Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 95 of 255
Found at i:29382248 original size:40 final size:40
Alignment explanation
Indices: 29382045--29382248 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
29382035 CGGAATTTAA
** *
29382045 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29382085 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
29382125 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTGGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29382164 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
29382204 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29382244 CCGGA
1 CCGGA
29382249 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29384666 original size:43 final size:43
Alignment explanation
Indices: 29384619--29384704 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
29384609 AGGGTATATC
*
29384619 CAACAACCC-ATGTTTATCTTCTCCTCTT-TTTAAATTCTTTTTT
1 CAACAACCCAATATTT-TCTTCTCCT-TTCTTTAAATTCTTTTTT
*
29384662 CAACAACCCAATATTTTCTTTTCCTTTCTTTAAATTCTTTTTT
1 CAACAACCCAATATTTTCTTCTCCTTTCTTTAAATTCTTTTTT
29384705 TCTAGGATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 2 0.05
43 32 0.82
44 5 0.13
ACGTcount: A:0.22, C:0.24, G:0.01, T:0.52
Consensus pattern (43 bp):
CAACAACCCAATATTTTCTTCTCCTTTCTTTAAATTCTTTTTT
Found at i:29388264 original size:50 final size:50
Alignment explanation
Indices: 29388188--29388324 Score: 197
Period size: 50 Copynumber: 2.8 Consensus size: 50
29388178 AATGATCTAT
**
29388188 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-
1 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAC
* *
29388237 TGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAC
1 T-GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAC
* *
29388288 TGT-TGGTCGTATGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
29388325 TGCATACCAG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
49 31 0.40
50 46 0.59
51 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (50 bp):
TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAC
Found at i:29402638 original size:12 final size:12
Alignment explanation
Indices: 29402621--29402685 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
29402611 AAGAAACATT
29402621 ATCAAAA-CTAGA
1 ATCAAAATC-AGA
*
29402633 ATCAAAATGAGA
1 ATCAAAATCAGA
*
29402645 ATCAGAATCAGA
1 ATCAAAATCAGA
* *
29402657 ATC-AAGTGACAAA
1 ATCAAAAT--CAGA
29402670 ATCAAAATCAGA
1 ATCAAAATCAGA
29402682 ATCA
1 ATCA
29402686 GAATTAGGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 2 0.05
12 30 0.73
13 6 0.15
14 3 0.07
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.17
Consensus pattern (12 bp):
ATCAAAATCAGA
Found at i:29402653 original size:6 final size:6
Alignment explanation
Indices: 29402630--29402739 Score: 64
Period size: 6 Copynumber: 17.8 Consensus size: 6
29402620 TATCAAAACT
* * * * *
29402630 AGAATC AAAATG AGAATC AGAATC AGAATC A-AGTGAC AAAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
29402679 AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATC AGGTAAT- AGAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
29402729 AGAATT AGAAT
1 AGAATC AGAAT
29402740 ATGAATGCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 6 0.07
6 64 0.79
7 6 0.07
8 5 0.06
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:29402679 original size:31 final size:31
Alignment explanation
Indices: 29402635--29402717 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
29402625 AAACTAGAAT
*
29402635 CAAAATGAGAATCAGAATCAGAATCAAGTGA
1 CAAAATCAGAATCAGAATCAGAATCAAGTGA
* * *
29402666 CAAAATCAAAATCAGAATCAGAATTAGGTGA
1 CAAAATCAGAATCAGAATCAGAATCAAGTGA
* *
29402697 CAGAATCAGAATCAGTATCAG
1 CAAAATCAGAATCAGAATCAG
29402718 GTAATAGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (31 bp):
CAAAATCAGAATCAGAATCAGAATCAAGTGA
Found at i:29402703 original size:25 final size:25
Alignment explanation
Indices: 29402675--29402739 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
29402665 ACAAAATCAA
* *
29402675 AATCAGAATCAGAATTAGGTGACAG
1 AATCAGAATCAGAATCAGGTAACAG
* *
29402700 AATCAGAATCAGTATCAGGTAATAG
1 AATCAGAATCAGAATCAGGTAACAG
*
29402725 AATCAGAATTAGAAT
1 AATCAGAATCAGAAT
29402740 ATGAATGCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:29403662 original size:27 final size:27
Alignment explanation
Indices: 29403630--29403721 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
29403620 GGGGTAAAAT
* *
29403630 GGTAATTTTACCCCA-AGAGGGTATCTC
1 GGTAATTTTACCCTACAG-GGGTATTTC
* * *
29403657 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
29403684 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
29403711 GGTAATTTTAC
1 GGTAATTTTAC
29403722 AAATTAGGGG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:29403706 original size:54 final size:54
Alignment explanation
Indices: 29403630--29403748 Score: 125
Period size: 54 Copynumber: 2.2 Consensus size: 54
29403620 GGGGTAAAAT
**
29403630 GGTAATTTTACCCCAAGAGGGTATCTCGATAATTCTAC-CCTATAGGGGTATTTC
1 GGTAATTTTACCCCAAGAGGGTATCTCGATAATTCTACAAAT-TAGGGGTATTTC
** * * * *
29403684 GGTAATTTTACCTTACAG-GGGTATTTCGGTAATTTTACAAATTAGGGGTATTTT
1 GGTAATTTTACCCCA-AGAGGGTATCTCGATAATTCTACAAATTAGGGGTATTTC
*
29403738 TGTAATTTTAC
1 GGTAATTTTAC
29403749 AAATTAGGGG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 51 0.94
55 3 0.06
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTAATTTTACCCCAAGAGGGTATCTCGATAATTCTACAAATTAGGGGTATTTC
Found at i:29403730 original size:27 final size:27
Alignment explanation
Indices: 29403672--29403826 Score: 179
Period size: 27 Copynumber: 5.7 Consensus size: 27
29403662 TTCTACCCTA
* *
29403672 TAGGGGTATTTCGGTAATTTTAC--CT
1 TAGGGGTATTTTGGTAATTTTACAAAT
*
29403697 TACAGGGGTATTTCGGTAATTTTACAAAT
1 T--AGGGGTATTTTGGTAATTTTACAAAT
*
29403726 TAGGGGTATTTTTGTAATTTTACAAAT
1 TAGGGGTATTTTGGTAATTTTACAAAT
* *
29403753 TAGGGGTATTTTGGTAATTTTGCTAAT
1 TAGGGGTATTTTGGTAATTTTACAAAT
* * *
29403780 TAAGGGTATTTTGGTAATTTTGCTAAT
1 TAGGGGTATTTTGGTAATTTTACAAAT
* *
29403807 CAAGGGTATTTTGGTAATTT
1 TAGGGGTATTTTGGTAATTT
29403827 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
25 1 0.01
27 115 0.97
29 2 0.02
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAT
Found at i:29403826 original size:81 final size:81
Alignment explanation
Indices: 29403672--29403826 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
29403662 TTCTACCCTA
* * *
29403672 TAGGGGTATTTCGGTAATTTTACCTTACAGGGGTATTTCGGTAATTTTACAAATTAGGGGTATTT
1 TAGGGGTATTTCGGTAATTTTACATTACAGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
*
29403737 TTGTAATTTTACAAAT
66 TGGTAATTTTACAAAT
* * * * *
29403753 TAGGGGTATTTTGGTAATTTTGCTAATTA-A-GGGTATTTTGGTAATTTTGCTAATCAAGGGTAT
1 TAGGGGTATTTCGGTAATTTTAC--ATTACAGGGGTATTTCGGTAATTTTACAAATCAAGGGTAT
29403816 TTTGGTAATTT
64 TTTGGTAATTT
29403827 GGTAAACTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 59 0.94
82 1 0.02
83 3 0.05
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (81 bp):
TAGGGGTATTTCGGTAATTTTACATTACAGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
TGGTAATTTTACAAAT
Found at i:29412402 original size:8 final size:8
Alignment explanation
Indices: 29412391--29412418 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
29412381 GGCAAATCTT
29412391 GAAATGCC
1 GAAATGCC
29412399 GAAATGCC
1 GAAATGCC
29412407 GAAATGCC
1 GAAATGCC
29412415 GAAA
1 GAAA
29412419 AGCCAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (8 bp):
GAAATGCC
Found at i:29413974 original size:46 final size:46
Alignment explanation
Indices: 29413907--29414000 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
29413897 TTATTTTAAA
29413907 GAAGGGTTTTCAATGAAAACAAGGTTTTCGAAAAACACTTCAATGT
1 GAAGGGTTTTCAATGAAAACAAGGTTTTCGAAAAACACTTCAATGT
29413953 GAAGGGTTTTCAATGAAAACAAGGTTTTCGAAAAACACTTCAATGT
1 GAAGGGTTTTCAATGAAAACAAGGTTTTCGAAAAACACTTCAATGT
29413999 GA
1 GA
29414001 CACGCCAGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (46 bp):
GAAGGGTTTTCAATGAAAACAAGGTTTTCGAAAAACACTTCAATGT
Found at i:29420068 original size:92 final size:94
Alignment explanation
Indices: 29419955--29420264 Score: 290
Period size: 97 Copynumber: 3.3 Consensus size: 94
29419945 TATGTGTGCT
* *
29419955 AGTGTAAGGCATGTCTAGGACATGCATTGGCCACAT-TATGAGAGCCAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATATATGAGAGCCAGTGTAAGACATGTCTGG
* *
29420019 GACAT-GCATCGACATTAAGACGAGAGCT
66 GACATGGCATCGACATTAAGACGACAGCC
** * * * * *
29420047 AGTGTAAGACATGTCTGGGACATGCATCAG-CATCGTGATAT-ACGAGCTAGTGTAAAACCTTTC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCA-CAT-ATATGA-GAGCCAGTGTAAGACATGTC
* * *
29420110 TGGGACATGGCATCGGCACTGACAGATGACAGCC
63 TGGGACATGGCATCGACA-TTA-AGACGACAGCC
* * * * * *
29420144 AGTGTAAGACTTGTTTGGGACACGACATTGGCCTCGATATATGAAAGTCAGTGTAAGACATGTCT
1 AGTGTAAGACATGTCTGGGACATG-CATTGGCCAC-ATATATGAGAGCCAGTGTAAGACATGTCT
* *
29420209 GGGACATGGCATTGACTTTAATG-CG-CTAGCC
64 GGGACATGGCATCGACATTAA-GACGAC-AGCC
29420240 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
29420265 GCGTCAGCAT
Statistics
Matches: 169, Mismatches: 35, Indels: 23
0.74 0.15 0.10
Matches are distributed among these distances:
91 2 0.01
92 28 0.17
93 1 0.01
94 27 0.16
95 9 0.05
96 17 0.10
97 44 0.26
98 38 0.22
99 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCACATATATGAGAGCCAGTGTAAGACATGTCTGG
GACATGGCATCGACATTAAGACGACAGCC
Found at i:29420222 original size:49 final size:48
Alignment explanation
Indices: 29420047--29420220 Score: 140
Period size: 49 Copynumber: 3.6 Consensus size: 48
29420037 GACGAGAGCT
* * *
29420047 AGTGTAAGACATGTCTGGGACAT-GCATCAGCATCG-TGATAT-ACGAGC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAT-ATATGA-AAGC
* * * * * *
29420094 TAGTGTAAAACCTTTCTGGGACATGGCATCGGCACT-GACAGATGACAGCC
1 -AGTGTAAGACATGTCTGGGACATGGCATCGGC-CTCGATATATGAAAG-C
* * * * *
29420144 AGTGTAAGACTTGTTTGGGACACGACATTGGCCTCGATATATGAAAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATATATGAAAG-C
29420193 AGTGTAAGACATGTCTGGGACATGGCAT
1 AGTGTAAGACATGTCTGGGACATGGCAT
29420221 TGACTTTAAT
Statistics
Matches: 97, Mismatches: 23, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
48 22 0.23
49 72 0.74
50 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATATATGAAAGC
Found at i:29422674 original size:32 final size:31
Alignment explanation
Indices: 29422627--29422985 Score: 212
Period size: 32 Copynumber: 11.6 Consensus size: 31
29422617 TAAGATATTC
* * *
29422627 ATAACAAAAATTAATATAAACTAATAAAAATT
1 ATAATAAAAA-TAATAAAAACTTATAAAAATT
* *
29422659 ATACTAAAAAGTAATAAAAACTTATAAATATT
1 ATAATAAAAA-TAATAAAAACTTATAAAAATT
* * * *
29422691 ATAATAAATATAAT-AAATC-TA-ATAATTT
1 ATAATAAAAATAATAAAAACTTATAAAAATT
*
29422719 ATAA-AAAAATATTATATAAAA-TTATAAATATT
1 ATAATAAAAATA--ATA-AAAACTTATAAAAATT
* *
29422751 AT-A-AAAAAT-A-AAAAAC-GAAAAAAATT
1 ATAATAAAAATAATAAAAACTTATAAAAATT
* * * *
29422777 AAAAATAGGAAAATTATTAAAAAATCATAAAAATT
1 -ATAATA--AAAA-TAATAAAAACTTATAAAAATT
