Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 96 of 185
Found at i:30209486 original size:9 final size:9
Alignment explanation
Indices: 30209469--30209499 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30209459 TCGAGTTGAT
30209469 TCGAATAAC
1 TCGAATAAC
*
30209478 TCGATTAAC
1 TCGAATAAC
30209487 TCGAATAAC
1 TCGAATAAC
30209496 TCGA
1 TCGA
30209500 TTTGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:30210498 original size:12 final size:12
Alignment explanation
Indices: 30210481--30210505 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30210471 AACTCTGTAA
30210481 CTAGTTTAAATT
1 CTAGTTTAAATT
30210493 CTAGTTTAAATT
1 CTAGTTTAAATT
30210505 C
1 C
30210506 AATTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (12 bp):
CTAGTTTAAATT
Found at i:30210547 original size:23 final size:23
Alignment explanation
Indices: 30210521--30210566 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
30210511 TTAAATTTCA
30210521 AATTATTTAATGATAATATTTAG
1 AATTATTTAATGATAATATTTAG
* *
30210544 AATTATTTAGTGATAATGTTTAG
1 AATTATTTAATGATAATATTTAG
30210567 GAAAAATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (23 bp):
AATTATTTAATGATAATATTTAG
Found at i:30214918 original size:4 final size:4
Alignment explanation
Indices: 30214909--30214950 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
30214899 AGTACTCTTT
30214909 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
30214951 GCTTGGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:30215841 original size:13 final size:13
Alignment explanation
Indices: 30215825--30215889 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 13
30215815 TAAATTTCAA
30215825 ATTTAGTGATAAT
1 ATTTAGTGATAAT
*
30215838 ATTTA--GA-ATT
1 ATTTAGTGATAAT
30215848 ATTTAGTGATAAT
1 ATTTAGTGATAAT
*
30215861 ATTTA--GA-ATT
1 ATTTAGTGATAAT
30215871 ATTTAGTGATAAT
1 ATTTAGTGATAAT
*
30215884 GTTTAG
1 ATTTAG
30215890 GAAAAATCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
10 14 0.34
11 4 0.10
12 4 0.10
13 19 0.46
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
ATTTAGTGATAAT
Found at i:30215855 original size:23 final size:23
Alignment explanation
Indices: 30215825--30215889 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
30215815 TAAATTTCAA
30215825 ATTTAGTGATAATATTTAGAATT
1 ATTTAGTGATAATATTTAGAATT
30215848 ATTTAGTGATAATATTTAGAATT
1 ATTTAGTGATAATATTTAGAATT
*
30215871 ATTTAGTGATAATGTTTAG
1 ATTTAGTGATAATATTTAG
30215890 GAAAAATCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (23 bp):
ATTTAGTGATAATATTTAGAATT
Found at i:30215999 original size:11 final size:11
Alignment explanation
Indices: 30215983--30216008 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30215973 GATTTAATAA
30215983 TTTCTTTTTTC
1 TTTCTTTTTTC
30215994 TTTCTTTTTTC
1 TTTCTTTTTTC
30216005 TTTC
1 TTTC
30216009 CCCTTCCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:30217336 original size:12 final size:12
Alignment explanation
Indices: 30217319--30217343 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30217309 AACTCTGTAA
30217319 CTAGTTTAAATT
1 CTAGTTTAAATT
30217331 CTAGTTTAAATT
1 CTAGTTTAAATT
30217343 C
1 C
30217344 AATTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (12 bp):
CTAGTTTAAATT
Found at i:30217384 original size:23 final size:23
Alignment explanation
Indices: 30217353--30217404 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
30217343 CAATTTTTAA
*
30217353 ATTTTGAATTATTTAATGATAAC
1 ATTTAGAATTATTTAATGATAAC
* *
30217376 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAC
30217399 ATTTAG
1 ATTTAG
30217405 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAC
Found at i:30218252 original size:18 final size:17
Alignment explanation
Indices: 30218225--30218276 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
30218215 TTTATTTACC
* *
30218225 AATTTATTTTATTTTCTT
1 AATTTTTTTTATTTT-TG
30218243 AATTTTTTTTCATTTTTG
1 AATTTTTTTT-ATTTTTG
*
30218261 CATTTGTTTTTATTTT
1 AATTT-TTTTTATTTT
30218277 ATTTTATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (17 bp):
AATTTTTTTTATTTTTG
Found at i:30223173 original size:29 final size:30
Alignment explanation
Indices: 30223113--30223173 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
30223103 TTGGGGCAAA
*
30223113 ATAAATTATGGTTTAATGTGTAATTGTATAT
1 ATAAATTATGGTTT-ATATGTAATTGTATAT
* *
30223144 ATAAATTTTGGTTT-TATGTAATTTTATAT
1 ATAAATTATGGTTTATATGTAATTGTATAT
30223173 A
1 A
30223174 AAAAAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 14 0.52
31 13 0.48
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (30 bp):
ATAAATTATGGTTTATATGTAATTGTATAT
Found at i:30223387 original size:29 final size:30
Alignment explanation
Indices: 30223350--30223419 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
30223340 CGATTAGAGT
* * *
30223350 TTCACGTATATAATT-ACACTAAATTAAAG
1 TTCATGTATACAATTCACACTAAATCAAAG
* *
30223379 TTCATGTATACAATTGCATATTAAATCAAAG
1 TTCATGTATACAATT-CACACTAAATCAAAG
30223410 TTCATGTATA
1 TTCATGTATA
30223420 ATTTTGAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 13 0.38
31 21 0.62
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (30 bp):
TTCATGTATACAATTCACACTAAATCAAAG
Found at i:30229359 original size:32 final size:32
Alignment explanation
Indices: 30229323--30229405 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
30229313 TGAACCTCAA
*
30229323 TAAGCCTCACAACTAGGTTTCTT-AATCATCAG
1 TAAGCCTCACAACTAGGTTT-TTAAATCATAAG
*
30229355 TAAGCCTTACAACTAGGTTTTTAAATCATAAG
1 TAAGCCTCACAACTAGGTTTTTAAATCATAAG
* *
30229387 TAAACCTCAAAACTAGGTT
1 TAAGCCTCACAACTAGGTT
30229406 CCATAATTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
31 2 0.04
32 43 0.96
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (32 bp):
TAAGCCTCACAACTAGGTTTTTAAATCATAAG
Found at i:30233251 original size:11 final size:11
Alignment explanation
Indices: 30233235--30233260 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30233225 GGTAAACAAC
30233235 CTTAAAATCAA
1 CTTAAAATCAA
30233246 CTTAAAATCAA
1 CTTAAAATCAA
30233257 CTTA
1 CTTA
30233261 CCTTGGACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (11 bp):
CTTAAAATCAA
Found at i:30236147 original size:15 final size:15
Alignment explanation
Indices: 30236123--30236168 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
30236113 TCTTCTTCCA
*
30236123 TTTTCTTTCTTTTTAT
1 TTTTC-TTCTTTTTAC
*
30236139 TTTTGTTCTTTTT-C
1 TTTTCTTCTTTTTAC
30236153 TTTTCTTCTTTTTAC
1 TTTTCTTCTTTTTAC
30236168 T
1 T
30236169 CCTTCAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 10 0.38
16 4 0.15
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTCTTCTTTTTAC
Found at i:30236708 original size:30 final size:29
Alignment explanation
Indices: 30236672--30236745 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
30236662 CATGGCCAAG
** *
30236672 CACATGGGTGTGTGCCCAAGCTGTGTGATC
1 CACATGGCCGTGTG-CCAAGCCGTGTGATC
*
30236702 CACATGGCCGTGTGCCAGGCCGTGTGATC
1 CACATGGCCGTGTGCCAAGCCGTGTGATC
* * *
30236731 TACACGGTCGTGTGC
1 CACATGGCCGTGTGC
30236746 TAGGCCATCT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 25 0.68
30 12 0.32
ACGTcount: A:0.15, C:0.27, G:0.34, T:0.24
Consensus pattern (29 bp):
CACATGGCCGTGTGCCAAGCCGTGTGATC
Found at i:30236742 original size:29 final size:29
Alignment explanation
Indices: 30236694--30236751 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
30236684 TGCCCAAGCT
*
30236694 GTGTGATCCACATGGCCGTGTGCCAGGCC
1 GTGTGATCCACACGGCCGTGTGCCAGGCC
* * *
30236723 GTGTGATCTACACGGTCGTGTGCTAGGCC
1 GTGTGATCCACACGGCCGTGTGCCAGGCC
30236752 ATCTAGTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.28, G:0.34, T:0.24
Consensus pattern (29 bp):
GTGTGATCCACACGGCCGTGTGCCAGGCC
Found at i:30253333 original size:100 final size:99
Alignment explanation
Indices: 30253156--30253344 Score: 263
Period size: 100 Copynumber: 1.9 Consensus size: 99
30253146 TACCTACATA
* * * * *
30253156 TAAAGTAACATCCCTAACCTGTCTTCATCACTGGATTAGGGTTACGATGCATTACCGTACAATCG
1 TAAAGTAACACCCCTAACCCGTCTCCATCACTAGATTAGGGTTACGATGCATTACCATACAATCG
*
30253221 AAAACATTTAAACATTTTAACATTGAAGAATTTC
66 AAAACATTTAAACATTTAAACATTGAAGAATTTC
* * *
30253255 TAAATGTAACACCCCTAACCCGTCTCCGTCGCTAGATTAGGGTTATGGA-GCATTACCATACAAT
1 TAAA-GTAACACCCCTAACCCGTCTCCATCACTAGATTAGGGTTA-CGATGCATTACCATACAAT
*
30253319 CGGAAACATTTAAACATTTAAACATT
64 CGAAAACATTTAAACATTTAAACATT
30253345 CAATATTTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
99 4 0.05
100 72 0.92
101 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (99 bp):
TAAAGTAACACCCCTAACCCGTCTCCATCACTAGATTAGGGTTACGATGCATTACCATACAATCG
AAAACATTTAAACATTTAAACATTGAAGAATTTC
Found at i:30255528 original size:43 final size:43
Alignment explanation
Indices: 30255466--30255551 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
30255456 TCATATTTCA
* *
30255466 TTTCTCATCTCATAATCATTTTTCATAATTTT-CATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCAT-ATTTTCCATTCCAATAT
* ** *
30255509 TTTCTCATCTCGTTTTCATTTATCATCTTTTCCATTCCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTTCCATTCCAATAT
30255552 CAATCATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 4 0.11
43 32 0.89
ACGTcount: A:0.23, C:0.22, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTTCCATTCCAATAT
Found at i:30256666 original size:13 final size:13
Alignment explanation
Indices: 30256648--30256678 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30256638 TTCTTCTCCA
30256648 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
*
30256661 TTTCTTTTTTTCT
1 TTTCTTTCTTTCT
30256674 TTTCT
1 TTTCT
30256679 AATTTGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:30256730 original size:16 final size:18
Alignment explanation
Indices: 30256709--30256741 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30256699 CATCTCTTTT
30256709 TCTTTC-TTTT-ATTATA
1 TCTTTCATTTTAATTATA
30256725 TCTTTCATTTTAATTAT
1 TCTTTCATTTTAATTAT
30256742 TATAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTCATTTTAATTATA
Found at i:30256966 original size:16 final size:18
Alignment explanation
Indices: 30256935--30256968 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
30256925 TTTATAACTC
30256935 CTAATTTCACAAAATTTA
1 CTAATTTCACAAAATTTA
30256953 CTAA-TTCA-AAAATTTA
1 CTAATTTCACAAAATTTA
30256969 ATTAGCTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTCACAAAATTTA
