGGGC
* * * * *
58177204 CTTAAGCTCCTAAGCAATAGGGTCACAAGCTGAA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA
58177238 AATTACAAAT
Statistics
Matches: 224, Mismatches: 57, Indels: 29
0.72 0.18 0.09
Matches are distributed among these distances:
86 37 0.17
87 121 0.54
88 64 0.29
89 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (86 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGTTACAGATCTTAACCCCCTAAGCAGTAGGG
AAACAGATCAAAGTGATGGGC
Found at i:58177064 original size:44 final size:43
Alignment explanation
Indices: 58176769--58177100 Score: 236
Period size: 44 Copynumber: 7.6 Consensus size: 43
58176759 TTTACAGATC
* * * * **
58176769 TTAACCCCCTAAGCAGTTGGGAAACAAATCGAATGTGAAGGGCCT
1 TTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGGTG-ATGGATT
* * * * ** * ** *
58176814 TAAACCCCTAAGCAGTAGGGTAACAG-GCTAAATTTACAGATC
1 TTAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGATT
* *
58176856 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGATC
1 TTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGATT
* * **
58176900 TTAACACCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCCT
1 TTAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGGTGAT-GGATT
* * * * * * * ** *
58176945 TAAACCCCTAAGCAGTAGAGTAACAG-GCTAAAGTTACAGATC
1 TTAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGATT
58176987 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGATT
1 TTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGATT
* * **
58177031 TTAACCCCTTAAGTAGTAGGGAAACAGATCGAAGGTAATGGGCT
1 TTAACCCC-TAAGCAGTAGGGAAACAGATCGAAGGTGATGGATT
* *
58177075 TTAACCTCCTAAGTAGTAGGGTAACA
1 TTAACC-CCTAAGCAGTAGGGAAACA
58177101 AGCCGAATTT
Statistics
Matches: 224, Mismatches: 55, Indels: 17
0.76 0.19 0.06
Matches are distributed among these distances:
42 9 0.04
43 55 0.25
44 149 0.67
45 11 0.05
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (43 bp):
TTAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGATT
Found at i:58178244 original size:15 final size:16
Alignment explanation
Indices: 58178217--58178246 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58178207 ATATATTAAA
58178217 ATATATCAAAATATAT
1 ATATATCAAAATATAT
58178233 ATATAT-AAAATATA
1 ATATATCAAAATATA
58178247 CAAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATATCAAAATATAT
Found at i:58179083 original size:37 final size:39
Alignment explanation
Indices: 58179000--58179094 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 39
58178990 CATATTACAT
*
58179000 ATATATATATATATTAATATCATATTATGCATATTTTTTAA
1 ATAT-TATATATATT-ATATCATATTATGCATATTATTTAA
*
58179041 ATATTATATATATT-TAT-ATATTATGTATA-TATTTAA
1 ATATTATATATATTATATCATATTATGCATATTATTTAA
* *
58179077 TGTATTATGTATA-TATAT
1 -ATATTATATATATTATAT
58179095 TATGTACGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 7 0.15
37 24 0.50
38 3 0.06
40 10 0.21
41 4 0.08
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (39 bp):
ATATTATATATATTATATCATATTATGCATATTATTTAA
Found at i:58179084 original size:20 final size:19
Alignment explanation
Indices: 58178998--58179097 Score: 80
Period size: 20 Copynumber: 5.1 Consensus size: 19
58178988 TCCATATTAC
*
58178998 ATATA-TATATATATATTAAT
1 ATATATTATGTATATATT--T
* *
58179018 ATCATATTATGCATATTTTTT
1 AT-ATATTATGTATA-TATTT
*
58179039 AAATATTA--TATATATTT
1 ATATATTATGTATATATTT
58179056 ATATATTATGTATATATTT
1 ATATATTATGTATATATTT
*
58179075 AATGTATTATGTATATATATT
1 -ATATATTATGTATATAT-TT
58179096 AT
1 AT
58179098 GTACGTACGT
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
17 11 0.17
18 3 0.05
19 9 0.14
20 26 0.40
21 7 0.11
22 6 0.09
23 3 0.05
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (19 bp):
ATATATTATGTATATATTT
Found at i:58179559 original size:22 final size:23
Alignment explanation
Indices: 58179512--58179570 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
58179502 CTAATATCAC
*
58179512 TATTATTATT-TTTTATTGCTAT
1 TATTATTATTATTTTATTACTAT
58179534 TATTATTATTATTATT-TTACTA-
1 TATTATTATTATT-TTATTACTAT
58179556 TATTACTT-TTATTTT
1 TATTA-TTATTATTTT
58179571 CACTGCTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 2 0.06
22 20 0.61
23 9 0.27
24 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (23 bp):
TATTATTATTATTTTATTACTAT
Found at i:58179559 original size:25 final size:26
Alignment explanation
Indices: 58179512--58179568 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
58179502 CTAATATCAC
* *
58179512 TATTATTATTTTTTATTGCTATTA-T
1 TATTATTATTTTTTACTGATATTACT
58179537 TATTATTATTATTTTACT-ATATTACT
1 TATTATTATT-TTTTACTGATATTACT
58179563 T-TTATT
1 TATTATT
58179569 TTCACTGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (26 bp):
TATTATTATTTTTTACTGATATTACT
Found at i:58181818 original size:19 final size:19
Alignment explanation
Indices: 58181794--58181839 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
58181784 CTTCCTTTCT
*
58181794 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
58181813 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
58181832 TTTGCATT
1 TTTGCATT
58181840 AGACTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:58185443 original size:39 final size:39
Alignment explanation
Indices: 58185399--58185476 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
58185389 AATGAAGAAG
58185399 TATGCTACGTCTTGGGGCATCGACAAAGTACTCTGGATC
1 TATGCTACGTCTTGGGGCATCGACAAAGTACTCTGGATC
*
58185438 TATGCTACGTCTTGGGGCATTGACAAAGTACTCTGGATC
1 TATGCTACGTCTTGGGGCATCGACAAAGTACTCTGGATC
58185477 CCCTAAACAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (39 bp):
TATGCTACGTCTTGGGGCATCGACAAAGTACTCTGGATC
Found at i:58186455 original size:43 final size:43
Alignment explanation
Indices: 58186341--58186455 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
58186331 ATACCTTAAC
* * * *
58186341 CCTTAACCCCCTGAGTAGTAGGGTAGCAAGCCAAATTTACAGA
1 CCTTAACCCCCTAAGAAGTAGGGTAACAGGCCAAATTTACAGA
* ** *
58186384 CCTTAACCCCTTAAGAAGTAGGGTAACAGGCTGAATTTATAGA
1 CCTTAACCCCCTAAGAAGTAGGGTAACAGGCCAAATTTACAGA
* * *
