Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 155 of 362
Found at i:50848709 original size:92 final size:92
Alignment explanation
Indices: 50848552--50848720 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
50848542 GCCCCTAAGT
* *
50848552 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
50848617 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
50848644 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTC-GACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAA-TGAACTCGGACTCAACTCAA
50848708 CGAGTTCGGATGC
65 CGAGTTCGGATGC
50848721 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 65 0.90
93 7 0.10
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50848717 original size:45 final size:45
Alignment explanation
Indices: 50848551--50848717 Score: 196
Period size: 45 Copynumber: 3.7 Consensus size: 45
50848541 CGCCCCTAAG
* * * *
50848551 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
* * *
50848596 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAA
*
50848643 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
50848688 GTGAACTC-GACTCAACTCAACGAGTTCGGA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGA
50848718 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 52 0.50
46 6 0.06
47 31 0.30
48 2 0.02
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
Found at i:50848736 original size:45 final size:45
Alignment explanation
Indices: 50848549--50848736 Score: 131
Period size: 45 Copynumber: 4.1 Consensus size: 45
50848539 CCCGCCCCTA
* ** * *
50848549 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-C-T
*
50848594 AATGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
50848641 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
50848687 AGTGAACTC-GACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
50848732 AGTGA
1 AGTGA
50848737 CATGTCACTT
Statistics
Matches: 114, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
43 8 0.07
44 2 0.02
45 57 0.50
46 6 0.05
47 32 0.28
48 2 0.02
49 6 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:50849167 original size:30 final size:29
Alignment explanation
Indices: 50849133--50849191 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
50849123 ATTTAATACG
50849133 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTT-CCCCTA
* * *
50849163 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTCCCCTA
50849192 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTCCCCTA
Found at i:50851176 original size:18 final size:18
Alignment explanation
Indices: 50851136--50851189 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
50851126 GCCCATTACA
***
50851136 GTAACAGTAAACAGTGCA
1 GTAACAGTAAACAGTATG
* *
50851154 ATAACAGTAAATAGTATG
1 GTAACAGTAAACAGTATG
50851172 GTAACAGTAAACAGTATG
1 GTAACAGTAAACAGTATG
50851190 CAAGTCCTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.22
Consensus pattern (18 bp):
GTAACAGTAAACAGTATG
Found at i:50851604 original size:27 final size:27
Alignment explanation
Indices: 50851529--50851606 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
50851519 ATAAATACCT
* *
50851529 CACATAGGGGCAAAACAGTCAATTTAC
1 CACATAGGGGCAAAATAGTCATTTTAC
* ***
50851556 CATATAGGGGCATTTTAGTCATTTTAC
1 CACATAGGGGCAAAATAGTCATTTTAC
*
50851583 CACATAAGGGCAAAATAGTCATTT
1 CACATAGGGGCAAAATAGTCATTT
50851607 CATAAAATTA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (27 bp):
CACATAGGGGCAAAATAGTCATTTTAC
Found at i:50856069 original size:49 final size:49
Alignment explanation
Indices: 50855896--50856120 Score: 263
Period size: 49 Copynumber: 4.5 Consensus size: 49
50855886 TGAGGTCGCA
* * * *
50855896 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAA-T-TGGTCACG
* * * ** *
50855947 TGTGTAGTACTAAGTGCAGGCTACTACTTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
50855997 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * ** *
50856046 TGTGTAGTACTAAGTTCAAGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
50856095 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
50856121 TGCGTACCAG
Statistics
Matches: 149, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 74 0.50
50 44 0.30
51 31 0.21
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:50856070 original size:99 final size:101
Alignment explanation
Indices: 50855896--50856127 Score: 274
Period size: 99 Copynumber: 2.3 Consensus size: 101
50855886 TGAGGTCGCA
*
50855896 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGAAAACTGTGATCACGTGTGTAGTACTAAG
* *
50855961 TGCAGGCTACTACTTGTATCAGATGGTTAAGTCACG
66 TGCAAGCTACTACGTGTATCAGATGGTTAAGTCACG
* * *
50855997 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAA-T-TGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTC-GAAAACTGTGATCACGTGTGTAGTACTAA
* * * ** * ** *
50856059 GTTCAAGCTACTACGTGTACCGGATAATT-GGTTGCA
65 GTGCAAGCTACTACGTGTATCAGATGGTTAAGTCACG
* *
50856095 TGTGTAGTACTATGTGCAGGCTACTATGCGTAC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTAC
50856128 CAGATAGCTT
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
98 33 0.29
99 42 0.38
100 2 0.02
101 35 0.31
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGAAAACTGTGATCACGTGTGTAGTACTAAG
TGCAAGCTACTACGTGTATCAGATGGTTAAGTCACG
Found at i:50858436 original size:42 final size:43
Alignment explanation
Indices: 50858341--50858492 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 43
50858331 CCAACATCCC
* * *
50858341 AGACGTGGTCTTACATGTAATCAAACATCGATGCCACTGTCCT
1 AGACATGGTCTTACATGAAATCAAACATCGATGCCAATGTCCT
* * *
50858384 AGATAGGGTCTTACATGAAATCAAATAT-GATG-CAGATGTCCT
1 AGACATGGTCTTACATGAAATCAAACATCGATGCCA-ATGTCCT
* * * * *
50858426 AGGCATGGTCTTACACGTAAAACAGAA-GTCGATGCCAATGTCCC
1 AGACATGGTCTTACATG-AAATCA-AACATCGATGCCAATGTCCT
** *
50858470 AGATGTGGTCTTACACGAAATCA
1 AGACATGGTCTTACATGAAATCA
50858493 CATAACGAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
42 23 0.26
43 34 0.39
44 26 0.30
45 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
AGACATGGTCTTACATGAAATCAAACATCGATGCCAATGTCCT
Found at i:50867490 original size:43 final size:42
Alignment explanation
Indices: 50867443--50867541 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
50867433 TCCCAAACGT
*
50867443 GGTCTTACATGTAACCAAACATCGATG-CCACTGTCCCAGATAG
1 GGTCTTACATGTAACCAAACA-CGATGTCCA-TGTCCCAGACAG
* * * * * *
50867486 GGTCTTACACGAAATCAAATACGATGTCGATGTCCCAGACAT
1 GGTCTTACATGTAACCAAACACGATGTCCATGTCCCAGACAG
50867528 GGTCTTACATGTAA
1 GGTCTTACATGTAA
50867542 AATAGAAGTC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
GGTCTTACATGTAACCAAACACGATGTCCATGTCCCAGACAG
Found at i:50872962 original size:47 final size:47
Alignment explanation
Indices: 50872839--50873142 Score: 428
Period size: 47 Copynumber: 6.4 Consensus size: 47
50872829 ATTGATGTAC
* * * *
50872839 AAGTATATATGTGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
50872886 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
50872935 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
50872982 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
50873029 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
50873076 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
50873123 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
50873143 TCCCGAAGGA
Statistics
Matches: 237, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 45 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:50886631 original size:30 final size:30
Alignment explanation
Indices: 50886546--50886642 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
50886536 TAAACTAAAA
* **
50886546 TGAGCTAAGCTTTAGCTCGTGAGCAAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * *
50886576 TGAGCTAAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
50886606 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
50886635 ATGAGCTA
1 -TGAGCTA
50886643 GGAGTGAGCT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 1 0.02
30 53 0.98
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:50887037 original size:33 final size:33
Alignment explanation
Indices: 50886984--50887058 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
50886974 GGCCCTGACG
* ***
50886984 TGGTCTTA-CATTCATATGCCATAACCCGGTTA
1 TGGTCTTATTATTCATATGCCATAACCCAACTA
*
50887016 TGGTCTTATTATTCA-ATTGCCATAGCCCAACTA
1 TGGTCTTATTATTCATA-TGCCATAACCCAACTA
50887049 TGGTCTTATT
1 TGGTCTTATT
50887059 TGGCAACTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 9 0.25
33 27 0.75
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (33 bp):
TGGTCTTATTATTCATATGCCATAACCCAACTA
Found at i:50887599 original size:21 final size:20
Alignment explanation
Indices: 50887575--50887613 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
50887565 AAACTTGTAT
50887575 ATCTATCAATAAACATTCATA
1 ATCTATCAATAAAC-TTCATA
50887596 ATCTATCAATAAACTTCA
1 ATCTATCAATAAACTTCA
50887614 AAATACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCTATCAATAAACTTCATA
Found at i:50888903 original size:13 final size:13
Alignment explanation
Indices: 50888885--50888909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50888875 TATGTGATAT
50888885 GTGTGAAAATTTC
1 GTGTGAAAATTTC
50888898 GTGTGAAAATTT
1 GTGTGAAAATTT
