Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 310 of 352
Found at i:101260875 original size:23 final size:23
Alignment explanation
Indices: 101260822--101260875 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
101260812 GAACCTTAAA
101260822 ACCCTATTTTTCCTTTCTTTCTT
1 ACCCTATTTTTCCTTTCTTTCTT
*
101260845 ACCTTATTTTTCCTTTCTTTCTT
1 ACCCTATTTTTCCTTTCTTTCTT
*
101260868 TCCCTATT
1 ACCCTATT
101260876 CTGTTTCGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (23 bp):
ACCCTATTTTTCCTTTCTTTCTT
Found at i:101269807 original size:35 final size:35
Alignment explanation
Indices: 101269761--101269833 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
101269751 AATTGATCAC
101269761 ATGCCCGATTATAATCAATAAGTGTTGAATTAGAA
1 ATGCCCGATTATAATCAATAAGTGTTGAATTAGAA
101269796 ATGCCCGATTATAATCAATAAGTGTTGAATTAGAA
1 ATGCCCGATTATAATCAATAAGTGTTGAATTAGAA
101269831 ATG
1 ATG
101269834 ATATAATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.32
Consensus pattern (35 bp):
ATGCCCGATTATAATCAATAAGTGTTGAATTAGAA
Found at i:101270135 original size:35 final size:35
Alignment explanation
Indices: 101270096--101270429 Score: 312
Period size: 35 Copynumber: 9.6 Consensus size: 35
101270086 CATGGCAAAG
* *
101270096 TGTGAAATGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
101270131 TGTGAAACGTAGGTATGGTATCATCTATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * * *
101270166 TGTGAAACGTAGGTATAGTATTAACCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * * **
101270201 TGTGAAACATAGGTATGGTATTAACCATACTGAAC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
101270236 TGTGAAACGTAGGTATGGTAT-TTCCATACCGAGC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * * * *
101270270 TATGAAACGTAGGTATGGTGTCGTCCATATTGAGC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * * * * *
101270305 TATGATATGTAGGTATGGCATCGTCCATACTGAAT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* ** ** *
101270340 TATGAAATATAGGTATGGTATTTTCCATACCGAG-
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
** * * **
101270374 CATGAAAAGTAGGTATGGTGTTTTCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
101270409 TGTGAAACGTAGGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
101270430 TTCAATGAGG
Statistics
Matches: 251, Mismatches: 46, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
34 57 0.23
35 194 0.77
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
Found at i:101270333 original size:104 final size:104
Alignment explanation
Indices: 101270096--101270429 Score: 373
Period size: 104 Copynumber: 3.2 Consensus size: 104
101270086 CATGGCAAAG
* * * * *
101270096 TGTGAAATGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCTATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAATTGTGAAACGTAGGTATGGTAT-TTCCATAC
* * * * * * *
101270161 TGAGTTGTGAAACGTAGGTATAGTATTAACCATACCGAGT
65 CGAGCTATGAAACGTAGGTATGGTGTTATCCATACTGAGT
* * * *
101270201 TGTGAAACATAGGTATGGTATTAACCATACTGAACTGTGAAACGTAGGTATGGTATTTCCATACC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAATTGTGAAACGTAGGTATGGTATTTCCATACC
** * *
101270266 GAGCTATGAAACGTAGGTATGGTGTCGTCCATATTGAGC
66 GAGCTATGAAACGTAGGTATGGTGTTATCCATACTGAGT
* * * * * * **
101270305 TATGATATGTAGGTATGGCATCGTCCATACTGAATTATGAAATATAGGTATGGTATTTTCCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAATTGTGAAACGTAGGTATGGTA-TTTCCATAC
* *
101270370 CGAGC-ATGAAAAGTAGGTATGGTGTTTTCCATACTGAGT
65 CGAGCTATGAAACGTAGGTATGGTGTTATCCATACTGAGT
101270409 TGTGAAACGTAGGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
101270430 TTCAATGAGG
Statistics
Matches: 187, Mismatches: 41, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
104 124 0.66
105 63 0.34
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (104 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAATTGTGAAACGTAGGTATGGTATTTCCATACC
GAGCTATGAAACGTAGGTATGGTGTTATCCATACTGAGT
Found at i:101270352 original size:139 final size:139
Alignment explanation
Indices: 101270096--101270429 Score: 382
Period size: 139 Copynumber: 2.4 Consensus size: 139
101270086 CATGGCAAAG
* * *
101270096 TGTGAAATGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCTATAC
1 TGTGAAAAGTAGGTATGGTAT-TTCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
* * * * * *
101270161 TGAGTTGTGAAACGTAGGTATAGTATTAACCATACCGAGTTGTGAAACATAGGTATGGTATTAAC
65 TGAGCTATGAAACGTAGGTATAGCATCAACCATACCGAATTATGAAACATAGGTATGGTATTAAC
*
101270226 CATACTGAAC
130 CATACCGAAC
* * * * * *
101270236 TGTGAAACGTAGGTATGGTATTTCCATACCGAGCTATGAAACGTAGGTATGGTGTCGTCCATATT
1 TGTGAAAAGTAGGTATGGTATTTCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACT
* * * ** * * **
101270301 GAGCTATGATATGTAGGTATGGCATCGTCCATACTGAATTATGAAATATAGGTATGGTATTTTCC
66 GAGCTATGAAACGTAGGTATAGCATCAACCATACCGAATTATGAAACATAGGTATGGTATTAACC
*
101270366 ATACCGAGC
131 ATACCGAAC
* * *
101270375 -ATGAAAAGTAGGTATGGTGTTTTCCATACTGAGTTGTGAAACGTAGGTATGGTAT
1 TGTGAAAAGTAGGTATGGT-ATTTCCATACCGAGTTGTGAAACGTAGGTATGGTAT
101270430 TTCAATGAGG
Statistics
Matches: 161, Mismatches: 32, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
138 16 0.10
139 125 0.78
140 20 0.12
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (139 bp):
TGTGAAAAGTAGGTATGGTATTTCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACT
GAGCTATGAAACGTAGGTATAGCATCAACCATACCGAATTATGAAACATAGGTATGGTATTAACC
ATACCGAAC
Found at i:101271894 original size:43 final size:44
Alignment explanation
Indices: 101271844--101272013 Score: 190
Period size: 43 Copynumber: 4.0 Consensus size: 44
101271834 ATTACGGAGC
101271844 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATA
* ** *
101271887 TCTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGT-TA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATA
* *
101271930 TGTGATTTCGTGTAAGACCATAG-CTGGG-CTATTGGCATTG-ATA
1 TGTGATTACATGTAAGACCAT-GTCTGGGAC-ATTGGCATTGTATA
* * * *
101271973 TGAGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
101272014 CGAGCTATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
42 10 0.09
43 95 0.90
44 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATA
Found at i:101273959 original size:9 final size:11
Alignment explanation
Indices: 101273935--101273967 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
101273925 TTCCCTCCCC
101273935 CTCTCCCTCTT
1 CTCTCCCTCTT
101273946 CTCTCCCTCTT
1 CTCTCCCTCTT
101273957 CTCTCCCTCTT
1 CTCTCCCTCTT
101273968 TTTTTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCCCTCTT
Found at i:101275053 original size:29 final size:28
Alignment explanation
Indices: 101275009--101275063 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
101274999 CCTATTCAGT
* *
101275009 AACAGTACAGTCTGGGCCTTAGCCCTTA
1 AACAGTACAGTATGGGCCTAAGCCCTTA
101275037 AACAGTAGCAGTATGGGCCTAAGCCCT
1 AACAGTA-CAGTATGGGCCTAAGCCCT
101275064 AATTCACTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (28 bp):
AACAGTACAGTATGGGCCTAAGCCCTTA
Found at i:101275153 original size:30 final size:31
Alignment explanation
Indices: 101275077--101275159 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
101275067 TCACTCTCGA
101275077 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
101275107 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
101275138 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
101275160 ACTGTAAGCT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:101275413 original size:25 final size:25
Alignment explanation
Indices: 101275379--101275448 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
101275369 CTCTTTTAAT
* *
101275379 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
101275404 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
101275429 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
101275449 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:101276320 original size:27 final size:27
Alignment explanation
Indices: 101276258--101276335 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
101276248 GGGCATATTC
101276258 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
101276285 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
101276312 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
101276336 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:101276406 original size:27 final size:27
Alignment explanation
Indices: 101276373--101276554 Score: 143
Period size: 27 Copynumber: 6.7 Consensus size: 27
101276363 TTGGTAAATC
101276373 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
101276400 TATAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * *
101276428 TAGAAAGTCAAGGGTATTTCTGTAATTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** * * **
101276456 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
***
101276483 TACAAATTGAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* **
101276510 CACAAACC-AGTGGTATTTTGGTAATTT
1 TACAAACCAAG-GGTATTTCAGTAATTT
* *
101276537 TACAAACTAGGGGTATTT
1 TACAAACCAAGGGTATTT
101276555 TGGTAATTCT
Statistics
Matches: 123, Mismatches: 26, Indels: 12
0.76 0.16 0.07
Matches are distributed among these distances:
26 2 0.02
27 90 0.73
28 17 0.14
29 14 0.11
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:101276446 original size:29 final size:28
Alignment explanation
Indices: 101276376--101276456 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 28
101276366 GTAAATCTAC
*
101276376 AAACCAAGGGTATTTC-AGTAA-TTTTAT
1 AAACCAAGGGTATTTCTA-TAATTTTTAG
*
