Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 84 of 297
Found at i:30202220 original size:26 final size:26
Alignment explanation
Indices: 30202191--30202258 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
30202181 CACATCATTG
*
30202191 CTCACACTAGCTGTGAAATAATTCTA
1 CTCACACTAGCTGTGAAATAAGTCTA
* *
30202217 CTCACA-TAAGCTATGAAGTAAGTCTA
1 CTCACACT-AGCTGTGAAATAAGTCTA
*
30202243 CTCACACGAGCTGTGA
1 CTCACACTAGCTGTGA
30202259 GTCGAAATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.03
26 34 0.97
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (26 bp):
CTCACACTAGCTGTGAAATAAGTCTA
Found at i:30205740 original size:56 final size:56
Alignment explanation
Indices: 30205640--30205833 Score: 235
Period size: 57 Copynumber: 3.4 Consensus size: 56
30205630 TCCCAGATAG
* * ** * * *
30205640 GGTCTTACTCACACACACATATAATGGGTCACATATCAATGCCAACATATTAAACAT
1 GGTCTTACTCGCACACACATATCA-GATTCACATATCGATGCCAACGTATTAAACGT
*
30205697 GGTCTTACTCGCACACATATATCAGATTCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGATTCACATATCGATGCCAACGTATTAAACGT
* * * * *
30205753 GGTCTTACTCGCACATTACATAACGGATTCATATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACA-CACATATCAGATTCACATATCGATGCCAACGTATTAAACGT
*
30205810 GGTCTTACTCGTACATCACATATC
1 GGTCTTACTCGCACA-CACATATC
30205834 GGAATCCTAT
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
56 42 0.35
57 77 0.65
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCAGATTCACATATCGATGCCAACGTATTAAACGT
Found at i:30215657 original size:61 final size:61
Alignment explanation
Indices: 30215576--30215698 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
30215566 CTCAAGTCAT
*
30215576 TTAATATAACTTCAAGCTTCATATTATACCATAAAACATCAAAATAACCACATTTCACCTA
1 TTAACATAACTTCAAGCTTCATATTATACCATAAAACATCAAAATAACCACATTTCACCTA
*
30215637 TTAACATAACTTCAGGCTTCATATTATACCATAAAACATCAAAATAACCACATTTCACCTA
1 TTAACATAACTTCAAGCTTCATATTATACCATAAAACATCAAAATAACCACATTTCACCTA
30215698 T
1 T
30215699 GGTTATTTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.31
Consensus pattern (61 bp):
TTAACATAACTTCAAGCTTCATATTATACCATAAAACATCAAAATAACCACATTTCACCTA
Found at i:30217289 original size:19 final size:19
Alignment explanation
Indices: 30217265--30217303 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30217255 TAAGTTAGTT
30217265 TATTTTATAAAGTGGTACA
1 TATTTTATAAAGTGGTACA
30217284 TATTTTATAAAGTGGTACA
1 TATTTTATAAAGTGGTACA
30217303 T
1 T
30217304 TGAAAAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TATTTTATAAAGTGGTACA
Found at i:30218108 original size:32 final size:32
Alignment explanation
Indices: 30218066--30218166 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 32
30218056 ATGCGGCTCT
*
30218066 AAGCCTTCAGTAGCGGTATTATAATTGGCACA
1 AAGCCATCAGTAGCGGTATTATAATTGGCACA
* * ** *
30218098 AAGCCATCAGTAACTGTATTATGTTTGACACA
1 AAGCCATCAGTAGCGGTATTATAATTGGCACA
* * *
30218130 TAGCCATCAGT-GACGGTAATATAATCGGCACA
1 AAGCCATCAGTAG-CGGTATTATAATTGGCACA
*
30218162 TAGCC
1 AAGCC
30218167 TTGGGTAAAT
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (32 bp):
AAGCCATCAGTAGCGGTATTATAATTGGCACA
Found at i:30218612 original size:27 final size:27
Alignment explanation
Indices: 30218597--30218668 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
30218587 AACCTACAGA
*
30218597 GGTATTTTGGTAATTTTACACTATAAG
1 GGTATTTTGGTAATTTTACACTACAAG
****
30218624 GGTATTTCAACAATTTTACACTACAAG
1 GGTATTTTGGTAATTTTACACTACAAG
30218651 GGTATTTTGGTAATTTTA
1 GGTATTTTGGTAATTTTA
30218669 AAAACTGGGG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACACTACAAG
Found at i:30225355 original size:27 final size:27
Alignment explanation
Indices: 30225308--30225407 Score: 87
Period size: 27 Copynumber: 3.7 Consensus size: 27
30225298 ATATTACACG
**
30225308 ATAATTTTA-AAATTTGAGGGTATTTCA
1 ATAATTTTACAAATCAG-GGGTATTTCA
* **
30225335 ATAAATTTACAAATCAGGGGTATTTTT
1 ATAATTTTACAAATCAGGGGTATTTCA
* * * *
30225362 GTAATTTTACAAATTAGAGATATTTCA
1 ATAATTTTACAAATCAGGGGTATTTCA
30225389 GA-AATTTTACAAATCAGGG
1 -ATAATTTTACAAATCAGGG
30225408 TTTTAACAAC
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
27 51 0.91
28 5 0.09
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
ATAATTTTACAAATCAGGGGTATTTCA
Found at i:30230394 original size:93 final size:93
Alignment explanation
Indices: 30230282--30230453 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30230272 CGCCCATAAG
* *
30230282 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30230347 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
30230375 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30230440 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30230454 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30230450 original size:46 final size:46
Alignment explanation
Indices: 30230275--30230450 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30230265 TGTAACCCGC
* * *
30230275 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30230321 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30230371 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30230414 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30230451 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30237970 original size:93 final size:93
Alignment explanation
Indices: 30237858--30238029 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30237848 CGCCCATAAG
* *
30237858 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30237923 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
30237951 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30238016 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30238030 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30238026 original size:46 final size:46
Alignment explanation
Indices: 30237851--30238026 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30237841 TGTAACCCGC
* * *
30237851 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30237897 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30237947 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30237990 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30238027 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30242339 original size:55 final size:55
Alignment explanation
Indices: 30242184--30242390 Score: 215
Period size: 53 Copynumber: 3.8 Consensus size: 55
30242174 TTCCTTTTTA
* * *
30242184 AACTTACCAATGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCGTTAT-G-
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGT
* * * * *
30242237 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGT
** * * * * *
30242292 AGTTTATCAATGCCATGTCTTGACATGGTCTTATC-TGATTTCCTTGCCTTGTA-T
1 AACTTACCAATGCCATGCCTTGACATGGTCTTA-CATGGTATCCTTGCCTTATAGT
* * *
30242346 AACTTACCAATTCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
30242391 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
53 45 0.37
54 37 0.30
55 39 0.32
56 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (55 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGT
Found at i:30243646 original size:12 final size:12
Alignment explanation
Indices: 30243629--30243655 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30243619 TAGTTGCTCC
30243629 ATCAGTGTAGCT
1 ATCAGTGTAGCT
30243641 ATCAGTGTAGCT
1 ATCAGTGTAGCT
30243653 ATC
1 ATC
30243656 TTTGAGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (12 bp):
ATCAGTGTAGCT
Found at i:30246028 original size:25 final size:28
Alignment explanation
Indices: 30245977--30246031 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 28
30245967 TTATCGCTAT
* *
30245977 TATGTGTTGAATGATTGATTTTTAATAA
1 TATGTGTTGAATGATTGATTATGAATAA
30246005 TATG-GTTGAAT-A-TGATTATGAATAA
1 TATGTGTTGAATGATTGATTATGAATAA
30246030 TA
1 TA
30246032 CATGATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.52
26 1 0.04
27 7 0.28
28 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (28 bp):
TATGTGTTGAATGATTGATTATGAATAA
Found at i:30249343 original size:29 final size:29
Alignment explanation
Indices: 30249272--30249373 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
30249262 ACCCCTACAT
* *
30249272 ACATGCATATGGCCCA-CTTGGCCCAA-TC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
* * *
30249300 TCATTTATATGGCCCATCAGGCCTAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* *
30249329 ACATTCATATTGCCCATCAGGCCCAATTT
1 ACATTCATATGGCCCATCAGGCCCAATTC
*
30249358 AGATTCATATGGCCCA
1 ACATTCATATGGCCCA
30249374 CATCACATGC
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
28 19 0.32
29 41 0.68
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:30256546 original size:40 final size:40
Alignment explanation
Indices: 30256465--30256566 Score: 134
Period size: 40 Copynumber: 2.6 Consensus size: 40
30256455 CAACCAAGTA
** * * * *
30256465 CCTTCGGGGTTTAG-CCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
*
30256504 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
30256544 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
30256567 CATCCGAGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 12 0.22
40 43 0.78
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
Found at i:30262826 original size:28 final size:27
Alignment explanation
Indices: 30262782--30262877 Score: 131
Period size: 28 Copynumber: 3.4 Consensus size: 27
30262772 ACACACATGC
30262782 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCA-TAGGCCCAATCTCATTT
*
30262810 ATATGGCCCATATGGCCCAAT-TCACGTTC
1 ATATGGCCCATA-GGCCCAATCTCA--TTT
30262839 ATATGGCCCATCAGGCCCAATCTCATTT
1 ATATGGCCCAT-AGGCCCAATCTCATTT
30262867 ATATGGCCCAT
1 ATATGGCCCAT
30262878 CGAGCCCATT
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
27 5 0.08
28 31 0.51
29 21 0.34
30 4 0.07
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (27 bp):
