Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 70 of 344
Found at i:22704983 original size:22 final size:21
Alignment explanation
Indices: 22704958--22705054 Score: 97
Period size: 22 Copynumber: 4.5 Consensus size: 21
22704948 GAGTTACTAT
*
22704958 TTTAAGGTTTATGGATTATGGG
1 TTTAGGGTTTATGGATTAT-GG
* *
22704980 TTTAGGGATTATGGTTTATGG
1 TTTAGGGTTTATGGATTATGG
* *
22705001 ATTATGGGTTTAGGGATTATGG
1 TTTA-GGGTTTATGGATTATGG
* *
22705023 TTTATGGTTTATGGGTTAATGG
1 TTTAGGGTTTATGGATT-ATGG
22705045 -TTAGGGTTTA
1 TTTAGGGTTTA
22705055 AGTTTTAGAG
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
21 24 0.39
22 37 0.61
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (21 bp):
TTTAGGGTTTATGGATTATGG
Found at i:22704995 original size:29 final size:29
Alignment explanation
Indices: 22704963--22705039 Score: 145
Period size: 29 Copynumber: 2.7 Consensus size: 29
22704953 ACTATTTTAA
22704963 GGTTTATGGATTATGGGTTTAGGGATTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
22704992 GGTTTATGGATTATGGGTTTAGGGATTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
*
22705021 GGTTTATGGTTTATGGGTT
1 GGTTTATGGATTATGGGTT
22705040 AATGGTTAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (29 bp):
GGTTTATGGATTATGGGTTTAGGGATTAT
Found at i:22705102 original size:29 final size:29
Alignment explanation
Indices: 22704958--22705103 Score: 118
Period size: 29 Copynumber: 5.1 Consensus size: 29
22704948 GAGTTACTAT
*
22704958 TTTAAGGTTTATGGATTATGGGTTTAGGG
1 TTTAAGGTTTATGGATTATGGGTTAAGGG
* * *
22704987 ATTATGGTTTATGGATTATGGGTTTAGGG
1 TTTAAGGTTTATGGATTATGGGTTAAGGG
* * * *
22705016 ATTATGGTTTATGGTTTATGGGTTAATGG
1 TTTAAGGTTTATGGATTATGGGTTAAGGG
* * ** * *
22705045 -TTAGGGTTTAAGTTTTAGAGGGTT-GGGG
1 TTTAAGGTTTATGGATTA-TGGGTTAAGGG
*
22705073 TTTAAGGTTTAT-GAGTTAAGGGTTAAGGG
1 TTTAAGGTTTATGGA-TTATGGGTTAAGGG
22705102 TT
1 TT
22705104 AAGTGTTAAG
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
28 22 0.23
29 75 0.77
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (29 bp):
TTTAAGGTTTATGGATTATGGGTTAAGGG
Found at i:22705133 original size:50 final size:50
Alignment explanation
Indices: 22705012--22705164 Score: 132
Period size: 50 Copynumber: 3.0 Consensus size: 50
22705002 TTATGGGTTT
* * *
22705012 AGGGATTATGGTTTATGGTTTATGGGTTAATGGTTAGGGTTTAAGTTTTAG
1 AGGG-TTATGGTTTATGGTTTATGAGTTAAGGGTTAGGGTTTAAGTGTTAG
** *
22705063 AGGGTTGGGGTTTAAGGTTTATGAGTTAAGGGTTAAGGG-TTAAGTGTTA-
1 AGGGTTATGGTTTATGGTTTATGAGTTAAGGGTT-AGGGTTTAAGTGTTAG
* * * * * * *
22705112 AGGGTTTATGTTTTATTGTTTAAG-GTTTAGGGGTTAGGGGTTAGGGGTTAG
1 AGGG-TTATGGTTTATGGTTTATGAG-TTAAGGGTTAGGGTTTAAGTGTTAG
22705163 AG
1 AG
22705165 ATTTAGGGTT
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
49 9 0.11
50 63 0.77
51 10 0.12
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (50 bp):
AGGGTTATGGTTTATGGTTTATGAGTTAAGGGTTAGGGTTTAAGTGTTAG
Found at i:22705176 original size:7 final size:7
Alignment explanation
Indices: 22704958--22705177 Score: 91
Period size: 7 Copynumber: 30.7 Consensus size: 7
22704948 GAGTTACTAT
*
22704958 TTTAAGG
1 TTTAGGG
*
22704965 TTTATGG
1 TTTAGGG
*
22704972 ATTATGGG
1 TTTA-GGG
22704980 TTTAGGG
1 TTTAGGG
* *
22704987 ATTATGG
1 TTTAGGG
*
22704994 TTTATGG
1 TTTAGGG
*
22705001 ATTATGGG
1 TTTA-GGG