101276403 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACCAAGGGTATTTCTATAATTTTTAG
* *
101276431 AAAGTCAAGGGTATTTCTGTAATTTT
1 AAA-CCAAGGGTATTTCTATAATTTT
101276457 GTAAATCAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 18 0.39
28 9 0.20
29 19 0.41
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.41
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTATAATTTTTAG
Found at i:101276562 original size:54 final size:54
Alignment explanation
Indices: 101276356--101276554 Score: 211
Period size: 54 Copynumber: 3.6 Consensus size: 54
101276346 CATCCTACAA
* * * * *
101276356 TGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTATAAACCAA
1 TGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACCAG
* * * * * *
101276410 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 TGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCAGTAATTTTATAAACCAG
* * * * *
101276466 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAG
1 TGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACCAG
*
101276520 TGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 TGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
101276555 TGGTAATTCT
Statistics
Matches: 116, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
54 64 0.55
55 17 0.15
56 35 0.30
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
TGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACCAG
Found at i:101276580 original size:27 final size:27
Alignment explanation
Indices: 101276361--101276565 Score: 96
Period size: 27 Copynumber: 7.5 Consensus size: 27
101276351 TACAATGGTG
* *
101276361 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTCTACAAACTAAGGGTA
** * * * *
101276388 TTTCAGTAATTTTATAAACCAATGGTA
1 TTTTGGTAATTCTACAAACTAAGGGTA
* * * *
101276415 TTTCT-ATAATTTTTAGAAAGTCAAGGGTA
1 TTT-TGGTAA-TTCTACAAACT-AAGGGTA
* ** *
101276444 TTTCT-GTAATTTTGTAAA-TCAGGGGTA
1 TTT-TGGTAATTCTACAAACT-AAGGGTA
* * *
101276471 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTCTACAAACTAAGGGTA
** *
101276498 TTTCAGTAATT-TCACAAAC-CAGTGGTA
1 TTTTGGTAATTCT-ACAAACTAAG-GGTA
* *
101276525 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTCTACAAACTAAGGGTA
101276552 TTTTGGTAATTCTA
1 TTTTGGTAATTCTA
101276566 TCCTATAAGG
Statistics
Matches: 140, Mismatches: 29, Indels: 18
0.75 0.16 0.10
Matches are distributed among these distances:
26 4 0.03
27 104 0.74
28 18 0.13
29 14 0.10
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTCTACAAACTAAGGGTA
Found at i:101276649 original size:27 final size:27
Alignment explanation
Indices: 101276594--101276658 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
101276584 CTAATTTCAC
* * * *
101276594 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
101276621 AATCGAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
101276648 AATCAAGGGTA
1 AATCGAGGGTA
101276659 CTTTGGTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:101277877 original size:21 final size:21
Alignment explanation
Indices: 101277825--101277878 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
101277815 TATGTATATA
*
101277825 TATTATGTATATTTCTAATAC
1 TATTATGTATATTTCTAACAC
*
101277846 TA-TATGGTATATTTCTAACAT
1 TATTAT-GTATATTTCTAACAC
*
101277867 TATTATTTATAT
1 TATTATGTATAT
101277879 ATATATGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 22 0.79
22 3 0.11
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (21 bp):
TATTATGTATATTTCTAACAC
Found at i:101278947 original size:3 final size:3
Alignment explanation
Indices: 101278939--101278973 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
101278929 TTATCATTGT
101278939 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
101278974 CTTGCTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:101279162 original size:36 final size:33
Alignment explanation
Indices: 101279101--101279186 Score: 79
Period size: 34 Copynumber: 2.5 Consensus size: 33
101279091 CATTATTTTT
*
101279101 TGTTTTATACTATTATTATCGCATATACATTGTTAA-
1 TGTTTTATA-TATTATT-TCGCATAT--ATTCTTAAC
*
101279137 TGTTTTATATATTATTTGCTTCATATATTCTTAAC
1 TGTTTTATATATTATTT-C-GCATATATTCTTAAC
101279172 T-TTTTAT-TATTATTT
1 TGTTTTATATATTATTT
101279187 ATCCGTTCCG
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
33 8 0.18
34 14 0.31
35 9 0.20
36 14 0.31
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (33 bp):
TGTTTTATATATTATTTCGCATATATTCTTAAC
Found at i:101291164 original size:77 final size:78
Alignment explanation
Indices: 101291078--101291319 Score: 276
Period size: 77 Copynumber: 3.0 Consensus size: 78
101291068 TTTTGTTTTC
*
101291078 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCATACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATACGCTGAGGTATTTTCAATT
*
101291143 CCTGTTTTTCAA-
66 TCTGTTTTTCAAT
* * *
101291155 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTC-TCACGCTGAGGTGTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAT-ACGCTGAGGTATTTTCAAT
101291219 TTCTGTTTTTCAATTTCTGCTTTT
65 TTCTGTTTTTCAA----------T
* * *
101291243 CAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAAT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATACGCTGAGGTATTTTCAAT
101291306 TTCTGTTTTTCAAT
65 TTCTGTTTTTCAAT
101291320 TTATATTTTT
Statistics
Matches: 140, Mismatches: 11, Indels: 28
0.78 0.06 0.16
Matches are distributed among these distances:
76 1 0.01
77 71 0.51
87 31 0.22
89 37 0.26
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATACGCTGAGGTATTTTCAATT
TCTGTTTTTCAAT
Found at i:101291230 original size:14 final size:14
Alignment explanation
Indices: 101291211--101291245 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
101291201 CGCTGAGGTG
*
101291211 TTTTCAATTTCTGT
1 TTTTCAATTTCTGC
101291225 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
101291239 TTTTCAA
1 TTTTCAA
101291246 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:101291319 original size:87 final size:87
Alignment explanation
Indices: 101291134--101291547 Score: 392
Period size: 87 Copynumber: 4.7 Consensus size: 87
101291124 CGCTGAGGTA
* * * *
101291134 TTTTCAATTCCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCT
1 TTTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CA
*
101291199 CACGCTGAGGTGTTTTCAATTTCTGT
62 CACGCTGAGGTATTTTCAATTTCTGT
* *
101291225 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACAC
101291289 GCTGAGGTATTTTCAATTTCTGT
65 GCTGAGGTATTTTCAATTTCTGT
* * ** * *
101291312 TTTTCAATTTATATTTTTTTTTAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAA-TT-T-CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CA
* ** *
101291377 CATG-TCGAGGTATTTTCAAAATCTGC
62 CACGCT-GAGGTATTTTCAATTTCTGT
* ** * * *
101291403 TTTTCAAATTAAG-TTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACG
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACAC-
*
101291466 TGCTGAGCTATTTTCAATTTCTGT
65 -GCTGAGGTATTTTCAATTTCTGT
* * * **
101291490 TTTT-AATGTCTAGTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGG
1 TTTTCAATTTCT-GTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
101291548 ATCACATGCC
Statistics
Matches: 265, Mismatches: 45, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
85 3 0.01
86 5 0.02
87 96 0.36
88 34 0.13
89 79 0.30
90 3 0.01
91 45 0.17
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (87 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACG
CTGAGGTATTTTCAATTTCTGT
Found at i:101291480 original size:178 final size:171
Alignment explanation
Indices: 101291156--101291556 Score: 448
Period size: 178 Copynumber: 2.3 Consensus size: 171
101291146 GTTTTTCAAA
* * * * * **
101291156 AAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCTCACGCTGAGGTGTTTTCAATTT
1 AAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC-GAGGTATTTTCAAAAT
* * ** *
101291221 CTGTTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGGA
65 CTGCTTTTCAAATTAAGC-TTTCAAAAACCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGGA
* * *
101291286 CACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATATTTTTTTTT
129 CACGCTGAGCTATTTTCAATTTCTGTTTTT-AATGTATA----GTTTT
101291334 AAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAAT
1 AAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-CGAGGTATTTTCAAAAT
* * * *
101291399 CTGCTTTTCAAATTAAG-TTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
65 CTGCTTTTCAAATTAAGCTTTCAAAAACCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGG-A
*
101291462 CACGTGCTGAGCTATTTTCAATTTCTGTTTTTAATGTCTAGTTTT
129 CAC--GCTGAGCTATTTTCAATTTCTGTTTTTAATGTATAGTTTT
** *
101291507 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGATCACATGC
1 AAA-A-TCAATTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGTCACATGC
101291557 CGAGTAAAGA
Statistics
Matches: 193, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
173 7 0.04
174 5 0.03
175 38 0.20
176 41 0.21
177 6 0.03
178 95 0.49
179 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (171 bp):
AAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCGAGGTATTTTCAAAATC
TGCTTTTCAAATTAAGCTTTCAAAAACCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGCTATTTTCAATTTCTGTTTTTAATGTATAGTTTT
Found at i:101293360 original size:3 final size:3
Alignment explanation
Indices: 101293352--101293382 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
101293342 GTTATTTATC
101293352 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