ATATGGCCCATAGGCCCAATCTCATTT
Found at i:30266683 original size:48 final size:47
Alignment explanation
Indices: 30266624--30266782 Score: 165
Period size: 48 Copynumber: 3.3 Consensus size: 47
30266614 GATATGTGCG
* *
30266624 AGTGTAAGACCATGTTTGGGTCATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCAT-GGCCACGACATGAGAGCC
* * * * * **
30266672 AGTGTAAGACCATGTTTGGGACATGGCATTGACATTGAGACGAGAGGT
1 AGTGTAAGACCATGTTTGGGACATGGCATGGCCA-CGACATGAGAGCC
* ** * *
30266720 AGTGTAAGACCATGTTTGGGACATGCCATTGGCTTCAACATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCA-TGGCCACGACATGAGAGCC
30266768 AGTGTAAGACCATGT
1 AGTGTAAGACCATGT
30266783 CTCAGACATG
Statistics
Matches: 89, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
47 3 0.03
48 84 0.94
49 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGGACATGGCATGGCCACGACATGAGAGCC
Found at i:30272751 original size:16 final size:17
Alignment explanation
Indices: 30272730--30272762 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30272720 GTTTACAGTA
30272730 CAAACA-AACAAAATTT
1 CAAACATAACAAAATTT
*
30272746 CAAACATATCAAAATTT
1 CAAACATAACAAAATTT
30272763 GTATAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (17 bp):
CAAACATAACAAAATTT
Found at i:30275072 original size:21 final size:20
Alignment explanation
Indices: 30275034--30275073 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
30275024 TACATGTGTG
30275034 TTTTGATGATTTATGATAGA
1 TTTTGATGATTTATGATAGA
30275054 TTTTGAATG-TTTGATGATAG
1 TTTTG-ATGATTT-ATGATAG
30275074 CTGTACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.50
Consensus pattern (20 bp):
TTTTGATGATTTATGATAGA
Found at i:30288439 original size:12 final size:12
Alignment explanation
Indices: 30288422--30288458 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
30288412 ATAATTTGGA
*
30288422 TGTTATTGTTAT
1 TGTTATTATTAT
30288434 TGTTATTATTAT
1 TGTTATTATTAT
*
30288446 TTTTATTATTAT
1 TGTTATTATTAT
30288458 T
1 T
30288459 TCGTAGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (12 bp):
TGTTATTATTAT
Found at i:30290238 original size:26 final size:26
Alignment explanation
Indices: 30290209--30290266 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
30290199 ATTTACTAAA
*
30290209 ATACCCAAAGTATG-AAAATTACCATT
1 ATACCCAAAG-ATGCAAAATGACCATT
** *
30290235 ATACCCCTAGGTGCAAAATGACCATT
1 ATACCCAAAGATGCAAAATGACCATT
30290261 ATACCC
1 ATACCC
30290267 TTAGGGTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (26 bp):
ATACCCAAAGATGCAAAATGACCATT
Found at i:30290443 original size:28 final size:27
Alignment explanation
Indices: 30290373--30290488 Score: 126
Period size: 28 Copynumber: 4.3 Consensus size: 27
30290363 TGGAGGAAGC
* *
30290373 GTTCTGGTGGCTCTACCATAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
30290400 GTTCTAGTGGCTCTGCCACAAATTTTT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
30290427 GTTTCTGGTGGCCCTGCCACAATTATCT
1 G-TTCTGGTGGCTCTGCCACAAATATCT
* *
30290455 GTATCTGGTGACTCTGTCAC-AATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
30290482 GTTCTGG
1 GTTCTGG
30290489 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
26 5 0.07
27 32 0.44
28 36 0.49
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:30304412 original size:18 final size:17
Alignment explanation
Indices: 30304391--30304445 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
30304381 AAAATTCTTT
30304391 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
*
30304409 TCTCTTCATCTATTT-TC
1 TCTCTTCTTCT-TTTCTC
30304426 TCTTCTTCTTCTTTTC-C
1 TC-TCTTCTTCTTTTCTC
30304443 TCT
1 TCT
30304446 ATAGCCGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 19 0.59
19 3 0.09
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Found at i:30306054 original size:28 final size:26
Alignment explanation
Indices: 30305963--30306068 Score: 72
Period size: 28 Copynumber: 3.7 Consensus size: 26
30305953 ACTTGTAATA
* *
30305963 GGGCTACGGCCCAAATTGATACTGATAT
1 GGGCTA-GGCCCAGATTAATA-TGATAT
30305991 GGGCTAGGCCCA-ATATAATATGATATTGT
1 GGGCTAGGCCCAGAT-TAATATGATA---T
30306020 AAGGGGCTATGGCCCAGATTAATATTGATAT
1 ---GGGCTA-GGCCCAGATTAATA-TGATAT
30306051 GGGCTAAGGCCCAG-TTAA
1 GGGCT-AGGCCCAGATTAA
30306069 CTCTAATTTC
Statistics
Matches: 66, Mismatches: 1, Indels: 23
0.73 0.01 0.26
Matches are distributed among these distances:
26 7 0.11
27 14 0.21
28 18 0.27
29 2 0.03
31 1 0.02
32 6 0.09
33 11 0.17
34 7 0.11
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (26 bp):
GGGCTAGGCCCAGATTAATATGATAT
Found at i:30309540 original size:49 final size:49
Alignment explanation
Indices: 30309415--30310416 Score: 1863
Period size: 49 Copynumber: 20.6 Consensus size: 49
30309405 CCCTTCGGGA
* * * * * *
30309415 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
* * *
30309462 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
*
30309509 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30309558 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30309607 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30309656 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30309705 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30309754 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30309803 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30309852 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30309901 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30309950 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30309999 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30310048 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30310097 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30310146 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30310195 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30310244 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30310293 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
*
30310342 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
30310391 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
30310417 CACAATTATC
Statistics
Matches: 940, Mismatches: 11, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 50 0.05
49 889 0.95
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
Found at i:30313067 original size:47 final size:47
Alignment explanation
Indices: 30313013--30313203 Score: 265
Period size: 47 Copynumber: 4.1 Consensus size: 47
30313003 TTAGGATTTT
** * *
30313013 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
30313060 ATGTGATGGATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30313107 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
30313154 ATGTGGTGAATATGAACATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30313201 ATG
1 ATG
30313204 CGAAATATGT
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:30313162 original size:25 final size:25
Alignment explanation
Indices: 30313087--30313162 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
30313077 ATGCATATAT
30313087 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
30313112 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
30313134 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
30313159 GTGA
1 GTGA
30313163 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:30313233 original size:48 final size:48
Alignment explanation
Indices: 30313176--30313366 Score: 240
Period size: 48 Copynumber: 3.8 Consensus size: 48
30313166 TGAACATGTA
*
30313176 TATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
30313224 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
30313272 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG------A-A-ATATGTATGAGATATG
* *
30313328 TATATGTTGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
30313367 GGTGATGTGC
Statistics
Matches: 124, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
47 1 0.01
48 79 0.64
49 1 0.01
50 1 0.01
54 1 0.01
55 1 0.01
56 39 0.31
57 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:30313322 original size:56 final size:56
Alignment explanation
Indices: 30313256--30313363 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
30313246 CTAATGTGAA
* *
30313256 ATATGTATGAGATATGCATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATAT
1 ATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATAT
* * *
30313312 ATATATATGAGATATGTATATGTTGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
30313364 GTAGGTGATG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 45 0.98
57 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (56 bp):
ATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAT
Found at i:30313621 original size:37 final size:37
Alignment explanation
Indices: 30313513--30313621 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
30313503 CGAAATATAT
*
30313513 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
30313550 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* **
30313587 TCCGGGTAAGACCCGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
30313622 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:30314782 original size:25 final size:25
Alignment explanation
Indices: 30314754--30314826 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
30314744 AGCGTTATGA
30314754 CTATAAATGTGATTTTTGTATGTGG
1 CTATAAATGTGATTTTTGTATGTGG
* * *
30314779 CTATGAAA---GA---GTGT-TATGA
1 CTAT-AAATGTGATTTTTGTATGTGG
30314798 CTATAAATGTGATTTTTGTATGTGG
1 CTATAAATGTGATTTTTGTATGTGG
30314823 CTAT
1 CTAT
30314827 GGAACTGGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 16
0.61 0.11 0.29
Matches are distributed among these distances:
18 3 0.09
19 7 0.21
20 3 0.09
21 2 0.06
23 2 0.06
24 3 0.09
25 11 0.32
26 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.44
Consensus pattern (25 bp):
CTATAAATGTGATTTTTGTATGTGG
