Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 103 of 325
Found at i:32991399 original size:50 final size:49
Alignment explanation
Indices: 32991323--32991510 Score: 234
Period size: 50 Copynumber: 3.8 Consensus size: 49
32991313 GAGTAATGAG
* * *
32991323 ATCCCATGTAAAACCATGTTTGGGACATGGCATTGGCATCGATATGTGAA
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTG-A
*
32991373 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTGATATGTGA
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGA
* * * * *
32991422 GATCCCATGTAGGACCATGTTTGGGACATGGCATTGGCATCGGTATATG-
1 -ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGA
* * * *
32991471 ATCCCATGTAAGACCATATCTAGGATATGACCTTGGCATC
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATC
32991511 TTATTGTGTG
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
48 33 0.28
49 1 0.01
50 86 0.72
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (49 bp):
ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGA
Found at i:32994623 original size:55 final size:55
Alignment explanation
Indices: 32994530--32994637 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
32994520 ACCTCCTTTT
* *
32994530 GGCCATACGGGCGTGTGCCATGGCCGTGACTTAGAGTCAGTATTGTACACGAGTA
1 GGCCACACGGGCGTGTGCCATGGCCGTGACTTAGAGTCAGTATTGCACACGAGTA
** *
32994585 GGCCACACGGGCGTGTGCCATGGCCGTGTGTT-GAAGTCAGTGTTGCACACGAG
1 GGCCACACGGGCGTGTGCCATGGCCGTGACTTAG-AGTCAGTATTGCACACGAG
32994638 CTATGGGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 1 0.02
55 46 0.98
ACGTcount: A:0.19, C:0.23, G:0.35, T:0.22
Consensus pattern (55 bp):
GGCCACACGGGCGTGTGCCATGGCCGTGACTTAGAGTCAGTATTGCACACGAGTA
Found at i:33001026 original size:13 final size:13
Alignment explanation
Indices: 33001008--33001034 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33000998 GCCTGGACTG
33001008 GTAATTCAGATCT
1 GTAATTCAGATCT
33001021 GTAATTCAGATCT
1 GTAATTCAGATCT
33001034 G
1 G
33001035 AGCTTTTTAG
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:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (13 bp):
GTAATTCAGATCT
Found at i:33005686 original size:29 final size:29
Alignment explanation
Indices: 33005635--33005690 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
33005625 ACAAGTGATG
*
33005635 ATATGTGACAAATGTATGAGAAAATATGCA
1 ATATGTGACAAATGAATGAG-AAATATGCA
33005665 ATATGTG-CAAATGAATTG-GAAATATG
1 ATATGTGACAAATGAA-TGAGAAATATG
33005691 TGATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 7 0.29
29 8 0.33
30 9 0.38
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (29 bp):
ATATGTGACAAATGAATGAGAAATATGCA
Found at i:33005696 original size:28 final size:30
Alignment explanation
Indices: 33005633--33005696 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 30
33005623 GAACAAGTGA
*
33005633 TGATATGTGACAAATGTATGAGAAAATATG
1 TGATATGTGACAAATGAATGAGAAAATATG
**
33005663 CAATATGTG-CAAATGAATTG-G-AAATATG
1 TGATATGTGACAAATGAA-TGAGAAAATATG
33005691 TGATAT
1 TGATAT
33005697 ATATATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 11 0.39
29 8 0.29
30 9 0.32
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (30 bp):
TGATATGTGACAAATGAATGAGAAAATATG
Found at i:33005738 original size:54 final size:54
Alignment explanation
Indices: 33005677--33005783 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
33005667 ATGTGCAAAT
33005677 GAATTGGAAATATGTGATATATATATTAATCATATGGTTGATGATAGTATTTAA
1 GAATTGGAAATATGTGATATATATATTAATCATATGGTTGATGATAGTATTTAA
33005731 GAATTGGAAATATGTGATATATATATTAATCATATGGTTGATGATAGTATTTA
1 GAATTGGAAATATGTGATATATATATTAATCATATGGTTGATGATAGTATTTA
33005784 GTTATGAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.41
Consensus pattern (54 bp):
GAATTGGAAATATGTGATATATATATTAATCATATGGTTGATGATAGTATTTAA
Found at i:33014289 original size:40 final size:40
Alignment explanation
Indices: 33014234--33014458 Score: 321
Period size: 40 Copynumber: 5.6 Consensus size: 40
33014224 TATTCGGATG
*
33014234 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
33014274 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
33014314 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
33014357 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
33014397 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
33014437 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
33014459 TACTTGGGTT
Statistics
Matches: 169, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
39 16 0.09
40 114 0.67
41 2 0.01
43 35 0.21
44 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:33014391 original size:83 final size:81
Alignment explanation
Indices: 33014234--33014458 Score: 341
Period size: 83 Copynumber: 2.8 Consensus size: 81
33014224 TATTCGGATG
*
33014234 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAG-TGACCATATCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTG-CTATATCCGGGCTAAGTCCCGAAGG
33014297 CATTTGTGCTAGTGACT
65 CATTTGTGCTAGTGACT
* *
33014314 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--GTAGTTGCTATATCCGGGCTAAGTCCCGAAG
33014379 GCATTTGTGCTAGTGACT
64 GCATTTGTGCTAGTGACT
* * *
33014397 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCG-AGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATATCCGGGCTAAGTCCCGAAGG
33014459 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
79 15 0.11
80 43 0.32
81 1 0.01
83 72 0.54
84 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCTAGTGACT
Found at i:33024988 original size:45 final size:49
Alignment explanation
Indices: 33024856--33024988 Score: 130
Period size: 50 Copynumber: 2.8 Consensus size: 49
33024846 TCACTATTTA
* *
33024856 TGGACAAGCCACCACTGAGTTGTAGATAAACTGCCACTGATAACACTTAG
1 TGGA-AAGCAACCACTGATTTGTAGATAAACTGCCACTGATAACACTTAG
* * * * * * * *
33024906 TGGAAAAGCCACCACTAATATGCAAATATACTACCACTGA-AACACTTTG
1 TGG-AAAGCAACCACTGATTTGTAGATAAACTGCCACTGATAACACTTAG
33024955 T-G-AA-CAACCACTGATTTGTAGATAAACTGCCACT
1 TGGAAAGCAACCACTGATTTGTAGATAAACTGCCACT
33024989 TACTTCCACC
Statistics
Matches: 67, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
45 23 0.34
46 2 0.03
48 1 0.01
49 9 0.13
50 31 0.46
51 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (49 bp):
TGGAAAGCAACCACTGATTTGTAGATAAACTGCCACTGATAACACTTAG
Found at i:33034861 original size:25 final size:25
Alignment explanation
Indices: 33034833--33034882 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33034823 AAAACCCTTC
33034833 TTAAAATAAAAGAAACTTAAAAAAA
1 TTAAAATAAAAGAAACTTAAAAAAA
33034858 TTAAAATAAAAGAAACTTAAAAAAA
1 TTAAAATAAAAGAAACTTAAAAAAA
33034883 ACCTTTCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (25 bp):
TTAAAATAAAAGAAACTTAAAAAAA
Found at i:33035982 original size:29 final size:29
Alignment explanation
Indices: 33035918--33035987 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
33035908 CTGTATTTGG
* * *
33035918 CCCATTAAGCCC-AATCATATTCATCTGG
1 CCCATTAGGCCCAAATCATATTCATATGA
*
33035946 CCCATTAGGCCCAAATCATATTTATATGA
1 CCCATTAGGCCCAAATCATATTCATATGA
*
33035975 CCCGTTAGGCCCA
1 CCCATTAGGCCCA
33035988 GTCACAATCG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 11 0.31
29 25 0.69
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCATATTCATATGA
Found at i:33037387 original size:16 final size:16
Alignment explanation
Indices: 33037342--33037389 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
33037332 GAAAAATTTA
*
33037342 AGATTTCGGGACTTTT
1 AGATTTCGGGATTTTT
** *
33037358 AGATTTTAGAATTTTT
1 AGATTTCGGGATTTTT
*
33037374 AGGTTTCGGGATTTTT
1 AGATTTCGGGATTTTT
33037390 GGGGAGTTAC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.21, C:0.06, G:0.23, T:0.50
Consensus pattern (16 bp):
AGATTTCGGGATTTTT
Found at i:33039806 original size:29 final size:29
Alignment explanation
Indices: 33039767--33039843 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
33039757 AATCATATTC
*
33039767 ATATGGCCCATTAGGCCTAAATCACCTAT
1 ATATGGCCCATTAGGCCTAAATCACATAT
* * * *
33039796 ATTTGGTCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCTAAATCACATAT
33039825 ATATGGCCCATTAGGCCTA
1 ATATGGCCCATTAGGCCTA
33039844 GTCACATTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCTAAATCACATAT
Found at i:33041034 original size:39 final size:38
Alignment explanation
Indices: 33040961--33041138 Score: 189
Period size: 38 Copynumber: 4.6 Consensus size: 38
33040951 AGCACAAAAG
** * *
33040961 CTGCGGGACTTTAAGTTCAGATATAATACCAGCACTAGGC
1 CTGCGGGACTTTAA-CCCGGATATAATACCAGCA-TAAGC
*
33041001 CTGCGGGACTTTAACCCGGATATAATACCAGCACGAAGC
1 CTGCGGGACTTTAACCCGGATATAATACCAGCA-TAAGC
* *
33041040 CTGCGGGA-TTTAACCTGGATATATTACCAGCATGAAGC
1 CTGCGGGACTTTAACCCGGATATAATACCAGCAT-AAGC
* * *
33041078 CTGTGGGA-TTTAACCCAGATATAATTCCAGCATATAGC
1 CTGCGGGACTTTAACCCGGATATAATACCAGCATA-AGC
*
33041116 CTGCGGGTCTTTAAGCCCGGATA
1 CTGCGGGACTTTAA-CCCGGATA
33041139 CACATCAAAT
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 63 0.53
39 33 0.28
40 21 0.18
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (38 bp):
CTGCGGGACTTTAACCCGGATATAATACCAGCATAAGC
Found at i:33052702 original size:38 final size:39
Alignment explanation
Indices: 33052589--33052779 Score: 199
Period size: 38 Copynumber: 4.9 Consensus size: 39
33052579 GAATCTAGTC
* * **
33052589 ACCAGCACAAAACCTGCGGGACTTTAAGTTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAA-CCCAGATATAAT
* * *
33052629 ACCAGCACTAGGCCTGCGGGACTTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCAGATATAAT
* *
33052668 ACCAACACGAAGCCTGCGGGA-TTTAACCCAGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCAGATATAAT
* *
33052706 ACCAGCACGAAGCTTGCGGGA-TTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCAGATATAAT
* * * *
33052744 TCCAGCA-TATAGCCTGCGGGTCTTCAAGCCCAGATA
1 ACCAGCACGA-AGCCTGCGGGACTTTAA-CCCAGATA
33052780 CACATCAAAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 64 0.50
39 31 0.24
40 31 0.24
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGGACTTTAACCCAGATATAAT
Found at i:33052760 original size:76 final size:79
Alignment explanation
Indices: 33052601--33052779 Score: 222
Period size: 76 Copynumber: 2.3 Consensus size: 79
33052591 CAGCACAAAA
** * *
33052601 CCTGCGGGACTTTAAGTTCAGATATAATACCAGCACTAGGCCTGCGGGACTTTAACCCGGATATA
1 CCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATA
33052666 ATACCAACACGAAG
66 ATACCAACACGAAG
* *
33052680 CCTGCGGGA-TTTAA-CCCAGATATATTACCAGCACGAAGCTTGCGGGA-TTTAACCCGGATATA
1 CCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATA
* * *
33052742 ATTCCAGCA-TATAG
66 ATACCAACACGA-AG
* *
33052756 CCTGCGGGTCTTCAAGCCCAGATA
1 CCTGCGGGACTTTAAGCCCAGATA
33052780 CACATCAAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
75 1 0.01
76 32 0.37
77 31 0.36
78 13 0.15
79 9 0.10
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.23
Consensus pattern (79 bp):
CCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATA
ATACCAACACGAAG
Found at i:33057742 original size:24 final size:23
Alignment explanation
Indices: 33057710--33057772 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
33057700 TACCAATATA
*
33057710 TCAGTTCGTAAGAGCTCACTGTT
1 TCAGCTCGTAAGAGCTCACTGTT
** *
33057733 CTCAGCTCGTATCAGCTTACTGTT
1 -TCAGCTCGTAAGAGCTCACTGTT
* *
33057757 TCAGCTTGTCAGAGCT
1 TCAGCTCGTAAGAGCT
33057773 TACCTTTTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (23 bp):
TCAGCTCGTAAGAGCTCACTGTT
Found at i:33057772 original size:23 final size:22
Alignment explanation
Indices: 33057710--33057799 Score: 65