* * *
29422812 ATTAAAAATTAAAATTAATATAAACTTATAAATATT
1 A-T---AA-TAAAAATAATAAAAACTTATAAAAATT
*
29422848 ATAATAAAAAATAATAAAAACTTATAAATATT
1 ATAAT-AAAAATAATAAAAACTTATAAAAATT
*
29422880 ATAATAAAAAATAATAAAAACTTATAAATATT
1 ATAAT-AAAAATAATAAAAACTTATAAAAATT
* * *
29422912 ATAATAAATATAAT-AAATC-TA-ATAAATT
1 ATAATAAAAATAATAAAAACTTATAAAAATT
* *
29422940 AT-A-AAAAATAATATAAACGTATAAAAATT
1 ATAATAAAAATAATAAAAACTTATAAAAATT
*
29422969 AT-A-AAAAATCATAAAAA
1 ATAATAAAAATAATAAAAA
29422986 AATTGAACTA
Statistics
Matches: 258, Mismatches: 44, Indels: 53
0.73 0.12 0.15
Matches are distributed among these distances:
26 19 0.07
27 12 0.05
28 19 0.07
29 28 0.11
30 8 0.03
31 29 0.11
32 104 0.40
34 6 0.02
35 9 0.03
36 17 0.07
37 3 0.01
38 2 0.01
39 2 0.01
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (31 bp):
ATAATAAAAATAATAAAAACTTATAAAAATT
Found at i:29422676 original size:22 final size:21
Alignment explanation
Indices: 29422632--29422684 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
29422622 TATTCATAAC
*
29422632 AAAAATTA-ATATAAACTAAT
1 AAAAATTATATAAAAACTAAT
*
29422652 AAAAATTATACTAAAAAGTAAT
1 AAAAATTATA-TAAAAACTAAT
29422674 AAAAACTTATA
1 AAAAA-TTATA
29422685 AATATTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 1 0.04
22 14 0.50
23 5 0.18
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATTATATAAAAACTAAT
Found at i:29422678 original size:10 final size:10
Alignment explanation
Indices: 29422632--29422985 Score: 67
Period size: 10 Copynumber: 35.5 Consensus size: 10
29422622 TATTCATAAC
29422632 AAAAATTAAT
1 AAAAATTAAT
* *
29422642 ATAAACTAAT
1 AAAAATTAAT
29422652 AAAAATTATACT
1 AAAAATTA-A-T
*
29422664 AAAAAGTAAT
1 AAAAATTAAT
29422674 AAAAACTT-AT
1 AAAAA-TTAAT
*
29422684 AAATATT-AT
1 AAAAATTAAT
29422693 AATAAA-T-AT
1 AA-AAATTAAT
29422702 AATAAATCTAAT
1 AA-AAAT-TAAT
* *
29422714 --AATTTATAA
1 AAAAATTA-AT
*
29422723 AAAAATATTAT
1 AAAAAT-TAAT
29422734 ATAAAATT-AT
1 A-AAAATTAAT
*
29422744 AAATATT-AT
1 AAAAATTAAT
*
29422753 AAAAAAT-A-
1 AAAAATTAAT
**
29422761 AAAAACGAA-
1 AAAAATTAAT
29422770 AAAAATTAAAAAT
1 AAAAATT---AAT
*
29422783 AGGAAAATTATT
1 A--AAAATTAAT
* *
29422795 AAAAAATCAT
1 AAAAATTAAT
*
29422805 AAAAATTATT
1 AAAAATTAAT
29422815 AAAAA-T--T
1 AAAAATTAAT
29422822 -AAAATTAAT
1 AAAAATTAAT
*
29422831 ATAAACTT-AT
1 A-AAAATTAAT
*
29422841 AAATATTATAAT
1 AAA-AAT-TAAT
*
29422853 AAAAAATAAT
1 AAAAATTAAT
29422863 AAAAACTT-AT
1 AAAAA-TTAAT
*
29422873 AAATATTATAAT
1 AAA-AAT-TAAT
*
29422885 AAAAAATAAT
1 AAAAATTAAT
29422895 AAAAACTT-AT
1 AAAAA-TTAAT
*
29422905 AAATATT-AT
1 AAAAATTAAT
29422914 AATAAA-T-AT
1 AA-AAATTAAT
29422923 AATAAATCTAAT
1 AA-AAAT-TAAT
29422935 --AAATT-AT
1 AAAAATTAAT
*
29422942 AAAAAATAAT
1 AAAAATTAAT
**
29422952 ATAAACGT-AT
1 A-AAAATTAAT
29422962 AAAAATT-AT
1 AAAAATTAAT
* *
29422971 AAAAAATCAT
1 AAAAATTAAT
29422981 AAAAA
1 AAAAA
29422986 AATTGAACTA
Statistics
Matches: 259, Mismatches: 44, Indels: 82
0.67 0.11 0.21
Matches are distributed among these distances:
6 4 0.02
7 4 0.02
8 8 0.03
9 77 0.30
10 99 0.38
11 27 0.10
12 33 0.13
13 1 0.00
15 6 0.02
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:29422852 original size:22 final size:22
Alignment explanation
Indices: 29422827--29422919 Score: 75
Period size: 22 Copynumber: 4.3 Consensus size: 22
29422817 AAATTAAAAT
* *
29422827 TAATATAAACTTATAAATATTA
1 TAATAAAAACTTATAAAAATTA
* * *
29422849 TAATAAAAAATAATAAAAACT-
1 TAATAAAAACTTATAAAAATTA
* **
29422870 T-ATAAATA-TTATAATAAAAAA
1 TAATAAAAACTTATAA-AAATTA
*
29422891 TAATAAAAACTTATAAATATTA
1 TAATAAAAACTTATAAAAATTA
29422913 TAATAAA
1 TAATAAA
29422920 TATAATAAAT
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 5 0.09
20 9 0.17
21 2 0.04
22 32 0.59
23 6 0.11
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (22 bp):
TAATAAAAACTTATAAAAATTA
Found at i:29422934 original size:18 final size:19
Alignment explanation
Indices: 29422913--29422948 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29422903 ATAAATATTA
*
29422913 TAATAAA-TATAATAAATC
1 TAATAAATTATAAAAAATC
29422931 TAATAAATTATAAAAAAT
1 TAATAAATTATAAAAAAT
29422949 AATATAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAAATTATAAAAAATC
Found at i:29422973 original size:9 final size:9
Alignment explanation
Indices: 29422724--29422985 Score: 85
Period size: 9 Copynumber: 29.6 Consensus size: 9
29422714 AATTTATAAA
29422724 AAAATATTAT
1 AAAA-ATTAT
29422734 ATAAAATTAT
1 A-AAAATTAT
*
29422744 AAATATTAT
1 AAAAATTAT
*
29422753 AAAAAATA-
1 AAAAATTAT
**
29422761 AAAAACGA-
1 AAAAATTAT
*
29422769 AAAAAAT-T
1 AAAAATTAT
*
29422777 AAAAA-TAG
1 AAAAATTAT
*
29422785 GAAAATTATT
1 AAAAATTA-T
*
29422795 AAAAAATCAT
1 -AAAAATTAT
29422805 AAAAATTATT
1 AAAAATTA-T
29422815 AAAAA-T-T
1 AAAAATTAT
29422822 -AAAATTAAT
1 AAAAATT-AT
*
29422831 ATAAACTTAT
1 A-AAAATTAT
*
29422841 AAATATTAT
1 AAAAATTAT
29422850 ---AA-TA-
1 AAAAATTAT
*
29422854 AAAAATAAT
1 AAAAATTAT
29422863 AAAAACTTAT
1 AAAAA-TTAT
*
29422873 AAATATTAT
1 AAAAATTAT
29422882 ---AA-TA-
1 AAAAATTAT
*
29422886 AAAAATAAT
1 AAAAATTAT
29422895 AAAAACTTAT
1 AAAAA-TTAT
*
29422905 AAATATTAT
1 AAAAATTAT
29422914 AATAAA-TAT
1 AA-AAATTAT
29422923 AATAAATCTA-
1 AA-AAAT-TAT
*
29422933 ATAAATTAT
1 AAAAATTAT
*
29422942 AAAAAATAAT
1 -AAAAATTAT
**
29422952 ATAAACGTAT
1 A-AAAATTAT
29422962 AAAAATTAT
1 AAAAATTAT
*
29422971 AAAAAATCAT
1 -AAAAATTAT
29422981 AAAAA
1 AAAAA
29422986 AATTGAACTA
Statistics
Matches: 187, Mismatches: 34, Indels: 63
0.66 0.12 0.22
Matches are distributed among these distances:
5 4 0.02
6 6 0.03
7 7 0.04
8 24 0.13
9 75 0.40
10 55 0.29
11 16 0.09
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:29425609 original size:19 final size:20
Alignment explanation
Indices: 29425585--29425622 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
29425575 GGTACCACCA
29425585 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
29425604 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
29425623 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:29425918 original size:46 final size:45
Alignment explanation
Indices: 29425851--29426018 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 45
29425841 CGCCCCTAAG
*
29425851 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
29425897 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * * * *
29425944 CGAACTCAGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
29425990 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
29426019 ATGCTCAACC
Statistics
Matches: 100, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 54 0.54
47 27 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:29425963 original size:93 final size:93
Alignment explanation
Indices: 29425852--29426022 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
29425842 GCCCCTAAGT
* * *
29425852 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
29425917 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
29425945 GAACTCAGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
29426010 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29426023 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29426476 original size:30 final size:30
Alignment explanation
Indices: 29426442--29426501 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
29426432 ATTTAATACG
29426442 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
29426472 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
29426502 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:29428829 original size:10 final size:9
Alignment explanation
Indices: 29428760--29429214 Score: 126
Period size: 9 Copynumber: 48.3 Consensus size: 9
29428750 GACTTTTTTT
29428760 ATTTTTATA
1 ATTTTTATA
*
29428769 ATCTTTATA
1 ATTTTTATA
*
29428778 ATTTATTAGA
1 ATTT-TTATA
*
29428788 ATTTTGAT-
1 ATTTTTATA
* *
29428796 ATTATATCTA
1 ATT-TTTATA
*
29428806 ATTTTTATG
1 ATTTTTATA
29428815 ATTTTTATA
1 ATTTTTATA
29428824 AGTTTTTATAA
1 A-TTTTTAT-A
*
29428835 AATTTTA-A
1 ATTTTTATA
*
29428843 ATATTTTAGA
1 AT-TTTTATA
29428853 TATATTTTATTA
1 -AT-TTTTA-TA
*
29428865 A-CTTTATAA
1 ATTTTTAT-A
29428874 ATATTTTATA
1 AT-TTTTATA
29428884 ATATTTTAT-
1 AT-TTTTATA
*
29428893 ATTTTTGTA
1 ATTTTTATA
* *
29428902 ATATTCATA
1 ATTTTTATA
*
29428911 AGTTTTTATT
1 A-TTTTTATA
*
29428921 ATTTATTATT
1 ATTT-TTATA
29428931 A-TTTTATA
1 ATTTTTATA
*
29428939 ACTTTTATA
1 ATTTTTATA
**
29428948 AGTTTACATA
1 A-TTTTTATA
* *
29428958 AATTTCA-A
1 ATTTTTATA
29428966 TATATTTT-TA
1 -AT-TTTTATA
*
29428976 ATATTTAATA
1 AT-TTTTATA
** *
29428986 ATACTTATG
1 ATTTTTATA
29428995 ATTTTTAT-
1 ATTTTTATA
29429003 ATTTTTATGA
1 ATTTTTAT-A
*
29429013 AATTTTATA
1 ATTTTTATA
*
29429022 ACTTTTTAAGA
1 A-TTTTT-ATA
29429033 ATTTTTATA
1 ATTTTTATA
*
29429042 CATTTTTCTAAA
1 -A-TTTT-TATA
* * *
29429054 ATTCTAATT
1 ATTTTTATA
* *
29429063 GTGTTTTATT
1 AT-TTTTATA
* *
29429073 ACTTTCATA
1 ATTTTTATA
29429082 ATTTTTATA
1 ATTTTTATA
* *
29429091 CTTTGTTAGA
1 ATTT-TTATA
*
29429101 ATTTATTAGA
1 ATTT-TTATA
*
29429111 TTTTTTAT-
1 ATTTTTATA
29429119 ATTTTTATAAA
1 ATTTTTAT--A
* *
29429130 ATTTATATT
1 ATTTTTATA
*
29429139 ATTTTATATT
1 ATTTT-TATA
*
29429149 GTTTTTATA
1 ATTTTTATA
29429158 ATTTTTATA
1 ATTTTTATA
29429167 AGTTTATT-TCA
1 A-TTT-TTAT-A
* *
29429178 ATCTTAAT-
1 ATTTTTATA
29429186 ATTTGTTA-A
1 ATTT-TTATA
*
29429195 ATATTT-TA
1 ATTTTTATA
29429203 ATTTTTATA
1 ATTTTTATA
29429212 ATT
1 ATT
29429215 CTTAATAAAA
Statistics
Matches: 328, Mismatches: 76, Indels: 84
0.67 0.16 0.17
Matches are distributed among these distances:
8 43 0.13
9 131 0.40
10 115 0.35
11 35 0.11
12 4 0.01
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (9 bp):
ATTTTTATA
Found at i:29428861 original size:30 final size:30
Alignment explanation
Indices: 29428827--29428893 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
29428817 TTTTATAAGT
29428827 TTTTATAAAATTT-TAAATATTTTAGATATA
1 TTTTATAAAATTTATAAATATTTTAGA-ATA
* * *
29428857 TTTTATTAACTTTATAAATATTTTATAATA
1 TTTTATAAAATTTATAAATATTTTAGAATA
29428887 TTTTATA
1 TTTTATA
29428894 TTTTTGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 20 0.62
31 12 0.38
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTTATAAAATTTATAAATATTTTAGAATA
Found at i:29429047 original size:20 final size:19
Alignment explanation
Indices: 29428995--29429048 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
29428985 AATACTTATG
*
29428995 ATTTTTAT-ATTTTTATGA
1 ATTTTTATAATTTTTAAGA
*
29429013 AATTTTATAACTTTTTAAGA
1 ATTTTTATAA-TTTTTAAGA
29429033 ATTTTTATACATTTTT
1 ATTTTTATA-ATTTTT
29429049 CTAAAATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 7 0.23
19 1 0.03
20 21 0.70
21 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (19 bp):
ATTTTTATAATTTTTAAGA
Found at i:29429171 original size:19 final size:19
Alignment explanation
Indices: 29429112--29429171 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
29429102 TTTATTAGAT