22705009 TTTAGGG
1 TTTAGGG
* *
22705016 ATTATGG
1 TTTAGGG
*
22705023 TTTATGG
1 TTTAGGG
22705030 TTTATGGG
1 TTTA-GGG
* *
22705038 TTAATGG
1 TTTAGGG
22705045 -TTAGGG
1 TTTAGGG
* *
22705051 TTTAAGT
1 TTTAGGG
22705058 TTTAGAGG
1 TTTAG-GG
* *
22705066 GTTGGGG
1 TTTAGGG
*
22705073 TTTAAGG
1 TTTAGGG
*
22705080 TTTATGAG
1 TTTA-GGG
*
22705088 TTAAGGG
1 TTTAGGG
*
22705095 TTAAGGG
1 TTTAGGG
* *
22705102 TTAAGTG
1 TTTAGGG
*
22705109 TTAAGGG
1 TTTAGGG
* *
22705116 TTTATGT
1 TTTAGGG
**
22705123 TTTATTG
1 TTTAGGG
*
22705130 TTTAAGG
1 TTTAGGG
22705137 TTTAGGG
1 TTTAGGG
*
22705144 GTTAGGG
1 TTTAGGG
*
22705151 GTTAGGG
1 TTTAGGG
* *
22705158 GTTAGAGA
1 TTTAG-GG
22705166 TTTAGGG
1 TTTAGGG
22705173 TTTAG
1 TTTAG
22705178 ATTAATTAGT
Statistics
Matches: 161, Mismatches: 45, Indels: 14
0.73 0.20 0.06
Matches are distributed among these distances:
6 4 0.02
7 129 0.80
8 28 0.17
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:22705839 original size:14 final size:13
Alignment explanation
Indices: 22705820--22705870 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
22705810 TGACTTTTTT
22705820 ATTTATAAAAACTA
1 ATTTATAAAAA-TA
22705834 ATTTATAAAAAATA
1 ATTTAT-AAAAATA
*
22705848 A-TAATAATAAATA
1 ATTTATAA-AAATA
*
22705861 TTTTATAAAA
1 ATTTATAAAA
22705871 TTATTTAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 2 0.06
13 10 0.32
14 14 0.45
15 5 0.16
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTATAAAAATA
Found at i:22708124 original size:14 final size:14
Alignment explanation
Indices: 22708105--22708133 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22708095 CATGTGAATG
22708105 TATAAATATAAATA
1 TATAAATATAAATA
22708119 TATAAATATAAATA
1 TATAAATATAAATA
22708133 T
1 T
22708134 TTGCATGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TATAAATATAAATA
Found at i:22709905 original size:75 final size:75
Alignment explanation
Indices: 22709815--22709965 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
22709805 TGCTTCCTTG
22709815 TACTCATTCTCATCCTCTTTATATTTTCCAATGCTTTCTTCAAGTAGGATACTAAGAATCTCCTA
1 TACTCATTCTCATCCTCTTTATATTTTCCAATGCTTTCTTCAAGTAGGATACTAAGAATCTCCTA
22709880 TACTATTCTT
66 TACTATTCTT
* * * *
22709890 TACTCATTCTCATCCTCTTTATATTTTCCTATGCTTTCTTCAAGTAGGATGCTAAGAATTTCCTG
1 TACTCATTCTCATCCTCTTTATATTTTCCAATGCTTTCTTCAAGTAGGATACTAAGAATCTCCTA
22709955 TACTATTCTT
66 TACTATTCTT
22709965 T
1 T
22709966 CTGATTGCTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (75 bp):
TACTCATTCTCATCCTCTTTATATTTTCCAATGCTTTCTTCAAGTAGGATACTAAGAATCTCCTA
TACTATTCTT
Found at i:22710370 original size:76 final size:74
Alignment explanation
Indices: 22710274--22710421 Score: 199
Period size: 76 Copynumber: 2.0 Consensus size: 74
22710264 ATAGTGGTAT
*
22710274 TTTTAGAAAAAGTGCCGCTAAAAGCCATGGCCTTTAGCAAAGTTTGCTAAAAA-GCGCCACTAAA
1 TTTTAGAAAAAGTGCCGCTAAAAGCCATGGCCTTTAGCAAAGTTTGCGAAAAAGGCGCCACT-AA
22710338 AGGTCATGGC
65 AGGTCATGGC
* * * * * *
22710348 TTTTACGAAAAATGTGCCGCTAAAGGTCATGGCTTTTAGCGACGTTTGCGAAAAAGGCGCCGCTA
1 TTTTA-GAAAAA-GTGCCGCTAAAAGCCATGGCCTTTAGCAAAGTTTGCGAAAAAGGCGCCACTA
22710413 AAGGTCATG
64 AAGGTCATG
22710422 ATCTTTAGCG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
74 5 0.08
75 6 0.09
76 46 0.72
77 7 0.11
