Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 187 of 770
Found at i:55966041 original size:40 final size:40
Alignment explanation
Indices: 55965914--55966209 Score: 390
Period size: 40 Copynumber: 7.5 Consensus size: 40
55965904 AAGCCAAGTA
* * *
55965914 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
55965952 CCTTCGGGACATAG-CCGGATATAGTAACTCGTAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55965990 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
55966030 CCTTCGGGACTTAGCCCGGATGTAATAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55966070 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
55966110 CCTTCGGGACTTAGCCCGGATGTAATAACTCACGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55966150 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
55966191 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55966210 TTATCATCCA
Statistics
Matches: 230, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
37 1 0.00
38 44 0.19
39 19 0.08
40 140 0.61
41 24 0.10
42 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55969793 original size:28 final size:27
Alignment explanation
Indices: 55969727--55969796 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
55969717 ATAGTGAGTC
*
55969727 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
*
55969754 CGCACACTTAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
55969782 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55969797 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:55971596 original size:19 final size:19
Alignment explanation
Indices: 55971572--55971608 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
55971562 ACTGAGTACT
55971572 TTAGAAAAT-TCTTCAACAC
1 TTAGAAAATCT-TTCAACAC
55971591 TTAGAAAATCTTTCAACA
1 TTAGAAAATCTTTCAACA
55971609 AAATAGGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (19 bp):
TTAGAAAATCTTTCAACAC
Found at i:55978479 original size:49 final size:49
Alignment explanation
Indices: 55978422--55978546 Score: 187
Period size: 49 Copynumber: 2.6 Consensus size: 49
55978412 CTGGTACGCA
* * * *
55978422 TAGTAGCCTGCACATAGTCCTACACATGTGACGAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
* *
55978471 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
*
55978520 TAGTAACCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
55978547 CTGATACACG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
Found at i:55980505 original size:71 final size:71
Alignment explanation
Indices: 55980421--55980584 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55980411 CGATTTGTCT
55980421 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
55980486 CTTTCA
66 CTTTCA
55980492 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
55980557 CTTTCA
66 CTTTCA
55980563 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
55980585 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:55980622 original size:71 final size:70
Alignment explanation
Indices: 55980421--55980618 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
55980411 CGATTTGTCT
* * * *
55980421 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
55980486 CTTTCA
65 CTTTCA
* * * *
55980492 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
55980557 CTTTCA
65 CTTTCA
* *
55980563 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
55980619 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:55995009 original size:40 final size:40
Alignment explanation
Indices: 55994943--55995109 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
55994933 AAATTGAATG
* * *
55994943 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
55994982 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
55995022 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
55995062 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
55995102 ATATCCGG
1 ATATCCGG
55995110 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:55997917 original size:29 final size:29
Alignment explanation
Indices: 55997884--55998016 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
55997874 GTGACGAGAT
55997884 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
55997913 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
55997942 TGGCACTAAGTGTGCATGCTGGAAAAAATA
1 TGGCACTAAGTGTGCGTGCTGG-AAATATA
* ** * * ***
55997972 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
55998001 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
55998017 GGCTTAAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 67 0.75
30 22 0.25
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:55998006 original size:59 final size:58
Alignment explanation
Indices: 55997880--55998015 Score: 150
Period size: 59 Copynumber: 2.3 Consensus size: 58
55997870 TACGGTGACG
* * * *
55997880 AGAT-TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
55997937 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
55997996 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
55998016 GGGCTTAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 3 0.05
58 21 0.32
59 40 0.62
60 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:56006000 original size:29 final size:29
Alignment explanation
Indices: 56005967--56006049 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
56005957 GTGACGAGAT
*
56005967 TGGCACTAAGTGTGGATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
56005996 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
56006025 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
56006050 AAAATACGGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:56006070 original size:31 final size:29
Alignment explanation
Indices: 56005968--56006062 Score: 127
Period size: 29 Copynumber: 3.2 Consensus size: 29
56005958 TGACGAGATT
* * *
56005968 GGCACTAAGTGTGGATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
* *
56005997 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
56006026 GGCACTAAGTGTGCATGCTGGAAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG--AAAAATAC
56006057 GGCACT
1 GGCACT
56006063 GGGTGTGCGA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 49 0.80
31 12 0.20
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:56006090 original size:60 final size:58
Alignment explanation
Indices: 56005963--56006099 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 58
56005953 TACGGTGACG
* * * *
56005963 AGAT-TGGCACTAAGTGTGGATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
56006020 ATATATGGCACTAAGTGTGCATGCTGGAAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG--AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
56006080 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
56006100 GGGCTTAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
57 3 0.05
58 21 0.32
60 40 0.62
61 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:56007630 original size:66 final size:66
Alignment explanation
Indices: 56007543--56007695 Score: 209
Period size: 66 Copynumber: 2.3 Consensus size: 66
56007533 GTGTGCCAGG
* * *
56007543 CCGTGTTCTAGGCCGTCTGAAAACTAAAGGGTATACTGACTTGTGTCACACGGTCAAACCCCAA-
1 CCGTGTGCTAGGCCGTGTGAAAACTAAAGGGTATACTGACTTGTGCCACACGGTCAAACCCCAAG
56007607 T
66 T
* * **
56007608 CCCGTGTGCTAGGCCTTGTGAAAACTGAAGGGTATACTGACTTGTGCCACACGGTCATGCCCCAA
1 -CCGTGTGCTAGGCCGTGTGAAAACTAAAGGGTATACTGACTTGTGCCACACGGTCAAACCCCAA
56007673 GT
65 GT
* *
56007675 CCATGTGCTAGGTCGTGTGAA
1 CCGTGTGCTAGGCCGTGTGAA
56007696 GCTACTGACT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
66 75 0.99
67 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (66 bp):
CCGTGTGCTAGGCCGTGTGAAAACTAAAGGGTATACTGACTTGTGCCACACGGTCAAACCCCAAG
T
Found at i:56007821 original size:27 final size:27
Alignment explanation
Indices: 56007784--56007837 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
56007774 TTGGAACCAC
56007784 AAAACTAGGGTCAAAATGTTTATTTTA
1 AAAACTAGGGTCAAAATGTTTATTTTA
56007811 AAAACTAGGGTCAAAATGTTTATTTTA
1 AAAACTAGGGTCAAAATGTTTATTTTA
56007838 TTATTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
AAAACTAGGGTCAAAATGTTTATTTTA
Found at i:56009177 original size:37 final size:37
Alignment explanation
Indices: 56009120--56009222 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
56009110 CGAATAGTCC
* *
56009120 CCACACGTAGTTATCAGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
56009157 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
56009194 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
56009223 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:56009423 original size:48 final size:48
Alignment explanation
Indices: 56009363--56009700 Score: 577
Period size: 48 Copynumber: 7.0 Consensus size: 48
56009353 ATATACACAC
* * *
56009363 ATCTCTTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
56009411 ATCTCATGCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
56009459 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
56009507 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56009555 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
56009603 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
56009651 ATCTCATACATATATCACACTAGCCATTTGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
56009699 AT
1 AT
56009701 ATTTATCTTG
Statistics
Matches: 275, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 275 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:56014313 original size:16 final size:16
Alignment explanation
Indices: 56014294--56014324 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56014284 CTTCTTCACT
56014294 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
56014310 TACTTACTTACTTAA
1 TACTCACTTACTTAA
56014325 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:56014330 original size:20 final size:20
