Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 40 of 259
Found at i:12058574 original size:46 final size:45
Alignment explanation
Indices: 12058435--12058574 Score: 131
Period size: 46 Copynumber: 3.0 Consensus size: 45
12058425 GCCCATAAGC
* ** * *
12058435 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
* *** *
12058481 GAACTCGGACTCAACTCAACGTGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
12058527 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
12058573 GA
1 GA
12058575 CATGTCACTT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
46 77 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:12064496 original size:40 final size:40
Alignment explanation
Indices: 12064441--12064704 Score: 320
Period size: 40 Copynumber: 6.5 Consensus size: 40
12064431 TATTCGGATG
*
12064441 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
**
12064481 ATATCCGGGCTAAGTCCAAAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
* * *
12064524 ATACCCGGGCCAAGTCCCGAAGGAATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
12064564 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
12064604 ATATCCGGGCTAAATCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
12064644 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
12064684 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
12064705 ATACTTGGGT
Statistics
Matches: 194, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
39 15 0.08
40 144 0.74
41 2 0.01
43 31 0.16
44 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:12066356 original size:13 final size:13
Alignment explanation
Indices: 12066334--12066370 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
12066324 GTAATCGCAT
*
12066334 ACGGGTGTGTCAC
1 ACGGGCGTGTCAC
12066347 ACGGGCGTGTCAC
1 ACGGGCGTGTCAC
*
12066360 ACGAGCGTGTC
1 ACGGGCGTGTC
12066371 CCTGCCGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.27, G:0.38, T:0.19
Consensus pattern (13 bp):
ACGGGCGTGTCAC
Found at i:12070477 original size:55 final size:55
Alignment explanation
Indices: 12070334--12070469 Score: 155
Period size: 55 Copynumber: 2.5 Consensus size: 55
12070324 TGCAACATGG
* * * **
12070334 CCGTGGGCGAACCTGCGAAAACAATATGGGCGTGCGACACGCCCGTGCCTTGAAA
1 CCGTGGGTGAACCTGCCAAAACAACATGGGCGTGCGACACGCCCGTGCCAAGAAA
* * * ** * * *
12070389 CCATGGTTGAACCTGTCAAATTAACATGGGCGTGCGACATGCCTGTGCCAAGCAA
1 CCGTGGGTGAACCTGCCAAAACAACATGGGCGTGCGACACGCCCGTGCCAAGAAA
12070444 CCGTGGGTGAACCTGCCAAAACAACA
1 CCGTGGGTGAACCTGCCAAAACAACA
12070470 CGAGCGTGGC
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (55 bp):
CCGTGGGTGAACCTGCCAAAACAACATGGGCGTGCGACACGCCCGTGCCAAGAAA
Found at i:12092738 original size:40 final size:42
Alignment explanation
Indices: 12092641--12092745 Score: 112
Period size: 40 Copynumber: 2.6 Consensus size: 42
12092631 GTGACTCGAA
* * *
12092641 CTTCACTGATACACAACTTGTCACTTAAGCTTGCATAGGGAG
1 CTTCTCTGATACACAACTTATCACATAAGCTTGCATAGGGAG
* *
12092683 TTTCTCTAATA-ACAACTTATCA-ATAAGC-T-CATGAGGGAG
1 CTTCTCTGATACACAACTTATCACATAAGCTTGCAT-AGGGAG
12092722 CTTCGT-TGATACACAACTTATCAC
1 CTTC-TCTGATACACAACTTATCAC
12092746 TAACGAGGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
38 3 0.06
39 14 0.27
40 17 0.33
41 10 0.19
42 8 0.15
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (42 bp):
CTTCTCTGATACACAACTTATCACATAAGCTTGCATAGGGAG
Found at i:12111078 original size:40 final size:42
Alignment explanation
Indices: 12110984--12111089 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 42
12110974 GTGACTCGAA
* * *
12110984 CTTCACTGATACACAACTTGTCACTTAAGCTTGCATAGGGAG
1 CTTCTCTGATACACAACTTATCACATAAGCTTGCATAGGGAG
* *
12111026 TTTCTCTAATACACAACTTATCA-ATAAGC-T-CATGAGGGAG
1 CTTCTCTGATACACAACTTATCACATAAGCTTGCAT-AGGGAG
12111066 CTTCGT-TGATACACAACTTATCAC
1 CTTC-TCTGATACACAACTTATCAC
12111090 TAACGAGGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
39 3 0.06
40 26 0.48
41 6 0.11
42 19 0.35
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
CTTCTCTGATACACAACTTATCACATAAGCTTGCATAGGGAG
Found at i:12111113 original size:35 final size:37
Alignment explanation
Indices: 12111020--12111121 Score: 100
Period size: 40 Copynumber: 2.7 Consensus size: 37
12111010 AAGCTTGCAT
* *
12111020 AGGGAGTTTCTCTAATACACAACTTATCAATAAGCTCATG
1 AGGGAGCTTCACTAATACACAACTTATCAATAA-C-CA-G
** * *
12111060 AGGGAGCTTCGTTGATACACAACTTATCACTAA-C-G
1 AGGGAGCTTCACTAATACACAACTTATCAATAACCAG
*
12111095 AGGGAGCTTCACTAATACATAACTTAT
1 AGGGAGCTTCACTAATACACAACTTAT
12111122 AAAACTATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
35 24 0.45
37 1 0.02
40 28 0.53
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (37 bp):
AGGGAGCTTCACTAATACACAACTTATCAATAACCAG
Found at i:12114377 original size:16 final size:16
Alignment explanation
Indices: 12114356--12114392 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
12114346 AGCCAAGTTT
12114356 GTGTGGTGGAATTGTC
1 GTGTGGTGGAATTGTC
12114372 GTGTGGTGGAATTGTC
1 GTGTGGTGGAATTGTC
12114388 GTGTG
1 GTGTG
12114393 ATGTAAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.11, C:0.05, G:0.46, T:0.38
Consensus pattern (16 bp):
GTGTGGTGGAATTGTC
Found at i:12121473 original size:47 final size:47
Alignment explanation
Indices: 12121422--12121598 Score: 211
Period size: 47 Copynumber: 3.8 Consensus size: 47
12121412 TGGTTGAACA
*
12121422 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
12121469 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
*
12121516 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
12121562 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12121599 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 37 0.33
47 58 0.52
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:12124171 original size:31 final size:31
Alignment explanation
Indices: 12124133--12124195 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
12124123 ACGTTAATGA
12124133 ATCAATATATGTAACCGTGGCATATCCACTT
1 ATCAATATATGTAACCGTGGCATATCCACTT
* * *
12124164 ATCAATATGTGTAATCGTGGTATATCCACTT
1 ATCAATATATGTAACCGTGGCATATCCACTT
12124195 A
1 A
12124196 GCACCATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (31 bp):
ATCAATATATGTAACCGTGGCATATCCACTT
Found at i:12146338 original size:20 final size:20
Alignment explanation
Indices: 12146315--12146357 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
12146305 AAATCCAAAT
12146315 TAAAATACTAAAATTCAAGA
1 TAAAATACTAAAATTCAAGA
* * *
12146335 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAAGA
12146355 TAA
1 TAA
12146358 GAGTACTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAGA
Found at i:12147228 original size:16 final size:17
Alignment explanation
Indices: 12147192--12147228 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12147182 CAAATTTATT
12147192 TAATAATAAATGTTAAA
1 TAATAATAAATGTTAAA
*
12147209 -AATAAT-AATTTTAAA
1 TAATAATAAATGTTAAA
12147224 TAATA
1 TAATA
12147229 TTCATCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATGTTAAA
Found at i:12150099 original size:19 final size:20
Alignment explanation
Indices: 12150059--12150096 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12150049 GGTATAATTG
*
12150059 TTATTCCTAGAAAATAAAAT
1 TTATACCTAGAAAATAAAAT
12150079 TTATACCTAGAAAATAAA
1 TTATACCTAGAAAATAAA
12150097 TTTCTCACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (20 bp):
TTATACCTAGAAAATAAAAT
Found at i:12152576 original size:23 final size:23
Alignment explanation
Indices: 12152550--12152595 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12152540 ACCATAAAAA
12152550 ATTTTGTTCAAATTAAAAACATT
1 ATTTTGTTCAAATTAAAAACATT
12152573 ATTTTGTTCAAATTAAAAACATT
1 ATTTTGTTCAAATTAAAAACATT
12152596 CATTCATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
ATTTTGTTCAAATTAAAAACATT
Found at i:12154327 original size:51 final size:50
Alignment explanation
Indices: 12154268--12154432 Score: 154
Period size: 51 Copynumber: 3.3 Consensus size: 50
12154258 ATACCTACAC
*
12154268 TTAGTACCACATC-TGTGACCAAAACCATCGCTTACACATAGTGGCCTGCAT
1 TTAGTACCACA-CATGTGACC-AAACCATCGCTTACACATAGTAGCCTGCAT
* * * ** * *
12154319 TTAGTACCACACATGTGATCGAAGCTATCGGGTACGCATAGTAGCCTGCAC
1 TTAGTACCACACATGTGA-CCAAACCATCGCTTACACATAGTAGCCTGCAT
* * * * *
12154370 TTAGTACTACACATGCGACCTAACCATC-TTGTACACGTAGTAGCCTGCAT
1 TTAGTACCACACATGTGACCAAACCATCGCT-TACACATAGTAGCCTGCAT
*
12154420 TTAGTACTACACA
1 TTAGTACCACACA
12154433 CGTGTTCTTA
Statistics
Matches: 92, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
50 36 0.39
51 55 0.60
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
TTAGTACCACACATGTGACCAAACCATCGCTTACACATAGTAGCCTGCAT
Found at i:12154424 original size:50 final size:51
Alignment explanation
Indices: 12154300--12154432 Score: 160
Period size: 51 Copynumber: 2.6 Consensus size: 51
12154290 AACCATCGCT
* * * * *
12154300 TACACATAGTGGCCTGCATTTAGTACCACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCATTTAGTACTACACATGCGACCGAAGCCATCGGG
* * * **
12154351 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CCATCTTG
1 TACACATAGTAGCCTGCATTTAGTACTACACATGCGACCGAAGCCATCGGG
*
12154401 TACACGTAGTAGCCTGCATTTAGTACTACACA
1 TACACATAGTAGCCTGCATTTAGTACTACACA
12154433 CGTGTTCTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 34 0.49
51 35 0.51
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (51 bp):
TACACATAGTAGCCTGCATTTAGTACTACACATGCGACCGAAGCCATCGGG
Found at i:12158460 original size:17 final size:16
Alignment explanation
Indices: 12158419--12158461 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
12158409 TTTACCTTAA
12158419 TTTTTCCTT-TCTTTT
1 TTTTTCCTTCTCTTTT
*
12158434 TTTTT-ATTCTCTTTTT
1 TTTTTCCTTCTC-TTTT
12158450 TTTTTCCTTCTC
1 TTTTTCCTTCTC
12158462 ACTTTTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 7 0.30
16 9 0.39
17 5 0.22
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTCCTTCTCTTTT
Found at i:12160846 original size:27 final size:27
Alignment explanation
Indices: 12160816--12160993 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
12160806 ATATTGAGCC
* *
12160816 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
12160843 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
12160870 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
12160898 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