50888910 TATCATTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:50890122 original size:42 final size:43
Alignment explanation
Indices: 50890065--50890185 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
50890055 AAAAATTTGA
*
50890065 GATTTACGTATAAGACCATGTCTGGGACATTGGCATCG-TATAT
1 GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATAT
* * *
50890108 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATAT
* * **
50890151 GATTACATGTAAGACCACATCTGGGACATTGGCAT
1 GATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
50890186 TGTACCAGCT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 29 0.43
43 38 0.57
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATAT
Found at i:50892828 original size:91 final size:91
Alignment explanation
Indices: 50892673--50892849 Score: 309
Period size: 91 Copynumber: 1.9 Consensus size: 91
50892663 TTTCATTCCA
* *
50892673 GTACGCACGAATTATTCACTTGATAAGCTTGCTGAGTTGTATATCTCTGAGGTTGTGAGATTGCA
1 GTACGCACGAATTATCCACATGATAAGCTTGCTGAGTTGTATATCTCTGAGGTTGTGAGATTGCA
*
50892738 TGGAGTACCTATTTCTATTGTCTCCG
66 CGGAGTACCTATTTCTATTGTCTCCG
* *
50892764 GTACGCACGGATTATCCACATGATAAGCTTGCTGATTTGTATATCTCTGAGGTTGTGAGATTGCA
1 GTACGCACGAATTATCCACATGATAAGCTTGCTGAGTTGTATATCTCTGAGGTTGTGAGATTGCA
50892829 CGGAGTACCTATTTCTATTGT
66 CGGAGTACCTATTTCTATTGT
50892850 TTCTGATAGA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (91 bp):
GTACGCACGAATTATCCACATGATAAGCTTGCTGAGTTGTATATCTCTGAGGTTGTGAGATTGCA
CGGAGTACCTATTTCTATTGTCTCCG
Found at i:50893874 original size:13 final size:13
Alignment explanation
Indices: 50893856--50893880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50893846 TATGTGATAT
50893856 GTGTGAAAATTTC
1 GTGTGAAAATTTC
50893869 GTGTGAAAATTT
1 GTGTGAAAATTT
50893881 TATCATTTAT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:50896572 original size:14 final size:14
Alignment explanation
Indices: 50896553--50896580 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50896543 GCTTGATTAA
50896553 GGTATGTGTTTAGC
1 GGTATGTGTTTAGC
50896567 GGTATGTGTTTAGC
1 GGTATGTGTTTAGC
50896581 TCGATTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.36, T:0.43
Consensus pattern (14 bp):
GGTATGTGTTTAGC
Found at i:50899556 original size:34 final size:34
Alignment explanation
Indices: 50899491--50899579 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
50899481 TACAGTGTTG
* * *
50899491 ATCAATCTAGGCCTAAGTCCATACCAATAGCAAT
1 ATCAATGTAGGCCTTAGCCCATACCAATAGCAAT
* * *
50899525 TTCAATGTAGGCCTTAGCCCATTA-CAGTAGCAGT
1 ATCAATGTAGGCCTTAGCCCA-TACCAATAGCAAT
* *
50899559 ATCAGTGTGGGCCTTAGCCCA
1 ATCAATGTAGGCCTTAGCCCA
50899580 ATTTAGTATA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 43 0.96
35 2 0.04
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (34 bp):
ATCAATGTAGGCCTTAGCCCATACCAATAGCAAT
Found at i:50902603 original size:39 final size:40
Alignment explanation
Indices: 50902487--50902667 Score: 192
Period size: 40 Copynumber: 4.5 Consensus size: 40
50902477 GCTACTCGTT
* * *
50902487 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAGTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
50902527 CAAATGCCTTCGGGACTTAACCCGGACTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
50902567 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
50902606 CAAATGCCTTC-GGATCTTAGTCC-GAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
*
50902647 CAAA-GCCTTCGGGACATAGCC
1 CAAATGCCTTCGGGACTTAGCC
50902668 TTGACATCAT
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 36 0.30
40 70 0.58
41 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:50902655 original size:79 final size:80
Alignment explanation
Indices: 50902487--50902667 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 80
50902477 GCTACTCGTT
* *
50902487 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAGTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
50902552 ACTTAGTGACTCGCAC
65 AATTAGTCACTAGCAC
* * **
50902568 CAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC-
1 CAAAGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
50902629 GAATATAGTCACTTAGCA-
64 GAAT-TAGTCAC-TAGCAC
50902647 CAAAGCCTTCGGGACATAGCC
1 CAAAGCCTTCGGGACATAGCC
50902668 TTGACATCAT
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
78 7 0.08
79 55 0.65
80 19 0.23
81 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CAAAGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTCACTAGCAC
Found at i:50907293 original size:27 final size:28
Alignment explanation
Indices: 50907263--50907342 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 28
50907253 AAACATACAT
* *
50907263 CACAT-AGGGACAAAACAGTCATTTTAG
1 CACATAAGGGACAAAATAGTCATTTTAC
*
50907290 CACATAAGGG-CAAAATAATCATTTTAC
1 CACATAAGGGACAAAATAGTCATTTTAC
* *
50907317 CTCATAAGGGA-AAAATAGTGATTTTA
1 CACATAAGGGACAAAATAGTCATTTTA
50907343 TCAATTAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 41 0.91
28 4 0.09
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (28 bp):
CACATAAGGGACAAAATAGTCATTTTAC
Found at i:50909025 original size:20 final size:20
Alignment explanation
Indices: 50909000--50909038 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50908990 TCAGTTCCCA
*
50909000 TCAGCTCGCTTGAGCTCGAT
1 TCAGCTCACTTGAGCTCGAT
*
50909020 TCAGCTCATTTGAGCTCGA
1 TCAGCTCACTTGAGCTCGA
50909039 ATTTAGCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (20 bp):
TCAGCTCACTTGAGCTCGAT
Found at i:50915505 original size:21 final size:21
Alignment explanation
Indices: 50915479--50915536 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
50915469 AATGAGAGTG
**
50915479 GAAAAAGAAAGACCAGAAAAT
1 GAAAAAGAAAGAAAAGAAAAT
* *
50915500 GAAAAAGAGAGAAAAGAAATT
1 GAAAAAGAAAGAAAAGAAAAT
*
50915521 GAAAGAGAAAAGAAAA
1 GAAAAAG-AAAGAAAA
50915537 AGAGTTGTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.69, C:0.03, G:0.22, T:0.05
Consensus pattern (21 bp):
GAAAAAGAAAGAAAAGAAAAT
Found at i:50918843 original size:39 final size:39
Alignment explanation
Indices: 50918754--50918969 Score: 344
Period size: 39 Copynumber: 5.5 Consensus size: 39
50918744 ACAAAGCATG
* * *
50918754 CGGGACTTTAAGCCCGGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
50918794 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
50918833 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
50918872 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
50918911 CGGGACTTAGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
50918950 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
50918970 TATCTCACAC
Statistics
Matches: 165, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
38 20 0.12
39 140 0.85
40 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:50924604 original size:27 final size:27
Alignment explanation
Indices: 50924416--50924604 Score: 200
Period size: 27 Copynumber: 7.0 Consensus size: 27
50924406 CAAAATGATT
**
50924416 GAAATA-CCTCTGTAGGGTAGAATTATT
1 GAAATACCCT-TGTAGGGTAGAATTACC
* * *
50924443 GAAATACCCCTGTAAGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
50924470 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
*
50924497 GAAATACCCTTGAAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* ** *
50924524 AAAATACCCTCATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
50924551 AAAATACTCTTGTAGGGTACAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
50924578 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
50924605 ATTTTCCCCC
Statistics
Matches: 139, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
27 137 0.99
28 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:50924843 original size:27 final size:26
Alignment explanation
Indices: 50924805--50924892 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
50924795 ATGGAGGAAG
50924805 TGTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATGCCAC-AATATC
*
50924832 TGTTCTGGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTATGCCACAATATC
* * * *
50924858 TGTATCTGGTGACTTTGTCATAATATC
1 TGT-TCTGGTGGCTATGCCACAATATC
50924885 TGTTCTGG
1 TGTTCTGG
50924893 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.25
27 41 0.75
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCACAATATC
Found at i:50925027 original size:6 final size:6
Alignment explanation
Indices: 50925010--50925134 Score: 51
Period size: 6 Copynumber: 20.3 Consensus size: 6
50925000 TTGCATTCAC
* * * *
50925010 ATTCTA ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* ** * * *
50925060 ATTTTG AGCCTG GTTCTA ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
50925109 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
50925135 AATGTTTCTT
Statistics
Matches: 85, Mismatches: 23, Indels: 22
0.65 0.18 0.17
Matches are distributed among these distances:
5 5 0.06
6 68 0.80
7 9 0.11
8 3 0.04
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:50925102 original size:19 final size:19
Alignment explanation
Indices: 50925041--50925108 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
50925031 CCTGATACTG
50925041 ATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGTCACCTA
* ** *
50925060 ATTTTGAGCCTGGT--TCTA
1 ATTCTGATTCT-GTCACCTA
*
50925078 ATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGTCACCTA
50925097 ATTCTGATTCTG
1 ATTCTGATTCTG