Period size: 23 Copynumber: 3.9 Consensus size: 22
33057700 TACCAATATA
* *
33057710 TCAGTTCGTAAGAGCTCACTGTT
1 TCAGCTCGT-AGAGCTTACTGTT
*
33057733 CTCAGCTCGTATCAGCTTACTGTT
1 -TCAGCTCGTA-GAGCTTACTGTT
*
33057757 TCAGCTTGTCAGAGCTTACCT-TT
1 TCAGCTCGT-AGAGCTTA-CTGTT
**
33057780 TCAGCATAATAGAGCTTACT
1 TCAGC-TCGTAGAGCTTACT
33057800 ATCCATCAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.04
23 30 0.55
24 23 0.42
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (22 bp):
TCAGCTCGTAGAGCTTACTGTT
Found at i:33081489 original size:48 final size:49
Alignment explanation
Indices: 33081430--33081563 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 49
33081420 CTCACACGAT
* * **
33081430 AAGTACTTATACCATGGCCCAAAGCCAAATCAAGGTAACTTATC-CTCG
1 AAGTACCTATACCATGGCCCAAAGCCAAATCAAGGTAACTCATCTCTAA
* *
33081478 GAGTACCTATACCATGGCCCAAAGCCAAATTAAGGTAACTCATCTCTAA
1 AAGTACCTATACCATGGCCCAAAGCCAAATCAAGGTAACTCATCTCTAA
*
33081527 AAATACCTATACCATGGCCCAAAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCAAAGCCAAATCAAGGTA
33081564 TAACTCGTAC
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
48 40 0.53
49 36 0.47
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (49 bp):
AAGTACCTATACCATGGCCCAAAGCCAAATCAAGGTAACTCATCTCTAA
Found at i:33081553 original size:49 final size:48
Alignment explanation
Indices: 33081437--33081563 Score: 191
Period size: 49 Copynumber: 2.6 Consensus size: 48
33081427 GATAAGTACT
* *** *
33081437 TATACCATGGCCCAAAGCCAAATCAAGGTAACTTATCCTCGGAGTACC
1 TATACCATGGCCCAAAGCCAAATCAAGGTAACTCATCCTAAAAATACC
*
33081485 TATACCATGGCCCAAAGCCAAATTAAGGTAACTCATCTCTAAAAATACC
1 TATACCATGGCCCAAAGCCAAATCAAGGTAACTCATC-CTAAAAATACC
33081534 TATACCATGGCCCAAAGCCAAATCAAGGTA
1 TATACCATGGCCCAAAGCCAAATCAAGGTA
33081564 TAACTCGTAC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
48 35 0.49
49 36 0.51
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.20
Consensus pattern (48 bp):
TATACCATGGCCCAAAGCCAAATCAAGGTAACTCATCCTAAAAATACC
Found at i:33083576 original size:41 final size:41
Alignment explanation
Indices: 33083512--33083636 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 41
33083502 CTTAAAAGCC
** *
33083512 ATCGGTAGATCCATAGTCGTCAAGCAACCATGCGATCCTTA
1 ATCGGTAGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
* *
33083553 ATCGGTAGATCCACGGTCATCAAGCACCCATGCGATCCTCA
1 ATCGGTAGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
** * *
33083594 ATTAGTGGATCCACGGTCGTCAAGCAACCATACGATCCTCA
1 ATCGGTAGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
33083635 AT
1 AT
33083637 TTCTTCCTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (41 bp):
ATCGGTAGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
Found at i:33083904 original size:27 final size:27
Alignment explanation
Indices: 33083874--33083939 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
33083864 TTTCACGTTA
* * *
33083874 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGATAAATCTACAAAC
* *
33083901 CAAGGGTATTTCGATAATTTTACAAAC
1 CAAGGGTATTTCGATAAATCTACAAAC
*
33083928 CAATGGTATTTC
1 CAAGGGTATTTC
33083940 TGTAATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (27 bp):
CAAGGGTATTTCGATAAATCTACAAAC
Found at i:33083945 original size:27 final size:27
Alignment explanation
Indices: 33083894--33084216 Score: 212
Period size: 27 Copynumber: 12.0 Consensus size: 27
33083884 TTGGTAAATC
*
33083894 TACAAACCAAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* *
33083921 TACAAACCAATGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** * *
33083948 TTGAAAGTCAAGGGTATTTTTCTAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTT
** * * * *
33083976 TGTAAATTAGGGGTATTTTTATAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* *
33084003 TCCAAATCAATGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* * *
33084030 TCCAAATTAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
* **
33084057 TACAAATTAA-GGTATTTAGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* * *
33084083 TACAAGTCGAGGGTATTT-TAATAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
*
33084110 TACAAGTCAAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* * *
33084137 CACAAATTAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
* *
33084164 TGCTAATCAAGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
** * *
33084191 TGGAAACCAAGGGTATTTCAGTAATT
1 TACAAATCAAGGGTATTTCTGTAATT
33084217 CTACCCTACA
Statistics
Matches: 238, Mismatches: 45, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
26 21 0.09
27 193 0.81
28 24 0.10
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCTGTAATTT
Found at i:33084037 original size:54 final size:54
Alignment explanation
Indices: 33083877--33084191 Score: 285
Period size: 54 Copynumber: 5.8 Consensus size: 54
33083867 CACGTTACAA
* * * * ** *
33083877 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTAG
* ** *** **
33083931 TGGTATTTCT-GTAATTTTTGAAAGTCAAGGGTATTTTTCTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAA-TCAAGGGTATTTCGATAATTTTACAAATTAG
** * * *
33083986 GGGTATTTTTATAATTTTCCAAATCAATGGTATTTCGATAATTTTCCAAATTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTAG
* * * * *
33084040 GGGTATTTTGGTAATTTTACAAATTAA-GGTATTTAGGTAATTTTAC-AAGTCG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTAG
** * *
33084092 AGGGTATTTTAATAATTTTACAAGTCAAGGGTATTTCGATAATTTCACAAATTAG
1 -GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTAG
* * * *
33084147 GGGTATTTTGGTAATTTTGCTAATCAAGGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTT
33084192 GGAAACCAAG
Statistics
Matches: 204, Mismatches: 51, Indels: 12
0.76 0.19 0.04
Matches are distributed among these distances:
52 4 0.02
53 39 0.19
54 117 0.57
55 44 0.22
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTAG
Found at i:33084125 original size:107 final size:108
Alignment explanation
Indices: 33083894--33084191 Score: 327
Period size: 107 Copynumber: 2.8 Consensus size: 108
33083884 TTGGTAAATC
* * ** ** **
33083894 TACAAACCAAGGGTATTTCGATAATTTTACAAACCAATGGTATTTCT-GTAATTTTTGAAAGTCA
1 TACAAATCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTT-TGGTAATTTTACAAA-TCA
*** * * *
33083958 AGGGTATTTTTCTAATTTTGTA-AATTAG-GGGTATTTTTATAATTT
64 AGGGTATTTAGGTAA-TTT-TACAAGTCGAGGGTATTTTAATAATTT
* * *
33084003 TCCAAATCAATGGTATTTCGATAATTTTC-CAAATTAGGGGTATTTTGGTAATTTTACAAATTAA
1 TACAAATCAAGGGTATTTCGATAA-TTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATCAA
33084067 -GGTATTTAGGTAATTTTACAAGTCGAGGGTATTTTAATAATTT
65 GGGTATTTAGGTAATTTTACAAGTCGAGGGTATTTTAATAATTT
* * *
33084110 TACAAGTCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTGCTAATCAAG
1 TACAAATCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATCAAG
*
33084175 GGTATTTTGGTAATTTT
66 GGTATTTAGGTAATTTT
33084192 GGAAACCAAG
Statistics
Matches: 159, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
105 2 0.01
106 11 0.07
107 79 0.50
108 20 0.13
109 44 0.28
110 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (108 bp):
TACAAATCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATCAAG
GGTATTTAGGTAATTTTACAAGTCGAGGGTATTTTAATAATTT
Found at i:33084235 original size:27 final size:27
Alignment explanation
Indices: 33084205--33084282 Score: 102
Period size: 28 Copynumber: 2.9 Consensus size: 27
33084195 AACCAAGGGT
*
33084205 ATTTCAGTAATTCTACCCTACAGTGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
33084232 ATTTCAGCAAATTCTACCCTACAGGGGT
1 ATTTCAG-TAATTCTACCCTACAGGGGC
* *
33084260 ATTTCAGTAATACTAGCCTACAG
1 ATTTCAGTAATTCTACCCTACAG
33084283 ATATGAGATT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 20 0.45
28 24 0.55
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:33088878 original size:93 final size:93
Alignment explanation
Indices: 33088715--33089002 Score: 454
Period size: 93 Copynumber: 3.1 Consensus size: 93
33088705 TTAACTTGAT
* * *
33088715 TTTATCAATTTTGCCTAATTTTGTTCAACTTTAA-TTTT-TCTCAAAAACATTTTTATTTGTTAT
1 TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTAT-TCAAAAACATTTTAATTTGTTAT
*
33088778 ATCAAAACATATTATCAAATAAATCTTAG
65 ATCAAAACATATTATCAAATAAAACTTAG
* *
33088807 TTTAACAATTTTGCCCAATTTTTTTCAACATTAACTTTTATTCAAAAACATTTTAATTTGTTATA
1 TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAACATTTTAATTTGTTATA
*
33088872 TCAAAACATATTATCAAATAAAGCTTAG
66 TCAAAACATATTATCAAATAAAACTTAG
* * *
33088900 TTTAATAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAATACTTTAATTTGTTATA
1 TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAACATTTTAATTTGTTATA
*
33088965 TCTAAACATATTATCAAATAAAACTTAG
66 TCAAAACATATTATCAAATAAAACTTAG
33088993 TTTAACAATT
1 TTTAACAATT
33089003 ATATAATGTT
Statistics
Matches: 180, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
92 30 0.17
93 149 0.83
94 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.45
Consensus pattern (93 bp):
TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAACATTTTAATTTGTTATA
TCAAAACATATTATCAAATAAAACTTAG
Found at i:33093069 original size:55 final size:53
Alignment explanation
Indices: 33092961--33093194 Score: 203
Period size: 55 Copynumber: 4.4 Consensus size: 53
33092951 ATTAGGGTTT
* * ** *
33092961 AAGGATACCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATG-GCATTGATAA-G-TTCATAAGGC
* * *
33093016 AAGGAAATCATGTAAGACCATGTGAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ATAAGGC
* * * * *
33093071 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGC
* * * *
33093124 AAGGATACCATGTAAGACCATGTCAGGACATGGCAATGGTATGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCAT-AAGGC
33093173 AAGGATACCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
33093195 ACAATTCATG
Statistics
Matches: 150, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
49 22 0.15
51 1 0.01
52 8 0.05
53 42 0.28
54 8 0.05
55 65 0.43
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:33098625 original size:24 final size:24
Alignment explanation
Indices: 33098576--33098627 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
33098566 TTGTAGAAGG
* *
33098576 TATGTATGTATGTGCTTTTGTGTA
1 TATGTATGGATGTGCTTATGTGTA
*
33098600 TATGTATGGATGTG-TTCATGTTTA
1 TATGTATGGATGTGCTT-ATGTGTA
33098624 TATG
1 TATG
33098628 GGTATGAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.19, C:0.04, G:0.25, T:0.52
Consensus pattern (24 bp):
TATGTATGGATGTGCTTATGTGTA
Found at i:33104747 original size:15 final size:15
Alignment explanation
Indices: 33104697--33104775 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
33104687 GTATTGTAAT
*
33104697 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
* *
33104712 TTGGACTTCTCTATC
1 TTGGATTTCTTTATC
* *
33104727 TGGGATTTCTTTATG
1 TTGGATTTCTTTATC
*
33104742 TTGGATTTTTTTAT-
1 TTGGATTTCTTTATC
* *
33104756 TCTGGGTTTCTCTATC
1 T-TGGATTTCTTTATC
33104772 TTGG
1 TTGG
33104776 TTTTGTGGTT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
14 1 0.02
15 48 0.96
16 1 0.02
ACGTcount: A:0.11, C:0.15, G:0.19, T:0.54
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:33124345 original size:27 final size:27
Alignment explanation
Indices: 33124312--33124430 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
33124302 TGGATAAGTT
* *
33124312 GTAGAATTATCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTATAGG
* *
33124339 GTAGAATTACTGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* *
33124366 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* * * *