Alignment explanation
Indices: 56014291--56014330 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
56014281 AAACTTCTTC
* *
56014291 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
56014311 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
56014331 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:56014642 original size:53 final size:54
Alignment explanation
Indices: 56014580--56014760 Score: 210
Period size: 53 Copynumber: 3.4 Consensus size: 54
56014570 CATTGCCACG
56014580 TGGTCTTACATGGTATCCTTGCCTTATG-AACTTACCAATGCCATGCCTTGGCA
1 TGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGCCTTGGCA
* * * * *
56014633 TGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGTCTTGACA
1 TGGTCTTACATGGTATCC-TTGCCTTAT-GAAACTTACCAATGCCATGCCTTGGCA
* * * *
56014688 TGGTATTACATGAT-TTCTTGCCTTA-GAAACCTTACAAATTGCCATGCCTTGGCA
1 TGGTCTTACATGGTATCCTTGCCTTATGAAA-CTTACCAA-TGCCATGCCTTGGCA
56014742 TGGTCTT-CATGGTATCCTT
1 TGGTCTTACATGGTATCCTT
56014761 AAACCCTAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
52 5 0.05
53 34 0.32
54 32 0.30
55 34 0.32
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (54 bp):
TGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGCCTTGGCA
Found at i:56018068 original size:28 final size:27
Alignment explanation
Indices: 56018004--56018074 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
56017994 TATAGTGAGT
*
56018004 TCGCACACTCAGTGCTATATAATCAAC
1 TCGCACACTTAGTGCTATATAATCAAC
56018031 TCGCACACTTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATC-AAC
56018059 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
56018075 GTACAAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
TCGCACACTTAGTGCTATATAATCAAC
Found at i:56029405 original size:25 final size:25
Alignment explanation
Indices: 56029346--56029406 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
56029336 TTTAATTCAC
* *
56029346 AAAATTTATTAATAATTCAATAAACT
1 AAAATTT-TAAATAATTCAATAAAAT
* *
56029372 AAAAATTTAAATAATTGAATAAAAT
1 AAAATTTTAAATAATTCAATAAAAT
*
56029397 TAAATTTTAA
1 AAAATTTTAA
56029407 GAGAAAACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 23 0.79
26 6 0.21
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAATTTTAAATAATTCAATAAAAT
Found at i:56033735 original size:23 final size:24
Alignment explanation
Indices: 56033696--56033742 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
56033686 ATATAAAATA
*
56033696 GTTAAATTATATAACATGACATAT
1 GTTAAAATATATAACATGACATAT
*
56033720 GTTAAAAT-TATAACATTACATAT
1 GTTAAAATATATAACATGACATAT
56033743 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (24 bp):
GTTAAAATATATAACATGACATAT
Found at i:56037558 original size:9 final size:9
Alignment explanation
Indices: 56037544--56037650 Score: 97
Period size: 9 Copynumber: 11.6 Consensus size: 9
56037534 ATGTATTAGT
56037544 TAAGTTATG
1 TAAGTTATG
56037553 TAAGTTGTTATG
1 TAA---GTTATG
*
56037565 TACGTTATG
1 TAAGTTATG
*
56037574 TGAGTTATG
1 TAAGTTATG
*
56037583 TAAATTATG
1 TAAGTTATG
56037592 TAAGTTATG
1 TAAGTTATG
*
56037601 TGAGTTATG
1 TAAGTTATG
* *
56037610 CAAGTTATA
1 TAAGTTATG
*
56037619 TGAGTTATG
1 TAAGTTATG
*
56037628 TATGTTATG
1 TAAGTTATG
* *
56037637 TAATTTATT
1 TAAGTTATG
56037646 TAAGT
1 TAAGT
56037651 AATGATCAAT
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
9 68 0.89
12 8 0.11
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:56038492 original size:23 final size:23
Alignment explanation
Indices: 56038466--56038515 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
56038456 GTTCAAGTTT
56038466 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
* *
56038489 ATTTAAAGTGCTGCAATTCATAT
1 ATTTAAAGGGCTGCAATTCATAC
56038512 ATTT
1 ATTT
56038516 GATTAATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:56040284 original size:29 final size:29
Alignment explanation
Indices: 56040251--56040324 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
56040241 GTGACGAGAT
56040251 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
56040280 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
56040309 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56040325 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:56040340 original size:29 final size:29
Alignment explanation
Indices: 56040308--56040383 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
56040298 CTGGAAATAT
* *
56040308 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
56040337 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
56040366 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
56040384 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:56047482 original size:29 final size:29
Alignment explanation
Indices: 56047449--56047522 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
56047439 GTGACGAGAT
56047449 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
56047478 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
56047507 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56047523 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:56047538 original size:29 final size:29
Alignment explanation
Indices: 56047506--56047581 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
56047496 CTGGAAATAT
* *
56047506 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
56047535 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
56047564 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
56047582 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:56050662 original size:42 final size:43
Alignment explanation
Indices: 56050616--56050707 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
56050606 GGGAACAGAT
*
56050616 TTAGGGAAAAAAGTAT-GGGAAAAG-GGGGATTTGGGGAAAATG
1 TTAGGGAAAAAACTATGGGGAAAAGAGGGGATTTGGGG-AAATG
**
56050658 TTAGGGAAATGACTATGGGGAAAAGAGGGGATTTGGGGAAATG
1 TTAGGGAAAAAACTATGGGGAAAAGAGGGGATTTGGGGAAATG
56050701 TTAGGGA
1 TTAGGGA
56050708 TTTCGGGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 13 0.29
43 20 0.44
44 12 0.27
ACGTcount: A:0.37, C:0.01, G:0.41, T:0.21
Consensus pattern (43 bp):
TTAGGGAAAAAACTATGGGGAAAAGAGGGGATTTGGGGAAATG
Found at i:56051603 original size:7 final size:7
Alignment explanation
Indices: 56051592--56051667 Score: 84
Period size: 7 Copynumber: 11.0 Consensus size: 7
56051582 AAATTATACT
56051592 CTAAACC
1 CTAAACC
*
56051599 TTAAAACC
1 CT-AAACC
56051607 CTAAACC
1 CTAAACC
*
56051614 CTAACCC
1 CTAAACC
*
56051621 CTAAGCC
1 CTAAACC
56051628 CTAAACC
1 CTAAACC
*
56051635 C--ATCC
1 CTAAACC
56051640 CTAAACC
1 CTAAACC
*
56051647 ATAAACC
1 CTAAACC
56051654 CTAAACC
1 CTAAACC
56051661 CTAAACC
1 CTAAACC
56051668 ATATCCCAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
5 4 0.07
7 47 0.82
8 6 0.11
ACGTcount: A:0.41, C:0.42, G:0.01, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:56051645 original size:33 final size:33
Alignment explanation
Indices: 56051605--56051667 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
56051595 AACCTTAAAA
* * *
56051605 CCCTAAACCCTAACCCCTAAGCCCTAAACCCAT
1 CCCTAAACCATAAACCCTAAACCCTAAACCCAT
56051638 CCCTAAACCATAAACCCTAAACCCTAAACC
1 CCCTAAACCATAAACCCTAAACCCTAAACC
56051668 ATATCCCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.38, C:0.46, G:0.02, T:0.14
Consensus pattern (33 bp):
CCCTAAACCATAAACCCTAAACCCTAAACCCAT
Found at i:56051655 original size:26 final size:26
Alignment explanation
Indices: 56051612--56051661 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
56051602 AAACCCTAAA
* * *
56051612 CCCTAACCCCTAAGCCCTAAACCCAT
1 CCCTAAACCATAAACCCTAAACCCAT
56051638 CCCTAAACCATAAACCCTAAACCC
1 CCCTAAACCATAAACCCTAAACCC
56051662 TAAACCATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.48, G:0.02, T:0.14
Consensus pattern (26 bp):
CCCTAAACCATAAACCCTAAACCCAT
Found at i:56051685 original size:33 final size:32
Alignment explanation
Indices: 56051605--56051686 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 32
56051595 AACCTTAAAA
* *
56051605 CCCTAAACCCTAACCCCTAAGCCCTAAACCCAT
1 CCCTAAA-CCTAAACCCTAAACCCTAAACCCAT
*
56051638 CCCTAAACCATAAACCCTAAACCCTAAACCATAT
1 CCCTAAACC-TAAACCCTAAACCCTAAACC-CAT
56051672 CCC-AAACTCTAAACC
1 CCCTAAAC-CTAAACC
56051687 TCGAAACCGT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
32 2 0.05
33 35 0.81
34 6 0.14
ACGTcount: A:0.39, C:0.44, G:0.01, T:0.16
Consensus pattern (32 bp):
CCCTAAACCTAAACCCTAAACCCTAAACCCAT
Found at i:56052552 original size:155 final size:153
Alignment explanation
Indices: 56052314--56052728 Score: 476
Period size: 154 Copynumber: 2.7 Consensus size: 153
56052304 ATAAATTTTT
* * * * *
56052314 TTGCGGCGTTTTAATAAAAAACGCCGCTAATGCCCCTATAGCTCACCAAAAG-ACGACGTCATTC
1 TTGCGGCG-TTT-ATAGAAAACACCGCTAATGCCTCTATAGCTCACC-AATGCACGACGTCGTT-
* * * *
56052378 TTCTCAAAACTTTTATGGCGTTTTTAAACAACCGTCGCTAATGTTTCACCTATTGTGGCATTTTA
62 TTCTCAAAACTTTTGTGGCGTTTTTAAACAACCGCCGCTAATGCTTCACCCATTGTGGCATTTTA
56052443 GAAAAAAATGCCGCTAATTCTCGATATA
127 -AAAAAAATGCCGCTAATTCTCGATATA
*
56052471 TTGCGGCGTTTATAGAAAACACCGCTAAAGCCTCTATAGCTCACCAATGCACGACGTCGTATTTC
1 TTGCGGCGTTTATAGAAAACACCGCTAATGCCTCTATAGCTCACCAATGCACGACGTCGT-TTTC
* * *
56052536 TCAAAACTTTTGTGGCGTTTTTAGACAACCGCCGCTAATGCTTCACCCATTGTGGCGTTTTATAA
65 TCAAAACTTTTGTGGCGTTTTTAAACAACCGCCGCTAATGCTTCACCCATTGTGGCATTTTAAAA
**
56052601 AAAATGTTGCTAATTCTCGATATA
130 AAAATGCCGCTAATTCTCGATATA
* * * * * * * * * **
56052625 TTGTGGTGTTT-TCAGGAAGCACCGCTAATGCCTATATAGTTGAGCAATACACGGTGTCGTTTTC
1 TTGCGGCGTTTAT-AGAAAACACCGCTAATGCCTCTATAGCTCACCAATGCACGACGTCGTTTT-
* *
56052689 CTCAACACTTTTGTGGTGTTTTTACAA-AACCGCCGCTAAT
64 CTCAAAACTTTTGTGGCGTTTTTA-AACAACCGCCGCTAAT
56052729 AGTCCCCTTT
Statistics
Matches: 223, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
153 4 0.02
154 108 0.48
155 99 0.44
156 4 0.02