12160925 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
12160952 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
12160979 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
12160994 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:12160955 original size:82 final size:81
Alignment explanation
Indices: 12160837--12160992 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
12160827 TGCTATATAA
* * * *
12160837 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
12160902 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12160919 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
12160983 CCCTTAGTGC
65 CACTTAGTGC
12160993 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12165629 original size:13 final size:14
Alignment explanation
Indices: 12165603--12165631 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12165593 ACTAACGATG
12165603 AATTAAACCATTAT
1 AATTAAACCATTAT
12165617 AATTAAA-CATTAT
1 AATTAAACCATTAT
12165630 AA
1 AA
12165632 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:12170674 original size:42 final size:43
Alignment explanation
Indices: 12170610--12170724 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
12170600 CTATTCGAGC
* * *
12170610 CTTCGAGCCTAGCAGGCTATAATGCCGGTGATTTAATAT-GGG
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
* * *
12170652 TTTTAAGCCTAGCATGCTATAATGCCAGTGAGTTAATATCGGG
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
* * *
12170695 CTTCGAGCCTAGCAGGC-GTAATACCAGTGA
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGA
12170725 ATGAATTCAG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 44 0.73
43 16 0.27
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (43 bp):
CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
Found at i:12176956 original size:24 final size:24
Alignment explanation
Indices: 12176924--12176972 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
12176914 TCGAGGTAAG
12176924 TTTTAAGTAGTTAAACATAAATAA
1 TTTTAAGTAGTTAAACATAAATAA
12176948 TTTTAAGTAGTTAAACATAAATAA
1 TTTTAAGTAGTTAAACATAAATAA
12176972 T
1 T
12176973 ATTCGATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (24 bp):
TTTTAAGTAGTTAAACATAAATAA
Found at i:12177386 original size:43 final size:43
Alignment explanation
Indices: 12177320--12177517 Score: 165
Period size: 42 Copynumber: 4.7 Consensus size: 43
12177310 TTATTCGAGC
* * *
12177320 CTTCGAGCCTAGCA-GCTATAATGCCGGTGATTTAATATCGGG
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
*
12177362 CTTTAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
* * * * * *
12177405 CTTCGAGCCTAGCAGGC-GTAATGCCAGTGAATGAAT-TCAGA
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
* * * * * * *
12177446 CTTAAAGTCTAGCAGGCT-TCATGTCAGTGA-TAAAAATTCAGG
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATA-TCGGG
* * *
12177488 TTTCAAACCTAGCAGGCTA-ATTGCCAGTGA
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGA
12177518 TTTGATATAC
Statistics
Matches: 125, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
40 3 0.02
41 27 0.22
42 54 0.43
43 41 0.33
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
Found at i:12179357 original size:9 final size:9
Alignment explanation
Indices: 12179337--12179566 Score: 86
Period size: 9 Copynumber: 25.8 Consensus size: 9
12179327 ATGTATTACA
*
12179337 TAAGTTAAG
1 TAAGTTATG
12179346 TAAGCTT-TG
1 TAAG-TTATG
12179355 TAAGTTATG
1 TAAGTTATG
12179364 TAAGTTATG
1 TAAGTTATG
* * *
12179373 TTA-TGATA
1 TAAGTTATG
*
12179381 TACATTTATG
1 TA-AGTTATG
*
12179391 TAAGGTATG
1 TAAGTTATG
12179400 TAAGTTATG
1 TAAGTTATG
* ** *
12179409 ATATGACATA
1 -TAAGTTATG
*
12179419 T-ATTTATG
1 TAAGTTATG
12179427 T-A-TTATG
1 TAAGTTATG
*
12179434 TAAGTTGTG
1 TAAGTTATG
12179443 TAAGTTATG
1 TAAGTTATG
* *
12179452 ATATGATATATAT
1 -TAAG-T-TAT-G
* *
12179465 TTA-TTATA
1 TAAGTTATG
*
12179473 TATATTTATG
1 TA-AGTTATG
12179483 T-A-TTATG
1 TAAGTTATG
* *
12179490 TTAGTTGTG
1 TAAGTTATG
12179499 TAAGTTATG
1 TAAGTTATG
* * *
12179508 ATACGATATA
1 -TAAGTTATG
*
12179518 T-ATTTATG
1 TAAGTTATG
12179526 T-A-TTATG
1 TAAGTTATG
*
12179533 TAAGTTTTG
1 TAAGTTATG
12179542 TAAGTTATG
1 TAAGTTATG
12179551 TAAGTTATG
1 TAAGTTATG
12179560 TAAGTTA
1 TAAGTTA
12179567 CTATATGATA
Statistics
Matches: 163, Mismatches: 40, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
7 18 0.11
8 20 0.12
9 93 0.57
10 27 0.17
11 1 0.01
12 4 0.02
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:12179400 original size:36 final size:36
Alignment explanation
Indices: 12179353--12179428 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
12179343 AAGTAAGCTT
* * *
12179353 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGACATACATTTA
*
12179389 TGTAAGGTATGTAAGTTATGATATGACATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGACATACATTTA
12179425 TGTA
1 TGTA
12179429 TTATGTAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGACATACATTTA
Found at i:12179445 original size:43 final size:43
Alignment explanation
Indices: 12179386--12179468 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
12179376 TGATATACAT
12179386 TTATGTAAGGTATGTAAGTTATGATATGACATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGACATATATTTATGTA
* * *
12179429 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTAT
1 TTATGTAAGGTATGTAAGTTATGATATGACATATATTTAT
12179469 TATATATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (43 bp):
TTATGTAAGGTATGTAAGTTATGATATGACATATATTTATGTA
Found at i:12179475 original size:13 final size:13
Alignment explanation
Indices: 12179457--12179481 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12179447 TTATGATATG
12179457 ATATATATTTATT
1 ATATATATTTATT
12179470 ATATATATTTAT
1 ATATATATTTAT
12179482 GTATTATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATATATTTATT
Found at i:12179478 original size:56 final size:58
Alignment explanation
Indices: 12179416--12179580 Score: 221
Period size: 56 Copynumber: 2.8 Consensus size: 58
12179406 ATGATATGAC
12179416 ATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTAT-TA-T
1 ATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTATT
* *
12179472 ATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATACGATATATATTTATGTATT
1 ATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTATT
* *
12179530 ATGTAAGTTT-TGTAAGTTATGTAAGTTATGTAAGTTACT-ATATGATATATA
1 ATAT-A-TTTATGT-A-TTATGTAAGTTGTGTAAGTTA-TGATATGATATATA
12179581 ATAAACATTA
Statistics
Matches: 96, Mismatches: 6, Indels: 9
0.86 0.05 0.08
Matches are distributed among these distances:
56 51 0.53
57 2 0.02
58 4 0.04
59 4 0.04
60 4 0.04
61 30 0.31
62 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (58 bp):
ATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTATT
Found at i:12179572 original size:99 final size:97
Alignment explanation
Indices: 12179320--12179580 Score: 276
Period size: 99 Copynumber: 2.6 Consensus size: 97
12179310 TTTTCAAGTG
** * *
12179320 TATATTTATGTATTACATAAGTTAAGTAAGCTT-TGTAAGTTATGTAAGTTATGT-TATGATATA
1 TATATTTATGTATTATGTAAGTTATGTAAG-TTATGTAAGTTATGTAAGTTATATATAT-ATATA
*
12179383 CATTTATGTAAGGTATGTAAGTTATGATATGACA
64 CATTTATGTAAGGTATGTAAGTTATGATACGACA
* * * * * *
12179417 TATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATAT-ATTTATTATATATATTTA
1 TATATTTATGTATTATGTAAGTTATGTAAGTTATG-TAAGTTATGTAAGTTA-TATATATATATA
** * * * *
12179481 TGTATTATGTTAGTTGTGTAAGTTATGATACGATA
64 CAT-TTATGTAAGGTATGTAAGTTATGATACGACA
*
12179516 TATATTTATGTATTATGTAAGTTTTGTAAGTTATGTAAGTTATGTAAGTTACTATATGATATATA
1 TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTA-TATAT-ATATATA
12179581 ATAAACATTA
Statistics
Matches: 133, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
96 2 0.02
97 32 0.24
98 21 0.16
99 72 0.54
100 6 0.05
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (97 bp):
TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATATATATATATACA
TTTATGTAAGGTATGTAAGTTATGATACGACA
Found at i:12179749 original size:15 final size:15
Alignment explanation
Indices: 12179729--12179757 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12179719 TTGTGTCCTG
12179729 ATTAATCCAAAATAA
1 ATTAATCCAAAATAA
12179744 ATTAATCCAAAATA
1 ATTAATCCAAAATA
12179758 TGTAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
ATTAATCCAAAATAA
Found at i:12180049 original size:8 final size:8
Alignment explanation
Indices: 12180036--12180065 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
12180026 ATTAATTGAT
12180036 AAATATTG
1 AAATATTG
*
12180044 AAATATTA
1 AAATATTG
12180052 AAATATTG
1 AAATATTG
12180060 AAATAT
1 AAATAT
12180066 ATTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (8 bp):
AAATATTG
Found at i:12180057 original size:16 final size:18
Alignment explanation
Indices: 12180036--12180079 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
12180026 ATTAATTGAT
12180036 AAATATTGAA-ATA-TTA
1 AAATATTGAATATATTTA
12180052 AAATATTGAAATATATTTA
1 AAATATTG-AATATATTTA
12180071 AAATATTGA
1 AAATATTGA
12180080 TCAATGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
17 2 0.08
18 4 0.16
19 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (18 bp):
AAATATTGAATATATTTA
Found at i:12183079 original size:58 final size:59
Alignment explanation
Indices: 12182981--12183100 Score: 154
Period size: 58 Copynumber: 2.1 Consensus size: 59
12182971 GGGGAAAAAT
* * * * **
12182981 GGGTAATTATTTTAGGGTTTCGAATTAGGGAAAAT-GGGGAAATAAACTAGGGAGAAGG
1 GGGTAATTATTTTAGGGATTCGAAGTAGGGAAAATAGGGAAAATAAACCAAAGAGAAGG
*
12183039 GGGTGATTATTTTAGGGATTC-AGAGTAGGGAAAATAGGGAAAATAAACCAAAGAGAAGG
1 GGGTAATTATTTTAGGGATTCGA-AGTAGGGAAAATAGGGAAAATAAACCAAAGAGAAGG
12183098 GGG
1 GGG
12183101 AAAATGAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 1 0.02
58 30 0.57
59 22 0.42
ACGTcount: A:0.38, C:0.04, G:0.35, T:0.23
Consensus pattern (59 bp):
GGGTAATTATTTTAGGGATTCGAAGTAGGGAAAATAGGGAAAATAAACCAAAGAGAAGG
Found at i:12183625 original size:115 final size:114
Alignment explanation
Indices: 12183205--12183778 Score: 545
Period size: 115 Copynumber: 5.0 Consensus size: 114
12183195 TTGCTATAGG
* * * * *
12183205 CAAACCAATTGCGGTGTTTTAACAT-AAATGCCACTAAAAATCAAACAAAACGA-TGCCATTTTG
1 CAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCAAAAAAAACGACT-CCATTTTG
* * * * * * *
12183268 ATATAAATAGAATAAACTTTAGTGGTGTTTTTCCCCTAGCGTCGCTAAAGG