Found at i:30314787 original size:44 final size:44
Alignment explanation
Indices: 30314738--30314827 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
30314728 GATGCAATTT
30314738 TGAAAGAGCGTTATGACTATAAATGTGATTTTTGTATGTGGCTA
1 TGAAAGAGCGTTATGACTATAAATGTGATTTTTGTATGTGGCTA
*
30314782 TGAAAGAGTGTTATGACTATAAATGTGATTTTTGTATGTGGCTA
1 TGAAAGAGCGTTATGACTATAAATGTGATTTTTGTATGTGGCTA
30314826 TG
1 TG
30314828 GAACTGGAAA
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:0.29, C:0.06, G:0.26, T:0.40
Consensus pattern (44 bp):
TGAAAGAGCGTTATGACTATAAATGTGATTTTTGTATGTGGCTA
Found at i:30315217 original size:40 final size:40
Alignment explanation
Indices: 30314934--30315205 Score: 400
Period size: 40 Copynumber: 6.8 Consensus size: 40
30314924 GAGAATTGAG
30314934 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
30314974 AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
30315014 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30315054 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
30315094 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** *
30315134 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
30315174 GGTGTTATATCCGGGCTAGGTCCCAAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
30315206 ATCATGCTGG
Statistics
Matches: 206, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 206 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:30319408 original size:47 final size:47
Alignment explanation
Indices: 30319354--30319497 Score: 171
Period size: 47 Copynumber: 3.1 Consensus size: 47
30319344 TTAGGATTTT
** *
30319354 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
30319401 ATGTGATGAATGTGAGCATGCATCTGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
30319448 ATGTGGTGAATATGAACATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
30319495 ATG
1 ATG
30319498 CGAAATATGT
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:30319634 original size:98 final size:96
Alignment explanation
Indices: 30319471--30319654 Score: 282
Period size: 98 Copynumber: 1.9 Consensus size: 96
30319461 GAACATGTAT
*
30319471 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATATATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAGATATATATATGTGGTAAAGCCGA
30319536 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
30319567 ATATGTGGTAAAGCCGAATGG-TCAAT-CTGAAATATATATATGAGATATGTATATGTGGTAAAT
1 ATATGTGGTAAAGCCGAATGGCT-AATGC-G-AA-ATATATATGAGATATATATATGTGGTAAAG
*
30319630 CCGAATGGCTAGTGTGAAATATGTA
62 CCGAATGGCTAATGTGAAATATGTA
30319655 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
95 2 0.03
96 25 0.31
97 2 0.03
98 51 0.64
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAGATATATATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:30319670 original size:50 final size:48
Alignment explanation
Indices: 30319470--30319654 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
30319460 TGAACATGTA
* *
30319470 TATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
30319518 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
30319566 CATATGTGGTAAAGCCGAATGG-TCAATCTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
30319616 TATATGTGGTAAATCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
30319655 GGCGATGTGC
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
47 1 0.01
48 78 0.63
49 4 0.03
50 39 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:30319851 original size:37 final size:37
Alignment explanation
Indices: 30319801--30319908 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
30319791 GGAAATATAT
30319801 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
30319838 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
30319875 TCCAGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
30319909 TCGTCTGAGC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:30322420 original size:56 final size:56
Alignment explanation
Indices: 30322360--30322591 Score: 383
Period size: 56 Copynumber: 4.1 Consensus size: 56
30322350 TCCTAGATAG
* * * *
30322360 GGTCTTACTCGCATACACATATCAGAGTCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
30322416 GGTCTTACTCGCACCCATATATCAGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
30322472 GGTCTTACTCGTACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
*
30322528 AGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
30322584 GGTCTTAC
1 GGTCTTAC
30322592 ACATAATCAC
Statistics
Matches: 162, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 162 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:30322533 original size:112 final size:112
Alignment explanation
Indices: 30322329--30322591 Score: 386
Period size: 112 Copynumber: 2.3 Consensus size: 112
30322319 TCTTACATGT
* ** * *
30322329 AATCACATATCGATGCCACTGTCCTAGATA-G-GGTCTTACTCGCATACACATATCAGAGTCACA
1 AATCACATATCGATGCCAATGTATTA-A-ACGTGGTCTTACTCGCACACACATATCAGAATCACA
* * *
30322392 TATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACCCATATATCAG
64 TATCGATGCCAACGTATTAAACGTAGTCTTACTCGCACACATATATCAG
* * *
30322441 AATCACATATCGATGCCAATGTATTAAACGTGGTCTTACTCGTACACATATATCGGAATCACATA
1 AATCACATATCGATGCCAATGTATTAAACGTGGTCTTACTCGCACACACATATCAGAATCACATA
30322506 TCGATGCCAACGTATTAAACGTAGTCTTACTCGCACACATATATCAG
66 TCGATGCCAACGTATTAAACGTAGTCTTACTCGCACACATATATCAG
*
30322553 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTAC
1 AATCACATATCGATGCCAATGTATTAAACGTGGTCTTAC
30322592 ACATAATCAC
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
110 1 0.01
111 2 0.01
112 134 0.98
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (112 bp):
AATCACATATCGATGCCAATGTATTAAACGTGGTCTTACTCGCACACACATATCAGAATCACATA
TCGATGCCAACGTATTAAACGTAGTCTTACTCGCACACATATATCAG
Found at i:30325589 original size:35 final size:35
Alignment explanation
Indices: 30325550--30325619 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
30325540 GTGATATGTT
30325550 TGTTAAAATGAGGTTAATACAAAGAAAGTGGGAAA
1 TGTTAAAATGAGGTTAATACAAAGAAAGTGGGAAA
*
30325585 TGTTAAAATGAGGTTAATACAAAGAAAGTGTGAAA
1 TGTTAAAATGAGGTTAATACAAAGAAAGTGGGAAA
30325620 GAGTGAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.49, C:0.03, G:0.24, T:0.24
Consensus pattern (35 bp):
TGTTAAAATGAGGTTAATACAAAGAAAGTGGGAAA
Found at i:30329778 original size:50 final size:49
Alignment explanation
Indices: 30329665--30329847 Score: 172
Period size: 51 Copynumber: 3.7 Consensus size: 49
30329655 CTAGTACGCA
* **
30329665 TAGTAGCTTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCTTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
* * *
30329714 TAGTAGCCTACACTTAGTACTACACATGTGACTTCACCA-TCTAATACACG
1 TAGTAGCTTGCACTTAGTACTACACATGTGAC--CAACAGTCTAATACACG
* * *** * *
30329764 TAGTAGCTTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCTTGCACTTAGTACTACACATGTGACCAACAG---TCTAATACACG
* *
30329815 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCTTGCACTTAGTACTACACATGTGACC
30329848 TGACAATAGA
Statistics
Matches: 108, Mismatches: 20, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 29 0.27
50 37 0.34
51 39 0.36
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCTTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
Found at i:30330677 original size:30 final size:30
Alignment explanation
Indices: 30330641--30330700 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30330631 AATTCTCACT
30330641 CTAACATGTACTTATGACATTAGGTATTTC
1 CTAACATGTACTTATGACATTAGGTATTTC
30330671 CTAACATGTACTTATGACATTAGGTATTTC
1 CTAACATGTACTTATGACATTAGGTATTTC
30330701 TACCGATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (30 bp):
CTAACATGTACTTATGACATTAGGTATTTC
Found at i:30341924 original size:28 final size:28
Alignment explanation
Indices: 30341892--30341961 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
30341882 ATAGTAAGTC
30341892 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
* *
30341920 CGCACACTTAATGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
30341948 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30341962 CAATCTCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 33 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:30353302 original size:24 final size:24
Alignment explanation
Indices: 30353267--30353318 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
30353257 GAGTTCAAGC
30353267 GAGCCATATCAGGAAGCCCAT-AA
1 GAGCCATATCAGGAAGCCCATGAA
* *
30353290 GAGCCTATATCAGGATGCTCATGAA
1 GAGCC-ATATCAGGAAGCCCATGAA
30353315 GAGC
1 GAGC
30353319 TGCGTTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCCCATGAA
Found at i:30355501 original size:16 final size:16
Alignment explanation
Indices: 30355455--30355502 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
30355445 AAACTTTTGA
**
30355455 CTTTTCAGCATTTCAA
1 CTTTTCAGCATTTCGG
** *
30355471 CTTTTTTGCGTTTCGG
1 CTTTTCAGCATTTCGG
30355487 CTTTTCAGCATTTCGG
1 CTTTTCAGCATTTCGG
30355503 GATTTATTGA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.23, G:0.17, T:0.48
Consensus pattern (16 bp):
CTTTTCAGCATTTCGG
Found at i:30367561 original size:46 final size:46
Alignment explanation
Indices: 30367508--30367683 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
30367498 TATTTGGGCA
*
30367508 TCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * * * * *
30367554 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ATG
* * *
30367601 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30367647 CCCGAGCTCGTTGAGTTGAGTCCGTGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30367684 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 35 0.34
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30367666 original size:93 final size:93
Alignment explanation
Indices: 30367507--30367675 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
30367497 ATATTTGGGC