157 8 0.04
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (153 bp):
TTGCGGCGTTTATAGAAAACACCGCTAATGCCTCTATAGCTCACCAATGCACGACGTCGTTTTCT
CAAAACTTTTGTGGCGTTTTTAAACAACCGCCGCTAATGCTTCACCCATTGTGGCATTTTAAAAA
AAATGCCGCTAATTCTCGATATA
Found at i:56063654 original size:29 final size:29
Alignment explanation
Indices: 56063592--56063711 Score: 170
Period size: 29 Copynumber: 4.2 Consensus size: 29
56063582 TACATACGTG
* * *
56063592 CATATTGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
56063620 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* *
56063649 CGTATGGACCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* *
56063678 CATATGGCCTATTAGGCCCATATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
56063707 CATAT
1 CATAT
56063712 AAATGCTTTC
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 17 0.21
29 65 0.79
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:56063941 original size:16 final size:16
Alignment explanation
Indices: 56063920--56063954 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
56063910 GTAGCCAAAC
*
56063920 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCAGCA
56063936 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
56063952 TTT
1 TTT
56063955 TGGGATTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:56066614 original size:13 final size:13
Alignment explanation
Indices: 56066596--56066620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56066586 TTAGCCGAAT
56066596 ACAAATATGTTTA
1 ACAAATATGTTTA
56066609 ACAAATATGTTT
1 ACAAATATGTTT
56066621 TAGCAGTTGT
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
ACAAATATGTTTA
Found at i:56080236 original size:24 final size:24
Alignment explanation
Indices: 56080204--56080311 Score: 110
Period size: 25 Copynumber: 4.4 Consensus size: 24
56080194 CTAGAGGCCT
* *
56080204 AGCCTTTTTTAATAACTGGGGCAA
1 AGCCCTTTTTGATAACTGGGGCAA
56080228 AGCCCTTTTTGATAAGCTGGGGCAA
1 AGCCCTTTTTGATAA-CTGGGGCAA
* * *
56080253 AGCCCTTTTCGGTAAACTAGGGCAA
1 AGCCCTTTTTGAT-AACTGGGGCAA
* *
56080278 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTTGAT-AACTGGGGCA-A
56080304 A-CCCTTTT
1 AGCCCTTTT
56080312 AGGACTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
24 13 0.17
25 58 0.77
26 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTTGATAACTGGGGCAA
Found at i:56080281 original size:50 final size:50
Alignment explanation
Indices: 56080217--56080311 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
56080207 CTTTTTTAAT
* * *
56080217 AACTGGGGCAAAGCCCTTTTTGATAAGCTGGGGCA-AAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCATAA-CCCTTTTCGGTA
*
56080267 AACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAACCCTTTT
1 AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCATAACCCTTTT
56080312 AGGACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 38 0.95
51 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (50 bp):
AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCATAACCCTTTTCGGTA
Found at i:56081269 original size:27 final size:27
Alignment explanation
Indices: 56081239--56081323 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
56081229 GTAAATCTAC
56081239 AAACCAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCT-GTAATTTTGT
*
56081266 AAACCAATGGTATTTCT-TAATTTT-T
1 AAACCAAGGGTATTTCTGTAATTTTGT
*
56081291 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCTGTAATTTTGT
56081321 AAA
1 AAA
56081324 TTAGGGGTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
25 1 0.02
26 7 0.14
27 17 0.35
28 16 0.33
29 7 0.14
30 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTGTAATTTTGT
Found at i:56081356 original size:27 final size:26
Alignment explanation
Indices: 56081301--56081423 Score: 104
Period size: 27 Copynumber: 4.6 Consensus size: 26
56081291 AGAAAGTCAA
* **
56081301 GGGTATTTCTGTAATTTTGTAAATTAG
1 GGGTATTT-GGTAATTTTACAAATTAG
56081328 GGGTATTTGGTAATTTTACAAATT-G
1 GGGTATTTGGTAATTTTACAAATTAG
* * **
56081353 AGGGTATTTCGATAATTTCACAAACCAG
1 -GGGTATTT-GGTAATTTTACAAATTAG
* * *
56081381 TGGTATTTTAGTAATTTTACAAACTAG
1 GGGTA-TTTGGTAATTTTACAAATTAG
56081408 GGGTATTTTGGTAATT
1 GGGTA-TTTGGTAATT
56081424 CTACCCTATA
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.01
26 21 0.27
27 52 0.67
28 4 0.05
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (26 bp):
GGGTATTTGGTAATTTTACAAATTAG
Found at i:56081442 original size:81 final size:80
Alignment explanation
Indices: 56081302--56081456 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 80
56081292 GAAAGTCAAG
** * * *
56081302 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTGGTAATTTTACAAATTGAGGGTATTTCGA-T
1 GGTATTTCTGTAATTTTACAAACTAGGGGTATTTGGTAATTCTACAAATAGAGGGTATTT-GAGT
56081366 AATTTCACAAACCAGT
65 AATTTCACAAACCAGT
** *
56081382 GGTATTT-TAGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCCTATAG-GGGTATTTTA
1 GGTATTTCT-GTAATTTTACAAACTAGGGGTA-TTTGGTAATTCTA-CAAATAGAGGGTATTTGA
56081445 GTAATTTCACAA
63 GTAATTTCACAA
56081457 TTGAGGGTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
79 1 0.02
80 27 0.43
81 31 0.49
82 4 0.06
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (80 bp):
GGTATTTCTGTAATTTTACAAACTAGGGGTATTTGGTAATTCTACAAATAGAGGGTATTTGAGTA
ATTTCACAAACCAGT
Found at i:56081463 original size:27 final size:26
Alignment explanation
Indices: 56081322--56081463 Score: 85
Period size: 27 Copynumber: 5.3 Consensus size: 26
56081312 TAATTTTGTA
* *
56081322 AATTAGGGGTA-TTTGGTAATTTTAC
1 AATTAGGGGTATTTTAGTAATTTCAC
*
56081347 AAATT-GAGGGTA-TTTCGATAATTTCAC
1 -AATTAG-GGGTATTTTAG-TAATTTCAC
** * *
56081374 AAACCAGTGGTATTTTAGTAATTTTAC
1 -AATTAGGGGTATTTTAGTAATTTCAC
* *
56081401 AAACTAGGGGTATTTTGGTAA-TTCTAC
1 -AATTAGGGGTATTTTAGTAATTTC-AC
**
56081428 CCTATAGGGGTATTTTAGTAATTTCAC
1 AAT-TAGGGGTATTTTAGTAATTTCAC
56081455 AATTGAGGG
1 AATT-AGGG
56081464 TAAAACGGTA
Statistics
Matches: 91, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
25 1 0.01
26 16 0.18
27 66 0.73
28 8 0.09
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
AATTAGGGGTATTTTAGTAATTTCAC
Found at i:56081488 original size:27 final size:27
Alignment explanation
Indices: 56081459--56081546 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
56081449 TTTCACAATT
*
56081459 GAGGGTAAAACGGTAATTCTGTAAAGT-
1 GAGGGTAAAACAGTAATTCTGTAAA-TC
56081486 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
* * *
56081513 AAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
56081540 GAGGGTA
1 GAGGGTA
56081547 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (27 bp):
GAGGGTAAAACAGTAATTCTGTAAATC
Found at i:56083982 original size:30 final size:31
Alignment explanation
Indices: 56083904--56083985 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
56083894 CAGTCTCGAT
*
56083904 ATAT-ACTGGGACGAAGCCTTTTCATAAATC
1 ATATCACTGGGCCGAAGCCTTTTCATAAATC
56083934 ATATCACTGGGCCGAAGCCTTTTCATAAATC
1 ATATCACTGGGCCGAAGCCTTTTCATAAATC
*
56083965 ATATCACT-GGTCGAAGCCTTT
1 ATATCACTGGGCCGAAGCCTTT
56083986 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 16 0.33
31 33 0.67
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (31 bp):
ATATCACTGGGCCGAAGCCTTTTCATAAATC
Found at i:56084224 original size:24 final size:25
Alignment explanation
Indices: 56084197--56084274 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
56084187 GCTTAGCCTC
56084197 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
56084221 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* * *
56084246 TTTCAGTAAACTGGGGCATAG-CCT
1 TTTTAATAAACTGGGGCAAAGCCCT
56084270 TTTTA
1 TTTTA
56084275 GCACTTCCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 13 0.28
25 34 0.72
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:56085113 original size:27 final size:27
Alignment explanation
Indices: 56085083--56085146 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
56085073 GGGCATATTT
*
56085083 GTCATTTTACCATACAGGGGAATTACG
1 GTCACTTTACCATACAGGGGAATTACG
* **
56085110 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGAATTACG
*
56085137 GTCTCTTTAC
1 GTCACTTTAC
56085147 TTATTAAGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGAATTACG
Found at i:56085231 original size:27 final size:27
Alignment explanation
Indices: 56085201--56085308 Score: 92
Period size: 27 Copynumber: 3.9 Consensus size: 27
56085191 GTAAATCTAC
56085201 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * *
56085228 AAACCAATGGTATTTCTATTATTTTTAG-
1 AAACCAAGGGTATTTC-AGTAATTTT-GT
* **
56085256 AAAGTCAAGGGTATTTTTGTAATTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
56085284 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
56085309 ACCAATTGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
27 36 0.55
28 19 0.29
29 11 0.17
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.44
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:56085426 original size:26 final size:26
Alignment explanation
Indices: 56085291--56085428 Score: 107
Period size: 27 Copynumber: 5.2 Consensus size: 26
56085281 TGTAAATCAG
* *
56085291 GGGTATTTTGGTAATTTTACCAATTGA
1 GGGTATTTTGGTAATTTCA-CAATCGA
* * *
56085318 GGGTATTTTGATAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTCAC-AATCGA
* * * * *
56085345 TGGTATATTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTCACAATCGA
* **
56085371 GAGGTATTTTGGTAA-TTCTACATTATA
1 G-GGTATTTTGGTAATTTC-ACAATCGA
*
56085398 GGGTATTTTAGTAATTTCACAATCGA
1 GGGTATTTTGGTAATTTCACAATCGA
56085424 GGGTA
1 GGGTA
56085429 AAACGGTAAT
Statistics
Matches: 86, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
26 29 0.34
27 57 0.66
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTCACAATCGA
Found at i:56085437 original size:26 final size:26
Alignment explanation
Indices: 56085407--56085509 Score: 91