101293383 GGGTTGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:101293501 original size:28 final size:30
Alignment explanation
Indices: 101293461--101293522 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 30
101293451 GTAACATTAT
*
101293461 TATTATTATTATTTCTAATA-TGTAT-ATA
1 TATTATTATTATTTCTAATACTATATGATA
101293489 TATTATGTA-TATTTCTAATACTATATGATA
1 TATTAT-TATTATTTCTAATACTATATGATA
101293519 TATT
1 TATT
101293523 TCTAACATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 17 0.57
29 6 0.20
30 7 0.23
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (30 bp):
TATTATTATTATTTCTAATACTATATGATA
Found at i:101293748 original size:18 final size:17
Alignment explanation
Indices: 101293725--101293767 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
101293715 TCTCAAAAAG
101293725 ATTATTATTACTATATTT
1 ATTATTATTACTAT-TTT
*
101293743 ATTATTTATTAGTATTTT
1 ATTA-TTATTACTATTTT
*
101293761 ACTATTA
1 ATTATTA
101293768 CTATTGTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTATTATTACTATTTT
Found at i:101294554 original size:36 final size:33
Alignment explanation
Indices: 101294493--101294578 Score: 79
Period size: 34 Copynumber: 2.5 Consensus size: 33
101294483 CCATTATTTT
*
101294493 TGTTTTATACTATTATTATCGCATATACATTGTTAA-
1 TGTTTTATA-TATTATT-TCGCATAT--ATTCTTAAC
*
101294529 TGTTTTATATATTATTTGCTTCATATATTCTTAAC
1 TGTTTTATATATTATTT-C-GCATATATTCTTAAC
101294564 T-TTTTAT-TATTATTT
1 TGTTTTATATATTATTT
101294579 ATCCGTTCCG
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
33 8 0.18
34 14 0.31
35 9 0.20
36 14 0.31
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (33 bp):
TGTTTTATATATTATTTCGCATATATTCTTAAC
Found at i:101299160 original size:19 final size:20
Alignment explanation
Indices: 101299125--101299167 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
101299115 AACAAAAAAT
*
101299125 AATAATTTTCAAAAATTCAA
1 AATAATTTTCAAAAATTAAA
*
101299145 AATAATTTT-TAAAATTAAA
1 AATAATTTTCAAAAATTAAA
101299164 AATA
1 AATA
101299168 TTTATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAATTTTCAAAAATTAAA
Found at i:101299170 original size:18 final size:19
Alignment explanation
Indices: 101299136--101299175 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
101299126 ATAATTTTCA
* *
101299136 AAAATTCAAAATAATTTTT
1 AAAATTAAAAATAATTTAT
101299155 AAAATTAAAAAT-ATTTAT
1 AAAATTAAAAATAATTTAT
101299173 AAA
1 AAA
101299176 TTTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTAAAAATAATTTAT
Found at i:101300589 original size:11 final size:11
Alignment explanation
Indices: 101300575--101300601 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
101300565 AATATTAAAA
101300575 ATATATAGAAC
1 ATATATAGAAC
101300586 ATATATAGAAC
1 ATATATAGAAC
101300597 ATATA
1 ATATA
101300602 CAATACATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
ATATATAGAAC
Found at i:101300753 original size:44 final size:43
Alignment explanation
Indices: 101300686--101300799 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 43
101300676 ACACACATAT
* * *
101300686 ATATAAATAATAGTATTAGAAATATACAA-T-ATAATATTAGAA
1 ATATATATAATAGTATAAAAAATATACAACTAATAATATTA-AA
*
101300728 ATATACATATAATAGTATAAAAAATATATAACTAATAATATTAAA
1 ATAT--ATATAATAGTATAAAAAATATACAACTAATAATATTAAA
* *
101300773 ATATATATAATAATATATATAAATATA
1 ATATATATAATAGTATA-AAAAATATA
101300800 ATATTAAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
42 4 0.07
43 12 0.20
44 29 0.48
45 7 0.11
46 9 0.15
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (43 bp):
ATATATATAATAGTATAAAAAATATACAACTAATAATATTAAA
Found at i:101300768 original size:12 final size:12
Alignment explanation
Indices: 101300727--101300794 Score: 58
Period size: 12 Copynumber: 5.9 Consensus size: 12
101300717 TAATATTAGA
*
101300727 AATATACAT-AT
1 AATATATATAAT
101300738 AATAGTATA-AA-
1 AATA-TATATAAT
101300749 AA-ATATATAACT
1 AATATATATAA-T
101300761 AATA-ATATTAA-
1 AATATATA-TAAT
101300772 AATATATATAAT
1 AATATATATAAT
101300784 AATATATATAA
1 AATATATATAA
101300795 ATATAATATT
Statistics
Matches: 47, Mismatches: 1, Indels: 17
0.72 0.02 0.26
Matches are distributed among these distances:
9 4 0.09
10 3 0.06
11 13 0.28
12 23 0.49
13 4 0.09
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (12 bp):
AATATATATAAT
Found at i:101300788 original size:10 final size:10
Alignment explanation
Indices: 101300734--101300802 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 10
101300724 AGAAATATAC
*
101300734 ATATAATAGT
1 ATATAATAAT
*
101300744 ATA-AAAAAT
1 ATATAATAAT
101300753 ATATAACTAAT
1 ATATAA-TAAT
*
101300764 AATATTAAAATAT
1 -ATA-TAATA-AT
101300777 ATATAATAAT
1 ATATAATAAT
101300787 ATAT-ATAA-
1 ATATAATAAT
101300795 ATATAATA
1 ATATAATA
101300803 TTAAAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
8 4 0.08
9 14 0.29
10 11 0.23
11 7 0.15
12 7 0.15
13 5 0.10
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (10 bp):
ATATAATAAT
Found at i:101300803 original size:23 final size:22
Alignment explanation
Indices: 101300686--101300803 Score: 104
Period size: 21 Copynumber: 5.4 Consensus size: 22
101300676 ACACACATAT
*
101300686 ATATAA-ATAATAGTATTAGAA
1 ATATAATATAATAATATTAGAA
101300707 ATATACA-AT-ATAATATTAGAA
1 ATATA-ATATAATAATATTAGAA
* * *
101300728 ATATACATATAATAGTATAAAAA
1 ATATA-ATATAATAATATTAGAA
101300751 ATAT-ATAACTAATAATATTA-AA
1 ATATAAT-A-TAATAATATTAGAA
*
101300773 ATAT-ATATAATAATATATATAA
1 ATATAATATAATAATAT-TAGAA
101300795 ATATAATAT
1 ATATAATAT
101300804 TAAAAATTTA
Statistics
Matches: 83, Mismatches: 6, Indels: 14
0.81 0.06 0.14
Matches are distributed among these distances:
20 9 0.11
21 28 0.34
22 20 0.24
23 26 0.31
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (22 bp):
ATATAATATAATAATATTAGAA
Found at i:101301086 original size:3 final size:3
Alignment explanation
Indices: 101301080--101301115 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
101301070 TACTATGATG
**
101301080 ATA ATA ATA ATA ATA ATA ATA AGG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
101301116 TTGATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:101305194 original size:21 final size:22
Alignment explanation
Indices: 101305165--101305211 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
101305155 CAGAAGGAGT
*
101305165 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101305187 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101305208 GAGT
1 GAGT
101305212 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:101306524 original size:25 final size:25
Alignment explanation
Indices: 101306495--101306549 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
101306485 TCTAGCATAA
*
101306495 CCATGTGCTGCTCCTCTAAGAATAC
1 CCATGTGCTGCTCCTCCAAGAATAC
101306520 CCATGTGCTGCTCCTCCAAGAATAC
1 CCATGTGCTGCTCCTCCAAGAATAC
101306545 CCATG
1 CCATG
101306550 CTTCAATTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (25 bp):
CCATGTGCTGCTCCTCCAAGAATAC
Found at i:101309973 original size:18 final size:18
Alignment explanation
Indices: 101309950--101309995 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
101309940 GAGTTAAACG
*
101309950 AATCGAATTATTCGAGTT
1 AATCGAATTATTCGAGTC
* *
101309968 AATCGAGTTGTTCGAGTC
1 AATCGAATTATTCGAGTC
101309986 AACTCGAATT
1 AA-TCGAATT
101309996 TTTTTCGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (18 bp):
AATCGAATTATTCGAGTC
Found at i:101310063 original size:9 final size:9
Alignment explanation
Indices: 101310034--101310070 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
101310024 TGAGTTTTTG
101310034 AATTCGAAT
1 AATTCGAAT
*
101310043 AACTCGAAT
1 AATTCGAAT
101310052 AATTCGAAT
1 AATTCGAAT
*
101310061 AATTTGAAT
1 AATTCGAAT
101310070 A
1 A
101310071 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:101310630 original size:28 final size:27
Alignment explanation
Indices: 101310572--101310631 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
101310562 TATGCTATTT
**
101310572 ATATTATTAAATTAATTTTCATATTTT
1 ATATTATTAAATTAATTTTCATATTGA
*
101310599 ATATTATTAAATT-GTTTAGTCATATTGA
1 ATATTATTAAATTAATTT--TCATATTGA
101310627 ATATT
1 ATATT
101310632 TATATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.11
27 13 0.46
28 12 0.43
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (27 bp):
ATATTATTAAATTAATTTTCATATTGA
Found at i:101311292 original size:41 final size:41
Alignment explanation
Indices: 101311247--101311331 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
101311237 TTGGGCAACC
* *
101311247 ACTTTCCCTTCAACCAACACAACTAAAATAAAAGGATTTGA
1 ACTTTCCCTTCAACCAACACAACTAAAACAAAAGGATCTGA
*
101311288 ACTTTCCCTTCAACCAACACAACTAGAACAAAAGGATCTGA
1 ACTTTCCCTTCAACCAACACAACTAAAACAAAAGGATCTGA
101311329 ACT
1 ACT
101311332 ATTTTTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.22
Consensus pattern (41 bp):
ACTTTCCCTTCAACCAACACAACTAAAACAAAAGGATCTGA
Found at i:101311369 original size:19 final size:18
Alignment explanation
Indices: 101311335--101311394 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
101311325 CTGAACTATT
101311335 TTTTTATATAACTTTTAATGA
1 TTTTTATA-AA-TTTTAAT-A
101311356 TTTTTATAAATTTT-ATAA
1 TTTTTATAAATTTTAAT-A
* *
101311374 TTGTAATAAATTTTAATA
1 TTTTTATAAATTTTAATA
101311392 TTT
1 TTT
101311395 ATTGATACGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 18 0.53
19 6 0.18
20 2 0.06
21 8 0.24
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTTATAAATTTTAATA
Found at i:101324891 original size:20 final size:20
Alignment explanation