* * *
30367507 ATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTAGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
30367572 AGTCCGAGTTCGAGAGATGTAACTAGGT
66 AGTCCGAGTTCGAGAGATGTAACTAGGT
* * *
30367600 ATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTAGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
*
30367665 AGTCCGTGTTC
66 AGTCCGAGTTC
30367676 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
ATCCGAACTAGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGAGAGATGTAACTAGGT
Found at i:30370657 original size:15 final size:16
Alignment explanation
Indices: 30370611--30370658 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
30370601 TAGTATCGTA
*
30370611 TCTTGGGTTTCTTTA-
1 TCTTGGATTTCTTTAT
30370626 TCTTGGATCTT-TTTAT
1 TCTTGGAT-TTCTTTAT
30370642 TC-TGGATTTCTTTAT
1 TCTTGGATTTCTTTAT
30370657 TC
1 TC
30370659 GATTTTCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 2 0.07
15 23 0.79
16 4 0.14
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.60
Consensus pattern (16 bp):
TCTTGGATTTCTTTAT
Found at i:30373106 original size:46 final size:46
Alignment explanation
Indices: 30373053--30373227 Score: 305
Period size: 46 Copynumber: 3.8 Consensus size: 46
30373043 TATTTGGGCA
30373053 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
30373099 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
30373145 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
30373191 CCCGAGCTCATTGAGTTGTGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30373228 GCGGGTTACA
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 124 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30376242 original size:27 final size:27
Alignment explanation
Indices: 30376194--30376391 Score: 204
Period size: 27 Copynumber: 7.3 Consensus size: 27
30376184 TACTGAAATG
*
30376194 CCCTCGATTTTGTAGAATTACCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
* * *
30376222 CCCTCAATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
30376249 TCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
30376276 CCCTCGATTTATAG-ATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* **
30376302 CCCTCGATTTATAGATTTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
30376329 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
30376356 CCCTC-AGTTTACA-ATATTATCGTTTTA
1 CCCTCGA-TTTATAGA-ATTACCATTTTA
30376383 CCCTCGATT
1 CCCTCGATT
30376392 GTAAAATTAC
Statistics
Matches: 143, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
26 27 0.19
27 109 0.76
28 7 0.05
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:30376278 original size:54 final size:54
Alignment explanation
Indices: 30376209--30376391 Score: 226
Period size: 54 Copynumber: 3.4 Consensus size: 54
30376199 GATTTTGTAG
* * * * *
30376209 AATTACCATTTTACCCTCAATTTATAGAATTACCGTTTCATCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAA
* *
30376263 AATTACCGTTTTACCCTCGATTTATAG-ATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAA
* * * *
30376316 ATTTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGA-TTTACAA
* *
30376370 TATTATCGTTTTACCCTCGATT
1 AATTACCGTTTTACCCTCGATT
30376392 GTAAAATTAC
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 45 0.41
54 65 0.59
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAA
Found at i:30376312 original size:80 final size:81
Alignment explanation
Indices: 30376194--30376391 Score: 256
Period size: 80 Copynumber: 2.4 Consensus size: 81
30376184 TACTGAAATG
* * * *
30376194 CCCTCGATTTTGTAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTCATCCTCGATTT
1 CCCTCGAGTTTATAG-ATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTT
*
30376259 ACAAAATTACCGTTTTA
65 ACAAAATTACCATTTTA
* * *
30376276 CCCTCGA-TTTATAGATTACCATTTTACCCTCGATTTATAGATTTACTGTTTTACCCTCGATTTA
1 CCCTCGAGTTTATAGATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
30376340 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * *
30376356 CCCTC-AGTTTACAATATTATCGTTTTACCCTCGATT
1 CCCTCGAGTTTA-TAGATTACCATTTTACCCTCGATT
30376392 GTAAAATTAC
Statistics
Matches: 103, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 1 0.01
80 69 0.67
81 26 0.25
82 7 0.07
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (81 bp):
CCCTCGAGTTTATAGATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:30376453 original size:27 final size:27
Alignment explanation
Indices: 30376423--30376573 Score: 189
Period size: 27 Copynumber: 5.6 Consensus size: 27
30376413 TGTAGGATAG
*
30376423 AATTACCAAAATACCCCTAGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
30376450 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
30376477 AATTACCAAAATACCACTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
30376504 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
30376531 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
30376558 AATTACAAAAATACCC
1 AATTACCAAAATACCC
30376574 TTGACTTTTT
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.03
27 100 0.93
28 4 0.04
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:30376462 original size:54 final size:52
Alignment explanation
Indices: 30376423--30376656 Score: 200
Period size: 54 Copynumber: 4.3 Consensus size: 52
30376413 TGTAGGATAG
30376423 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCT-GTTTATAAAATTACCAAAATACCCTT-GTTTGTAA
* * * **
30376477 AATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GTTTATAAAATTACCAAAATACCCT-TGTTTGTAA
* * *
30376531 AATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTTTTAAA
1 AATTACCAAAATACCCCTG-TTTATAAAATTACCAAAATACCCTTG--TTTGT-AA
* ** * ** * *
30376587 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAACACCCTTGGTTTGTAG
1 AATTACCA-AAATACCCCT-GTTTATAAAATTACCAAAATACCCTT-GTTTGTAA
* *
30376641 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
30376657 TTGTAGGATG
Statistics
Matches: 145, Mismatches: 26, Indels: 18
0.77 0.14 0.10
Matches are distributed among these distances:
53 1 0.01
54 95 0.66
55 10 0.07
56 37 0.26
57 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (52 bp):
AATTACCAAAATACCCCTGTTTATAAAATTACCAAAATACCCTTGTTTGTAA
Found at i:30376624 original size:27 final size:26
Alignment explanation
Indices: 30376581--30376636 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
30376571 CCCTTGACTT
*
30376581 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAACACCATTGG
*
30376607 TTTACAAAATTACT-GAAACACCCTTGG
1 TTTA-AAAATTA-TAGAAACACCATTGG
30376634 TTT
1 TTT
30376637 GTAGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (26 bp):
TTTAAAAATTATAGAAACACCATTGG
Found at i:30377657 original size:20 final size:20
Alignment explanation
Indices: 30377634--30377712 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
30377624 AATTAGGGGT
* *
30377634 ACCGTAGTGCTATCAAGAGC
1 ACCGTAGTACTATCAGGAGC
* * *
30377654 ACCGTACTACTAACAGGAGT
1 ACCGTAGTACTATCAGGAGC
*
30377674 A-CGAAAGTACTATCAGGAGC
1 ACCG-TAGTACTATCAGGAGC
* *
30377694 ACCGTAGTGCTATTAGGAG
1 ACCGTAGTACTATCAGGAG
30377713 TACGAAAGTA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
19 2 0.04
20 41 0.91
21 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (20 bp):
ACCGTAGTACTATCAGGAGC
Found at i:30377729 original size:20 final size:20
Alignment explanation
Indices: 30377668--30377729 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
30377658 TACTACTAAC
*
30377668 AGGAGTACGAAAGTACTATC
1 AGGAGTACGAAAGTACTATT
* * *
30377688 AGGAGCACCG-TAGTGCTATT
1 AGGAGTA-CGAAAGTACTATT
*
30377708 AGGAGTACGAAAGTACTGTT
1 AGGAGTACGAAAGTACTATT
30377728 AG
1 AG
30377730 TAGCACTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.23
Consensus pattern (20 bp):
AGGAGTACGAAAGTACTATT
Found at i:30377735 original size:40 final size:40
Alignment explanation
Indices: 30377650--30377832 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
30377640 GTGCTATCAA
* * ** *
30377650 GAGCACCGTACTACTAACAGGAGTACGAAAGTACTATCAG
1 GAGCACCGTAGTGCTATTAGGAGTACGAAAGTACTGTCAG
*
30377690 GAGCACCGTAGTGCTATTAGGAGTACGAAAGTACTGTTAG
1 GAGCACCGTAGTGCTATTAGGAGTACGAAAGTACTGTCAG
* ** * * * *
30377730 TAGCACTATAGTGCTATCAAGAGTACAAAAGTA-TCGTTAG
1 GAGCACCGTAGTGCTATTAGGAGTACGAAAGTACT-GTCAG
* * * *
30377770 GAGCATCGTAGTGCT-TTCAAGAGTACGGAAGTACTGCCAG
1 GAGCACCGTAGTGCTATT-AGGAGTACGAAAGTACTGTCAG
*
30377810 GAGCACCGTAGTGCTATGAGGAG
1 GAGCACCGTAGTGCTATTAGGAG
30377833 CACTTATTCG
Statistics
Matches: 115, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 111 0.97
41 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.22
Consensus pattern (40 bp):
GAGCACCGTAGTGCTATTAGGAGTACGAAAGTACTGTCAG
Found at i:30382701 original size:45 final size:45
Alignment explanation
Indices: 30382651--30382740 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
30382641 GTACTTATTT
*
30382651 TTAGGATTGTATATGGTATGCTTGGCATGTAAGAACAATAATTAA
1 TTAGGACTGTATATGGTATGCTTGGCATGTAAGAACAATAATTAA
*
30382696 TTAGGACTGTATATGGTATGCTTGGCATGTAATAACAATAATTAA
1 TTAGGACTGTATATGGTATGCTTGGCATGTAAGAACAATAATTAA
30382741 CCAATTAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (45 bp):
TTAGGACTGTATATGGTATGCTTGGCATGTAAGAACAATAATTAA
Found at i:30390878 original size:54 final size:54
Alignment explanation
Indices: 30390796--30390901 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
30390786 ACACGGACCA
30390796 AAATGATTTCTACCACACCGCTGGCACTCAGGTTTAACAAATCTCGAGTTCCCT
1 AAATGATTTCTACCACACCGCTGGCACTCAGGTTTAACAAATCTCGAGTTCCCT
* *
30390850 AAATGATTTCTACCACACTGCTGGCACTCGGGTTTAACAAATCTCGAGTTCC
1 AAATGATTTCTACCACACCGCTGGCACTCAGGTTTAACAAATCTCGAGTTCC
30390902 TTACACTAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (54 bp):
AAATGATTTCTACCACACCGCTGGCACTCAGGTTTAACAAATCTCGAGTTCCCT
Found at i:30395277 original size:13 final size:13
Alignment explanation