Period size: 27 Copynumber: 3.8 Consensus size: 26
56085397 AGGGTATTTT
56085407 AGTAATTT-CACAATCGAGGGTAAAAC
1 AGTAATTTGCA-AATCGAGGGTAAAAC
* * *
56085433 GGTAATTTTGTAAATCGAGTGTAAAAC
1 AGTAA-TTTGCAAATCGAGGGTAAAAC
* * *
56085460 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATT-TGCAAATCGAGGGTAAAAC
**
56085487 AGTAATTCTATAAATCGAGGGTA
1 AGTAATT-TGCAAATCGAGGGTA
56085510 CTTTGGTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
26 6 0.09
27 58 0.89
28 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (26 bp):
AGTAATTTGCAAATCGAGGGTAAAAC
Found at i:56085456 original size:27 final size:27
Alignment explanation
Indices: 56085418--56085509 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
56085408 GTAATTTCAC
* *
56085418 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
56085445 AATCGAGTGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * *
56085472 AATCAAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
56085499 AATCGAGGGTA
1 AATCGAGGGTA
56085510 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:56095172 original size:17 final size:18
Alignment explanation
Indices: 56095141--56095186 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
56095131 TACTGGATGT
56095141 TATTTGATATA--TGGA-
1 TATTTGATATATGTGGAG
56095156 TAATTT-ATATATGTGGAG
1 T-ATTTGATATATGTGGAG
56095174 TATTTGATATATG
1 TATTTGATATATG
56095187 CAAGATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.23
16 4 0.15
17 8 0.31
18 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (18 bp):
TATTTGATATATGTGGAG
Found at i:56101451 original size:12 final size:12
Alignment explanation
Indices: 56101434--56101458 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56101424 TTTTGAATGA
56101434 ATTTGATTAAAT
1 ATTTGATTAAAT
56101446 ATTTGATTAAAT
1 ATTTGATTAAAT
56101458 A
1 A
56101459 AGTTTAATTT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTTGATTAAAT
Found at i:56106840 original size:27 final size:26
Alignment explanation
Indices: 56106810--56106911 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
56106800 TATCTTTTGG
*
56106810 GGGTATGTCAGTCATTTTACACTACAA
1 GGGTAT-TCAGTAATTTTACACTACAA
**
56106837 GGGTATTTTGATAATTTTACACTACAA
1 GGGTATTCAG-TAATTTTACACTACAA
* *
56106864 GGATATTTCAGTAATTTTACATTACAA
1 GGGTA-TTCAGTAATTTTACACTACAA
*
56106891 GGGTATTCGGATAATTTTACA
1 GGGTATTCAG-TAATTTTACA
56106912 AATCGAGGGT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
26 6 0.10
27 54 0.86
28 3 0.05
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (26 bp):
GGGTATTCAGTAATTTTACACTACAA
Found at i:56106920 original size:27 final size:26
Alignment explanation
Indices: 56106890--56107149 Score: 148
Period size: 27 Copynumber: 9.7 Consensus size: 26
56106880 TTACATTACA
56106890 AGGGTATTCGGATAATTTTACAAATCG
1 AGGGTATTCGG-TAATTTTACAAATCG
* * * **
56106917 AGGGTGTTTCAGTAATTTTAAAAAAAG
1 AGGGT-ATTCGGTAATTTTACAAATCG
*
56106944 AGGGTATTTCGGTAATTTTAAAAATCG
1 AGGGTA-TTCGGTAATTTTACAAATCG
* * * *
56106971 AAGGTATTTTGATAATTTTACAAATTG
1 AGGGTA-TTCGGTAATTTTACAAATCG
* *
56106998 AAGGTGT-TTCGATAATTTTACAAATTG
1 -AGG-GTATTCGGTAATTTTACAAATCG
* * * * *
56107025 AGGGTGTTTTGGTAATTTCAAAAATAG
1 AGGGT-ATTCGGTAATTTTACAAATCG
* * *
56107052 -GGGATATTTTGATAATTTTACAAATTG
1 AGGG-TA-TTCGGTAATTTTACAAATCG
* * *
56107079 AGGGTATTTCAGTAATTTCAC-AACCG
1 AGGGTA-TTCGGTAATTTTACAAATCG
* * *
56107105 AGGGTATTTTGGTAGTTTTACAAATCA
1 AGGGTA-TTCGGTAATTTTACAAATCG
*
56107132 AGGGTATTTCAGTAATTT
1 AGGGTA-TTCGGTAATTT
56107150 ATCTTTATCA
Statistics
Matches: 182, Mismatches: 41, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.01
26 26 0.14
27 143 0.79
28 9 0.05
29 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.38
Consensus pattern (26 bp):
AGGGTATTCGGTAATTTTACAAATCG
Found at i:56106927 original size:54 final size:54
Alignment explanation
Indices: 56106810--56107149 Score: 239
Period size: 54 Copynumber: 6.3 Consensus size: 54
56106800 TATCTTTTGG
* * * ** * *
56106810 GGGTATGTCAGTCATTTTACACTACAAGGGTATTTTGATAATTTTAC-ACTACAA
1 GGGTATTTCAGTAATTTTACAATACAAGGGTATTCGGATAATTTTACAAAT-CGA
* *
56106864 GGATATTTCAGTAATTTTACATTACAAGGGTATTCGGATAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAATACAAGGGTATTCGGATAATTTTACAAATCGA
* * * *
56106918 GGGTGTTTCAGTAATTTTA-AAAAAAGAGGGTATTTCGG-TAATTTTAAAAATCGA
1 GGGTATTTCAGTAATTTTACAATACA-AGGGTA-TTCGGATAATTTTACAAATCGA
* * ** *
56106972 AGGTATTT-TGATAATTTTACAAATTGAAGGTGT-TTC-GATAATTTTACAAATTGA
1 GGGTATTTCAG-TAATTTTAC-AATACAAGG-GTATTCGGATAATTTTACAAATCGA
* ** * * * * ** *
56107026 GGGTGTTTTGGTAATTTCA-AAAATAGGGGATATTTTGATAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAATACAAGGG-TATTCGGATAATTTTACAAATCGA
* * * * * *
56107080 GGGTATTTCAGTAATTTCACAA-CCGAGGGTATTTTGG-TAGTTTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAATACAAGGGTA-TTCGGATAATTTTACAAATCGA
56107133 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
56107150 ATCTTTATCA
Statistics
Matches: 230, Mismatches: 42, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
51 1 0.00
52 6 0.03
53 39 0.17
54 166 0.72
55 13 0.06
56 5 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAATACAAGGGTATTCGGATAATTTTACAAATCGA
Found at i:56106933 original size:81 final size:82
Alignment explanation
Indices: 56106846--56107021 Score: 191
Period size: 81 Copynumber: 2.2 Consensus size: 82
56106836 AGGGTATTTT
** * * *
56106846 GATAATTTTACACTACA-AGGATATTTCAGTAATTTT-ACATTAC-AAGGGTATTCGGATAATTT
1 GATAATTTTACAAAAAAGAGGATATTTCAGTAATTTTAAAAAT-CGAA-GGTATTCGGATAATTT
*
56106908 TACAAATCGAGGGTGTTTC
64 TACAAATCGAAGGTGTTTC
* * **
56106927 -AGTAATTTTA-AAAAAAGAGGGTATTTCGGTAATTTTAAAAATCGAAGGTATTTTGATAATTTT
1 GA-TAATTTTACAAAAAAGAGGATATTTCAGTAATTTTAAAAATCGAAGGTATTCGGATAATTTT
*
56106990 ACAAATTGAAGGTGTTTC
65 ACAAATCGAAGGTGTTTC
56107008 GATAATTTTACAAA
1 GATAATTTTACAAA
56107022 TTGAGGGTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
80 4 0.05
81 65 0.83
82 9 0.12
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (82 bp):
GATAATTTTACAAAAAAGAGGATATTTCAGTAATTTTAAAAATCGAAGGTATTCGGATAATTTTA
CAAATCGAAGGTGTTTC
Found at i:56107028 original size:81 final size:81
Alignment explanation
Indices: 56106900--56107140 Score: 283
Period size: 81 Copynumber: 3.0 Consensus size: 81
56106890 AGGGTATTCG
* * *
56106900 GATAATTTTACAAATCGAGGGTGTTTCAGTAATTTTAAAAAAAGAGGGTATTTCGGTAATTTTAA
1 GATAATTTTACAAATTGAGGGTGTTTCAGTAATTTTACAAAAAGAGGGTATTTTGGTAATTTTAA
56106965 AAATCGAAGGTATTTT
66 AAATCGAAGGTATTTT
* ** * *
56106981 GATAATTTTACAAATTGAAGGTGTTTC-GATAATTTTACAAATTGAGGGTGTTTTGGTAATTTCA
1 GATAATTTTACAAATTGAGGGTGTTTCAG-TAATTTTACAAAAAGAGGGTATTTTGGTAATTTTA
* *
56107045 AAAATAG-GGGATATTTT
65 AAAATCGAAGG-TATTTT
* * ** * *
56107062 GATAATTTTACAAATTGAGGGTATTTCAGTAATTTCAC-AACCGAGGGTATTTTGGTAGTTTTAC
1 GATAATTTTACAAATTGAGGGTGTTTCAGTAATTTTACAAAAAGAGGGTATTTTGGTAATTTTAA
56107126 AAATC-AAGGGTATTT
66 AAATCGAA-GGTATTT
56107141 CAGTAATTTA
Statistics
Matches: 134, Mismatches: 21, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
80 32 0.24
81 101 0.75
82 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (81 bp):
GATAATTTTACAAATTGAGGGTGTTTCAGTAATTTTACAAAAAGAGGGTATTTTGGTAATTTTAA
AAATCGAAGGTATTTT
Found at i:56107127 original size:26 final size:26
Alignment explanation
Indices: 56107078--56107149 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
56107068 TTTACAAATT
56107078 GAGGGTATTTCAGTAATTTCACAACC
1 GAGGGTATTTCAGTAATTTCACAACC
** * * *
56107104 GAGGGTATTTTGGTAGTTTTACAAATC
1 GAGGGTATTTCAGTAATTTCAC-AACC
*
56107131 AAGGGTATTTCAGTAATTT
1 GAGGGTATTTCAGTAATTT
56107150 ATCTTTATCA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 18 0.50
27 18 0.50
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (26 bp):
GAGGGTATTTCAGTAATTTCACAACC
Found at i:56110341 original size:27 final size:27
Alignment explanation
Indices: 56110292--56110385 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 27
56110282 AAGGGCAAAA
* *
56110292 CAGTCATTTTACCCTACAGGGGTATGT
1 CAGTCATTTTACACTACAAGGGTATGT
* * *
56110319 CAGTCATTTTAGACTATAAGGGTATTT
1 CAGTCATTTTACACTACAAGGGTATGT
* *
56110346 C-GATAATTTTACACTACAAGGGTATTT
1 CAG-TCATTTTACACTACAAGGGTATGT
* *
56110373 CAATAATTTTACA
1 CAGTCATTTTACA
56110386 AATCGGGGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.98
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (27 bp):
CAGTCATTTTACACTACAAGGGTATGT
Found at i:56110395 original size:27 final size:27
Alignment explanation
Indices: 56110364--56110650 Score: 301
Period size: 27 Copynumber: 10.7 Consensus size: 27
56110354 TTACACTACA
* *
56110364 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* * * *
56110391 GGGGTGTTTTTGTAATTTTACAAATTG
1 AGGGTATTTTAGTAATTTTACAAATCG
*
56110418 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* *
56110445 ATGGTATTTTAGTAATTTTAGAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* *
56110472 AGGGTATTTTAATAATTTTACAAATTG
1 AGGGTATTTTAGTAATTTTACAAATCG
* * *
56110499 AGAGTGTTTT-GATAATTTTATAAATCG
1 AGGGTATTTTAG-TAATTTTACAAATCG
** * *
56110526 AGGGCGTTTTAATAATTTCACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* * *
56110553 AGGGTATTTCAGTAATTTGACAAA-CA
1 AGGGTATTTTAGTAATTTTACAAATCG
* * *
56110579 AGGGCATTTCAGTAATTTTACAAAT-T
1 AGGGTATTTTAGTAATTTTACAAATCG
**
56110605 AGGGGTATTTCGGTAATTTTACAAATCG
1 A-GGGTATTTTAGTAATTTTACAAATCG
56110633 AGGGTATTTTAGTAATTT
1 AGGGTATTTTAGTAATTT
56110651 CTTTTTATCA
Statistics
Matches: 214, Mismatches: 41, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
26 24 0.11
27 189 0.88
28 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTACAAATCG
Found at i:56111003 original size:28 final size:28
Alignment explanation
Indices: 56110967--56111030 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
56110957 TTGCCCTTTG
*
56110967 AGGCCCAATCTCATTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