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (74 bp):
TTTTAGAAAAAGTGCCGCTAAAAGCCATGGCCTTTAGCAAAGTTTGCGAAAAAGGCGCCACTAAA
GGTCATGGC
Found at i:22717329 original size:19 final size:19
Alignment explanation
Indices: 22717305--22717347 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
22717295 TAGTTATTTG
22717305 TTTTTTAATTTAATTTAAT
1 TTTTTTAATTTAATTTAAT
** *
22717324 TTTTTTTGTTTTATTTAAT
1 TTTTTTAATTTAATTTAAT
22717343 TTTTT
1 TTTTT
22717348 ACATAATCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTAATTTAATTTAAT
Found at i:22718868 original size:19 final size:18
Alignment explanation
Indices: 22718828--22718867 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22718818 ATTTTGGGAC
*
22718828 TTTTATAAATATTTTGAA
1 TTTTAAAAATATTTTGAA
22718846 TTTTAAAAATAATTTTG-A
1 TTTTAAAAAT-ATTTTGAA
22718864 TTTT
1 TTTT
22718868 TTTTTGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:22724343 original size:26 final size:26
Alignment explanation
Indices: 22724313--22724420 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
22724303 TGAAATTCCC
*
22724313 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
22724339 ATCATGAAACATTTACCTAACCCTTT
1 ATCATGAAACATTTACCTAACCCATT
*
22724365 ATCATGAAACATTTACCTAACTCATT
1 ATCATGAAACATTTACCTAACCCATT
22724391 ATCAT-AGAACATTTACCTAACCCATT
1 ATCATGA-AACATTTACCTAACCCATT
22724417 ATCA
1 ATCA
22724421 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 1 0.01
26 75 0.99
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:22725643 original size:45 final size:45
Alignment explanation
Indices: 22725582--22725672 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
22725572 AAACTATGTG
22725582 ATCTAAACTCAATGAGTTGTGGTCCGAGTTCATGATATATGTGAC
1 ATCTAAACTCAATGAGTTGTGGTCCGAGTTCATGATATATGTGAC
* * * *
22725627 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGAC
1 ATCTAAACTCAATGAGTTGTGGTCCGAGTTCATGATATATGTGAC
22725672 A
1 A
22725673 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (45 bp):
ATCTAAACTCAATGAGTTGTGGTCCGAGTTCATGATATATGTGAC
Found at i:22728767 original size:19 final size:19
Alignment explanation
Indices: 22728739--22728775 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
22728729 TAAATATGAT
22728739 GGTCTTAAATG-GTAATTA
1 GGTCTTAAATGTGTAATTA
22728757 GGTCATTAAATGTGTAATT
1 GGTC-TTAAATGTGTAATT
22728776 GGATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (19 bp):
GGTCTTAAATGTGTAATTA
Found at i:22731443 original size:40 final size:40
Alignment explanation
Indices: 22731364--22731525 Score: 227
Period size: 40 Copynumber: 4.0 Consensus size: 40
22731354 CGGATGATAA
* * * *
22731364 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
22731404 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
22731444 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
22731484 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
22731524 CC
1 CC
22731526 AGCTAAATCC
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 102 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:22731808 original size:22 final size:22
Alignment explanation
Indices: 22731768--22731809 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22731758 GAATGTGCAT
*
22731768 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