65 ATATAAACAGAATAAACATTAGTGGCGTTTATACCCTAGCGCCGCTAAA-T
* * ** *
12183319 AAAATCTATTGCGGCG-TTTAACCCTAAAACGCCACTAAAAATCCAAAAAAAAACGACGACGTTT
1 CAAACCTATTGCGGCGTTTTAA-CCTAAAACGCCACTAAAAAT-C-AAAAAAAACGACTCCATTT
* * * * * *
12183383 TCATATAAACAGAAT-AACATTTAGTGGCGTTTTTTCTCCAAGCGTCGCTAAAGG
63 TGATATAAACAGAATAAACA-TTAGTGGCGTTTATAC-CCTAGCGCCGCTAAA-T
* * * * * *
12183437 CGAAA-CTATTGCGGCGTTTTACCCTAAAACGCCACTAACAATCCAATAAAA-GTACACCGTTTT
1 C-AAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCAAAAAAAACG-ACTCCATTTT
* * *
12183500 GATATAAACAAAATAACCATTAGTGGCGTTTATACCCTAGGGCCGCTAAAT
64 GATATAAACAGAATAAACATTAGTGGCGTTTATACCCTAGCGCCGCTAAAT
* * * *
12183551 CAAACCTATTGCGGCTTTTTAACCTAAATCGCCACTAAAAATAAAAAAAAAACTACTCCATTTTG
1 CAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAAT-CAAAAAAAACGACTCCATTTTG
* *
12183616 ATATAAACAAAATAAACATTAGTGGCGTTTATAACCTAGCGCCGCTAAAT
65 ATATAAACAGAATAAACATTAGTGGCGTTTATACCCTAGCGCCGCTAAAT
* * * * * *
12183666 CAAACCTATTGCGGCGTTTTAACCTAAAACGCCATTAAAGATCCAAAAAAACGA-TGTCATCTAG
1 CAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCAAAAAAAACGACT-CCATTTTG
* * * *
12183730 -TAT-AACAGAATAACCTTTAGCGGCGTTTATACCCTAGGGCCGCTAAAT
65 ATATAAACAGAATAAACATTAGTGGCGTTTATACCCTAGCGCCGCTAAAT
12183778 C
1 C
12183779 CAATGTTTTT
Statistics
Matches: 384, Mismatches: 61, Indels: 32
0.81 0.13 0.07
Matches are distributed among these distances:
112 40 0.10
113 12 0.03
114 62 0.16
115 128 0.33
116 44 0.11
117 45 0.12
118 46 0.12
119 7 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (114 bp):
CAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCAAAAAAAACGACTCCATTTTGA
TATAAACAGAATAAACATTAGTGGCGTTTATACCCTAGCGCCGCTAAAT
Found at i:12184094 original size:7 final size:7
Alignment explanation
Indices: 12184055--12184215 Score: 55
Period size: 7 Copynumber: 22.7 Consensus size: 7
12184045 ACTAATTACT
12184055 CTAAACC
1 CTAAACC
*
12184062 TTAAACCC
1 CTAAA-CC
12184070 CT-AACC
1 CTAAACC
*
12184076 CT-ATCC
1 CTAAACC
12184082 CTTAAACC
1 C-TAAACC
*
12184090 CTAAATC
1 CTAAACC
* *
12184097 ATAAAAC
1 CTAAACC
* * *
12184104 ATAATCT
1 CTAAACC
12184111 CTAAACC
1 CTAAACC
12184118 CTAAAACC
1 CT-AAACC
12184126 CT-AACAC
1 CTAAAC-C
* *
12184133 TTAACCC
1 CTAAACC
*
12184140 CTAACCC
1 CTAAACC
12184147 CT-AACC
1 CTAAACC
12184153 TCT-AACTC
1 -CTAAAC-C
12184161 C-AAACC
1 CTAAACC
*
12184167 ATTAAACC
1 -CTAAACC
*
12184175 ATAAACC
1 CTAAACC
*
12184182 ATAAACC
1 CTAAACC
12184189 CTAAACC
1 CTAAACC
*
12184196 CATAATCC
1 C-TAAACC
*
12184204 ATAAACC
1 CTAAACC
*
12184211 TTAAA
1 CTAAA
12184216 ATAGTAACTC
Statistics
Matches: 118, Mismatches: 24, Indels: 24
0.71 0.14 0.14
Matches are distributed among these distances:
6 15 0.13
7 76 0.64
8 27 0.23
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:12184158 original size:21 final size:23
Alignment explanation
Indices: 12184109--12184158 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
12184099 AAAACATAAT
*
12184109 CTCTAAACCCTAAAACCCTAACA
1 CTCTAACCCCTAAAACCCTAACA
*
12184132 CT-TAACCCCT-AACCCCTAAC-
1 CTCTAACCCCTAAAACCCTAACA
12184152 CTCTAAC
1 CTCTAAC
12184159 TCCAAACCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 13 0.54
22 7 0.29
23 2 0.08
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (23 bp):
CTCTAACCCCTAAAACCCTAACA
Found at i:12184175 original size:8 final size:7
Alignment explanation
Indices: 12184162--12184215 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
12184152 CTCTAACTCC
12184162 AAACCATT
1 AAACCA-T
12184170 AAACCAT
1 AAACCAT
12184177 AAACCAT
1 AAACCAT
*
12184184 AAACCCT
1 AAACCAT
12184191 AAACCCAT
1 AAA-CCAT
*
12184199 AATCCAT
1 AAACCAT
*
12184206 AAACCTT
1 AAACCAT
12184213 AAA
1 AAA
12184216 ATAGTAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
7 29 0.73
8 11 0.28
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCAT
Found at i:12184182 original size:15 final size:14
Alignment explanation
Indices: 12184162--12184215 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
12184152 CTCTAACTCC
12184162 AAACCATTAAACCAT
1 AAACCA-TAAACCAT
*
12184177 AAACCATAAACCCT
1 AAACCATAAACCAT
*
12184191 AAACCCATAATCCAT
1 AAA-CCATAAACCAT
*
12184206 AAACCTTAAA
1 AAACCATAAA
12184216 ATAGTAACTC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 15 0.45
15 18 0.55
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACCATAAACCAT
Found at i:12184187 original size:22 final size:22
Alignment explanation
Indices: 12184162--12184215 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
12184152 CTCTAACTCC
12184162 AAACCATTAAA-CCATAAACCAT
1 AAACC-TTAAACCCATAAACCAT
* *
12184184 AAACCCTAAACCCATAATCCAT
1 AAACCTTAAACCCATAAACCAT
12184206 AAACCTTAAA
1 AAACCTTAAA
12184216 ATAGTAACTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACCTTAAACCCATAAACCAT
Found at i:12184279 original size:14 final size:15
Alignment explanation
Indices: 12184237--12184279 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
12184227 TACACTTTAA
12184237 ACCCTAAACCAT-AT
1 ACCCTAAACCATAAT
*
12184251 ACCCTAAGCCATAAT
1 ACCCTAAACCATAAT
*
12184266 -CCCTAAACTATAAT
1 ACCCTAAACCATAAT
12184280 GACAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 23 0.92
15 2 0.08
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (15 bp):
ACCCTAAACCATAAT
Found at i:12184552 original size:21 final size:20
Alignment explanation
Indices: 12184523--12184588 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
12184513 TTAAACCCCT
*
12184523 AACCCCAAATCTCAAATCTCA
1 AACCCCAAA-CTTAAATCTCA
* * *
12184544 AATCCCAAACCTTAAACCACA
1 AACCCCAAA-CTTAAATCTCA
12184565 AACCCCAAACTATAAATCTCA
1 AACCCCAAACT-TAAATCTCA
12184586 AAC
1 AAC
12184589 TATAAATCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
20 2 0.06
21 34 0.94
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCCCAAACTTAAATCTCA
Found at i:12184606 original size:7 final size:7
Alignment explanation
Indices: 12184585--12184658 Score: 51
Period size: 7 Copynumber: 10.6 Consensus size: 7
12184575 TATAAATCTC
*
12184585 AAACTAT
1 AAACCAT
*
12184592 AAATCAT
1 AAACCAT
12184599 AAACCAT
1 AAACCAT
*
12184606 AAACTC-C
1 AAAC-CAT
* *
12184613 AAGCCCT
1 AAACCAT
*
12184620 AAACTAT
1 AAACCAT
*
12184627 AAACTAT
1 AAACCAT
*
12184634 AAACCCT
1 AAACCAT
12184641 AAACCAT
1 AAACCAT
*
12184648 AACCCAT
1 AAACCAT
12184655 AAAC
1 AAAC
12184659 TCTAATGACA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
6 1 0.02
7 49 0.96
8 1 0.02
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.19
Consensus pattern (7 bp):
AAACCAT
Found at i:12184608 original size:14 final size:14
Alignment explanation
Indices: 12184570--12184596 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12184560 CCACAAACCC
12184570 CAAACTATAAATCT
1 CAAACTATAAATCT
12184584 CAAACTATAAATC
1 CAAACTATAAATC
12184597 ATAAACCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (14 bp):
CAAACTATAAATCT
Found at i:12184609 original size:21 final size:21
Alignment explanation
Indices: 12184585--12184663 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 21
12184575 TATAAATCTC
* *
12184585 AAACTATAAATCATAAACCAT
1 AAACTATAAACCCTAAACCAT
** * *
12184606 AAACTCCAAGCCCTAAACTAT
1 AAACTATAAACCCTAAACCAT
12184627 AAACTATAAACCCTAAACCAT
1 AAACTATAAACCCTAAACCAT
* * *
12184648 AACCCATAAACTCTAA
1 AAACTATAAACCCTAA
12184664 TGACAGTAAT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.20
Consensus pattern (21 bp):
AAACTATAAACCCTAAACCAT
Found at i:12184643 original size:14 final size:14
Alignment explanation
Indices: 12184550--12184658 Score: 53
Period size: 14 Copynumber: 7.8 Consensus size: 14
12184540 CTCAAATCCC
* *
12184550 AAACCTTAAACCAC
1 AAACCCTAAACCAT
* *
12184564 AAACCCCAAACTAT
1 AAACCCTAAACCAT
* *
12184578 AAA-TCTCAAACTAT
1 AAACCCT-AAACCAT
* *
12184592 AAATCATAAACCAT
1 AAACCCTAAACCAT
* *
12184606 AAACTCC-AAGCCCT
1 AAAC-CCTAAACCAT
** *
12184620 AAACTATAAACTAT
1 AAACCCTAAACCAT
12184634 AAACCCTAAACCAT
1 AAACCCTAAACCAT
12184648 -AACCCATAAAC
1 AAACCC-TAAAC
12184659 TCTAATGACA
Statistics
Matches: 69, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
13 6 0.09
14 61 0.88
15 2 0.03
ACGTcount: A:0.50, C:0.30, G:0.01, T:0.18
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:12195471 original size:39 final size:39
Alignment explanation
Indices: 12195428--12195505 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
12195418 TTAAACGTTG
*
12195428 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
* *
12195467 AGGTTAGCATTTGGGTTGTTCAATGTGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
12195506 TTAGGGAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:12197371 original size:47 final size:47
Alignment explanation
Indices: 12197284--12197922 Score: 884
Period size: 47 Copynumber: 13.6 Consensus size: 47
12197274 TAATTGAATA
* *
12197284 AATGTGAAAATGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATG
* *
12197332 AAAGTGAACATGTATATGGGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
12197379 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
12197426 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
12197473 AATGTAAACATGTGTATGTGTGACAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
12197520 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
12197567 AATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
12197614 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
12197661 AATGTAAACATGTGTATGTGTGACAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
12197708 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
12197755 AATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * * *
12197802 AAAGTGAACAGGTGTATGTGTGATAAGACCGAGTGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * * *
12197849 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
**
12197896 AATGTGAA-AGTGTATAAATGTGATAAG
1 AATGTGAACA-TGTATATGTGTGATAAG
12197923 TTCCGAAGGG
Statistics
Matches: 524, Mismatches: 66, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
46 1 0.00
47 504 0.96
48 19 0.04
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (47 bp):
AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:12198097 original size:37 final size:37
Alignment explanation
Indices: 12198041--12198120 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