33124393 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTATAGG
*
33124420 GTAAAATTACC
1 GTAGAATTACC
33124431 ATTTTACCCC
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTATAGG
Found at i:33131875 original size:27 final size:27
Alignment explanation
Indices: 33131841--33131959 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
33131831 TGGATAAGTT
* *
33131841 GTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
33131868 GTAGAATTATCAAAAGACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
33131895 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
33131922 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
33131949 GTAAAATTACC
1 GTAGAATTACC
33131960 ATTTTGCCCC
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:33132653 original size:27 final size:26
Alignment explanation
Indices: 33132609--33132660 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
33132599 CTCGCTGCAA
*
33132609 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
33132636 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
33132661 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:33134621 original size:20 final size:20
Alignment explanation
Indices: 33134580--33134622 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
33134570 AGCACATGTA
*
33134580 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAGAACTT
*
33134600 TTCATCAAATTTT-GCAACTT
1 TTCATAAAATTTTAG-AACTT
33134620 TTC
1 TTC
33134623 CTGTTAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAGAACTT
Found at i:33141738 original size:14 final size:13
Alignment explanation
Indices: 33141723--33141775 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 13
33141713 TCTATTTTTC
33141723 TTTTCTTTAATTT
1 TTTTCTTTAATTT
*
33141736 CTTTACTTTAATTT
1 -TTTTCTTTAATTT
*
33141750 TTTTCTTGTTATTT
1 TTTTCTT-TAATTT
*
33141764 TTATCTTTAATT
1 TTTTCTTTAATT
33141776 ACTTAATGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 10 0.30
14 23 0.70
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTTCTTTAATTT
Found at i:33144795 original size:20 final size:20
Alignment explanation
Indices: 33144739--33144795 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
33144729 AAGCTTATGC
*
33144739 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGTAAG
*
33144759 TAAGTAAATTGAATGGTAAG
1 TAAGTAAATGGAATGGTAAG
33144779 TAAGTAAATGGAATGGT
1 TAAGTAAATGGAATGGT
33144796 TCATAATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (20 bp):
TAAGTAAATGGAATGGTAAG
Found at i:33147275 original size:46 final size:46
Alignment explanation
Indices: 33147121--33147530 Score: 203
Period size: 46 Copynumber: 8.7 Consensus size: 46
33147111 TTCGTGCGCT
* * *
33147121 AGTGTAAGACATGTCTGGAACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGAGCC
* * * * * * *
33147167 AGCGTAAGACCATGTCTGGGACATGGCGTCAG-CATTGAGACGAGAACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGCC
**
33147215 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AGAGCC
* * * *
33147261 AGTGTAAGACATGTCTGGGACATGTATCGGCCAGGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
* * * *
33147305 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CACG-TATAGAGGTGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGAT-GA-GAGCC
* * * *
33147353 AATGTAAGACCATGTCTGGGACATGGCATTGG-CACAGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-GAGA--TGAGAGCC
* * * * * ** * *
33147403 AGTGTAAGACCATGTTTAGGACATAGCGTCGGCCTCAATTTCGATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGAT-GAGAGCC
**
33147452 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACTTGATGGATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGAT-GA-GAGCC
* *
33147499 AGTGTAAGACCATATCTTGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
33147531 TATTATACCC
Statistics
Matches: 284, Mismatches: 59, Indels: 40
0.74 0.15 0.10
Matches are distributed among these distances:
44 13 0.05
45 16 0.06
46 65 0.23
47 61 0.21
48 60 0.21
49 32 0.11
50 32 0.11
51 4 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
Found at i:33147425 original size:50 final size:48
Alignment explanation
Indices: 33147303--33147530 Score: 148
Period size: 48 Copynumber: 4.7 Consensus size: 48
33147293 AGGAGATGTG
*
33147303 TCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTATAGAGGTG
1 TCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTATAGAGGTC
* * * *
33147351 TCAATGTAAGACCATGTCTGGGACATGGCATTGGCACAGATATGTGAGAG-C
1 TCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-G-TAT-AGAG-GTC
* * * *** * *
33147402 T-AGTGTAAGACCATGTTTAGGACATAGCGTCGGC-C-TCAATTTCGATAG
1 TCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGT--ATAGAGGT-C
* * *
33147450 TCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATGGATGAG-C
1 TCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGT-ATAGA-G-GTC
* *
33147498 -CAGTGTAAGACCATATCTTGGACATGGCATCGG
1 TCAGTGTAAGACCATGTCTAGGACATGGCATCGG
33147531 TATTATACCC
Statistics
Matches: 139, Mismatches: 27, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
46 1 0.01
47 31 0.22
48 42 0.30
49 30 0.22
50 30 0.22
51 4 0.03
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
TCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTATAGAGGTC
Found at i:33149855 original size:22 final size:22
Alignment explanation
Indices: 33149830--33149873 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
33149820 ATTATGAAGA
33149830 TTGATATGT-TGAGATTTATATT
1 TTGATATGTATGAGA-TTATATT
*
33149852 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
33149874 CGTTATGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:33155307 original size:43 final size:41
Alignment explanation
Indices: 33155242--33155397 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 41
33155232 TCACATATCG
* * * *
33155242 ATGCCACT-TCCCAGACAGGGTCTTGCACGAAATCGATAAACG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-AAATC-ATAAACA
* *
33155284 ATGCCAATGTCCCAGACATGGTCTTACACATAATTATATAATA
1 ATGCCAATGTCCCAGACATGGTCTTACACA-AATCATA-AACA
* * *
33155327 ATACCAATGTCCCAAACATGGTCTTACACAAAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACAC-AAATCATAA-ACA
* *
33155370 ATGCCAATGTTCGAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
33155398 TGTAATCTCA
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 12 0.13
43 81 0.86
44 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAATCATAAACA
Found at i:33160013 original size:46 final size:46
Alignment explanation
Indices: 33159870--33160013 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
33159860 CCCACCCATA
* * *
33159870 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTATATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
33159919 --CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCT
*
33159963 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
33160009 AGTGA
1 AGTGA
33160014 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 31 0.41
47 28 0.37
48 2 0.03
49 4 0.05
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:33162229 original size:50 final size:49
Alignment explanation
Indices: 33162163--33162300 Score: 170
Period size: 49 Copynumber: 2.8 Consensus size: 49
33162153 TGTGAGGTTG
* ** *
33162163 CATGTGCAGTACTAAGTGCAGGCTACTATGTGTATTAGA-TGGTGAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACT-AT-AGGTCA
* * * *
33162213 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTATAGGTCA
*
33162262 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
33162301 TAGCTTCGGC
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
49 40 0.53
50 35 0.46
51 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTATAGGTCA
Found at i:33162287 original size:49 final size:50
Alignment explanation
Indices: 33162155--33162301 Score: 181
Period size: 50 Copynumber: 3.0 Consensus size: 50
33162145 TGATCTATTG
* * ** *
33162155 TGAGGTTGCATGTGCAGTACTAAGTGCAGGCTACTATGTGTATTAGATGG
1 TGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGA
* * *
33162205 TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-A
1 TGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TGA
* *
33162255 T-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT
33162302 AGCTTCGGCT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 40 0.48
50 41 0.49
51 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
TGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGA
Found at i:33165333 original size:29 final size:28
Alignment explanation
Indices: 33165299--33165360 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
33165289 TCGTATCTTG
33165299 GGTTTTT-TAT-TCTGGATTTCTTTATTC
1 GGTTTTTCTATCT-TGGATTTCTTTATTC
33165326 TGGTTTTTCTATCTTGGATTTCTTTATTC
1 -GGTTTTTCTATCTTGGATTTCTTTATTC
33165355 GGTTTT
1 GGTTTT
33165361 CTTGTTATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 13 0.41
29 18 0.56
30 1 0.03
ACGTcount: A:0.10, C:0.11, G:0.16, T:0.63
Consensus pattern (28 bp):
GGTTTTTCTATCTTGGATTTCTTTATTC
Found at i:33165363 original size:14 final size:15
Alignment explanation
Indices: 33165304--33165363 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 15
33165294 TCTTGGGTTT
33165304 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
33165319 TTTATTCTGG-TTT-
1 TTTATTCTGGATTTC
33165332 TTCTA-TCTTGGATTTC
1 TT-TATTC-TGGATTTC
*
33165348 TTTATTC-GGTTTTC
1 TTTATTCTGGATTTC
33165362 TT
1 TT
33165364 GTTATCTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.10
14 16 0.41
15 15 0.38
16 4 0.10
ACGTcount: A:0.10, C:0.13, G:0.13, T:0.63
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:33167576 original size:51 final size:50
Alignment explanation
Indices: 33167498--33167632 Score: 157
Period size: 49 Copynumber: 2.7 Consensus size: 50
33167488 TGTGAGGTCG
*
33167498 CATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTG-TAATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCC--AAACTGTTAATCA
* *** * ** *
33167549 CGTGTGTAGTACTAAGTGCAGGCTACTACATGTA-CCAGACTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAACTGTTAATCA
33167598 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
33167633 TAGATAGCTT
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
48 5 0.07
49 33 0.48
50 2 0.03
51 29 0.42
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAACTGTTAATCA
Found at i:33167620 original size:49 final size:50
Alignment explanation
Indices: 33167493--33167625 Score: 153
Period size: 51 Copynumber: 2.7 Consensus size: 50
33167483 TCTATTGTGA
* **
33167493 GGTCGCATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACACGTACCC-AAAACTGT
** * * * *
33167544 AATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTA-CC-AGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCAAAACTG-T
33167593 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
33167626 TGCGTACTAG
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 5 0.07
49 30 0.44
50 2 0.03
51 31 0.46
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (50 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCAAAACTGT
Found at i:33173031 original size:19 final size:20
Alignment explanation
Indices: 33173007--33173045 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33172997 AAGGCCATTG
33173007 GGCCCA-TACGACCCAGTTC
1 GGCCCAGTACGACCCAGTTC
* *
33173026 GGCCCAGTATGGCCCAGTTC
1 GGCCCAGTACGACCCAGTTC
33173046 TGTTCTGGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.18, C:0.38, G:0.26, T:0.18