50925109 ATTCTCATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
17 2 0.05
18 11 0.30
19 22 0.59
20 2 0.05
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (19 bp):
ATTCTGATTCTGTCACCTA
Found at i:50925123 original size:37 final size:37
Alignment explanation
Indices: 50925019--50925125 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 37
50925009 CATTCTAATT
* *
50925019 CTGATTCTG-TTACCTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATT--CTGATTCTAATTCTGATTCTGTCAC
* * ** *
50925057 CTAATTTTGAGCCTGGTTCTAATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTAATTCTGATTCTGTCAC
* *
50925094 CTGATTCTGATTCTGATTCTCATTTTGATTCT
1 CTGATTCTGATTCTGATTCTAATTCTGATTCT
50925126 AGTTCTGATA
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
37 47 0.87
38 7 0.13
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGATTCTGTCAC
Found at i:50926595 original size:8 final size:8
Alignment explanation
Indices: 50926577--50926608 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
50926567 GCAAAAGCCA
*
50926577 AAAAGCCG
1 AAAAGCTG
50926585 AAAAGCTG
1 AAAAGCTG
50926593 AAAAGCTG
1 AAAAGCTG
50926601 AAAAGCTG
1 AAAAGCTG
50926609 GTATTTTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.50, C:0.16, G:0.25, T:0.09
Consensus pattern (8 bp):
AAAAGCTG
Found at i:50927063 original size:27 final size:26
Alignment explanation
Indices: 50927023--50927106 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
50927013 AGGGAGTATA
* *
50927023 CTGGTGGCTTTGCCACAAATATCTATT
1 CTGGTGGCTCTGCCAC-AATATCTGTT
50927050 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGT-T
* *
50927077 CTGGTGACTCTGTCACAATATCTGTT
1 CTGGTGGCTCTGCCACAATATCTGTT
50927103 CTGG
1 CTGG
50927107 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 13 0.25
27 39 0.75
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGTT
Found at i:50943464 original size:27 final size:27
Alignment explanation
Indices: 50943434--50943649 Score: 283
Period size: 27 Copynumber: 8.0 Consensus size: 27
50943424 ACAAAATGAT
50943434 TGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* *
50943461 TGAAGTACCCCTGTAAGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
50943488 TGAAATACCCCTATAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
50943515 TGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
50943542 TGAAATACCCCTGTAGGGTAGAATTAT
1 TGAAATACCCCTGTAGGGTAGAATTAC
* *
50943569 TGAAATA-CCCTCGTAGGTTAGAAATAC
1 TGAAATACCCCT-GTAGGGTAGAATTAC
* * *
50943596 CGAAATACCCTTGTAGGGTACAATTA-
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * * *
50943622 TCGAGATACCCTTGTGGGGTAAAATTAC
1 T-GAAATACCCCTGTAGGGTAGAATTAC
50943650 AATTTTACCC
Statistics
Matches: 166, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.02
27 159 0.96
28 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
TGAAATACCCCTGTAGGGTAGAATTAC
Found at i:50943890 original size:28 final size:28
Alignment explanation
Indices: 50943851--50943970 Score: 201
Period size: 28 Copynumber: 4.4 Consensus size: 28
50943841 ATGGAGGAAG
50943851 TGTTT-TGGTGGCTATGCCACAAATATC
1 TGTTTCTGGTGGCTATGCCACAAATATC
50943878 TGTTTCTGGTGGCTATGCCACAAATATC
1 TGTTTCTGGTGGCTATGCCACAAATATC
50943906 TGTTTCTGGTGGCTATGCCACAAATATC
1 TGTTTCTGGTGGCTATGCCACAAATATC
*
50943934 TG-TTCTGGTGGCTCTGCCAC-AATATC
1 TGTTTCTGGTGGCTATGCCACAAATATC
*
50943960 TGTATCTGGTG
1 TGTTTCTGGTG
50943971 ACTCTATCAT
Statistics
Matches: 89, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
26 8 0.09
27 29 0.33
28 52 0.58
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (28 bp):
TGTTTCTGGTGGCTATGCCACAAATATC
Found at i:50943984 original size:27 final size:26
Alignment explanation
Indices: 50943867--50943994 Score: 112
Period size: 28 Copynumber: 4.7 Consensus size: 26
50943857 GGTGGCTATG
* * *
50943867 CCACAAATATCTGTTTCTGGTGGCTATG
1 CCAC-AATATCTG-TTCTGGTGACTCTA
* * *
50943895 CCACAAATATCTGTTTCTGGTGGCTATG
1 CCAC-AATATCTG-TTCTGGTGACTCTA
* *
50943923 CCACAAATATCTGTTCTGGTGGCTCTG
1 CCAC-AATATCTGTTCTGGTGACTCTA
50943950 CCACAATATCTGTATCTGGTGACTCTA
1 CCACAATATCTGT-TCTGGTGACTCTA
* *
50943977 TCATAATATCTGTTCTGG
1 CCACAATATCTGTTCTGG
50943995 CAGCCATGCT
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
26 14 0.15
27 39 0.41
28 41 0.44
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
CCACAATATCTGTTCTGGTGACTCTA
Found at i:50944121 original size:6 final size:6
Alignment explanation
Indices: 50944112--50944229 Score: 116
Period size: 6 Copynumber: 19.3 Consensus size: 6
50944102 TTGCATTCAC
* *
50944112 ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * *
50944161 ATTCTG ATTCTG ATTCTA ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
50944210 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
50944230 GATGTTTCTT
Statistics
Matches: 92, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
5 4 0.04
6 79 0.86
7 7 0.08
8 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:50944184 original size:49 final size:49
Alignment explanation
Indices: 50944112--50944220 Score: 173
Period size: 49 Copynumber: 2.2 Consensus size: 49
50944102 TTGCATTCAC
* *
50944112 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGATTCTGATTCTAATTCTGTCACCTGATACTGATTCTGATTCTA
* *
50944161 ATTCTGATTCTGATTCTAATTCTGTCACCTGATTCTGATTCTGATTCTC
1 ATTCTGATTCTGATTCTAATTCTGTCACCTGATACTGATTCTGATTCTA
*
50944210 ATTTTGATTCT
1 ATTCTGATTCT
50944221 AGTTCTGATG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (49 bp):
ATTCTGATTCTGATTCTAATTCTGTCACCTGATACTGATTCTGATTCTA
Found at i:50944221 original size:43 final size:43
Alignment explanation
Indices: 50944146--50944227 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
50944136 TTACCTGATA
*
50944146 CTGATTCTGATTCTAATTCTGATTCTGATTCTAATTCTGTCAC
1 CTGATTCTGATTCTAATTCTCATTCTGATTCTAATTCTGTCAC
* * *
50944189 CTGATTCTGATTCTGATTCTCATTTTGATTCTAGTTCTG
1 CTGATTCTGATTCTAATTCTCATTCTGATTCTAATTCTG
50944228 ATGATGTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.49
Consensus pattern (43 bp):
CTGATTCTGATTCTAATTCTCATTCTGATTCTAATTCTGTCAC
Found at i:50947266 original size:40 final size:40
Alignment explanation
Indices: 50947182--50947365 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
50947172 TTGAATGCTG
* * * *
50947182 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
50947221 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
50947262 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
50947302 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
50947342 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
50947366 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:50947319 original size:80 final size:81
Alignment explanation
Indices: 50947182--50947362 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
50947172 TTGAATGCTG
* * *
50947182 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
50947246 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
50947262 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
50947323 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
50947342 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
50947363 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:50947386 original size:39 final size:38
Alignment explanation
Indices: 50947263--50947412 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
50947253 GTTATTAATT
* ** * *
50947263 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
50947303 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
50947342 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
50947382 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
50947413 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:50955107 original size:40 final size:40
Alignment explanation
Indices: 50955023--50955206 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
50955013 TTGAATGCTG
* * * *
50955023 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
50955062 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
50955103 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
50955143 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
50955183 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
50955207 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:50955160 original size:80 final size:81
Alignment explanation
Indices: 50955023--50955203 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
50955013 TTGAATGCTG
* * *
50955023 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
50955087 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
50955103 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
50955164 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
50955183 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
50955204 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:50955227 original size:39 final size:38
Alignment explanation
Indices: 50955104--50955253 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
50955094 GTTATTAATT
* ** * *
50955104 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
50955144 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
50955183 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
50955223 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