Indices: 30395259--30395283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30395249 AGGTCGTGTA
30395259 AGGGACACGGGCC
1 AGGGACACGGGCC
30395272 AGGGACACGGGC
1 AGGGACACGGGC
30395284 GTGTATTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:30395404 original size:23 final size:23
Alignment explanation
Indices: 30395378--30395437 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
30395368 TGCCCCAGTG
30395378 CACACGGACGTGTGCATTGCCTC
1 CACACGGACGTGTGCATTGCCTC
30395401 CACACGGACGTGTGCATTGCCTC
1 CACACGGACGTGTGCATTGCCTC
30395424 CACACGGACGTGTG
1 CACACGGACGTGTG
30395438 AGGGTTAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.20
Consensus pattern (23 bp):
CACACGGACGTGTGCATTGCCTC
Found at i:30397416 original size:30 final size:31
Alignment explanation
Indices: 30397382--30397494 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 31
30397372 TTAATTTCAT
30397382 AATTTTT-TTGAAATTTAATTCAACTTAGAC
1 AATTTTTGTTGAAATTTAATTCAACTTAGAC
* * ** *
30397412 AATTTTTGTTAATAGACTCATTAATATTTAA-TTTCAT
1 AATTTTTGTTGA-A-A-T--TT-A-ATTCAACTTAGAC
30397449 AATTTTT-TTGAAATTTAATTCAACTTAGAC
1 AATTTTTGTTGAAATTTAATTCAACTTAGAC
30397479 AATTTTTGTT-AAATTT
1 AATTTTTGTTGAAATTT
30397495 TCAAAGTCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
29 5 0.08
30 24 0.38
31 7 0.11
32 1 0.02
33 2 0.03
34 2 0.03
35 1 0.02
36 5 0.08
37 11 0.17
38 5 0.08
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (31 bp):
AATTTTTGTTGAAATTTAATTCAACTTAGAC
Found at i:30397432 original size:67 final size:67
Alignment explanation
Indices: 30397355--30397490 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
30397345 TTTATATGAA
30397355 AATAGACTCATTAATATTTAATTTCATAATTTTTTTGAAATTTAATTCAACTTAGACAATTTTTG
1 AATAGACTCATTAATATTTAATTTCATAATTTTTTTGAAATTTAATTCAACTTAGACAATTTTTG
30397420 TT
66 TT
30397422 AATAGACTCATTAATATTTAATTTCATAATTTTTTTGAAATTTAATTCAACTTAGACAATTTTTG
1 AATAGACTCATTAATATTTAATTTCATAATTTTTTTGAAATTTAATTCAACTTAGACAATTTTTG
30397487 TT
66 TT
30397489 AA
1 AA
30397491 ATTTTCAAAG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (67 bp):
AATAGACTCATTAATATTTAATTTCATAATTTTTTTGAAATTTAATTCAACTTAGACAATTTTTG
TT
Found at i:30397838 original size:49 final size:49
Alignment explanation
Indices: 30397765--30397922 Score: 194
Period size: 49 Copynumber: 3.2 Consensus size: 49
30397755 TAGCTGAAGC
* *
30397765 TATCTGGTACTCATAGTAGCCTGCACTTAGTACTGCACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
30397814 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
*
30397865 TGT-TGGGTACGA-ATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCT-GGTAC-ACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
30397914 TATCCGGTA
1 TATCTGGTA
30397923 AATTCGTACT
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
49 48 0.53
50 3 0.03
51 39 0.43
52 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:30402265 original size:40 final size:39
Alignment explanation
Indices: 30402202--30402386 Score: 214
Period size: 40 Copynumber: 4.7 Consensus size: 39
30402192 TCGGATGATA
* * *
30402202 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGT-ACTAAT
**
30402242 TTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTAAT
* * * *
30402282 TCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTA-TTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTAAT
30402321 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-AT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTAAT
30402360 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
30402387 AGCTAGTGGC
Statistics
Matches: 128, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 37 0.29
40 88 0.69
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTAAT
Found at i:30402400 original size:40 final size:40
Alignment explanation
Indices: 30402199--30402409 Score: 202
Period size: 40 Copynumber: 5.3 Consensus size: 40
30402189 TGTTCGGATG
*
30402199 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGGCT
** *
30402239 A-ATTTCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGCT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
* * ***
30402276 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTATT
1 A-TAA--CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
* **
30402319 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
*
30402358 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
*
30402398 ATATCC-GGCTAA
1 ATAACCGGGCTAA
30402410 ACTCCGAAGG
Statistics
Matches: 143, Mismatches: 18, Indels: 21
0.79 0.10 0.12
Matches are distributed among these distances:
37 4 0.03
39 44 0.31
40 88 0.62
41 4 0.03
42 1 0.01
43 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
Found at i:30402419 original size:79 final size:79
Alignment explanation
Indices: 30402199--30402409 Score: 275
Period size: 79 Copynumber: 2.7 Consensus size: 79
30402189 TGTTCGGATG
* *
30402199 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATTTCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCT-ATATCCGGCTAAGTCCCGAAGGC
30402263 ATTTGTGCAAGCTACT
64 ATTTGTGCAAGCTACT
* ** * ***
30402279 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGC
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAAGTCCCGAAGGC
*
30402342 ATTTGTGCAAGTTACT
64 ATTTGTGCAAGCTACT
30402358 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
30402410 ACTCCGAAGG
Statistics
Matches: 109, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
78 1 0.01
79 75 0.69
80 31 0.28
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCAAGCTACT
Found at i:30407237 original size:20 final size:20
Alignment explanation
Indices: 30407212--30407256 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
30407202 TCAGTCTAAG
30407212 AGAATAATTCAGATTCTCAA
1 AGAATAATTCAGATTCTCAA
30407232 AGAATAATTCAGATTCTCAA
1 AGAATAATTCAGATTCTCAA
30407252 A-AATA
1 AGAATA
30407257 TGCTTCGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (20 bp):
AGAATAATTCAGATTCTCAA
Found at i:30417853 original size:11 final size:11
Alignment explanation
Indices: 30417837--30417861 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30417827 ACAAATGATG
30417837 TCACCAAATTT
1 TCACCAAATTT
30417848 TCACCAAATTT
1 TCACCAAATTT
30417859 TCA
1 TCA
30417862 ATGCGAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (11 bp):
TCACCAAATTT
Found at i:30420495 original size:44 final size:44
Alignment explanation
Indices: 30420427--30420544 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 44
30420417 ACATAGGATT
* * *
30420427 CCGATATGTGATTTCGTGTAAGACCACA-TCTGGGATG-TTGGCA
1 CCGATATGTGATTACATGTAAGACCACAGTCTGGGA-GAGTGGCA
* *
30420470 GCGATTTGTGATTCACATGTAAGACC-CAGTCTGGGAGAGTGGCA
1 CCGATATGTGATT-ACATGTAAGACCACAGTCTGGGAGAGTGGCA
30420514 CCGATATGTGATTACATGTAAGACCAC-GTCT
1 CCGATATGTGATTACATGTAAGACCACAGTCT
30420545 AGGACATTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
43 30 0.47
44 34 0.53
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (44 bp):
CCGATATGTGATTACATGTAAGACCACAGTCTGGGAGAGTGGCA
Found at i:30422975 original size:21 final size:22
Alignment explanation
Indices: 30422949--30422989 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
30422939 CATTTGATAC
30422949 AGGGGC-ACACGCCCGTGTGGA
1 AGGGGCAACACGCCCGTGTGGA
30422970 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
30422990 ATCAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGA
Found at i:30429341 original size:39 final size:39
Alignment explanation
Indices: 30429296--30429414 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 39
30429286 ATGCAAGACA
*
30429296 CTAGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
1 CTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
** *
30429335 CTAGAAACATATCCGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
30429374 CTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
30429413 CT
1 CT
30429415 GGTAATATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.24
Consensus pattern (39 bp):
CTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:30431409 original size:46 final size:48
Alignment explanation
Indices: 30431359--30431449 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 48
30431349 CATTGACTTA
* * *
30431359 CGTCTCGAGGCCGATG-CATGTCCCAAAC-ATGTCTTACATTAGCACT
1 CGTCTCAAGGCCGATGCCATGTCCCAAACAAGGTCTTACACTAGCACT
* *
30431405 CGTCTCAATGCCGATGCCATGTCCCAGACAAGGTCTTACACTAGC
1 CGTCTCAAGGCCGATGCCATGTCCCAAACAAGGTCTTACACTAGC
30431450 TCACACAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
46 14 0.37
47 11 0.29
48 13 0.34
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (48 bp):
CGTCTCAAGGCCGATGCCATGTCCCAAACAAGGTCTTACACTAGCACT
Found at i:30439455 original size:38 final size:38
Alignment explanation
Indices: 30439412--30439490 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
30439402 TTTGACAAAA
*
30439412 TGACCATTTTACCCCTA-GCCCTGAAAATTGATTTTTAT
1 TGACCATTTTACCCCTAGGCCC-GAAAATTAATTTTTAT
30439450 TGACCATTTTACCCCTAGGCCCGAAAATTAATTTTTAT
1 TGACCATTTTACCCCTAGGCCCGAAAATTAATTTTTAT
30439488 TGA
1 TGA
30439491 ATTTTTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 35 0.90
39 4 0.10
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (38 bp):
TGACCATTTTACCCCTAGGCCCGAAAATTAATTTTTAT
Found at i:30449754 original size:40 final size:40
Alignment explanation
Indices: 30449692--30449989 Score: 462
Period size: 40 Copynumber: 7.5 Consensus size: 40
30449682 AAACCAAGTA
* * *
30449692 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
30449731 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30449771 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30449811 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30449851 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
30449891 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
30449931 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