Found at i:30262088 original size:49 final size:49
Alignment explanation
Indices: 30262010--30262103 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
30262000 TGCTATGCAA
* * *
30262010 TGCTAAAATTGGTCTTCCACTATCTACACTTTTATCACTATTTATACAT
1 TGCTAAAATTAGTCTTCCACTATCCACACTCTTATCACTATTTATACAT
* *
30262059 TGCTAAATTTAGTCTTCCATTATCCACACTCTTATCACTATTTAT
1 TGCTAAAATTAGTCTTCCACTATCCACACTCTTATCACTATTTAT
30262104 CCCTTCTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (49 bp):
TGCTAAAATTAGTCTTCCACTATCCACACTCTTATCACTATTTATACAT
Found at i:30263353 original size:25 final size:25
Alignment explanation
Indices: 30263321--30263368 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
30263311 TCATATTTCA
*
30263321 TTTCTCATATTTGTCATTTCAATAT
1 TTTCTCATATTTGCCATTTCAATAT
*
30263346 TTTCTCATCTTTGCCATTTCAAT
1 TTTCTCATATTTGCCATTTCAAT
30263369 GTCAATGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTCTCATATTTGCCATTTCAATAT
Found at i:30264503 original size:16 final size:18
Alignment explanation
Indices: 30264482--30264514 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30264472 CATCTTTTTT
30264482 TCTTTC-TTTT-ATTATA
1 TCTTTCATTTTAATTATA
30264498 TCTTTCATTTTAATTAT
1 TCTTTCATTTTAATTAT
30264515 TATAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTCATTTTAATTATA
Found at i:30269087 original size:8 final size:8
Alignment explanation
Indices: 30269076--30269101 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
30269066 TTTTTGTTAA
30269076 ATTTATAT
1 ATTTATAT
30269084 ATTTATAT
1 ATTTATAT
30269092 ATTTATAT
1 ATTTATAT
30269100 AT
1 AT
30269102 ATGTTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTATAT
Found at i:30271563 original size:692 final size:686
Alignment explanation
Indices: 30268325--30272618 Score: 3502
Period size: 692 Copynumber: 6.2 Consensus size: 686
30268315 AAACCAACAA
* * * * *
30268325 TTTTATTAATGTAAACATCATATTAAA-TAAATTTTAAA-TATTTTGCTGAATTTATATATTTAT
1 TTTTATTAAGGTAAACATTATATTAAATTAATTTTTAAATTTTTTTGTTGAATTTATATATTTAT
* * * * * *
30268388 ATATATTACAAACTTATAGAATTACAACCCTTGTTTAGTTACTCAAGAGGTTATCGAAAAACCAA
66 ATATATTACAAACTTATAGAATTACCACACTTGTTCAGTTACTC-GGAGGTTACCGAACAACCAA
* * * * * * *
30268453 ATGCCTTCAAATCGAAACCATAAATCAAAACTAAAATTGAATCACCTGATAAAAATTGAATCTAA
130 AAGCCTTCGAATCGAAACCACAAACCAAAAATGAAATTGAATC-CC-----CAAATTG------A
* * *
30268518 AACCCCAAA-CAAAAACCCTAAATTGAAACCTA-AGTCAAAATATCAAATTTAAGGCTTTCAATA
183 AA--CCAAATCTAAAACCCTAAA-TGAAACCTATA-TCAAAAT-CCTAATTTAAGGCTTTCAATA
* * * * ** *
30268581 GATTTGGGTAAATAAATTTAAA-ACTTTCTAAAACCTTCTATTGTTGCTCATTCTAGTCGAACAT
243 GATTTGGGTAACTAAA-TTAAAGGCTTTCAAAAACCTTTTATT-TTTTTCATTCTAGTCGAACGT
* ** * * * * * ***
30268645 GAGATTATTTCTATTGTACAAAATGCGATCTTTTCATTGGCATGTTTTCCAAGTCAAAATGAACT
306 GAGATGATTTCTATTGTATGAAATGCGATCTTTCCATTAGTATGTTTTCCAAGCCAAATTGTGTT
* * * * * * *
30268710 GTGTGTTAAAAGAACCATGCTCCGAAAGTAGTCTACTTGAAATAGAAAACTTTCAAATTCT-AGG
371 GTGTCTTAAAAGAACCAAGCTCCCAAAGTAGCCTACTTGAAACAGAAAACTTTGAAATTTTGA-G
* * * * * * *
30268774 CAAGTTGTGATGATTTTTAAAGTTTTAAGCACC-GAATATTAGGCTTTTGGTTACTCTATTTGAT
435 CAAATTGTGACGATTTTCAATGTTTTAAGC-CCTGAATCTTAGGCTTTCGGTTACTCTTTTTGAT
* * * * *
30268838 -AAAAAAAATTATTTT-TTTTAGAATTACATTTCAACTCTAAATTAATACTATTAAAACAATCAA
499 CAAACAAAATT-TTTTGTTTTAGAATTACATTCCAACTCTAAATTAATATTATTAAAACCACCAA
* * ** *
30268901 ATTTTTGAAAGAGCATAAAGTTTTGATAACTTAAAATGAACCAAAAAGTCTA-TGAGATTCTGAA
563 ATTTTTGAAAGATCATAGAGTTTTGATAACTTAAAATGAGTCAAAAAGT-TATTGAGGTTCTGAA
* * * *** ** * * * * * * * *
30268965 CTATAGAATACAATTTTTTTTATATTATTTCATTTTAATATTATTGTT-TTCCAAATTATG
627 ATATATAATATAAAAATTTAGATTTTATTCCATATTATTATTGTTGTTGGT-CAAATAATT
** * * *
30269025 TTTTATTAATATAAACATCATACTAAATTAATTTTTAAATTTTTTTGTTAAATTTATATATTTAT
1 TTTTATTAAGGTAAACATTATATTAAATTAATTTTTAAATTTTTTTG------TT-GA-ATTTAT
* * *
30269090 ATATTTATATATATGTTACAAACTTATAGAATTTCAACACTTGTTTAGTTACTCCGGAGGTTACC
58 ATATTTATATATA--TTACAAACTTATAGAATTACCACACTTGTTCAGTTACT-CGGAGGTTACC
* * * **
30269155 GAACAACCAAAAAGACTTTGAATCGAAACCACATACCAAACTTGAAATTGAATCCCCAAATTGAA
120 GAACAACC-AAAAGCCTTCGAATCGAAACCACAAACCAAAAATGAAATTGAATCCCCAAATTGAA
* * * * ** * * *
30269220 ATCGAATATAAAACCCCAAACCAAACCCTAATTTGAAATATAAGTTGAAATCTCAAATTGAAGGC
184 ACCAAATCTAAAACCCTAAATGAAA-CC-----T---ATATCA----AAATC-CTAATTTAAGGC
* * * ** **
30269285 TTTCAACAGGTTTGGGTAACTAAATTTAAGGCTTTTTAAAACCTTTTATTGTTGGTCATTCTAGT
235 TTTCAATAGATTTGGGTAACTAAATTAAAGGCTTTCAAAAACCTTTTATT-TTTTTCATTCTAGT
* * * * *
30269350 CGAACATGAGATGATATCTGTTGTATGAAATGCGATCTTTCCATTGGTATGTTTTGCAAGCCAAA
299 CGAACGTGAGATGATTTCTATTGTATGAAATGCGATCTTTCCATTAGTATGTTTTCCAAGCCAAA
* ** * * * * * * *
30269415 ATAAGTTCTGTGTTAAAAGAACCTAGCACCGAAATTAGCGTACTTGAAACAGAAAACTTTGAAAT
364 TTGTGTTGTGTCTTAAAAGAACCAAGCTCCCAAAGTAGCCTACTTGAAACAGAAAACTTTGAAAT
* * * * * * ** * * *
30269480 TCT-AGGCAAGTTGTGACGATTTTAAATTTTTTTACCCCCAAATTTTTGGCATTT-GATTACTCT
429 TTTGA-GCAAATTGTGACGATTTTCAATGTTTTAAGCCCTGAATCTTAGGC-TTTCGGTTACTCT
* * * * *
30269543 TTTTGATTAAACAAAAATTTTATTATTTTAAAATTACATTTCAACTATAAATTATTATTATTATT
492 TTTTGATCAAAC-AAAATTTT-TTGTTTTAGAATTACATTCCAACTCTAAATTA--A-TATTATT
* * * *
30269608 AAAACCACCAAATTTTTGAAAGA--GTAGAGTTTTGGTAACTTAAAATGAG-CTAAAAAGTCAAT
552 AAAACCACCAAATTTTTGAAAGATCATAGAGTTTTGATAACTTAAAATGAGTC-AAAAAGTTATT
* * ** ** * * * * *
30269670 GAGATTCTGAAATATAGAATATAAATTTCTTTTATTTTATTTCATTTTAATATTATTGTTGGCCA
616 GAGGTTCTGAAATATATAATATAAAAAT-TTAGATTTTATTCCATATTATTATTGTTGTTGGTCA
* *
30269735 AATTATG
680 AATAATT
* * * * * * *
30269742 TTTTATTCATGTAAATATAATATTAAATTAATTTTTAAAATTTTTTGTTGAATTTATATATTAAA
1 TTTTATTAAGGTAAACATTATATTAAATTAATTTTTAAATTTTTTTGTTGAATTTATATATTTAT
* * * * *
30269807 ATATATTACAAACTTATAGAATTACAACAATTGTTTAGTT-GT--GAGGTTACCGAACAACTAAA
66 ATATATTACAAACTTATAGAATTACCACACTTGTTCAGTTACTCGGAGGTTACCGAACAACCAAA
* * * * * * ***
30269869 AGACCTTCGAATCAAAAGGCA-AGACCAAAACAT-AAATCT-ACTCCCCATATCGAAATTGAATC
131 AG-CCTTCGAATCGAAA-CCACAAACCAAAA-ATGAAAT-TGAATCCCCAAATTGAAACCAAATC
** * * *
30269931 TAAAACCC-AAACCAAAACCCTAAATTAAAA--C----TTAA-G---TCAA-A-A--T--CT--C
192 TAAAACCCTAAA-TGAAA-CCTATATCAAAATCCTAATTTAAGGCTTTCAATAGATTTGGGTAAC
* * * ** * *
30269977 -AAATTTAAA-GCTTTCTAAATCCTTCTATTGTTGCTCATTCTAGTCGAACGTGAGGTTATTTCT
255 TAAA-TTAAAGGCTTTCAAAAACCTTTTATT-TTTTTCATTCTAGTCGAACGTGAGATGATTTCT
* * * * * * * * *
30270040 ATTGTA-GAAAATGTC-ATCTTTTCATTTGTCTATTTTCCATGCCAAAATGTGTTCTATGTTAAA
318 ATTGTATG-AAATG-CGATCTTTCCATTAGTATGTTTTCCAAGCCAAATTGTGTTGTGTCTTAAA
* * * * * *
30270103 ATAACCAAGCTCCCAAAGTAGTCTACTTGAAACA-AGAAACTTTAAAATTCTGGGCAAGTTGTGA
381 AGAACCAAGCTCCCAAAGTAGCCTACTTGAAACAGA-AAACTTTGAAATTTTGAGCAAATTGTGA
* * * *
30270167 CGATTTTCAAAGTTTTAAGCCTTGAACCTTAGGCTTTTGGTTACT-TTGTTTGAT-AAA-AAAA-
445 CGATTTTCAATGTTTTAAGCCCTGAATCTTAGGCTTTCGGTTACTCTT-TTTGATCAAACAAAAT
* ** *
30270228 -TATTGTTTTAGAATTACATTTGAACTCTAAATTAATATTATTAAAACAACCAAATTTTTGAAAG
509 TTTTTGTTTTAGAATTACATTCCAACTCTAAATTAATATTATTAAAACCACCAAATTTTTGAAAG
* * *
30270292 AGT-ATAGAGTTTTGATAGCTTAAAATGAGTCAAAAAGTTATGGAGATTCTGAAATATATAATCA
574 A-TCATAGAGTTTTGATAACTTAAAATGAGTCAAAAAGTTATTGAGGTTCTGAAATATATAAT--
* * ** * * * * *
30270356 AAAAAAAATTT-GATTTGATTTGATTTTAATATTATTGTTGGTCAAATTATG
636 -ATAAAAATTTAGATTTTATTCCATATTATTATTGTTGTTGGTCAAATAATT
* * *
30270407 TTTTATTAAGATAAACATCATATTAAACTAATTTTTAAAATTTTTTTGTTGAATATATATATATT
1 TTTTATTAAGGTAAACATTATATTAAATTAATTTTT-AAATTTTTTTGTTGAAT-T-TATATATT
* * * *
30270472 TATATATATTACAAACTTATAGAATTGCCACACTTGTTTAGCTACTCCGGAGGTTACCGAATAAC
63 TATATATATTACAAACTTATAGAATTACCACACTTGTTCAGTTACT-CGGAGGTTACCGAACAAC
* * * * * *
30270537 CAAAAGGGCTTCGAATTGCAACCACAAACCAAAATTGAACTTGAATCCCCAAATTGAAGCCAAAT
127 CAAAA-GCCTTCGAATCGAAACCACAAACCAAAAATGAAATTGAATCCCCAAATTGAAACCAAAT
* * * *
30270602 CTAAAACCCAAACCAAAAACCTAAATTGAAACCTATGTCGAAATCCCAAATTTAAGGCTTTCATT
191 CT---A---AAA-C-----CCTAAA-TGAAACCTATATCAAAAT-CCTAATTTAAGGCTTTCAAT
* * * *
30270667 AGATTTGGGTAACTAAATTAAAGGCTTTCAGAAACCTTTTATTTTTTCTCATTCTAATTGAAAGT
242 AGATTTGGGTAACTAAATTAAAGGCTTTCAAAAACCTTTTATTTTTT-TCATTCTAGTCGAACGT
* *
30270732 GAGAGGATTTGTATTGTATGAAATGCGATCTTTCCATTAGTATGTTTTCCAAGCCAAATTGTGTT
306 GAGATGATTTCTATTGTATGAAATGCGATCTTTCCATTAGTATGTTTTCCAAGCCAAATTGTGTT
* * *
30270797 GTTTCTTAAAAGAACCAAGCTCTCAAAGTAGCCTACTTGAAACAGAAAACTTTGACATTTTGAGC
371 GTGTCTTAAAAGAACCAAGCTCCCAAAGTAGCCTACTTGAAACAGAAAACTTTGAAATTTTGAGC
* * * * *
30270862 CAATTGTGACGATTTTGAATGTTTTAAGCCCTGAGTGTTAGGCTTTCGGTTACTCTTTTTTATCA
436 AAATTGTGACGATTTTCAATGTTTTAAGCCCTGAATCTTAGGCTTTCGGTTACTCTTTTTGATCA
* *
30270927 AGCAAAATTTTTTGTTTTAGAATTACATTCCAACTCTAAATTAATATTATTAAAACCACCAAAAT
501 AACAAAATTTTTTGTTTTAGAATTACATTCCAACTCTAAATTAATATTATTAAAACCACCAAATT
* *
30270992 TTTGAAAGATCATAGAGTTTTGATAACTTAAAATGAGTGAAAAAGTCATTGAGGTTCTGAAATAT
566 TTTGAAAGATCATAGAGTTTTGATAACTTAAAATGAGTCAAAAAGTTATTGAGGTTCTGAAATAT
** *
30271057 ATGTTATAAAAACTTTAGATTTTATTCCATATTATTATTGTTGTTGGTCAAACAATT
631 ATAATATAAAAA-TTTAGATTTTATTCCATATTATTATTGTTGTTGGTCAAATAATT
*
30271114 TTTTATTAAGGTAAACATTATATTAAATTAATTTTTAAATTTTTTTGTTGAATTTATATATTTGT
1 TTTTATTAAGGTAAACATTATATTAAATTAATTTTTAAATTTTTTTGTTGAATTTATATATTTAT
** * * *
30271179 ATATATTACAAACTTATAGAATTGTCACACTTGTTTAGTTCCTCTGGAGGTTATCGAACAACCAA
66 ATATATTACAAACTTATAGAATTACCACACTTGTTCAGTTACTC-GGAGGTTACCGAACAACCAA
* * * *
30271244 AAGAGCTTTGGATCGAAACCACAAACCAAAATTGAAATTGAATCCCCAAATTGAAACCAAATCTA
130 AAG-CCTTCGAATCGAAACCACAAACCAAAAATGAAATTGAATCCCCAAATTGAAACCAAATCTA
30271309 AAACCCTAAAGTGAAACCTATATCAAAATTCCTAATTTAAGGCTTTCAATAGATTTGGGTAACTA
194 AAACCCTAAA-TGAAACCTATATCAAAA-TCCTAATTTAAGGCTTTCAATAGATTTGGGTAACTA
* * *
30271374 AA-TATAAGGCTTTAAAAAACCTTTTATTATTTTTCATTTTAGTCGAACGTGAGATGATTTATAT
257 AATTA-AAGGCTTTCAAAAACCTTTTATT-TTTTTCATTCTAGTCGAACGTGAGATGATTTCTAT
* * * *
30271438 TGTATTAACTGTGATCTTTCCATTAGTATGTTTTCCAAGCCAAATTATGTTGTGTCTTAAAAGAA
320 TGTATGAAATGCGATCTTTCCATTAGTATGTTTTCCAAGCCAAATTGTGTTGTGTCTTAAAAGAA
*
30271503 CCAAGCTCCCAAAGTAGCCTACTTGAAATAGAAAACTTTGAAATTTTGAGCAAATTGTGACGATT
385 CCAAGCTCCCAAAGTAGCCTACTTGAAACAGAAAACTTTGAAATTTTGAGCAAATTGTGACGATT
* * * *
30271568 TTGAATGTTTTAAG-CCTCGAATCTTAAGCTTTTGGTTACTCTTTTTGATCAAACAAAATTTCTT
450 TTCAATGTTTTAAGCCCT-GAATCTTAGGCTTTCGGTTACTCTTTTTGATCAAACAAAATTTTTT
* * * * * *
30271632 ATTTTAGAATTAAATTTCAGCTCTAAATTAGTATTATTAAAACCACCAAATTTTTGAAAGACCAT
514 GTTTTAGAATTACATTCCAACTCTAAATTAATATTATTAAAACCACCAAATTTTTGAAAGATCAT
* * *
30271697 AGAGTTTTGATAACTTAAAATGAG-CAAAAAGTAATTGAGGTTTTGAAATATAGAATATAAAAAT