58186427 TCTTAACCCCCTAAGCAGTAGGGAAACAG
1 CCTTAACCCCCTAAGAAGTAGGGTAACAG
58186456 ATCAAAAGTG
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (43 bp):
CCTTAACCCCCTAAGAAGTAGGGTAACAGGCCAAATTTACAGA
Found at i:58187472 original size:10 final size:11
Alignment explanation
Indices: 58187457--58187494 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
58187447 CTTCTCATTG
58187457 ATATAT-TAAA
1 ATATATATAAA
*
58187467 ATATATCAAAAA
1 ATATAT-ATAAA
58187479 ATATATATAAA
1 ATATATATAAA
58187490 ATATA
1 ATATA
58187495 CAAAACAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 6 0.25
11 9 0.38
12 9 0.38
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
ATATATATAAA
Found at i:58187479 original size:12 final size:12
Alignment explanation
Indices: 58187464--58187504 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
58187454 TTGATATATT
58187464 AAAATATATCAA
1 AAAATATATCAA
*
58187476 AAAATATAT-AT
1 AAAATATATCAA
58187487 AAAATATA-CAA
1 AAAATATATCAA
58187498 AACAATA
1 AA-AATA
58187505 ATACCTTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 12 0.48
12 13 0.52
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATATATCAA
Found at i:58188302 original size:17 final size:17
Alignment explanation
Indices: 58188277--58188311 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58188267 ATGCATATTT
58188277 TTTAAATATTATATATA
1 TTTAAATATTATATATA
* *
58188294 TTTATATATTATGTATA
1 TTTAAATATTATATATA
58188311 T
1 T
58188312 ATATTATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTAAATATTATATATA
Found at i:58188314 original size:13 final size:13
Alignment explanation
Indices: 58188296--58188321 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58188286 TATATATATT
58188296 TATATATTATGTA
1 TATATATTATGTA
58188309 TATATATTATGTA
1 TATATATTATGTA
58188322 CGTACGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TATATATTATGTA
Found at i:58188735 original size:3 final size:3
Alignment explanation
Indices: 58188729--58188769 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
58188719 CTAATATCTC
58188729 TAT TAT TAT T-T T-T TAT TGA- TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT T
58188770 TTACTATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 5 0.14
3 29 0.83
4 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:58188778 original size:28 final size:28
Alignment explanation
Indices: 58188729--58188788 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
58188719 CTAATATCTC
*
58188729 TATTATTATTTTTTATTGATATTA-TTAT
1 TATTATTATTTTTTACTGATATTACTT-T
58188757 TATTATTATTATTTTACT-ATATTACTTT
1 TATTATTATT-TTTTACTGATATTACTTT
58188785 TATT
1 TATT
58188789 TTCACTGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (28 bp):
TATTATTATTTTTTACTGATATTACTTT
Found at i:58196538 original size:27 final size:27
Alignment explanation
Indices: 58196508--58196601 Score: 170
Period size: 27 Copynumber: 3.5 Consensus size: 27
58196498 TTGTCACATT
58196508 TCACTTTGCCATATTTGGCACACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
*
58196535 TCACTTTGCCATGTTTGGCACACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
*
58196562 TCACTTTGCCATGTTTGGCACACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
58196589 TCACTTTGCCATA
1 TCACTTTGCCATA
58196602 GTTCAACTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (27 bp):
TCACTTTGCCATATTTGGCACACTTTA
Found at i:58205219 original size:17 final size:17
Alignment explanation
Indices: 58205194--58205228 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58205184 GTAATTTTCA
*
58205194 ATATTAAATTTATTATT
1 ATATCAAATTTATTATT
*
58205211 ATATCAAATTTTTTATT
1 ATATCAAATTTATTATT
58205228 A
1 A
58205229 CAATAATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATCAAATTTATTATT
Found at i:58219414 original size:21 final size:21
Alignment explanation
Indices: 58219388--58219428 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58219378 TCCAGCAACC
*
58219388 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
58219409 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
58219429 CTGTCCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:58227855 original size:21 final size:21
Alignment explanation
Indices: 58227815--58227855 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58227805 AAATATTAAA
*
58227815 AATAACAAGAACAAGGAAAGC
1 AATAACAAGAACAAGCAAAGC
58227836 AATAACAA-AACTAAGCAAAG
1 AATAACAAGAAC-AAGCAAAG
58227856 AATGAGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.63, C:0.15, G:0.15, T:0.07
Consensus pattern (21 bp):
AATAACAAGAACAAGCAAAGC
Found at i:58231971 original size:15 final size:14
Alignment explanation
Indices: 58231933--58231987 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 14
58231923 ATTATAATTT
58231933 TTAAAAAATAAAAAA
1 TTAAAAAAT-AAAAA
58231948 TTATGAAAAATAAAAA
1 TTA--AAAAATAAAAA
58231964 TTCAAAAAATAAAAA
1 TT-AAAAAATAAAAA
58231979 TATAAAAAA
1 T-TAAAAAA
58231988 AATCAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
15 21 0.58
16 8 0.22
17 7 0.19
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (14 bp):
TTAAAAAATAAAAA
Found at i:58231989 original size:17 final size:17
Alignment explanation
Indices: 58231935--58231990 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
58231925 TATAATTTTT
*
58231935 AAAAAATAAAAA-ATTAT
1 AAAAAATAAAAATA-TAA
* *
58231952 GAAAAATAAAAAT-T-C
1 AAAAAATAAAAATATAA
58231967 AAAAAATAAAAATATAA
1 AAAAAATAAAAATATAA
58231984 AAAAAAT
1 AAAAAAT
58231991 CAATTTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 12 0.38
16 2 0.06
17 18 0.56
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAATAAAAATATAA
Found at i:58234486 original size:18 final size:18
Alignment explanation
Indices: 58234460--58234500 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
58234450 TTACCAGACT
*
58234460 TAAACATAAACATTCATA
1 TAAAAATAAACATTCATA
58234478 TAAAAATAAACATTCATA
1 TAAAAATAAACATTCATA
58234496 TAAAA
1 TAAAA
58234501 CTGAATCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAATAAACATTCATA
Found at i:58239172 original size:21 final size:22
Alignment explanation
Indices: 58239146--58239196 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
58239136 GCTCTAGTTT
*
58239146 CCACACGCCT-GTGTCACTTAC
1 CCACACGCCTCATGTCACTTAC
58239167 CCACACG-CTCATGTCACTTAC
1 CCACACGCCTCATGTCACTTAC
58239188 CCACACGCC
1 CCACACGCC
58239197 CGTATGCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.22, C:0.47, G:0.12, T:0.20
Consensus pattern (22 bp):
CCACACGCCTCATGTCACTTAC
Found at i:58246852 original size:47 final size:46
Alignment explanation
Indices: 58246734--58246858 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 46
58246724 GGATGGTTGA
* *
58246734 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTAGAGATGCGAAT
*
58246782 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTAGAGATGCGAA-T
58246825 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
58246859 ACTTATGGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.03
43 6 0.09
44 2 0.03
45 1 0.01
46 28 0.41
47 29 0.42
48 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTAGAGATGCGAAT
Found at i:58246893 original size:93 final size:93
Alignment explanation
Indices: 58246734--58246904 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
58246724 GGATGGTTGA
*
58246734 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAGT
58246799 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
58246827 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAGT
*
58246892 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
58246905 TCTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58246911 original size:46 final size:46
Alignment explanation
Indices: 58246737--58246912 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
58246727 TGGTTGAGCA
* *
58246737 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
58246783 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
58246828 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
58246876 TCTGAGCTCGTTGAGTTGAGTCTGAGTTCTCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58246913 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:58254313 original size:11 final size:10
Alignment explanation
Indices: 58254297--58254337 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
58254287 TGAGTATTAG
58254297 TTTTATTTATT
1 TTTTATTT-TT
58254308 TTTTATTTTAT
1 TTTTATTTT-T
58254319 TTTTATTTTT
1 TTTTATTTTT
58254329 ATTTTATTT
1 -TTTTATTT
58254338 GGTTAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.07
11 26 0.93
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:58254329 original size:17 final size:16
Alignment explanation
Indices: 58254297--58254337 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
58254287 TGAGTATTAG
58254297 TTTTATTTATTTTTTA
1 TTTTATTTATTTTTTA
*
58254313 TTTTATTTTTATTTTTA
1 TTTTATTTAT-TTTTTA
58254330 TTTTATTT
1 TTTTATTT
58254338 GGTTAAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTATTTATTTTTTA
Found at i:58256478 original size:47 final size:47
Alignment explanation
Indices: 58256269--58256469 Score: 188
Period size: 47 Copynumber: 4.2 Consensus size: 47
58256259 TGCACATAGT
* * ** * *
58256269 CACATATCACACACTGAAGCCATAGCCTAGCCATGGTCTTACA-GGGAT
1 CACATATCACAC-C-GATGCCATAGCCCAGATATGGTCTTACACGGAAG
* * **
58256317 CACATATCACACTGATGCCATATCCCAGATATGGTCTTACATTGAAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTACACGGAAG
* * * * *
58256364 GACATATCATACCGATGCCATATCACAGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTACACGGAAG
* * * * *
58256411 CTCATATCCCACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTACACGG-AAG
58256459 CACATATCACA
1 CACATATCACA
58256470 TGTTGCCATG
Statistics
Matches: 125, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
46 23 0.18
47 79 0.63
48 23 0.18
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (47 bp):
CACATATCACACCGATGCCATAGCCCAGATATGGTCTTACACGGAAG
Found at i:58257509 original size:67 final size:67
Alignment explanation
Indices: 58257398--58257593 Score: 338
Period size: 67 Copynumber: 2.9 Consensus size: 67
58257388 TCTCTTTTGT
* * *
58257398 TGATTTTCTTGCCCAAACCGTCCAGCCCATATAATTTGGGTCTAAGTGCCTTTAAATCCCTCCTT
1 TGATTTTCTTGCCCAAACCGTCCAGCCCATAAAATTTGGGTCTAATTGCCTTTAAATCCCTCATT
58257463 GC
66 GC
* *
58257465 TGATTTTCTTGCCCAAACTGTCCAGCCCATAAAATTTGGATCTAATTGCCTTTAAATCCCTCATT
1 TGATTTTCTTGCCCAAACCGTCCAGCCCATAAAATTTGGGTCTAATTGCCTTTAAATCCCTCATT
58257530 GC
66 GC
*
58257532 TGATTTTCTTGCCCAAACCGTCCAGCCCATAAAATTTGGGTCTAATTTCCTTTAAATCCCTC
1 TGATTTTCTTGCCCAAACCGTCCAGCCCATAAAATTTGGGTCTAATTGCCTTTAAATCCCTC
58257594 TTTATTAGTC
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 121 1.00
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (67 bp):
TGATTTTCTTGCCCAAACCGTCCAGCCCATAAAATTTGGGTCTAATTGCCTTTAAATCCCTCATT
GC
Found at i:58267017 original size:83 final size:83
Alignment explanation
Indices: 58266867--58267085 Score: 330
Period size: 83 Copynumber: 2.6 Consensus size: 83
58266857 AATAAGCCTG
* * * *
58266867 CTAGACCTTTAAGTCCGATATCATTTTACCGGCATTACACCTACTAGGCTCGGAGCCCGATAATA
1 CTAGACCTTTAAGTCCGATATCATTTCA-CGGCATTACGCCTGCTAGGCTCAGAGCCCGATAATA
58266932 TTCACCAGCTTAAAGATTA
65 TTCACCAGCTTAAAGATTA
* *
58266951 CTGGACCTTTAAGTCCGATATCATTTCACGGCATTACGCCTGCTAGGCTCAGAGCCCGATACTAT
1 CTAGACCTTTAAGTCCGATATCATTTCACGGCATTACGCCTGCTAGGCTCAGAGCCCGATAATAT
* *
58267016 TCACCAGCTTAAAGCTTG
66 TCACCAGCTTAAAGATTA
* *
58267034 CTAGACCTTTAAGTCCGATATCATTTCACTGGTATTATGCCTGCTAGGCTCA
1 CTAGACCTTTAAGTCCGATATCATTTCAC-GGCATTACGCCTGCTAGGCTCA
58267086 AAACCCGAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
83 77 0.63
84 46 0.37
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (83 bp):
CTAGACCTTTAAGTCCGATATCATTTCACGGCATTACGCCTGCTAGGCTCAGAGCCCGATAATAT
TCACCAGCTTAAAGATTA
Found at i:58267053 original size:42 final size:41
Alignment explanation
Indices: 58266923--58267054 Score: 101
Period size: 41 Copynumber: 3.2 Consensus size: 41
58266913 GGCTCGGAGC
* * *
58266923 CCGATAATATTCACCAGCTTAAAGATTACTGGACCTTTAAGT