Consensus pattern (20 bp):
GGCCCAGTACGACCCAGTTC
Found at i:33174236 original size:12 final size:12
Alignment explanation
Indices: 33174204--33174237 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
33174194 CACTCCCCTT
33174204 ATCTCTCCACAA
1 ATCTCTCCACAA
*
33174216 AACTCTCCACAA
1 ATCTCTCCACAA
*
33174228 ATCTTTCCAC
1 ATCTCTCCAC
33174238 TTTTCCCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.41, G:0.00, T:0.26
Consensus pattern (12 bp):
ATCTCTCCACAA
Found at i:33178890 original size:43 final size:43
Alignment explanation
Indices: 33178840--33178977 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 43
33178830 TCCCAGGCAG
*
33178840 GGTCTTACACGAAATCGATAAACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCGATAAACGATGCCAATGTCCCAAACAT
* * * * * ** *
33178883 GGCCTTACAAGTAATTG-TATAATGATTTCAATGTCTCAAACAT
1 GGTCTTACACGAAATCGATA-AACGATGCCAATGTCCCAAACAT
* * *
33178926 GGTCTTACACAAAATC-ACAATACAATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCGATAA-ACGATGCCAATGTCCCAAACAT
33178969 GGTCTTACA
1 GGTCTTACA
33178978 TGTAATCTCA
Statistics
Matches: 72, Mismatches: 20, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
42 3 0.04
43 69 0.96
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCGATAAACGATGCCAATGTCCCAAACAT
Found at i:33194466 original size:46 final size:49
Alignment explanation
Indices: 33194359--33194583 Score: 211
Period size: 46 Copynumber: 4.8 Consensus size: 49
33194349 TCATTGGTGT
* *
33194359 GAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGGCAT-TGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTGAGACGA
* * * *
33194407 GTGCTAGTGTAAGA-CATGTCTAGGACAT-GCATTGGCCTCT-AGACGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTGAGACG-A
* *
33194454 -AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTATGAGA--T
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTGAGACGA
* * * *
33194497 GTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC-GATGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTGA-GACGA
* ** *
33194546 TAGCCAGTGTAAGACCATGTCCAGGACATAGCATCGGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
33194584 AACTTACCCC
Statistics
Matches: 143, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 54 0.38
47 19 0.13
48 12 0.08
49 31 0.22
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTGAGACGA
Found at i:33202407 original size:19 final size:19
Alignment explanation
Indices: 33202385--33202422 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33202375 GAGCTTGCTA
33202385 AGCATGTAAATGCTTACCC
1 AGCATGTAAATGCTTACCC
33202404 AGCATGTAAATGCTTACCC
1 AGCATGTAAATGCTTACCC
33202423 CTCTCTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (19 bp):
AGCATGTAAATGCTTACCC
Found at i:33207208 original size:47 final size:45
Alignment explanation
Indices: 33207135--33207358 Score: 132
Period size: 47 Copynumber: 4.8 Consensus size: 45
33207125 GGGGTTATGT
* *
33207135 GAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
1 GAGAG-CAGTGTAAGA-CGTGTCTGGGACAT-GCATCGACATTGAGAC
*
33207183 GAGGGCTAGTGTAAGACGTGTCTGGGACATGCATCAGTGACATT---AC
1 GAGAGC-AGTGTAAGACGTGTCTGGGACATGCATC---GACATTGAGAC
* * * *** * *
33207229 GATAGCATGTGTAAGACCATGTCCGGGACATGGCATCGGTGTAGAGAT
1 GAGAGCA-GTGTAAGA-CGTGTCTGGGACAT-GCATCGACATTGAGAC
* * * ** *
33207277 GAGTGCCAGTGTAAGACGTGTCTGGGACATACATCGACCTCAATGAT
1 GAGAG-CAGTGTAAGACGTGTCTGGGACATGCATCGACATTGA-GAC
*
33207324 G-GTAGCCAGTGTAAGACATGTCTGGGACATGCATC
1 GAG-AG-CAGTGTAAGACGTGTCTGGGACATGCATC
33207359 AGCAATTATA
Statistics
Matches: 138, Mismatches: 25, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
45 3 0.02
46 27 0.20
47 71 0.51
48 29 0.21
49 8 0.06
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (45 bp):
GAGAGCAGTGTAAGACGTGTCTGGGACATGCATCGACATTGAGAC
Found at i:33207344 original size:94 final size:94
Alignment explanation
Indices: 33207138--33207358 Score: 252
Period size: 94 Copynumber: 2.4 Consensus size: 94
33207128 GTTATGTGAG
* * *
33207138 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGAGGGCCAGTGTAAGACGTG
* * * *
33207203 TCTGGGACATGCATCAGTGACATTACGAT
66 TCTGGGACATACATCACTCACATGACGAT
* *** * *
33207232 AG-CATGTGTAAGACCATGTCCGGGACATGGCATCGGTGTAGAGATGAGTGCCAGTGTAAGACGT
1 AGCCA-GTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGAGGGCCAGTGTAAGACGT
* *
33207296 GTCTGGGACATACATCGACCTCA-ATGATGGT
65 GTCTGGGACATACATC-A-CTCACATGACGAT
33207327 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
33207359 AGCAATTATA
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
93 7 0.07
94 80 0.75
95 16 0.15
96 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGAGGGCCAGTGTAAGACGTG
TCTGGGACATACATCACTCACATGACGAT
Found at i:33211848 original size:29 final size:29
Alignment explanation
Indices: 33211808--33211872 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
33211798 ACATCGCAAT
33211808 AATAGTTAGTTTCAAGAATGATTAATTATA
1 AATA-TTAGTTTCAAGAATGATTAATTATA
33211838 AATATTAGTTTCAAGAATGATTAATTATA
1 AATATTAGTTTCAAGAATGATTAATTATA
33211867 AATATT
1 AATATT
33211873 TAAAACTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 31 0.89
30 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (29 bp):
AATATTAGTTTCAAGAATGATTAATTATA
Found at i:33215546 original size:27 final size:28
Alignment explanation
Indices: 33215503--33215562 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
33215493 TTCTAGAATA
*
33215503 CCCTATGTATGCAAAATTACCATTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
*
33215531 CCCTATGTATGC-AAATGACCTTTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
33215558 CCCTA
1 CCCTA
33215563 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCATTATAC
Found at i:33215709 original size:28 final size:27
Alignment explanation
Indices: 33215668--33215755 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 27
33215658 AGGAAGCGTC
33215668 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
*
33215696 CTGGTGGCCCTGCCAC--ATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
33215721 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
33215750 CTGGTG
1 CTGGTG
33215756 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
25 23 0.43
26 1 0.02
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:33215766 original size:29 final size:28
Alignment explanation
Indices: 33215678--33215766 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 28
33215668 CTGGTGGCTA
* * *
33215678 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
33215706 TGCCAC---ATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
33215731 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
33215760 TGTCACA
1 TGCCACA
33215767 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
25 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:33216847 original size:11 final size:10
Alignment explanation
Indices: 33216819--33216852 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
33216809 AGCCTGTAAG
33216819 TATTCTGAAT
1 TATTCTGAAT
*
33216829 TTTTCTGAAT
1 TATTCTGAAT
33216839 ATATTCTGAAT
1 -TATTCTGAAT
33216850 TAT
1 TAT
33216853 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:33223358 original size:28 final size:28
Alignment explanation
Indices: 33223326--33223387 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
33223316 ATTTGCTAGA
* *
33223326 ATACCCTTATGTCTG-TAAAATTACCATT
1 ATACCCTTATGTATGCT-AAATGACCATT
*
33223354 ATACCCTTATGTATGCTAAATGACCTTT
1 ATACCCTTATGTATGCTAAATGACCATT
33223382 ATACCC
1 ATACCC
33223388 CGAGGGTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (28 bp):
ATACCCTTATGTATGCTAAATGACCATT
Found at i:33223561 original size:27 final size:29
Alignment explanation
Indices: 33223523--33223581 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 29
33223513 TTTATGTTTC
* *
33223523 GTGGCCCTGCCAC-ATATATCTGT-TCTG
1 GTGGCACTGCCACAAAATATCTGTATCTG
33223550 GTGGCACTGCCACAAAATATCTGTATCTG
1 GTGGCACTGCCACAAAATATCTGTATCTG
33223579 GTG
1 GTG
33223582 ACTCTGTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 12 0.43
28 9 0.32
29 7 0.25
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (29 bp):
GTGGCACTGCCACAAAATATCTGTATCTG
Found at i:33223592 original size:29 final size:28
Alignment explanation
Indices: 33223529--33223592 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
33223519 TTTCGTGGCC
* *
33223529 CTGCCAC-ATATATCTGTTCTGGTGGCA
1 CTGCCACAAAATATCTGTTCTGGTGACA
*
33223556 CTGCCACAAAATATCTGTATCTGGTGACT
1 CTGCCACAAAATATCTGT-TCTGGTGACA
*
33223585 CTGTCACA
1 CTGCCACA
33223593 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 7 0.23
28 9 0.29
29 15 0.48
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (28 bp):
CTGCCACAAAATATCTGTTCTGGTGACA
Found at i:33233355 original size:46 final size:44
Alignment explanation
Indices: 33233245--33233415 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 44
33233235 ATTGGTGTGA
* *
33233245 GCCAGTGTAAGACCATGTCTAGGACATGGTATCGGCATTGA-GATGA-GT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACGA-GACGT
* *
33233293 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCT-CGAGACGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGT
* * *
33233337 AAGCCAGTGTAAGACATGTTTAGGACATGCATCGGCTACGAGATGT
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGT
* *
33233383 GTCAGTGTATGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
33233416 AGCACGGGTA
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
43 2 0.02
44 14 0.14
45 15 0.15
46 46 0.45
47 14 0.14
48 11 0.11
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGT
Found at i:33237703 original size:19 final size:19
Alignment explanation
Indices: 33237674--33237712 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33237664 ATGTTTTGTA
33237674 TTGAGATTTTGGA-TAAAT
1 TTGAGATTTTGGACTAAAT
33237692 TTGAGTATTTTGGACTAAAT
1 TTGAG-ATTTTGGACTAAAT
33237712 T
1 T
33237713 GTGAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (19 bp):
TTGAGATTTTGGACTAAAT
Found at i:33238353 original size:42 final size:43
Alignment explanation
Indices: 33238290--33238395 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 43
33238280 GAGATTTACA
33238290 TGTAAGACCATGTCTGGGACAGCAGCATCGA-ATTTGATTTTG
1 TGTAAGACCATGTCTGGGACAGCAGCATCGATATTTGATTTTG
* * ** ***
33238332 TGTACGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGCAGCATCGATATTTGATTTTG
*
33238375 TGTAAGACCACGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
33238396 TTGGCATTGT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 27 0.51
43 26 0.49
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGCAGCATCGATATTTGATTTTG
Found at i:33238369 original size:43 final size:42
Alignment explanation
Indices: 33238257--33238402 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 42
33238247 GTAATACCAC
*
33238257 GTCTGGGAC-GTTGGCATCG-ATTTGAGATTTACATGTAAGACCAT
1 GTCTGGGACAG-TGGCATCGAATTT--GA-TTACATGTAAGACCCT
** *** *
33238301 GTCTGGGACAGCAGCATCGAATTTGATTTTGTGTACGACCCT
1 GTCTGGGACAGTGGCATCGAATTTGATTACATGTAAGACCCT
33238343 GTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCAC-
1 GTCTGGGACAGTGGCATCGA-ATTTGATTACATGTAAGACC-CT
*
33238386 GTCTGGGACATTGGCAT
1 GTCTGGGACAGTGGCAT
33238403 TGTACGAGAT
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.35
43 34 0.40
44 16 0.19
45 5 0.06
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
GTCTGGGACAGTGGCATCGAATTTGATTACATGTAAGACCCT