50955254 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:50963137 original size:46 final size:46
Alignment explanation
Indices: 50963070--50963164 Score: 154
Period size: 46 Copynumber: 2.1 Consensus size: 46
50963060 CGCATTAAAT
* *
50963070 TGATTGAACGTTGTATATGTTAGATATAATCTGTATTGGATAGCTA
1 TGATTGAACGTTGTATATGTTAGATATAATCTATATTGGACAGCTA
* *
50963116 TGATTGAACGTTGTATGTGTTAGATATAATCTATATTGGACGGCTA
1 TGATTGAACGTTGTATATGTTAGATATAATCTATATTGGACAGCTA
50963162 TGA
1 TGA
50963165 GAGACTAACG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.40
Consensus pattern (46 bp):
TGATTGAACGTTGTATATGTTAGATATAATCTATATTGGACAGCTA
Found at i:50967460 original size:16 final size:16
Alignment explanation
Indices: 50967439--50967473 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
50967429 TGATATAAAC
50967439 AAAATTAAAATAAAAT
1 AAAATTAAAATAAAAT
**
50967455 AAAATTGCAATAAAAT
1 AAAATTAAAATAAAAT
50967471 AAA
1 AAA
50967474 TGGCTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATTAAAATAAAAT
Found at i:50979747 original size:48 final size:46
Alignment explanation
Indices: 50979651--50979757 Score: 133
Period size: 48 Copynumber: 2.3 Consensus size: 46
50979641 TTATGTGCGG
* *
50979651 TCCCATGTAAGACCATCTGGGACATGGCGTTGGCATCAATCTACGA
1 TCCCATGTAAGACCATCTGGGACATGGCATTGGCATCAATATACGA
* ** **
50979697 TCCCATGTAAGACCATGTCTGTGACATGGCATTGGCATTGATATGTGA
1 TCCCATGTAAGACCA--TCTGGGACATGGCATTGGCATCAATATACGA
50979745 TCCCATGTAAGAC
1 TCCCATGTAAGAC
50979758 TATATCCGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
46 15 0.29
48 37 0.71
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (46 bp):
TCCCATGTAAGACCATCTGGGACATGGCATTGGCATCAATATACGA
Found at i:50983143 original size:38 final size:38
Alignment explanation
Indices: 50983100--50983304 Score: 131
Period size: 38 Copynumber: 4.9 Consensus size: 38
50983090 TTTCAAATTA
* *
50983100 ACATGTATAACCGTGGTATATCCACTTATCACCACGTT
1 ACATGTATAACCATGGTATATCCACTTAGCACCACGTT
* *
50983138 ACATGTTTAACTATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCATGGTATATCCACTTAGCACCACG-T--T
* *
50983179 GAATCAATATATGTAACCATGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCATGGTATATCCACTTAGCACCACGTT
* * * * *
50983223 ACATGTATCAATATGTGTAATCATGTTATATCCATTTAGCACAACGCT
1 ACATG------TA----TAACCATGGTATATCCACTTAGCACCACGTT
*
50983271 ACACGTATAACCATGGTATATCCACTTAGCACCA
1 ACATGTATAACCATGGTATATCCACTTAGCACCA
50983305 TGTTTATCCA
Statistics
Matches: 130, Mismatches: 20, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
38 55 0.42
39 1 0.01
40 2 0.02
41 2 0.02
42 3 0.02
43 1 0.01
44 2 0.02
45 3 0.02
46 3 0.02
47 27 0.21
48 31 0.24
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCATGGTATATCCACTTAGCACCACGTT
Found at i:50983254 original size:48 final size:48
Alignment explanation
Indices: 50983145--50983278 Score: 171
Period size: 48 Copynumber: 2.8 Consensus size: 48
50983135 GTTACATGTT
* *
50983145 TAACTATGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
50983192 TAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCATGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * * * * *
50983240 TAATCATGTTATATCCATTTAGCACAACGCTACACGTAT
1 TAACCATGGTATATCCACTTAGCACCACGTTACATGTAT
50983279 AACCATGGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 30 0.40
48 45 0.60
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (48 bp):
TAACCATGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:50990211 original size:44 final size:43
Alignment explanation
Indices: 50990152--50990351 Score: 170
Period size: 44 Copynumber: 4.6 Consensus size: 43
50990142 AATTTCAATA
* *
50990152 TCTGTTCTGCGTGTAAGACCACGTCTGAGACATTGGCATCGATT
1 TCTGTTTTGCATGTAAGACCACGTCTGAGACATTGGCATCG-TT
** * *
50990196 TCTGTTTTGCATGTAAGATGACGTCTAAGACGTTGGCATCGATT
1 TCTGTTTTGCATGTAAGACCACGTCTGAGACATTGGCATCG-TT
* * * * * * *
50990240 TTTATTTTGCGTGTAAGACCATGTATGGGACATTGGCATCGTA
1 TCTGTTTTGCATGTAAGACCACGTCTGAGACATTGGCATCGTT
* ** * *
50990283 TCTGATTT-CATGTAAGACCTTGTCTGGGACAGTGGCATCGTT
1 TCTGTTTTGCATGTAAGACCACGTCTGAGACATTGGCATCGTT
* * *
50990325 ATTTG-ATTACATGTAAGACCACGTCTG
1 -TCTGTTTTGCATGTAAGACCACGTCTG
50990352 GGACGTTAGC
Statistics
Matches: 125, Mismatches: 29, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
42 31 0.25
43 25 0.20
44 69 0.55
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (43 bp):
TCTGTTTTGCATGTAAGACCACGTCTGAGACATTGGCATCGTT
Found at i:50990301 original size:42 final size:43
Alignment explanation
Indices: 50990251--50990355 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 43
50990241 TTATTTTGCG
* * *
50990251 TGTAAGACCATGTATGGGACATTGGCATCG-TATCTGATTTCA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTTATCTGATTACA
* *
50990293 TGTAAGACCTTGTCTGGGACAGTGGCATCGTTATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTTATCTGATTACA
*
50990336 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
50990356 GTTAGCATTG
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 27 0.49
43 28 0.51
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTTATCTGATTACA
Found at i:50993022 original size:42 final size:43
Alignment explanation
Indices: 50992924--50993032 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 43
50992914 CAAGTACAAC
* * *
50992924 GCCGACGTCCCGGAC-GTGGTCTTACATGTAATTCAATATCGAT
1 GCCGATGTCCCAGACAG-GGTCTTACACGTAATTCAATATCGAT
** *
50992967 GCCTCTATCCCAGACAGGGTCTTACACGTAA-TCAGATA-CGAT
1 GCCGATGTCCCAGACAGGGTCTTACACGTAATTCA-ATATCGAT
*
50993009 GCCGATGTCCCAGACATGGTCTTA
1 GCCGATGTCCCAGACAGGGTCTTA
50993033 TATGTAAATC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
42 27 0.50
43 26 0.48
44 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (43 bp):
GCCGATGTCCCAGACAGGGTCTTACACGTAATTCAATATCGAT
Found at i:51011539 original size:55 final size:54
Alignment explanation
Indices: 51011435--51011684 Score: 259
Period size: 55 Copynumber: 4.7 Consensus size: 54
51011425 GGGTTTAAGT
* *
51011435 ATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGG
1 ATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-GTTTCATAAGGCAAGG
* *
51011490 ATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGG
1 ATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-ATAAGGC-AAGG
* * * *
51011546 -TCCCATGTAAGACCATG-CGAAGGCATGGCATGGGTGAG-TTCATAAGGCAAGG
1 ATACCATGTAAGACCATGTC-AAGACATGGCATTGGTAAGTTTCATAAGGCAAGG
* *
51011598 ATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC--AA---AAGG
1 ATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGGCAAGG
* * * *
51011647 ATACCATGTAAGA-CATGACAAGTCATGGAAATGGTAAG
1 ATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
51011685 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 20, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
48 21 0.12
49 17 0.10
52 6 0.04
53 42 0.25
54 15 0.09
55 63 0.38
56 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.22
Consensus pattern (54 bp):
ATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGGCAAGG
Found at i:51011637 original size:108 final size:110
Alignment explanation
Indices: 51011438--51011640 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 110
51011428 TTTAAGTATA
* *
51011438 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATGGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
51011503 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* *
51011548 CCATGTAAGACCATGCGAAGGCATGGC-ATGGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATGGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
51011610 ACCATGTCGAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
51011641 AAAAGGATAC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 50 0.59
109 6 0.07
110 26 0.31
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATGGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:51012170 original size:12 final size:14
Alignment explanation
Indices: 51012140--51012173 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
51012130 GTATAAATTT
51012140 TATATGTATTTATA
1 TATATGTATTTATA
51012154 TATATGTA-TTATA
1 TATATGTATTTATA
51012167 -ATATGTA
1 TATATGTA
51012174 ATAACAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 5 0.25
14 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TATATGTATTTATA
Found at i:51014851 original size:38 final size:38
Alignment explanation
Indices: 51014790--51014947 Score: 169
Period size: 38 Copynumber: 4.1 Consensus size: 38
51014780 ATTTGATGTG
* *
51014790 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTATGTGCTGGAATTA
* *
51014830 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTAGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTATGTGCT-GGAATTA
* * * *
51014868 TATTCGGGTTAAATCCCGCAGACT-TCGTGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTAT-GTGCTGGAATTA
*
51014906 TATCCGGGTTAAATCCCGCAGGCCTA-GTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGG-CTATGTGCTGGAATTA
51014944 TATC
1 TATC
51014948 TAAGTTTAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
37 3 0.03
38 80 0.79
39 10 0.10
40 8 0.08
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTATGTGCTGGAATTA
Found at i:51014976 original size:40 final size:38
Alignment explanation
Indices: 51014806--51014984 Score: 155