Indices: 101324846--101324883 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
101324836 CCAAATCAAT
*
101324846 AAACTCAACCACACCAAAAC
1 AAACCCAACCACACCAAAAC
*
101324866 AAACCCAACCTCACCAAA
1 AAACCCAACCACACCAAA
101324884 TAAAACCCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.42, G:0.00, T:0.05
Consensus pattern (20 bp):
AAACCCAACCACACCAAAAC
Found at i:101329011 original size:14 final size:16
Alignment explanation
Indices: 101328992--101329023 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
101328982 AGACTTTAAA
101328992 ATTTTAA-ATTT-TTT
1 ATTTTAATATTTATTT
101329006 ATTTTAATATTTATTT
1 ATTTTAATATTTATTT
101329022 AT
1 AT
101329024 CATGCCCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTAATATTTATTT
Found at i:101339612 original size:19 final size:19
Alignment explanation
Indices: 101339588--101339628 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
101339578 TTATTTTTTA
101339588 AAATAGAAAAGATTATATG
1 AAATAGAAAAGATTATATG
101339607 AAATAGAAAAGATTATATG
1 AAATAGAAAAGATTATATG
101339626 AAA
1 AAA
101339629 GAAAGATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (19 bp):
AAATAGAAAAGATTATATG
Found at i:101339749 original size:7 final size:7
Alignment explanation
Indices: 101339737--101339775 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
101339727 GGACTTAAAT
101339737 CTTGAAC
1 CTTGAAC
101339744 CTTGAAC
1 CTTGAAC
101339751 CTTGAAC
1 CTTGAAC
* *
101339758 CATGAAT
1 CTTGAAC
101339765 CTTGAATC
1 CTTGAA-C
101339773 CTT
1 CTT
101339776 CGTCTAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
7 24 0.89
8 3 0.11
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (7 bp):
CTTGAAC
Found at i:101344610 original size:6 final size:7
Alignment explanation
Indices: 101344584--101344614 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
101344574 ATATTTATTC
101344584 TTAAAAA
1 TTAAAAA
101344591 TTAAAAA
1 TTAAAAA
101344598 TTAAAAA
1 TTAAAAA
*
101344605 TAAAAAA
1 TTAAAAA
101344612 TTA
1 TTA
101344615 TTTAAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:101353545 original size:15 final size:14
Alignment explanation
Indices: 101353525--101353554 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
101353515 AGCTTCTTGG
101353525 TTTCTTCTACTTGTT
1 TTTCTTCTAC-TGTT
101353540 TTTCTTCTACTGTT
1 TTTCTTCTACTGTT
101353554 T
1 T
101353555 CCCATAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.07, C:0.20, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTCTTCTACTGTT
Found at i:101361549 original size:39 final size:39
Alignment explanation
Indices: 101361498--101361692 Score: 356
Period size: 39 Copynumber: 5.0 Consensus size: 39
101361488 AATTATATTA
* *
101361498 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
101361537 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
101361576 CCAGCACGAAGCCTGC-GGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
101361614 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTC
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
101361653 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
101361692 C
1 C
101361693 TAGTGTCTTG
Statistics
Matches: 151, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
38 38 0.25
39 113 0.75
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:101361609 original size:77 final size:78
Alignment explanation
Indices: 101361498--101361692 Score: 356
Period size: 77 Copynumber: 2.5 Consensus size: 78
101361488 AATTATATTA
* *
101361498 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
*
101361563 CCCGGATACATTT
66 CCCGGATACATTC
101361576 CCAGCACGAAGCCTGC-GGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
101361640 CCCGGATACATTC
66 CCCGGATACATTC
101361653 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
101361693 TAGTGTCTTG
Statistics
Matches: 113, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
77 75 0.66
78 38 0.34
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (78 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
CCCGGATACATTC
Found at i:101363854 original size:56 final size:57
Alignment explanation
Indices: 101363777--101363889 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
101363767 TTCCAAGTTT
* * **
101363777 TAATGTTGTAATATATTTAATTTAT-ATTACAAAGTTTGTTCCAAGTTTTAATGTTG
1 TAATGTTGCAATATATGTAATTTATGACCACAAAGTTTGTTCCAAGTTTTAATGTTG
**
101363833 TAATGTTGCAAT-TAATGTAATTTATGACCACAAAGTTTGTTTTAAGTTTTAATGTTG
1 TAATGTTGCAATAT-ATGTAATTTATGACCACAAAGTTTGTTCCAAGTTTTAATGTTG
101363890 CAATTAATCT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
55 1 0.02
56 21 0.43
57 27 0.55
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (57 bp):
TAATGTTGCAATATATGTAATTTATGACCACAAAGTTTGTTCCAAGTTTTAATGTTG
Found at i:101364252 original size:33 final size:32
Alignment explanation
Indices: 101364165--101364252 Score: 86
Period size: 33 Copynumber: 2.7 Consensus size: 32
101364155 TTTGAGCTTG
* *
101364165 GAGGAGTGCTGTACTGGAATGGATACGACCCAA
1 GAGGAGTGCTGTACTGG-GTGGATACGAACCAA
* ** * *
101364198 GAGAAGTGGAGTAATGAGGTGGATACGAACCGA
1 GAGGAGTGCTGTACTG-GGTGGATACGAACCAA
101364231 GAGGAGTGCTGTACTGTGGTGG
1 GAGGAGTGCTGTACTG-GGTGG
101364253 TACTGGACTA
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
33 41 0.98
34 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.40, T:0.19
Consensus pattern (32 bp):
GAGGAGTGCTGTACTGGGTGGATACGAACCAA
Found at i:101364459 original size:18 final size:18
Alignment explanation
Indices: 101364436--101364470 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101364426 GAAATAATCC
* *
101364436 GGCCTCTGGCTCTAGCTT
1 GGCCTCTAGCTCGAGCTT
101364454 GGCCTCTAGCTCGAGCT
1 GGCCTCTAGCTCGAGCT
101364471 CTAGCTCATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.34, G:0.29, T:0.29
Consensus pattern (18 bp):
GGCCTCTAGCTCGAGCTT
Found at i:101366347 original size:20 final size:21
Alignment explanation
Indices: 101366299--101366353 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
101366289 TTACCTACAT
101366299 AAAAAAATATACATACTAAAATA
1 AAAAAAATA-ACATACT-AAATA
* *
101366322 ATAAAAATAACATGCT-AATA
1 AAAAAAATAACATACTAAATA
101366342 AAAAAAATAACA
1 AAAAAAATAACA
101366354 AAAATATAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.52
22 6 0.21
23 8 0.28
ACGTcount: A:0.69, C:0.09, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAAATAACATACTAAATA
Found at i:101366722 original size:21 final size:21
Alignment explanation
Indices: 101366692--101366732 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
101366682 ATCTTTTACC
101366692 TATATAAAAAAAATAAAAATT
1 TATATAAAAAAAATAAAAATT
* *
101366713 TATATTAAAATAATAAAAAT
1 TATATAAAAAAAATAAAAAT
101366733 AACATGCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TATATAAAAAAAATAAAAATT
Found at i:101374730 original size:22 final size:20
Alignment explanation
Indices: 101374704--101374753 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 20
101374694 AAACTTTTTT
101374704 TTATTCTTTTATTTCACTTTC
1 TTATTCTTTTATTTC-CTTTC
* *
101374725 TATATTTCTTTTTTTTCTTTTC
1 T-TA-TTCTTTTATTTCCTTTC
101374747 TTATTCT
1 TTATTCT
101374754 CTCCTTTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 4 0.16
21 3 0.12
22 7 0.28
23 11 0.44
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTCTTTTATTTCCTTTC
Found at i:101375624 original size:19 final size:21
Alignment explanation
Indices: 101375595--101375640 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
101375585 ATTTGATTTC
*
101375595 AAAAAATTTAATTATTAAAT-
1 AAAAAATTTAATAATTAAATG
*
101375615 AAAAAA-TTAATAATTCAATG
1 AAAAAATTTAATAATTAAATG
101375635 AAAAAA
1 AAAAAA
101375641 AAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAAAATTTAATAATTAAATG
Found at i:101376156 original size:19 final size:19
Alignment explanation
Indices: 101376129--101376176 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
101376119 TATTTATTTT
101376129 TATTA-AAAATTAGAAAAA
1 TATTATAAAATTAGAAAAA
* * *
101376147 TATTATAAAAATCGTAAAA
1 TATTATAAAATTAGAAAAA
*
101376166 CATTATAAAAT
1 TATTATAAAAT
101376177 ATATAGAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (19 bp):
TATTATAAAATTAGAAAAA
Found at i:101376455 original size:20 final size:20
Alignment explanation
Indices: 101376430--101376467 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
101376420 TAAATGAGTA
101376430 TTTTTATGCAT-TTTATAATT
1 TTTTTATG-ATATTTATAATT
101376450 TTTTTATGATATTTATAA
1 TTTTTATGATATTTATAA
101376468 AATTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTTATGATATTTATAATT
Found at i:101376473 original size:20 final size:20
Alignment explanation
Indices: 101376429--101376473 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
101376419 TTAAATGAGT
*
101376429 ATTTTTATGCATTTTATAAT
1 ATTTTTATGCATTTTATAAA
*
101376449 TTTTTTATG-ATATTTATAAA
1 ATTTTTATGCAT-TTTATAAA
101376469 ATTTT
1 ATTTT
101376474 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTTTTATGCATTTTATAAA
Found at i:101376521 original size:22 final size:19
Alignment explanation
Indices: 101376469--101376522 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 19
101376459 TATTTATAAA
*
101376469 ATTTTATAAT-TTTTTTAT
1 ATTTTCTAATGTTTTTTAT
*
101376487 ATTTTCTACTGTTTTTATAT
1 ATTTTCTAATGTTTTT-TAT
101376507 ATTTATTCTAATGTTT
1 A-TT-TTCTAATGTTT
101376523 AGTAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 8 0.28
19 5 0.17
20 4 0.14
21 2 0.07
22 10 0.34
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTCTAATGTTTTTTAT
Found at i:101376563 original size:21 final size:22
Alignment explanation
Indices: 101376520--101376564 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
101376510 TATTCTAATG
* *
101376520 TTTAGTAAATTTTAAATATTTT
1 TTTAGTAAAGTTTAAATAATTT
*
101376542 TTTATTAAAGTTT-AATAATTT
1 TTTAGTAAAGTTTAAATAATTT
101376563 TT
1 TT
101376565 ATAACTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTAGTAAAGTTTAAATAATTT
Found at i:101387649 original size:34 final size:34
Alignment explanation
Indices: 101387611--101387678 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
101387601 AATTCATTAC
101387611 ATAAAATAGAAGCAAAAGACCCAACAAGTCTAAT
1 ATAAAATAGAAGCAAAAGACCCAACAAGTCTAAT
*
101387645 ATAAAATAGAAGCAAAAGACCTAACAAGTCTAAT
1 ATAAAATAGAAGCAAAAGACCCAACAAGTCTAAT
101387679 TAATCTTACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (34 bp):
ATAAAATAGAAGCAAAAGACCCAACAAGTCTAAT
Found at i:101399773 original size:45 final size:45
Alignment explanation
Indices: 101399723--101399832 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
101399713 GATACTTGGG
101399723 TTTAGTTCTACCAATAGAAGTAAGTCAGAGAGAATTCCAAGCCAA
1 TTTAGTTCTACCAATAGAAGTAAGTCAGAGAGAATTCCAAGCCAA
*
101399768 TTTAGTTCTACCAATAGAAGTAAGTTAGAGAGAATTCCAAGCCAA
1 TTTAGTTCTACCAATAGAAGTAAGTCAGAGAGAATTCCAAGCCAA
101399813 TTATCAGACTTCTACCAATA
1 TT-T-AG--TTCTACCAATA
101399833 CTTAAGGGGA
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
45 46 0.77
46 1 0.02
47 2 0.03
49 11 0.18
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (45 bp):
TTTAGTTCTACCAATAGAAGTAAGTCAGAGAGAATTCCAAGCCAA
Found at i:101400754 original size:20 final size:20
Alignment explanation
Indices: 101400729--101400773 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
101400719 TGGACTACCT
101400729 AAATAATTTTATAAAAATAA
1 AAATAATTTTATAAAAATAA
101400749 AAATAATTTTATAAAAATAA
1 AAATAATTTTATAAAAATAA
101400769 AAATA
1 AAATA
101400774 TTGAAAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAATTTTATAAAAATAA
Found at i:101401264 original size:5 final size:5
Alignment explanation
Indices: 101401256--101401289 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
101401246 AATAAAATAT
101401256 GATGA GATGA GATGA GATGA GATGA GATGA GATG
1 GATGA GATGA GATGA GATGA GATGA GATGA GATG
101401290 TAGTATACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (5 bp):
GATGA
Found at i:101403587 original size:24 final size:23
Alignment explanation
Indices: 101403534--101403590 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
101403524 GATTAGGAGA
101403534 TTTATC-GCATTTTTACTGACAG
1 TTTATCTGCATTTTTACTGACAG
* * **
101403556 CTTGTCTGCATTTTTACTGGTAG
1 TTTATCTGCATTTTTACTGACAG
101403579 TTTTATCTGCAT
1 -TTTATCTGCAT
101403591 ACTGTTATTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 4 0.15
23 14 0.52
24 9 0.33
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (23 bp):
TTTATCTGCATTTTTACTGACAG
Found at i:101405950 original size:49 final size:49
Alignment explanation
Indices: 101405894--101406030 Score: 168
Period size: 49 Copynumber: 2.8 Consensus size: 49
101405884 TGTTGTGTGT
*
101405894 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-TGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTTGATAGATGAAAGC
** * * *
101405943 CAGTGTAAGACCTGTCTGGGACACAGCATCGGCCTTGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGATAGATGAAAGC
* * * *
101405992 CAGTGTAAGACCTATTTGGGACATGGCATTGACTTTGAT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGAT
101406031 GTGCTAGCCA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 73 0.99
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGATAGATGAAAGC
Found at i:101411014 original size:15 final size:14
Alignment explanation
Indices: 101410988--101411074 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
101410978 TATTCTAATA
*
101410988 CTATTATTATTTAT
1 CTATTTTTATTTAT
101411002 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
101411017 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
101411031 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
*
101411046 CTATTTATTATATTTT
1 CTATTT-TTAT-TTAT
*
101411062 C-ATTTCTATTTAT
1 CTATTTTTATTTAT
101411075 ATACTAATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 20 0.33
15 33 0.55
16 4 0.07
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:101411027 original size:14 final size:15
Alignment explanation
Indices: 101410995--101411028 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
101410985 ATACTATTAT
*
101410995 TATTTATCTAATTTT
1 TATTTATCTAATTTA
101411010 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
101411024 TATTT
1 TATTT
101411029 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:101411027 original size:29 final size:29
Alignment explanation
Indices: 101410995--101411053 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
101410985 ATACTATTAT
*
101410995 TATTTAT-CTAATTTTTAT-TTATCTATTTA
1 TATTTATACT-ATTATTATATT-TCTATTTA
*
101411024 TATTTCTACTATTATTATATTTCTATTTA
1 TATTTATACTATTATTATATTTCTATTTA
101411053 T
1 T
101411054 TATATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTATACTATTATTATATTTCTATTTA
Found at i:101411043 original size:17 final size:15
Alignment explanation
Indices: 101411021--101411060 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 15
101411011 ATTTATCTAT
101411021 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
101411038 TTATATTTCTATTTA
1 TTATATTTCTATTTA
101411053 TTATATTT
1 TTATATTT
101411061 TCATTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 11 0.48
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:101411072 original size:44 final size:45
Alignment explanation
Indices: 101410985--101411105 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 45
101410975 TGTTATTCTA
*
101410985 ATACTATTATTATTTATCTAATTT-TTATTTATCTATTTATA-TT-T
1 ATACTATTATTATTT-TCT-ATTTATTATTTTTCTATTTATATTTAT
* *
101411029 CTACTATTATTATATTTCTATTTATTATATTTTC-ATTTCTATTTAT
1 ATACTATTATTAT-TTTCTATTTATTAT-TTTTCTATTTATATTTAT
*
101411075 ATACTAATATTATTTTC-A-TTATTATTTTTCT
1 ATACTATTATTATTTTCTATTTATTATTTTTCT
101411106 TATATATGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
42 5 0.08
43 11 0.17
44 26 0.39
45 12 0.18
46 12 0.18
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (45 bp):
ATACTATTATTATTTTCTATTTATTATTTTTCTATTTATATTTAT
Found at i:101417509 original size:45 final size:45
Alignment explanation
Indices: 101417457--101417590 Score: 173
Period size: 45 Copynumber: 3.0 Consensus size: 45
101417447 ATAGCATTTT
*
101417457 GAAAATTACAGGTATTATCTCCATGTATCGGCTATGGAGCAGA-C
1 GAAAATTACAGGTCTTATCTCCATGTATCGGCTATGGAGCAGATC
* *
101417501 TGAGAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC
1 -GAAAATTACAGGTCTTATCTCCATGTATCGGCTATGGAGCAGATC
** * *
101417547 GAAAATGGC-GAGTCCTATCTCCATGTATCAGCTATGGAGCAGAT
1 GAAAATTACAG-GTCTTATCTCCATGTATCGGCTATGGAGCAGAT
101417591 TTTAGCCACC
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.01
45 76 0.97
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
GAAAATTACAGGTCTTATCTCCATGTATCGGCTATGGAGCAGATC
Found at i:101417626 original size:179 final size:178
Alignment explanation
Indices: 101417326--101417681 Score: 559
Period size: 179 Copynumber: 2.0 Consensus size: 178
101417316 GTAGACTAAA
* **
101417326 AATTACAGATCTTATCTCTATGTATCGGCTATGGAGCAAATCGAAAATGGAGAGTTTTATCTCCA
1 AATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAAATCGAAAATGGAGAGTCCTATCTCCA
* * * **
101417391 TGTATTAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGATAGCATTT
66 TGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
*
101417456 TGAAAATTACAGGTATTATCTCCATGTATCGGCTATGGAGCAGACTGAG
131 TGAAAATTACA-GTATTATCTCCATGTATCAGCTATGGAGCAGACTGAG
* *
101417505 AATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCCTATCTCCA
1 AATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAAATCGAAAATGGAGAGTCCTATCTCCA
* *
101417570 TGTATCAGCTATGGAGCAGATTTTAGCCACCAACTTTATCTCTCTGAGGTAGCAAGAGAGTAGGT
66 TGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
* * *
101417635 TGAAAATTGCAGTCTTATCTCCATGTATCAGTTATGGAGCAGACTGA
131 TGAAAATTACAGTATTATCTCCATGTATCAGCTATGGAGCAGACTGA
101417682 AAAATATAGA
Statistics
Matches: 161, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
178 33 0.20
179 128 0.80
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (178 bp):
AATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAAATCGAAAATGGAGAGTCCTATCTCCA
TGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
TGAAAATTACAGTATTATCTCCATGTATCAGCTATGGAGCAGACTGAG
Found at i:101417823 original size:84 final size:82
Alignment explanation
Indices: 101417682--101418087 Score: 407
Period size: 88 Copynumber: 4.9 Consensus size: 82
101417672 AGCAGACTGA
* * * *** *
101417682 AAAATATAGATCTCCCCTAAACAATAGTGGAGCAGATCGAAGACAACAAGCCTTAACCCCTTAAG
1 AAAATACAGATCTCCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAG
101417747 CAGTAGGGTAACAGGCT
66 CAGTAGGGTAACAGGCT
* * * *
101417764 AGAAAATAAAGATCTCCCCTAAACAGTAATGGAGCAGATCGAAGACAGCGAGCCTTAACCCCCTA
1 --AAAATACAGATCTCCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTA
* *
101417829 AGTAGTAGGGTAACATGCT
64 AGCAGTAGGGTAACAGGCT
* **
101417848 AAAAATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAACCC
1 -AAAA-TACAGATC---TC-CCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
*
101417913 CCGAAGCAGTAGGGTAACAGGCT
60 CCTAAGCAGTAGGGTAACAGGCT
* ** *
101417936 GAAAATTACAGATCTTATCTCCTTAAGCAGTA-TGGAGCAGATCGAAGATGGTGAGCCTTAACTC