Found at i:33240361 original size:35 final size:35
Alignment explanation
Indices: 33240291--33240361 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
33240281 TTCGCTTTTC
33240291 TTGATCTATATATAATCAATTTAACTTATTAAATT
1 TTGATCTATATATAATCAATTTAACTTATTAAATT
*
33240326 TTGATCTATATATAATCAATTTAACTTATTCAATT
1 TTGATCTATATATAATCAATTTAACTTATTAAATT
33240361 T
1 T
33240362 AACCCAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (35 bp):
TTGATCTATATATAATCAATTTAACTTATTAAATT
Found at i:33251530 original size:14 final size:14
Alignment explanation
Indices: 33251511--33251537 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33251501 TTTTAAAAAT
33251511 GAATTGACTTTAAC
1 GAATTGACTTTAAC
33251525 GAATTGACTTTAA
1 GAATTGACTTTAA
33251538 ACATAAGGTT
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:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (14 bp):
GAATTGACTTTAAC
Found at i:33254513 original size:159 final size:161
Alignment explanation
Indices: 33254266--33254585 Score: 617
Period size: 159 Copynumber: 2.0 Consensus size: 161
33254256 TAGCATTTTT
*
33254266 AGAGAGAGGGAGAGAGAAATAGCTATAACACGGATGGCAAAATTGAATAAACAAGCATTTTTTAA
1 AGAGAGAGAGAGAGAGAAATAGCTATAACACGGATGGCAAAATTGAATAAACAAGCATTTTTTAA
33254331 AAAAAAATTAATCAGAGCCGTAGAGATCTGCTGAAAGCTTTCCAAGACATGGGATTTTGGGGGTC
66 AAAAAAATTAATCAGAGCCGTAGAGATCTGCTGAAAGCTTTCCAAGACATGGGATTTTGGGGGTC
33254396 AGCCACAGGCTTCTTCCCAGCATTACCTTTC
131 AGCCACAGGCTTCTTCCCAGCATTACCTTTC
33254427 AGAGAGAGAGAGAGAGAAATAGCTATAACACGGAT-GCAAAATTGAATAAACAAGCA-TTTTTAA
1 AGAGAGAGAGAGAGAGAAATAGCTATAACACGGATGGCAAAATTGAATAAACAAGCATTTTTTAA
33254490 AAAAAAATTAATCAGAGCCGTAGAGATCTGCTGAAAGCTTTCCAAGACATGGGATTTTGGGGGTC
66 AAAAAAATTAATCAGAGCCGTAGAGATCTGCTGAAAGCTTTCCAAGACATGGGATTTTGGGGGTC
33254555 AGCCACAGGCTTCTTCCCAGCATTACCTTTC
131 AGCCACAGGCTTCTTCCCAGCATTACCTTTC
33254586 CTACCAAGGA
Statistics
Matches: 158, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
159 103 0.65
160 21 0.13
161 34 0.22
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (161 bp):
AGAGAGAGAGAGAGAGAAATAGCTATAACACGGATGGCAAAATTGAATAAACAAGCATTTTTTAA
AAAAAAATTAATCAGAGCCGTAGAGATCTGCTGAAAGCTTTCCAAGACATGGGATTTTGGGGGTC
AGCCACAGGCTTCTTCCCAGCATTACCTTTC
Found at i:33257024 original size:26 final size:26
Alignment explanation
Indices: 33256994--33257045 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
33256984 ACTCGTTTAT
33256994 CTAATAAAATTAAACGATTATTTTGA
1 CTAATAAAATTAAACGATTATTTTGA
33257020 CTAATAAAATTAAACGATTATTTTGA
1 CTAATAAAATTAAACGATTATTTTGA
33257046 TATAGTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (26 bp):
CTAATAAAATTAAACGATTATTTTGA
Found at i:33257743 original size:18 final size:20
Alignment explanation
Indices: 33257714--33257764 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 20
33257704 TTTTTTATAA
*
33257714 AAAAATCATAAAAATTTGA-
1 AAAAATGATAAAAATTTGAT
*
33257733 AAAAATG-T-AAAATTTTAT
1 AAAAATGATAAAAATTTGAT
33257751 AAAAATGATAAAAA
1 AAAAATGATAAAAA
33257765 ATTAACTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 7 0.26
20 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAAATGATAAAAATTTGAT
Found at i:33258032 original size:28 final size:28
Alignment explanation
Indices: 33257962--33258032 Score: 65
Period size: 28 Copynumber: 2.5 Consensus size: 28
33257952 TTCTTATGAC
* *
33257962 TTTATAAAAAAATTATATTTTTTTTATAT
1 TTTAT-AAAAATTTATATTTTTTTTAGAT
* *
33257991 TTCTAT-ATATTTTATA-TTTTTTTACGAT
1 TT-TATAAAAATTTATATTTTTTTTA-GAT
33258019 TTTATAAAAATTTA
1 TTTATAAAAATTTA
33258033 CAATTTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
27 11 0.33
28 17 0.52
29 2 0.06
30 3 0.09
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (28 bp):
TTTATAAAAATTTATATTTTTTTTAGAT
Found at i:33258078 original size:18 final size:19
Alignment explanation
Indices: 33258000--33258063 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
33257990 TTTCTATATA
* * *
33258000 TTTTATATTTTTTTACGA-
1 TTTTATATATATTTACAAT
* *
33258018 TTTTATAAAAATTTACAAT
1 TTTTATATATATTTACAAT
33258037 TTTTATATATATTTACAAT
1 TTTTATATATATTTACAAT
33258056 TTTTATAT
1 TTTTATAT
33258064 TTTTTCTAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
18 13 0.34
19 25 0.66
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTATATATATTTACAAT
Found at i:33258210 original size:83 final size:85
Alignment explanation
Indices: 33258087--33258256 Score: 213
Period size: 83 Copynumber: 2.0 Consensus size: 85
33258077 TAATAAAAGC
* *
33258087 AAGGACTTAATTGTTTTATTTGAAAATGTTTGAGAGTCTTTTTGATGCAGTTTGAAAA-TTCAAG
1 AAGGACTTAATTGTTTTATTTGAAAAGGTTTGAGAGTCTTTTTGATGCA-TTTGAAAAGTTCAAA
* * *
33258151 TATCCAATTGAGTGGAAAAAA
65 TACCCAAATGAGTGAAAAAAA
* * * *
33258172 AAGGGCTTAATTGTTTT-TTT-AAAAGGTTTGA-AGGTCTTTTTGATGTATTTTAAAAGTTTAAA
1 AAGGACTTAATTGTTTTATTTGAAAAGGTTTGAGA-GTCTTTTTGATGCATTTGAAAAGTTCAAA
33258234 TACCCAAATGAGTGAAAAAAA
65 TACCCAAATGAGTGAAAAAAA
33258255 AA
1 AA
33258257 CAAGGAATTA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
82 8 0.11
83 47 0.64
84 3 0.04
85 16 0.22
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (85 bp):
AAGGACTTAATTGTTTTATTTGAAAAGGTTTGAGAGTCTTTTTGATGCATTTGAAAAGTTCAAAT
ACCCAAATGAGTGAAAAAAA
Found at i:33262005 original size:23 final size:23
Alignment explanation
Indices: 33261979--33262022 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
33261969 TCTAGAATTT
33261979 TCTCTTCAGAGAATTTTCTCTAA
1 TCTCTTCAGAGAATTTTCTCTAA
33262002 TCTCTTCAGAGAATTTTCTCT
1 TCTCTTCAGAGAATTTTCTCT
33262023 CTACAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (23 bp):
TCTCTTCAGAGAATTTTCTCTAA
Found at i:33262156 original size:24 final size:23
Alignment explanation
Indices: 33262127--33262176 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
33262117 TAATCACTTT
33262127 AATATTAAATTAATATAATATTTA
1 AATATTAAATTAATATAATA-TTA
* *
33262151 AATATTAGATTAATTTAATATTA
1 AATATTAAATTAATATAATATTA
33262174 AAT
1 AAT
33262177 CTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AATATTAAATTAATATAATATTA
Found at i:33262262 original size:20 final size:18
Alignment explanation
Indices: 33262215--33262263 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
33262205 CAAGATAAAC
33262215 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
33262232 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
33262252 ATTAAATTAATA
1 ATTAAATTAATA
33262264 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:33263899 original size:16 final size:16
Alignment explanation
Indices: 33263878--33263908 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33263868 CTATGCATGC
*
33263878 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
33263894 AAAATACAAAAGACA
1 AAAATACAAAAGACA
33263909 TAATAATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:33266601 original size:29 final size:29
Alignment explanation
Indices: 33266559--33266629 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
33266549 CATTAAGCCC
*
33266559 AATCATATTCATATGACCCATTAGGCCTA
1 AATCACATTCATATGACCCATTAGGCCTA
* * *
33266588 AATCACATTTATATGGCCCATTAGGCC-C
1 AATCACATTCATATGACCCATTAGGCCTA
*
33266616 AGTCACATTCATAT
1 AATCACATTCATAT
33266630 TCATGCTCAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.31
Consensus pattern (29 bp):
AATCACATTCATATGACCCATTAGGCCTA
Found at i:33266864 original size:16 final size:16
Alignment explanation
Indices: 33266845--33266881 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
33266835 AAACTTTCAG
33266845 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
33266861 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTCGA
33266877 CTTTT
1 CTTTT
33266882 GCCGATACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.08, C:0.24, G:0.19, T:0.49
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:33270458 original size:38 final size:38
Alignment explanation
Indices: 33270416--33270493 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 38
33270406 CTCAGTTTCC
* *
33270416 TTAACTAGGTTAACTCCGTAAATCTGGTTTTCTTTAAG
1 TTAACTAGGTCAACTCCGTAAATCTAGTTTTCTTTAAG
* * *
33270454 TTAACTAGGTCAACTCTGTGAATCTAGTTTTCTTTCAG
1 TTAACTAGGTCAACTCCGTAAATCTAGTTTTCTTTAAG
33270492 TT
1 TT
33270494 CTATCCAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (38 bp):
TTAACTAGGTCAACTCCGTAAATCTAGTTTTCTTTAAG
Found at i:33272893 original size:36 final size:36
Alignment explanation
Indices: 33272846--33272917 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
33272836 AAGCAAGGTA
33272846 GGATTCATATCCTTTTCTCATATACCTTTGAGCCAT
1 GGATTCATATCCTTTTCTCATATACCTTTGAGCCAT
*
33272882 GGATTTATATCCTTTTCTCATATACCTTTGAGCCAT
1 GGATTCATATCCTTTTCTCATATACCTTTGAGCCAT
33272918 CATTGAGGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (36 bp):
GGATTCATATCCTTTTCTCATATACCTTTGAGCCAT
Found at i:33275031 original size:20 final size:20
Alignment explanation
Indices: 33275006--33275053 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
33274996 CAAAGCACAT
33275006 GCCCGTGTGTTTGGGGACAC
1 GCCCGTGTGTTTGGGGACAC
33275026 GCCCGTGTGTTTGGGGACAC
1 GCCCGTGTGTTTGGGGACAC
33275046 GCCCGTGT
1 GCCCGTGT
33275054 TGAATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.08, C:0.27, G:0.40, T:0.25
Consensus pattern (20 bp):
GCCCGTGTGTTTGGGGACAC
Found at i:33275732 original size:13 final size:13
Alignment explanation
Indices: 33275716--33275740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33275706 ACCTAACCCA
33275716 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
33275729 AAAAAAGAAAAA
1 AAAAAAGAAAAA
33275741 CCTAACCCCC
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:33285454 original size:54 final size:54
Alignment explanation
Indices: 33285378--33285480 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
33285368 TCACACAAGA
* ** *
33285378 TGAGGCATGGGCGTGTGACCCAAGTAAGTGAGTTACATGGTCTGGCACACGGGT
1 TGAGACATGGGCGCATGACCCAAGTAAGTGAGTTACACGGTCTGGCACACGGGT
* *
33285432 TGAGACATGGGCGCATGGCCCAAGTCAGTGAGTTACACGGTCTGGCACA
1 TGAGACATGGGCGCATGACCCAAGTAAGTGAGTTACACGGTCTGGCACA
33285481 TGGTTGGGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.20
Consensus pattern (54 bp):
TGAGACATGGGCGCATGACCCAAGTAAGTGAGTTACACGGTCTGGCACACGGGT
Found at i:33285498 original size:54 final size:54
Alignment explanation
Indices: 33285396--33285498 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
33285386 GGGCGTGTGA
* *
33285396 CCCAAGTAAGTGAGTTACATGGTCTGGCACACGGGTTGAGACATGGGCGCATGG
1 CCCAAGTAAGTGAGTTACACGGTCTGGCACACGGGTTGAGACAAGGGCGCATGG
* * *
33285450 CCCAAGTCAGTGAGTTACACGGTCTGGCACA-TGGTTGGGTACAAGGGCG
1 CCCAAGTAAGTGAGTTACACGGTCTGGCACACGGGTTGAG-ACAAGGGCG
33285499 TGTAAAATGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 6 0.14
54 37 0.86
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.20
Consensus pattern (54 bp):
CCCAAGTAAGTGAGTTACACGGTCTGGCACACGGGTTGAGACAAGGGCGCATGG
Found at i:33287984 original size:28 final size:29
Alignment explanation
Indices: 33287932--33287986 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
33287922 ACAGGGGTTT
*
33287932 TCACATGGCCGAGCACACGCCCGTGTCCC
1 TCACACGGCCGAGCACACGCCCGTGTCCC
* *
33287961 TCACACGGCCTAG-ACACGCTCGTGTC
1 TCACACGGCCGAGCACACGCCCGTGTC
33287987 ATCGCCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.18, C:0.42, G:0.24, T:0.16
Consensus pattern (29 bp):
TCACACGGCCGAGCACACGCCCGTGTCCC
Found at i:33304570 original size:58 final size:58
Alignment explanation
Indices: 33304508--33304646 Score: 165