30449971 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30449990 TTATCATCCG
Statistics
Matches: 249, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.06
40 235 0.94
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30459089 original size:39 final size:39
Alignment explanation
Indices: 30459046--30459197 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
30459036 ATGCAAGATA
* *
30459046 CTGGAAATGGATCCGAGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
* * *
30459085 CTGGAAATGTATCTGGGCTAAAGTCCGGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
30459124 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
** *
30459163 CAAGAAATATATCCGGGCTAAAGTCCCGTAGGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTT
30459198 TATGCTGGTA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 102 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
Found at i:30469437 original size:30 final size:30
Alignment explanation
Indices: 30469403--30469463 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30469393 TCCTTAACTC
30469403 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30469433 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30469463 A
1 A
30469464 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30473881 original size:30 final size:30
Alignment explanation
Indices: 30473847--30473907 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30473837 TCCTTAACTC
30473847 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30473877 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30473907 A
1 A
30473908 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30478328 original size:30 final size:30
Alignment explanation
Indices: 30478294--30478354 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30478284 TCCTTAACTC
30478294 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30478324 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30478354 A
1 A
30478355 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30486092 original size:28 final size:28
Alignment explanation
Indices: 30486060--30486186 Score: 123
Period size: 29 Copynumber: 4.5 Consensus size: 28
30486050 TACATACATG
*
30486060 CATATGGCCCA-CTAGGCCCAATCTTATT
1 CATATGGCCCATC-AGGCCCAATCTCATT
* * *
30486088 TATATGGCCCATCCGACCCAAT-TCACGTT
1 CATATGGCCCATCAGGCCCAATCTCA--TT
* *
30486117 CATATGACCCATCAGGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAA-TCTCATT
* *
30486146 CATATGGCCCATTAGGCCAAATCTCATT
1 CATATGGCCCATCAGGCCCAATCTCATT
*
30486174 TATATGGCCCATC
1 CATATGGCCCATC
30486187 CAGTCCAAAT
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
27 2 0.03
28 34 0.43
29 40 0.51
30 1 0.01
31 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (28 bp):
CATATGGCCCATCAGGCCCAATCTCATT
Found at i:30486202 original size:29 final size:28
Alignment explanation
Indices: 30486085--30486206 Score: 111
Period size: 29 Copynumber: 4.3 Consensus size: 28
30486075 GCCCAATCTT
* *
30486085 ATTTATATGGCCCATCCGACCCAATTCAC
1 ATTTATATGGCCCATCAG-CCCAAATCAC
* * * *
30486114 GTTCATATGACCCATCAGGCCCAATTCAC
1 ATTTATATGGCCCATCA-GCCCAAATCAC
* * * *
30486143 ATTCATATGGCCCATTAGGCCAAATCTC
1 ATTTATATGGCCCATCAGCCCAAATCAC
*
30486171 ATTTATATGGCCCATCCAGTCCAAATCAC
1 ATTTATATGGCCCAT-CAGCCCAAATCAC
30486200 A-TTATAT
1 ATTTATAT
30486207 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
28 28 0.36
29 48 0.62
30 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (28 bp):
ATTTATATGGCCCATCAGCCCAAATCAC
Found at i:30486443 original size:16 final size:16
Alignment explanation
Indices: 30486418--30486456 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
30486408 ATAGCCAAAC
*
30486418 TTTCGACTTTTCGGCA
1 TTTCGACTTTTCAGCA
*
30486434 TTTCGGCTTTTCAGCA
1 TTTCGACTTTTCAGCA
30486450 TTTCGAC
1 TTTCGAC
30486457 CTTTGCTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.44
Consensus pattern (16 bp):
TTTCGACTTTTCAGCA
Found at i:30492333 original size:255 final size:256
Alignment explanation
Indices: 30491881--30492381 Score: 835
Period size: 255 Copynumber: 2.0 Consensus size: 256
30491871 TCCCAAGTGA
*
30491881 CCTGCTCAGGTTGAGTGCCCTCTTTCATTGTCAGCCACCACTGGTAAGCTTCTTCCCTTAGTAAT
1 CCTGCTCAGGTTGAGTGCCCTCTTTCATTGTCAGCCACCACTGGTAAGCTTCTTCCCTTAGCAAT
* * * *
30491946 GACACTGCTCATTTTACTTTTTGTTCAGGTGAACAGTCTAGATCCTCCATTGTCCATTCTGTGGC
66 GACACTGCTCATTTCACTTTTTGTTCAGGTGAACAGTCCAGATCCTCCATTATCCATTCCGTGGC
*
30492011 CTCCAACCAATATTCAGCCACATTAGGAGCCACACCAGCCACGCCCTTAAAAATCTCAGCCCCAT
131 CTCCAACCAATATTCAGCCACATTAGAAGCCACACCAGCCACGCCCTTAAAAATCTCAGCCCCAT
*
30492076 TTGATCGAAGTCGCTCCGA-AATAGACCCTCAATTTCCCGTGCCATTATTGGCCTCCAAAAT
196 TTGATCGAAGTCGCT-CGAGAATAGACCCCCAATTTCCCGTGCCATTATTGGCCTCCAAAAT
*
30492137 CCTGCTCAGGTTGAGTGCCCTCTTTCATTGTCAGCCACCACTGGTAAGCTTCTTCCCTTAGCAGT
1 CCTGCTCAGGTTGAGTGCCCTCTTTCATTGTCAGCCACCACTGGTAAGCTTCTTCCCTTAGCAAT
* * * *
30492202 GACACTGC-CCTTTCAGTTTTTGTTTAGGTGAACAGTCCAGATCCTCCATTATCCTTTCCGTGGC
66 GACACTGCTCATTTCACTTTTTGTTCAGGTGAACAGTCCAGATCCTCCATTATCCATTCCGTGGC
* *
30492266 CTCCAACCAATATTCAGCCACGTTAGAAGCCACACTAGCCACGCCCTTAAAAATCTCAGCCCCAT
131 CTCCAACCAATATTCAGCCACATTAGAAGCCACACCAGCCACGCCCTTAAAAATCTCAGCCCCAT
* *
30492331 TTGATCGAAGTCGCTCTAGAATGGACCCCCAATTTCCCGTGCCATTATTGG
196 TTGATCGAAGTCGCTCGAGAATAGACCCCCAATTTCCCGTGCCATTATTGG
30492382 GCCCAGCGAC
Statistics
Matches: 228, Mismatches: 16, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
254 2 0.01
255 155 0.68
256 71 0.31
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.29
Consensus pattern (256 bp):
CCTGCTCAGGTTGAGTGCCCTCTTTCATTGTCAGCCACCACTGGTAAGCTTCTTCCCTTAGCAAT
GACACTGCTCATTTCACTTTTTGTTCAGGTGAACAGTCCAGATCCTCCATTATCCATTCCGTGGC
CTCCAACCAATATTCAGCCACATTAGAAGCCACACCAGCCACGCCCTTAAAAATCTCAGCCCCAT
TTGATCGAAGTCGCTCGAGAATAGACCCCCAATTTCCCGTGCCATTATTGGCCTCCAAAAT
Found at i:30494210 original size:29 final size:28
Alignment explanation
Indices: 30494138--30494289 Score: 166
Period size: 29 Copynumber: 5.4 Consensus size: 28
30494128 ACCCCTACAT
*
30494138 ACATGTATATGGCCCA-CTAGGCCCAATC
1 ACATTTATATGGCCCATCT-GGCCCAATC
*
30494166 TCATTTATATGGCCCATCTGGCCCAATTC
1 ACATTTATATGGCCCATCTGGCCCAA-TC
* * *
30494195 ACATTCATATGACCCATCAGGCCCAATTC
1 ACATTTATATGGCCCATCTGGCCCAA-TC
*
30494224 ACATTAATATGGCCCAT-TAGGCCCAATC
1 ACATTTATATGGCCCATCT-GGCCCAATC
* *
30494252 TCATTTATATGGCCCATCCGGCCCAAATC
1 ACATTTATATGGCCCATCTGGCCC-AATC
30494281 ACA-TTATAT
1 ACATTTATAT
30494290 TCATGCTCAC
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
28 49 0.46
29 57 0.54
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (28 bp):
ACATTTATATGGCCCATCTGGCCCAATC
Found at i:30494220 original size:57 final size:57
Alignment explanation
Indices: 30494156--30494286 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 57
30494146 ATGGCCCACT
* *
30494156 AGGCCCAA-TCTCATTTATATGGCCCATCT-GGCCCAATTCACATTCATATGACCCATC
1 AGGCCCAATTCACATTAATATGGCCCAT-TAGGCCCAA-TCACATTCATATGACCCATC
* * *
30494213 AGGCCCAATTCACATTAATATGGCCCATTAGGCCCAATCTCATTTATATGGCCCATC
1 AGGCCCAATTCACATTAATATGGCCCATTAGGCCCAATCACATTCATATGACCCATC
* *
30494270 CGGCCCAAATCACATTA
1 AGGCCCAATTCACATTA
30494287 TATTCATGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 41 0.63
58 24 0.37
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (57 bp):
AGGCCCAATTCACATTAATATGGCCCATTAGGCCCAATCACATTCATATGACCCATC
Found at i:30498201 original size:15 final size:16
Alignment explanation
Indices: 30498170--30498203 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
30498160 GTAGCCAAAC
*
30498170 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCAGCA
30498186 TTTCGGC-TTTCAGCA
1 TTTCGGCTTTTCAGCA
30498201 TTT
1 TTT
30498204 TGGCCTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:30512506 original size:17 final size:18
Alignment explanation
Indices: 30512481--30512515 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
30512471 AGAACACAAA
*
30512481 GTAACAATC-TCAAAAAC
1 GTAAAAATCATCAAAAAC
30512498 GTAAAAATCATCAAAAAC
1 GTAAAAATCATCAAAAAC
30512516 CGAACAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.57, C:0.20, G:0.06, T:0.17
Consensus pattern (18 bp):
GTAAAAATCATCAAAAAC
Found at i:30516681 original size:19 final size:19
Alignment explanation
Indices: 30516657--30516694 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30516647 TTCAAGTGGC
30516657 TAACCCGAATTCTCCAAGA
1 TAACCCGAATTCTCCAAGA
*
30516676 TAACCCTAATTCTCCAAGA
1 TAACCCGAATTCTCCAAGA
30516695 CAGAAAAAGA
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:0.37, C:0.32, G:0.08, T:0.24
Consensus pattern (19 bp):
TAACCCGAATTCTCCAAGA
Found at i:30519192 original size:28 final size:27
Alignment explanation
Indices: 30519106--30519195 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
30519096 GTGACAGAGT
* *
30519106 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
30519135 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
30519162 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
30519190 CACCAG
1 CACCAG
30519196 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:30519348 original size:28 final size:28
Alignment explanation
Indices: 30519301--30519365 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
30519291 AAATTAACCC
* *
30519301 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATAAA
* *
30519329 TAGGGGTATAATGGTAATTTTGCATAAA
1 TAGGGGTATAAAGGTAATTTAGCATAAA
30519357 TAGGGGTAT
1 TAGGGGTAT
30519366 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATAAA
Found at i:30520451 original size:12 final size:13
Alignment explanation
Indices: 30520432--30520464 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30520422 GGGTTCGGCT
30520432 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
30520445 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
30520457 ATGGAGAA