12198031 CCGGGCTCTA
* *
12198041 AAGACCCGATGACTGCGTGTGG-GAATT-TCGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTAT-GTCCGGGT
*
12198078 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
12198115 AAGACT
1 AAGACT
12198121 TCGTAACAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:12199485 original size:27 final size:27
Alignment explanation
Indices: 12199457--12199613 Score: 190
Period size: 27 Copynumber: 5.8 Consensus size: 27
12199447 GTGTTACAAA
* * *
12199457 TCAACTCGCACACTTAGTGCTACGTAA
1 TCAAATCGCACACTTAGTGCTACATAG
12199484 TCAAATCGCACACTTAGTGCTACATAG
1 TCAAATCGCACACTTAGTGCTACATAG
** *
12199511 TCAAACTCGCACACTTAGTGCCGCATGG
1 TCAAA-TCGCACACTTAGTGCTACATAG
* *
12199539 TCAATTCGCACACTTAGTGC-ATCATAT
1 TCAAATCGCACACTTAGTGCTA-CATAG
** *
12199566 TCATTTCGCACACTTAGTGCAACATAG
1 TCAAATCGCACACTTAGTGCTACATAG
12199593 TCAAATCGCACACTTAGTGCT
1 TCAAATCGCACACTTAGTGCT
12199614 GTACAATTTA
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
27 88 0.79
28 24 0.21
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
TCAAATCGCACACTTAGTGCTACATAG
Found at i:12199548 original size:55 final size:55
Alignment explanation
Indices: 12199457--12199613 Score: 201
Period size: 55 Copynumber: 2.9 Consensus size: 55
12199447 GTGTTACAAA
* * *
12199457 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTA-CATAG
1 TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTATCATAG
** * * *
12199511 TCAAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATAT
1 TC-AACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTATCATAG
**
12199566 TCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT
1 TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT
12199614 GTACAATTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
54 42 0.48
55 45 0.52
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTATCATAG
Found at i:12201700 original size:15 final size:16
Alignment explanation
Indices: 12201671--12201700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12201661 ATTCCCCCTC
12201671 CAAGAAAAAGACTTGG
1 CAAGAAAAAGACTTGG
12201687 CAAGAAAAAG-CTTG
1 CAAGAAAAAGACTTG
12201701 CAGATGATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (16 bp):
CAAGAAAAAGACTTGG
Found at i:12201754 original size:23 final size:23
Alignment explanation
Indices: 12201728--12201773 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12201718 CTGAAAGATT
12201728 GTTAA-AACAACTTCTAAAAGAAA
1 GTTAAGAACAA-TTCTAAAAGAAA
* *
12201751 GTTAAGAGCAATTCTTAAAGAAA
1 GTTAAGAACAATTCTAAAAGAAA
12201774 AACTCAAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (23 bp):
GTTAAGAACAATTCTAAAAGAAA
Found at i:12205528 original size:4 final size:4
Alignment explanation
Indices: 12205519--12205543 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12205509 TTTCTACTAA
12205519 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
12205544 TTTTTTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:12206551 original size:6 final size:6
Alignment explanation
Indices: 12206540--12206575 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
12206530 AACAGAAAGG
*
12206540 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAG TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
12206576 GAAAGGGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:12212869 original size:43 final size:43
Alignment explanation
Indices: 12212822--12213010 Score: 306
Period size: 43 Copynumber: 4.4 Consensus size: 43
12212812 TTTAATGTAC
* * *
12212822 TGGCATTAAGTGTGCGGTACAATTATAGCTTTGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
*
12212865 TGGCACTAAGTGTGCGATACAATTATAGCTTTGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
*
12212908 TGGCACTAAGTGTGCGGTACAATTATAGCTTCGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
* *
12212951 TGGCACTAAGTGTGTGATACAATTATAGCTTCGGTTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
*
12212994 TAGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
12213011 GTTCATTGAA
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 137 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
Found at i:12224246 original size:43 final size:43
Alignment explanation
Indices: 12224193--12224299 Score: 169
Period size: 43 Copynumber: 2.5 Consensus size: 43
12224183 TTATTTGAAA
*
12224193 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
12224236 AAACGTCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
*
12224279 AAACGCCACTAAAGGTCATGA
1 AAACGCCGCTAAAGGTCATGA
12224300 AATTTTAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:12224432 original size:12 final size:12
Alignment explanation
Indices: 12224417--12224469 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
12224407 CATTATCAAA
12224417 TAAAAATAAAAT
1 TAAAAATAAAAT
12224429 TAAAAATATAGAAT
1 TAAAAATA-A-AAT
*
12224443 CAAAAATAAAA-
1 TAAAAATAAAAT
12224454 TAAATAATAAACAT
1 TAAA-AATAAA-AT
12224468 TA
1 TA
12224470 GATTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 3 0.09
12 16 0.47
13 3 0.09
14 12 0.35
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (12 bp):
TAAAAATAAAAT
Found at i:12227030 original size:81 final size:81
Alignment explanation
Indices: 12226894--12227044 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
12226884 ATTCTGAAGT
* * * * * * * *
12226894 CAACAGCCAAGATACACAAGCATGTGATAAACATCTGCAAAATTTTCCCATTGAAAATTTATTAC
1 CAACAGCCAAGATACACAAGCAAGTGACAAAAATATGCAAAATATTCCCACTGAAAATCTATCAC
12226959 AAATTAAACAATGTAC
66 AAATTAAACAATGTAC
*
12226975 CAACAGCCAAGATACACAAGTAAGTGACAAAGAATAT-CAATAA-ATTCCCACTGAAAATCTATC
1 CAACAGCCAAGATACACAAGCAAGTGACAAA-AATATGCAA-AATATTCCCACTGAAAATCTATC
12227038 ACAAATT
64 ACAAATT
12227045 CAAAAAGGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
81 54 0.92
82 5 0.08
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (81 bp):
CAACAGCCAAGATACACAAGCAAGTGACAAAAATATGCAAAATATTCCCACTGAAAATCTATCAC
AAATTAAACAATGTAC
Found at i:12229496 original size:21 final size:21
Alignment explanation
Indices: 12229472--12229511 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12229462 TAATATATCA
*
12229472 AATGTTTTTTTATTTATTTTT
1 AATGTTTTCTTATTTATTTTT
12229493 AATGTTTTCTTATTTATTT
1 AATGTTTTCTTATTTATTT
12229512 ATCAATGATT
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:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (21 bp):
AATGTTTTCTTATTTATTTTT
Found at i:12229904 original size:24 final size:24
Alignment explanation
Indices: 12229876--12229924 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
12229866 CCAAAATAAC
12229876 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
12229900 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
12229924 A
1 A
12229925 TAAATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:12229927 original size:11 final size:12
Alignment explanation
Indices: 12229883--12229928 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
12229873 AACAATTAAT
12229883 TTTTATATAAAC
1 TTTTATATAAAC
* * *
12229895 TTTTAAATTAAT
1 TTTTATATAAAC
12229907 TTTTATATAAAC
1 TTTTATATAAAC
12229919 TTTTA-ATAAA
1 TTTTATATAAA
12229929 TATATGAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:12230582 original size:41 final size:41
Alignment explanation
Indices: 12230537--12230777 Score: 304
Period size: 41 Copynumber: 5.9 Consensus size: 41
12230527 TTACATGACT
* *
12230537 TTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* *
12230578 TTTAGCGGCATTTTACCAAAAGTGCCGCTGATGCTCTGGTC
1 TTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * * *
12230619 TTTAGCGGCATTTCACCAAAAACGCCGCTGATGCTCTGGTT
1 TTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * * * *
12230660 TTTAGCGGCGTTTCACCAAAAGCACCGTTGATGCTCTGGTC
1 TTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* *
12230701 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTT
1 TTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
12230741 TTTAGCGGCATTTTAACAAAAAACGCCGCTATTGCTC
1 TTTAGCGGCATTTT-ACCAAAAGCGCCGCTAATGCTC
12230778 AGTTTTTAGC
Statistics
Matches: 177, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 15 0.08
41 162 0.92
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:12230701 original size:123 final size:122
Alignment explanation
Indices: 12230536--12230787 Score: 355
Period size: 123 Copynumber: 2.1 Consensus size: 122
12230526 GTTACATGAC
* * * *
12230536 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTTTACCAAAAGT
1 TTTTAGCGGCGTTTCACCAAAAGCACCGCTAATGCTCTGGTCTTTAGCGGCATTTTACCAAAAGC
* * * *
12230601 GCCGCTGATGCTCTGGTCTTTAGCGGCA-TTTCACCAAAAACGCCGCTGA-TGCTCTGGT
66 GCCGCTAATGCTCT-GTCTTTAGCGGCATTTTAACAAAAAACGCCGCT-ATTGCTC-AGT
* * *
12230659 TTTTAGCGGCGTTTCACCAAAAGCACCGTTGATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTCACCAAAAGCACCGCTAATGCTCTGGTCTTTAGCGGCATTTTACCAAAAGC
*
12230724 GCCGCTAATGCTCTGTTTTTAGCGGCATTTTAACAAAAAACGCCGCTATTGCTCAGT
66 GCCGCTAATGCTCTGTCTTTAGCGGCATTTTAACAAAAAACGCCGCTATTGCTCAGT
12230781 TTTTAGC
1 TTTTAGC
12230788 AAAAACGCCG
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
122 22 0.19
123 93 0.81
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (122 bp):
TTTTAGCGGCGTTTCACCAAAAGCACCGCTAATGCTCTGGTCTTTAGCGGCATTTTACCAAAAGC
GCCGCTAATGCTCTGTCTTTAGCGGCATTTTAACAAAAAACGCCGCTATTGCTCAGT
Found at i:12230777 original size:82 final size:82
Alignment explanation
Indices: 12230537--12230770 Score: 335
Period size: 82 Copynumber: 2.9 Consensus size: 82
12230527 TTACATGACT
* * *
12230537 TTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTTTACCAAAAGTG
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCATTTTACCAAAAGCG
12230602 CCGCTGATGCTCTGGTC
66 CCGCTGATGCTCTGGTC
* * * * * * *
12230619 TTTAGCGGCATTTCACCAAAAACGCCGCTGATGCTCTGGTTTTTAGCGGCGTTTCACCAAAAGCA
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCATTTTACCAAAAGCG
*
12230684 CCGTTGATGCTCTGGTC
66 CCGCTGATGCTCTGGTC
* *
12230701 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCATTTTAACAAAAAAC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCATTTT-ACCAAAAGC
12230765 GCCGCT
65 GCCGCT
12230771 ATTGCTCAGT
Statistics
Matches: 130, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
81 15 0.12
82 115 0.88
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (82 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCATTTTACCAAAAGCG
CCGCTGATGCTCTGGTC
Found at i:12230791 original size:30 final size:30
Alignment explanation
Indices: 12230751--12230815 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
12230741 TTTAGCGGCA
12230751 TTTTAACAAAAAACGCCGCTATTGCTCAGT-
1 TTTTAAC-AAAAACGCCGCTATTGCTCAGTG
* *
12230781 TTTTAGCAAAAACGCCGCTATTGCTCTGTG
1 TTTTAACAAAAACGCCGCTATTGCTCAGTG
12230811 TTTTA
1 TTTTA
12230816 CAATTTTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (30 bp):
TTTTAACAAAAACGCCGCTATTGCTCAGTG
Found at i:12230793 original size:29 final size:30
Alignment explanation
Indices: 12230759--12230815 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
12230749 CATTTTAACA
12230759 AAAAACGCCGCTATTGCTCAGT-TTTTAGC
1 AAAAACGCCGCTATTGCTCAGTGTTTTAGC
*
12230788 AAAAACGCCGCTATTGCTCTGTGTTTTA
1 AAAAACGCCGCTATTGCTCAGTGTTTTA
12230816 CAATTTTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (30 bp):
AAAAACGCCGCTATTGCTCAGTGTTTTAGC
Found at i:12232150 original size:9 final size:10
Alignment explanation
Indices: 12232138--12232194 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
12232128 TACGTGGGAT
12232138 ATGATAT-AC
1 ATGATATGAC
*
12232147 ATGA-ATGAT
1 ATGATATGAC
12232156 ATGATATGCAC
1 ATGATATG-AC
*
12232167 ATGATATG-T
1 ATGATATGAC
12232176 ATGATATGCAC
1 ATGATATG-AC
12232187 ATGATATG
1 ATGATATG
12232195 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 2 0.05
9 17 0.44
10 3 0.08
11 17 0.44
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (10 bp):
ATGATATGAC
Found at i:12232170 original size:20 final size:20
Alignment explanation
Indices: 12232137--12232211 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
12232127 ATACGTGGGA
12232137 TATGATAT--ACATGA-ATG
1 TATGATATGCACATGATATG
12232154 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
12232175 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
12232195 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
12232212 GTAATCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 42 0.79
21 3 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:12232172 original size:11 final size:11
Alignment explanation
Indices: 12232156--12232211 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
12232146 CATGAATGAT
12232156 ATGATATGCAC
1 ATGATATGCAC
*
12232167 ATGATATG--T
1 ATGATATGCAC
12232176 ATGATATGCAC
1 ATGATATGCAC
*
12232187 ATGATATG--T
1 ATGATATGCAC
*
12232196 ATGAAATGCAC
1 ATGATATGCAC
12232207 ATGAT
1 ATGAT
12232212 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:12232339 original size:52 final size:51
Alignment explanation
Indices: 12232261--12232383 Score: 194
Period size: 52 Copynumber: 2.4 Consensus size: 51
12232251 GAGGAAGTGC
12232261 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTCTGCCCCAGATTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGATTACCG
* * *
12232313 AAAGGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGATTACCG
*
12232364 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
12232384 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 9 0.14
51 22 0.34
52 34 0.52
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGATTACCG
Found at i:12232358 original size:25 final size:26
Alignment explanation
Indices: 12232261--12232383 Score: 151
Period size: 26 Copynumber: 4.8 Consensus size: 26
12232251 GAGGAAGTGC
**
12232261 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
12232287 AAAAGGGCTTCTGCCCCAGATTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * **
12232313 AAAGGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
12232339 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
12232364 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
12232384 ATTAAAGAGG
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
25 31 0.38
26 51 0.62
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:12237085 original size:44 final size:44
Alignment explanation
Indices: 12237035--12237122 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
12237025 ATGTGGCTAT
*
12237035 GAGTAATGTATGATGAGACTTAACGTGATAAACTCCCCGTTGAA
1 GAGTAATGTATGATGAGACTTAACGTCATAAACTCCCCGTTGAA
*
12237079 GAGTAATGTATGATGAGACTTAACGTCATAAACTCCCGGTTGAA
1 GAGTAATGTATGATGAGACTTAACGTCATAAACTCCCCGTTGAA
12237123 CCTTGAGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (44 bp):
GAGTAATGTATGATGAGACTTAACGTCATAAACTCCCCGTTGAA
Found at i:12237244 original size:50 final size:49
Alignment explanation
Indices: 12237176--12237349 Score: 199
Period size: 50 Copynumber: 3.6 Consensus size: 49
12237166 CATGTGTGCT
*
12237176 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGACAGATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-AGATGAGAGCC
* * * *
12237225 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-AGATGAGAGCC
* * * * * * *
12237275 ATTGTAGGACCATGTCTGGGACATGGCATCGACTTTGATG-TGTGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAGATGAGAGCC
*
12237323 AGTGTAAGACAATGTCTGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
12237350 GTTGGCATCT
Statistics
Matches: 105, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
48 29 0.28
49 9 0.09
50 67 0.64
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAGATGAGAGCC
Found at i:12239238 original size:18 final size:19
Alignment explanation
Indices: 12239204--12239239 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12239194 GGACATTATG
*
12239204 GATGTGTATGAAAATTTTT
1 GATGTGAATGAAAATTTTT
12239223 GATGTGAATG-AAATTTT
1 GATGTGAATGAAAATTTT
12239240 ATGGCCCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (19 bp):
GATGTGAATGAAAATTTTT
Found at i:12247226 original size:49 final size:49
Alignment explanation
Indices: 12247173--12247412 Score: 407
Period size: 49 Copynumber: 5.0 Consensus size: 49
12247163 GATGTGAATA
*
12247173 TATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
12247222 --TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
12247269 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
12247318 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
12247367 --TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
12247413 ATGGATGTGA
Statistics
Matches: 182, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
47 88 0.48
49 94 0.52
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:12247289 original size:96 final size:97
Alignment explanation
Indices: 12247173--12247412 Score: 405
Period size: 96 Copynumber: 2.5 Consensus size: 97
12247163 GATGTGAATA
*
12247173 TATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTG-TATATATGTGATAAG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAG
*
12247237 GCCGAATGGCCGATGTGATGAATGTGAAAGTG
66 GCCGAATGGCCGATGTGATGAACGTGAAAGTG
12247269 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
12247334 GGCCTAATGGCCGATGTGATGAACGTGAAAGTG
65 GGCCGAATGGCCGATGTGATGAACGTGAAAGTG
* *
12247367 --TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
12247413 ATGGATGTGA
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
96 92 0.67
98 45 0.33
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (97 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAG
GCCGAATGGCCGATGTGATGAACGTGAAAGTG
Found at i:12249482 original size:29 final size:29
Alignment explanation
Indices: 12249419--12249486 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
12249409 TAATCAACCG
12249419 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
12249448 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
12249477 CGCACACTTA
1 CGCACACTTA
12249487 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:12249599 original size:174 final size:174
Alignment explanation
Indices: 12249308--12249635 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
12249298 AACTCAAGGT
* *
12249308 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
12249373 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
12249438 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
12249482 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTTGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
12249547 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
12249612 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
12249636 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:12249627 original size:29 final size:30
Alignment explanation
Indices: 12249588--12249666 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
12249578 CTTAATAATC
12249588 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
12249618 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
12249647 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
12249667 ATCTCGTGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:12269710 original size:206 final size:205
Alignment explanation
Indices: 12269347--12269902 Score: 806
Period size: 206 Copynumber: 2.7 Consensus size: 205
12269337 GCAGATCTGG
*
12269347 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAATAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA-ACATAGCT
* * * * *
12269412 GATTTGGCTTTCACATGCTTACGATAAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTTAG
64 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * * * *
12269477 AGAACAAATCAAAGTTTGGCGTCTCCATATTTGACGGAGAGTAGATACATAACAGATCTAGCCTT
129 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTT
* *
12269542 CAGATGTTTATA
194 CAGATGATTAGA
* *
12269554 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAA-CATAGCTG
* * *
12269619 ACTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
65 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
12269684 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
130 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTC
12269749 AGATGATTAGA
195 AGATGATTAGA
* * * *
12269760 CTGAAGCAAATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA-ACATAGCTG
* ** * *
12269825 ATTTGGTTTTTGCGTGCTAACGCTGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGA
65 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
12269890 GAACAAATCGAAG
130 GAACAAATCGAAG
12269903 AAGCATATTT
Statistics
Matches: 312, Mismatches: 35, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
205 1 0.00
206 303 0.97
207 8 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAACATAGCTGA
TTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
AACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTCA
GATGATTAGA
Found at i:12274543 original size:46 final size:46
Alignment explanation
Indices: 12274496--12274711 Score: 287
Period size: 46 Copynumber: 4.7 Consensus size: 46
12274486 GGCATCTGAA
* * *
12274496 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAG
* * *
12274542 CTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ACGC--CCGAG
*
12274589 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAG
*
12274635 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAG
12274681 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12274712 GCGGGTTACA
Statistics
Matches: 149, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.01
43 7 0.05
44 1 0.01
45 2 0.01
46 101 0.68
47 26 0.17
48 3 0.02
49 1 0.01
50 6 0.04
51 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAG
Found at i:12274645 original size:93 final size:92
Alignment explanation
Indices: 12274486--12274711 Score: 289
Period size: 93 Copynumber: 2.4 Consensus size: 92
12274476 AGGATGTTTG
* * * *
12274486 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
12274551 TTGAGTCCGAGTT--CGAGAGATGTAACTA
66 TTGAGTCCGAGTTCACGAG-GATGCAA--A
* *
12274579 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
* *
12274644 TTGAGTCTGAGTTCACTTATGGATGCAAA
66 TTGAGTCCGAGTTCAC-GA-GGATGCAAA
*
12274673 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12274712 GCGGGTTACA
Statistics
Matches: 119, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
92 36 0.30
93 71 0.60
94 3 0.03
95 1 0.01
96 7 0.06
97 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCACGAGGATGCAAA
Found at i:12278161 original size:138 final size:136
Alignment explanation
Indices: 12277908--12278182 Score: 478
Period size: 138 Copynumber: 2.0 Consensus size: 136
12277898 AAACAAAGAG
* *
12277908 TGGTTTGTTTTATAGTCCAAAAGAGCAAACAATTAGTGTCAACTCATGCTATTTTCCTTGAGGAA
1 TGGTTTGTTTTATAGTCCAAAAGAGCAAACAAATAGTGTCAACTCATGCTACTTTCCTTGAGGAA
* *
12277973 AGTTACATGAACGACTTTAAACCTCGAAGTAAAAAAGTACTCGAGGAACTTTTGGGAAATACACA
66 AATTACATGAACGACTTTAAACCTCGAAGTAAAAAAGTACTCGAGAAACTTTTGGGAAATACACA
12278038 AAGCCC
131 AAGCCC
*
12278044 TGGTTTGTTTTATAGTCCAAAAGAGCAAACAGTAATAGTGTCAACTCATGCTACTTTCGTTGAGG
1 TGGTTTGTTTTATAGTCCAAAAGAGCAAACA--AATAGTGTCAACTCATGCTACTTTCCTTGAGG
*
12278109 AAAATTACATGAACGACTTTAAACCTCGAAGTAAAAAAGTACTTGAGAAACTTTTGGGAAATACA
64 AAAATTACATGAACGACTTTAAACCTCGAAGTAAAAAAGTACTCGAGAAACTTTTGGGAAATACA
12278174 CAAAGCCC
129 CAAAGCCC
12278182 T
1 T
12278183 ATAGAAATGG
Statistics
Matches: 131, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
136 31 0.24
138 100 0.76
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (136 bp):
TGGTTTGTTTTATAGTCCAAAAGAGCAAACAAATAGTGTCAACTCATGCTACTTTCCTTGAGGAA
AATTACATGAACGACTTTAAACCTCGAAGTAAAAAAGTACTCGAGAAACTTTTGGGAAATACACA
AAGCCC
Found at i:12283890 original size:48 final size:48
Alignment explanation
Indices: 12283835--12283929 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
12283825 GGAAGGAAGG
*
12283835 AATTACTCAAAGGAAGCTGATTGATCCATCTCAGAAGTCGGATTCATT
1 AATTACTCAAAGGAAGCTGATTGATCCATCTCAGAAGCCGGATTCATT
12283883 AATTACTCAAAGGAAGCTGATTGATCCATCTCAGAAGCCGGATTCAT
1 AATTACTCAAAGGAAGCTGATTGATCCATCTCAGAAGCCGGATTCAT
12283930 CATCAAGACA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (48 bp):
AATTACTCAAAGGAAGCTGATTGATCCATCTCAGAAGCCGGATTCATT
Found at i:12287328 original size:17 final size:17
Alignment explanation
Indices: 12287296--12287329 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
12287286 TGAATGGCGT
12287296 ACACATAAACCAAGAAC
1 ACACATAAACCAAGAAC
12287313 ACACGATAAACC-AGAAC
1 ACAC-ATAAACCAAGAAC
12287330 TACGCCAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.56, C:0.29, G:0.09, T:0.06
Consensus pattern (17 bp):
ACACATAAACCAAGAAC
Found at i:12294356 original size:17 final size:18
Alignment explanation
Indices: 12294319--12294362 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
12294309 GTTGGAAGAT
*
12294319 AAAAGTAAATAAACAATG
1 AAAAGTAAATAAACAAAG
*
12294337 AAAAG-AAATAAATAAAG
1 AAAAGTAAATAAACAAAG
*
12294354 AAAAATAAA
1 AAAAGTAAA
12294363 CAAATGACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAAGTAAATAAACAAAG
Found at i:12296674 original size:17 final size:18
Alignment explanation
Indices: 12296652--12296685 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12296642 CACATTGAAG
12296652 TGTTTT-ATTGAAAACCT
1 TGTTTTCATTGAAAACCT
12296669 TGTTTTCATTGAAAACC
1 TGTTTTCATTGAAAACC
12296686 CTTCTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (18 bp):
TGTTTTCATTGAAAACCT
Found at i:12306498 original size:28 final size:29
Alignment explanation
Indices: 12306433--12306507 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
12306423 TGGCCCATTT
12306433 AGGCCCAATC-TCATTCATATGGCCCACC
1 AGGCCCAATCATCATTCATATGGCCCACC
* * * **
12306461 AGACCTAATCAT-TTTCATATGGCCCGTC
1 AGGCCCAATCATCATTCATATGGCCCACC
12306489 AGGCCCAATCA-CATTCATA
1 AGGCCCAATCATCATTCATA
12306508 GTCATGCAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.25
Consensus pattern (29 bp):
AGGCCCAATCATCATTCATATGGCCCACC
Found at i:12306745 original size:16 final size:16
Alignment explanation
Indices: 12306724--12306758 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12306714 GCCAAACTTC
*
12306724 CGGCTTTTTAGCATTT
1 CGGCTTTTTAGCAATT
*
12306740 CGGCTTTTTGGCAATT
1 CGGCTTTTTAGCAATT
12306756 CGG
1 CGG
12306759 GATTTGTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.20, G:0.26, T:0.43
Consensus pattern (16 bp):
CGGCTTTTTAGCAATT
Found at i:12314321 original size:28 final size:28
Alignment explanation
Indices: 12314279--12314351 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
12314269 GCCCCTTTAG
* *
12314279 GCCCAATCTCATTCATATGGCCCATCAG
1 GCCCAATCACATTCATATGGCCCATCAA
* * **
12314307 GTCCAATCACTTTCATATGGCCGGTCAA
1 GCCCAATCACATTCATATGGCCCATCAA
12314335 GCCCAATCACATTCATA
1 GCCCAATCACATTCATA
12314352 GTCATGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.26
Consensus pattern (28 bp):
GCCCAATCACATTCATATGGCCCATCAA
Found at i:12319753 original size:13 final size:13
Alignment explanation
Indices: 12319735--12319759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12319725 TGAAGATGAC
12319735 ATAAAATAAGATG
1 ATAAAATAAGATG
12319748 ATAAAATAAGAT
1 ATAAAATAAGAT
12319760 TATATTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
ATAAAATAAGATG
Found at i:12327778 original size:17 final size:17
Alignment explanation
Indices: 12327756--12327793 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
12327746 CATTAGCGAG
*
12327756 TGTGTGACACATAATCA
1 TGTGTGACACACAATCA
12327773 TGTGTGACACACAATCA
1 TGTGTGACACACAATCA
12327790 TGTG
1 TGTG
12327794 CCAAACTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (17 bp):
TGTGTGACACACAATCA
Found at i:12333498 original size:20 final size:20
Alignment explanation
Indices: 12333475--12333521 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
12333465 ACGCAATAAC
12333475 ATTAAATTACACATTGTCTT
1 ATTAAATTACACATTGTCTT
12333495 ATTAAATTACACATTGTCTT
1 ATTAAATTACACATTGTCTT
12333515 ATTAAAT
1 ATTAAAT
12333522 CATATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (20 bp):
ATTAAATTACACATTGTCTT
Found at i:12340831 original size:14 final size:14
Alignment explanation
Indices: 12340812--12340841 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12340802 AGTAAATCGT
12340812 AATAAACAGCATAA
1 AATAAACAGCATAA
*
12340826 AATAAACAGTATAA
1 AATAAACAGCATAA
12340840 AA
1 AA
12340842 CAACAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (14 bp):
AATAAACAGCATAA
Found at i:12354449 original size:12 final size:13
Alignment explanation
Indices: 12354421--12354447 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12354411 ATAATAAAGG
12354421 TTAAGTTAAAATT
1 TTAAGTTAAAATT
12354434 TTAAGTTAAAATT
1 TTAAGTTAAAATT
12354447 T
1 T
12354448 AATAAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TTAAGTTAAAATT
Found at i:12357590 original size:50 final size:50
Alignment explanation
Indices: 12357501--12357611 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 50
12357491 CAATCAAAAC
* *
12357501 TGAGCACATCAGTCAGAATAGATCCTAAAGGCTGTTGAACTAAGCAGAGT
1 TGAGCACATCAGTCAGAATAAATCCTAAAGGCTGCTGAACTAAGCAGAGT
* * *
12357551 TGAGGACATTAGTCAGAATAAAT-CTGAAAGGCTGCTGAACTGAGCAGAGT
1 TGAGCACATCAGTCAGAATAAATCCT-AAAGGCTGCTGAACTAAGCAGAGT
12357601 TGAGCACATCA
1 TGAGCACATCA
12357612 TATAGGTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
49 2 0.04
50 51 0.96
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (50 bp):
TGAGCACATCAGTCAGAATAAATCCTAAAGGCTGCTGAACTAAGCAGAGT
Found at i:12361886 original size:7 final size:7
Alignment explanation
Indices: 12361876--12361914 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
12361866 AAAATGTAAA
12361876 ATGGAGT
1 ATGGAGT
12361883 ATGGAGT
1 ATGGAGT
12361890 ATGAAGAGT
1 ATG--GAGT
*
12361899 ATGGAGC
1 ATGGAGT
12361906 ATGGAGT
1 ATGGAGT
12361913 AT
1 AT
12361915 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.33, C:0.03, G:0.38, T:0.26
Consensus pattern (7 bp):
ATGGAGT
Found at i:12362447 original size:24 final size:24
Alignment explanation
Indices: 12362415--12362484 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
12362405 TTTCTATATT
12362415 CCAGGATGGCTCGCTGGAGCACTG
1 CCAGGATGGCTCGCTGGAGCACTG
* *
12362439 CCAGGATGGCTTGCCGGAGCACTG
1 CCAGGATGGCTCGCTGGAGCACTG
* *
12362463 CC-GGAATAGATCGCTGGAGCAC
1 CCAGG-ATGGCTCGCTGGAGCAC
12362485 CGCTGGGAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 2 0.05
24 37 0.95
ACGTcount: A:0.20, C:0.29, G:0.36, T:0.16
Consensus pattern (24 bp):
CCAGGATGGCTCGCTGGAGCACTG
Found at i:12362996 original size:58 final size:59
Alignment explanation
Indices: 12362897--12363015 Score: 168
Period size: 58 Copynumber: 2.0 Consensus size: 59
12362887 GAGGGATAGT
* * * *
12362897 GACGATTCATTCATTGTTAGGTACCGAACATGCAACGGTATCTGAATTCTAGC-TTTGG
1 GACGATTCATTCATTATTAGGGACCGAACATGCAACAGTATCTGAATTCTACCTTTTGG
* * *
12362955 GACGGTTCATTCATTATTGGGGACCGAACATGTAACAGTATCTGAATTCTACCTTTTGG
1 GACGATTCATTCATTATTAGGGACCGAACATGCAACAGTATCTGAATTCTACCTTTTGG
12363014 GA
1 GA
12363016 TTGGGAAGGG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 46 0.87
59 7 0.13
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (59 bp):