579 AGAGTTTTGATAACTTAAAATGAGTCAAAAAGTTATTGAGGTTCTGAAATATATAATATAAAAAT
*
30271761 TATAGA---T-TT---TA-TA--A---TTGTTGGTC--A-AGTT
644 T-TAGATTTTATTCCATATTATTATTGTTGTTGGTCAAATAATT
* *
30271789 TTTTATTAAGGTGAAC---ATATTAAATTAA-TTTTGAATATTTTTTGTTGAATTTATATATTTA
1 TTTTATTAAGGTAAACATTATATTAAATTAATTTTTAAAT-TTTTTTGTTGAATTTATATATTTA
* * * * * * * *
30271850 TATATATTAAAAACTTAAAAAATTACCACACTAGCTCAGTTACTCGAGAGGTAACCGAACAATCG
65 TATATATTACAAACTTATAGAATTACCACACTTGTTCAGTTACTCG-GAGGTTACCGAACAACCA
* * * * * ** * ** ** ***
30271915 AAACCCTTCAAATTGAGACCTCAAATAAAAAATAAAATCAAATCCCCAAATCAAAATTGAATCTA
129 AAAGCCTTCGAATCGAAACCACAAACCAAAAATGAAATTGAATCCCCAAATTGAAACCAAATCTA
* ** * * * *
30271980 AAACCCCAAACCAAACCCTAAATTAAAA-CCT-A---AA-----TCAA-A-A------T-CCCAA
194 AAACCCTAAATGAAA-CCTATATCAAAATCCTAATTTAAGGCTTTCAATAGATTTGGGTAACTAA
* * ** * * *
30272026 ATTGAAGGATTTCAAAAACCTTTTATTGTTGCTCATTCTAGTCGAATGTGAGATGATTTCTACTA
258 ATTAAAGGCTTTCAAAAACCTTTTATT-TTTTTCATTCTAGTCGAACGTGAGATGATTTCTATTG
* *
30272091 TATGAAATGCAAT-TGTTCCATTAGTATGTTTTCCAAGCCAAATTGTG-T-TGTCTTAAAAGAAT
322 TATGAAATGCGATCT-TTCCATTAGTATGTTTTCCAAGCCAAATTGTGTTGTGTCTTAAAAGAAC
* * * * *
30272153 CAAGCTCTCAAAGTAGCATACTTGAAACAGAAAA-TTTGAAA-TTTG-GCAAGTTGTGACCATTC
386 CAAGCTCCCAAAGTAGCCTACTTGAAACAGAAAACTTTGAAATTTTGAGCAAATTGTGACGATTT
* * *
30272215 TCAATGTTTTAAGCCCCGAATATTAGGTTTTCGGTTACTCTTTTTGATCAAACAAAATTTTTTGT
451 TCAATGTTTTAAGCCCTGAATCTTAGGCTTTCGGTTACTCTTTTTGATCAAACAAAATTTTTTGT
* ** ** * *
30272280 TTTAGAATTACGTTCCAGGTCTAAATTAATATTATT-AAATTACCAAATTTTTTAAAGAGCATAG
516 TTTAGAATTACATTCCAACTCTAAATTAATATTATTAAAACCACCAAATTTTTGAAAGATCATAG
* * * *
30272344 AGTTTTGATAACTTATAATGAGCCAAAAAGTTATTGAGGTTTTGAAATATATAATATAAAATTTT
581 AGTTTTGATAACTTAAAATGAGTCAAAAAGTTATTGAGGTTCTGAAATATATAATATAAAA-ATT
* * *
30272409 TAGATTTTATTCCATATTATTATTGTTGTTGATAAAATTATT
645 TAGATTTTATTCCATATTATTATTGTTGTTGGTCAAATAATT
* * * *
30272451 TTTTATTAAGGTAAACATTATATTAAATTAAATTTGAATTTTTTTTGTTCAATTTATATATTTAT
1 TTTTATTAAGGTAAACATTATATTAAATTAATTTTTAAATTTTTTTGTTGAATTTATATATTTAT
* * * * *
30272516 ATATATTA-AAGGCTTATAGAATTACCATACTTGTTCAATTACTCAAGAGGTTATCGAACAACCG
66 ATATATTACAA-ACTTATAGAATTACCACACTTGTTCAGTTACTC-GGAGGTTACCGAACAACC-
* ** *
30272580 AAACGCCTTTTAATCGAAACCTCAAACCAAAAATGAAAT
128 AAAAGCCTTCGAATCGAAACCACAAACCAAAAATGAAAT
30272619 CAAATCACCA
Statistics
Matches: 2981, Mismatches: 456, Indels: 348
0.79 0.12 0.09
Matches are distributed among these distances:
645 45 0.02
646 139 0.05
647 8 0.00
648 7 0.00
649 45 0.02
650 4 0.00
651 95 0.03
652 2 0.00
653 2 0.00
654 2 0.00
656 1 0.00
658 1 0.00
659 8 0.00
660 4 0.00
661 1 0.00
662 46 0.02
663 1 0.00
664 52 0.02
665 181 0.06
666 53 0.02
667 6 0.00
668 50 0.02
669 4 0.00
670 13 0.00
671 259 0.09
672 151 0.05
673 1 0.00
674 1 0.00
675 19 0.01
676 2 0.00
678 12 0.00
679 2 0.00
680 4 0.00
681 1 0.00
683 3 0.00
684 15 0.01
685 6 0.00
687 3 0.00
688 2 0.00
690 2 0.00
691 49 0.02
692 359 0.12
693 5 0.00
695 7 0.00
696 1 0.00
697 2 0.00
698 4 0.00
699 7 0.00
700 37 0.01
701 15 0.01
702 14 0.00
703 82 0.03
704 315 0.11
705 14 0.00
706 25 0.01
707 104 0.03
708 116 0.04
709 19 0.01
710 20 0.01
711 8 0.00
712 281 0.09
713 44 0.01
714 8 0.00
715 29 0.01
716 55 0.02
717 81 0.03
718 27 0.01
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (686 bp):
TTTTATTAAGGTAAACATTATATTAAATTAATTTTTAAATTTTTTTGTTGAATTTATATATTTAT
ATATATTACAAACTTATAGAATTACCACACTTGTTCAGTTACTCGGAGGTTACCGAACAACCAAA
AGCCTTCGAATCGAAACCACAAACCAAAAATGAAATTGAATCCCCAAATTGAAACCAAATCTAAA
ACCCTAAATGAAACCTATATCAAAATCCTAATTTAAGGCTTTCAATAGATTTGGGTAACTAAATT
AAAGGCTTTCAAAAACCTTTTATTTTTTTCATTCTAGTCGAACGTGAGATGATTTCTATTGTATG
AAATGCGATCTTTCCATTAGTATGTTTTCCAAGCCAAATTGTGTTGTGTCTTAAAAGAACCAAGC
TCCCAAAGTAGCCTACTTGAAACAGAAAACTTTGAAATTTTGAGCAAATTGTGACGATTTTCAAT
GTTTTAAGCCCTGAATCTTAGGCTTTCGGTTACTCTTTTTGATCAAACAAAATTTTTTGTTTTAG
AATTACATTCCAACTCTAAATTAATATTATTAAAACCACCAAATTTTTGAAAGATCATAGAGTTT
TGATAACTTAAAATGAGTCAAAAAGTTATTGAGGTTCTGAAATATATAATATAAAAATTTAGATT
TTATTCCATATTATTATTGTTGTTGGTCAAATAATT
Found at i:30272884 original size:143 final size:143
Alignment explanation
Indices: 30272626--30272910 Score: 453
Period size: 143 Copynumber: 2.0 Consensus size: 143
30272616 AATCAAATCA
* * *
30272626 CCAAATCGTGGACGAATCTAAAACCCCAAACCAGACCCTAAATTTAAACATAACTCAAAATCCCA
1 CCAAATCGTAGACAAATCTAAAACCCCAAACCAGACCCCAAATTTAAACATAACTCAAAATCCCA
*
30272691 AATTAAAGCTGTGAACAAATTTGGGTAACTAAATTTCAAGCTTTCTAAAACATTCTATTGTTGCT
66 AATTAAAGCTGTCAACAAATTTGGGTAACTAAATTTCAAGCTTTCTAAAACATTCTATTGTTGCT
30272756 CATTCTAGTCAAC
131 CATTCTAGTCAAC
* * *
30272769 CCAAATCGTAGACAAATCTAAAACCCCAAACCAGACCCCAAATTTAAACCTAAGTTAAAATCCCA
1 CCAAATCGTAGACAAATCTAAAACCCCAAACCAGACCCCAAATTTAAACATAACTCAAAATCCCA
* * * * *
30272834 AATTGAAGCTTTCAATAGATTTGGGTAACTAAGTTTCAAGCTTTCTAAAACATTCTATTGTTGCT
66 AATTAAAGCTGTCAACAAATTTGGGTAACTAAATTTCAAGCTTTCTAAAACATTCTATTGTTGCT
*
30272899 CATTGTAGTCAA
131 CATTCTAGTCAA
30272911 GCGTAAGATG
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
143 129 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (143 bp):
CCAAATCGTAGACAAATCTAAAACCCCAAACCAGACCCCAAATTTAAACATAACTCAAAATCCCA
AATTAAAGCTGTCAACAAATTTGGGTAACTAAATTTCAAGCTTTCTAAAACATTCTATTGTTGCT
CATTCTAGTCAAC
Found at i:30273459 original size:25 final size:24
Alignment explanation
Indices: 30273431--30273511 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 24
30273421 GTCTTTGAAA
*
30273431 TGAAACCACAAACCAAACTTGAAAT
1 TGAAACCCCAAACCAAACTT-AAAT
* *
30273456 TGAATCCCCAAATCGAAAC-TAAAT
1 TGAAACCCCAAA-CCAAACTTAAAT
30273480 CT-AAACCCCCAAACCAAACCTTAAAT
1 -TGAAA-CCCCAAACCAAA-CTTAAAT
30273506 TGAAAC
1 TGAAAC
30273512 ATAAGTCGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
24 10 0.22
25 22 0.49
26 13 0.29
ACGTcount: A:0.48, C:0.28, G:0.06, T:0.17
Consensus pattern (24 bp):
TGAAACCCCAAACCAAACTTAAAT
Found at i:30274989 original size:7 final size:7
Alignment explanation
Indices: 30274979--30275027 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
30274969 CCACAAACTA
30274979 TAAACCC
1 TAAACCC
30274986 TAAACCC
1 TAAACCC
30274993 TAAACCC
1 TAAACCC
*
30275000 -AAATCC
1 TAAACCC
*
30275006 -AAACCT
1 TAAACCC
*
30275012 TAAACAC
1 TAAACCC
30275019 TAAACCC
1 TAAACCC
30275026 TA
1 TA
30275028 TTTCTTATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 9 0.26
7 26 0.74
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:30275631 original size:68 final size:69
Alignment explanation
Indices: 30275499--30275633 Score: 177
Period size: 69 Copynumber: 2.0 Consensus size: 69
30275489 GAGTATTTTG
* * *
30275499 ATAAAAAAATTAGCGGTGTTAACAAATTGACTTTAAAATCTGAAATATGAAAAGTACATGGACTA
1 ATAAAAAAATTAGCAGTGTGAACAAATTGACTTTAAAATCTGAAATATGAAAAGTAAATGGACTA
30275564 AAAT
66 AAAT
* * *
30275568 ATAAAGAAATTAGTAGTGTGAACAATTTGAC-TTAAATAT-TGAAATATGAAAAGTATAAT-GAC
1 ATAAAAAAATTAGCAGTGTGAACAAATTGACTTTAAA-ATCTGAAATATGAAAAGTA-AATGGAC
30275630 TAAA
64 TAAA
30275634 TTTGAAATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
68 28 0.48
69 30 0.52
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.29
Consensus pattern (69 bp):
ATAAAAAAATTAGCAGTGTGAACAAATTGACTTTAAAATCTGAAATATGAAAAGTAAATGGACTA
AAAT
Found at i:30278440 original size:17 final size:17
Alignment explanation
Indices: 30278420--30278452 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30278410 TAAAATTTTA
*
30278420 ATTAAATTAAATAAATT
1 ATTAAATTAAAAAAATT
30278437 ATTAAATTAAAAAAAT
1 ATTAAATTAAAAAAAT
30278453 ATTTTTGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAAATTAAAAAAATT
Found at i:30279828 original size:40 final size:40
Alignment explanation
Indices: 30279757--30279866 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
30279747 ACCAAAATGT
*
30279757 AAACAAGGGCACGTAAGTGCAATCAAGGGTACCGAAGTAC
1 AAACAAGGGCACGTATGTGCAATCAAGGGTACCGAAGTAC
* * *
30279797 ACACAGGGGCACGTATGTGTAATCGAA-GGTACCGAAGTAC
1 AAACAAGGGCACGTATGTGCAATC-AAGGGTACCGAAGTAC
* *
30279837 AAATAAGGTCACGTATGTGCAATC-AGGGTA
1 AAACAAGGGCACGTATGTGCAATCAAGGGTA
30279867 TAATTTACAT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 52 0.88
41 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.17
Consensus pattern (40 bp):
AAACAAGGGCACGTATGTGCAATCAAGGGTACCGAAGTAC
Found at i:30284110 original size:28 final size:27
Alignment explanation
Indices: 30284047--30284198 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
30284037 ATATTAAGTC
* *
30284047 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
30284074 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
30284102 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
30284129 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
30284157 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
30284184 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30284199 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30284131 original size:55 final size:55
Alignment explanation
Indices: 30284047--30284223 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
30284037 ATATTAAGTC
* * *
30284047 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
30284102 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
30284157 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
30284213 CGCACACTTAG
1 CGCACACTTAG
30284224 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:30285826 original size:50 final size:49
Alignment explanation
Indices: 30285708--30285832 Score: 162
Period size: 49 Copynumber: 2.5 Consensus size: 49
30285698 GGGCTGTTAC
**
30285708 ACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCATAAG
1 ACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCCATAAG
* * *
30285757 ACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACT-CCCATGTAAG
1 ACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCCA--TAAG
* *
30285807 ACCATATCTGGGATATGGCATTGGCA
1 ACCATGTCTGGGACATGGCATTGGCA
30285833 GTAAAGAAAG
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 4 0.06
49 35 0.54
50 26 0.40
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (49 bp):
ACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCCATAAG
Found at i:30287766 original size:25 final size:24
Alignment explanation
Indices: 30287737--30287809 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 24
30287727 TATTTACCCT
30287737 TTTTATCTATTTATTTCTTATTTTA
1 TTTTATCTATTTA-TTCTTATTTTA