1 -AAAA-TACAGATC---TC-CCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
*
101418000 CCTAGGCAGTAGGGTAACA-G--
60 CCTAAGCAGTAGGGTAACAGGCT
**
101418020 ---AT-CTTATCT-CCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAG
1 AAAATACAGATCTCCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAG
101418080 CAGTAGGG
66 CAGTAGGG
101418088 AAGCAGTAGT
Statistics
Matches: 284, Mismatches: 32, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
73 11 0.04
74 42 0.15
75 1 0.00
78 4 0.01
79 1 0.00
80 1 0.00
83 4 0.01
84 81 0.29
86 1 0.00
87 50 0.18
88 88 0.31
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (82 bp):
AAAATACAGATCTCCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAG
CAGTAGGGTAACAGGCT
Found at i:101418067 original size:74 final size:73
Alignment explanation
Indices: 101417943--101418087 Score: 236
Period size: 74 Copynumber: 2.0 Consensus size: 73
101417933 GCTGAAAATT
* ** * *
101417943 ACAGATCTTATCTCCTTAAGCAGTATGGAGCAGATCGAAGATGGTGAGCCTTAACTCCCTAGGCA
1 ACAGATCTTATCTCCCTAAGCAGTATGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCA
101418008 GTAGGGTA
66 GTAGGGTA
101418016 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGC
1 ACAGATCTTATCTCCCTAAGCAGTA-TGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGC
101418081 AGTAGGG
65 AGTAGGG
101418088 AAGCAGTAGT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 24 0.36
74 42 0.64
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.22
Consensus pattern (73 bp):
ACAGATCTTATCTCCCTAAGCAGTATGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCA
GTAGGGTA
Found at i:101418093 original size:44 final size:45
Alignment explanation
Indices: 101418029--101418226 Score: 131
Period size: 44 Copynumber: 4.2 Consensus size: 45
101418019 GATCTTATCT
*
101418029 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACAGTGAGCCTTAACC
1 CCCTAAGCAGTAGAGGAAGCAGATCGAAGACAGTGAGCCTTAACC
101418073 CCCTAAGCAGTAGGGAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACC
1 CCCTAAGCAGTA--G-AG--G-A----AGCAGATCGAAGACAGTGAGCCTTAACC
* * * * * *
101418128 CCCTAAGCAGTAG-GGTAA-CAG-GCTGAA-A-ATTACAGATCTTATCT
1 CCCTAAGCAGTAGAGG-AAGCAGATC-GAAGACAGT-GAG-CCTTAACC
* * *
101418172 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACGGTGAGCCTTATCC
1 CCCTAAGCAGTAGAGGAAGCAGATCGAAGACAGTGAGCCTTAACC
101418216 CCCTAAGCAGT
1 CCCTAAGCAGT
101418227 GGGGAAACAG
Statistics
Matches: 122, Mismatches: 13, Indels: 38
0.71 0.08 0.22
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
44 59 0.48
45 7 0.06
46 2 0.02
47 1 0.01
49 4 0.03
51 1 0.01
53 1 0.01
55 40 0.33
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (45 bp):
CCCTAAGCAGTAGAGGAAGCAGATCGAAGACAGTGAGCCTTAACC
Found at i:101418117 original size:55 final size:55
Alignment explanation
Indices: 101418033--101418142 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
101418023 TTATCTCCCT
101418033 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGG
1 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGG
101418088 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGG
1 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGG
101418143 TAACAGGCTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.22, G:0.31, T:0.15
Consensus pattern (55 bp):
AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGG
Found at i:101418207 original size:88 final size:87
Alignment explanation
Indices: 101418088--101418267 Score: 306
Period size: 88 Copynumber: 2.1 Consensus size: 87
101418078 AGCAGTAGGG
*
101418088 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
1 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTG
*
101418153 AAAATTACAGATCTTATCTCCCT
66 -AAATTACAAATCTTATCTCCCT
* * *
101418176 AAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCCCCCTAAGCAGTGGGGAAACAGGCTG
1 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTG
101418241 AAATTACAAATCTTATCTCCCT
66 AAATTACAAATCTTATCTCCCT
101418263 AAGCA
1 AAGCA
101418268 CTAGGGAAAC
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 26 0.30
88 61 0.70
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (87 bp):
AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTG
AAATTACAAATCTTATCTCCCT
Found at i:101418263 original size:43 final size:44
Alignment explanation
Indices: 101418209--101418309 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 44
101418199 GACGGTGAGC
* * * *
101418209 CTTATCCCCCTAAGCAGTGGGGAAACAGGCTG-AAATTACAAAT
1 CTTATCTCCCTAAGCACTAGGGAAACAAGCTGAAAATTACAAAT
* *
101418252 CTTATCTCCCTAAGCACTAGGGAAACAAGCTGAAAATTATAGAT
1 CTTATCTCCCTAAGCACTAGGGAAACAAGCTGAAAATTACAAAT
101418296 CTTATCTCCCTAAG
1 CTTATCTCCCTAAG
101418310 TAGTAGCAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 28 0.55
44 23 0.45
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTAAGCACTAGGGAAACAAGCTGAAAATTACAAAT
Found at i:101418304 original size:44 final size:44
Alignment explanation
Indices: 101418128--101418315 Score: 170
Period size: 44 Copynumber: 4.3 Consensus size: 44
101418118 AGCCTTAACC
* *
101418128 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCT
* * ** * * *
101418172 CCCTAAGCAGTAGTGG-AGC-AGATCGAAGACGGT-GAG-CCTTATCC
1 CCCTAAGCAGTAG-GGAAACAAGCT-GAA-A-ATTACAGATCTTATCT
* * *
101418216 CCCTAAGCAGTGGGGAAACAGGCTG-AAATTACAAATCTTATCT
1 CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCT
* *
101418259 CCCTAAGCACTAGGGAAACAAGCTGAAAATTATAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCT
*
101418303 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
101418316 CAAAGCAGAT
Statistics
Matches: 110, Mismatches: 25, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 33 0.30
44 66 0.60
45 7 0.06
46 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCT
Found at i:101419800 original size:44 final size:45
Alignment explanation
Indices: 101419745--101419843 Score: 148
Period size: 44 Copynumber: 2.2 Consensus size: 45
101419735 TGTTACAAGC
* *
101419745 CTTATCTCCCTAAGTAGTAGTGGAGCAGGCTGAAAATTA-CAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAAATTACCAGAT
*
101419789 CTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGATTACCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAAATTACCAGAT
*
101419834 TTTATC-CCCT
1 CTTATCTCCCT
101419844 TTAAGTTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 40 0.80
45 10 0.20
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAAATTACCAGAT
Found at i:101420854 original size:15 final size:14
Alignment explanation
Indices: 101420798--101420914 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
101420788 TTATTATGTT
*
101420798 TCTATTTGTATTTA
1 TCTATTTTTATTTA
*
101420812 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
101420826 TACTATTATTATTTA
1 T-CTATTTTTATTTA
101420841 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
101420856 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
101420870 TACTATTATTATATT-
1 T-CTATTTTTAT-TTA
101420885 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
* *
101420900 TTTATTTCTATTTA
1 TCTATTTTTATTTA
101420914 T
1 T
101420915 ATACTAATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 24 0.29
15 37 0.45
16 4 0.05
17 7 0.09
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:101420867 original size:14 final size:15
Alignment explanation
Indices: 101420835--101420868 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
101420825 ATACTATTAT
*
101420835 TATTTATCTAATTTT
1 TATTTATCTAATTTA
101420850 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
101420864 TATTT
1 TATTT
101420869 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:101420867 original size:29 final size:29
Alignment explanation
Indices: 101420835--101420893 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
101420825 ATACTATTAT
*
101420835 TATTTAT-CTAATTTTTAT-TTATCTATTTA
1 TATTTATACT-ATTATTATATT-TCTATTTA
*
101420864 TATTTCTACTATTATTATATTTCTATTTA
1 TATTTATACTATTATTATATTTCTATTTA
101420893 T
1 T
101420894 TATATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTATACTATTATTATATTTCTATTTA
Found at i:101420883 original size:17 final size:15
Alignment explanation
Indices: 101420861--101420906 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
101420851 ATTTATCTAT
101420861 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
101420878 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
101420893 TTATATTTTTATTT
1 TTATATTTCTATTT
101420907 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:101420899 original size:23 final size:23
Alignment explanation
Indices: 101420873--101420939 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
101420863 ATATTTCTAC
101420873 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
101420896 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
101420918 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
101420939 T
1 T
101420940 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:101420950 original size:52 final size:54
Alignment explanation
Indices: 101420829--101420950 Score: 125
Period size: 52 Copynumber: 2.4 Consensus size: 54
101420819 ATTCTAATAC
* * *
101420829 TATTATTATTTATC-TA-ATTTTTATTTATCTATTTATATTTCTACTATTATTA
1 TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
* *
101420881 TATT-TCTA--TTTATTATATTTTTA-TT-TCTATTTATA-TACTAATATTATTT
1 TATTAT-TATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
101420930 TCATTATTATTTTTCTTATAT
1 T-ATTATTATTTTTCTTATAT