22731790 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
22731810 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:22733658 original size:35 final size:35
Alignment explanation
Indices: 22733610--22733677 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
22733600 CGGGCGTATG
*
22733610 TACTAGCCATGTGAGGCACACGGCCTGTTCACATC
1 TACTAGCCATGTGAGGCACACAGCCTGTTCACATC
* *
22733645 TACTAGCCGTGTGAGGGACACAGCCTGTTCACA
1 TACTAGCCATGTGAGGCACACAGCCTGTTCACA
22733678 CTGGCATGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (35 bp):
TACTAGCCATGTGAGGCACACAGCCTGTTCACATC
Found at i:22738080 original size:22 final size:20
Alignment explanation
Indices: 22738033--22738081 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
22738023 ATGAATAAAA
* *
22738033 GAAAAAATATATATAATTTT
1 GAAAATATATATATAATTAT
*
22738053 GTAAATATATATATATATATAT
1 GAAAATATATATATA-AT-TAT
22738075 GAAAATA
1 GAAAATA
22738082 ATTTGATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 13 0.57
21 2 0.09
22 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (20 bp):
GAAAATATATATATAATTAT
Found at i:22738720 original size:20 final size:20
Alignment explanation
Indices: 22738697--22738744 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
22738687 AATAAAAGTT
22738697 ATAAAAATTA-TTAAACTTTA
1 ATAAAAATTATTTAAA-TTTA
*
22738717 ATAAAAA-AATTTAAATTTA
1 ATAAAAATTATTTAAATTTA
*
22738736 CTAAAAATT
1 ATAAAAATT
22738745 TAATAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAAATTATTTAAATTTA
Found at i:22741204 original size:13 final size:14
Alignment explanation
Indices: 22741175--22741207 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
22741165 AATGGGAGAT
22741175 GAAGAAAATAGTGAA
1 GAAG-AAATAGTGAA
22741190 GAAGAAATA-TGAA
1 GAAGAAATAGTGAA
22741203 GAAGA
1 GAAGA
22741208 TAGTGTGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 5 0.28
15 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (14 bp):
GAAGAAATAGTGAA
Found at i:22748496 original size:10 final size:10
Alignment explanation
Indices: 22748481--22748512 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
22748471 TAAATACATT
22748481 TAATTAAAGA
1 TAATTAAAGA
22748491 TAATTAAAGA
1 TAATTAAAGA
22748501 TAATTAAA-A
1 TAATTAAAGA
22748510 TAA
1 TAA
22748513 AATCCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:22748557 original size:15 final size:15
Alignment explanation
Indices: 22748537--22748566 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22748527 ATAATCTTAA
*
22748537 TAATTATCTTAATAT
1 TAATTATCCTAATAT
22748552 TAATTATCCTAATAT
1 TAATTATCCTAATAT
22748567 AAATAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:22749174 original size:1 final size:1
Alignment explanation
Indices: 22749124--22749167 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
22749114 ATATTTTCTC
* * * *
22749124 TTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22749168 ACTTTTTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:22749174 original size:8 final size:8
Alignment explanation
Indices: 22749125--22749167 Score: 79
Period size: 8 Copynumber: 5.5 Consensus size: 8
22749115 TATTTTCTCT
22749125 TTTTTTTC
1 TTTTTTTC
22749133 TTTTTTTC
1 TTTTTTTC
22749141 TTTTTTTC
1 TTTTTTTC
22749149 TTTTTTTC
1 TTTTTTTC
22749157 TTTTTTT-