1 CCGAT-ATATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGT
* * * * * *
58266965 CCGATATCATTTCA-CGGCATT-ACGCCTGCTAG-GC-TCAGAGC
1 CCGATAT-A-TTCACCAGC-TTAAAGCTTGCTAGACCTTTA-AGT
58267006 CCGATACTATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGT
1 CCGATA-TATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGT
58267048 CCGATAT
1 CCGATAT
58267055 CATTTCACTG
Statistics
Matches: 66, Mismatches: 15, Indels: 19
0.66 0.15 0.19
Matches are distributed among these distances:
40 8 0.12
41 25 0.38
42 25 0.38
43 8 0.12
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (41 bp):
CCGATATATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGT
Found at i:58267486 original size:24 final size:24
Alignment explanation
Indices: 58267458--58267509 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
58267448 AACTAAATAA
58267458 AATTAACATTCTCTTTGCCATATT
1 AATTAACATTCTCTTTGCCATATT
58267482 AATTAACATTCTCTTTGCCATATT
1 AATTAACATTCTCTTTGCCATATT
58267506 AATT
1 AATT
58267510 TAACTCTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (24 bp):
AATTAACATTCTCTTTGCCATATT
Found at i:58269024 original size:14 final size:15
Alignment explanation
Indices: 58268995--58269024 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58268985 CAAAATTAAG
58268995 ACATGATACTTTCAC
1 ACATGATACTTTCAC
58269010 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
58269024 A
1 A
58269025 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:58274059 original size:112 final size:112
Alignment explanation
Indices: 58273862--58274084 Score: 383
Period size: 112 Copynumber: 2.0 Consensus size: 112
58273852 AACTGGTCAA
*
58273862 GATTTTAGCTCGCGGGATTAAACAGTTGAGAAATAAAGATGTGGCTTTGGTAAAGGTTTTATGAC
1 GATTTTAGCTCGCGAGATTAAACAGTTGAGAAATAAAGATGTGGCTTTGGTAAAGGTTTTATGAC
*
58273927 ATCAACACAGTGTAGAAGAAGCTACATGGGAATCGGAAGAAACCATT
66 ATCAACACAGTGTAGAAGAAGCTACATGGGAACCGGAAGAAACCATT
* * *
58273974 GATTTTAGCTCGCGAGATTAAATAGTTGAGAAATAAATATGTGGCTTTGGTAAAGGTTTTATGGC
1 GATTTTAGCTCGCGAGATTAAACAGTTGAGAAATAAAGATGTGGCTTTGGTAAAGGTTTTATGAC
* *
58274039 ATCGACACGGTGTAGAAGAAGCTACATGGGAACCGGAAGAAACCAT
66 ATCAACACAGTGTAGAAGAAGCTACATGGGAACCGGAAGAAACCAT
58274085 GAGAAGCCAA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
112 104 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (112 bp):
GATTTTAGCTCGCGAGATTAAACAGTTGAGAAATAAAGATGTGGCTTTGGTAAAGGTTTTATGAC
ATCAACACAGTGTAGAAGAAGCTACATGGGAACCGGAAGAAACCATT
Found at i:58286578 original size:105 final size:104
Alignment explanation
Indices: 58286333--58286578 Score: 235
Period size: 105 Copynumber: 2.3 Consensus size: 104
58286323 GTGTAGGGTT
** * * * * *
58286333 CACACGAGCAAAGGACACAAACATGTGTCTAGGCCATGTAACTCACTATTTGTGACTTAGGACCA
1 CACACGAGCAAA-GACACAGGCGTGTGTCTAGACCGTGTAACTCACTATTTATGACTTAGAACCA
*
58286398 CAAGGCCAAGGACATGGACATGTGCCTAGGCCGTGTGAGG
65 CAAGGCCAAGGACATGGACATGTGCCCAGGCCGTGTGAGG
* * * * * ***
58286438 CACACGGGCAAAGACACGGGTGTGTGTCCAAACCGTGTAACTCACTATTTATTTTTTAGAACCAC
1 CACACGAGCAAAGACACAGGCGTGTGTCTAGACCGTGTAACTCACTATTTATGACTTAGAACCAC
* * * *
58286503 ACGAG-CAGAGGACATAGG-CATGTTCCCGGGCCGTGTGAGT
66 AAG-GCCA-AGGACAT-GGACATGTGCCCAGGCCGTGTGAGG
* * *
58286543 CACACGAGCAAGGGCATAGGCGTGTGTCTAGACCGT
1 CACACGAGCAAAGACACAGGCGTGTGTCTAGACCGT
58286579 CTGAGCCACA
Statistics
Matches: 110, Mismatches: 28, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
104 43 0.39
105 65 0.59
106 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (104 bp):
CACACGAGCAAAGACACAGGCGTGTGTCTAGACCGTGTAACTCACTATTTATGACTTAGAACCAC
AAGGCCAAGGACATGGACATGTGCCCAGGCCGTGTGAGG
Found at i:58288480 original size:42 final size:42
Alignment explanation
Indices: 58288418--58288504 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
58288408 ACGGGTTGAG
* *
58288418 ACACGGCCATGTGTCTCAAGTCCGTGAGTTGCACAGGCTAGC
1 ACACGGCCATGTGGCTCAAGTCAGTGAGTTGCACAGGCTAGC
* * *
58288460 ACACGGCCATGTGAGC-CAAGTCAGTGGGTTTCACTGGCTAGC
1 ACACGGCCATGTG-GCTCAAGTCAGTGAGTTGCACAGGCTAGC
58288502 ACA
1 ACA
58288505 TAGCTTACGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.23, C:0.28, G:0.29, T:0.21
Consensus pattern (42 bp):
ACACGGCCATGTGGCTCAAGTCAGTGAGTTGCACAGGCTAGC
Found at i:58289683 original size:30 final size:30
Alignment explanation
Indices: 58289636--58289692 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
58289626 CAACTAAACC
**
58289636 TAAATTTTTAACTTAAAAAAT-AGAATGAT
1 TAAATTTTTAAAATAAAAAATGAGAATGAT
*
58289665 TAAATTCTTTAAAATAAAATATGAGAAT
1 TAAATT-TTTAAAATAAAAAATGAGAAT
58289693 TAAATTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 6 0.26
30 12 0.52
31 5 0.22
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (30 bp):
TAAATTTTTAAAATAAAAAATGAGAATGAT
Found at i:58291286 original size:23 final size:23
Alignment explanation
Indices: 58291260--58291303 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
58291250 TAAATTTATT
* *
58291260 TTTTAATATTTATTCATTTTGAC
1 TTTTAATATTTAATCAATTTGAC
*
58291283 TTTTAATTTTTAATCAATTTG
1 TTTTAATATTTAATCAATTTG
58291304 TTTTATTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTTAATATTTAATCAATTTGAC
Found at i:58294650 original size:9 final size:9
Alignment explanation
Indices: 58294636--58294663 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
58294626 CAATTTAAAA
58294636 TATTATTTT
1 TATTATTTT
58294645 TATTATTTT
1 TATTATTTT
58294654 TATTATTTT
1 TATTATTTT
58294663 T
1 T
58294664 TAAATGGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TATTATTTT
Found at i:58297806 original size:24 final size:24
Alignment explanation
Indices: 58297779--58297825 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
58297769 ATTGAAATGG
58297779 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
58297803 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
58297826 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:58306869 original size:39 final size:39
Alignment explanation
Indices: 58306825--58306984 Score: 266
Period size: 39 Copynumber: 4.1 Consensus size: 39
58306815 AATTATGTTA
* * *
58306825 CCAGCACAAAGCCTGCAGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
58306864 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
58306903 CCAGCACGAAGACTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
58306942 CTAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
58306981 CCAG
1 CCAG
58306985 TGTCTTGCTT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:58311417 original size:21 final size:21
Alignment explanation
Indices: 58311391--58311441 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
58311381 ACGACCTGTA
58311391 GCATGTCCCAGGGTCACACGG
1 GCATGTCCCAGGGTCACACGG
58311412 GCATGTCCCAGGGTCACACGG
1 GCATGTCCCAGGGTCACACGG
58311433 GCATGTCCC
1 GCATGTCCC
58311442 TTGGACCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.35, G:0.31, T:0.16
Consensus pattern (21 bp):
GCATGTCCCAGGGTCACACGG
Found at i:58317500 original size:8 final size:8
Alignment explanation
Indices: 58317487--58317517 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
58317477 TATACAATAT
58317487 ATGAATTG
1 ATGAATTG
58317495 ATGAATTG
1 ATGAATTG
58317503 ATGAATTG
1 ATGAATTG
58317511 ATGAATT
1 ATGAATT
58317518 TGGAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (8 bp):
ATGAATTG
Found at i:58319367 original size:27 final size:27
Alignment explanation
Indices: 58319325--58319389 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
58319315 TTGGGTTCCT
* * * *
58319325 TTGGGTCTCGGGTTTGGGCCATTGTAG
1 TTGGGTCTAGGATTTGGGCCATTGCAA
58319352 TTGGGTCTAGGATTTGGGCCATTGCAA
1 TTGGGTCTAGGATTTGGGCCATTGCAA
*
58319379 TTAGGTCTAGG
1 TTGGGTCTAGG
58319390 TTTATTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.14, C:0.14, G:0.37, T:0.35
Consensus pattern (27 bp):
TTGGGTCTAGGATTTGGGCCATTGCAA
Found at i:58319512 original size:13 final size:16
Alignment explanation
Indices: 58319482--58319513 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58319472 AATTTGGATC
58319482 TTTTATTTGTGTGTTT
1 TTTTATTTGTGTGTTT
58319498 TTTTATTT-TG-GTTT
1 TTTTATTTGTGTGTTT
58319512 TT
1 TT
58319514 AATTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.06, C:0.00, G:0.16, T:0.78
Consensus pattern (16 bp):
TTTTATTTGTGTGTTT
Found at i:58320003 original size:176 final size:176
Alignment explanation
Indices: 58319683--58320009 Score: 422
Period size: 176 Copynumber: 1.9 Consensus size: 176
58319673 ACTGGTGGTC
* * **
58319683 TAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCATCCTTGATCTGTTCCACAACTGT
1 TAAATCTGCTCCATTACCAATACATGGAGATAAGATTCGCCATCCTTGATCTGCTCCACAACTAC
* * * * **
58319748 TTAGAAAAATAAGATCTTCAATCTGCAGTCTGCTTCCTTGCTACTTCAGGAATATAAGACTTGCA
66 TTAGAAAAATAAGATCTTCAACCTGCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACCAGCA
* **
58319813 TCTTGAACCTGCTCCATTGCCACTTCAGGGAGACAAGGCTTGGGCT
131 GCTAAAACCTGCTCCATTGCCACTTCAGGGAGACAAGGCTTGGGCT
* * *
58319859 TAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCC-TCTTTCGATCTGCTCCACTACTA
1 TAAATCTGCTCCATTACCAATACATGGAGATAAGATTCGCCATCCTT-GATCTGCTCCACAACTA
** * ** *
58319923 CTTAGGGAGATAAGATCTTCAACCTTTAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACCAGT
65 CTTAGAAAAATAAGATCTTCAACCTGCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACCAGC
* *
58319988 GGCTAAAATCTGCTCCATTGCC
130 AGCTAAAACCTGCTCCATTGCC
58320010 GATACATGGA
Statistics
Matches: 126, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
175 4 0.03
176 122 0.97
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (176 bp):
TAAATCTGCTCCATTACCAATACATGGAGATAAGATTCGCCATCCTTGATCTGCTCCACAACTAC
TTAGAAAAATAAGATCTTCAACCTGCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACCAGCA
GCTAAAACCTGCTCCATTGCCACTTCAGGGAGACAAGGCTTGGGCT
Found at i:58320022 original size:133 final size:133
Alignment explanation
Indices: 58319855--58320116 Score: 461
Period size: 133 Copynumber: 2.0 Consensus size: 133
58319845 ACAAGGCTTG
*
58319855 GGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCTCTTTCGATCTGCTCCACTA
1 GGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCTCTTTCGATCTGCTCCACTA
*
58319920 CTACTTAGGGAGATAAGATCTTCAACCTTTAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACC
66 CTACTTAGGGAGATAAGATCTTCAACCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACC
58319985 AGT
131 AGT
* *
58319988 GGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGGTTCGCCTCTTTCGATCTGCTCCACTA
1 GGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCTCTTTCGATCTGCTCCACTA
* * *
58320053 CTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
66 CTACTTAGGGAGATAAGATCTTCAACCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGAC
58320117 TCAATCTTCA
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 122 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (133 bp):
GGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCTCTTTCGATCTGCTCCACTA
CTACTTAGGGAGATAAGATCTTCAACCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACC
AGT
Found at i:58320124 original size:43 final size:45
Alignment explanation
Indices: 58320063--58320157 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 45
58320053 CTGCTTAGGG
** * *
58320063 AGATAAGATCTTCAATCTTCAGTCTGCTTC-CTTGCTACCTCAGGA
1 AGATAAGATCTTCAATCTTCAACCTG-TTCTCTTACTACCTCAGAA
*
58320108 AGATAAGA-C-TCAATCTTCAACCTGTTCTCTTACTACCTTAGAA
1 AGATAAGATCTTCAATCTTCAACCTGTTCTCTTACTACCTCAGAA
58320151 AGATAAG
1 AGATAAG
58320158 GTTAGTGGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
42 3 0.07
43 32 0.73
44 1 0.02
45 8 0.18
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGTTCTCTTACTACCTCAGAA
Found at i:58320142 original size:176 final size:176
Alignment explanation
Indices: 58319960--58320420 Score: 634
Period size: 176 Copynumber: 2.6 Consensus size: 176
58319950 AGTCTGCTTC
* * *
58319960 CTTACTACCTCAGGAAGATAAGACCAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAA
1 CTTACTACCTCAGAAAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAA
*
58320025 GGTTCGCCTCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGC
66 GATTCGCCTCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGC
*
58320090 TTCCTTGCTACCTCAGGAAGATAAGACTCA-ATCTTCAACCTGTTCT
131 TTCCTTGCTACCTCAGGAAGATAAGAC-CACATCTTCAACCTGCTCT
* * * * *
58320136 CTTACTACCTTAGAAAGATAAGGTTAGTGGCTTAAATCTGCTCCATTGCTGGTACATGGAGATAA
1 CTTACTACCTCAGAAAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAA
** * * * * * *
58320201 GATTTATCGTCTTT-GGTTTGTTCCACTACTGCTTAGGGAAATAAGACCTTCAATCTTCAGTCTG
66 GA-TTCGCCTCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTG
58320265 CTTCCTTGCTACCTCAGGAAGATAAGACCACCATCTTCAACCTGCTCT
130 CTTCCTTGCTACCTCAGGAAGATAAGACCA-CATCTTCAACCTGCTCT
* * *
58320313 CTTGCTACCTCA-AAGAGATAAGGCTAGTGGCTAAAA------ACATTGCCAATACATGGAGATA
1 CTTACTACCTCAGAA-AGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATA
58320371 AGATTCGCCTCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
65 AGATTCGCCTCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
58320421 GACTTCACCA
Statistics
Matches: 246, Mismatches: 34, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
170 8 0.03
171 51 0.21
175 2 0.01
176 133 0.54
177 52 0.21
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (176 bp):
CTTACTACCTCAGAAAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAA
GATTCGCCTCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGC
TTCCTTGCTACCTCAGGAAGATAAGACCACATCTTCAACCTGCTCT
Found at i:58320228 original size:309 final size:309
Alignment explanation
Indices: 58319684--58320294 Score: 804
Period size: 309 Copynumber: 2.0 Consensus size: 309
58319674 CTGGTGGTCT
* *
58319684 AAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCATCCTTGATCTGTTCCACAACTGTT
1 AAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCATCCTTGATCTGCTCCACAACTGCT
* *
58319749 TAGAAAAATAAGATCTTCAATCTGCAGTCTGCTTCCTTGCTACTTCAGGAATATAAGACTTGCAT
66 TAGAAAAATAAGATCTTCAATCTGCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGCAT
* * **
58319814 CTTGAACCTGCTCCATTGCCACTTCAGGGAGACAAGGCTTGGGCTTAAATCTGCTCCATTGCCAA
131 CTTCAACCTGCTCCATTACCACTTCAGAAAGACAAGGCTTGGGCTTAAATCTGCTCCATTGCCAA
* * *
58319879 TACATGGAGATAAGATTCGCCTCTTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTTCA
196 TACATGGAGATAAGATTAGCCTCTTTCGATCTGCTCCACTACTACTTAGGGAAATAAGACCTTCA
*
58319944 ACCTTTAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACCAGTGGCTA
261 ACCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACCAGTGGCTA
* * * *
58319993 AAATCTGCTCCATTGCCGATACATGGAGATAAGGTTCGCC-TCTTTCGATCTGCTCCACTACTGC
1 AAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCATCCTT-GATCTGCTCCACAACTGC
** * *
58320057 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC-T-CA
65 TTAGAAAAATAAGATCTTCAATCTGCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGC-
* * *
58320120 ATCTTCAACCTGTTCTC-TTACTACCTT-AGAAAGATAAGG-TTAGTGGCTTAAATCTGCTCCAT
129 ATCTTCAACCTGCTC-CATTACCA-CTTCAGAAAGACAAGGCTT-G-GGCTTAAATCTGCTCCAT
*** * * * * * *
58320182 TGCTGGTACATGGAGATAAGATTTATCGTCTTT-GGTTTGTTCCACTACTGCTTAGGGAAATAAG
190 TGCCAATACATGGAGATAAGA-TTAGCCTCTTTCGATCTGCTCCACTACTACTTAGGGAAATAAG
* *
58320246 ACCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACCA
254 ACCTTCAACCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACCA
58320295 CCATCTTCAA
Statistics
Matches: 261, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
307 3 0.01
308 32 0.12
309 218 0.84
310 8 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (309 bp):
AAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCATCCTTGATCTGCTCCACAACTGCT
TAGAAAAATAAGATCTTCAATCTGCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGCAT
CTTCAACCTGCTCCATTACCACTTCAGAAAGACAAGGCTTGGGCTTAAATCTGCTCCATTGCCAA
TACATGGAGATAAGATTAGCCTCTTTCGATCTGCTCCACTACTACTTAGGGAAATAAGACCTTCA
ACCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACCAGTGGCTA
Found at i:58332432 original size:19 final size:21
Alignment explanation
Indices: 58332394--58332432 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
58332384 ATGGATGGAG
58332394 AACAATTGATATAAAAAATAA
1 AACAATTGATATAAAAAATAA
*
58332415 AACAA-TGA-ATAAATAATA
1 AACAATTGATATAAAAAATA
58332433 TGCAACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AACAATTGATATAAAAAATAA
Found at i:58334451 original size:27 final size:27
Alignment explanation
Indices: 58334421--58334473 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
58334411 GGGTCTCGAG
* * *
58334421 TTTGGGCCATTGTAGTTGGGTCTAGGA
1 TTTGGGCCATTGCAATTAGGTCTAGGA
58334448 TTTGGGCCATTGCAATTAGGTCTAGG
1 TTTGGGCCATTGCAATTAGGTCTAGG
58334474 TTTATTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.34, T:0.36
Consensus pattern (27 bp):
TTTGGGCCATTGCAATTAGGTCTAGGA
Found at i:58334609 original size:20 final size:20
Alignment explanation
Indices: 58334566--58334601 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58334556 AATTTGGATC
58334566 TTTTATTTGTGTGTTTTTTT
1 TTTTATTTGTGTGTTTTTTT
58334586 TTTTATTT-TG-GTTTTT
1 TTTTATTTGTGTGTTTTT
58334602 AATTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.38
19 2 0.12
20 8 0.50
ACGTcount: A:0.06, C:0.00, G:0.14, T:0.81
Consensus pattern (20 bp):
TTTTATTTGTGTGTTTTTTT
Found at i:58337663 original size:31 final size:31
Alignment explanation
Indices: 58337628--58337708 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
58337618 CGTTTACAGT
58337628 AAAGGCTTCGGCCCAGTAATAGGAAATATGA
1 AAAGGCTTCGGCCCAGTAATAGGAAATATGA
** *
58337659 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATAGGAAATATGA
58337690 AAAGGGCTAT-GGCCCAGTA
1 AAA-GGCT-TCGGCCCAGTA
58337709 CATGTTGAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 31 0.70
32 12 0.27
33 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATAGGAAATATGA
Found at i:58345173 original size:25 final size:25
Alignment explanation
Indices: 58345144--58345191 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
58345134 TTATAATATG
* * *
58345144 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
58345169 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
58345192 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:58345275 original size:11 final size:11