GACGATTCATTCATTATTAGGGACCGAACATGCAACAGTATCTGAATTCTACCTTTTGG
Found at i:12366557 original size:34 final size:35
Alignment explanation
Indices: 12366493--12366563 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 35
12366483 CATCTCTGGA
*
12366493 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* *
12366528 GCTTGGCAAATATGG-AGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
12366562 GC
1 GC
12366564 GATCCTAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 18 0.55
35 15 0.45
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:12371703 original size:35 final size:35
Alignment explanation
Indices: 12371659--12371727 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
12371649 TCTCTGGAGC
* * *
12371659 TTGGTAAATATGGAAAGTAATCTTCAAATATATGG
1 TTGGCAAATATGGAAAGGAATCTTCAAAGATATGG
* *
12371694 TTGGCAAATATGGAAGGGGATCTTCAAAGATATG
1 TTGGCAAATATGGAAAGGAATCTTCAAAGATATG
12371728 CGATCCTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (35 bp):
TTGGCAAATATGGAAAGGAATCTTCAAAGATATGG
Found at i:12383929 original size:13 final size:13
Alignment explanation
Indices: 12383893--12383917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12383883 TACACTTTTT
12383893 TGCTACCAGGCGC
1 TGCTACCAGGCGC
12383906 TGCTACCAGGCG
1 TGCTACCAGGCG
12383918 ACGCTACTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.32, T:0.16
Consensus pattern (13 bp):
TGCTACCAGGCGC
Found at i:12384119 original size:43 final size:42
Alignment explanation
Indices: 12384034--12384580 Score: 398
Period size: 43 Copynumber: 12.9 Consensus size: 42
12384024 CTACGGTGTC
* *
12384034 CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCAATGCTGCT
1 CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCT
* *
12384076 CGAGGCTCCCGTACATCCGAGCCACCAAGGTGCCGATGGTGCT
1 CGAGGCTCCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCT
* ** * *
12384119 CGAGGCTCCCGTACGA-CCAAGGGCCAAGGTTGCTGATGGTGCC
1 CGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCT
* *
12384162 CGAGGCTCCCGCACATCCAAGCACCAAGGTACTGATGGTG-T
1 CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCT
* ** * * *
12384203 CCGAGGCTCTCGCACGA-CCAAGGGCCTAGGTTGCCGATGATGCC
1 -CGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCT
* * * *
12384247 CAAGGCTCTCGCACGA-CCAATG-GCCTAGGTTGCCGATGGTGCT
1 CGAGGCTCCCGCAC-ATCCAA-GCACCAAGG-TGCCGATGGTGCT
* * * * *
12384290 CGAGGCTCTCGCACGA-CCAATG-GCCTAGGTTACCGATGGCGC-
1 CGAGGCTCCCGCAC-ATCCAA-GCACCAAGG-TGCCGATGGTGCT
* * * *
12384332 CGAGGCTCTCACACATCCAAGCACCAAGGTGCCGATGGTCCC
1 CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCT
* *
12384374 CGACGCTCCCGCACATCCAAGCACCAAGGT-CCTGATGGTGCC
1 CGAGGCTCCCGCACATCCAAGCACCAAGGTGCC-GATGGTGCT
* * * * * *
12384416 CGAGGCTCCCGCACAACCAATG-GCCTAGTTTGCTGATAGTG-T
1 CGAGGCTCCCGCACATCCAA-GCACCAAG-GTGCCGATGGTGCT
* *
12384458 CCGAGGCTCCCGCACAT-CAGAGGCACCAAGGTGCCGATGTTGCG
1 -CGAGGCTCCCGCACATCCA-A-GCACCAAGGTGCCGATGGTGCT
** * * *** *
12384502 CGAGGCTCCTACACATCCGAGGCACCAAGTTGTTAATGCTGCT
1 CGAGGCTCCCGCACATCC-AAGCACCAAGGTGCCGATGGTGCT
*
12384545 CGAGGCTCCCGCACATCCGAGCACCAAGGTGCCGAT
1 CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGAT
12384581 ATTCCTTGAA
Statistics
Matches: 411, Mismatches: 72, Indels: 44
0.78 0.14 0.08
Matches are distributed among these distances:
41 13 0.03
42 152 0.37
43 237 0.58
44 8 0.02
45 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.17
Consensus pattern (42 bp):
CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCT
Found at i:12384146 original size:85 final size:85
Alignment explanation
Indices: 12384034--12384558 Score: 385
Period size: 85 Copynumber: 6.2 Consensus size: 85
12384024 CTACGGTGTC
** * * * *
12384034 CGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCAATGCTGCTCGAGGCTCCCGTACATCCGAG
1 CGAGGCTCCCGCACGA-CCAAGGGCCAAGGTTGCCGATGCTGCCCGAGGCTCCCGCACATCCAAG
12384097 CCACCAAGGTGCCGATGGTGCT
65 -CACCAAGGTGCCGATGGTGCT
* * *
12384119 CGAGGCTCCCGTACGACCAAGGGCCAAGGTTGCTGATGGTGCCCGAGGCTCCCGCACATCCAAGC
1 CGAGGCTCCCGCACGACCAAGGGCCAAGGTTGCCGATGCTGCCCGAGGCTCCCGCACATCCAAGC
* *
12384184 ACCAAGGTACTGATGGTG-T
66 ACCAAGGTGCCGATGGTGCT
* * * * *
12384203 CCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGATGCCCAAGGCTCTCGCACGA-CCAA
1 -CGAGGCTCCCGCACGACCAAGGGCCAAGGTTGCCGATGCTGCCCGAGGCTCCCGCAC-ATCCAA
* *
12384267 TG-GCCTAGGTTGCCGATGGTGCT
64 -GCACCAAGG-TGCCGATGGTGCT
* * * * * *
12384290 CGAGGCTCTCGCACGACCAATGGCCTAGGTTACCGATG--GCGCCGAGGCTCTCACACATCCAAG
1 CGAGGCTCCCGCACGACCAAGGGCCAAGGTTGCCGATGCTGC-CCGAGGCTCCCGCACATCCAAG
* *
12384353 CACCAAGGTGCCGATGGTCCC
65 CACCAAGGTGCCGATGGTGCT
* ** * *
12384374 CGACGCTCCCGCAC-ATCCAAGCACCAAGG-T-CCTGATGGTGCCCGAGGCTCCCGCACAACCAA
1 CGAGGCTCCCGCACGA-CCAAGGGCCAAGGTTGCC-GATGCTGCCCGAGGCTCCCGCACATCCAA
* * * * *
12384436 TG-GCCTAGTTTGCTGATAGTG-T
64 -GCACCAAG-GTGCCGATGGTGCT
* * * * **
12384458 CCGAGGCTCCCGCAC-ATCAGAGGCACCAAGG-TGCCGATGTTGCGCGAGGCTCCTACACATCCG
1 -CGAGGCTCCCGCACGACCA-AGG-GCCAAGGTTGCCGATGCTGCCCGAGGCTCCCGCACATCC-
* * *** *
12384521 AGGCACCAAGTTGTTAATGCTGCT
62 AAGCACCAAGGTGCCGATGGTGCT
12384545 CGAGGCTCCCGCAC
1 CGAGGCTCCCGCAC
12384559 ATCCGAGCAC
Statistics
Matches: 356, Mismatches: 61, Indels: 45
0.77 0.13 0.10
Matches are distributed among these distances:
82 2 0.01
83 6 0.02
84 61 0.17
85 149 0.42
86 129 0.36
87 9 0.03
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.17
Consensus pattern (85 bp):
CGAGGCTCCCGCACGACCAAGGGCCAAGGTTGCCGATGCTGCCCGAGGCTCCCGCACATCCAAGC
ACCAAGGTGCCGATGGTGCT
Found at i:12384238 original size:128 final size:127
Alignment explanation
Indices: 12384028--12384580 Score: 455
Period size: 128 Copynumber: 4.3 Consensus size: 127
12384018 GGTTACCTAC
* * * * *
12384028 GGTGTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCAATGCTGCTCGAGGCTCCCGTACATC
1 GGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGATGGTGC-CGAGGCTCCCGCACATC
* * * *
12384093 CGAGCCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGTACGA-CCAAGGGCCAAGGTTGCTGAT
65 CAAG-CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGATCCAAGGACCAAGGTTGCTGAT
* *
12384156 GGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTACTGATGGTGTCCGAGGCTCTCGCACGA-
1 GGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGATGGTG-CCGAGGCTCCCGCAC-AT
** * * * * * *
12384220 CCAAGGGCCTAGGTTGCCGATGATGCCCAAGGCTCTCGCACGA-CCAATGG-CCTAGGTTGCCGA
64 CCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGATCCAA-GGACCAAGGTTGCTGA
12384283 T
127 T
* * * * * * *
12384284 GGTGCTCGAGGCTCTCGCACGA-CCAATG-GCCTAGGTTACCGATGGCGCCGAGGCTCTCACACA
1 GGTGCCCGAGGCTCCCGCAC-ATCCAA-GCACCAAGG-TACCGATGGTGCCGAGGCTCCCGCACA
* * * *
12384347 TCCAAGCACCAAGGTGCCGATGGTCCCCGACGCTCCCGCAC-ATCCAAGCACCAAGG-TCCTGAT
63 TCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGATCCAAGGACCAAGGTTGCTGAT
* * * * * * *
12384410 GGTGCCCGAGGCTCCCGCACAACCAATG-GCCTAGTTTGCTGATAGTGTCCGAGGCTCCCGCACA
1 GGTGCCCGAGGCTCCCGCACATCCAA-GCACCAAG-GTACCGATGGTG-CCGAGGCTCCCGCACA
* * ** * *
12384474 T-CAGAGGCACCAAGGTGCCGATGTTGCGCGAGGCTCCTACAC-ATCCGAGGCACCAA-GTTGTT
63 TCCA-A-GCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGATCCAAGG-ACCAAGGTTGCT
*
12384536 AAT
125 GAT
* * * *
12384539 GCTGCTCGAGGCTCCCGCACATCCGAGCACCAAGGTGCCGAT
1 GGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGAT
12384581 ATTCCTTGAA
Statistics
Matches: 342, Mismatches: 65, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
125 1 0.00
126 46 0.13
127 53 0.15
128 192 0.56
129 50 0.15
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.17
Consensus pattern (127 bp):
GGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGATGGTGCCGAGGCTCCCGCACATCC
AAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGATCCAAGGACCAAGGTTGCTGAT
Found at i:12385387 original size:58 final size:59
Alignment explanation
Indices: 12385318--12385439 Score: 192
Period size: 58 Copynumber: 2.1 Consensus size: 59
12385308 GGGAGGGACA
* * *
12385318 GGGAGGATTCATTCATTGTTGGGTACCGGACATGCAACGGTATCCGAATTCTA-CTTTT
1 GGGATGATTCATTCATTATTGGGTACCGAACATGCAACGGTATCCGAATTCTACCTTTT
* *
12385376 GGGATGATTCATTCATTATTGGGTACCGAACATGTAACGGTATCTGAATTCTACCTTTT
1 GGGATGATTCATTCATTATTGGGTACCGAACATGCAACGGTATCCGAATTCTACCTTTT
12385435 GGGAT
1 GGGAT
12385440 TGGGGAGGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
58 48 0.83
59 10 0.17
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (59 bp):
GGGATGATTCATTCATTATTGGGTACCGAACATGCAACGGTATCCGAATTCTACCTTTT
Found at i:12402787 original size:42 final size:43
Alignment explanation
Indices: 12402726--12403035 Score: 268
Period size: 42 Copynumber: 7.3 Consensus size: 43
12402716 ACCAGGGGCT
*
12402726 TAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAACAGCC
1 TAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAACAGCC
12402768 TAGGTTGCCGATGGT-CCCGAGGCTCTCGCACGACCAA-AGGCC
1 TAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAACA-GCC
* * * * **
12402810 TAGGTTACCGATGGTGCCCGAAGCTCCCGCACTACCAAGGGCC
1 TAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAACAGCC
**
12402853 TAGGTTGCCGATGGT-CCCGAGGCTCTCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAACAGCC
*
12402895 TAGGTTGCCGA---TGCCACTAAGGCTCTCGCAC-ATCCAAGCA-CC
1 TAGGTTGCCGATGGTGCC-C-GAGGCTCTCGCACGA-CCAA-CAGCC
* * * *
12402937 AAGG-TGCCGATGGTCCCCGAGGTTCTCGCGC-ATCCAAGCA-CC
1 TAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGA-CCAA-CAGCC
* * * * **
12402979 AAGG-TGCTGATGGTGCCCAAGGCTCTCGCACAACCAATGGCC
1 TAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAACAGCC
* *
12403021 TAGTTTACCGATGGT
1 TAGGTTGCCGATGGT
12403036 ATCCGAGACT
Statistics
Matches: 224, Mismatches: 29, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
39 1 0.00
40 2 0.01
41 9 0.04
42 153 0.68
43 56 0.25
44 3 0.01
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.17
Consensus pattern (43 bp):
TAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAACAGCC
Found at i:12402856 original size:85 final size:85
Alignment explanation
Indices: 12402732--12402907 Score: 298
Period size: 85 Copynumber: 2.1 Consensus size: 85
12402722 GGCTTAGGTG
*
12402732 CCGATGGTGCCCGAGGCTCCCGCACGACCAACAGCCTAGGTTGCCGATGGTCCCGAGGCTCTCGC
1 CCGATGGTGCCCGAAGCTCCCGCACGACCAACAGCCTAGGTTGCCGATGGTCCCGAGGCTCTCGC
12402797 ACGACCAAAGGCCTAGGTTA
66 ACGACCAAAGGCCTAGGTTA