*
30287762 TTTTATC--TTTCTT-TTATTTTA
1 TTTTATCTATTTATTCTTATTTTA
*
30287783 TTTT-TAGTATTTATTCTTATTCTTA
1 TTTTAT-CTATTTATTCTTATT-TTA
30287808 TT
1 TT
30287810 ATTGTTATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 1 0.03
21 12 0.30
22 2 0.05
23 8 0.20
24 5 0.12
25 12 0.30
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (24 bp):
TTTTATCTATTTATTCTTATTTTA
Found at i:30287943 original size:21 final size:21
Alignment explanation
Indices: 30287919--30287959 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30287909 CAACTGAGCT
30287919 TATTCTTATTATTCTTCTTAC
1 TATTCTTATTATTCTTCTTAC
* * *
30287940 TATTGTTTTTCTTCTTCTTA
1 TATTCTTATTATTCTTCTTA
30287960 TGATTAGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.66
Consensus pattern (21 bp):
TATTCTTATTATTCTTCTTAC
Found at i:30289430 original size:20 final size:21
Alignment explanation
Indices: 30289401--30289439 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30289391 TCAATATTAT
*
30289401 TTTTATTTTTA-TTTTTTTAC
1 TTTTACTTTTACTTTTTTTAC
30289421 TTTTACTTTTACTTTTTTT
1 TTTTACTTTTACTTTTTTT
30289440 TAGTTGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTACTTTTACTTTTTTTAC
Found at i:30290307 original size:7 final size:7
Alignment explanation
Indices: 30290295--30290319 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30290285 CCATTAATGT
30290295 TAACCCA
1 TAACCCA
30290302 TAACCCA
1 TAACCCA
30290309 TAACCCA
1 TAACCCA
30290316 TAAC
1 TAAC
30290320 ACACATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
TAACCCA
Found at i:30293689 original size:54 final size:52
Alignment explanation
Indices: 30293616--30293726 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 52
30293606 AATATAAAAT
30293616 CAAAATTAAGAATTCGAATTTTAAGATGCATCAATC-AAATTCAAAATTTTGAAA
1 CAAAATTAAGAATTCGAATTTTAAGATGCATCAA-CAAAATT-AAAATTTTG-AA
* * * *
30293670 CAAAATTATA-AATTTGAATTTTAAGATTCCTCAACAAAATTTAAATTTTGAA
1 CAAAATTA-AGAATTCGAATTTTAAGATGCATCAACAAAATTAAAATTTTGAA
30293722 CAAAA
1 CAAAA
30293727 AAACCAGAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
52 7 0.14
53 9 0.18
54 34 0.67
55 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (52 bp):
CAAAATTAAGAATTCGAATTTTAAGATGCATCAACAAAATTAAAATTTTGAA
Found at i:30294613 original size:28 final size:29
Alignment explanation
Indices: 30294565--30294627 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
30294555 TATTTAAGAT
*
30294565 TTTTTATTTATTTATGCAATTT-TAAATAA
1 TTTTTATTTATTTATGAAATTTCT-AATAA
*
30294594 TTTTTATTT-TATTAT-AAATTTCTTATAA
1 TTTTTATTTAT-TTATGAAATTTCTAATAA
30294622 TTTTTA
1 TTTTTA
30294628 AATAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTTATTTATTTATGAAATTTCTAATAA
Found at i:30295596 original size:7 final size:7
Alignment explanation
Indices: 30295584--30295608 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30295574 AGTCGATTGA
30295584 TATTTAG
1 TATTTAG
30295591 TATTTAG
1 TATTTAG
30295598 TATTTAG
1 TATTTAG
30295605 TATT
1 TATT
30295609 ATGTATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:30296256 original size:18 final size:18
Alignment explanation
Indices: 30296233--30296275 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30296223 TGACAGGTGC
* *
30296233 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTCTAT
30296251 GTATCCTAACCCTTCTAT
1 GTATCCTAACCCTTCTAT
*
30296269 GTTTCCT
1 GTATCCT
30296276 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.30, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTCTAT
Found at i:30296738 original size:34 final size:36
Alignment explanation
Indices: 30296694--30296790 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 36
30296684 ATTTTGAATA
*
30296694 TTTTGATATTATTTGATGTAATAAAATA-AAATTT-C
1 TTTT-ATATTATTTAATGTAATAAAATAGAAATTTAC
30296729 TTTTATATTATTTAATGTAATAAAATAGAAATTTAC
1 TTTTATATTATTTAATGTAATAAAATAGAAATTTAC
* *
30296765 TTTTACATT-TTTAATATAATAGAAAT
1 TTTTATATTATTTAATGTAATA-AAAT
30296791 TCTTTTAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
34 22 0.39
35 21 0.38
36 13 0.23
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (36 bp):
TTTTATATTATTTAATGTAATAAAATAGAAATTTAC
Found at i:30300199 original size:126 final size:126
Alignment explanation
Indices: 30299965--30300255 Score: 440
Period size: 126 Copynumber: 2.3 Consensus size: 126
30299955 TCAGGCCAAA
* * * *
30299965 CAGGAACTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTTTCCTAACAAAGC
* * * *
30300030 GTCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAACCGTCTACTCGAAATTATTTTTT
66 ATCCTGCTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTT
* * *
30300091 TAGGAGCTACTGTAGCAAAAGCGCATCCACGTGAGAGCTTCTTTCAGTATTTTTCCTAACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTTTCCTAACAAAGC
*
30300156 ATCCTGCTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTT
* * *
30300217 CA-GAGCTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTT
1 CAGGAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTT
30300256 TTTTAAATTA
Statistics
Matches: 148, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
125 33 0.22
126 115 0.78
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (126 bp):
CAGGAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTTTCCTAACAAAGC
ATCCTGCTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTT
Found at i:30301316 original size:16 final size:17
Alignment explanation
Indices: 30301282--30301323 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
30301272 AGTCTATTGA
*
30301282 TCTTGGTTTGGTTTTTCT
1 TCTT-GTTTGGTTTATCT
*
30301300 TTTTGTTT-GTTTATCT
1 TCTTGTTTGGTTTATCT
30301316 TCTTGTTT
1 TCTTGTTT
30301324 ATGTTCTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 14 0.67
17 4 0.19
18 3 0.14
ACGTcount: A:0.02, C:0.10, G:0.17, T:0.71
Consensus pattern (17 bp):
TCTTGTTTGGTTTATCT
Found at i:30302778 original size:16 final size:16
Alignment explanation
Indices: 30302757--30302787 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30302747 AAATAAATCT
30302757 TTTAATTAGATTTATA
1 TTTAATTAGATTTATA
30302773 TTTAATTAGATTTAT
1 TTTAATTAGATTTAT
30302788 TTAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTAATTAGATTTATA
Found at i:30306621 original size:26 final size:26
Alignment explanation
Indices: 30306577--30306656 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 26
30306567 TGTATGATAG
* *
30306577 TTGGGCTAGATGTAGTTGGGTTTAAGT
1 TTGGGCTAGGT-TAATTGGGTTTAAGT
*
30306604 TTGGGCTAGGTTAATTGGG-TTAGATT
1 TTGGGCTAGGTTAATTGGGTTTA-AGT
*
30306630 TTGGGCT-GG-TAACTTGGGTTTAGGT
1 TTGGGCTAGGTTAA-TTGGGTTTAAGT
30306655 TT
1 TT
30306657 AATTTATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
24 3 0.07
25 13 0.29
26 19 0.42
27 10 0.22
ACGTcount: A:0.16, C:0.05, G:0.36, T:0.42
Consensus pattern (26 bp):
TTGGGCTAGGTTAATTGGGTTTAAGT
Found at i:30307417 original size:14 final size:15
Alignment explanation
Indices: 30307381--30307421 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
30307371 CATTAGCTTC
* *
30307381 TTTGTTTTATTCATT
1 TTTGCTTTATTTATT
30307396 TTTGCTTTATTTATT
1 TTTGCTTTATTTATT
30307411 TTT-CTTTATTT
1 TTTGCTTTATTT
30307422 GATTGGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTGCTTTATTTATT
Found at i:30312362 original size:30 final size:30
Alignment explanation
Indices: 30312307--30312364 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
30312297 ATGTGAATAA
*
30312307 ATTGCTCACACAAGCTAATAGTATATCAGG
1 ATTGCTCACACAAGCTAACAGTATATCAGG
* *
30312337 ATTGCTCACACAAGCTGACATTATATCA
1 ATTGCTCACACAAGCTAACAGTATATCA
30312365 AGGTTACCCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (30 bp):
ATTGCTCACACAAGCTAACAGTATATCAGG
Found at i:30315654 original size:3 final size:3
Alignment explanation
Indices: 30315640--30315690 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
30315630 ACACTAGTAC
* * * * *
30315640 ATA ATT ATA ATA ATA GTA ATA CTA ATA ATA CTA ATA AT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30315687 ATA A
1 ATA A
30315691 GGATATTTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30317343 original size:88 final size:88
Alignment explanation
Indices: 30317248--30317922 Score: 544
Period size: 88 Copynumber: 7.7 Consensus size: 88
30317238 CTACTGCTAG
* * *
30317248 TACATGAAGACAAGATTTGCTTTCTTCGATCCAC-TCCCTACCAATATAGGGAGACAGGA-CATG
1 TACATGAAGACAAGATCTGCTATCTTCGATCCACTTCCC-ACCAATATAGGAAGACAGGATC-TG
*
30317311 TTATCTTCGATCTACTTCACGCCAA
64 CTATCTTCGATCTACTTCACGCCAA
* * * * * *
30317336 TACATGAAGACAAGGATCTAC-ATCTTAGATCCACTTCCTATCAATATAGGAAGACAGGACCAGC
1 TACATGAAGACAA-GATCTGCTATCTTCGATCCACTTCCCACCAATATAGGAAGACAGGATCTGC
*
30317400 CATCTTCGATCTACTTCACGCCAA
65 TATCTTCGATCTACTTCACGCCAA
* * * * * * *
30317424 TACGTGAAGATAAGATCTTCTTTCTTTGATCTACTTCGCCACCAATAT-GGAAAGACAAGATCTG
1 TACATGAAGACAAGATCTGCTATCTTCGATCCACTTC-CCACCAATATAGG-AAGACAGGATCTG
* **
30317488 C-ATCTTCGATCCACTTC-CTATCAA
64 CTATCTTCGATCTACTTCAC-GCCAA
* * * * * * * * * * * * *
30317512 TATAGGAAGATAGGACCTGCTATCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCTACC
1 TACATGAAGACAAGATCTGCTATCTTCGATCCACTTCCCACCAATATAGGAAGACAGGATCT-GC
* * *
30317577 T-TCTGCGATCTACTTCGCCACCAA
65 TATCTTCGATCTACTTC-ACGCCAA
*** * *
30317601 TATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
1 TACATGAAGACAAGATCTGCTATCTTCGATCCACTTCCCACCAATATAGGAAGACAGGATCTGCT
*
30317665 ACCTTCGATCTACTTCACGCCAA
66 ATCTTCGATCTACTTCACGCCAA
* * * * *
30317688 TACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
1 TACATGAAGACAAGATCTGCTATCTTCGATCCACTTC-CCACCAATATAGGAAGACAGGATCTGC
* *
30317753 -ATCTTCGATCCACTTC-CTACCAA
65 TATCTTCGATCTACTTCAC-GCCAA
* * * * * * * * * * *
30317776 TATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACATGATCTGCT
1 TACATGAAGACAAGATCTGCTATCTTCGATCCACTTCCCACCAATATAGGAAGACAGGATCTGCT
* * *
30317841 TTCTTCGATCTACTTCGCCACCAA
66 ATCTTCGATCTACTTC-ACGCCAA
*** * * *
30317865 TATGGGAAGACAAGATCTGC-ATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGA
1 TACATGAAGACAAGATCTGCTATCTTCGATCCACTTCCCACCAATATAGGAAGACAGGA
30317923 CCTATTTACG
Statistics
Matches: 468, Mismatches: 100, Indels: 38
0.77 0.17 0.06
Matches are distributed among these distances:
87 72 0.15
88 301 0.64
89 93 0.20
90 2 0.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (88 bp):
TACATGAAGACAAGATCTGCTATCTTCGATCCACTTCCCACCAATATAGGAAGACAGGATCTGCT
ATCTTCGATCTACTTCACGCCAA
Found at i:30317492 original size:132 final size:132