Period size: 38 Copynumber: 4.7 Consensus size: 38
51014796 GGCTTAAAGA
* * **
51014806 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGTATTATATCAAGGTTAAAT
* * * *
51014844 CCCGCAGGCTTTGTGCTAGTAATATATTC-GGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATA-TCAAGGTTAAAT
* * **
51014882 CCCGCAGACTTCGTGTTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAAGGTTAAAT
* * *
51014920 CCCGCAGGCCTAGTGCTGGTATTATATCTAAGTTTAAAGT
1 CCCGCAGGCTTCGTGCTGGTATTATATC-AAGGTTAAA-T
* *
51014960 CCCGTAGGCTTCGTGCTGGTGTTAT
1 CCCGCAGGCTTCGTGCTGGTATTAT
51014985 GTTTGGGTTT
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
37 3 0.03
38 83 0.72
39 8 0.07
40 22 0.19
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCAAGGTTAAAT
Found at i:51015966 original size:16 final size:16
Alignment explanation
Indices: 51015945--51015975 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51015935 ATAAATTTGA
51015945 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
51015961 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
51015976 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:51047341 original size:46 final size:46
Alignment explanation
Indices: 51047288--51047424 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
51047278 TATATATAAA
* * * * *
51047288 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCGCATGTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
* *
51047334 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
*
51047380 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATAT
51047425 ATACACTTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
Found at i:51047469 original size:47 final size:47
Alignment explanation
Indices: 51047398--51047729 Score: 477
Period size: 47 Copynumber: 7.1 Consensus size: 47
51047388 ACACATTTCG
* * * * * *
51047398 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
* *
51047445 CATTGGCCATTCTGCCTTGTCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
51047492 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
51047539 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
51047586 CATTGGCCACTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
51047633 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * * **
51047680 CATTTGCCAATCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
51047727 CAT
1 CAT
51047730 AAAATCCTAA
Statistics
Matches: 260, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 259 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:51053914 original size:28 final size:28
Alignment explanation
Indices: 51053869--51053956 Score: 131
Period size: 28 Copynumber: 3.1 Consensus size: 28
51053859 TACCCATTGA
** *
51053869 ATACTCAATGCCTGGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
51053897 ATACTCAATATCTCGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
* *
51053925 ACACTCGATATCTCGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
51053953 ATAC
1 ATAC
51053957 ATAGCCGAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.31, C:0.33, G:0.14, T:0.23
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAGTGCC
Found at i:51053993 original size:40 final size:40
Alignment explanation
Indices: 51053940--51054033 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
51053930 CGATATCTCG
*
51053940 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATATCAAATCA
* * *
51053980 CACACTAAGTGCCATATATAGCCGAAGCTATATCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATATCAAATCA
*
51054020 CACACTATGTGCCA
1 CACACTAAGTGCCA
51054034 CAATTAGCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATATCAAATCA
Found at i:51054042 original size:40 final size:39
Alignment explanation
Indices: 51053937--51054042 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 39
51053927 ACTCGATATC
*
51053937 TCGCACACTAAGTGCCATACA-TAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCA-A-ATTAGCCGAAGCTATATCAAA
* * *
51053977 TCACACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
1 TCGCACACTAAGTGCCAAAT-TAGCCGAAGCTATATCAAA
*
51054017 TCGCACACTATGTGCCACAATTAGCC
1 TCGCACACTAAGTGCCA-AATTAGCC
51054043 AATTTTGTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.02
40 53 0.95
41 2 0.04
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (39 bp):
TCGCACACTAAGTGCCAAATTAGCCGAAGCTATATCAAA
Found at i:51055355 original size:19 final size:18
Alignment explanation
Indices: 51055320--51055361 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
51055310 GTGTGGCTTA
*
51055320 CCCATGTGGGGCCCACGAG
1 CCCATGTGGGCCCCACG-G
51055339 CCCATG-GGGCCCACACGG
1 CCCATGTGGGCCC-CACGG
51055357 CCCAT
1 CCCAT
51055362 TTCAGCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.17, C:0.43, G:0.31, T:0.10
Consensus pattern (18 bp):
CCCATGTGGGCCCCACGG
Found at i:51074441 original size:7 final size:7
Alignment explanation
Indices: 51074413--51074452 Score: 53
Period size: 7 Copynumber: 5.3 Consensus size: 7
51074403 TTTACTTTAC
51074413 TATATATA
1 TATATA-A
51074421 TAATATAA
1 T-ATATAA
51074429 TAATATAA
1 T-ATATAA
51074437 TATATAA
1 TATATAA
51074444 TATATAA
1 TATATAA
51074451 TA
1 TA
51074453 AAACATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 15 0.48
8 11 0.35
9 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TATATAA
Found at i:51074460 original size:17 final size:20
Alignment explanation
Indices: 51074420--51074466 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
51074410 TACTATATAT
*
51074420 ATAATATAATAATATAATAT
1 ATAATATAATAATATAATAC
51074440 ATAATAT-ATAATA-AA-AC
1 ATAATATAATAATATAATAC
51074457 ATAATA-AATA
1 ATAATATAATA
51074467 TCTTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.40
18 2 0.08
19 6 0.24
20 7 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATATAATAATATAATAC
Found at i:51075127 original size:20 final size:19
Alignment explanation
Indices: 51075081--51075127 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
51075071 AGTCTTTTTT
*
51075081 CCTAATTTCTCCTAATTAAG
1 CCTAA-TTCACCTAATTAAG
51075101 -CTAAATTCACCTAATTAAAG
1 CCT-AATTCACCTAATT-AAG
51075121 CCTAATT
1 CCTAATT
51075128 AAACACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.36
Consensus pattern (19 bp):
CCTAATTCACCTAATTAAG
Found at i:51079077 original size:46 final size:46
Alignment explanation
Indices: 51078928--51079084 Score: 171
Period size: 46 Copynumber: 3.4 Consensus size: 46
51078918 TATGGGTAAG
*
51078928 GTGCCGATGCCATGTCCCAGACATGGACTTACACTGACTATCATCTCA
1 GTGCCGATGCCATGTCCCAGACAT-GTCTTACACTGACT-TCATCTCA
* *
51078976 -TAGCCGATG-CATGTCCCAGACATGTCTTAAACTGGCTTACATCTCGA
1 GT-GCCGATGCCATGTCCCAGACATGTCTTACACTGACTT-CATCTC-A
* *
51079023 G-GCTGATG-CATGTCCCAGACATGTCTTACACTAGCACTT-GTCTCA
1 GTGCCGATGCCATGTCCCAGACATGTCTTACACT-G-ACTTCATCTCA
51079068 GTGCCGATGCCATGTCC
1 GTGCCGATGCCATGTCC
51079085 TTAACATTGT
Statistics
Matches: 93, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
45 3 0.03
46 56 0.60
47 24 0.26
48 10 0.11
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GTGCCGATGCCATGTCCCAGACATGTCTTACACTGACTTCATCTCA
Found at i:51081174 original size:40 final size:40
Alignment explanation
Indices: 51081118--51081329 Score: 268
Period size: 40 Copynumber: 5.3 Consensus size: 40
51081108 CATTTGAATG
*
51081118 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
51081158 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
51081198 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
51081238 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
51081278 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
51081318 ATATCC-GGCTAA
1 ATATCCGGGCTAA
51081330 ATTCCGAAGA
Statistics
Matches: 155, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 7 0.05
40 145 0.94
41 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:51087415 original size:40 final size:40
Alignment explanation
Indices: 51087371--51087635 Score: 358
Period size: 40 Copynumber: 6.7 Consensus size: 40
51087361 GCTCCTCGTT
*
51087371 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
51087411 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
51087451 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
51087491 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
51087531 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
51087570 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
51087611 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51087636 CATCATTCAA
Statistics
Matches: 203, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 32 0.16
40 156 0.77
41 13 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:51087626 original size:119 final size:121
Alignment explanation
Indices: 51087371--51087635 Score: 360
Period size: 119 Copynumber: 2.2 Consensus size: 121
51087361 GCTCCTCGTT
*
51087371 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCG
* * *
51087435 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
* * * *
51087491 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGG-GCTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCG
* ** * *
51087554 GAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCA
51087611 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51087636 CATCATTCAA