29429112 TTTTTAT-ATTTTTATAA-
1 TTTTTATAATTTTTATAAG
** * *
29429129 AATTTATATTATTTTATATTG
1 TTTTTATAAT-TTTTATA-AG
29429150 TTTTTATAATTTTTATAAG
1 TTTTTATAATTTTTATAAG
29429169 TTT
1 TTT
29429172 ATTTCAATCT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
19 11 0.35
20 7 0.23
21 7 0.23
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAG
Found at i:29431742 original size:11 final size:11
Alignment explanation
Indices: 29431721--29431757 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
29431711 TTTCAAACTC
*
29431721 AAAAAATATAT
1 AAAATATATAT
*
29431732 AATATATATAT
1 AAAATATATAT
29431743 AAAATATATAT
1 AAAATATATAT
29431754 AAAA
1 AAAA
29431758 AAATTCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATATATAT
Found at i:29431748 original size:13 final size:13
Alignment explanation
Indices: 29431726--29431758 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29431716 AACTCAAAAA
*
29431726 ATATATAATATAT
1 ATATAAAATATAT
29431739 ATATAAAATATAT
1 ATATAAAATATAT
29431752 ATA-AAAA
1 ATATAAAA
29431759 AATTCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAAAATATAT
Found at i:29432168 original size:17 final size:18
Alignment explanation
Indices: 29432142--29432175 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29432132 ATAACAATAA
*
29432142 ATTTTGAAAT-TTTTTAT
1 ATTTTAAAATATTTTTAT
29432159 ATTTTAAAATATTTTTA
1 ATTTTAAAATATTTTTA
29432176 AAAGATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTTTAAAATATTTTTAT
Found at i:29432917 original size:13 final size:13
Alignment explanation
Indices: 29432899--29432932 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
29432889 GGTCACATGC
29432899 CCGTGTGGGTAGG
1 CCGTGTGGGTAGG
29432912 CCGTGTGGGTAGG
1 CCGTGTGGGTAGG
29432925 CCGTGTGG
1 CCGTGTGG
29432933 TCACACACGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.18, G:0.53, T:0.24
Consensus pattern (13 bp):
CCGTGTGGGTAGG
Found at i:29434318 original size:42 final size:42
Alignment explanation
Indices: 29434272--29434352 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
29434262 TTTACACTAT
* *
29434272 TCTCAT-ATCGATGCCATGTCCCAGACATGGTCTTACACGAAA
1 TCTCATAAT-GATGCCATATCCCAAACATGGTCTTACACGAAA
*
29434314 TCTCATAATGATGCCATATCCCAAATATGGTCTTACACG
1 TCTCATAATGATGCCATATCCCAAACATGGTCTTACACG
29434353 TAAACTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (42 bp):
TCTCATAATGATGCCATATCCCAAACATGGTCTTACACGAAA
Found at i:29438705 original size:27 final size:27
Alignment explanation
Indices: 29438675--29438760 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
29438665 AGGATACCAA
29438675 GTAAGACCATGCCAAGGCATGGCATTG
1 GTAAGACCATGCCAAGGCATGGCATTG
** * * *
29438702 GTAAGTTC-T-ACAAGGCAAGGAAATCAT-
1 GTAAGACCATGCCAAGGCATGG-CAT--TG
29438729 GTAAGACCATGCCAAGGCATGGCATTG
1 GTAAGACCATGCCAAGGCATGGCATTG
29438756 GTAAG
1 GTAAG
29438761 TTCTACAAGG
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
25 9 0.21
26 4 0.09
27 17 0.40
28 4 0.09
29 9 0.21
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.20
Consensus pattern (27 bp):
GTAAGACCATGCCAAGGCATGGCATTG
Found at i:29438716 original size:25 final size:25
Alignment explanation
Indices: 29438687--29438772 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 25
29438677 AAGACCATGC
29438687 CAAGGCATGGCATTGGTAAGTTCTA
1 CAAGGCATGGCATTGGTAAGTTCTA
* * ** *
29438712 CAAGGCAAGGAAATCAT-GTAAGACCATGC
1 CAAGGCATGG-CAT--TGGTAAGTTC-T-A
29438741 CAAGGCATGGCATTGGTAAGTTCTA
1 CAAGGCATGGCATTGGTAAGTTCTA
29438766 CAAGGCA
1 CAAGGCA
29438773 AGGAAATCAT
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
25 16 0.36
26 4 0.09
27 12 0.27
28 4 0.09
29 9 0.20
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.21
Consensus pattern (25 bp):
CAAGGCATGGCATTGGTAAGTTCTA
Found at i:29438745 original size:29 final size:29
Alignment explanation
Indices: 29438711--29438798 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
29438701 GGTAAGTTCT
29438711 ACAAGGCAAGGAAATCATGTAAGACCATG
1 ACAAGGCAAGGAAATCATGTAAGACCATG
* * * **
29438740 CCAAGGCATGG-CAT--TGGTAAGTTC-T-
1 ACAAGGCAAGGAAATCAT-GTAAGACCATG
29438765 ACAAGGCAAGGAAATCATGTAAGACCATG
1 ACAAGGCAAGGAAATCATGTAAGACCATG
*
29438794 TCAAG
1 ACAAG
29438799 ACATCTCATT
Statistics
Matches: 42, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
25 9 0.21
26 4 0.10
27 12 0.29
28 4 0.10
29 13 0.31
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (29 bp):
ACAAGGCAAGGAAATCATGTAAGACCATG
Found at i:29438746 original size:54 final size:54
Alignment explanation
Indices: 29438664--29438924 Score: 263
Period size: 54 Copynumber: 4.8 Consensus size: 54
29438654 ATTAGGGTTT
* *
29438664 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
*
29438718 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
* * * ** * * * *
29438772 AAGGAAATCATGTAAGACCATGTCAAGACATCTCATTGATAAACTACTATAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGGT-AAGTTCTACAAGGC
* ** * * * * *
29438827 AAAGATCCCATGTAAGACCGTGCCAAGGCATGGAAATGGTGAGTTC-ATAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
* * ** * * *
29438880 AAGGATACCACGTAAGACCATTTCAAGACATGACAATGGTAAGTT
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT
29438925 TAAAAAGGAA
Statistics
Matches: 170, Mismatches: 36, Indels: 3
0.81 0.17 0.01
Matches are distributed among these distances:
53 42 0.25
54 89 0.52
55 39 0.23
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (54 bp):
AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
Found at i:29438786 original size:27 final size:27
Alignment explanation
Indices: 29438702--29438787 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
29438692 CATGGCATTG
29438702 GTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGTTCTACAAGGCAAGGAAATCAT
** * * *
29438729 GTAAGACCATGCCAAGGCATGG-CAT--T
1 GTAAGTTC-T-ACAAGGCAAGGAAATCAT
29438755 GGTAAGTTCTACAAGGCAAGGAAATCAT
1 -GTAAGTTCTACAAGGCAAGGAAATCAT
29438783 GTAAG
1 GTAAG
29438788 ACCATGTCAA
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
25 9 0.21
26 4 0.09
27 17 0.40
28 4 0.09
29 9 0.21
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (27 bp):
GTAAGTTCTACAAGGCAAGGAAATCAT
Found at i:29446318 original size:53 final size:52
Alignment explanation
Indices: 29446139--29446342 Score: 192
Period size: 53 Copynumber: 3.8 Consensus size: 52
29446129 AGGGTTTGAG
* * * * *
29446139 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC-AA
* * * * * * *
29446193 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAA
* * * *
29446247 AATTCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAA
1 GA-TACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAA
* *
29446300 TGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 -GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
29446343 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
53 44 0.37
54 39 0.33
55 36 0.30
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (52 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAA
Found at i:29479537 original size:51 final size:51
Alignment explanation
Indices: 29479477--29479581 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
29479467 AATAGAAAAT
29479477 TTGTGTGAATATTGATTAACAGTGAAACAATTCAGGGTGCAAATATGAAAG
1 TTGTGTGAATATTGATTAACAGTGAAACAATTCAGGGTGCAAATATGAAAG
*
29479528 TTGTGTGAATATTGATTAACAGTGAAACAATTCAGGGTGCAAATATGAATG
1 TTGTGTGAATATTGATTAACAGTGAAACAATTCAGGGTGCAAATATGAAAG
29479579 TTG
1 TTG
29479582 AATAATCACA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (51 bp):
TTGTGTGAATATTGATTAACAGTGAAACAATTCAGGGTGCAAATATGAAAG
Found at i:29480642 original size:41 final size:41
Alignment explanation
Indices: 29480582--29480664 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
29480572 TCAGACATCG
*
29480582 AAATAGAGTTACAGAGCATTACTAAAAAATTTCAACTTAAA
1 AAATAGAGTTACAGAGCATTACCAAAAAATTTCAACTTAAA
* *
29480623 AAATAGGGTTACAGGGCATTACCAAAAAATTTCAACTTAAA
1 AAATAGAGTTACAGAGCATTACCAAAAAATTTCAACTTAAA
29480664 A
1 A
29480665 CATACAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.25
Consensus pattern (41 bp):
AAATAGAGTTACAGAGCATTACCAAAAAATTTCAACTTAAA
Found at i:29481800 original size:27 final size:26
Alignment explanation
Indices: 29481765--29481876 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
29481755 AGGATGGCTG
* *
29481765 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
29481791 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
29481819 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
29481846 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
29481873 CCAG
1 CCAG
29481877 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:29481858 original size:54 final size:54
Alignment explanation
Indices: 29481765--29481876 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
29481755 AGGATGGCTG
* *
29481765 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
29481819 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-TAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
29481873 CCAG
1 CCAG
29481877 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:29485866 original size:40 final size:40
Alignment explanation
Indices: 29485794--29485978 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
29485784 GCTACTCGTT
* *
29485794 CAAATGCCTTCGGGACATAGCCCCG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
29485834 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
29485874 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
29485913 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
29485954 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29485979 CATCATTCGA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29485906 original size:79 final size:81
Alignment explanation
Indices: 29485796--29485978 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
29485786 TACTCGTTCA
* * *
29485796 AATGCCTTCGGGACATAGCCCCG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
29485859 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
29485876 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
29485939 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
29485955 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
29485979 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:29488110 original size:93 final size:93
Alignment explanation
Indices: 29487997--29488168 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
29487987 CGCCCATAAG
*
29487997 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
29488061 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
29488090 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29488155 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
29488169 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29488163 original size:46 final size:46
Alignment explanation
Indices: 29487990--29488165 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
29487980 TGTAACCCGC
* *