56110995 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
56111023 AAGCCCAA
1 AGGCCCAA
56111031 CTACTTCCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.38, G:0.14, T:0.19
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:56115722 original size:30 final size:29
Alignment explanation
Indices: 56115679--56115742 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
56115669 CAAGTAGTCG
56115679 AAGCTAGTTAAATCGCACACTTACTGCCA
1 AAGCTAGTTAAATCGCACACTTACTGCCA
*
56115708 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTACTGCCA
56115738 AAGCT
1 AAGCT
56115743 TTCGAATCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTACTGCCA
Found at i:56116451 original size:24 final size:24
Alignment explanation
Indices: 56116419--56116495 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
56116409 AAGTCTGTTA
*
56116419 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
56116443 GGAGTGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
56116467 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
56116491 GGAGA
1 GGAGA
56116496 ACAGTGTTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.31, C:0.03, G:0.43, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:56117889 original size:27 final size:26
Alignment explanation
Indices: 56117849--56117953 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 26
56117839 AGGAAGCGTC
*
56117849 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
56117876 CTGGTGGCTCTGCCACGTATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
56117903 CTGGTGGCTCTGCCACGATTATCT-ATT
1 CTGGTGGCTCTGCCAC-ATTATCTGA-T
* *
56117930 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
56117954 TTATGGCAGC
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 8 0.12
27 58 0.87
28 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:56117933 original size:54 final size:53
Alignment explanation
Indices: 56117849--56117955 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 53
56117839 AGGAAGCGTC
* *
56117849 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACGTATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
56117903 CTGGTGGCTCTGCCACGATTATCT-ATTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGA-TCTGGTGACTCTGCCACATTATCTGTT
56117956 ATGGCAGCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
53 9 0.19
54 38 0.81
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:56130723 original size:40 final size:40
Alignment explanation
Indices: 56130615--56130802 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
56130605 TATTCGGATG
* *
56130615 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
56130655 A-ATTCCGGGCTAAG-CCCAAAGGCATTTGTGAGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
56130694 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
56130734 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
56130774 ATAACCGAGCTAAGTCTCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
56130803 AGCAAGTAGC
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 34 0.25
40 100 0.75
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:56135826 original size:40 final size:40
Alignment explanation
Indices: 56135771--56135988 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
56135761 CGGATGATAA
* *
56135771 CCGGGCTAAGTCCCGAAGGCATTTGCG-GTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTA-TAT
*
56135811 CCGGGCTAAGTCCCGAAGCCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
56135851 CCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56135891 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
56135931 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TATCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
56135971 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56135989 TACCTGGCTT
Statistics
Matches: 159, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 16 0.10
40 142 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56141290 original size:40 final size:40
Alignment explanation
Indices: 56141245--56141411 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
56141235 CGGAATATAA
*
56141245 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56141285 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
56141325 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
56141365 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
56141404 CCGGATAT
1 CCGGATAT
56141412 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56141395 original size:80 final size:79
Alignment explanation
Indices: 56141261--56141411 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
56141251 ATAACCATGT
*
56141261 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
56141326 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
56141341 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
56141404 CCGGATAT
64 CCGGATAT
56141412 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:56149305 original size:40 final size:40
Alignment explanation
Indices: 56149260--56149389 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
56149250 CGGAATATAA
56149260 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56149300 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
56149340 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
56149380 CCGGATATAA
1 CCGGATATAA
56149390 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56149404 original size:40 final size:39
Alignment explanation
Indices: 56149276--56149426 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
56149266 ATAACCATGT
* * *
56149276 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
56149316 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
56149356 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
56149395 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
56149427 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:56149410 original size:80 final size:79
Alignment explanation
Indices: 56149260--56149426 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
56149250 CGGAATATAA
*
56149260 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
56149325 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
56149340 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
56149402 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
56149419 CCGGATAT
1 CCGGATAT
56149427 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:56153292 original size:30 final size:29
Alignment explanation
Indices: 56153243--56153306 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 29
56153233 CAAGTAGCCG
*
56153243 AAGCTAGTTAAATATCACACTTACTGCCA
1 AAGCTAGTTAAATAGCACACTTACTGCCA
* *
56153272 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATAGCACACTTACTGCCA
56153302 AAGCT
1 AAGCT
56153307 TCCGAATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATAGCACACTTACTGCCA
Found at i:56157205 original size:29 final size:27
Alignment explanation
Indices: 56157171--56157273 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
56157161 TACTCAATCA
*
56157171 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
56157200 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
56157229 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
56157258 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
56157274 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:56165234 original size:29 final size:27
Alignment explanation
Indices: 56165200--56165302 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
56165190 TACTCAATCA
*
56165200 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
56165229 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
56165258 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
56165287 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
56165303 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:56173937 original size:16 final size:16
Alignment explanation
Indices: 56173916--56173954 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
56173906 AAAGTAGATG
56173916 TGAAATGGTAGTAAGA
1 TGAAATGGTAGTAAGA
56173932 TGAAATGGTAGTAAGA
1 TGAAATGGTAGTAAGA
56173948 TGAAATG
1 TGAAATG
56173955 CAAAATGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.26
Consensus pattern (16 bp):
TGAAATGGTAGTAAGA
Found at i:56174752 original size:79 final size:82
Alignment explanation
Indices: 56174616--56174798 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 82
56174606 TCGAATGATG
* *
56174616 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
56174680 TGTGCGAGTTA-T-TAA
66 TGTGCGAGTTACTATAA
* * * **
56174695 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
56174757 TTTGTGCGAGTTACTATAA
64 TTTGTGCGAGTTACTATAA
*
56174776 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56174799 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 30 0.33
81 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:56174807 original size:40 final size:41
Alignment explanation
Indices: 56174616--56174800 Score: 224
Period size: 40 Copynumber: 4.6 Consensus size: 41
56174606 TCGAATGATG
* * *
56174616 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
*
56174656 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-T-TAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
56174695 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
56174735 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
56174776 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56174801 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 32 0.25
40 83 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:56174822 original size:79 final size:78
Alignment explanation
Indices: 56174669--56174833 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 78