Statistics
Matches: 128, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
118 3 0.02
119 68 0.53
120 55 0.43
121 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
Found at i:51092701 original size:40 final size:40
Alignment explanation
Indices: 51092645--51092852 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
51092635 CATTTGAATG
*
51092645 ATATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
51092685 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
51092725 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
51092765 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * *
51092805 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
51092845 ATATCCGG
1 ATATCCGG
51092853 CTAAATTCCG
Statistics
Matches: 153, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.01
40 148 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:51097590 original size:17 final size:17
Alignment explanation
Indices: 51097553--51097610 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 17
51097543 TTATTCTTCA
51097553 AAAGGCAAAAATACCAAAAG
1 AAAGG-AAAAATA--AAAAG
51097573 AAAGGAAAAATAAAAAG
1 AAAGGAAAAATAAAAAG
*
51097590 AAAGGAAAAAGAAAAAG
1 AAAGGAAAAATAAAAAG
51097607 AAAG
1 AAAG
51097611 CTACATTCGG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
17 25 0.68
19 7 0.19
20 5 0.14
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.03
Consensus pattern (17 bp):
AAAGGAAAAATAAAAAG
Found at i:51098912 original size:43 final size:43
Alignment explanation
Indices: 51098851--51099091 Score: 365
Period size: 43 Copynumber: 5.6 Consensus size: 43
51098841 TATATGTGAT
*
51098851 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGCC
1 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
* *
51098894 ATCAATATGTCATTATGTGTAAGACTACGTCTGGGATGTTGGC
1 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
*
51098937 ATCAATATGTCATTATGTGTAAGACCACGTCTGGGATGTTGGC
1 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
* *
51098980 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
1 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
* * **
51099023 ATCGATATGTAATTATGTGTAAGACCACGTTTGGGACATTGGC
1 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
* * *
51099066 ATCGATATGTGATTACGTGTAAGACC
1 ATCAATATGTAATTATGTGTAAGACC
51099092 CTGTGTAACA
Statistics
Matches: 187, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 187 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
Found at i:51100384 original size:42 final size:43
Alignment explanation
Indices: 51100284--51100403 Score: 129
Period size: 42 Copynumber: 2.8 Consensus size: 43
51100274 AACAAGTACA
* * * *
51100284 ATGCCGACGTCCCAGA-TGTGGTCTTACATGTAATTCAATATCG
1 ATGCCGATGTCCCAGACAG-GGTCTTACACGTAAATCAATATCG
**
51100327 ATGCCTCTGTCCCAGACAGGGTCTTACACG-AAATCAGATA-CG
1 ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATCA-ATATCG
* *
51100369 ATGCCGATGTCCCAGACATGGTCTTATACGTAAAT
1 ATGCCGATGTCCCAGACAGGGTCTTACACGTAAAT
51100404 ATCAATCAAG
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 33 0.52
43 30 0.47
44 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATCAATATCG
Found at i:51113165 original size:33 final size:34
Alignment explanation
Indices: 51113119--51113188 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
51113109 GCAATATTAG
*
51113119 TGTGGGCCCTAGCCCAATGCTGTACAGTAT-CAA
1 TGTGGGCCCTAGCCCAATGCAGTACAGTATCCAA
** * *
51113152 TGTGGGCTTTAGCCCATTTCAGTACAGTATCCAA
1 TGTGGGCCCTAGCCCAATGCAGTACAGTATCCAA
51113186 TGT
1 TGT
51113189 ACATACAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
33 25 0.81
34 6 0.19
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (34 bp):
TGTGGGCCCTAGCCCAATGCAGTACAGTATCCAA
Found at i:51116158 original size:27 final size:27
Alignment explanation
Indices: 51116127--51116199 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
51116117 TAGTTTACAA
* *
51116127 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
*
51116154 AATTACTAAAATTCCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
51116181 AATTA-TCAAAATACCCCTG
1 AATTACT-AAAATACCCCTG
51116200 GTTTGCAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGTAGGGTAG
Found at i:51116211 original size:27 final size:27
Alignment explanation
Indices: 51116181--51116298 Score: 117
Period size: 27 Copynumber: 4.7 Consensus size: 27
51116171 TGTAGGGTAG
* *
51116181 AATTATCAAAATACCCCTGGTTTGCAA
1 AATTACCAAAATACCCCTGGTTTACAA
51116208 AATTACC-AAA-A----T--TTTACAA
1 AATTACCAAAATACCCCTGGTTTACAA
* * **
51116227 AATTACCAAAACACCCATGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTACAA
*
51116254 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGGTTTACAA
51116281 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
51116299 AATTTGTGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
19 13 0.18
20 3 0.04
21 2 0.03
25 2 0.03
26 3 0.04
27 51 0.69
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTACAA
Found at i:51116288 original size:54 final size:54
Alignment explanation
Indices: 51116220--51116326 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
51116210 TTACCAAAAT
**
51116220 TTTACAAAATTACCAAAACACCCATGGTTTGTAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACCAAAACACCCATAATTTGTAAAATTACCAAAATACCCTTGG
* * * *
51116274 TTTACAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTTG
1 TTTACAAAATTACCAAAACACCCATAATTTGTAAAATTACCAAAATACCCTTG
51116327 TAGGGTAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (54 bp):
TTTACAAAATTACCAAAACACCCATAATTTGTAAAATTACCAAAATACCCTTGG
Found at i:51116310 original size:27 final size:27
Alignment explanation
Indices: 51116225--51116323 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 27
51116215 AAAATTTTAC
*
51116225 AAAATTACCAAAACACCCATGGTTTGT
1 AAAATTACCAAAATACCCATGGTTTGT
* **
51116252 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCATGGTTTGT
* **
51116279 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCATGGTTTGT
* *
51116306 GAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
51116324 TTGTAGGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCATGGTTTGT
Found at i:51116336 original size:26 final size:27
Alignment explanation
Indices: 51116250--51116421 Score: 129
Period size: 27 Copynumber: 6.4 Consensus size: 27
51116240 CCCATGGTTT
*
51116250 GTAAAATTACCAAAATACCCTTG--GT
1 GTAAAATTACCAAAATACCCTTGTAGG
* * * **
51116275 TTACAAAATTACCAAAATACCCCT-AATTT
1 GT--AAAATTACCAAAATACCCTTGTA-GG
* *
51116304 GTGAAATTACTAAAATACCCTTGTAGG
1 GTAAAATTACCAAAATACCCTTGTAGG
* ** *
51116331 GT-AAATTACCGAAATACTATTGTAAG
1 GTAAAATTACCAAAATACCCTTGTAGG
* **
51116357 G-AGAATTACTGAAATACCCTTGTAGG
1 GTAAAATTACCAAAATACCCTTGTAGG
* *
51116383 GTAAAATTACCAAGATACCCTTGTGGG
1 GTAAAATTACCAAAATACCCTTGTAGG
51116410 GTAAAATTACCA
1 GTAAAATTACCA
51116422 TTTTGCCCCT
Statistics
Matches: 114, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
25 1 0.01
26 40 0.35
27 70 0.61
28 1 0.01
29 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCTTGTAGG
Found at i:51116400 original size:27 final size:26
Alignment explanation
Indices: 51116307--51116421 Score: 117
Period size: 26 Copynumber: 4.3 Consensus size: 26
51116297 CTAATTTGTG
*
51116307 AAATTACTAAAATACCCTTGTAGGGT-
1 AAATTAC-CAAATACCCTTGTAGGGTA
** *
51116333 AAATTACCGAAATACTATTGTAAGG-A
1 AAATTACC-AAATACCCTTGTAGGGTA
* *
51116359 GAATTACTGAAATACCCTTGTAGGGTA
1 AAATTAC-CAAATACCCTTGTAGGGTA
*
51116386 AAATTACCAAGATACCCTTGTGGGGTA
1 AAATTACCAA-ATACCCTTGTAGGGTA
51116413 AAATTACCA
1 AAATTACCA
51116422 TTTTGCCCCT
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
26 41 0.57
27 31 0.43
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (26 bp):
AAATTACCAAATACCCTTGTAGGGTA
Found at i:51116682 original size:24 final size:25
Alignment explanation
Indices: 51116625--51116682 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
51116615 AGGAAGTGCG
51116625 AAAAG-GGCTTTGCCCTAGTTTACC
1 AAAAGAGGCTTTGCCCTAGTTTACC
**
51116649 AAAA-AGGGCTTTGCCCTAG-TTATT
1 AAAAGA-GGCTTTGCCCTAGTTTACC
51116673 AAAAGAGGCT
1 AAAAGAGGCT
51116683 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCTAGTTTACC
Found at i:51117985 original size:40 final size:40
Alignment explanation
Indices: 51117925--51118011 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
51117915 AATGCCTCGT
**
51117925 ACACTAAGTGCCATACATAGCTGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCGC
* * *
51117965 ACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCGC
1 ACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCGC
51118005 ACACTAA
1 ACACTAA
51118012 ATGACACAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCGC
Found at i:51122138 original size:30 final size:30
Alignment explanation
Indices: 51122104--51122200 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
51122094 TAAACTAAAA
51122104 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
51122134 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
51122164 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
51122194 TGAGCTA
1 TGAGCTA
51122201 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:51124482 original size:30 final size:30
Alignment explanation