Alignment explanation
Indices: 30317341--30317925 Score: 954
Period size: 132 Copynumber: 4.4 Consensus size: 132
30317331 GCCAATACAT
* * * * * * *
30317341 GAAGACAAGGATCTACATCTTAGATCCACTTCCTATCAATATAGGAAGACAGGACCAGCCATCTT
1 GAAGACAA-GATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTT
* * * **
30317406 CGATCTACTTCACGCCAATACGTGAAGATAAGATCTTCTTTCTTTGATCTACTTCGCCACCAATA
65 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
30317471 TGG
130 TGG
* * *
30317474 AAAGACAAGATCTGCATCTTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTC
* * *
30317539 AATCTACTTCACGCCAATACATGAAGACAAGATCTACCTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
30317604 GG
131 GG
*
30317606 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTC
30317671 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
30317736 GG
131 GG
*
30317738 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTC
* *
30317803 GATCTACTTCACGCCAATACATGAAGACATGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
30317868 GG
131 GG
*
30317870 GAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGACCT
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCT
30317926 ATTTACGCCT
Statistics
Matches: 428, Mismatches: 24, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
132 421 0.98
133 7 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (132 bp):
GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTC
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
GG
Found at i:30338725 original size:24 final size:24
Alignment explanation
Indices: 30338679--30338725 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
30338669 TTTATATGAA
*
30338679 AATATACTCATTCAGCTTCAATTT
1 AATATACTCATTCAGCCTCAATTT
*
30338703 AATATA-TTATTCAGCCTCTAATT
1 AATATACTCATTCAGCCTC-AATT
30338726 CAACCTCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATACTCATTCAGCCTCAATTT
Found at i:30338916 original size:23 final size:22
Alignment explanation
Indices: 30338873--30338916 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
30338863 TTCTAAGTCG
30338873 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
30338896 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
30338917 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:30339033 original size:45 final size:45
Alignment explanation
Indices: 30338964--30339054 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
30338954 AGATACTCGA
*
30338964 TGGATTCAGCACATAACAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAACAACCACCTTATTAATCAATGATGTCCGG
* *
30339009 TGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTTCGG
1 TGGAATCAGCACATAACAACCACCTTATTAATCAATGATGTCCGG
30339054 T
1 T
30339055 TCACATAGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (45 bp):
TGGAATCAGCACATAACAACCACCTTATTAATCAATGATGTCCGG
Found at i:30340996 original size:27 final size:26
Alignment explanation
Indices: 30340941--30340992 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
30340931 ACATAAGGCC
30340941 ATAACAGTCATTTTATCTCCTAGGGGT
1 ATAACAGTCATTTTA-CTCCTAGGGGT
*
30340968 ATAACAGTCATTTTA-TCCTATGGGT
1 ATAACAGTCATTTTACTCCTAGGGGT
30340993 GTATTTCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
27 15 0.62
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (26 bp):
ATAACAGTCATTTTACTCCTAGGGGT
Found at i:30341005 original size:27 final size:27
Alignment explanation
Indices: 30340975--30341253 Score: 348
Period size: 27 Copynumber: 10.4 Consensus size: 27
30340965 GGTATAACAG
* *
30340975 TCATTTTATCCTATGGGTGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
30341002 TCATTTTACCCTATAGGGGTATTT-TA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
30341028 GTCCTTTTACCCTATGGGGGTATTTCGA
1 -TCATTTTACCCTATGGGGGTATTTCGA
*
30341056 CCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* * * *
30341083 TCATTTTACCTTATAGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGA
*
30341110 TCATTTTACCCTATGGGGGTATTT-TA
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
30341136 GTCATTTTACTCTGTGGGGGTATTTCTA
1 -TCATTTTACCCTATGGGGGTATTTCGA
30341164 TCATTTTACCCTAT-GGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
30341190 TCATTTTACCCTATGGAGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
30341217 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGA
30341244 TCATTTTACC
1 TCATTTTACC
30341254 TATTTTGGGG
Statistics
Matches: 220, Mismatches: 27, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
26 26 0.12
27 191 0.87
28 3 0.01
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:30343344 original size:28 final size:28
Alignment explanation
Indices: 30343304--30343471 Score: 245
Period size: 28 Copynumber: 6.0 Consensus size: 28
30343294 GTGACAGTAC
*
30343304 AGTGTGGGCCTTAGCCCAATACAATAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
30343332 AGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
* *
30343360 AGTGTAGGCTTTAGCCCAA-ACAG-AATT
1 AGTGTGGGCCTTAGCCCAATACAGTAA-T
*
30343387 AGTTTGGGCCTTAGCCCAATACAGT-AT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
30343414 CAGTGTGGGCCTTAGCCCAATACAGT-AT
1 -AGTGTGGGCCTTAGCCCAATACAGTAAT
30343442 CAGTGTGGGCCTTAGCCCAATACAGTAAT
1 -AGTGTGGGCCTTAGCCCAATACAGTAAT
30343471 A
1 A
30343472 ATGCAGTGCA
Statistics
Matches: 128, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
26 2 0.02
27 22 0.17
28 102 0.80
29 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:30343404 original size:83 final size:84
Alignment explanation
Indices: 30343308--30343466 Score: 252
Period size: 83 Copynumber: 1.9 Consensus size: 84
30343298 CAGTACAGTG
*
30343308 TGGGCCTTAGCCCAATACAATAAT-AGTGTGGGCCTTAGCCCAATACAGTAAT-AGTGTAGGCTT
1 TGGGCCTTAGCCCAATACAAT-ATCAGTGTGGGCCTTAGCCCAATACAGT-ATCAGTGTAGGCCT
30343371 TAGCCCAA-ACAGAATTAGTT
64 TAGCCCAATACAGAATTAGTT
* *
30343391 TGGGCCTTAGCCCAATACAGTATCAGTGTGGGCCTTAGCCCAATACAGTATCAGTGTGGGCCTTA
1 TGGGCCTTAGCCCAATACAATATCAGTGTGGGCCTTAGCCCAATACAGTATCAGTGTAGGCCTTA
30343456 GCCCAATACAG
66 GCCCAATACAG
30343467 TAATAATGCA
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
82 4 0.06
83 62 0.89
84 4 0.06
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (84 bp):
TGGGCCTTAGCCCAATACAATATCAGTGTGGGCCTTAGCCCAATACAGTATCAGTGTAGGCCTTA
GCCCAATACAGAATTAGTT
Found at i:30343610 original size:26 final size:26
Alignment explanation
Indices: 30343578--30343642 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
30343568 TATCGCAGTA
*
30343578 CTGCCAGTAATAGCATCGCAGCAAAG
1 CTGCCAGTAATAGCATCACAGCAAAG
**
30343604 CTGCCAGT-ATCAATATCACAGCAAAG
1 CTGCCAGTAAT-AGCATCACAGCAAAG
*
30343630 CTGCTAGTAATAG
1 CTGCCAGTAATAG
30343643 TATATGTGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 2 0.06
26 28 0.88
27 2 0.06
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (26 bp):
CTGCCAGTAATAGCATCACAGCAAAG
Found at i:30343914 original size:27 final size:27
Alignment explanation
Indices: 30343873--30344234 Score: 331
Period size: 27 Copynumber: 13.4 Consensus size: 27
30343863 AGGGGTTGCA
* *
30343873 GTCATTTTACCCTATGAGAGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
30343900 GTCATTTTACTCTAT-AGGGGTATTTCA
1 GTCATTTTACCCTATGA-GGGTATTTCG
* * * *
30343927 ATCATTTTACCCTATGGGGGAATTCCG
1 GTCATTTTACCCTATGAGGGTATTTCG
** * *
30343954 GTTGTTTTACCTTAT-AGGGGTATTTTG
1 GTCATTTTACCCTATGA-GGGTATTTCG
*
30343981 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
30344008 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
30344035 ATCATTTTACCCTAT-AGGGGTACTTT-A
1 GTCATTTTACCCTATGA-GGGTA-TTTCG
*
30344062 GTCATTTTACCCTATG-GAGGTATTTCA
1 GTCATTTTACCCTATGAG-GGTATTTCG
* * *
30344089 GTCATTTTAGCATAT-AGGGGTGTTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
** * *
30344116 GTCATTTTACTATATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
30344143 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
30344170 ATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
30344197 GTAATTTTATCCTATGAGGGTATTTCT
1 GTCATTTTACCCTATGAGGGTATTTCG
30344224 GTCATTTTACC
1 GTCATTTTACC
30344235 TATTTTGGGG
Statistics
Matches: 273, Mismatches: 50, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
26 5 0.02
27 264 0.97
28 4 0.01
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:30343986 original size:81 final size:81
Alignment explanation
Indices: 30343873--30344234 Score: 428
Period size: 81 Copynumber: 4.5 Consensus size: 81
30343863 AGGGGTTGCA
* * * *
30343873 GTCATTTTACCCTAT-GAGAGTATTTTGGTCATTTTACTCTATAGGGGTATTTCAATCATTTTAC
1 GTCATTTTACCTTATAG-GGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAATCATTTTAC
* *
30343937 CCTATGGGGGAATTCCG
65 CCTATGGGGGTATTTCG
** *
30343954 GTTGTTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACC
1 GTCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAATCATTTTACC
30344019 CTATGGGGGTATTTCG
66 CTATGGGGGTATTTCG
* * * * * * *
30344035 ATCATTTTACCCTATAGGGGTACTTTAGTCATTTTACCCTATGGAGGTATTTCAGTCATTTTAGC
1 GTCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAATCATTTTACC
* * *
30344100 ATATAGGGGTGTTTCG
66 CTATGGGGGTATTTCG
* * *
30344116 GTCATTTTA-CTATATGGGGGTATTTTGGTCATTTTACCTTATGGGGGTATTTCGATCATTTTAC
1 GTCATTTTACCT-TATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAATCATTTTAC
*
30344180 CCTATGGGGGTATTTTG
65 CCTATGGGGGTATTTCG
*
30344197 GTAATTTTATCC-TAT-GAGGGTATTTCT-GTCATTTTACC
1 GTCATTTTA-CCTTATAG-GGGTATTT-TGGTCATTTTACC
30344235 TATTTTGGGG
Statistics
Matches: 238, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
80 2 0.01
81 233 0.98
82 2 0.01
83 1 0.00
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAATCATTTTACC
CTATGGGGGTATTTCG
Found at i:30345377 original size:9 final size:9
Alignment explanation
Indices: 30345363--30345400 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
30345353 TACATTAAGC
30345363 ATGTTGACT
1 ATGTTGACT
30345372 ATGTTGAGC-
1 ATGTTGA-CT
30345381 ATGTTGACT
1 ATGTTGACT
*
30345390 GTGTTGACT
1 ATGTTGACT
30345399 AT
1 AT
30345401 AAATTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 1 0.04
9 23 0.92
10 1 0.04
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (9 bp):
ATGTTGACT
Found at i:30345383 original size:18 final size:18
Alignment explanation
Indices: 30345360--30345396 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30345350 TGTTACATTA
30345360 AGCATGTTGACTATGTTG
1 AGCATGTTGACTATGTTG
*
30345378 AGCATGTTGACTGTGTTG