56174659 GGACTAAGAT
**
56174669 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTATTAA-TCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
56174734 ATCCGGGTTAAGTC
65 ATCCGGGTTAAATC
* *
56174748 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTA-T-TAATCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
56174811 TATATCC-GGTTAAATT
62 TAAATCCGGGTTAAATC
56174827 CCGAAGG
1 CCGAAGG
56174834 TACGTGATAC
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
79 47 0.63
80 25 0.33
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTATTAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGGTTAAATC
Found at i:56176963 original size:6 final size:6
Alignment explanation
Indices: 56176935--56177053 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
56176925 AAGAAACATT
* * *
56176935 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATTAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
56176984 ATCAGA ATCA-A TATCAGGTA A-CCGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
56177035 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
56177054 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
5 8 0.09
6 67 0.77
7 7 0.08
8 4 0.05
9 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:56176981 original size:31 final size:31
Alignment explanation
Indices: 56176944--56177053 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
56176934 TATCAGAACT
* * *
56176944 AGAATCAAAATCAGAATCAGAATTAGGTGAT
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
56176975 AGAATCAGAATCAGAATCA-ATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGA-ATCAGGTAAC
* *
56177006 CGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
56177037 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
56177054 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.01
31 68 0.99
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:56177253 original size:26 final size:27
Alignment explanation
Indices: 56177208--56177263 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
56177198 GTCACAGAGT
* *
56177208 CACCAGATATAGATATTGTGGCAAAGC
1 CACCAGATACAGATAATGTGGCAAAGC
56177235 CACCAGA-ACAGATAATGTGGCAAAGC
1 CACCAGATACAGATAATGTGGCAAAGC
56177261 CAC
1 CAC
56177264 TTAACAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAAGC
Found at i:56177458 original size:22 final size:22
Alignment explanation
Indices: 56177423--56177485 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
56177413 CAAATATGTT
56177423 TGGCACACAA-CCATAATCAGGA
1 TGGCACA-AAGCCATAATCAGGA
* * *
56177445 TGGCACAGAGCCAT-ATGTAGGT
1 TGGCACAAAGCCATAAT-CAGGA
*
56177467 TGACACAAAGCCATAATCA
1 TGGCACAAAGCCATAATCA
56177486 AAAGGCTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
21 3 0.09
22 27 0.84
23 2 0.06
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (22 bp):
TGGCACAAAGCCATAATCAGGA
Found at i:56177971 original size:27 final size:27
Alignment explanation
Indices: 56177913--56178180 Score: 349
Period size: 27 Copynumber: 10.0 Consensus size: 27
56177903 GGGGCAAAAT
* * * *
56177913 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56177939 GGTAATTCCACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56177966 AGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56177993 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56178020 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56178047 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
56178074 ATTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
56178101 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56178128 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
56178155 GGTATTTCTACCCTACAATGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
56178181 TAGTAATTTT
Statistics
Matches: 211, Mismatches: 30, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
26 14 0.07
27 197 0.93
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56178268 original size:27 final size:27
Alignment explanation
Indices: 56178238--56178302 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
56178228 GGTACTTTGG
56178238 TAATTTTACAAGTCGAGAGTATTTCAA
1 TAATTTTACAAGTCGAGAGTATTTCAA
* * *
56178265 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGAGTATTTCAA
*
56178292 TAATTTCACAA
1 TAATTTTACAA
56178303 ATCAGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGAGTATTTCAA
Found at i:56178311 original size:27 final size:27
Alignment explanation
Indices: 56178281--56178567 Score: 369
Period size: 27 Copynumber: 10.6 Consensus size: 27
56178271 TACAGGTCGA
** *
56178281 GGGTATTTCAGTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
56178308 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
56178335 GGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
56178362 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
56178389 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
56178416 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
56178443 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
56178470 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * *
56178497 TGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
56178524 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
56178551 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
56178568 GGTAAATTAA
Statistics
Matches: 225, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 224 1.00
28 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:56178341 original size:81 final size:80
Alignment explanation
Indices: 56178227--56178567 Score: 362
Period size: 81 Copynumber: 4.2 Consensus size: 80
56178217 TGTAAATTAA
* * * * * ** * *
56178227 GGGTACTTTGGTAATTTTAC-AAGTCGAGAGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAATAATTTTACA-AACAAGGGTATTTTA
*
56178291 GTAATTTCACAAA-TCAG
64 GTAATTTTACAAACT-AG
* *
56178308 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAA-CAAGGGTATTTTAG
56178373 TAATTTTACAAACTAG
65 TAATTTTACAAACTAG
* * * * * *
56178389 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAA-CAAGGGTATTTTAG
** * *
56178454 TAATTTTGTAAACCAA
65 TAATTTTACAAACTAG
* * ** * *
56178470 GGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTGGTGATTTTATAAACTAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAAC-AAGGGTATTTTAG
56178535 TAATTTTACAAACTAG
65 TAATTTTACAAACTAG
56178551 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
56178568 GGTAAATTAA
Statistics
Matches: 221, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.00
81 215 0.97
82 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACAAGGGTATTTTAGT
AATTTTACAAACTAG
Found at i:56178573 original size:108 final size:108
Alignment explanation
Indices: 56178308--56178573 Score: 442
Period size: 108 Copynumber: 2.5 Consensus size: 108
56178298 CACAAATCAG
* * **
56178308 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
*
56178373 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
56178416 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
* * *
56178481 TAATTTTACAAACCAGTGGTATTTTGGTGATTTTATAAACTAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
56178524 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTGGTAAA
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAA
56178574 TTAAGTATTC
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 147 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.41
Consensus pattern (108 bp):
GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:56181555 original size:30 final size:29
Alignment explanation
Indices: 56181461--56181562 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
56181451 TATAGTGAAT
* * *
56181461 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
56181490 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
56181518 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
56181548 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
56181563 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:56189846 original size:40 final size:40
Alignment explanation
Indices: 56189787--56189993 Score: 191
Period size: 40 Copynumber: 5.2 Consensus size: 40
56189777 CAATTGAATG
* * * *
56189787 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * ** *
56189827 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
56189867 ACATCC-GGCTAAGACCTGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
56189906 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
56189946 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
56189986 ATATCCGG
1 ATATCCGG
56189994 TTGTATTCCG
Statistics
Matches: 136, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 29 0.21
40 107 0.79
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:56192322 original size:38 final size:38
Alignment explanation
Indices: 56192271--56192507 Score: 395
Period size: 38 Copynumber: 6.3 Consensus size: 38
56192261 ATATTCGATG
*
56192271 TATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
56192309 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
56192347 TATATCCGGGTAAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
56192385 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
56192423 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * *
56192461 TATATCCGGGTTAAAT-CCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
56192498 TATATTCGGG
1 TATATCCGGG
56192508 CCTTTGAGCC
Statistics
Matches: 190, Mismatches: 9, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
37 28 0.15
38 162 0.85
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:56194045 original size:40 final size:40
Alignment explanation
Indices: 56194000--56194129 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
56193990 CGGAATACAA
56194000 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