Indices: 51124411--51124493 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
51124401 CTTTTGTTTC
* *
51124411 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
51124442 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
51124471 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
51124494 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:51124493 original size:18 final size:18
Alignment explanation
Indices: 51124444--51124499 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
51124434 CACTCTCAAA
* *
51124444 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
51124461 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
51124479 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
51124498 TT
1 TT
51124500 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:51124500 original size:12 final size:12
Alignment explanation
Indices: 51124469--51124493 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51124459 TTTTTCAATC
51124469 TCATTTTCTTTT
1 TCATTTTCTTTT
51124481 TCATTTTCTTTT
1 TCATTTTCTTTT
51124493 T
1 T
51124494 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:51124511 original size:12 final size:12
Alignment explanation
Indices: 51124496--51124526 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51124486 TTCTTTTTGC
*
51124496 TTTTCAAAGGCT
1 TTTTCAAACGCT
51124508 TTTTCAAACGCT
1 TTTTCAAACGCT
51124520 TTTTCAA
1 TTTTCAA
51124527 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAACGCT
Found at i:51124622 original size:12 final size:12
Alignment explanation
Indices: 51124605--51124636 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51124595 TCATTTTATT
51124605 CTTTTTCTTTTG
1 CTTTTTCTTTTG
51124617 CTTTTTCTTTTG
1 CTTTTTCTTTTG
51124629 --TTTTCTTT
1 CTTTTTCTTT
51124637 GATTTCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.40
12 12 0.60
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (12 bp):
CTTTTTCTTTTG
Found at i:51124637 original size:21 final size:22
Alignment explanation
Indices: 51124607--51124647 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
51124597 ATTTTATTCT
* *
51124607 TTTTCTTTTGCTTTTTCTTTTG
1 TTTTCTTTTGATTTCTCTTTTG
51124629 TTTTC-TTTGATTTCTCTTT
1 TTTTCTTTTGATTTCTCTTT
51124648 ACAAGAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.02, C:0.15, G:0.07, T:0.76
Consensus pattern (22 bp):
TTTTCTTTTGATTTCTCTTTTG
Found at i:51129527 original size:30 final size:30
Alignment explanation
Indices: 51129456--51129538 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
51129446 CTTTTGTTTC
* *
51129456 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
51129487 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
51129516 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
51129539 GCTTTTCAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:51129538 original size:18 final size:18
Alignment explanation
Indices: 51129489--51129544 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
51129479 CACTCTCAAA
* *
51129489 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
51129506 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
51129524 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
51129543 TT
1 TT
51129545 CAATGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:51129545 original size:12 final size:12
Alignment explanation
Indices: 51129514--51129538 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51129504 TTTTTCAATC
51129514 TCATTTTCTTTT
1 TCATTTTCTTTT
51129526 TCATTTTCTTTT
1 TCATTTTCTTTT
51129538 T
1 T
51129539 GCTTTTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:51129659 original size:6 final size:5
Alignment explanation
Indices: 51129619--51129681 Score: 51
Period size: 5 Copynumber: 12.0 Consensus size: 5
51129609 CTCTTGCCTC
51129619 TCTTT TCTTT T-TATT TCATTT TCATTT TC--T TCTTT TGCTTT TGCTTTT
1 TCTTT TCTTT TCT-TT TC-TTT TC-TTT TCTTT TCTTT T-CTTT T-C-TTT
51129667 TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT
51129682 ATTTTCTCTT
Statistics
Matches: 51, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
3 3 0.06
4 1 0.02
5 24 0.47
6 18 0.35
7 5 0.10
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:51132262 original size:30 final size:30
Alignment explanation
Indices: 51132228--51132324 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
51132218 TAAACTAAAA
*
51132228 TGAGCTAAGCTTTAGGTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
51132258 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
51132288 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
51132318 TGAGCTA
1 TGAGCTA
51132325 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:51132403 original size:9 final size:9
Alignment explanation
Indices: 51132389--51132413 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
51132379 TTGAGCTGGA
51132389 TGGAGCTCG
1 TGGAGCTCG
51132398 TGGAGCTCG
1 TGGAGCTCG
51132407 TGGAGCT
1 TGGAGCT
51132414 GGAAGCGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.20, G:0.44, T:0.24
Consensus pattern (9 bp):
TGGAGCTCG
Found at i:51132732 original size:21 final size:21
Alignment explanation
Indices: 51132708--51132807 Score: 63
Period size: 21 Copynumber: 5.0 Consensus size: 21
51132698 AAGTCTAGCT
*
51132708 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
51132729 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
* *
51132747 AAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAACG
* *
51132768 GAAGC-C-CGAAG-G-TTAACT
1 GAAGCACAC-AAGTGCTAAACG
*
51132786 GAAGCACACAAGTGCTGAACG
1 GAAGCACACAAGTGCTAAACG
51132807 G
1 G
51132808 GAACCCGAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 20
0.66 0.11 0.22
Matches are distributed among these distances:
18 16 0.27
19 13 0.22
20 13 0.22
21 17 0.29
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.13
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:51132852 original size:39 final size:39
Alignment explanation
Indices: 51132690--51132829 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
51132680 ATCGTGATTT
* * *
51132690 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
51132729 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
51132768 GAAGCCCGAAGGTTAACTGAAGCACACAAGTGCTGAACGG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAC-G
51132808 GAA-CCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
51132830 TCATCAGAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 86 0.96
40 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:51134020 original size:21 final size:21
Alignment explanation
Indices: 51133996--51134037 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51133986 CTTTTTAATT
51133996 AATTGACTAACCAAACGTTAA
1 AATTGACTAACCAAACGTTAA
* * *
51134017 AATTGTCTAACGAAACTTTAA
1 AATTGACTAACCAAACGTTAA
51134038 TACTAACTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (21 bp):
AATTGACTAACCAAACGTTAA
Found at i:51137495 original size:21 final size:21
Alignment explanation
Indices: 51137471--51137574 Score: 85
Period size: 19 Copynumber: 5.2 Consensus size: 21
51137461 AAGTCTAGCT
*
51137471 GAAGCACATAAGTGCTAAATG
1 GAAGCACACAAGTGCTAAATG
* *
51137492 GAAGCA-AGAAG-GCTAACT-
1 GAAGCACACAAGTGCTAAATG
* * *
51137510 AAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAATG
* * *
51137531 GAAGCTC-GAAG-GCTAACT-
1 GAAGCACACAAGTGCTAAATG
51137549 GAAGCACACAAGTGCTAAATG
1 GAAGCACACAAGTGCTAAATG
51137570 GAAGC
1 GAAGC
51137575 CCGAAGGCTA
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
18 11 0.18
19 17 0.28
20 17 0.28
21 16 0.26
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.14
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAATG
Found at i:51137515 original size:39 final size:39
Alignment explanation
Indices: 51137453--51137592 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
51137443 ATTGTGATTT
* * * *
51137453 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATG
1 GAAGCACGAAGGCTAACTGAAGCACACAAGTGCTAAATG
* * * *
51137492 GAAGCAAGAAGGCTAACTAAAGCACACAAGTGTTAAACG
1 GAAGCACGAAGGCTAACTGAAGCACACAAGTGCTAAATG
*
51137531 GAAGCTCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
1 GAAGCACGAAGGCTAACTGAAGCACACAAGTGCTAAATG
*
51137570 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCACGAAGGCTAACTGAAGC
51137593 TCATCAGAGC
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCACGAAGGCTAACTGAAGCACACAAGTGCTAAATG
Found at i:51138291 original size:16 final size:16
Alignment explanation
Indices: 51138272--51138302 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51138262 TTCTATTAAA
*
51138272 ATCACTTAATAAAATC
1 ATCACATAATAAAATC
51138288 ATCACATAATAAAAT
1 ATCACATAATAAAAT
51138303 AAGAACTTAA
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:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (16 bp):
ATCACATAATAAAATC
Found at i:51139989 original size:112 final size:112
Alignment explanation
Indices: 51139787--51140011 Score: 396
Period size: 112 Copynumber: 2.0 Consensus size: 112
51139777 AGCCTTGGAG
*
51139787 TTAGTTTATTTTGAAAGTGTATGTATATAAGCCTTGCAAAAATGGCTTAACTTCTTTGCTTGAAA
1 TTAGGTTATTTTGAAAGTGTATGTATATAAGCCTTGCAAAAATGGCTTAACTTCTTTGCTTGAAA
**
51139852 TTGGTTATGTTTGATTATGGTTTGAGTTCATATTGGTTATAATGTCA
66 CCGGTTATGTTTGATTATGGTTTGAGTTCATATTGGTTATAATGTCA