1 ATGGAGAA
30520465 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:30536158 original size:89 final size:89
Alignment explanation
Indices: 30536007--30536184 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
30535997 ACATTGCTTG
30536007 CATTTAAACCAACATAATTTAAGACTAAACATACTTCTTTCCTAAACACAAAACCATGCGCATAA
1 CATTTAAACCAACATAATTTAAGACTAAACATACTTCTTTCCTAAACACAAAACCATGCGCATAA
30536072 GACCTTGTTCTCTTAGGCCATTAT
66 GACCTTGTTCTCTTAGGCCATTAT
30536096 CATTTAAACCAACATAATTTAAGACTAAACATACTTCTTTCCTAAACACAAAACCATGCGCATAA
1 CATTTAAACCAACATAATTTAAGACTAAACATACTTCTTTCCTAAACACAAAACCATGCGCATAA
30536161 GACCTTGTTCTCTTAGGCCATTAT
66 GACCTTGTTCTCTTAGGCCATTAT
30536185 AAACACAAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (89 bp):
CATTTAAACCAACATAATTTAAGACTAAACATACTTCTTTCCTAAACACAAAACCATGCGCATAA
GACCTTGTTCTCTTAGGCCATTAT
Found at i:30537578 original size:43 final size:42
Alignment explanation
Indices: 30537517--30537680 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 42
30537507 CAATACCAAC
* *
30537517 GTCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCATT
1 GTCCCAGACAG-GGTCTTACACGAAATCACATATCGATGCCA-T
* * *
30537560 GTCCCAGACAGGGTCTTACACGAACTCATATA-CGATGCTGAT
1 GTCCCAGACAGGGTCTTACACGAAATCACATATCGATGC-CAT
* * * * *
30537602 GTCCCAGACATGGTATTACATGCAAATCACAAATCGATGCCAAA
1 GTCCCAGACAGGGTCTTACACG-AAATCACATATCGATGCC-AT
* *
30537646 GTCCCAGACATGGCCTTACACGAAATCACATATCG
1 GTCCCAGACAGGGTCTTACACGAAATCACATATCG
30537681 GAATTCTATG
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 26 0.26
43 46 0.46
44 27 0.27
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGAAATCACATATCGATGCCAT
Found at i:30557691 original size:48 final size:48
Alignment explanation
Indices: 30557612--30557746 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 48
30557602 ATTATGATTA
* * * * *
30557612 ATGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGGGGTTGAT
1 ATGATAGCCAATGTAAGACCATATCTGGGACATGGCATCGGGATTGAT
* * * *
30557660 ATGATAGCCACTGTAAGACCATATTTAGGACATGGCATCGGTATTGAT
1 ATGATAGCCAATGTAAGACCATATCTGGGACATGGCATCGGGATTGAT
* *
30557708 ATG-TGTGCCAATGTAAGACCATATCTGGGATATGGCATC
1 ATGAT-AGCCAATGTAAGACCATATCTGGGACATGGCATC
30557747 CGAAGACCAT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 72 0.99
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (48 bp):
ATGATAGCCAATGTAAGACCATATCTGGGACATGGCATCGGGATTGAT
Found at i:30557763 original size:27 final size:27
Alignment explanation
Indices: 30557722--30557773 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
30557712 GTGCCAATGT
30557722 AAGACCATATCTGGGATATGGCATCCG
1 AAGACCATATCTGGGATATGGCATCCG
*
30557749 AAGACCATATTTGGGATATGGCATC
1 AAGACCATATCTGGGATATGGCATC
30557774 GGCCCCGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (27 bp):
AAGACCATATCTGGGATATGGCATCCG
Found at i:30557770 original size:75 final size:75
Alignment explanation
Indices: 30557674--30557818 Score: 193
Period size: 75 Copynumber: 1.9 Consensus size: 75
30557664 TAGCCACTGT
* **
30557674 AAGACCATATTTAGGACATGGCATCGGTATTGATATGTG-TGCCAATGTAAGACCATATCTGGGA
1 AAGACCATATTTAGGACATGGCATCGGCACCGATATGTGATGCC-ATGTAAGACCATATCTGGGA
30557738 TATGGCATCCG
65 TATGGCATCCG
* * * * **
30557749 AAGACCATATTTGGGATATGGCATCGGCCCCGGTATGTGATTTCATGTAAGACCATATCTGGGAT
1 AAGACCATATTTAGGACATGGCATCGGCACCGATATGTGATGCCATGTAAGACCATATCTGGGAT
30557814 ATGGC
66 ATGGC
30557819 GTTGATATGA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
75 58 0.97
76 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (75 bp):
AAGACCATATTTAGGACATGGCATCGGCACCGATATGTGATGCCATGTAAGACCATATCTGGGAT
ATGGCATCCG
Found at i:30557920 original size:90 final size:90
Alignment explanation
Indices: 30557826--30557992 Score: 221
Period size: 90 Copynumber: 1.9 Consensus size: 90
30557816 GGCGTTGATA
* * * * * * *
30557826 TGAGATTTTGTATAAGACCATGTCTGGGACATGGCATCGAT--GTGAGGTCCCATGTAAGACCGT
1 TGAGATTTCGTATAAGACCATATCTAGGACACGGCATCAATAGGT-A-GACCCATGTAAGACCAT
30557889 GTCTGGGACATGGCATCGGCACTGACT
64 GTCTGGGACATGGCATCGGCACTGACT
* *
30557916 TGAGATTTCGTATAAGACCATATCTAGGATACGGCATCAATAGGTAGACCCATGTAAGACTATGT
1 TGAGATTTCGTATAAGACCATATCTAGGACACGGCATCAATAGGTAGACCCATGTAAGACCATGT
30557981 CTGGGACATGGC
66 CTGGGACATGGC
30557993 TTTGGCATTC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
90 63 0.95
91 1 0.02
92 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (90 bp):
TGAGATTTCGTATAAGACCATATCTAGGACACGGCATCAATAGGTAGACCCATGTAAGACCATGT
CTGGGACATGGCATCGGCACTGACT
Found at i:30562327 original size:50 final size:49
Alignment explanation
Indices: 30562201--30562392 Score: 186
Period size: 50 Copynumber: 3.9 Consensus size: 49
30562191 CTAGGTCGCA
* * * * * * *
30562201 TGTGTAGCACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAG-ATAGT-TGGTCACG
* * *
30562252 TGTATAGTACTAAGTGCAGGATACTATGTGTATCAGATAGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATAGTT-GGTCACG
* * * * * * *
30562302 TGTGTAGTACTCAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATAGTTGGTCACG
* *
30562351 TGTGTAGTACTAAGTGCAGGCTAATATGCGTATCAGATAGTT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATAGTT
30562393 TCACTACATA
Statistics
Matches: 113, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
49 40 0.35
50 43 0.38
51 30 0.27
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATAGTTGGTCACG
Found at i:30566691 original size:68 final size:64
Alignment explanation
Indices: 30566576--30566833 Score: 191
Period size: 68 Copynumber: 3.9 Consensus size: 64
30566566 GCATCATACA
* * * * * *
30566576 GATAGTATGTAGCTAGGTCACATGTATGTTGCTAAGTGTACATCATGT-GTACAAGAGGGCTACA
1 GATA-TATGTAGCTAGGTCGCATGGATGATACTAAGTGTACACCATGTAG-ACAAGAGAGCTAC-
30566640 AGAC
63 -G-C
* * * *
30566644 GTTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGG
1 GATAT-ATGTAGCTAGGTCGCATGGATGATACTAAGTGTACACCATGTAGACAAGAGAGCTACGC
* * * *
30566709 GATATATGTAGCTAGGTCGCATGCG-TGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTA
1 GATATATGTAGCTAGGTCGCATG-GATGATACTAAGT---GTACACCATGTAGACAAGAGAGCTA
*
30566773 CGA
62 CGC
* * * * * * *
30566776 GATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 GATATATGTAGCTAGGTCGCATGGATGATACTAAGTGTACACCATGTAG-ACAAGAGAGC
30566834 CGAACTATAT
Statistics
Matches: 157, Mismatches: 25, Indels: 21
0.77 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 6 0.04
66 22 0.14
67 33 0.21
68 50 0.32
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
GATATATGTAGCTAGGTCGCATGGATGATACTAAGTGTACACCATGTAGACAAGAGAGCTACGC
Found at i:30572365 original size:46 final size:46
Alignment explanation
Indices: 30572313--30572488 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
30572303 TATTTGGGCA
30572313 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30572359 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30572404 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30572452 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30572489 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30572468 original size:93 final size:93
Alignment explanation
Indices: 30572309--30572481 Score: 328
Period size: 93 Copynumber: 1.9 Consensus size: 93
30572299 AGGATATTTG
* *
30572309 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
30572374 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
30572402 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
30572467 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
30572482 CTTATGGGCG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30574847 original size:42 final size:42
Alignment explanation
Indices: 30574742--30574911 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 42
30574732 TAGAAAGCTC
* * *
30574742 ATACAATGCCAACGTCCCAGAC-GTGGTCTTACATGTAGTCAA
1 ATACAATGCCAACGTCCCAAACAG-GGTCTTACATGAAATCAA
* *
30574784 ATATCAATGCC-ACTATCCCAAACAGGGTCTTACACGAAATCAA
1 ATA-CAATGCCAAC-GTCCCAAACAGGGTCTTACATGAAATCAA
* * *
30574827 ATACAATGCTAATGTCCCAAACATGGTCTTACATGTAAATCATA
1 ATACAATGCCAACGTCCCAAACAGGGTCTTACATG-AAATCA-A
* *
30574871 AGT-CAATGCCAACGTCCCAAA-TGTGGTCTTACATGATATCA
1 A-TACAATGCCAACGTCCCAAACAG-GGTCTTACATGAAATCA
30574912 CATATCGGAT
Statistics
Matches: 105, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
42 30 0.29
43 44 0.42
44 30 0.29
45 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (42 bp):
ATACAATGCCAACGTCCCAAACAGGGTCTTACATGAAATCAA
Found at i:30575539 original size:21 final size:21
Alignment explanation
Indices: 30575498--30575536 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30575488 ATAATGACCC
*
30575498 AACATCAAGCTTCCATAAACT
1 AACATCAAACTTCCATAAACT
30575519 AACATCAAACTT-CATAAA
1 AACATCAAACTTCCATAAA
30575537 ACTCATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.49, C:0.26, G:0.03, T:0.23
Consensus pattern (21 bp):
AACATCAAACTTCCATAAACT
Found at i:30601318 original size:41 final size:42
Alignment explanation
Indices: 30601208--30601440 Score: 188
Period size: 43 Copynumber: 5.5 Consensus size: 42
30601198 GGATTTCTGC
* * * * * *
30601208 TATGTGTTCTCATGTAAGACCACGTTTGGGACGTTGGCATCGA
1 TATGTGAT-TCATGTAAGACCATGTCTAGGACATCGGCATCGA
* **
30601251 TATGTGATTACCTGTAAGACCATGTCTAGTTCATCGGCATC-A
1 TATGTGATT-CATGTAAGACCATGTCTAGGACATCGGCATCGA
* * *
30601293 TATTTGATTCATGTAAGACCCTGTCTAGGACAGT-GGCACCGA
1 TATGTGATTCATGTAAGACCATGTCTAGGACA-TCGGCATCGA
*
30601335 TATGTGATT-ATGTGTAAGACCATGTCTGGGACATCGGCATCG-
1 TATGTGATTCA--TGTAAGACCATGTCTAGGACATCGGCATCGA
* * * * * *
30601377 TATTTGATTCGTGTAAGACCCTGTTTGGGACAGT-GGCATTGA
1 TATGTGATTCATGTAAGACCATGTCTAGGACA-TCGGCATCGA
*
30601419 TATATGATTACATGTAAGACCA
1 TATGTGATT-CATGTAAGACCA
30601441 CGTTTGGGAT
Statistics
Matches: 153, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
41 50 0.33
42 38 0.25
43 65 0.42
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TATGTGATTCATGTAAGACCATGTCTAGGACATCGGCATCGA