Alignment explanation
Indices: 58345239--58345294 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
58345229 CATGGTATGT
58345239 ATGATATGCAC
1 ATGATATGCAC
* *
58345250 ATGACATG--T
1 ATGATATGCAC
58345259 ATGATATGCAC
1 ATGATATGCAC
*
58345270 ATGATATG--T
1 ATGATATGCAC
58345279 ATGATATGCAC
1 ATGATATGCAC
58345290 ATGAT
1 ATGAT
58345295 GTATCATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:58345294 original size:20 final size:20
Alignment explanation
Indices: 58345228--58345294 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
58345218 ATTTTGATAA
*
58345228 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
58345248 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
58345268 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
58345288 ACATGAT
1 ACATGAT
58345295 GTATCATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:58345308 original size:40 final size:39
Alignment explanation
Indices: 58345228--58345302 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
58345218 ATTTTGATAA
* *
58345228 ACATGGTATGTATGATATGCACATGACATGTATGATATGC
1 ACATGATATGTATGATATGCACATGA-ATGTATCATATGC
58345268 ACATGATATGTATGATATGCACATG-ATGTATCATA
1 ACATGATATGTATGATATGCACATGAATGTATCATA
58345303 AATGCATTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 9 0.27
40 24 0.73
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (39 bp):
ACATGATATGTATGATATGCACATGAATGTATCATATGC
Found at i:58345411 original size:46 final size:47
Alignment explanation
Indices: 58345344--58345439 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
58345334 AGGAAGTGTA
58345344 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
58345390 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
58345437 AAA
1 AAA
58345440 AGAGGCTAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 23 0.47
47 26 0.53
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
Found at i:58345456 original size:25 final size:24
Alignment explanation
Indices: 58345342--58345460 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
58345332 GGAGGAAGTG
58345342 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
58345366 T-AAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
58345389 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
58345412 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
58345436 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
58345461 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 44 0.51
24 32 0.37
25 11 0.13
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:58345691 original size:31 final size:31
Alignment explanation
Indices: 58345653--58345719 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
58345643 CGTTTACAGT
58345653 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
58345684 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
58345715 AAAGG
1 AAAGG
58345720 GCTATGGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:58347051 original size:34 final size:34
Alignment explanation
Indices: 58347003--58347093 Score: 119
Period size: 34 Copynumber: 2.7 Consensus size: 34
58346993 ATCTGATACA
* * *
58347003 GAAATTGAGATGGGCTAAGGCCTGAACTGCTATT
1 GAAACTGAGATGGGCTAAGGCCCGAACTGCTACT
* *
58347037 GAAACTGAGATGGGCTAAGGCCCGAATTGTTACT
1 GAAACTGAGATGGGCTAAGGCCCGAACTGCTACT
* *
58347071 GAAACTGAAATGGGCTTAGGCCC
1 GAAACTGAGATGGGCTAAGGCCC
58347094 AGACTGCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (34 bp):
GAAACTGAGATGGGCTAAGGCCCGAACTGCTACT
Found at i:58353996 original size:5 final size:5
Alignment explanation
Indices: 58353986--58354190 Score: 396
Period size: 5 Copynumber: 41.4 Consensus size: 5
58353976 ATTATTAAAC
58353986 TAATA TAATA TAATA TAATA TAATA T-A-A TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
58354034 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
58354084 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
58354134 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
58354184 TAATA TA
1 TAATA TA
58354191 TTCTTAAATA
Statistics
Matches: 198, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
3 2 0.01
4 2 0.01
5 194 0.98
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:58357147 original size:79 final size:79
Alignment explanation
Indices: 58356992--58357215 Score: 235
Period size: 79 Copynumber: 2.8 Consensus size: 79
58356982 TTGAATGATG
* * * * * *
58356992 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-TCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
58357054 TTTGTGCGGATACTAAA
63 TTTGTGCGGATACTAAA
* *
58357071 TCCGGACTAAGAT-CCGAAGTCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
58357133 TTGTGCGAGTTACTAAA
64 TTGTGCG-GATACTAAA
** * *
58357150 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
58357215 G
66 G
58357216 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
78 18 0.15
79 79 0.64
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGGATACTAAA
Found at i:58357229 original size:40 final size:40
Alignment explanation
Indices: 58356993--58357215 Score: 219
Period size: 40 Copynumber: 5.6 Consensus size: 40
58356983 TGAATGATGT
* * * *
58356993 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
58357033 CCGGACTAAGAT-TCGAAGGCATTTGTGCG-GATACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* * * *
58357071 TCCGGACTAAGAT-CCGAAGTCATTTGTGCGAGATACTA-ATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
58357112 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
58357150 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
58357191 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
58357216 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 64 0.41
40 82 0.52
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:58357237 original size:79 final size:79
Alignment explanation
Indices: 58357065--58357248 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 79
58357055 TTGTGCGGAT
** * *
58357065 ACTAAATCCGGACTAAGAT-CCGAAGTCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