29487990 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
29488036 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
29488086 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
29488129 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
29488166 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:29500071 original size:40 final size:40
Alignment explanation
Indices: 29500016--29500199 Score: 253
Period size: 40 Copynumber: 4.5 Consensus size: 40
29500006 TATTCGGATG
29500016 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
29500056 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
29500099 ATACCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
29500139 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
29500179 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
29500200 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 13 0.10
40 77 0.61
41 1 0.01
43 36 0.28
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:29500159 original size:83 final size:83
Alignment explanation
Indices: 29500020--29500174 Score: 274
Period size: 83 Copynumber: 1.9 Consensus size: 83
29500010 CGGATGATAT
* * *
29500020 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
29500085 TGCGAGTAGTTGCTATAC
66 TGCGAGTAGTTGCTATAC
*
29500103 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
29500168 TGCGAGT
66 TGCGAGT
29500175 TGCTATATCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (83 bp):
CCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTAGTTGCTATAC
Found at i:29500219 original size:83 final size:82
Alignment explanation
Indices: 29500020--29500200 Score: 242
Period size: 83 Copynumber: 2.2 Consensus size: 82
29500010 CGGATGATAT
* * * * *
29500020 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAATCCCAAAGACATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
29500085 TGCGAGTAGTTGCTATAC
66 TGC-AGTAGTTGCTATAC
* * *
29500103 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAATCCCAAAGACATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
*
29500168 TGC-G-AGTTGCTATAT
66 TGCAGTAGTTGCTATAC
*
29500183 CC-GGCTAAATCCCGAAGA
1 CCGGGCTAAATCCCAAAGA
29500201 TACTTGGGTT
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.14
80 12 0.13
81 1 0.01
83 64 0.71
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (82 bp):
CCGGGCTAAATCCCAAAGACATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCAGTAGTTGCTATAC
Found at i:29504416 original size:15 final size:15
Alignment explanation
Indices: 29504393--29504424 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29504383 AAAGTTAATC
*
29504393 AAAATTTATTTCATA
1 AAAAATTATTTCATA
29504408 AAAAATTATTTCATA
1 AAAAATTATTTCATA
29504423 AA
1 AA
29504425 CTAATACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAAATTATTTCATA
Found at i:29510803 original size:44 final size:42
Alignment explanation
Indices: 29510739--29510833 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 42
29510729 TAAGATATCA
* * *
29510739 TGTAAGACCGTGTCTGGGACA-TAGGCATCG-ATTTGAGATTTACG
1 TGTAAGACCATGTATAGGACACTA-GCATCGTATTT--GATTT-CG
29510783 TGTAAGACCATGTATAGGACACTAGCATCGTATTTGATTTCG
1 TGTAAGACCATGTATAGGACACTAGCATCGTATTTGATTTCG
29510825 TGTAAGACC
1 TGTAAGACC
29510834 CTATCTGGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
42 11 0.24
43 5 0.11
44 24 0.52
45 6 0.13
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTATAGGACACTAGCATCGTATTTGATTTCG
Found at i:29511985 original size:30 final size:30
Alignment explanation
Indices: 29511929--29511987 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
29511919 CTCGAGCCTG
* *
29511929 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGCAAAAGTTTA
* *
29511959 GGGGCAAAAATGTAATTTTGCCAAAGTTT
1 GGGGCAAAAATGTAATTATGCAAAAGTTT
29511988 GTATTAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGCAAAAGTTTA
Found at i:29512459 original size:46 final size:48
Alignment explanation
Indices: 29512408--29512538 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 48
29512398 ATGGTTGAGC
*
29512408 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
* * * *
29512455 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG
29512500 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29512539 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
43 5 0.07
45 4 0.06
46 29 0.42
47 29 0.42
48 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
Found at i:29519497 original size:27 final size:26
Alignment explanation
Indices: 29519466--29519643 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
29519456 TAAATTGTAC
29519466 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
29519493 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
29519519 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
29519547 GGCACTAAGTGTGCGAGGTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
29519575 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
29519602 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
29519629 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29519644 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:29519527 original size:54 final size:54
Alignment explanation
Indices: 29519466--29519643 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 54
29519456 TAAATTGTAC
* **
29519466 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* ** *
29519521 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGGTTGACTATG-T
1 AGCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGA-GTTGAATATGAT
* * *
29519575 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
29519629 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29519644 GGCTCAATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
54 60 0.57
55 45 0.43
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:29519582 original size:82 final size:81
Alignment explanation
Indices: 29519467--29519622 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
29519457 AAATTGTACA
* *
29519467 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
29519531 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
29519548 GCACTAAGTGTGCGAGGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA--TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
29519612 GTGCGAGTTGA
64 GTGCGAATTGA
29519623 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 15 0.23
82 48 0.73
83 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:29519634 original size:82 final size:81
Alignment explanation
Indices: 29519463--29519643 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
29519453 GATTAAATTG
* *
29519463 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29519528 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
29519544 TGCGGCACTAAGTGTGCGAGGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA--TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
29519607 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
29519626 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
29519644 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 18 0.22
82 63 0.76
83 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29519654 original size:27 final size:27
Alignment explanation
Indices: 29519548--29519654 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
29519538 TGACCATGCG
* * * *
29519548 GCACTAAGTGTGCGAGGTTGACTATGTA
1 GCACTAAGTGTGCGA-GCTCAATATATA
** * * **
29519576 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
29519603 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
29519630 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
29519655 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:29522806 original size:30 final size:30
Alignment explanation
Indices: 29522770--29522830 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
29522760 TTCCCGAGCC
*
29522770 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
29522800 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
29522830 T
1 T
29522831 GTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:29523309 original size:46 final size:45
Alignment explanation
Indices: 29523256--29523427 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
29523246 TGAGCATCCA
29523256 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-GTCCG
* * * *
29523302 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G--TCCG
* * **
29523349 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACACCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGTCC-G
*
29523395 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29523428 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 5 0.05
45 6 0.06
46 57 0.55
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGTCCG
Found at i:29523408 original size:93 final size:93
Alignment explanation
Indices: 29523249--29523419 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
29523239 GGATGGTTGA
* **
29523249 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATCACCGAACTCGTTGAGT
29523314 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
29523342 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA-CACCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATCACC-GAACTCGTTGAG
29523406 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
29523420 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATCACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:29529759 original size:22 final size:23
Alignment explanation
Indices: 29529715--29529757 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
29529705 TTATTACTAT
29529715 TTTTTCTCTATGTTTCCCTTTTC
1 TTTTTCTCTATGTTTCCCTTTTC
*
29529738 TTTTTC-CT-TGTTTACCTTTT
1 TTTTTCTCTATGTTTCCCTTTT
29529758 TCAGTCACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 2 0.11
23 6 0.32
ACGTcount: A:0.05, C:0.23, G:0.05, T:0.67
Consensus pattern (23 bp):
TTTTTCTCTATGTTTCCCTTTTC
Found at i:29532063 original size:56 final size:56
Alignment explanation
Indices: 29532003--29532121 Score: 195
Period size: 56 Copynumber: 2.1 Consensus size: 56
29531993 TCCCAGACAG
*
29532003 GGTCTTACTCGCACACATATATC-AGAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGA-AGTCACATATCGATGCCAACGTATAAAACAT
* *
29532059 GGTCTTACTCGCACGCATATATCGAAGTCACATATTGATGCCAACGTATAAAACAT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
29532115 GGTCTTA
1 GGTCTTA
29532122 TTCGTAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 58 0.98
57 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
Found at i:29532135 original size:56 final size:56
Alignment explanation
Indices: 29532003--29532136 Score: 171
Period size: 56 Copynumber: 2.4 Consensus size: 56
29531993 TCCCAGACAG
* * *
29532003 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCAAAAATATATCAGAGTCACATATCGATGCCAACGTATAAAACAT
*** *
29532059 GGTCTTACTCGCACGCATATATC-GAAGTCACATATTGATGCCAACGTATAAAACAT
1 GGTCTTACTCGCAAAAATATATCAG-AGTCACATATCGATGCCAACGTATAAAACAT