* **
12402817 CCGATGGTGCCCGAAGCTCCCGCACTACCAAGGGCCTAGGTTGCCGATGGTCCCGAGGCTCTCGC
1 CCGATGGTGCCCGAAGCTCCCGCACGACCAACAGCCTAGGTTGCCGATGGTCCCGAGGCTCTCGC
* *
12402882 ACGACCAAGGGCCTAGGTTG
66 ACGACCAAAGGCCTAGGTTA
12402902 CCGATG
1 CCGATG
12402908 CCACTAAGGC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.19, C:0.35, G:0.31, T:0.16
Consensus pattern (85 bp):
CCGATGGTGCCCGAAGCTCCCGCACGACCAACAGCCTAGGTTGCCGATGGTCCCGAGGCTCTCGC
ACGACCAAAGGCCTAGGTTA
Found at i:12402974 original size:84 final size:83
Alignment explanation
Indices: 12402738--12402965 Score: 266
Period size: 85 Copynumber: 2.7 Consensus size: 83
12402728 GGTGCCGATG
* * *
12402738 GTGCCCGAGGCTCCCGCACGACCAA-CAGCCTAGGTTGCCGATGGTCCCGAGGCTCTCGCACGAC
1 GTGCCCGAAGCTCCCGCACTACCAAGCA-CCAAGGTTGCCGATGGTCCCGAGGCTCTCGCACGAC
*
12402802 CAAAGGCCTAGGTTACCGA
65 CAAGGGCCTAGGTTACCGA
** *
12402821 TGGTGCCCGAAGCTCCCGCACTACCAAGGGCCTAGGTTGCCGATGGTCCCGAGGCTCTCGCACGA
1 --GTGCCCGAAGCTCCCGCACTACCAAGCACCAAGGTTGCCGATGGTCCCGAGGCTCTCGCACGA
*
12402886 CCAAGGGCCTAGGTTGCCGA
64 CCAAGGGCCTAGGTTACCGA
* * *
12402906 -TGCCACTAAGGCTCTCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTCCCCGAGGTTCTCGC
1 GTGCC-CGAA-GCTCCCGCACTA-CCAAGCACCAAGGTTGCCGATGGT-CCCGAGGCTCTCGC
12402966 GCATCCAAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
82 4 0.03
83 14 0.11
84 32 0.25
85 76 0.60
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.16
Consensus pattern (83 bp):
GTGCCCGAAGCTCCCGCACTACCAAGCACCAAGGTTGCCGATGGTCCCGAGGCTCTCGCACGACC
AAGGGCCTAGGTTACCGA
Found at i:12403088 original size:86 final size:85
Alignment explanation
Indices: 12402972--12403180 Score: 226
Period size: 86 Copynumber: 2.4 Consensus size: 85
12402962 TCGCGCATCC
* * * * * *
12402972 AAGCACCAAGGTGCTGATGGTGCCCAAGGCTCTCGCACAACCAATGG-CCTAGTTTACCGATGGT
1 AAGCACCAAGGTGCCGATGCTGCTCGAGGCTCTCGCACAACCAA-GGCCCAAG-TTACCGATGCT
*
12403036 -ATCCGAGACTCCCGCACATCTG
64 GCT-CGAGACTCCCGCACATCTG
* * * * *
12403058 AAGCACCAAGGTACCGATGCTGCTCGAGGCTCCCGCACATCCGAGGCTCCAAGTTGCCGATGCTG
1 AAGCACCAAGGTGCCGATGCTGCTCGAGGCTCTCGCACAACCAAGGC-CCAAGTTACCGATGCTG
* *
12403123 CTCGAGGCTCCTGCACATCTG
65 CTCGAGACTCCCGCACATCTG
*
12403144 -AGCACCAAGGTGCCGATGCTGCTCGAAGCTCTCGCAC
1 AAGCACCAAGGTGCCGATGCTGCTCGAGGCTCTCGCAC
12403181 CACCGACGTC
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
85 36 0.35
86 62 0.60
87 5 0.05
ACGTcount: A:0.22, C:0.33, G:0.26, T:0.19
Consensus pattern (85 bp):
AAGCACCAAGGTGCCGATGCTGCTCGAGGCTCTCGCACAACCAAGGCCCAAGTTACCGATGCTGC
TCGAGACTCCCGCACATCTG
Found at i:12403165 original size:42 final size:42
Alignment explanation
Indices: 12403039--12403180 Score: 194
Period size: 43 Copynumber: 3.3 Consensus size: 42
12403029 CGATGGTATC
* *
12403039 CGAGACTCCCGCACATCTGAAGCACCAAGGTACCGATGCTGCT
1 CGAGGCTCCCGCACATCTG-AGCACCAAGGTGCCGATGCTGCT
* * *
12403082 CGAGGCTCCCGCACATCCGAGGCTCCAAGTTGCCGATGCTGCT
1 CGAGGCTCCCGCACATCTGA-GCACCAAGGTGCCGATGCTGCT
*
12403125 CGAGGCTCCTGCACATCTGAGCACCAAGGTGCCGATGCTGCT
1 CGAGGCTCCCGCACATCTGAGCACCAAGGTGCCGATGCTGCT
* *
12403167 CGAAGCTCTCGCAC
1 CGAGGCTCCCGCAC
12403181 CACCGACGTC
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 32 0.37
43 54 0.63
ACGTcount: A:0.20, C:0.36, G:0.26, T:0.18
Consensus pattern (42 bp):
CGAGGCTCCCGCACATCTGAGCACCAAGGTGCCGATGCTGCT
Found at i:12403216 original size:85 final size:86
Alignment explanation
Indices: 12403044--12403218 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 86
12403034 GTATCCGAGA
* *
12403044 CTCCCGCACATCTGAAGCACCAAGGTACCGATGCTGCTCGAGGCTCCCGCACATCCGAGGCTCCA
1 CTCCCGCACATCTGAAGCACCAAGGTACCGATGCTGCTCGAAGCTCCCGCACATCCGACGCTCCA
* *
12403109 AGTTGCCGATGCTGCTCGAGG
66 AGTTGCCAATGCTGCTCAAGG
* * *
12403130 CTCCTGCACATCTG-AGCACCAAGGTGCCGATGCTGCTCGAAGCTCTCGCACCA-CCGACG-TCC
1 CTCCCGCACATCTGAAGCACCAAGGTACCGATGCTGCTCGAAGCTCCCGCA-CATCCGACGCTCC
* * *
12403192 TAGGTTGTCAATGGCTTC-CAAGG
65 -AAGTTGCCAAT-GCTGCTCAAGG
12403215 CTCC
1 CTCC
12403219 AGCAAGTCCA
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
84 3 0.04
85 54 0.71
86 19 0.25
ACGTcount: A:0.19, C:0.36, G:0.25, T:0.19
Consensus pattern (86 bp):
CTCCCGCACATCTGAAGCACCAAGGTACCGATGCTGCTCGAAGCTCCCGCACATCCGACGCTCCA
AGTTGCCAATGCTGCTCAAGG
Found at i:12403434 original size:24 final size:23
Alignment explanation
Indices: 12403402--12403525 Score: 113
Period size: 24 Copynumber: 5.2 Consensus size: 23
12403392 TCTATATTCT
*
12403402 GGGATGGCTCACCAGAGCACCACC
1 GGGATGGCTCACC-GAGCACCGCC
* *
12403426 GGGATGGCTCGCCGAAGCACCTCC
1 GGGATGGCTCACCG-AGCACCGCC
* *
12403450 GGGATGCCTCACCGAAGCACCGCT
1 GGGATGGCTCACCG-AGCACCGCC
*
12403474 GGGATGGCTCACTGGAGCACCGCC
1 GGGATGGCTCAC-CGAGCACCGCC
* * * *
12403498 GGAATGGATCGCCCGAGCACCGCT
1 GGGATGGCTC-ACCGAGCACCGCC
12403522 GGGA
1 GGGA
12403526 ACCTAACCGG
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
23 1 0.01
24 79 0.96
25 2 0.02
ACGTcount: A:0.20, C:0.35, G:0.34, T:0.11
Consensus pattern (23 bp):
GGGATGGCTCACCGAGCACCGCC
Found at i:12403493 original size:48 final size:48
Alignment explanation
Indices: 12403402--12403525 Score: 126
Period size: 48 Copynumber: 2.6 Consensus size: 48
12403392 TCTATATTCT
* * * *
12403402 GGGATGGCTCACC-AGAGCACCACCGGGATGGCTCGCCGAAGCACCTCC
1 GGGATGGCTCACCGA-AGCACCGCTGGGATGGCTCACCGAAGCACCGCC
* * *
12403450 GGGATGCCTCACCGAAGCACCGCTGGGATGGCTCACTGGAGCACCGCC
1 GGGATGGCTCACCGAAGCACCGCTGGGATGGCTCACCGAAGCACCGCC
* * *
12403498 GGAATGGATCGCCCG-AGCACCGCTGGGA
1 GGGATGGCTC-ACCGAAGCACCGCTGGGA
12403526 ACCTAACCGG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 59 0.94
49 4 0.06
ACGTcount: A:0.20, C:0.35, G:0.34, T:0.11
Consensus pattern (48 bp):
GGGATGGCTCACCGAAGCACCGCTGGGATGGCTCACCGAAGCACCGCC
Found at i:12404036 original size:58 final size:59
Alignment explanation
Indices: 12403928--12404048 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 59
12403918 GGAAGGGACA
* * * * *
12403928 GGGACGATTCATTCATTGTTTGGTACCAGACATGCAACGGTATCCAAATTCTACC-TTT
1 GGGACGACTCATTCATTATTGGGTACCAGACAAGCAACGATATCCAAATTCTACCTTTT
* **
12403986 GGGACGACTCATTCATTATTGGGTACC-GAACAAGTAACGATATCTGAATTCTACCTTTT
1 GGGACGACTCATTCATTATTGGGTACCAG-ACAAGCAACGATATCCAAATTCTACCTTTT
12404045 GGGA
1 GGGA
12404049 TTGGAGAGGG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
57 1 0.02
58 45 0.85
59 7 0.13
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (59 bp):
GGGACGACTCATTCATTATTGGGTACCAGACAAGCAACGATATCCAAATTCTACCTTTT
Found at i:12407542 original size:35 final size:35
Alignment explanation
Indices: 12407503--12407572 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
12407493 CATCTCTGAA
* *
12407503 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
* *
12407538 GCTTGGAAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
12407573 ACGATCCTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (35 bp):
GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:12412912 original size:56 final size:56
Alignment explanation
Indices: 12412826--12412945 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
12412816 ACAAGGGATG
12412826 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
12412882 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
12412938 ATGGGCAA
1 ATGGGCAA
12412946 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:12414445 original size:47 final size:47
Alignment explanation
Indices: 12414391--12414938 Score: 773
Period size: 47 Copynumber: 11.6 Consensus size: 47
12414381 TATTTGAATA
* * *
12414391 AATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
12414438 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
12414485 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
12414534 AATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
12414581 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
12414630 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
12414677 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
12414724 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
12414771 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
12414818 AATGTGAATA-TGTGTATGTGTGATAAGGCCGAAAGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
12414865 AATGTGAAAGTGTACATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
12414912 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
12414939 TCCCGAAGGG
Statistics
Matches: 470, Mismatches: 25, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 377 0.80
49 91 0.19
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:12414816 original size:22 final size:22
Alignment explanation
Indices: 12414789--12414910 Score: 59
Period size: 22 Copynumber: 5.3 Consensus size: 22
12414779 CATGTGTATG
12414789 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * * ***
12414811 TGTGATGAATG-TGAATATGTGTA
1 TGTGAT-AAGGCCGAAT-GGCCAA
*
12414834 TGTGTGATAAGGCCGAAAGGCCAA
1 TG--TGATAAGGCCGAATGGCCAA
* * **
12414858 TGTGATGAATG-TGAAAGTGTACATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
12414883 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
12414905 TGTGAT
1 TGTGAT
12414911 GGATGTGGAA
Statistics
Matches: 68, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 22 0.32
23 16 0.24
24 15 0.22
25 15 0.22
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:12417303 original size:40 final size:40
Alignment explanation
Indices: 12417221--12417576 Score: 446
Period size: 40 Copynumber: 8.9 Consensus size: 40
12417211 TCGAATGATG
** **
12417221 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTA
* *
12417261 TCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
12417301 TCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* *
12417341 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* *
12417381 TCCGGGTTAAGTCCCGAAGAGCATTCAAGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* *
12417421 TCCGGGCTAAGTTCCGAAGAGCATTTATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * *
12417461 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* ** * * * *
12417501 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * *
12417541 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
12417577 CGTGTATTCG
Statistics
Matches: 278, Mismatches: 36, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
40 265 0.95
41 7 0.03
42 6 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
Done.