Period size: 58 Copynumber: 2.4 Consensus size: 58
33304498 TTAATTCATA
* * * *
33304508 TAATAATAATTATATTAAGAATTTTATTAATTTATATATTAT-TTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATTTGATTAAATTATATATTATATTTATCAAAATATATT
* * * * *
33304566 TAATAATAATTATGTTAAAATATGGTTAAATTATTTATTATATTTATCAAAATATTTT
1 TAATAATAATTATATTAAAATTTGATTAAATTATATATTATATTTATCAAAATATATT
33304624 TAATAATAATCT-TATTAAAATTT
1 TAATAATAAT-TATATTAAAATTT
33304647 AATAAGAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 18 0.26
58 49 0.72
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (58 bp):
TAATAATAATTATATTAAAATTTGATTAAATTATATATTATATTTATCAAAATATATT
Found at i:33307571 original size:46 final size:46
Alignment explanation
Indices: 33307475--33307741 Score: 206
Period size: 46 Copynumber: 5.7 Consensus size: 46
33307465 ATTTGTGAGC
* * * * * *
33307475 CAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTGAGACG-AGAG
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGATGTAG-G
*
33307522 CTAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGATGTAGG
1 C-AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGTAGG
* * *
33307568 CTAGTGTAAGATATGTTTGGGACAT-GCATCGG-CTACGAGATGT-GT
1 C-AGTGTAAGACATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGG
* ** *
33307613 CAGTGTAAGACTATGTCTGGGACATGGCGTCGGCCTCGATTTTGATAGT
1 CAGTGTAAGAC-ATGTCTGGGACATGGCATCGGCCTCGA-GATG-TAGG
* * *
33307662 CAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATAGATG-AGC
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCG--AGATGTAGG
**
33307709 CAGTGTAAGACCATGTCTGGGATGTGGCATCGG
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGG
33307742 TATTATACCC
Statistics
Matches: 183, Mismatches: 24, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 60 0.33
47 49 0.27
48 15 0.08
49 32 0.17
50 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGTAGG
Found at i:33310358 original size:53 final size:53
Alignment explanation
Indices: 33310299--33310424 Score: 182
Period size: 53 Copynumber: 2.4 Consensus size: 53
33310289 TCGTAACTAT
*
33310299 TAGGTTATGACATCATATAGAAAGAAGACCATATCGTGTAAG-GTCGTAAATAG
1 TAGGTTATGACATCATATAGAAAGAAGACCATATCGTGTAAGACT-GTAAATAG
* * * * *
33310352 TGGGTTATGACATCATATGGAAAGAATACCATATCGTGTAAGACTGTAACTGG
1 TAGGTTATGACATCATATAGAAAGAAGACCATATCGTGTAAGACTGTAAATAG
33310405 TAGGTTATGACATCATATAG
1 TAGGTTATGACATCATATAG
33310425 GAAAATTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 63 0.98
54 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.29
Consensus pattern (53 bp):
TAGGTTATGACATCATATAGAAAGAAGACCATATCGTGTAAGACTGTAAATAG
Found at i:33310581 original size:29 final size:29
Alignment explanation
Indices: 33310540--33310643 Score: 79
Period size: 29 Copynumber: 3.6 Consensus size: 29
33310530 AACACCAGTA
* * *
33310540 AAAGGTTATCCTTTATGGCAAAACTTTGG
1 AAAGGTAAGCCTTTGTGGCAAAACTTTGG
* * *
33310569 AAAGGTAAGCCTTCGTGGC-GAAC-TTGTA
1 AAAGGTAAGCCTTTGTGGCAAAACTTTG-G
* *
33310597 AAAGG-ACAACCTTTGTGGCAAAACTCTGG
1 AAAGGTA-AGCCTTTGTGGCAAAACTTTGG
**
33310626 AAAGGTAAGTTTTTGTGG
1 AAAGGTAAGCCTTTGTGG
33310644 TGAACCTATT
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
27 4 0.07
28 18 0.32
29 31 0.55
30 3 0.05
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AAAGGTAAGCCTTTGTGGCAAAACTTTGG
Found at i:33310658 original size:57 final size:57
Alignment explanation
Indices: 33310549--33310659 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
33310539 AAAAGGTTAT
* * *
33310549 CCTTTATGGCAAAACTTTGGAAAGGTAAGCCTTCGTGGCGAACTTGTAAAAGGACAA
1 CCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTCGTGGCGAACCTATAAAAGGACAA
* ** * * *
33310606 CCTTTGTGGCAAAACTCTGGAAAGGTAAGTTTTTGTGGTGAACCTATTAAAGGA
1 CCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTCGTGGCGAACCTATAAAAGGA
33310660 TGCCTTTGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (57 bp):
CCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTCGTGGCGAACCTATAAAAGGACAA
Found at i:33310670 original size:27 final size:29
Alignment explanation
Indices: 33310637--33310700 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
33310627 AAGGTAAGTT
* *
33310637 TTTGTGGTGA-ACCT-ATTAAAGGATGCC
1 TTTGTGGTGAGACCTAATAAAAAGATGCC
*
33310664 TTTGTGGTGAGTACTTAATAAAAAGATGCC
1 TTTGTGGTGAG-ACCTAATAAAAAGATGCC
33310694 TTTGTGG
1 TTTGTGG
33310701 CAATCTTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.32
29 3 0.10
30 18 0.58
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (29 bp):
TTTGTGGTGAGACCTAATAAAAAGATGCC
Found at i:33316312 original size:27 final size:27
Alignment explanation
Indices: 33316281--33316477 Score: 218
Period size: 27 Copynumber: 7.3 Consensus size: 27
33316271 CGTACCTGAA
* * *
33316281 CCCTTACGAGATAAAATGACTGTTTTG
1 CCCTTATGAGGTAAAATGACAGTTTTG
* * * *
33316308 CCCTTATGTGATAAAATAAC-GATTTTT
1 CCCTTATGAGGTAAAATGACAG-TTTTG
33316335 CCCTTATGAGGTAAAATGA-AGGTTTTG
1 CCCTTATGAGGTAAAATGACA-GTTTTG
* * * **
33316362 CCCTTGTGTGGCAAAATGATTGTTTTG
1 CCCTTATGAGGTAAAATGACAGTTTTG
* * *
33316389 CCCTTATGTGATAAAATGACAATTTTG
1 CCCTTATGAGGTAAAATGACAGTTTTG
*
33316416 CCCTTATGAGGTAAAATGACAGTTTTT
1 CCCTTATGAGGTAAAATGACAGTTTTG
33316443 CCCTTATGAGGTAAAATGACAGTTTTG
1 CCCTTATGAGGTAAAATGACAGTTTTG
33316470 CCCTTATG
1 CCCTTATG
33316478 TGATGTATGT
Statistics
Matches: 143, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (27 bp):
CCCTTATGAGGTAAAATGACAGTTTTG
Found at i:33316420 original size:81 final size:81
Alignment explanation
Indices: 33316293--33316481 Score: 281
Period size: 81 Copynumber: 2.3 Consensus size: 81
33316283 CTTACGAGAT
* *
33316293 AAAATGACTGTTTTGCCCTTATGTGATAAAATAACGATTTTTCCCTTATGAGGTAAAATGA-AGG
1 AAAATGACTGTTTTGCCCTTATGTGATAAAATAACAATTTTGCCCTTATGAGGTAAAATGACA-G
* *
33316357 TTTTGCCCTTGTGTGGC
65 TTTTGCCCTTATGAGGC
* *
33316374 AAAATGATTGTTTTGCCCTTATGTGATAAAATGACAATTTTGCCCTTATGAGGTAAAATGACAGT
1 AAAATGACTGTTTTGCCCTTATGTGATAAAATAACAATTTTGCCCTTATGAGGTAAAATGACAGT
* *
33316439 TTTTCCCTTATGAGGT
66 TTTGCCCTTATGAGGC
*
33316455 AAAATGACAGTTTTGCCCTTATGTGAT
1 AAAATGACTGTTTTGCCCTTATGTGAT
33316482 GTATGTGTAT
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 96 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (81 bp):
AAAATGACTGTTTTGCCCTTATGTGATAAAATAACAATTTTGCCCTTATGAGGTAAAATGACAGT
TTTGCCCTTATGAGGC
Found at i:33318320 original size:39 final size:40
Alignment explanation
Indices: 33318215--33318397 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
33318205 TTGAATGCTG
* * * *
33318215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
33318254 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
33318295 TCCGGGTTAAGT-CCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
33318334 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
33318374 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33318398 GAATGAGTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.30
40 75 0.61
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:33318410 original size:79 final size:79
Alignment explanation
Indices: 33318268--33318434 Score: 187
Period size: 79 Copynumber: 2.1 Consensus size: 79
33318258 GGACTAAGAT
* * * * **
33318268 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCGAAGGCCTTTGTGCGAGATACTAA
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCCATTGAACGAGATACT-A
* *
33318333 T-TCCGGGTTAAGTC
65 TGACCGGGCTAAGTC
* *
33318347 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTCCCGAAGG-CATTGAATGAGTTACT
1 CCGAAGGCATTCGTGCGAGTTATT-AAATCCGGGTTAAGT-CCGAAGGCCATTGAACGAGATACT
*
33318410 ATGACCGGGCTATGTC
64 ATGACCGGGCTAAGTC
33318426 CCGAAGGCA
1 CCGAAGGCA
33318435 CTTGAACGAG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 4 0.05
79 63 0.85
80 7 0.09
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCCATTGAACGAGATACTAT
GACCGGGCTAAGTC
Found at i:33318418 original size:39 final size:39
Alignment explanation
Indices: 33318295--33318444 Score: 117
Period size: 40 Copynumber: 3.8 Consensus size: 39
33318285 AGTTATTAAT
* ** * *
33318295 TCCGGGTTAAGT-CCGAAGGCCTTTGTGCGAGATACT-AAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
33318334 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
33318374 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
33318414 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
33318445 GAGCTATATC
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
39 42 0.45
40 51 0.55
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:33322205 original size:27 final size:27
Alignment explanation
Indices: 33322163--33322273 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
33322153 AGGAAGTGTC
* *
33322163 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
33322190 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
33322217 CTGGTGGCTCTGCCATAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * *
33322244 CTGGTGACTCTGTCACA-TTATATGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
33322270 CTGG
1 CTGG
33322274 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 12 0.17
27 60 0.83
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:33324703 original size:36 final size:36
Alignment explanation
Indices: 33324656--33324728 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
33324646 ATATAAGTCT
33324656 CGGGACGACACTCTCTATAGTGTTGCATCATTCTTG
1 CGGGACGACACTCTCTATAGTGTTGCATCATTCTTG
*
33324692 CGGGACGACACTTTCTATAGTGTTGCATCATTCTTG
1 CGGGACGACACTCTCTATAGTGTTGCATCATTCTTG
33324728 C
1 C
33324729 ACTACGGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (36 bp):
CGGGACGACACTCTCTATAGTGTTGCATCATTCTTG
Found at i:33324947 original size:43 final size:43
Alignment explanation
Indices: 33324890--33325138 Score: 250
Period size: 43 Copynumber: 5.8 Consensus size: 43
33324880 ATGCCGTTAT
* ** *
33324890 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAAGGCCATTAT
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * * *
33324933 AGAATATGACCTTTAGCAGCGCTTTACCCACAAACGTCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * ** **
33324976 AG-ACATGACCTTAAGTGGCGCTTTAGCCACAATTGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
** * * * *
33325018 AGAACATGACCTTTAGTAGCGC-TTCCCCATAAATGCCACTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* *
33325060 AAAACATGACCTTTAGCGGCGCTTTTCCCATAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * * *
33325103 AAAACATGACTTTTAGTGGCGCTTTTCCCAAAAACG
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACG
33325139 ATTCAAAAGG
Statistics
Matches: 172, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 68 0.40
43 104 0.60
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
Found at i:33325039 original size:85 final size:86
Alignment explanation
Indices: 33324892--33325138 Score: 246
Period size: 85 Copynumber: 2.9 Consensus size: 86
33324882 GCCGTTATAG
* * * ** * * *
33324892 AACATGACCTTTAGCGGCGCTTTTCCCACAAAGGCCATTATAGAATATGACCTTTAGCAGCGCTT
1 AACATGACCTTAAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGACCTTTAGTAGCGCTT
* * *
33324957 TACCCACAAACGTCGCT-AAA
66 TACCCAAAAACGCCACTAAAA
* * * **
33324977 GACATGACCTTAAGTGGCGCTTTAGCCACAATTGCCGCTAAAGAACATGACCTTTAGTAGCGC-T
1 AACATGACCTTAAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGACCTTTAGTAGCGCTT
* * *
33325041 TCCCCATAAATGCCACTAAAA
66 TACCCAAAAACGCCACTAAAA
* * * * * *
33325062 AACATGACCTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAAAACATGACTTTTAGTGGCGCTT