* *
29532115 GGTCTTATTCGTAAAAATATAT
1 GGTCTTACTCGCAAAAATATAT
29532137 GATGCCATGG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 1 0.01
56 68 0.99
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCAAAAATATATCAGAGTCACATATCGATGCCAACGTATAAAACAT
Found at i:29533061 original size:11 final size:10
Alignment explanation
Indices: 29533045--29533095 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
29533035 TTATATGTTT
29533045 TATTATATACA
1 TATTAT-TACA
29533056 TATTATTACA
1 TATTATTACA
*
29533066 TAAT-TTACA
1 TATTATTACA
*
29533075 TATTATTACC
1 TATTATTACA
29533085 T-TT-TTACA
1 TATTATTACA
29533093 TAT
1 TAT
29533096 AATAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 5 0.15
9 11 0.32
10 12 0.35
11 6 0.18
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (10 bp):
TATTATTACA
Found at i:29537087 original size:17 final size:19
Alignment explanation
Indices: 29537065--29537113 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
29537055 ATGAGTATGT
29537065 ATGATATT-T-AATGTTTG
1 ATGATATTATGAATGTTTG
29537082 ATGATAGATTATGAATGTTTG
1 ATGAT--ATTATGAATGTTTG
29537103 ATGATAGTTAT
1 ATGATA-TTAT
29537114 ACAAGTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
19 4 0.15
20 5 0.19
21 13 0.48
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (19 bp):
ATGATATTATGAATGTTTG
Found at i:29537100 original size:21 final size:20
Alignment explanation
Indices: 29537074--29537113 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
29537064 TATGATATTT
29537074 AATGTTTGATGATAGATTATG
1 AATGTTTGATGATAG-TTATG
29537095 AATGTTTGATGATAGTTAT
1 AATGTTTGATGATAGTTAT
29537114 ACAAGTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (20 bp):
AATGTTTGATGATAGTTATG
Found at i:29537123 original size:21 final size:21
Alignment explanation
Indices: 29537074--29537121 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
29537064 TATGATATTT
*
29537074 AATGTTTGATGATAGATTATG
1 AATGTTTGATGATAGATTATC
29537095 AATGTTTGATGATAG-TTATAC
1 AATGTTTGATGATAGATTAT-C
29537116 AA-GTTT
1 AATGTTT
29537122 TGTTAAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATC
Found at i:29544273 original size:32 final size:32
Alignment explanation
Indices: 29544223--29544287 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
29544213 TTATGATTAT
*
29544223 TTTAATTTCTACAACATGATAATATGTTTGTG
1 TTTAATTTCCACAACATGATAATATGTTTGTG
* *
29544255 TTTAATTTCCATAGCATGATAATATGTTTGTG
1 TTTAATTTCCACAACATGATAATATGTTTGTG
29544287 T
1 T
29544288 GAAATTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (32 bp):
TTTAATTTCCACAACATGATAATATGTTTGTG
Found at i:29560165 original size:22 final size:21
Alignment explanation
Indices: 29560140--29560185 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
29560130 CAAATATTTC
* *
29560140 ATAATTTACTATAATAACCTTT
1 ATAAATTAATATAA-AACCTTT
*
29560162 ATAAATTAATATAAAATCTTT
1 ATAAATTAATATAAAACCTTT
29560183 ATA
1 ATA
29560186 TTGGCTATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAATTAATATAAAACCTTT
Found at i:29562685 original size:50 final size:50
Alignment explanation
Indices: 29562626--29562727 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
29562616 GAATAAAAGA
29562626 AATAGGGAAGGATTCAAAAGAGAGAAGGGATATTCGACTAACACAGAAGC
1 AATAGGGAAGGATTCAAAAGAGAGAAGGGATATTCGACTAACACAGAAGC
29562676 AATAGGGAAGGATTCAAAAGAGAGAAGGGATATTCGACTAACACAGAAGC
1 AATAGGGAAGGATTCAAAAGAGAGAAGGGATATTCGACTAACACAGAAGC
29562726 AA
1 AA
29562728 CCCAAATGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.47, C:0.12, G:0.27, T:0.14
Consensus pattern (50 bp):
AATAGGGAAGGATTCAAAAGAGAGAAGGGATATTCGACTAACACAGAAGC
Found at i:29564519 original size:19 final size:20
Alignment explanation
Indices: 29564476--29564519 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
29564466 TATAAAGTAA
* *
29564476 GTTTGAGATAGGTATTATGT
1 GTTTGAGAAAGGTATAATGT
*
29564496 TTTTGAGAAAGGT-TAATGT
1 GTTTGAGAAAGGTATAATGT
29564515 GTTTG
1 GTTTG
29564520 GGTTCAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (20 bp):
GTTTGAGAAAGGTATAATGT
Found at i:29565808 original size:45 final size:45
Alignment explanation
Indices: 29565758--29565930 Score: 233
Period size: 45 Copynumber: 3.9 Consensus size: 45
29565748 TGTACAGTAC
*
29565758 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* * *
29565803 TATTCGGGCCTTTGAGCCTCGTAGGCTATAATACCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* *
29565848 TATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
*** * *
29565893 TATTCAAACC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
29565931 TTGAATTCAA
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
43 10 0.09
44 15 0.13
45 89 0.78
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
Found at i:29572520 original size:19 final size:20
Alignment explanation
Indices: 29572477--29572520 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
29572467 TATAAAGTAA
* *
29572477 GTTTGAGATAGGTATTATGT
1 GTTTGAGAAAGGTATAATGT
*
29572497 TTTTGAGAAAGGT-TAATGT
1 GTTTGAGAAAGGTATAATGT
29572516 GTTTG
1 GTTTG
29572521 GGTTGAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (20 bp):
GTTTGAGAAAGGTATAATGT
Found at i:29573824 original size:44 final size:45
Alignment explanation
Indices: 29573749--29573875 Score: 188
Period size: 44 Copynumber: 2.9 Consensus size: 45
29573739 TGTACAGTAC
*
29573749 TATTCGAGCCTTCGAGCCTAGCAGGCGATAATGCCGGTGAGATAT
1 TATTCGGGCCTTCGAGCCTAGCAGGCGATAATGCCGGTGAGATAT
* * *
29573794 TATTCGGGCCTTTGA-CCTAGCAGGCTATAATGCCGATGAGATAT
1 TATTCGGGCCTTCGAGCCTAGCAGGCGATAATGCCGGTGAGATAT
*
29573838 TATTCGGGCC-TCGAGCCTAGCAGGCGA-AATACCGGTGA
1 TATTCGGGCCTTCGAGCCTAGCAGGCGATAATGCCGGTGA
29573876 ATGAATTCGG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 12 0.16
44 48 0.66
45 13 0.18
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCGATAATGCCGGTGAGATAT
Found at i:29575266 original size:25 final size:27
Alignment explanation
Indices: 29575229--29575282 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
29575219 TCAAACATGC
29575229 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
29575255 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
29575281 AT
1 AT
29575283 AACAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:29576797 original size:26 final size:26
Alignment explanation
Indices: 29576766--29576873 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
29576756 TGAAATGCCC
*
29576766 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
29576792 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
29576818 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
29576844 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29576870 ATCA
1 ATCA
29576874 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29590542 original size:40 final size:40
Alignment explanation
Indices: 29590497--29591128 Score: 781
Period size: 40 Copynumber: 15.8 Consensus size: 40
29590487 ATAACCACAA
* * * * * *
29590497 GCACAATTGCCTTTGGGTCTTAACCTGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
29590537 GCACAAATGCCTACGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
29590577 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
29590617 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
29590657 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
29590697 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
29590737 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
29590777 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
29590817 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
29590857 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29590897 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
29590937 GTACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
29590977 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29591017 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
29591057 GGACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
29591097 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
29591129 CATTCAAATG
Statistics
Matches: 504, Mismatches: 77, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
39 16 0.03
40 467 0.93
41 21 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:29590621 original size:80 final size:80
Alignment explanation
Indices: 29590537--29591128 Score: 866
Period size: 80 Copynumber: 7.4 Consensus size: 80
29590527 ATAGCAACTC
* * *
29590537 GCACAAATGCCTACGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
29590602 CGGATAAAATCACTA
66 CGGATAAAATCACTA
* *
29590617 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
29590682 CGGATAAAATCACTA
66 CGGATAAAATCACTA
* *
29590697 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
29590762 CGGATAAAATCACTA
66 CGGATAAAATCACTA
* *
29590777 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
29590842 CGGATAAAATCACTA
66 CGGATAAAATCACTA
* *
29590857 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
29590922 CGGAT-ATATCAACTC
66 CGGATAAAATC-ACTA
* * * * * * *
29590937 GTACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
29591001 CCGGGT-ATAGCAACTC
65 CCGGATAAAATC-ACTA
* * *
29591017 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGGACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
29591082 CGGATAAAATCACTA
66 CGGATAAAATCACTA
* * *
29591097 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
29591129 CATTCAAATG
Statistics
Matches: 478, Mismatches: 30, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
79 8 0.02
80 464 0.97
81 6 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATAAAATCACTA
Found at i:29590709 original size:120 final size:120
Alignment explanation
Indices: 29590496--29591124 Score: 967
Period size: 120 Copynumber: 5.2 Consensus size: 120
29590486 TATAACCACA
* * *
29590496 AGCACAATTGCCTTTGGGTCTTAACCTGGGTATAGCAACTCGCACAAATGCCTACGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
29590561 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
66 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
29590616 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * * * * *
29590681 CCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACT
66 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
* * * * * * * * *
29590736 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAA
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAG
* *
29590800 CCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
65 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
29590856 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
*
29590921 CCGGATATATCAACTCGTACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
66 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
29590976 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
*
29591041 CCGGATATATCAACTCGGACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
66 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
* * * *