101420951 ATGTTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
49 12 0.21
50 17 0.30
51 6 0.11
52 22 0.39
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (54 bp):
TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
Found at i:101427911 original size:39 final size:39
Alignment explanation
Indices: 101427868--101427943 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
101427858 TAAACCTTTA
101427868 TAATTCTTAGGGATTCTTTTTATAAGAGTTAATAGATTT
1 TAATTCTTAGGGATTCTTTTTATAAGAGTTAATAGATTT
101427907 TAATTCTTAGGGATTCTTTTTATAAGAGTTAATAGAT
1 TAATTCTTAGGGATTCTTTTTATAAGAGTTAATAGAT
101427944 AGTAGTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (39 bp):
TAATTCTTAGGGATTCTTTTTATAAGAGTTAATAGATTT
Found at i:101428059 original size:23 final size:25
Alignment explanation
Indices: 101428013--101428060 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
101428003 AAATTTAATT
* *
101428013 TTTAATGTTTATATTTTTTTGTTAA
1 TTTAATGTTTATAATTTTTAGTTAA
101428038 TTTAAT-TTT-TAATTTTTAGTTAA
1 TTTAATGTTTATAATTTTTAGTTAA
101428061 ACTTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 3 0.14
25 6 0.29
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (25 bp):
TTTAATGTTTATAATTTTTAGTTAA
Found at i:101428293 original size:22 final size:22
Alignment explanation
Indices: 101428268--101428340 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
101428258 TGGAATGATT
101428268 ATAATTAATGTATTGAAAAGTA
1 ATAATTAATGTATTGAAAAGTA
* * * *
101428290 ATAATTCATCAATG-AATGGAATGATT
1 ATAA-T--T-AATGTATTGAAAAG-TA
101428316 ATAATTAATGTATTGAAAAGTA
1 ATAATTAATGTATTGAAAAGTA
101428338 ATA
1 ATA
101428341 CACAGATTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
22 12 0.32
23 8 0.22
25 8 0.22
26 9 0.24
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.36
Consensus pattern (22 bp):
ATAATTAATGTATTGAAAAGTA
Found at i:101428296 original size:48 final size:48
Alignment explanation
Indices: 101428242--101428340 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
101428232 TAGAGTTTTC
101428242 ATAATTCATCAATGAATGGAATGATTATAATTAATGTATTGAAAAGTA
1 ATAATTCATCAATGAATGGAATGATTATAATTAATGTATTGAAAAGTA
101428290 ATAATTCATCAATGAATGGAATGATTATAATTAATGTATTGAAAAGTA
1 ATAATTCATCAATGAATGGAATGATTATAATTAATGTATTGAAAAGTA
101428338 ATA
1 ATA
101428341 CACAGATTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.35
Consensus pattern (48 bp):
ATAATTCATCAATGAATGGAATGATTATAATTAATGTATTGAAAAGTA
Found at i:101428319 original size:26 final size:26
Alignment explanation
Indices: 101428242--101428321 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
101428232 TAGAGTTTTC
101428242 ATAATTCATCAATGAATGGAATGATT
1 ATAATTCATCAATGAATGGAATGATT
* * * *
101428268 ATAA-T--T-AATGTATTGAA-AAGTA
1 ATAATTCATCAATGAATGGAATGA-TT
101428290 ATAATTCATCAATGAATGGAATGATT
1 ATAATTCATCAATGAATGGAATGATT
101428316 ATAATT
1 ATAATT
101428322 AATGTATTGA
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
21 1 0.03
22 14 0.35
23 2 0.05
25 2 0.05
26 20 0.50
27 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (26 bp):
ATAATTCATCAATGAATGGAATGATT
Found at i:101431366 original size:20 final size:20
Alignment explanation
Indices: 101431341--101431386 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
101431331 GTCGGAACAT
101431341 TTTCAACAACAATTATAGTG
1 TTTCAACAACAATTATAGTG
101431361 TTTCAACAACAATTATAGTG
1 TTTCAACAACAATTATAGTG
101431381 TTTCAA
1 TTTCAA
101431387 AAACTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (20 bp):
TTTCAACAACAATTATAGTG
Found at i:101432705 original size:6 final size:6
Alignment explanation
Indices: 101432689--101432732 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
101432679 TCAAATCACA
* *
101432689 ACTACTC ACTATC ACTATC ACTACC ACTACC ACTACC ACTACC A
1 ACTAC-C ACTACC ACTACC ACTACC ACTACC ACTACC ACTACC A
101432733 TCTTTGGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (6 bp):
ACTACC
Found at i:101441252 original size:5 final size:5
Alignment explanation
Indices: 101441223--101441261 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
101441213 TAAATTTAGC
* *
101441223 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
101441262 CATCCTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:101449710 original size:45 final size:46
Alignment explanation
Indices: 101449576--101449791 Score: 180
Period size: 46 Copynumber: 4.6 Consensus size: 46
101449566 GGTTATTGTG
* *
101449576 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--CA
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA-CGAGATGTA
* *
101449622 AGTGCTAGTGTAAGA-CATGTCTGAGACATGCATCGGCCTCGAGATGTA
1 A--GCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CACGAGATGTA
101449670 AGCTAGTGTAAGA-CAT-TCTGGGACATGCATCGGCTACGAGATGT-
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGAGATGTA
* * * *
101449714 -G-TCAGTGTAAAACCATG-CTTGGGACATGGCATTGGCGCAGATATGTGA
1 AGCT-AGTGTAAGACCATGTC-TGGGACAT-GCATCGGCAC-GAGATGT-A
*
101449762 GAGCTAGTGTAAGACCATCTCTGGGACATG
1 -AGCTAGTGTAAGACCATGTCTGGGACATG
101449792 GCGTCAGTCT
Statistics
Matches: 140, Mismatches: 12, Indels: 33
0.76 0.06 0.18
Matches are distributed among these distances:
42 1 0.01
43 9 0.06
44 5 0.04
45 33 0.24
46 40 0.29
47 14 0.10
48 14 0.10
49 1 0.01
50 21 0.15
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACGAGATGTA
Found at i:101449878 original size:47 final size:49
Alignment explanation
Indices: 101449574--101449901 Score: 189
Period size: 47 Copynumber: 6.9 Consensus size: 49
101449564 TAGGTTATTG
*
101449574 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC--AT-TGAGACA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTATATGAG--A
* * * * * *
101449622 AGTGCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGC--CT-CGAGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTATATGAGA
* *
101449666 TGTAAGCTAGTGTAAGA-CAT-TCTGGGACAT-GCATCGGC---TACGAGA
1 TG--AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTATATGAGA
* * ** *
101449711 TGTG-TCAGTGTAAAACCATG-CTTGGGACATGGCATTGGCG-CAGATATGTGA
1 TGAGCT-AGTGTAAGACCATGTC-TGGGACATGGCA-T--CGACTTATATGAGA
* * * **
101449762 -GAGCTAGTGTAAGACCATCTCTGGGACATGGCGTCAGTCTTGAT-TTCGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTT-ATATGAGA
*
101449811 T-AG-TCAGTGTAAGACTATGTCTGGGACATGGCATCGACTTA-ATG-GA
1 TGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACTTATATGAGA
*
101449857 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTATA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTATA
101449902 CCCTATGTTT
Statistics
Matches: 227, Mismatches: 27, Indels: 51
0.74 0.09 0.17
Matches are distributed among these distances:
42 1 0.00
43 9 0.04
44 7 0.03
45 32 0.14
46 33 0.15
47 51 0.22
48 23 0.10
49 37 0.16
50 27 0.12
51 7 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (49 bp):
TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTATATGAGA
Found at i:101452350 original size:23 final size:23
Alignment explanation
Indices: 101452305--101452350 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
101452295 CAGATAGCCA
** *
101452305 TATATCAGGAAGTTCAAGCGAGC
1 TATATCAGGAAAATCAAGAGAGC
*
101452328 TATATCAGGAAAATCCAGAGAGC
1 TATATCAGGAAAATCAAGAGAGC
101452351 CATTAATTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (23 bp):
TATATCAGGAAAATCAAGAGAGC
Found at i:101452917 original size:5 final size:5
Alignment explanation
Indices: 101452888--101452926 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
101452878 TAAATTTAGC
* *
101452888 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
101452927 CATCCTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:101480129 original size:31 final size:30
Alignment explanation
Indices: 101480057--101480134 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
101480047 TTTGAACCAC
101480057 AATCAAAGTTTCATGTA-TATAATTGCATCA
1 AATCAAAG-TTCATGTATTATAATTGCATCA
*
101480087 AATTAAAGTTCATGTATTA-AATTGCA-CA
1 AATCAAAGTTCATGTATTATAATTGCATCA
101480115 TTGAATCAAAGTTCATGTAT
1 ---AATCAAAGTTCATGTAT
101480135 AATTTTAGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 2 0.05
29 15 0.36
30 9 0.21
31 16 0.38
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (30 bp):
AATCAAAGTTCATGTATTATAATTGCATCA
Found at i:101480138 original size:29 final size:27
Alignment explanation
Indices: 101480057--101480138 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 27
101480047 TTTGAACCAC
101480057 AATCAAAGTTTCATGTATATAATTGCATCA
1 AATCAAAG-TTCATG--TATAATTGCATCA
*
101480087 AATTAAAGTTCATGTATTAAATTGCA-CA
1 AATCAAAGTTCATGTA-T-AATTGCATCA
101480115 TTGAATCAAAGTTCATGTATAATT
1 ---AATCAAAGTTCATGTATAATT
101480139 TTAGGATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
27 2 0.04
28 3 0.07
29 17 0.38
30 8 0.18
31 15 0.33
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (27 bp):
AATCAAAGTTCATGTATAATTGCATCA
Found at i:101485553 original size:15 final size:15
Alignment explanation
Indices: 101485533--101485566 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
101485523 AACTGCCTAC
*
101485533 AAAATATGATTTATT
1 AAAATATGATATATT
*
101485548 AAAATATTATATATT
1 AAAATATGATATATT
101485563 AAAA
1 AAAA
101485567 AACCCAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAAATATGATATATT
Found at i:101486755 original size:16 final size:16
Alignment explanation
Indices: 101486734--101486765 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
101486724 ACCCTTAGAC
101486734 TTGTCCATTACAAGAA