1 AACATGACCTTAAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGACCTTTAGTAGCGCTT
*
33325127 TTCCCAAAAACG
66 TACCCAAAAACG
33325139 ATTCAAAAGG
Statistics
Matches: 129, Mismatches: 31, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
84 13 0.10
85 106 0.82
86 10 0.08
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (86 bp):
AACATGACCTTAAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGACCTTTAGTAGCGCTT
TACCCAAAAACGCCACTAAAA
Found at i:33325856 original size:23 final size:23
Alignment explanation
Indices: 33325809--33327184 Score: 850
Period size: 23 Copynumber: 60.4 Consensus size: 23
33325799 AACCAGCAAC
** *
33325809 TAAACA-TTCAATTTGTAGCACT
1 TAAACACTTCAATTTACAGCATT
* *
33325831 TAAACACTTTAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
*
33325854 TAAACACTTCAATTTATAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
33325878 T-AACACTTTAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* *
33325900 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* * **
33325924 T-AACA-TCTCAACTAACAATATT
1 TAAACACT-TCAATTTACAGCATT
* * * *
33325946 TATACCCCTCAA-TTACAGTGA-T
1 TAAACACTTCAATTTACAG-CATT
* * * **
33325968 AAAACA-TCTCAATTTCCAACAAC
1 TAAACACT-TCAATTTACAGCATT
* * *
33325991 TAAATACTTCAATTTGCAGCAGT
1 TAAACACTTCAATTTACAGCATT
*
33326014 TAAACTA-TTCAATTTACAACATT
1 TAAAC-ACTTCAATTTACAGCATT
* *
33326037 TAAACACTTAAATCT--A-C--T
1 TAAACACTTCAATTTACAGCATT
*
33326055 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
33326079 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
**
33326101 TAAACACTTCAATTTGTAGCAGTT
1 TAAACACTTCAATTTACAGCA-TT
* * *
33326125 T-AACA-TCTCAATTAAAAACATT
1 TAAACACT-TCAATTTACAGCATT
* * *
33326147 TATACACCTCAA-TTACAGTGA-T
1 TAAACACTTCAATTTACAG-CATT
* * * **
33326169 AAAACA-TCTCAATTTCCAACAAC
1 TAAACACT-TCAATTTACAGCATT
* * *
33326192 TAAATACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTACAGCATT
* * *
33326215 TAAACAATTCAATTTCCAACATT
1 TAAACACTTCAATTTACAGCATT
*
33326238 TAAACACTTCAATTTAGAGCATT
1 TAAACACTTCAATTTACAGCATT
*
33326261 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
33326285 T-AACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* * *
33326307 TGAACACTTCAATTTGCATCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
33326331 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* ** *
33326353 TATACACCCCAA-TTATAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
33326375 AAAACA-TCTCAATTTTCAACAAC
1 TAAACACT-TCAATTTACAGCATT
* * *
33326398 TAAATACTTCAATTTCCAGCACT
1 TAAACACTTCAATTTACAGCATT
* *
33326421 TAAACAATTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
*
33326444 TAAACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
33326467 TACACACTTCAATTTATAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
33326491 T-AACACTTCAATTTATAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
33326514 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
33326536 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * **
33326558 AAAACA-TCTCAATTTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* *
33326581 TAAACACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTACAGCATT
*
33326604 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
**
33326627 TAAACACTTCAATTTACTTCATT
1 TAAACACTTCAATTTACAGCATT
** *
33326650 TAAACACTTCAATTTGTAGTACTT
1 TAAACACTTCAATTTACAGCA-TT
*
33326674 T-AACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
33326696 TAAACACTTCAATTTGCATCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
33326720 TAAA-A-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* * * *
33326742 TATACACCTCAA-TTATAGCAAT
1 TAAACACTTCAATTTACAGCATT
* **
33326764 AAAACA-TCTCAATTT-CTAGCAAC
1 TAAACACT-TCAATTTAC-AGCATT
* *
33326787 TAAACACTTCAATTTACAACACT
1 TAAACACTTCAATTTACAGCATT
* *
33326810 TAAACAATTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* *
33326833 TAAACACTTTAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
33326856 TATACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* **
33326880 T-AACA-TCTCAATTAACAATATT
1 TAAACACT-TCAATTTACAGCATT
* *
33326902 TATACACCTCAA-TTACAGCGA--
1 TAAACACTTCAATTTACAGC-ATT
* **
33326923 TAAAGCA-TCTCAATTTCCAGCAAC
1 TAAA-CACT-TCAATTTACAGCATT
* *
33326947 TAAACACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTACAGCATT
*
33326970 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
33326993 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
*
33327016 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
33327040 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* * * *
33327062 TATACACCT-AAATTACAGTGA-T
1 TAAACACTTCAATTTACAG-CATT
* * **
33327084 AAAACA-TCTCAATTTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* *
33327107 TAAACACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTACAGCATT
**
33327130 TAAACACTTCAATTTACAATATT
1 TAAACACTTCAATTTACAGCATT
*
33327153 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
*
33327176 TAAAAACTT
1 TAAACACTT
33327185 AATAAATTAA
Statistics
Matches: 1044, Mismatches: 229, Indels: 161
0.73 0.16 0.11
Matches are distributed among these distances:
18 14 0.01
20 2 0.00
21 5 0.00
22 141 0.14
23 834 0.80
24 48 0.05
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.34
Consensus pattern (23 bp):
TAAACACTTCAATTTACAGCATT
Found at i:33326721 original size:206 final size:206
Alignment explanation
Indices: 33325976--33326892 Score: 792
Period size: 206 Copynumber: 4.5 Consensus size: 206
33325966 ATAAAACATC
* * * * * *
33325976 TCAATTTCCAACAAC-TAAATACTTCAATTTGCAGCAGTTAAACTA-TTCAATTTACAACATTTA
1 TCAATTTACAAC-ACTTAAACACTTCAATTTACAACATTTAAAC-ACTTCAATTTACTACATTTA
* * * **
33326039 AACACTT-AA-ATCT---ACTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCA
64 AACACTTCAATTTGTAGCACTTTAACACTTCAATTTATAGCACTTTAACACTTCAATTTACAGCA
*** * * * * * * * *
33326099 -TTTAAACA-CTTCAATTTGTAGCAGTTTA-ACATCTCAATTAAAAACATTTATACACCTCAA-T
129 CTTTAAA-ATC-TCAATTAACAACA-TTTATACACCTCAATT-ACAGCAATAAAACATCTCAATT
* **
33326160 TACAGTGA-TAAA-ACAT
190 TCCAGCAACTAAACAC-T
* * * * * * * *
33326176 CTCAATTTCCAACAAC-TAAATACTTCAATTTGCAGCACTTAAACAATTCAATTTCCAACATTTA
1 -TCAATTTACAAC-ACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACTACATTTA
** *
33326240 AACACTTCAATTTAG-AGCA-TTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAA
64 AACACTTCAATTT-GTAGCACTTT-AACACTTCAATTTATAGCACTTTAACACTTCAATTTACAG
* ** * * * * * * * *
33326303 CA-TTTGAACA-CTTCAATTTGCATCACTTTA-ACATCTCAATTAACAACATTTATACACCCCAA
127 CACTTT-AAAATC-TCAATTAACAACA-TTTATACACCTCAATT-ACAGCAATAAAACATCTCAA
*
33326365 TTAT--AGCGA-TAAA-ACAT
188 TT-TCCAGCAACTAAACAC-T
* * * * * * *
33326382 CTCAATTTTCAACAAC-TAAATACTTCAATTTCCAGCACTTAAACAATTCAATTTACAACATTTA
1 -TCAATTTACAAC-ACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACTACATTTA
* *
33326446 AACACTTCAATTTATAGCA-TTTACACACTTCAATTTATAGCACTTTAACACTTCAATTTATAGC
64 AACACTTCAATTTGTAGCACTTTA-ACACTTCAATTTATAGCACTTTAACACTTCAATTTACAGC
* *
33326510 ACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCC
128 ACTTTAAAATCTCAATTAACAACATTTATACACCTCAATTACAGCAATAAAACATCTCAATTTCC
33326575 AGCAACTAAACACT
193 AGCAACTAAACACT
* * *
33326589 TCAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACTTCATTTAAA
1 TCAATTTACAACACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACTACATTTAAA
* * *
33326654 CACTTCAATTTGTAGTACTTTAACACTTCAATTTATAGCA-TTTAAACACTTCAATTTGCATCAC
66 CACTTCAATTTGTAGCACTTTAACACTTCAATTTATAGCACTTT-AACACTTCAATTTACAGCAC
* *
33326718 TTTAAAATCTCAATTAACAACATTTATACACCTCAATTATAGCAATAAAACATCTCAATTTCTAG
130 TTTAAAATCTCAATTAACAACATTTATACACCTCAATTACAGCAATAAAACATCTCAATTTCCAG
33326783 CAACTAAACACT
195 CAACTAAACACT
* * *
33326795 TCAATTTACAACACTTAAACAATTCAATTTACAACATTTAAACACTTTAATTTA-TAGCATTTAT
1 TCAATTTACAACACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACTA-CATTTAA
*
33326859 ACACTTCAATTTGCAGCACTTTAACA-TCTCAATT
65 ACACTTCAATTTGTAGCACTTTAACACT-TCAATT
33326893 AACAATATTT
Statistics
Matches: 632, Mismatches: 59, Indels: 45
0.86 0.08 0.06
Matches are distributed among these distances:
200 1 0.00
201 66 0.10
202 2 0.00
203 1 0.00
204 1 0.00
205 29 0.05
206 513 0.81
207 16 0.03
208 3 0.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.34
Consensus pattern (206 bp):
TCAATTTACAACACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACTACATTTAAA
CACTTCAATTTGTAGCACTTTAACACTTCAATTTATAGCACTTTAACACTTCAATTTACAGCACT
TTAAAATCTCAATTAACAACATTTATACACCTCAATTACAGCAATAAAACATCTCAATTTCCAGC
AACTAAACACT
Found at i:33326778 original size:160 final size:159
Alignment explanation
Indices: 33325830--33327184 Score: 894
Period size: 160 Copynumber: 8.5 Consensus size: 159
33325820 TTTGTAGCAC
* * *
33325830 TTAAACACTTTAATTTACAACATTTAAACACTTCAATTTATAGC-ACTTTAACACTTTAATTTAC
1 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTT-TA-CAACTTTAACACTTCAATTTAC
* * * * * * *
33325894 AACATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAACTAACAATATTTATACCCCTCAAT
64 AGCATTTAAACACTTCAATTTGCAGCACTTTAAAATCTCAATTAACAACATTTAAACACCTCAAT
** *
33325959 TACAGTGATAAAACATCTCAATTTCCAACAA
129 TACAGCAATAAAACATCTCAATTTACAACAA
* * * * * *
33325990 CTAAATACTTCAATTTGCAGCAGTTAAACTA-TTCAA-TTTACAACATTTAAACACTTAAATCT-
1 TTAAACACTTCAATTTACAGCATTTAAAC-ACTTCAATTTTACAAC-TTT-AACACTTCAATTTA
* * * *
33326052 -A-C--TTAAACACTTCAATTTGCAGCACTTTAACA-CTTCAATTTACAGCATTTAAACACTTCA
63 CAGCATTTAAACACTTCAATTTGCAGCACTTTAAAATC-TCAATTAACAACATTTAAACACCTCA
** * ** * * *
33326112 ATTTGTAGCAGTTTAACATCTCAATTAAAAACAT
127 A-TTACAGCAATAAAACATCTCAATTTACAACAA
* * * * * * *
33326146 TTATACACCTCAA-TTACAGTGA-TAAAACA-TCTCAATTTCCAACAAC-TAAATACTTCAATTT
1 TTAAACACTTCAATTTACAG-CATTTAAACACT-TCAATTT--TACAACTTTAACACTTCAATTT
* * * * * * * * *
33326207 GCAGCACTTAAACAATTCAATTTCCAACA-TTTAAACA-CTTCAATTTAGAGCATTTAAACACTT
62 ACAGCATTTAAACACTTCAATTTGCAGCACTTTAAA-ATC-TCAATTAACAACATTTAAACACCT
* * ** *
33326270 CAATTTGCAGCACTTTAACA-CTTCAATTTACAACAT
125 CAA-TTACAGCAATAAAACATC-TCAATTTACAACAA
* * * * **
33326306 TTGAACACTTCAATTTGCATCACTTT-AACA-TCTCAA-TTAACAACATTTATACACCCCAA-TT
1 TTAAACACTTCAATTTACAGCA-TTTAAACACT-TCAATTTTACAAC-TTTA-ACACTTCAATTT
* * * * ** * *
33326367 ATAGCGA-TAAAACA-TCTCAATTTTCAACAAC--T-AAATACTTCAATTTCCAGCACTTAAACA
62 ACAGC-ATTTAAACACT-TCAATTTGCAGC-ACTTTAAAAT-C-TCAATTAACAACATTTAAACA
** * * * * * *
33326427 ATTCAATTTACAACATTTAAACA-CTTCAATTTATAGCAT
122 CCTCAA-TTACAGCAATAAAACATC-TCAATTTACAACAA
* * *
33326466 TTACACACTTCAATTTATAGCACTTT-AACACTTCAATTTATAGC-ACTTTAACA-TCTCAATTA
1 TTAAACACTTCAATTTACAGCA-TTTAAACACTTCAATTT-TA-CAACTTTAACACT-TCAATTT
* * * * * ** * ** *
33326528 ACAACATTTATACACCTCAA-TTACAGCGA--TAAAACATCTCAATTTCCAGCAACTAAACACTT
62 ACAGCATTTAAACACTTCAATTTGCAGC-ACTTTAAA-ATCTCAATTAACAACATTTAAACACCT
* * * *
33326590 CAATTTGCAGCACTTAAACA-CTTCAATTTACAACAT
125 CAA-TTACAGCAATAAAACATC-TCAATTTACAACAA
** ** *
33326626 TTAAACACTTCAATTTACTTCATTTAAACACTTCAATTTGTAGTACTTTAACACTTCAATTTATA
1 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTT-TACAACTTTAACACTTCAATTTACA
* *
33326691 GCATTTAAACACTTCAATTTGCATCACTTTAAAATCTCAATTAACAACATTTATACACCTCAATT
65 GCATTTAAACACTTCAATTTGCAGCACTTTAAAATCTCAATTAACAACATTTAAACACCTCAATT
* *
33326756 ATAGCAATAAAACATCTCAATTT-CTAGCAA
130 ACAGCAATAAAACATCTCAATTTAC-AACAA
* * * * * *
33326786 CTAAACACTTCAATTTACAACACTTAAACAATTCAA-TTTACAACATTTAAACACTTTAATTTAT
1 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTTACAAC-TTT-AACACTTCAATTTAC