29591096 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAATTGCCTTCGGGTCTTAACCCGG
29591125 ATATCATTCA
Statistics
Matches: 458, Mismatches: 45, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
119 9 0.02
120 439 0.96
121 10 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
Found at i:29599186 original size:40 final size:40
Alignment explanation
Indices: 29599141--29599771 Score: 828
Period size: 40 Copynumber: 15.8 Consensus size: 40
29599131 ATAACCACAA
* * * * * *
29599141 GCACAATTGCCTTCGGGTCTTAACCCGGGTACAGCAACGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29599181 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
29599221 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
29599261 GCACAATTGCCTTCGGGTCTTAACCCAGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCC-GGATATATCAACTC
29599301 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
29599341 GCACAAATGCCTTCGGGTCTTAGCCCGAATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
29599381 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
29599421 GCACAAATGCCTTCGGGTCTTAGCCCGGATCTATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
29599461 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
29599501 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29599541 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT-
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
29599580 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
29599620 GCACAATTGCCTTCGGGTCTTAACCCAGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCC-GGATATATCAACTC
29599660 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
29599700 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
29599740 GCATAAATGCCTTCGGGACTTAGCCCGAATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
29599772 CATTCAAATG
Statistics
Matches: 518, Mismatches: 59, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
39 50 0.10
40 449 0.87
41 19 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:29599338 original size:120 final size:120
Alignment explanation
Indices: 29599121--29599766 Score: 1152
Period size: 120 Copynumber: 5.4 Consensus size: 120
29599111 TCTTCGGAAT
* * * * *
29599121 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTACAGCAACGCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
29599185 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
*
29599240 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCAGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
29599305 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
*
29599360 TTAGCCCGAATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
29599425 AAATGCCTTCGGGTCTTAGCCCGGATCTATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
29599480 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
29599545 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACT-GCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* *
29599599 TTAGCCCGGATAAAATCACTTGCACAATTGCCTTCGGGTCTTAACCCAGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
29599664 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * * *
29599719 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCG
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCG
29599767 AATATCATTC
Statistics
Matches: 506, Mismatches: 19, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
119 121 0.24
120 385 0.76
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:29603645 original size:21 final size:22
Alignment explanation
Indices: 29603601--29603646 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
29603591 TAATATTTTC
* *
29603601 ATAATTTACTATAATAACCTTT
1 ATAAATTAATATAATAACCTTT
*
29603623 ATAAATTAATATAA-AATCTTT
1 ATAAATTAATATAATAACCTTT
29603644 ATA
1 ATA
29603647 TTGGTTGTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAATTAATATAATAACCTTT
Found at i:29605930 original size:15 final size:15
Alignment explanation
Indices: 29605900--29605929 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
29605890 GGGGGTCGTG
29605900 TGCCTCAAATTTTTT
1 TGCCTCAAATTTTTT
29605915 TGCCTC-AATTTTTT
1 TGCCTCAAATTTTTT
29605929 T
1 T
29605930 TTTGTAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.57
Consensus pattern (15 bp):
TGCCTCAAATTTTTT
Found at i:29610638 original size:27 final size:27
Alignment explanation
Indices: 29610608--29610681 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
29610598 CAATATCGCA
**
29610608 GCAAAGCTGCCAGTAACAGTAAATGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
* **
29610635 GCAAAGCCACTAGTAACAGTAGTTGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
*
29610662 GCAGAGCCACCAGT-ACAGTA
1 GCAAAGCCACCAGTAACAGTA
29610682 TTTCCTCCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.18
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTAAATGTG
Found at i:29612957 original size:37 final size:37
Alignment explanation
Indices: 29612909--29612995 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
29612899 TTTAAATAAG
*
29612909 AAGTATTTGGTTATTTGATAAGTGAACTG-AAATGAAT
1 AAGTATATGGTTATTTGATAAGTGAAC-GAAAATGAAT
* * *
29612946 AAGTATATGGTTGTTTGATATGTGTACGAAAATGAAT
1 AAGTATATGGTTATTTGATAAGTGAACGAAAATGAAT
29612983 AAGTATATGGTTA
1 AAGTATATGGTTA
29612996 AACACTTTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.02
37 43 0.98
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (37 bp):
AAGTATATGGTTATTTGATAAGTGAACGAAAATGAAT
Found at i:29615857 original size:25 final size:25
Alignment explanation
Indices: 29615827--29615876 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
29615817 GGAACACAAA
29615827 GTCTATTTCTAAACCTCAGACAGTC
1 GTCTATTTCTAAACCTCAGACAGTC
*
29615852 GTCTATTTCTGAACCTCAGACAGTC
1 GTCTATTTCTAAACCTCAGACAGTC
29615877 TCCTTCATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (25 bp):
GTCTATTTCTAAACCTCAGACAGTC
Found at i:29629024 original size:41 final size:40
Alignment explanation
Indices: 29628893--29629085 Score: 244
Period size: 40 Copynumber: 4.8 Consensus size: 40
29628883 GGATATAGCT
* * * *
29628893 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
*
29628932 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
* *
29628972 ACTCGCCCAAATGCCTTCAGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATGTAATA
** * *
29629013 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
* *
29629053 ACTAGCACAAAATGCCTTCAGGACTTAGCCCGG
1 ACTCGCAC-AAATGCCTTCGGGACTTAGCCCGG
29629086 TTATCATCCA
Statistics
Matches: 135, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 6 0.04
40 68 0.50
41 61 0.45
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
Found at i:29629029 original size:81 final size:80
Alignment explanation
Indices: 29628893--29629085 Score: 253
Period size: 81 Copynumber: 2.4 Consensus size: 80
29628883 GGATATAGCT
* * * *
29628893 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTT
1 ACTCGCCCAAATGCCTTCAGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTT
**
29628957 AGCCCGGATGTAATA
66 AGCCCGGAACTAATA
* *
29628972 ACTCGCCCAAATGCCTTCAGGACTTAGCCCGGAATGTAATAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCCCAAATGCCTTCAGGACTTAGCCCGG-ATATAATAACTCACACAAATGCCTTCGGGACT
* *
29629037 TAGCCCGGAACTAGTC
65 TAGCCCGGAACTAATA
* *
29629053 ACTAGCACAAAATGCCTTCAGGACTTAGCCCGG
1 ACTCGC-CCAAATGCCTTCAGGACTTAGCCCGG
29629086 TTATCATCCA
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
79 7 0.07
80 21 0.21
81 46 0.46
82 25 0.25
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (80 bp):
ACTCGCCCAAATGCCTTCAGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTT
AGCCCGGAACTAATA
Found at i:29637058 original size:39 final size:40
Alignment explanation
Indices: 29636997--29637205 Score: 218
Period size: 40 Copynumber: 5.3 Consensus size: 40
29636987 AAGCCAAGTA
* * * *
29636997 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATA-ATAACTCGCACAAATG
* * *
29637035 CCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
*
29637075 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAA-G
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
*
29637114 CCTTC-GGACTTAGCCCGGAATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-ATATAATAACTCGCACAAATG
* *
29637154 CCTTCGGGACTTAGCCC-GA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAATAACT--CGCACAAATG
29637194 CCTTCGGGACTT
1 CCTTCGGGACTT
29637206 TGTCCGTTAT
Statistics
Matches: 149, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
38 25 0.17
39 47 0.32
40 62 0.42
41 15 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
Found at i:29637080 original size:40 final size:40
Alignment explanation
Indices: 29637023--29637205 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
29637013 GGATATAGCT
* * * *
29637023 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
*
29637062 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
29637102 ACTCGCACAAA-GCCTTC-GGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATGTAATA
** * *
29637141 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
29637180 ACTAGCGCA-AAATGCCTTCGGGACTT
1 ACT--CGCACAAATGCCTTCGGGACTT
29637206 TGTCCGTTAT
Statistics
Matches: 128, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
38 13 0.10
39 38 0.30
40 62 0.48
41 15 0.12
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
Found at i:29637143 original size:79 final size:79
Alignment explanation
Indices: 29637023--29637171 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 79
29637013 GGATATAGCT
* * *
29637023 ACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTA
1 ACTCGCACAAAGCCTTCGGGACATAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTTA
29637088 GCCCGGATGTAATA
66 GCCCGGATGTAATA
* * *
29637102 ACTCGCACAAAGCCTTC-GGACTTAGCCCGGAATGTAATAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAAGCCTTCGGGACATAGCCCGG-ATATAATAACTCACACAAATGCCTTCGGGACTT
29637166 AGCCCG
65 AGCCCG
29637172 AACTAGTCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 12 0.19
79 51 0.81
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (79 bp):
ACTCGCACAAAGCCTTCGGGACATAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTTA
GCCCGGATGTAATA
Found at i:29649010 original size:9 final size:9
Alignment explanation
Indices: 29648996--29649020 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
29648986 AAAGACAGCC
29648996 ACTAAAATA
1 ACTAAAATA
29649005 ACTAAAATA
1 ACTAAAATA
29649014 ACTAAAA
1 ACTAAAA
29649021 AAAATGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (9 bp):
ACTAAAATA
Found at i:29651585 original size:37 final size:37
Alignment explanation
Indices: 29651531--29651631 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
29651521 GCTCAGACGA
*
29651531 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
29651568 AATCTCCACGCGTAGTCATCAGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
29651605 AATCTCCACACGTAGTCATCGGGTCTT
1 AATCTCCACACGTAGTCATCGGGTCTT