Found at i:30601449 original size:84 final size:84
Alignment explanation
Indices: 30601217--30601449 Score: 299
Period size: 84 Copynumber: 2.8 Consensus size: 84
30601207 CTATGTGTTC
* *
30601217 TCATGTAAGACCAC-GTTTGGGAC-GTTGGCATCGATATGTGATTACCTGTAAGACCATGTCTAG
1 TCATGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATGTGATTACATGTAAGACCATGTCTGG
**
30601280 TTCATCGGCATCATATTTGAT
64 GACATCGGCATCATATTTGAT
* * * **
30601301 TCATGTAAGACCCTGTCTAGGACAGTGGCACCGATATGTGATTATGTGTAAGACCATGTCTGGGA
1 TCATGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGA
*
30601366 CATCGGCATCGTATTTGAT
66 CATCGGCATCATATTTGAT
* * * * *
30601385 TCGTGTAAGACCCTGTTTGGGACAGTGGCATTGATATATGATTACATGTAAGACCACGTTTGGGA
1 TCATGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGA
30601450 TGTTGGCATT
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
83 1 0.01
84 126 0.98
85 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (84 bp):
TCATGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGA
CATCGGCATCATATTTGAT
Found at i:30607125 original size:27 final size:27
Alignment explanation
Indices: 30607095--30607199 Score: 156
Period size: 27 Copynumber: 3.9 Consensus size: 27
30607085 AAAATTATTG
*
30607095 AAATACCCCTGTAGGGTAGAGTTACTA
1 AAATACCCCTGTAGGGTAGAATTACTA
*
30607122 AAATACCCCTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTA
* * * *
30607149 AAATACCCTTATAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACTA
30607176 AAATACCCCTGTAGGGTAGAATTA
1 AAATACCCCTGTAGGGTAGAATTA
30607200 TCGAGATACC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTA
Found at i:30607208 original size:27 final size:26
Alignment explanation
Indices: 30607094--30607220 Score: 137
Period size: 27 Copynumber: 4.7 Consensus size: 26
30607084 CAAAATTATT
*
30607094 GAAATACCCCTGTAGGGTAGAGTTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
*
30607120 TAAAATACCCCTGTAGGGTAGAATTACC
1 -GAAATACCCCTGTAGGGTAGAATTA-C
* * * *
30607148 AAAATACCCTTATAGGGTAGAAATAC
1 GAAATACCCCTGTAGGGTAGAATTAC
30607174 TGAAATACCCCTGTAGGGTAGAATTATC
1 -GAAATACCCCTGTAGGGTAGAATTA-C
* * *
30607202 GAGATACCCTTGTGGGGTA
1 GAAATACCCCTGTAGGGTA
30607221 AAAATTACCA
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 82 0.96
28 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (26 bp):
GAAATACCCCTGTAGGGTAGAATTAC
Found at i:30607220 original size:54 final size:54
Alignment explanation
Indices: 30607087--30607225 Score: 179
Period size: 54 Copynumber: 2.6 Consensus size: 54
30607077 CGATTTACAA
* * **
30607087 AATTATTGAAATACCCCTGTAGGGTAGAGTTACTAAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTGTAGGGTAG
* * * *
30607141 AATTACCAAAATACCCTTATAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTGTAGGGTAG
* * *
30607195 AATTATCGAGATACCCTTGTGGGGTAAAAAT
1 AATTATCGAAATACCCTTGTAGGGTAGAAAT
30607226 TACCATTTTG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (54 bp):
AATTATCGAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTGTAGGGTAG
Found at i:30607482 original size:27 final size:26
Alignment explanation
Indices: 30607442--30607525 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
30607432 AGGAAGCGTG
*
30607442 CTGGTGGCTATGCCACAAATATCTGTT
1 CTGGTGGCTCTGCCAC-AATATCTGTT
30607469 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGT-T
* * *
30607496 CTAGTGACTCTGTCACAATATCTGTT
1 CTGGTGGCTCTGCCACAATATCTGTT
30607522 CTGG
1 CTGG
30607526 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
26 13 0.25
27 38 0.75
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGTT
Found at i:30614072 original size:43 final size:43
Alignment explanation
Indices: 30614025--30614179 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
30614015 TGTGTTCTCA
* *
30614025 TGTAAGACCACATTTGGGACGTTGGCATCGATATATGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACG
* * * * * *
30614068 TGTAAGACCATGTCTGGGACATCGACATTG-TATTTGATT-CG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACG
* * *
30614109 TGTAAGACC-C-TGCTTGGGAC-TGTGGCATCTATATGTGATTACA
1 TGTAAGACCACGT-C-TGGGACGT-TGGCATCGATATATGATTACG
* *
30614152 TGTATGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
30614180 TGTACGATAT
Statistics
Matches: 87, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
39 1 0.01
40 2 0.02
41 21 0.24
42 16 0.18
43 43 0.49
44 3 0.03
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACG
Found at i:30616198 original size:27 final size:27
Alignment explanation
Indices: 30616160--30616247 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
30616150 GGGACAAAGT
*
30616160 CACCAGATACAGATAATCGTGGCAGAGC
1 CACCAGA-ACAGATAATTGTGGCAGAGC
30616188 CACCAGAACAGA-AATATGTGGCAGAGC
1 CACCAGAACAGATAAT-TGTGGCAGAGC
* *
30616215 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGAACAGATAATTGTGGCAGAGC
30616242 CACCAG
1 CACCAG
30616248 GANNNNNNNN
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.05
27 42 0.76
28 10 0.18
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (27 bp):
CACCAGAACAGATAATTGTGGCAGAGC
Found at i:30631034 original size:43 final size:43
Alignment explanation
Indices: 30630985--30631389 Score: 810
Period size: 43 Copynumber: 9.4 Consensus size: 43
30630975 GTTGGTTTTC
30630985 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
30631028 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
30631071 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
30631114 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
30631157 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
30631200 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
30631243 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
30631286 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
30631329 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
30631372 GGCACTAAGTGTGCGGGC
1 GGCACTAAGTGTGCGGGC
30631390 TTGAAATGCA
Statistics
Matches: 362, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 362 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.27
Consensus pattern (43 bp):
GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
Found at i:30631406 original size:29 final size:29
Alignment explanation
Indices: 30631371--30631444 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
30631361 GTTGTGAGAT
* *
30631371 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
30631400 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
30631429 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30631445 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:30631865 original size:39 final size:40
Alignment explanation
Indices: 30631757--30631941 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
30631747 TCGAATGATG
* * *
30631757 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
30631796 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
30631837 TCCGGGCTAAG-CCCGAAGGTATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
30631876 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
30631915 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30631942 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:30631963 original size:79 final size:79
Alignment explanation
Indices: 30631810--30631964 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
30631800 GGACTAAGAT
* * **
30631810 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGTATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
30631875 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
30631889 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
30631952 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
30631965 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.62
80 23 0.35
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:30638500 original size:56 final size:56
Alignment explanation
Indices: 30638414--30638589 Score: 325
Period size: 56 Copynumber: 3.1 Consensus size: 56
30638404 ACAAGGGATG
30638414 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
30638470 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
** *
30638526 ATGGGCAAAACATGTCATGAAACATCATGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
30638582 ATGGGCAA
1 ATGGGCAA
30638590 TAAACTAATA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:30638624 original size:112 final size:112
Alignment explanation
Indices: 30638414--30638624 Score: 241
Period size: 112 Copynumber: 1.9 Consensus size: 112
30638404 ACAAGGGATG
**
30638414 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
1 ATGGGCAAAACATGTCATGAAACATCATGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
* * * ** ** ***
30638479 ACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
66 ACATCTAATGAAAAATGAAGTGAGAAAACAAAAATAAAATAAGAAGC
*
30638526 ATGGGCAAAACATGTCATGAAACATCATGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAAT
1 ATGGGCAAAACATGTCATGAAACATCATGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAA-
30638591 AA-A-CTAAT-AAGAAATGGAAG-GAAGAAAACAAAAA
65 AACATCTAATGAA-AAAT-GAAGTG-AGAAAACAAAAA
30638625 AAAGTAATGT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
110 2 0.02
111 7 0.09
112 71 0.87
113 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.20
Consensus pattern (112 bp):
ATGGGCAAAACATGTCATGAAACATCATGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
ACATCTAATGAAAAATGAAGTGAGAAAACAAAAATAAAATAAGAAGC
Found at i:30638812 original size:29 final size:29
Alignment explanation
Indices: 30638777--30638850 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
30638767 GTTGTGAGAT
* *
30638777 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
30638806 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
30638835 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30638851 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Done.