56194040 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
56194080 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
56194120 CCGGATATAA
1 CCGGATATAA
56194130 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:56194144 original size:40 final size:40
Alignment explanation
Indices: 56194000--56194163 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
56193990 CGGAATACAA
* **
56194000 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
56194040 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
56194080 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
56194120 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
56194160 CCGG
1 CCGG
56194164 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:56202090 original size:40 final size:40
Alignment explanation
Indices: 56202045--56202174 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
56202035 CGGAATACAA
56202045 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
56202085 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
56202125 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
56202165 CCGGATATAA
1 CCGGATATAA
56202175 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:56202189 original size:40 final size:40
Alignment explanation
Indices: 56202045--56202208 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
56202035 CGGAATACAA
* **
56202045 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
56202085 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
56202125 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
56202165 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
56202205 CCGG
1 CCGG
56202209 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:56206099 original size:26 final size:25
Alignment explanation
Indices: 56206069--56206121 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 25
56206059 AAAATGAGAG
*
56206069 AATGATAGAAATTGATCCGGTTGATT
1 AATGATAGAAATTGAT-CGATTGATT
56206095 AATGATAGAAATTGATCGATTGATT
1 AATGATAGAAATTGATCGATTGATT
56206120 AA
1 AA
56206122 GTGGATTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.34
Consensus pattern (25 bp):
AATGATAGAAATTGATCGATTGATT
Found at i:56217439 original size:46 final size:46
Alignment explanation
Indices: 56217386--56217568 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
56217376 TATATATACA
* * * *
56217386 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
56217432 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
56217478 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
56217524 CATCTCATACACATTTCGCATTAGCCATTCGACTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
56217569 ATACACTTCC
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:56217613 original size:47 final size:47
Alignment explanation
Indices: 56217542--56217916 Score: 517
Period size: 47 Copynumber: 8.1 Consensus size: 47
56217532 ACACATTTCG
* * * * * * *
56217542 CATTAGCCATTCGACTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
56217589 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
56217636 TATTGGCCATTCGACCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56217683 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56217730 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56217777 CATTGGCCATTTGGCCTTATCAC----ATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56217820 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * * **
56217867 CATTTGCCATTCGACCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
56217914 CAT
1 CAT
56217917 AAAATCCTAA
Statistics
Matches: 299, Mismatches: 24, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
43 41 0.14
46 1 0.00
47 257 0.86
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:56217704 original size:22 final size:22
Alignment explanation
Indices: 56217679--56217753 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
56217669 ATTCACATTC
56217679 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
56217701 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
56217725 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
56217748 ATCACA
1 ATCACA
56217754 CATATGCATG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:56217799 original size:22 final size:22
Alignment explanation
Indices: 56217773--56217840 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
56217763 GTTCACATTC
56217773 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
** *
56217795 ATCACA-T-G-CATGTTCACATT
1 ATCACATTGGCCAT-TTGGCCTT
*
56217815 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
56217838 ATC
1 ATC
56217841 TCATATATGC
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
19 3 0.09
20 6 0.18
21 7 0.21
22 10 0.29
23 5 0.15
24 3 0.09
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:56217878 original size:137 final size:138
Alignment explanation
Indices: 56217582--56217916 Score: 510
Period size: 137 Copynumber: 2.4 Consensus size: 138
56217572 CACTTCCACG
* *
56217582 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCATATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
56217647 CGACCTTATCACATATATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
66 CGACCTTATCAC--A-ATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
56217712 GCATGTTCACA
128 GCATGTTCACA
*
56217723 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
* * * * *
56217788 TGGCCTTATCAC-ATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA
66 CGACCTTATCACAATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
56217852 TGTTCACA
131 TGTTCACA
* * * * **
56217860 TTCATCACATTTGCCATTCGACCTTATCTCATATATACACATTCACATTCATCACAT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
56217917 AAAATCCTAA
Statistics
Matches: 179, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
137 107 0.60
141 72 0.40
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.35
Consensus pattern (138 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
CGACCTTATCACAATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
TGTTCACA
Found at i:56221765 original size:57 final size:57
Alignment explanation
Indices: 56221704--56221862 Score: 221
Period size: 57 Copynumber: 2.8 Consensus size: 57
56221694 TGACTGATTT
* * *
56221704 GCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
** *
56221761 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATCTG
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
* * *
56221818 GCACACATAGTGCTCGGTTGGAGAACGT-GCACACACAGTGCCTCA
1 GCACACATAGTGCTCGATTGAAGAAC-TCGCACACATAGTGCCTCA
56221863 TAATTCCAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
57 91 0.99
58 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (57 bp):
GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
Found at i:56221798 original size:28 final size:27
Alignment explanation
Indices: 56221704--56221833 Score: 125
Period size: 29 Copynumber: 4.6 Consensus size: 27
56221694 TGACTGATTT
*
56221704 GCACACATAGCGCTCGATTAAAGAACTC
1 GCACACATAGTGCTCGATT-AAGAACTC
* **
56221732 GCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTG-CTCGATTAAGAA-CTC
56221761 GCACACATAGTGCTCGATTGAAGAACTC
1 GCACACATAGTGCTCGATT-AAGAACTC
* * * * *
56221789 GCACACATAGTGCCTCAACTACTGATCTG
1 GCACACATAGTG-CTCGATTA-AGAACTC
56221818 GCACACATAGTGCTCG
1 GCACACATAGTGCTCG
56221834 GTTGGAGAAC
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
28 39 0.46
29 45 0.54
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (27 bp):
GCACACATAGTGCTCGATTAAGAACTC
Found at i:56221934 original size:40 final size:40
Alignment explanation
Indices: 56221890--56222024 Score: 261
Period size: 40 Copynumber: 3.4 Consensus size: 40
56221880 CCTTCGAGGT
56221890 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
56221930 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
56221970 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
56222010 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
56222025 ATAACTCTCA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:56224697 original size:93 final size:93
Alignment explanation
Indices: 56224585--56224755 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
56224575 GCCCATAAGT
* *
56224585 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56224650 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
56224678 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56224743 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56224756 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56224752 original size:46 final size:46
Alignment explanation
Indices: 56224577--56224752 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
56224567 TGTAACCCGC
* * *
56224577 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56224623 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
56224673 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56224716 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56224753 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56226335 original size:46 final size:46
Alignment explanation
Indices: 56226282--56226464 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
56226272 TATATATACA
* * * *
56226282 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
56226328 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
56226374 CATCTCATACACGTTTCGCATTAGCCATTCAGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
56226420 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
56226465 ATACACTTCC
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:56226507 original size:22 final size:22
Alignment explanation
Indices: 56226481--56226556 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
56226471 TTCCACGTTC