1 ACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAG
** *
58357129 GCATTTGTGCGAGTT
65 GCATTTGAACGAGTG
* * *
58357144 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAA
58357208 GGCATTTGAACGAG-G
64 GGCATTTGAACGAGTG
* *
58357223 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAATCCCGAAGG
58357249 TACGTGATTT
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.68
80 25 0.28
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGG
CATTTGAACGAGTG
Found at i:58365076 original size:79 final size:80
Alignment explanation
Indices: 58364916--58365140 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 80
58364906 TTGAATGATG
* * * * * *
58364916 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
58364979 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
58364996 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
58365057 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
58365075 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
58365140 G
66 G
58365141 AACGAGAGCT
Statistics
Matches: 126, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 46 0.37
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:58365104 original size:40 final size:40
Alignment explanation
Indices: 58364916--58365140 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
58364906 TTGAATGATG
* * * *
58364916 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
58364956 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
58364996 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
58365036 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58365075 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58365116 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58365141 AACGAGAGCT
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58365132 original size:119 final size:120
Alignment explanation
Indices: 58364916--58365140 Score: 291
Period size: 119 Copynumber: 1.9 Consensus size: 120
58364906 TTGAATGATG
*
58364916 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
58364981 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
58365036 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
58365098 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
58365141 AACGAGAGCT
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 3 0.03
119 69 0.75
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:58376861 original size:96 final size:94
Alignment explanation
Indices: 58376730--58377193 Score: 714
Period size: 96 Copynumber: 4.9 Consensus size: 94
58376720 TTAGGATTCT
* * *
58376730 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
58376794 GTGTATATATGTGATAAGGCCTAATGCCCG
65 GTGTATATATGTGATAAGGCCTAATGGCCG
*
58376824 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
58376889 AGTGTATATATATGTGATAAGGCCTAATGGCCG
64 AGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
58376922 ATGGGATGAATGTGAAAGTGTATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
58376987 TGTATATATATGTGATAAGGACTAATGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
58377018 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
58377083 TGTATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATGTGATAAGGCCTAATGGCCG
* * * * * * *
58377112 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
58377177 TGTATAAATGTGATAAG
66 TGTATATATGTGATAAG
58377194 TCCCGAAGGG
Statistics
Matches: 345, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
93 1 0.00
94 117 0.34
96 182 0.53
98 45 0.13
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCG
Found at i:58376874 original size:49 final size:47
Alignment explanation
Indices: 58376730--58377193 Score: 714
Period size: 47 Copynumber: 9.7 Consensus size: 47
58376720 TTAGGATTCT
* * *
58376730 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
58376777 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58376824 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
58376873 ATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
58376922 ATGGGATGAATGTGAAAGTGTATATATGTGAGAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
58376969 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGACTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
58377018 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58377065 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
58377112 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
58377159 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58377194 TCCCGAAGGG
Statistics
Matches: 390, Mismatches: 22, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 251 0.64
49 138 0.35
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:58379499 original size:25 final size:26
Alignment explanation
Indices: 58379451--58379499 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
58379441 TTGTAGAGAG
*
58379451 AAAATTCTCTGAAGAGATTATTCTAT
1 AAAATTCTCTAAAGAGATTATTCTAT
* *
58379477 AAAATT-TCTAAAGATATTTTTCT
1 AAAATTCTCTAAAGAGATTATTCT
58379500 GATTTACAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (26 bp):
AAAATTCTCTAAAGAGATTATTCTAT
Found at i:58381425 original size:94 final size:94
Alignment explanation
Indices: 58381312--58381483 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 94
58381302 CCAAAGCATG
* **
58381312 AGAGCCAGTGTAAGACATGTCTTGGACATGCATCAGCCTC-AAGATATTTAAGCCAGTGTAAGAC
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAA-ATATACAAGCCAGTGTAAGAC
58381376 ATGTCTAGGACATGTATTGACATTGAGACA
65 ATGTCTAGGACATGTATTGACATTGAGACA
* * * * *
58381406 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCAATATACAAGCTAGTGTAAGACC
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAAATATACAAGCCAGTGTAAGACA
*
58381471 TGTCTGGGACATG
66 TGTCTAGGACATG
58381484 GCGTCAGCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
94 67 0.99
95 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (94 bp):
AGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAAATATACAAGCCAGTGTAAGACA
TGTCTAGGACATGTATTGACATTGAGACA
Done.