* * * *
33326850 AGCATTTATACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAATATTTATACACCTCAAT
64 AGCATTTAAACACTTCAATTTGCAGCACTTTAAAATCTCAATTAACAACATTTAAACACCTCAAT
* * * *
33326915 TACAGCGATAAAGCATCTCAATTTCCAGCAA
129 TACAGCAATAAAACATCTCAATTTACAACAA
* * *
33326946 CTAAACACTTCAATTTGCAGCACTTAAACACTTCAA-TTTACAACATTTAAACACTTCAATTTAC
1 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTTACAAC-TTT-AACACTTCAATTTAC
* * *
33327010 AGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTAAAT
64 AGCATTTAAACACTTCAATTTGCAGCACTTTAAAATCTCAATTAACAACATTTAAACACCTCAAT
** * *
33327075 TACAGTGATAAAACATCTCAATTTCCAGCAA
129 TACAGCAATAAAACATCTCAATTTACAACAA
* * * *
33327106 CTAAACACTTCAATTTGCAGCACTTAAACACTTCAA-TTTACAATATTTAAACACTTCAATTTAC
1 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTTACAA-CTTT-AACACTTCAATTTAC
* *
33327170 AACATTTAAAAACTT
64 AGCATTTAAACACTT
33327185 AATAAATTAA
Statistics
Matches: 988, Mismatches: 154, Indels: 106
0.79 0.12 0.08
Matches are distributed among these distances:
154 3 0.00
155 73 0.07
156 34 0.03
157 3 0.00
158 22 0.02
159 23 0.02
160 742 0.75
161 77 0.08
162 10 0.01
163 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.34
Consensus pattern (159 bp):
TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTTACAACTTTAACACTTCAATTTACAG
CATTTAAACACTTCAATTTGCAGCACTTTAAAATCTCAATTAACAACATTTAAACACCTCAATTA
CAGCAATAAAACATCTCAATTTACAACAA
Found at i:33328422 original size:41 final size:41
Alignment explanation
Indices: 33328377--33328497 Score: 129
Period size: 41 Copynumber: 3.0 Consensus size: 41
33328367 AACATATTTG
*
33328377 TGGCATTTGGAATAAAAACGCCACTATTGCTACACTTTTAA
1 TGGCATTTGGAACAAAAACGCCACTATTGCTACACTTTTAA
* * **
33328418 TGGCATTTGGACCAAAAACGACACTATTGCT-CAACTTTTTG
1 TGGCATTTGGAACAAAAACGCCACTATTGCTAC-ACTTTTAA
* * * *
33328459 TGGCGTTTGCAACGAAAACGCCACTACTGCTTAC-CTTTT
1 TGGCATTTGGAACAAAAACGCCACTATTGC-TACACTTTT
33328498 GCACTGTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 1 0.02
41 63 0.95
42 1 0.02
43 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
TGGCATTTGGAACAAAAACGCCACTATTGCTACACTTTTAA
Found at i:33328945 original size:14 final size:14
Alignment explanation
Indices: 33328926--33329009 Score: 66
Period size: 14 Copynumber: 6.0 Consensus size: 14
33328916 TATCAAAACC
33328926 CTTAAACACTAAAA
1 CTTAAACACTAAAA
*
33328940 CTTAAACACTAAAC
1 CTTAAACACTAAAA
* *
33328954 CTGAAAC-CCAAAA
1 CTTAAACACTAAAA
*
33328967 CCTTAAACTA-TAAAT
1 -CTTAAAC-ACTAAAA
* *
33328982 CATAAACCCT-AAA
1 CTTAAACACTAAAA
33328995 CTCTAAACACTAAAA
1 CT-TAAACACTAAAA
33329010 TCCTAAACTA
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
13 7 0.13
14 39 0.75
15 6 0.12
ACGTcount: A:0.52, C:0.26, G:0.01, T:0.20
Consensus pattern (14 bp):
CTTAAACACTAAAA
Found at i:33328971 original size:28 final size:27
Alignment explanation
Indices: 33328936--33329017 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 27
33328926 CTTAAACACT
*
33328936 AAAACTTAAACACTAAA-CCTGAAACCC
1 AAAACTTAAACACTAAATCAT-AAACCC
33328963 AAAACCTTAAACTA-TAAATCATAAACCC
1 AAAA-CTTAAAC-ACTAAATCATAAACCC
* *
33328991 TAAACTCTAAACACTAAAATCCTAAAC
1 AAAACT-TAAACACT-AAATCATAAAC
33329018 TATAAAACCA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
27 7 0.15
28 26 0.57
29 13 0.28
ACGTcount: A:0.52, C:0.27, G:0.01, T:0.20
Consensus pattern (27 bp):
AAAACTTAAACACTAAATCATAAACCC
Found at i:33329843 original size:41 final size:41
Alignment explanation
Indices: 33329798--33329934 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
33329788 TATAATAATT
* * *
33329798 TTTTGTGGCATTTTTGTCATAAACACCGCTAATACCAGACA
1 TTTTGTGGCATTTTTCTCACAAACACCGCTAATACCAGACC
* ** ** *
33329839 TTTTGCGGTGTTTTTCTCACAAACACCGCTAATGTCAAACC
1 TTTTGTGGCATTTTTCTCACAAACACCGCTAATACCAGACC
* * *
33329880 TTTT-TCAGCGTTTTTCTCACAAACACCGCTAATTCCAGACC
1 TTTTGT-GGCATTTTTCTCACAAACACCGCTAATACCAGACC
33329921 TTTTGTGGCATTTT
1 TTTTGTGGCATTTT
33329935 CTGATTAGCG
Statistics
Matches: 77, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 76 0.99
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (41 bp):
TTTTGTGGCATTTTTCTCACAAACACCGCTAATACCAGACC
Found at i:33333929 original size:11 final size:10
Alignment explanation
Indices: 33333856--33333925 Score: 59
Period size: 10 Copynumber: 6.9 Consensus size: 10
33333846 TCGAGTTCCA
*
33333856 TTCAGCTCAA
1 TTCAGCTCAT
* *
33333866 ATCAGCTCAC
1 TTCAGCTCAT
* *
33333876 TTGAGCTTAT
1 TTCAGCTCAT
*
33333886 TTCAGCTCGT
1 TTCAGCTCAT
*
33333896 TTGAGCTCAT
1 TTCAGCTCAT
*
33333906 TTCAGTTTCAT
1 TTCAG-CTCAT
33333917 TTCAGCTCA
1 TTCAGCTCA
33333926 ATTTTTTAAT
Statistics
Matches: 45, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
10 36 0.80
11 9 0.20
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (10 bp):
TTCAGCTCAT
Found at i:33336428 original size:11 final size:11
Alignment explanation
Indices: 33336401--33336507 Score: 57
Period size: 11 Copynumber: 9.6 Consensus size: 11
33336391 ATTCTAAAAA
33336401 TAATATT-ATT
1 TAATATTAATT
33336411 T--TATTAATT
1 TAATATTAATT
*
33336420 TAATATTAAAT
1 TAATATTAATT
33336431 TAA-ATTAATT
1 TAATATTAATT
*
33336441 TAATACTAAAGTGAT
1 TAATA-TTAA-T--T
*
33336456 T-ATCTTAATAT
1 TAATATTAAT-T
33336467 TAA-ATTAAATT
1 TAATATT-AATT
33336478 TAATATTAATAT
1 TAATATTAAT-T
*
33336490 CAA-ATTTAATT
1 TAATA-TTAATT
33336501 TAATATT
1 TAATATT
33336508 TATCTTATAG
Statistics
Matches: 75, Mismatches: 8, Indels: 27
0.68 0.07 0.25
Matches are distributed among these distances:
8 4 0.05
9 4 0.05
10 10 0.13
11 29 0.39
12 20 0.27
13 4 0.05
14 2 0.03
15 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.50
Consensus pattern (11 bp):
TAATATTAATT
Found at i:33336504 original size:17 final size:18
Alignment explanation
Indices: 33336460--33336506 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
33336450 AGTGATTATC
*
33336460 TTAATATTAA-ATTAAAT
1 TTAATATTAATATCAAAT
33336477 TTAATATTAATATCAAAT
1 TTAATATTAATATCAAAT
33336495 TTAAT-TTAATAT
1 TTAATATTAATAT
33336507 TTATCTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATATTAATATCAAAT
Found at i:33339051 original size:18 final size:18
Alignment explanation
Indices: 33339014--33339076 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
33339004 ATTGTGCGAG
*
33339014 CCCATATAGGTATGCGAA
1 CCCATATAGGTATGCAAA
**
33339032 CCCATATATTTATGCAAA
1 CCCATATAGGTATGCAAA
* *
33339050 CCCTATCAAAGG-ATGAAAA
1 CCC-AT-ATAGGTATGCAAA
33339069 CCCATATA
1 CCCATATA
33339077 TTCATGTGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
17 2 0.06
18 20 0.57
19 11 0.31
20 2 0.06
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.24
Consensus pattern (18 bp):
CCCATATAGGTATGCAAA
Found at i:33343230 original size:93 final size:94
Alignment explanation
Indices: 33343068--33343238 Score: 242
Period size: 93 Copynumber: 1.8 Consensus size: 94
33343058 GGTCATTTGT
* * * *
33343068 GTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGGGATGAGTGATAGTGTAAGAC
1 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGTGATAGTCTAAGAC
33343133 ATGTCTGGGACATACATTGGCCTCGAGAA
66 ATGTCTGGGACATACATTGGCCTCGAGAA
*
33343162 GTGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGC-TACGAGATGATTG-TCAGTCTAAG
1 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCAT-CGAGATGAGTGAT-AGTCTAAG
33343223 ACCATGTCTGGGACAT
64 A-CATGTCTGGGACAT
33343239 GGCTTCGACT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
91 2 0.03
92 24 0.35
93 28 0.41
94 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (94 bp):
GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGTGATAGTCTAAGAC
ATGTCTGGGACATACATTGGCCTCGAGAA
Found at i:33343255 original size:47 final size:44
Alignment explanation
Indices: 33343075--33343239 Score: 172
Period size: 46 Copynumber: 3.5 Consensus size: 44
33343065 TGTGTGAGCT
* *
33343075 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGGGATGAGTGAT-
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGC-TCGAGATGA-TG-TC
* *
33343123 AGTGTAAGACATGTCTGGGACATACATTGGCCTCGAGAAGTGA-GCC
1 AGTGTAAGACATGTCTGGGACATGCATTGG-CTCGAG-A-TGATGTC
33343169 AGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGATTGTC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCT-CGAGATGA-TGTC
*
33343215 AGTCTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
33343240 GCTTCGACTT
Statistics
Matches: 102, Mismatches: 7, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 53 0.52
47 31 0.30
48 12 0.12
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCTCGAGATGATGTC
Found at i:33343269 original size:93 final size:94
Alignment explanation
Indices: 33343073--33343295 Score: 215
Period size: 93 Copynumber: 2.4 Consensus size: 94
33343063 TTTGTGTGAG
* * * *
33343073 CTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGGGATGAGTGATAGTGTAAGACATGTC
1 CTAGTGTAAGA-CATGTCTGGGACATAGCATTGGCATCGAGATGAGTGATAGTCTAAGACATGTC
* * *
33343138 TGGGACATACATTGGCCTCGAGAAGTGAGC
65 TGGGACATACATTCGACTCGAGAAGTGAAC
*
33343168 C-AGTGTAAGACATGTCTGGGACAT-GCATTGGC-TACGAGATGATTG-TCAGTCTAAGACCATG
1 CTAGTGTAAGACATGTCTGGGACATAGCATTGGCAT-CGAGATGAGTGAT-AGTCTAAGA-CATG
* * *
33343229 TCTGGGACATGGC-TTCGACTTGAGATGT-AAC
63 TCTGGGACAT-ACATTCGACTCGAGAAGTGAAC
* * * *
33343260 CTAGAGTAAGACTGTGTCTCGGACATAGCATCGGCA
1 CTAGTGTAAGAC-ATGTCTGGGACATAGCATTGGCA
33343296 CCTTACCCCA
Statistics
Matches: 106, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
91 2 0.02
92 27 0.25
93 48 0.45
94 21 0.20
95 8 0.08
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATAGCATTGGCATCGAGATGAGTGATAGTCTAAGACATGTCT
GGGACATACATTCGACTCGAGAAGTGAAC
Found at i:33345801 original size:10 final size:10
Alignment explanation
Indices: 33345786--33345833 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
33345776 GAACATGTTG
33345786 AATTTTAATT
1 AATTTTAATT
*
33345796 AATTTTATATCA
1 AATTTTA-AT-T
*
33345808 AATTTTGATT
1 AATTTTAATT
*
33345818 AATTTTTATT
1 AATTTTAATT
33345828 AATTTT
1 AATTTT
33345834 GACATATTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 22 0.69
11 4 0.12
12 6 0.19
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
AATTTTAATT
Found at i:33345818 original size:22 final size:20
Alignment explanation
Indices: 33345786--33345835 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
33345776 GAACATGTTG
*
33345786 AATTTTAATTAATTTTATATCA
1 AATTTTGATTAATTTT-TAT-A
*
33345808 AATTTTGATTAATTTTTATT
1 AATTTTGATTAATTTTTATA
33345828 AATTTTGA
1 AATTTTGA
33345836 CATATTTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 3 0.12
22 15 0.58
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
AATTTTGATTAATTTTTATA
Found at i:33347692 original size:20 final size:20
Alignment explanation
Indices: 33347667--33347706 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33347657 ATAAAATATG
33347667 TTTTTTTTCTAACATATCCT
1 TTTTTTTTCTAACATATCCT
33347687 TTTTTTTTCTAACATATCCT
1 TTTTTTTTCTAACATATCCT
33347707 CATCAGCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTTTTCTAACATATCCT
Found at i:33348566 original size:25 final size:24
Alignment explanation
Indices: 33348521--33348571 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
33348511 TAAATAGGAA
*
33348521 AAGAGTTATAAGAAGATAAAATGTG
1 AAGAGTTATAAGAAAATAAAA-GTG
*
33348546 AAGAGTTA-AGGAAAATGAAAAGTG
1 AAGAGTTATAAGAAAAT-AAAAGTG
33348570 AA
1 AA
33348572 AGGATGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (24 bp):
AAGAGTTATAAGAAAATAAAAGTG
Done.