1 AGCATGTTGACTATGTTG
30345396 A
1 A
30345397 CTATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.38
Consensus pattern (18 bp):
AGCATGTTGACTATGTTG
Found at i:30345421 original size:33 final size:33
Alignment explanation
Indices: 30345379--30345451 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
30345369 ACTATGTTGA
*
30345379 GCATGTTGACTGTGTTGACTATAAATTTGATTC
1 GCATGTTGACTGTGTTGACTATAAATCTGATTC
30345412 GCATGTTGACTGTGTTGACTATAAATCTGATTC
1 GCATGTTGACTGTGTTGACTATAAATCTGATTC
30345445 GCATGTT
1 GCATGTT
30345452 AAGCATGCCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (33 bp):
GCATGTTGACTGTGTTGACTATAAATCTGATTC
Found at i:30347243 original size:62 final size:63
Alignment explanation
Indices: 30347134--30347274 Score: 180
Period size: 62 Copynumber: 2.3 Consensus size: 63
30347124 TATTGCATCA
* *
30347134 GAGTGGCTTGGCCACAACGTTATTGAATGGCTTATCCAGAACGTGCAGCTTGTCTGCAATATT
1 GAGTGGCTTAGCCACAACGTTATTGAATGGCTTATCCACAACGTGCAGCTTGTCTGCAATATT
* * * *
30347197 GAGTGGCTTAGCC-CAACGTTATTGAGTTGTTTGA-CCACAATC-TGCAGCTTGTCTGCTATATT
1 GAGTGGCTTAGCCACAACGTTATTGAATGGCTT-ATCCACAA-CGTGCAGCTTGTCTGCAATATT
*
30347259 GAGTGGCTTGGCCACA
1 GAGTGGCTTAGCCACA
30347275 TTGTGTTGTC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
62 52 0.76
63 16 0.24
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (63 bp):
GAGTGGCTTAGCCACAACGTTATTGAATGGCTTATCCACAACGTGCAGCTTGTCTGCAATATT
Found at i:30349086 original size:30 final size:31
Alignment explanation
Indices: 30349050--30349155 Score: 90
Period size: 32 Copynumber: 3.4 Consensus size: 31
30349040 TAATGGCTAC
* *
30349050 AAGCCATAATTA-AGTAATGTGATTGGCACA
1 AAGCCATAAGTACAGTAATATGATTGGCACA
* *
30349080 AAGCCATTAGTAGCAGTGATATGATTGGCACA
1 AAGCCATAAGTA-CAGTAATATGATTGGCACA
* * *
30349112 CAGCCATCAGTAACAGTGAA-ATGATTGGTACA
1 AAGCCATAAGT-ACAGT-AATATGATTGGCACA
* *
30349144 TAGCCATCAGTA
1 AAGCCATAAGTA
30349156 ATGGTCATGT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
30 10 0.16
31 1 0.02
32 50 0.79
33 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
AAGCCATAAGTACAGTAATATGATTGGCACA
Found at i:30349107 original size:32 final size:32
Alignment explanation
Indices: 30349069--30349156 Score: 122
Period size: 32 Copynumber: 2.8 Consensus size: 32
30349059 TTAAGTAATG
* * *
30349069 TGATTGGCACAAAGCCATTAGTAGCAGTGATA
1 TGATTGGCACAAAGCCATCAGTAACAGTGAAA
*
30349101 TGATTGGCACACAGCCATCAGTAACAGTGAAA
1 TGATTGGCACAAAGCCATCAGTAACAGTGAAA
* *
30349133 TGATTGGTACATAGCCATCAGTAA
1 TGATTGGCACAAAGCCATCAGTAA
30349157 TGGTCATGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (32 bp):
TGATTGGCACAAAGCCATCAGTAACAGTGAAA
Found at i:30349175 original size:32 final size:32
Alignment explanation
Indices: 30349113--30349251 Score: 156
Period size: 32 Copynumber: 4.3 Consensus size: 32
30349103 ATTGGCACAC
* * ** *
30349113 AGCCATCAGTAACAGTGA-AATGATTGGTACAT
1 AGCCATCAGTAACGGT-ACTATGATCAGTACAA
* *
30349145 AGCCATCAGTAATGGT-CATGTGATCAGTACAA
1 AGCCATCAGTAACGGTAC-TATGATCAGTACAA
*
30349177 AGCCATCAGTAACGGTACTATGATCGGTACAA
1 AGCCATCAGTAACGGTACTATGATCAGTACAA
* *
30349209 AGCCATTAGTAACGGTACTATGATCAGGACAA
1 AGCCATCAGTAACGGTACTATGATCAGTACAA
30349241 AGCCATCAGTA
1 AGCCATCAGTA
30349252 GCATCGCAGC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
32 89 0.99
33 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (32 bp):
AGCCATCAGTAACGGTACTATGATCAGTACAA
Found at i:30349181 original size:64 final size:64
Alignment explanation
Indices: 30349113--30349251 Score: 174
Period size: 64 Copynumber: 2.2 Consensus size: 64
30349103 ATTGGCACAC
* * * * *
30349113 AGCCATCAGTAACAGTGA-AATGATTGGTACATAGCCATCAGTAATGGT-CATGTGATCAGTACA
1 AGCCATCAGTAACAGT-ACAATGATCGGTACAAAGCCATCAGTAACGGTAC-TATGATCAGGACA
30349176 A
64 A
* * *
30349177 AGCCATCAGTAACGGTACTATGATCGGTACAAAGCCATTAGTAACGGTACTATGATCAGGACAA
1 AGCCATCAGTAACAGTACAATGATCGGTACAAAGCCATCAGTAACGGTACTATGATCAGGACAA
30349241 AGCCATCAGTA
1 AGCCATCAGTA
30349252 GCATCGCAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
63 1 0.02
64 63 0.97
65 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (64 bp):
AGCCATCAGTAACAGTACAATGATCGGTACAAAGCCATCAGTAACGGTACTATGATCAGGACAA
Found at i:30349456 original size:24 final size:23
Alignment explanation
Indices: 30349423--30349481 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
30349413 CCATGCTCAT
*
30349423 AATCATTCATTCAAATCACAGACA
1 AATCAATCATTCAAA-CACAGACA
* *
30349447 AATCAATCATACCAAACATAGACA
1 AATCAATCAT-TCAAACACAGACA
*
30349471 AATCAGTCATT
1 AATCAATCATT
30349482 TACCCACCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (23 bp):
AATCAATCATTCAAACACAGACA
Found at i:30349532 original size:27 final size:27
Alignment explanation
Indices: 30349476--30349727 Score: 210
Period size: 27 Copynumber: 9.4 Consensus size: 27
30349466 AGACAAATCA
30349476 GTCA-TTTACCC-ACCA-GGGTATTACG
1 GTCATTTTACCCTA-CAGGGGTATTACG
30349501 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
30349528 TTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
30349555 GTCATTTTACCCTACAGGGATATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* ** *
30349582 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
30349609 GT-ATTCTACCCTACTGGGGTATTTCA
1 GTCATTTTACCCTACAGGGGTATTACG
* * * * *
30349635 ATCATTTTACCCTATAGGGGCATTGCA
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
30349662 GTCCTTTTACTC-ATC-GAGGGTATTTCG
1 GTCATTTTACCCTA-CAG-GGGTATTACG
** ** * *
30349689 GTTGTTTTACCCTATGGGGGCATTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
30349716 GTCATTTTACCC
1 GTCATTTTACCC
30349728 ATCGAGGGTA
Statistics
Matches: 184, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
25 4 0.02
26 32 0.17
27 146 0.79
28 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:30349560 original size:54 final size:54
Alignment explanation
Indices: 30349495--30349727 Score: 247
Period size: 54 Copynumber: 4.3 Consensus size: 54
30349485 CCACCAGGGT
* *
30349495 ATTACGGTCATTTTACCCTACAGGGGTATTACGTTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAGGGGC
* * *
30349549 ATTACGGTCATTTTACCCTACAGGGATATTACGATCATTTTACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAGGGGC
* * * * *
30349603 ATTTCGGT-ATTCTACCCTACTGGGGTATTTCAATCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAGGGGC
* * * * * * ** *
30349656 ATTGCAGTCCTTTTACTC-ATC-GAGGGTATTTCGGTTGTTTTACCCTATGGGGGC
1 ATTACGGTCATTTTACCCTA-CAG-GGGTATTACGATCATTTTACCCTATAGGGGC
*
30349710 ATTTCGGTCATTTTACCC
1 ATTACGGTCATTTTACCC
30349728 ATCGAGGGTA
Statistics
Matches: 149, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
53 46 0.31
54 103 0.69
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (54 bp):
ATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAGGGGC
Found at i:30349670 original size:107 final size:108
Alignment explanation
Indices: 30349491--30349727 Score: 291
Period size: 107 Copynumber: 2.2 Consensus size: 108
30349481 TTACCCACCA
* ** *
30349491 GGGTATTACGGTCATTTTACCCTACAGGGGTATTACGTTCATTTTACCCTACAGGGGCATTACGG
1 GGGTATTTCGGTCATTTTACCCTACAGGGGTATTACAATCATTTTACCCTACAGGGGCATTACAG
30349556 TCATTTTACCC-TAC-AGGGATATTACGATCATTTTACCCTATGG
66 TCATTTTACCCAT-CGAGGG-TATTACGATCATTTTACCCTATGG
* * * * *
30349599 GGGTATTTCGGT-ATTCTACCCTACTGGGGTATTTCAATCATTTTACCCTATAGGGGCATTGCAG
1 GGGTATTTCGGTCATTTTACCCTACAGGGGTATTACAATCATTTTACCCTACAGGGGCATTACAG
* * * * **
30349663 TCCTTTTACTCATCGAGGGTATTTCGGTTGTTTTACCCTATGG
66 TCATTTTACCCATCGAGGGTATTACGATCATTTTACCCTATGG
*
30349706 GGGCATTTCGGTCATTTTACCC
1 GGGTATTTCGGTCATTTTACCC
30349728 ATCGAGGGTA
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
107 85 0.78
108 24 0.22
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (108 bp):
GGGTATTTCGGTCATTTTACCCTACAGGGGTATTACAATCATTTTACCCTACAGGGGCATTACAG
TCATTTTACCCATCGAGGGTATTACGATCATTTTACCCTATGG
Found at i:30350307 original size:66 final size:61
Alignment explanation
Indices: 30350206--30350333 Score: 211
Period size: 66 Copynumber: 2.0 Consensus size: 61
30350196 TGATCATTGC
30350206 ACCCTTGGTTCCTTCCACTGTGCCAATAAACCTCGACCACCACCAATTAGGAATAGAGGCA
1 ACCCTTGGTTCCTTCCACTGTGCCAATAAACCTCGACCACCACCAATTAGGAATAGAGGCA
30350267 ACCCTTGGTTCCTTCCCAGGCAATGTGCCAATAAACCTCGACCACCACCAATTAGGAATAGAGGC
1 ACCCTTGGTTCCTT-CCA--C--TGTGCCAATAAACCTCGACCACCACCAATTAGGAATAGAGGC
30350332 A
61 A
30350333 A
1 A
30350334 TGTAGTTTGG
Statistics
Matches: 62, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
61 14 0.23
62 3 0.05
64 1 0.02
66 44 0.71
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.20
Consensus pattern (61 bp):
ACCCTTGGTTCCTTCCACTGTGCCAATAAACCTCGACCACCACCAATTAGGAATAGAGGCA
Found at i:30359546 original size:60 final size:60
Alignment explanation
Indices: 30359436--30359619 Score: 210
Period size: 60 Copynumber: 3.1 Consensus size: 60
30359426 GTAATGGGAA
* ** * * * *
30359436 TGAT-CCTGGTCTCAATGATAA-TATGAATGACCAAGATGTTAATCCCCCTATTCGTAGGG
1 TGATACCTGGTCTAAATGATAACT-TGAATGGTCAAGACGCTGATCCTCCTATTCGTAGGG
* *
30359495 TGATACCTGGTGTGAATGATAACTTGAATGGTCAAGACGCTGATCCTCCTATTCGTAGGG
1 TGATACCTGGTCTAAATGATAACTTGAATGGTCAAGACGCTGATCCTCCTATTCGTAGGG
* * * * * *
30359555 TGATACCTGGTCTAAATGATAATTTGAATGGTCAGGATGTTGATCCTCCTATTCATAAGG
1 TGATACCTGGTCTAAATGATAACTTGAATGGTCAAGACGCTGATCCTCCTATTCGTAGGG
30359615 TGATA
1 TGATA
30359620 GATGGCCGAG
Statistics
Matches: 107, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
59 4 0.04
60 102 0.95
61 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (60 bp):
TGATACCTGGTCTAAATGATAACTTGAATGGTCAAGACGCTGATCCTCCTATTCGTAGGG
Found at i:30360740 original size:21 final size:21
Alignment explanation
Indices: 30360716--30360755 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30360706 CTAAAAATGA
30360716 TGTTGTAATTTAGAATCAGAC
1 TGTTGTAATTTAGAATCAGAC
*
30360737 TGTTGTAATTTAGAGTCAG
1 TGTTGTAATTTAGAATCAG
30360756 GCTGCGTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (21 bp):
TGTTGTAATTTAGAATCAGAC
Found at i:30361936 original size:40 final size:40
Alignment explanation
Indices: 30361881--30361960 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
30361871 GGATTACCGC
30361881 AAAATTAACAAGGCAACTAGGGTGGACCATTTTCCCCTAT
1 AAAATTAACAAGGCAACTAGGGTGGACCATTTTCCCCTAT
30361921 AAAATTAACAAGGCAACTAGGGTGGACCATTTTCCCCTAT
1 AAAATTAACAAGGCAACTAGGGTGGACCATTTTCCCCTAT
30361961 CATTCATTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (40 bp):