29651632 TAGAGCTCGG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:29653361 original size:40 final size:40
Alignment explanation
Indices: 29653277--29653460 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
29653267 TTGAATGCTG
* * * *
29653277 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
29653316 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
29653357 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
29653397 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
29653437 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29653461 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:29653414 original size:80 final size:81
Alignment explanation
Indices: 29653277--29653457 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
29653267 TTGAATGCTG
* *
29653277 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
29653341 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
29653357 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
29653418 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
29653437 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
29653458 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:29661297 original size:40 final size:40
Alignment explanation
Indices: 29661213--29661396 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
29661203 TTGAATGCTG
* * * *
29661213 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
29661252 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
29661293 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
29661333 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
29661373 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29661397 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:29661350 original size:80 final size:81
Alignment explanation
Indices: 29661213--29661393 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
29661203 TTGAATGCTG
* *
29661213 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
29661277 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
29661293 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
29661354 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
29661373 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
29661394 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:29663737 original size:17 final size:19
Alignment explanation
Indices: 29663715--29663762 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
29663705 AATTCATGTC
29663715 TAAAATTACT-AATT-AAG
1 TAAAATTACTCAATTCAAG
*
29663732 TAAAATTCACTCATTTCAAG
1 TAAAATT-ACTCAATTCAAG
*
29663752 TATAATTACTC
1 TAAAATTACTC
29663763 GAGTAAAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 3 0.12
19 7 0.27
20 9 0.35
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.38
Consensus pattern (19 bp):
TAAAATTACTCAATTCAAG
Found at i:29674325 original size:24 final size:24
Alignment explanation
Indices: 29674278--29674326 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
29674268 TTAACATCCT
**
29674278 TTTGTAACAACCTTGTCATTGGAG
1 TTTGTAACAACCTTGTCACCGGAG
29674302 TTTGTAACAACCTTGTCACCGGAG
1 TTTGTAACAACCTTGTCACCGGAG
29674326 T
1 T
29674327 GGCTATCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (24 bp):
TTTGTAACAACCTTGTCACCGGAG
Found at i:29685488 original size:79 final size:81
Alignment explanation
Indices: 29685346--29685528 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
29685336 TACTCGTTCA
* * *
29685346 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGA
* *
29685410 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
29685426 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCC-TTCGGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCCGG
* *
29685488 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
29685505 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
29685529 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 5 0.06
79 56 0.63
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:29685528 original size:40 final size:40
Alignment explanation
Indices: 29685325--29685528 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
29685315 CGGAATTTAA
** *
29685325 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
29685365 CCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29685405 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29685444 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
29685484 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29685524 CCGGA
1 CCGGA
29685529 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29687291 original size:40 final size:42
Alignment explanation
Indices: 29687216--29687310 Score: 149
Period size: 40 Copynumber: 2.3 Consensus size: 42
29687206 GGCTGTCACA
*
29687216 TAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACT
1 TAGCCCGGATATAGCAACTA-TCGCACAAATGCCTTCGGGACT
*
29687259 TAGCCCGGATATAGTAACT-T-GCACAAATGCCTTCGGGACT
1 TAGCCCGGATATAGCAACTATCGCACAAATGCCTTCGGGACT
29687299 TAGCCCGGATAT
1 TAGCCCGGATAT
29687311 CATCCGAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
40 32 0.64
41 1 0.02
43 17 0.34
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (42 bp):
TAGCCCGGATATAGCAACTATCGCACAAATGCCTTCGGGACT
Found at i:29693172 original size:46 final size:46
Alignment explanation
Indices: 29693105--29693272 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
29693095 CCCGCCCCTC
* *
29693105 AGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATA
* * *
29693151 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TC
1 AGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCGCATCCATA
* *
29693199 A-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATA
29693244 AGTGAACTCGGACTCAACTCAACGAGTTC
1 AGTGAACTCGGACTCAACTCAACGAGTTC
29693273 GGATGCTCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 3 0.03
46 54 0.52
47 26 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATA
Found at i:29693220 original size:93 final size:93
Alignment explanation
Indices: 29693108--29693278 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
29693098 GCCCCTCAGT
* *
29693108 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29693173 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
29693201 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29693266 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29693279 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:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29693732 original size:30 final size:30
Alignment explanation
Indices: 29693698--29693757 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
29693688 ATTTAATACG
29693698 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
29693728 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
29693758 GGCTCGGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:29696707 original size:41 final size:40
Alignment explanation
Indices: 29696580--29696724 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
29696570 CTCACACAAG
* * * * *
29696580 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
29696620 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
29696660 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCAC-AAT
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
29696700 AGCCTTCGGGACTTAGCCCGGATAT
1 -GCCTTCGGGACTTAGCCCGGATAT
29696725 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 62 0.67
41 24 0.26
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:29699620 original size:52 final size:52
Alignment explanation
Indices: 29699542--29699641 Score: 191
Period size: 52 Copynumber: 1.9 Consensus size: 52
29699532 ACCACTGCAG
29699542 CCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACTACAA
1 CCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACTACAA
*
29699594 CCAATTCCAGATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACT
1 CCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACT
29699642 GCCTCGAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (52 bp):
CCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACTACAA
Found at i:29704015 original size:46 final size:45
Alignment explanation
Indices: 29703917--29704007 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 45
29703907 AATCCGCCCC
* * *
29703917 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA-ATGCGCAACCA
*
29703963 TAAGTGAACTCGGACTCAACTCAACAAGTTCGG-ATGCTCAACCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAACCA
29704007 T
1 T
29704008 CCTAGTGACA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 9 0.22
46 32 0.78
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAACCA
Found at i:29704415 original size:30 final size:30
Alignment explanation
Indices: 29704381--29704440 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
29704371 ATTTAATACG
29704381 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
29704411 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
29704441 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:29708114 original size:37 final size:37
Alignment explanation
Indices: 29708064--29708215 Score: 241
Period size: 37 Copynumber: 4.1 Consensus size: 37
29708054 ACCTTTAGCT
* * *
29708064 CGGACGAAATCTCCACACGAAGTAATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
29708101 CGGACAAAATCTCCACATGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
29708138 CGGACATAATATCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
29708175 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
29708212 CGGA
1 CGGA
29708216 ATATATTTCC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:29708489 original size:47 final size:47
Alignment explanation
Indices: 29708424--29709738 Score: 1705
Period size: 47 Copynumber: 27.1 Consensus size: 47
29708414 ACACGTTTCG
* * * * **
29708424 CATTAGCCATTCGACCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
29708471 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
29708518 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
29708565 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
29708612 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
29708665 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
29708712 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
29708763 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
29708810 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *** *
29708857 CATTGGCCATTCGGCCTTACCACACATATATATACGGGTTCACATTAATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
29708908 CATTGGCCATTCGGCCTTATCACACATACGCATGGTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
29708955 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * ** *
29709002 CCTTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
29709055 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
29709102 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