1 TTGTCCATTACAAGAA
101486750 TTGTCCATTACAAGAA
1 TTGTCCATTACAAGAA
101486766 AGCTTGAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
TTGTCCATTACAAGAA
Found at i:101495346 original size:12 final size:13
Alignment explanation
Indices: 101495327--101495364 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
101495317 CCTTACGTTT
101495327 CTTCTTTCTTTTC
1 CTTCTTTCTTTTC
*
101495340 CTT-TTTCTTTTT
1 CTTCTTTCTTTTC
101495352 CTTCCTTTCTTTT
1 CTT-CTTTCTTTT
101495365 TGTTTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 3 0.14
14 8 0.36
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTCTTTCTTTTC
Found at i:101495352 original size:25 final size:25
Alignment explanation
Indices: 101495324--101495395 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
101495314 AAGCCTTACG
101495324 TTTCTTCTTTCTTTTCCTTTTTC-TT
1 TTTCTTCTTTCTTTT-CTTTTTCATT
*
101495349 TTTCTTCCTTTCTTTT-TGTTTCATT
1 TTTCTT-CTTTCTTTTCTTTTTCATT
**
101495374 TGGCTTCTTTCTTTTTCTTTTT
1 TTTCTTCTTTC-TTTTCTTTTT
101495396 TTATTACTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 10 0.26
25 16 0.41
26 13 0.33
ACGTcount: A:0.01, C:0.21, G:0.04, T:0.74
Consensus pattern (25 bp):
TTTCTTCTTTCTTTTCTTTTTCATT
Found at i:101495827 original size:21 final size:21
Alignment explanation
Indices: 101495803--101495844 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
101495793 GAAAAAATTC
101495803 GTCAGGCGATTACATGGGATA
1 GTCAGGCGATTACATGGGATA
101495824 GTCAGGCGATTACATGGGATA
1 GTCAGGCGATTACATGGGATA
101495845 ACCTGGTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (21 bp):
GTCAGGCGATTACATGGGATA
Found at i:101497444 original size:22 final size:22
Alignment explanation
Indices: 101497410--101497455 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
101497400 AATATTGAAA
101497410 TATATACTCTTAT-ATTAATATT
1 TATATACTCTTATAATTAA-ATT
* *
101497432 TATATATTTTTATAATTAAATT
1 TATATACTCTTATAATTAAATT
101497454 TA
1 TA
101497456 AATAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATACTCTTATAATTAAATT
Found at i:101500408 original size:19 final size:19
Alignment explanation
Indices: 101500375--101500425 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
101500365 ATTTTTTTAA
101500375 ATTTTATATAAAATAAAAAT
1 ATTTTATA-AAAATAAAAAT
*
101500395 ATTTTATAAAAATAATAAT
1 ATTTTATAAAAATAAAAAT
*
101500414 TTTTTA-AAAAAT
1 ATTTTATAAAAAT
101500426 TTCAAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 6 0.21
19 15 0.52
20 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTTTATAAAAATAAAAAT
Found at i:101502212 original size:20 final size:19
Alignment explanation
Indices: 101502183--101502223 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
101502173 ACATGTGAAA
101502183 AATAATGAAA-TAAATAAAT
1 AATAATGAAATTAAA-AAAT
101502202 AATACATGAAATTAAAAAAT
1 AATA-ATGAAATTAAAAAAT
101502222 AA
1 AA
101502224 CTCTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (19 bp):
AATAATGAAATTAAAAAAT
Found at i:101514506 original size:28 final size:26
Alignment explanation
Indices: 101514456--101514515 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 26
101514446 ACTAGCATTT
*
101514456 AATATATAAATGATATAAAATA-TAA
1 AATATATAAAAGATATAAAATATTAA
*
101514481 CAATATATAAAAGATTTAATACATATTAA
1 -AATATATAAAAGATATAA-A-ATATTAA
101514510 AATATA
1 AATATA
101514516 AAATAAGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 16 0.55
27 1 0.03
28 9 0.31
29 3 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (26 bp):
AATATATAAAAGATATAAAATATTAA
Found at i:101514708 original size:17 final size:16
Alignment explanation
Indices: 101514683--101514716 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
101514673 TATTTTACAT
101514683 ATAAAAATATAATAAA
1 ATAAAAATATAATAAA
101514699 ATAAATAATATAATAAA
1 ATAAA-AATATAATAAA
101514716 A
1 A
101514717 ATATATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAAATATAATAAA
Found at i:101514714 original size:20 final size:20
Alignment explanation
Indices: 101514691--101514737 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
101514681 ATATAAAAAT
*
101514691 ATAATAAAATAAATAATATA
1 ATAATAAAATAAATAACATA
*
101514711 AT-A-AAAATATATAACATA
1 ATAATAAAATAAATAACATA
101514729 A-AATAAAAT
1 ATAATAAAAT
101514738 TTTTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 15 0.65
19 6 0.26
20 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAATAAAATAAATAACATA
Found at i:101516654 original size:175 final size:176
Alignment explanation
Indices: 101516462--101516838 Score: 580
Period size: 176 Copynumber: 2.1 Consensus size: 176
101516452 ACGTGAAATC
* * *
101516462 CAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACACAAGGATG-CCAAATCATCTTGGATCTG
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCCAAATCATCTTGGATCTG
* * * *
101516526 CTTCAGTA-AAATTATCTGAAGGTTAGATCTGCTATGT-CTCTGCTCTCTGTCGAAATGGAGATG
66 CTTCAGTATAAA-CATCTGAAGGTTAGACCTGCTATGTAC-CTACTCTCCGTCGAAATGGAGATG
** *
101516589 CCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGT
129 CCAGATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATCCAAAAGT
* *
101516637 CAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCCAAATCATCTTTGATCTG
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCCAAATCATCTTGGATCTG
101516702 CTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAGATGCC
66 CTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAGATGCC
**
101516767 AGATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATTTAAAAGT
131 AGATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATCCAAAAGT
*
101516813 CAGATCTGCTATGTCTTCGATTTGCT
1 CAAATCTGCTATGTCTTCGATTTGCT
101516839 TATCGTCGAA
Statistics
Matches: 183, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
175 41 0.22
176 138 0.75
177 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (176 bp):
CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCCAAATCATCTTGGATCTG
CTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAGATGCC
AGATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATCCAAAAGT
Found at i:101528663 original size:23 final size:20
Alignment explanation
Indices: 101528606--101528653 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
101528596 ACATATAAAA
*
101528606 ATATAAT-AAAATAAAT-A-
1 ATATAATAAAAATATATAAC
101528623 ATATAATAAAAATATATAAC
1 ATATAATAAAAATATATAAC
101528643 ATATAATAAAA
1 ATATAATAAAA
101528654 TTTATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.26
18 8 0.30
19 1 0.04
20 11 0.41
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATATAATAAAAATATATAAC
Found at i:101528666 original size:18 final size:17
Alignment explanation
Indices: 101528605--101528667 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
101528595 TACATATAAA
*
101528605 AATATAATAAAATAAAT
1 AATATAATAAAATATAT
101528622 AATATAATAAAAATATAT
1 AATATAAT-AAAATATAT
*
101528640 AACATATAATAAAATTTAT
1 -A-ATATAATAAAATATAT
101528659 ATATATAAT
1 A-ATATAAT
101528668 GTTACAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
17 8 0.20
18 16 0.40
19 9 0.22
20 7 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATAATAAAATATAT
Found at i:101533232 original size:54 final size:54
Alignment explanation
Indices: 101533125--101533249 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
101533115 TGGTCCACAT
* *
101533125 GGGCACAGAGAGTTACACAGCCTGACGACACGACTATGTGACCTTAAGCTACAC
1 GGGCACAGAGAGTTACACAGCCTGACGACACGACCATATGACCTTAAGCTACAC
* * * * * * *
101533179 GGTCACAGAGAGTTACACGGCCTGGCGACACGGCCGTATGACTTTATA-TTACAC
1 GGGCACAGAGAGTTACACAGCCTGACGACACGACCATATGACCTTA-AGCTACAC
*
101533233 GGGCACAGTGAGTTACA
1 GGGCACAGAGAGTTACA
101533250 TGGCTTACGT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 58 0.98
55 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (54 bp):
GGGCACAGAGAGTTACACAGCCTGACGACACGACCATATGACCTTAAGCTACAC
Found at i:101533284 original size:21 final size:21
Alignment explanation
Indices: 101533260--101533324 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
101533250 TGGCTTACGT
*
101533260 ACATGGGCATGTGAAGCAGTC
1 ACATGGGCATGTGAAGCAGCC
* * *
101533281 ACATAGGCGTGTGGAGCAGCC
1 ACATGGGCATGTGAAGCAGCC
* * *
101533302 ACACGGCCATGTCAAG-AGCC
1 ACATGGGCATGTGAAGCAGCC
101533322 ACA
1 ACA
101533325 CGGTGCGACA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
20 7 0.21
21 27 0.79
ACGTcount: A:0.29, C:0.26, G:0.31, T:0.14
Consensus pattern (21 bp):
ACATGGGCATGTGAAGCAGCC
Found at i:101533376 original size:126 final size:126
Alignment explanation
Indices: 101533221--101533451 Score: 340
Period size: 126 Copynumber: 1.8 Consensus size: 126
101533211 GCCGTATGAC
* * * * *
101533221 TTTATATTACACGGGCACAGTGAGTTACAT-GGCTTACGTACATGGGCATGTGAAGCAGTCACAT
1 TTTATATTACACAGGCACAATGAGTTACATAGTC-TACGTACAAGGGCATGTGAAGCAATCACAT
*
101533285 -AGGCGTGTGGAGCAGCCACACGGCCATGTCAAGAGCCACACGGTGCGACATGGTCGCGTGAA
65 GA-GCGTGTGAAGCAGCCACACGGCCATGTCAAGAGCCACACGGTGCGACATGGTCGCGTGAA
* *
101533347 TTTATATTACACAGGCACAATGAGTTACATAGTCTATGTACAAGGGCATGTGAAGCAATTACATG
1 TTTATATTACACAGGCACAATGAGTTACATAGTCTACGTACAAGGGCATGTGAAGCAATCACATG
* *
101533412 AGCGTGTGAAGTAGCCACATGGCCATGTCAAGAGCCACAC
66 AGCGTGTGAAGCAGCCACACGGCCATGTCAAGAGCCACAC
101533452 AGTTTGGGCT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
126 90 0.97
127 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (126 bp):
TTTATATTACACAGGCACAATGAGTTACATAGTCTACGTACAAGGGCATGTGAAGCAATCACATG
AGCGTGTGAAGCAGCCACACGGCCATGTCAAGAGCCACACGGTGCGACATGGTCGCGTGAA
Done.