AAAATTAACAAGGCAACTAGGGTGGACCATTTTCCCCTAT
Found at i:30362223 original size:77 final size:77
Alignment explanation
Indices: 30362070--30362212 Score: 268
Period size: 77 Copynumber: 1.9 Consensus size: 77
30362060 CCAAGATAAG
* *
30362070 ACAACTTTCACATGTCCATATGGTACTTTTGCATTCAGATGGATGTCATTTGTGTTATGTAATGA
1 ACAACTTTCACATGTCCATATGGTACTTTTGCATTCAGATGGACGTCATTCGTGTTATGTAATGA
30362135 CCCGACAACTTT
66 CCCGACAACTTT
30362147 ACAACTTTCACATGTCCATATGGTACTTTTGCATTCAGATGGACGTCATTCGTGTTATGTAATGA
1 ACAACTTTCACATGTCCATATGGTACTTTTGCATTCAGATGGACGTCATTCGTGTTATGTAATGA
30362212 C
66 C
30362213 TCGGAAACTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 64 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (77 bp):
ACAACTTTCACATGTCCATATGGTACTTTTGCATTCAGATGGACGTCATTCGTGTTATGTAATGA
CCCGACAACTTT
Found at i:30368759 original size:30 final size:30
Alignment explanation
Indices: 30368725--30368781 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
30368715 GAGAAAATTT
30368725 TTGTTGATAAATTAGCTCATATGAAAGTAA
1 TTGTTGATAAATTAGCTCATATGAAAGTAA
30368755 TTGTTGATAAATTAGCTCATATGAAAG
1 TTGTTGATAAATTAGCTCATATGAAAG
30368782 GATAATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.37
Consensus pattern (30 bp):
TTGTTGATAAATTAGCTCATATGAAAGTAA
Found at i:30372280 original size:40 final size:40
Alignment explanation
Indices: 30372197--30372499 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
30372187 TTGAATGCTG
* * * * * *
30372197 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30372237 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30372277 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30372317 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30372357 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30372397 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30372437 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30372476 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30372500 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30400586 original size:22 final size:21
Alignment explanation
Indices: 30400561--30400624 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
30400551 CGAAAGCTCT
30400561 AAACGAACAGATCTGAAAATTA
1 AAAC-AACAGATCTGAAAATTA
*
30400583 AAACAA-AGAAC--AAAATT-
1 AAACAACAGATCTGAAAATTA
30400600 AAACTAATCAGATCTGAAAATTA
1 AAAC-AA-CAGATCTGAAAATTA
30400623 AA
1 AA
30400625 TCCCCAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
17 4 0.12
18 8 0.24
20 8 0.24
21 2 0.06
22 10 0.29
23 2 0.06
ACGTcount: A:0.59, C:0.12, G:0.09, T:0.19
Consensus pattern (21 bp):
AAACAACAGATCTGAAAATTA
Found at i:30405081 original size:21 final size:21
Alignment explanation
Indices: 30405036--30405098 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
30405026 TTTGAACCAT
* *
30405036 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
30405058 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
30405079 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
30405099 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:30407230 original size:15 final size:15
Alignment explanation
Indices: 30407210--30407262 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
30407200 CTTCTTCTTC
30407210 TTTTTTCACAAAATTT
1 TTTTTTCACAAAA-TT
* *
30407226 TTTTTTCACGAATTT
1 TTTTTTCACAAAATT
**
30407241 TTTTTTCA-TGAATT
1 TTTTTTCACAAAATT
30407255 TTTTTTCA
1 TTTTTTCA
30407263 ACTTGATATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 11 0.34
15 10 0.31
16 11 0.34
ACGTcount: A:0.23, C:0.11, G:0.04, T:0.62
Consensus pattern (15 bp):
TTTTTTCACAAAATT
Found at i:30407231 original size:16 final size:15
Alignment explanation
Indices: 30407210--30407260 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
30407200 CTTCTTCTTC
30407210 TTTTTTCACAAAATTT
1 TTTTTTCAC-AAATTT
*
30407226 TTTTTTCACGAATTT
1 TTTTTTCACAAATTT
**
30407241 TTTTTTCATGAATTT
1 TTTTTTCACAAATTT
30407256 TTTTT
1 TTTTT
30407261 CAACTTGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
15 24 0.73
16 9 0.27
ACGTcount: A:0.22, C:0.10, G:0.04, T:0.65
Consensus pattern (15 bp):
TTTTTTCACAAATTT
Found at i:30407321 original size:13 final size:13
Alignment explanation
Indices: 30407303--30407336 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
30407293 GAAACCAATT
30407303 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
30407316 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
30407329 TTTTTTTT
1 TTTTTTTT
30407337 GAAACTACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTGAA
Found at i:30408534 original size:22 final size:22
Alignment explanation
Indices: 30408483--30408548 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
30408473 GGTATTTGGG
** *
30408483 AATTGGTTTGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
30408504 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
30408526 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
30408549 TCAAAGAGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 18 0.47
22 15 0.39
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.36
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:30412556 original size:10 final size:10
Alignment explanation
Indices: 30412541--30412602 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
30412531 TTTGAACCAT
*
30412541 TACCAATTCG
1 TACCAATTCA
*
30412551 TACCAAATACCA
1 TACC-AAT-TCA
*
30412563 TACCATTTCA
1 TACCAATTCA
30412573 TACCAATTCCA
1 TACCAATT-CA
* *
30412584 TACCATTTCG
1 TACCAATTCA
30412594 TACCAATTC
1 TACCAATTC
30412603 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:30412586 original size:21 final size:21
Alignment explanation
Indices: 30412541--30412603 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
30412531 TTTGAACCAT
* *
30412541 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
30412563 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
30412584 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
30412604 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:30413924 original size:6 final size:6
Alignment explanation
Indices: 30413899--30413997 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
30413889 TAATGAATTC
** * *
30413899 GAAAAA GAAAGT GAAGAA GAAAAA GAAAACA -AAAAA GAAAAA GAAAAC
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA-A GAAAAA GAAAAA GAAAAA
** * * *
30413947 GAAAAA GTGAGA GAAAAA GAAAAT GAAGAAAA GAAAATT GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA G-A-AAAA GAAAA-A GAAAAA GAAAAA
30413998 TATGAAAATG
Statistics
Matches: 70, Mismatches: 18, Indels: 10
0.71 0.18 0.10
Matches are distributed among these distances:
5 1 0.01
6 57 0.81
7 8 0.11
8 4 0.06
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (6 bp):
GAAAAA
Found at i:30413980 original size:14 final size:13
Alignment explanation
Indices: 30413959--30413996 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
30413949 AAAAGTGAGA
30413959 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
30413971 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
30413986 GAAAAAGAAAA
1 GAAAAAGAAAA
30413997 ATATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:30414040 original size:17 final size:18
Alignment explanation
Indices: 30414015--30414054 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
30414005 ATGAGATTTC
30414015 AAAAACAAAA-GAGAGTG
1 AAAAACAAAACGAGAGTG
* *
30414032 AAAAGCAAAACGAGATTG
1 AAAAACAAAACGAGAGTG
30414050 AAAAA
1 AAAAA
30414055 GAAAGAGAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.65, C:0.07, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAACAAAACGAGAGTG
Found at i:30414046 original size:18 final size:17
Alignment explanation
Indices: 30414015--30414064 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
30414005 ATGAGATTTC
30414015 AAAAACAAAAGAGAGTG
1 AAAAACAAAAGAGAGTG
* *
30414032 AAAAGCAAAACGAGATTG
1 AAAAACAAAA-GAGAGTG
*
30414050 AAAAA-GAAAGAGAGT
1 AAAAACAAAAGAGAGT
30414065 TTGAAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 10 0.37
ACGTcount: A:0.62, C:0.06, G:0.24, T:0.08
Consensus pattern (17 bp):
AAAAACAAAAGAGAGTG
Found at i:30414048 original size:36 final size:34
Alignment explanation
Indices: 30414001--30414080 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 34
30413991 AGAAAAATAT
*
30414001 GAAAATGAGATTTCAAAAACAAAAGAGAG-TGAAAA
1 GAAAACGAGA-TTCAAAAA-AAAAGAGAGTTGAAAA
* *
30414036 GCAAAACGAGATTGAAAAAGAAAGAGAGTTTGAAAA
1 G-AAAACGAGATTCAAAAAAAAAGAGAG-TTGAAAA
30414072 GAAAACGAG
1 GAAAACGAG
30414081 TGAAGAAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
34 8 0.21
35 16 0.41
36 15 0.38
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (34 bp):
GAAAACGAGATTCAAAAAAAAAGAGAGTTGAAAA
Found at i:30414073 original size:17 final size:16
Alignment explanation
Indices: 30414022--30414096 Score: 52
Period size: 16 Copynumber: 4.6 Consensus size: 16
30414012 TTCAAAAACA
30414022 AAAGAGAG-TGAAAAG
1 AAAGAGAGTTGAAAAG
30414037 CAAA-ACGAGATTGAAAAAG
1 -AAAGA-GAG-TTG-AAAAG
30414056 AAAGAGAGTTTGAAAAG
1 AAAGAGAG-TTGAAAAG
30414073 AAA-ACGAG-TGAAGAAG
1 AAAGA-GAGTTGAA-AAG
30414089 -AAGAGAGT
1 AAAGAGAGT
30414097 GCTCAAACAC
Statistics
Matches: 49, Mismatches: 1, Indels: 18
0.72 0.01 0.26
Matches are distributed among these distances:
15 10 0.20
16 11 0.22
17 11 0.22
18 11 0.22
19 6 0.12
ACGTcount: A:0.56, C:0.04, G:0.29, T:0.11
Consensus pattern (16 bp):
AAAGAGAGTTGAAAAG
Found at i:30415369 original size:20 final size:21
Alignment explanation
Indices: 30415334--30415372 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30415324 CAGCTCGTTG
30415334 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
30415355 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
30415373 GCTTTTTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:30415778 original size:13 final size:13
Alignment explanation
Indices: 30415760--30415785 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30415750 TGTGTCCTAA
30415760 TATGAATTAAATT
1 TATGAATTAAATT
30415773 TATGAATTAAATT
1 TATGAATTAAATT
30415786 GCTTTCAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:30426776 original size:24 final size:23
Alignment explanation
Indices: 30426724--30426778 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
30426714 ATAAACAAGA
*
30426724 AATGGTATTTGGTTTAGGTACGT
1 AATGGTATTTGGATTAGGTACGT
**
30426747 TTTGGTATTTAGGAATT-GGTACGT