29709153 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
29709200 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
29709247 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
29709298 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACTTTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
29709345 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * ** *
29709392 CCTTGGCCATTCGGCCTTATCACGCATATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C------ACATACGCATGTTCACATTCATCA
29709447 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
29709494 CATTGGCCATTC-GCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
29709544 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
29709591 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
29709638 CATTGGCCATTCGACCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
29709689 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
29709736 CAT
1 CAT
29709739 AAAATCCTAA
Statistics
Matches: 1124, Mismatches: 99, Indels: 90
0.86 0.08 0.07
Matches are distributed among these distances:
46 17 0.02
47 715 0.64
49 3 0.00
50 26 0.02
51 236 0.21
53 85 0.08
55 42 0.04
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:29708861 original size:145 final size:141
Alignment explanation
Indices: 29708424--29709738 Score: 1714
Period size: 145 Copynumber: 9.0 Consensus size: 141
29708414 ACACGTTTCG
* * * * **
29708424 CATTAGCCATTCGACCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
29708489 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTT
66 ATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
29708554 CACATTCATCA
131 CACATTCATCA
29708565 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
29708630 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 ATCA--C----ACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
29708695 CATGTTCACATTCATCA
125 CATGTTCACATTCATCA
*** *
29708712 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCAG
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCACATTGGCCATTCGG
* * *
29708777 CCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCA
62 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
29708842 TGTTCACATTCATCA
127 TGTTCACATTCATCA
* *** *
29708857 CATTGGCCATTCGGCCTTACCACACATATATATACGGGTTCACATTAATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCACATTGGCCATTCGG
* * *
29708922 CCTTATCACACATACGCATGGTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
62 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
29708987 TGTTCACATTCATCA
127 TGTTCACATTCATCA
* * ** *
29709002 CCTTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCACATTGGCCATTC
* **
29709067 GGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATA
60 GGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
*
29709132 TATACGGGTTCACATTCATCA
125 CAT----GTTCACATTCATCA
* *
29709153 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* ***
29709218 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG
66 ATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT---
29709283 GGTTCACATTCATCA
128 -GTTCACATTCATCA
*
29709298 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACTTTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
29709363 ATCACACATATGCATGTTCACATTCATCACCTTGGCCATTCGGCCTTATCACGCATATATATATA
66 ATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA--C------ACATA
** *
29709428 TACAGGTTCACATTCATCA
123 CGCATGTTCACATTCATCA
29709447 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC-GCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
** *
29709511 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
66 ATCACACATATGCAT----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
*
29709576 TGTTCACATCCATCA
127 TGTTCACATTCATCA
* *
29709591 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
**
29709656 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCACACATATGCAT----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
*
29709721 TGTTCACATCCATCA
127 TGTTCACATTCATCA
29709736 CAT
1 CAT
29709739 AAAATCCTAA
Statistics
Matches: 1078, Mismatches: 63, Indels: 62
0.90 0.05 0.05
Matches are distributed among these distances:
141 62 0.06
143 1 0.00
144 78 0.07
145 535 0.50
147 190 0.18
148 18 0.02
149 74 0.07
150 1 0.00
151 77 0.07
152 35 0.03
153 7 0.01
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (141 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATTCATCA
Found at i:29708978 original size:22 final size:22
Alignment explanation
Indices: 29708904--29708978 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
29708894 GTTCACATTA
29708904 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
29708926 ATCACACAT-ACGCA-T-GGTCACATT
1 ATCACA-TTGGC-CATTCGG-C-C-TT
29708950 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
29708973 ATCACA
1 ATCACA
29708979 CATACACATG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
21 2 0.05
22 15 0.38
23 6 0.15
24 6 0.15
25 9 0.22
26 2 0.05
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:29709066 original size:390 final size:390
Alignment explanation
Indices: 29708429--29709738 Score: 2378
Period size: 390 Copynumber: 3.4 Consensus size: 390
29708419 TTTCGCATTA
* * * **
29708429 GCCATTCGACCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT--C
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* * ** *
29708492 TC--ATATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTTC
66 ACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
*
29708555 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCC
131 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACCTTGGCC
29708620 ATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTAT
196 ATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTAT
29708685 CACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGG
261 CACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGG
*
29708750 TTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCATCACAGTG
326 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTG
*
29708815 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTACCAC
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* *
29708880 ACATATATATACGGGTTCACATTAATCACATTGGCCATTCGGCCTTATCACACATACGCATGGTC
66 ACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
*
29708945 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACCTTGGCC
131 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACCTTGGCC
29709010 ATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTAT
196 ATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTAT
29709075 CACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGG
261 CACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGG
29709140 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTG
326 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTG
29709205 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
29709270 ACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
66 ACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
* *
29709335 ACTTTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACCTTGGCC
131 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACCTTGGCC
29709400 ATTCGGCCTTATCACGCATATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTT
196 ATTCGGCCTTATCACGC--ATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTT
29709465 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTC-GCCTTATCACACATATATATACG
259 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG
*
29709529 GGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATCCATCACAG
324 GGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAG
29709594 TG
389 TG
*
29709596 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCAC
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
29709661 ACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
66 ACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
*
29709726 ACATCCATCACAT
131 ACATTCATCACAT
29709739 AAAATCCTAA
Statistics
Matches: 892, Mismatches: 26, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
386 56 0.06
388 2 0.00
390 518 0.58
391 229 0.26
392 87 0.10
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (390 bp):
GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
ACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACCTTGGCC
ATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTAT
CACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGG
TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTG
Found at i:29712055 original size:85 final size:85
Alignment explanation
Indices: 29711912--29712090 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
29711902 TATTTTATTG
* *
29711912 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTCTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
29711977 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
29711997 CCCATGCTCTTTATTCTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTCTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
29712062 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
29712082 CCCATGCTC
1 CCCATGCTC
29712091 ATGTCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTCTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:29713616 original size:57 final size:58
Alignment explanation
Indices: 29713540--29713648 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
29713530 GCCCACTGAT
* * *
29713540 CGATCTCGTACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * *
29713597 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
29713649 TAATCATTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:29713935 original size:40 final size:40
Alignment explanation
Indices: 29713860--29714289 Score: 677
Period size: 40 Copynumber: 10.8 Consensus size: 40
29713850 CCAGCATGAT
* * * * *
29713860 TGCTCTTC-GGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
29713899 TGCTCTTCGAGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCCTCG-GGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
29713939 TGCTCTTCGGAACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
29713979 TGCTCCTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29714019 TGCTCCTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29714058 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
29714098 TGCTCCTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
29714138 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29714178 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
29714218 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
29714258 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
29714290 CTCAATTCTC
Statistics
Matches: 365, Mismatches: 22, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
39 47 0.13
40 316 0.87
41 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Done.