* *
51139899 TTAGGTTATTTTGAAAGTGTATGTATATAAGCCTTGCCAAAATGGCTTAACTTTTTTGCTTGAAA
1 TTAGGTTATTTTGAAAGTGTATGTATATAAGCCTTGCAAAAATGGCTTAACTTCTTTGCTTGAAA
*
51139964 CCGGTTATGTTTGATTATGGTTTGAGTTCATTTTGGTTATAATGTCA
66 CCGGTTATGTTTGATTATGGTTTGAGTTCATATTGGTTATAATGTCA
51140011 T
1 T
51140012 GTGCCATGGA
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (112 bp):
TTAGGTTATTTTGAAAGTGTATGTATATAAGCCTTGCAAAAATGGCTTAACTTCTTTGCTTGAAA
CCGGTTATGTTTGATTATGGTTTGAGTTCATATTGGTTATAATGTCA
Found at i:51141759 original size:49 final size:49
Alignment explanation
Indices: 51141687--51141880 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 49
51141677 GCCGAAGCTA
* *
51141687 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* *
51141736 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** * * *
51141786 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
51141834 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
51141881 TCACAATAGA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 39 0.32
50 40 0.33
51 40 0.33
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:51141871 original size:101 final size:99
Alignment explanation
Indices: 51141698--51141884 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 99
51141688 CTGGTACGCA
* *
51141698 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
51141763 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
51141797 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
51141861 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
51141885 AATAGATCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.38
101 44 0.56
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:51144269 original size:20 final size:20
Alignment explanation
Indices: 51144225--51144269 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
51144215 AGTGGGGGAA
*
51144225 AAATTTGATTTTGTTTAACT
1 AAATTTGATTTTATTTAACT
*
51144245 TAATTTAGATTTTATTT-ACT
1 AAATTT-GATTTTATTTAACT
51144265 AAATT
1 AAATT
51144270 ACCTATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (20 bp):
AAATTTGATTTTATTTAACT
Found at i:51144295 original size:13 final size:13
Alignment explanation
Indices: 51144277--51144303 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51144267 ATTACCTATA
51144277 TAACCTTTATTAT
1 TAACCTTTATTAT
51144290 TAACCTTTATTAT
1 TAACCTTTATTAT
51144303 T
1 T
51144304 TACTAAATTA
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:0.00, T:0.56
Consensus pattern (13 bp):
TAACCTTTATTAT
Found at i:51150731 original size:40 final size:40
Alignment explanation
Indices: 51150676--51150993 Score: 512
Period size: 40 Copynumber: 8.0 Consensus size: 40
51150666 ATTGTTAGAT
* *
51150676 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
51150716 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
51150756 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * *
51150796 GTGCGAGTTATTAAATCCGGGTTAAGCCCCGAAGGCCTTT
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
51150836 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
51150876 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
51150916 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * * * *
51150955 GTGTGAGCTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
51150994 TGAACGAGGA
Statistics
Matches: 260, Mismatches: 18, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
39 33 0.13
40 227 0.87
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
Found at i:51153574 original size:48 final size:48
Alignment explanation
Indices: 51153503--51153596 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
51153493 TTAGAGGTTA
* *
51153503 CATTGAGTTGGCTTCAAGCCATGATATTGGCACTTCGGGTGTGAGATT
1 CATTGAGTTGGATTCAAGCCATGATATTGGCACTTAGGGTGTGAGATT
*
51153551 CATTGAGTTGGATTCAGGCCATGATATTGGCACTTAGGGTGTGAGA
1 CATTGAGTTGGATTCAAGCCATGATATTGGCACTTAGGGTGTGAGA
51153597 CTTCCGAGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (48 bp):
CATTGAGTTGGATTCAAGCCATGATATTGGCACTTAGGGTGTGAGATT
Found at i:51166934 original size:46 final size:46
Alignment explanation
Indices: 51166884--51167056 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
51166874 TGATTGAGCA
*
51166884 TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
51166930 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51166975 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
51167023 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
51167057 GGGGAGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51167040 original size:93 final size:93
Alignment explanation
Indices: 51166881--51167051 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
51166871 GGATGATTGA
* *
51166881 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
51166946 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
51166974 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
51167039 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51167052 ACTTAGGGGA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51174571 original size:27 final size:26
Alignment explanation
Indices: 51174531--51174582 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
51174521 GCGAGGCTGC
*
51174531 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
51174557 CAGATATATGTGACGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
51174583 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:51176218 original size:27 final size:26
Alignment explanation
Indices: 51176178--51176229 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
51176168 GCGAGGCTGC
*
51176178 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
51176204 CAGATATATGTGACGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
51176230 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:51178502 original size:26 final size:27
Alignment explanation
Indices: 51178473--51178526 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
51178463 TCACACAAGT
*
51178473 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
51178499 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
51178526 T
1 T
51178527 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:51178559 original size:27 final size:27
Alignment explanation
Indices: 51178529--51178618 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
51178519 GGCAAAATGG
* *
51178529 TAATTTTACCCCACAAGGGTATCTTGA
1 TAATTCTACCCTACAAGGGTATCTTGA
* * *
51178556 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATCTTGA
*
51178583 TAATTCTACCCTACAAGGGTAT-TTCGG
1 TAATTCTACCCTACAAGGGTATCTT-GA
51178610 TAATTCTAC
1 TAATTCTAC
51178619 AAATTATCCA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.04
27 54 0.96
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATCTTGA
Found at i:51178574 original size:54 final size:54
Alignment explanation
Indices: 51178516--51178618 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
51178506 TTAACACCCT
*
51178516 AGGGGCAAAATGGTAATTTTACCCCACAAGGGTATCTT-GATAATTCTACCCTAC
1 AGGGGCAAAATGGTAATTCTACCCCACAAGGGTAT-TTCGATAATTCTACCCTAC
* *** * *
51178570 AGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTAC
1 AGGGGCAAAATGGTAATTCTACCCCACAAGGGTATTTCGATAATTCTAC
51178619 AAATTATCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.05
54 39 0.95
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (54 bp):
AGGGGCAAAATGGTAATTCTACCCCACAAGGGTATTTCGATAATTCTACCCTAC
Found at i:51181773 original size:20 final size:20
Alignment explanation
Indices: 51181719--51181775 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
51181709 GAGCTGGAGT
* *
51181719 TGAGCTGGATGTGAACTTGT
1 TGAGCTGGATGTGAGCTTGC
**
51181739 TGAGCTGGACCTGAGCTTGC
1 TGAGCTGGATGTGAGCTTGC
*
51181759 TGAGCTGGTTGTGAGCT
1 TGAGCTGGATGTGAGCT
51181776 GGACGAGCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.16, C:0.16, G:0.37, T:0.32
Consensus pattern (20 bp):
TGAGCTGGATGTGAGCTTGC
Found at i:51183138 original size:47 final size:46
Alignment explanation
Indices: 51183067--51183383 Score: 179
Period size: 47 Copynumber: 6.7 Consensus size: 46
51183057 GGGGTAGAAT
* * *
51183067 GCCGATGCCATGTCACAAATATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATCAA
* * * * *
51183114 GTCGATGCCATGTCCTAGACATGGTCTTACATTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC---ATC-AA
* * * * * *
51183163 GCCGACGCGATGTCCCAAACATGGTCTTACATTAGCTC-TC-GCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCA-A
* * * *
51183208 TCCGTGCTAATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TCTTA
1 GCC--G---ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATC-AA
* * *
51183259 GCCGAT-ACATGTCCCAGACAT-GTCTTAGACTAGCTC-TCATTTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA--TCAA
*
51183304 TGCCGATGCCACGTCCCAGACATGGTCTTACACTGGCTCA-CAT-AA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCAA
*
51183349 TGTGGCTGATG-CATGTCCCAGACAT-GTCTTACACT
1 ----GCCGATGCCATGTCCCAGACATGGTCTTACACT
51183384 AGCATACAAA
Statistics
Matches: 206, Mismatches: 41, Indels: 47
0.70 0.14 0.16
Matches are distributed among these distances:
43 2 0.01
44 12 0.06
45 21 0.10
46 23 0.11
47 57 0.28
48 24 0.12
49 34 0.17
50 27 0.13
51 6 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCAA
Done.