1 AATGGTATTT-GG-ATTAGGTACGT
30426771 AATGGTAT
1 AATGGTAT
30426779 GGAAGTTGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 8 0.32
24 15 0.60
25 2 0.08
ACGTcount: A:0.24, C:0.04, G:0.29, T:0.44
Consensus pattern (23 bp):
AATGGTATTTGGATTAGGTACGT
Found at i:30426790 original size:22 final size:21
Alignment explanation
Indices: 30426758--30426799 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
30426748 TTGGTATTTA
30426758 GGAATTGGTACGTAA-TGGTAT
1 GGAATTGGTACG-AATTGGTAT
30426779 GGAAGTTGGTACGAATTGGTA
1 GGAA-TTGGTACGAATTGGTA
30426800 ATGGTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.05, G:0.36, T:0.31
Consensus pattern (21 bp):
GGAATTGGTACGAATTGGTAT
Found at i:30433135 original size:21 final size:18
Alignment explanation
Indices: 30433093--30433137 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
30433083 TTTTTCAAAC
30433093 TCTTTTTCAAATCCTCTT
1 TCTTTTTCAAATCCTCTT
*
30433111 TCTTTTATCACATCACTCATT
1 TCTTTT-TCAAATC-CTC-TT
30433132 TCTTTT
1 TCTTTT
30433138 GTACTCTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 3 0.13
21 8 0.35
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.56
Consensus pattern (18 bp):
TCTTTTTCAAATCCTCTT
Found at i:30433271 original size:15 final size:16
Alignment explanation
Indices: 30433246--30433277 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
30433236 TATCTCACAC
30433246 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
30433262 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
30433277 T
1 T
30433278 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:30434163 original size:28 final size:29
Alignment explanation
Indices: 30434127--30434192 Score: 107
Period size: 28 Copynumber: 2.3 Consensus size: 29
30434117 AATTTCAATC
*
30434127 TCTTTTTTTTTTCAATTTCG-ATTTTTTT
1 TCTTCTTTTTTTCAATTTCGAATTTTTTT
*
30434155 TCTTCTTTTTTTTAATTTCGAATTTTTTT
1 TCTTCTTTTTTTCAATTTCGAATTTTTTT
30434184 TCTTCTTTT
1 TCTTCTTTT
30434193 CTTTTTCCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 18 0.51
29 17 0.49
ACGTcount: A:0.11, C:0.12, G:0.03, T:0.74
Consensus pattern (29 bp):
TCTTCTTTTTTTCAATTTCGAATTTTTTT
Found at i:30434179 original size:29 final size:29
Alignment explanation
Indices: 30434127--30434197 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 29
30434117 AATTTCAATC
30434127 TCTT-TTTTTTTTCAATTTCGATTTTTTT
1 TCTTCTTTTTTTTCAATTTCGATTTTTTT
30434155 TCTTCTTTTTTTT-AATTTCGAATTTTTTT
1 TCTTCTTTTTTTTCAATTTCG-ATTTTTTT
30434184 TCTTCTTTTCTTTT
1 TCTTCTTTT-TTTT
30434198 TCCTTCAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 11 0.28
29 25 0.62
30 4 0.10
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.75
Consensus pattern (29 bp):
TCTTCTTTTTTTTCAATTTCGATTTTTTT
Found at i:30434261 original size:13 final size:13
Alignment explanation
Indices: 30434243--30434291 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
30434233 GAATACAAAC
30434243 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
*
30434256 TTTTTTTTCGAATTT
1 TTTTTTTTTGAA--T
30434271 TGTTTTTTTTGAAT
1 T-TTTTTTTTGAAT
30434285 TTTTTTT
1 TTTTTTT
30434292 CCTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 17 0.55
14 2 0.06
15 2 0.06
16 10 0.32
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:30434276 original size:16 final size:15
Alignment explanation
Indices: 30434243--30434291 Score: 59
Period size: 16 Copynumber: 3.4 Consensus size: 15
30434233 GAATACAAAC
30434243 TTTTTTTTT-GAA--
1 TTTTTTTTTCGAATT
30434255 TTTTTTTTTCGAATT
1 TTTTTTTTTCGAATT
*
30434270 TTGTTTTTTTTGAATT
1 TT-TTTTTTTCGAATT
30434286 TTTTTT
1 TTTTTT
30434292 CCTTTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 9 0.28
13 3 0.09
15 6 0.19
16 14 0.44
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTCGAATT
Found at i:30441176 original size:15 final size:15
Alignment explanation
Indices: 30441164--30441203 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
30441154 AATTTAATAG
30441164 CTATGTTTTTAATTAA
1 CTATGTTTTTAATT-A
* *
30441180 TTATTTTTTTAATTA
1 CTATGTTTTTAATTA
30441195 CTATGTTTT
1 CTATGTTTT
30441204 GTTGCTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (15 bp):
CTATGTTTTTAATTA
Found at i:30453507 original size:12 final size:11
Alignment explanation
Indices: 30453458--30453538 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 11
30453448 TTGGAGTAAC
*
30453458 AAAAAAATCAA
1 AAAAAAATGAA
*
30453469 AAAAAAATTGATT
1 AAAAAAA-TGA-A
30453482 AAAAAAATGCAA
1 AAAAAAATG-AA
30453494 AAAAAAAGTGAA
1 AAAAAAA-TGAA
*
30453506 AAAGAAATCGAGCA
1 AAAAAAAT-GA--A
*
30453520 AAAAAAAAGAA
1 AAAAAAATGAA
30453531 AAGAAAAA
1 AA-AAAAA
30453539 AAAGGTGAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
11 11 0.20
12 26 0.46
13 12 0.21
14 7 0.12
ACGTcount: A:0.74, C:0.05, G:0.11, T:0.10
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:30453513 original size:24 final size:24
Alignment explanation
Indices: 30453458--30453528 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 24
30453448 TTGGAGTAAC
*
30453458 AAAAAAAT-CAAAAAAAAATTGATT
1 AAAAAAATGCAAAAAAAAAGTGA-T
30453482 AAAAAAATGCAAAAAAAAAGTGA-
1 AAAAAAATGCAAAAAAAAAGTGAT
30453505 AAAAGAAATCGAGCAAAAAAAAAG
1 AAAA-AAAT---GCAAAAAAAAAG
30453529 AAAAGAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 4 0.10
24 12 0.29
25 13 0.32
27 12 0.29
ACGTcount: A:0.72, C:0.06, G:0.11, T:0.11
Consensus pattern (24 bp):
AAAAAAATGCAAAAAAAAAGTGAT
Found at i:30464599 original size:10 final size:10
Alignment explanation
Indices: 30464584--30464645 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
30464574 TTTGAACCAT
*
30464584 TACCAATTCG
1 TACCAATTCA
*
30464594 TACCAAATACCA
1 TACC-AAT-TCA
*
30464606 TACCATTTCA
1 TACCAATTCA
30464616 TACCAATTCCA
1 TACCAATT-CA
* *
30464627 TACCATTTCG
1 TACCAATTCA
30464637 TACCAATTC
1 TACCAATTC
30464646 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:30464629 original size:21 final size:21
Alignment explanation
Indices: 30464584--30464646 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
30464574 TTTGAACCAT
* *
30464584 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
30464606 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
30464627 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
30464647 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:30469239 original size:12 final size:12
Alignment explanation
Indices: 30469206--30469308 Score: 76
Period size: 12 Copynumber: 8.9 Consensus size: 12
30469196 TTTCCACTCG
30469206 ATTTC-TTTTCA
1 ATTTCTTTTTCA
** *
30469217 AGCTCTCTTTCA
1 ATTTCTTTTTCA
30469229 ATTTCTTTTTCCAA
1 ATTTCTTTTT-C-A
30469243 TATTTCTTTTTC-
1 -ATTTCTTTTTCA
30469255 --TTCTTTTTCA
1 ATTTCTTTTTCA
30469265 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
30469277 ATCTCTTTTTC-
1 ATTTCTTTTTCA
* *
30469288 -TTT-TCTTTCG
1 ATTTCTTTTTCA
30469298 ATTTCTTTTTC
1 ATTTCTTTTTC
30469309 TCGCTCGCAC
Statistics
Matches: 72, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
9 14 0.19
10 2 0.03
11 6 0.08
12 37 0.51
13 1 0.01
14 2 0.03
15 10 0.14
ACGTcount: A:0.13, C:0.21, G:0.02, T:0.64
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:30469289 original size:33 final size:35
Alignment explanation
Indices: 30469222--30469308 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 35
30469212 TTTCAAGCTC
*
30469222 TCTTTCAATTTCTTTTTCCAATATTTCTTTTTCTTCT
1 TCTTTCAATTTCTTTTT-CAATATCTCTTTTTCTT-T
30469259 T-TTTCAATTTCTTTTTC-A-ATCTCTTTTTCTTT
1 TCTTTCAATTTCTTTTTCAATATCTCTTTTTCTTT
*
30469291 TCTTTCGATTTCTTTTTC
1 TCTTTCAATTTCTTTTTC
30469309 TCGCTCGCAC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 2 0.04
33 27 0.57
34 1 0.02
35 1 0.02
36 15 0.32
37 1 0.02
ACGTcount: A:0.11, C:0.21, G:0.01, T:0.67
Consensus pattern (35 bp):
TCTTTCAATTTCTTTTTCAATATCTCTTTTTCTTT
Found at i:30470378 original size:15 final size:17
Alignment explanation
Indices: 30470353--30470387 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
30470343 AATATGTCTT
30470353 ATTTAGTTATAAT-TTA
1 ATTTAGTTATAATGTTA
30470369 ATTT-GTTATAATGTTA
1 ATTTAGTTATAATGTTA
30470385 ATT
1 ATT
30470388 AGCATGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (17 bp):
ATTTAGTTATAATGTTA
Found at i:30472495 original size:22 final size:22
Alignment explanation
Indices: 30472465--30472508 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
30472455 TTTGGTATTT
*
30472465 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACAAAATGGTAA
*
30472487 GGGATTTGGTACAAAATGGTAA
1 GGGAATTGGTACAAAATGGTAA
30472509 TGGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.34, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACAAAATGGTAA
Found at i:30474303 original size:9 final size:10
Alignment explanation
Indices: 30474289--30474334 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
30474279 ATGGTATTGT
30474289 AAAAAAT-AA
1 AAAAAATAAA
30474298 AAAAAATAAA
1 AAAAAATAAA
*
30474308 AAAAAATCAA
1 AAAAAATAAA
* *
30474318 AAAAATTGAA
1 AAAAAATAAA
30474328 AAAAAAT
1 AAAAAAT
30474335 TTTATACGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:30474313 original size:19 final size:20
Alignment explanation
Indices: 30474289--30474334 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
30474279 ATGGTATTGT
30474289 AAAAAAT-AAAAAAAATAAA
1 AAAAAATCAAAAAAAATAAA
* *
30474308 AAAAAATCAAAAAAATTGAA
1 AAAAAATCAAAAAAAATAAA
30474328 AAAAAAT
1 AAAAAAT
30474335 TTTATACGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (20 bp):
AAAAAATCAAAAAAAATAAA
Found at i:30474330 original size:11 final size:10
Alignment explanation
Indices: 30474289--30474335 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
30474279 ATGGTATTGT
30474289 AAAAAA-TAA
1 AAAAAATTAA
30474298 AAAAAA-TAA
1 AAAAAATTAA
* *
30474307 AAAAAAATCA
1 AAAAAATTAA
30474317 AAAAAATTGAA
1 AAAAAATT-AA
30474328 AAAAAATT
1 AAAAAATT
30474336 TTATACGGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
9 15 0.45
10 9 0.27
11 9 0.27
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:30487094 original size:19 final size:20
Alignment explanation
Indices: 30487047--30487084 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30487037 AACATTTTCG
30487047 ATTCAGCTCATTAGAGCTCA
1 ATTCAGCTCATTAGAGCTCA
30487067 ATTCAGCTCATT-GAGCTC
1 ATTCAGCTCATTAGAGCTC
30487085 GTATTAGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTCAGCTCATTAGAGCTCA
Done.