56226481 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
56226503 ATCACATATATG-CATGT-T-CACATT
1 ATCACAT-T-GGCCAT-TCTGC-C-TT
*
56226527 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
56226550 ATCACAT
1 ATCACAT
56226557 ATATGCATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:56226509 original size:47 final size:47
Alignment explanation
Indices: 56226438--56226816 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
56226428 ACACATTTCG
* * * * * *
56226438 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
56226485 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56226532 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
56226579 CATTGGCCACTCAGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56226626 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
56226673 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56226720 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
56226767 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
56226814 CAT
1 CAT
56226817 AAAATCCTAA
Statistics
Matches: 310, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 309 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:56226649 original size:22 final size:22
Alignment explanation
Indices: 56226622--56226740 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
56226612 GTTCACATTC
56226622 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
56226644 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
56226668 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
56226691 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
56226715 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
56226738 ATC
1 ATC
56226741 TCATATATGC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:56233055 original size:13 final size:13
Alignment explanation
Indices: 56233029--56233081 Score: 88
Period size: 13 Copynumber: 4.1 Consensus size: 13
56233019 CCTCGGCAGG
*
56233029 GACACACCCGTGT
1 GACACGCCCGTGT
*
56233042 GACACGCCCATGT
1 GACACGCCCGTGT
56233055 GACACGCCCGTGT
1 GACACGCCCGTGT
56233068 GACACGCCCGTGT
1 GACACGCCCGTGT
56233081 G
1 G
56233082 CGATTACTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.19, C:0.38, G:0.28, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:56236034 original size:40 final size:40
Alignment explanation
Indices: 56235972--56236218 Score: 226
Period size: 40 Copynumber: 6.2 Consensus size: 40
56235962 CAGATGATAA
* *
56235972 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATAT
* * *
56236012 TCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
* *
56236052 CCGGGTTAAGTCCCGAAGGCGTTTGTGCGA--GCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATAT
*
56236092 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
* * * *
56236130 ACCGAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
* *
56236171 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATAT
56236211 CC-GGCTAA
1 CCGGGCTAA
56236219 ACTCCGAAGG
Statistics
Matches: 172, Mismatches: 22, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 38 0.22
40 123 0.72
41 5 0.03
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
Found at i:56236178 original size:79 final size:80
Alignment explanation
Indices: 56236013--56236195 Score: 269
Period size: 79 Copynumber: 2.3 Consensus size: 80
56236003 TGGCTAATTT
* * * *
56236013 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGTTAAGTCCCGAAGGCGTTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGAGCTAAGTCCCGAAGGCATTTGT
* * *
56236078 GCGAGCTATTATATC
66 GCAAGCTACTATAAC
* *
56236093 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGAGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGAGCTAAGTCCCGAAGGCATTTGT
*
56236157 GCAAGTTACTATAAC
66 GCAAGCTACTATAAC
56236172 CGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
56236196 AGCTAGTGGC
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 58 0.62
80 35 0.38
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGAGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAAC
Found at i:56236228 original size:79 final size:78
Alignment explanation
Indices: 56236013--56236218 Score: 261
Period size: 79 Copynumber: 2.6 Consensus size: 78
56236003 TGGCTAATTT
* * *
56236013 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGTTAAGTCCCGAAGGCGTTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC-GGCTAAGTCCCGAAGGCATTTGT
* * *
56236078 GCGAGCTATTATATC
64 GCAAGCTACTATAAC
*
56236093 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGAGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCG-GCTAAGTCCCGAAGGCATTTGT
*
56236157 GCAAGTTACTATAAC
64 GCAAGCTACTATAAC
* * *
56236172 CGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGCTAA
56236219 ACTCCGAAGG
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
78 2 0.02
79 70 0.64
80 38 0.35
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGCTAAGTCCCGAAGGCATTTGTGC
AAGCTACTATAAC
Found at i:56243561 original size:40 final size:41
Alignment explanation
Indices: 56243499--56243761 Score: 328
Period size: 40 Copynumber: 6.6 Consensus size: 41
56243489 CGGATGATAA
* *** *
56243499 CCGGGCTAAGTCCCG-AGAGCATTTGAGCGAGCGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCTTATTATAT
* * *
56243539 CTGGGCTAAGTCCCGAAGGCATTCGTGCGAGC-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTTATTATAT
*
56243579 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGC-TATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTTATTATAT
56243619 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTTATTATAT
56243658 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTTATTATAT
* * * *
56243697 CCGAGCTAAGTCCCGAAGGCATTTGTGCAAG-TTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTTATTATAT
*
56243737 CCGGGCTAAGTTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
56243762 AGCTAGTGGC
Statistics
Matches: 202, Mismatches: 17, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 77 0.38
40 123 0.61
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTTATTATAT
Found at i:56243673 original size:39 final size:39
Alignment explanation
Indices: 56243541--56243761 Score: 334
Period size: 40 Copynumber: 5.6 Consensus size: 39
56243531 GGCTAATTCT
* * *
56243541 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CC
* *
56243581 GGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CC
56243621 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACC
56243660 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACC
* * *
56243699 GAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT-ACC
*
56243739 GGGCTAAGTTCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
56243762 AGCTAGTGGC
Statistics
Matches: 170, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
39 74 0.44
40 96 0.56
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACC
Found at i:56243794 original size:39 final size:40
Alignment explanation
Indices: 56243614--56243794 Score: 113
Period size: 39 Copynumber: 4.6 Consensus size: 40
56243604 TGCGAGCTAT
* * * * * *
56243614 TATATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTAT
1 TATAACCGGGCTAAACT-CCGAAGGCATTTGAGCAAGTGAC
* * * * *
56243654 TAT-ACCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTAT
1 TATAACCGGGCTAAACT-CCGAAGGCATTTGAGCAAGTGAC
* * * *
56243693 TAT-ACCGAGCT-AAGTCCCGAAGGCATTTGTGCAAGTTAC
1 TATAACCGGGCTAAACT-CCGAAGGCATTTGAGCAAGTGAC
** * *
56243732 TATAACCGGGCTAAGTTCCGAAGGCATTTGAGCTAGTGGC
1 TATAACCGGGCTAAACTCCGAAGGCATTTGAGCAAGTGAC
*
56243772 TATATCC-GGCTAAACTCCGAAGG
1 TATAACCGGGCTAAACTCCGAAGG
56243795 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 88 0.70
40 35 0.28
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TATAACCGGGCTAAACTCCGAAGGCATTTGAGCAAGTGAC
Found at i:56243794 original size:79 final size:79
Alignment explanation
Indices: 56243495--56243784 Score: 338
Period size: 79 Copynumber: 3.7 Consensus size: 79
56243485 TGTTCGGATG
* * *
56243495 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCGAGCGGCTA-ATTCTGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCGAGTGACTATA-TC-CGGCTAAGTCCCGAAGG
* *
56243558 CATTCGTGCGAGCTACT
63 CATTTGTGCGAGTTACT
* * * *
56243575 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCT-ATTATATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TGACTATATCC-GGCTAAGTCCCGAAGGC
*
56243639 ATTTGTGCGAGTTATT
64 ATTTGTGCGAGTTACT
* * *
56243655 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGAGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATATCCG-GCTAAGTCCCGAAGGCA
*
56243718 TTTGTGCAAGTTACT
65 TTTGTGCGAGTTACT
* * *
56243733 ATAACCGGGCTAAGTTCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATATCCGGCTAA
56243785 ACTCCGAAGG
Statistics
Matches: 182, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 35 0.19
79 75 0.41
80 68 0.37
81 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:56249006 original size:110 final size:110
Alignment explanation
Indices: 56248813--56249032 Score: 422
Period size: 110 Copynumber: 2.0 Consensus size: 110
56248803 GAAGAAAATG
*
56248813 AACCATAGTTATGAAATAAACAACTTTTTTGAAAAGATTTCTCATGAAAACCCTAAAAAGGACCA
1 AACCATAGTTATGAAATAAACAACTTTTGTGAAAAGATTTCTCATGAAAACCCTAAAAAGGACCA
*
56248878 TTTTGCATAAGTTGTAAAATAGGTGATAAAGATGTGAAATATTGA
66 TTTTGCATAAGTTATAAAATAGGTGATAAAGATGTGAAATATTGA
56248923 AACCATAGTTATGAAATAAACAACTTTTGTGAAAAGATTTCTCATGAAAACCCTAAAAAGGACCA
1 AACCATAGTTATGAAATAAACAACTTTTGTGAAAAGATTTCTCATGAAAACCCTAAAAAGGACCA
56248988 TTTTGCATAAGTTATAAAATAGGTGATAAAGATGTGAAATATTGA
66 TTTTGCATAAGTTATAAAATAGGTGATAAAGATGTGAAATATTGA
56249033 GAATTTTGGA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (110 bp):
AACCATAGTTATGAAATAAACAACTTTTGTGAAAAGATTTCTCATGAAAACCCTAAAAAGGACCA
TTTTGCATAAGTTATAAAATAGGTGATAAAGATGTGAAATATTGA
Done.