1 TTTTTTTC
22749164 TTTT
1 TTTT
22749168 ACTTTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 4 0.11
8 31 0.89
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTTTTC
Found at i:22749184 original size:21 final size:21
Alignment explanation
Indices: 22749141--22749189 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
22749131 TCTTTTTTTC
*
22749141 TTTTTTT-CTTTTTTTCTTTT
1 TTTTTTTACTTTTTTTCTTAT
22749161 TTTTTTTACTTTTTATT-TTAT
1 TTTTTTTACTTTTT-TTCTTAT
*
22749182 TTTATTTA
1 TTTTTTTA
22749190 TGTATGTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 16 0.64
22 2 0.08
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTTACTTTTTTTCTTAT
Found at i:22750121 original size:15 final size:14
Alignment explanation
Indices: 22750099--22750136 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
22750089 AATATCTGAA
22750099 AAAAAT-AATAAAAT
1 AAAAATAAAT-AAAT
22750113 AATAAATAAATAAAT
1 AA-AAATAAATAAAT
22750128 AAAAATAAA
1 AAAAATAAA
22750137 AATTGGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 10 0.45
16 3 0.14
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAAATAAAT
Found at i:22753850 original size:10 final size:10
Alignment explanation
Indices: 22753835--22753866 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
22753825 TAAATACATT
22753835 TAATTAAAGA
1 TAATTAAAGA
22753845 TAATTAAAGA
1 TAATTAAAGA
22753855 TAATTAAA-A
1 TAATTAAAGA
22753864 TAA
1 TAA
22753867 AATCCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:22753911 original size:15 final size:15
Alignment explanation
Indices: 22753891--22753920 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22753881 ATAATCCTAA
*
22753891 TAATTATCTTAATAT
1 TAATTATCCTAATAT
22753906 TAATTATCCTAATAT
1 TAATTATCCTAATAT
22753921 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:22755315 original size:21 final size:21
Alignment explanation
Indices: 22755290--22755329 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22755280 CGCAGCAGCC
*
22755290 TGTGTCACGACACACACACCG
1 TGTGTCACAACACACACACCG
22755311 TGTGTCACAACACACACAC
1 TGTGTCACAACACACACAC
22755330 TCTATTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.38, G:0.15, T:0.15
Consensus pattern (21 bp):
TGTGTCACAACACACACACCG
Found at i:22760996 original size:20 final size:20
Alignment explanation
Indices: 22760971--22761010 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22760961 TTGTGAGAGA
22760971 GAACATCCCAACATCCCCTT
1 GAACATCCCAACATCCCCTT
22760991 GAACATCCCAACATCCCCTT
1 GAACATCCCAACATCCCCTT
22761011 TCATCAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.45, G:0.05, T:0.20
Consensus pattern (20 bp):
GAACATCCCAACATCCCCTT
Found at i:22761300 original size:15 final size:15
Alignment explanation
Indices: 22761280--22761317 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
22761270 CAGGTCTAAT
22761280 ACATATTCGGATCAA
1 ACATATTCGGATCAA
22761295 ACATATTCGGATCAA
1 ACATATTCGGATCAA
22761310 ACATATTC
1 ACATATTC
22761318 AGATTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (15 bp):
ACATATTCGGATCAA
Found at i:22765086 original size:177 final size:177
Alignment explanation
Indices: 22764790--22765118 Score: 624
Period size: 177 Copynumber: 1.9 Consensus size: 177
22764780 TAATAATTTT
*
22764790 GGTGAAAATTGATTAGCACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
1 GGTGAAAATTAATTAGCACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
22764855 CACATCTAATGATCAGACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
66 CACATCTAATGATCAGACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
22764920 TTAATACCTTTTCCGTATAAGTATTAAAATTTCTTTAATACTTAATG
131 TTAATACCTTTTCCGTATAAGTATTAAAATTTCTTTAATACTTAATG
*
22764967 GGTGAAAATTAATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
1 GGTGAAAATTAATTAGCACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
22765032 CACATCTAATGATC-GTACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTC
66 CACATCTAATGATCAG-ACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTC
22765096 TTTAATACCTTTTCCGTATAAGT
130 TTTAATACCTTTTCCGTATAAGT
22765119 TGATTAATGA
Statistics
Matches: 149, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
176 1 0.01
177 148 0.99
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (177 bp):
GGTGAAAATTAATTAGCACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
CACATCTAATGATCAGACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
TTAATACCTTTTCCGTATAAGTATTAAAATTTCTTTAATACTTAATG
Found at i:22765482 original size:18 final size:18
Alignment explanation
Indices: 22765459--22765506 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
22765449 CCTGAGAAAC
22765459 TCTATATCCTTCTAGGAT
1 TCTATATCCTTCTAGGAT
*
22765477 TCTATATCCTTCTGGGAT
1 TCTATATCCTTCTAGGAT
*
22765495 TCTAAATCCTTC
1 TCTATATCCTTC
22765507 AGTGATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (18 bp):
TCTATATCCTTCTAGGAT
Found at i:22765513 original size:18 final size:17
Alignment explanation
Indices: 22765459--22765513 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
22765449 CCTGAGAAAC
22765459 TCTATATCCTTCTAGGAT
1 TCTATATCCTTC-AGGAT
*
22765477 TCTATATCCTTCTGGGAT
1 TCTATATCCTTC-AGGAT
*
22765495 TCTAAATCCTTCAGTGAT
1 TCTATATCCTTCAG-GAT
22765513 T
1 T
22765514 TTCATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.44
Consensus pattern (17 bp):
TCTATATCCTTCAGGAT
Found at i:22772355 original size:22 final size:22
Alignment explanation
Indices: 22772328--22772373 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
22772318 CTAATAGAAT
**
22772328 AAAATTATTCAAGTTAAATTAA
1 AAAATTAAACAAGTTAAATTAA
*
22772350 AAAATTAAACATGTTAAATTAA
1 AAAATTAAACAAGTTAAATTAA
22772372 AA
1 AA
22772374 TTTTCTTACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATTAAACAAGTTAAATTAA
Found at i:22772428 original size:16 final size:16
Alignment explanation
Indices: 22772407--22772437 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22772397 TATTATAGAG
22772407 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
22772423 CATATATATTTGAAA
1 CATATAAATTTGAAA
22772438 TATCTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:22777675 original size:25 final size:25
Alignment explanation
Indices: 22777647--22777695 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
22777637 CTGAATTTAG
* *
22777647 AAAACATTGTAGTTAGAACTTTCTA
1 AAAACACTGTAATTAGAACTTTCTA
*
22777672 AAAACACTGTAATTAGTACTTTCT
1 AAAACACTGTAATTAGAACTTTCT
22777696 GAAACTGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (25 bp):
AAAACACTGTAATTAGAACTTTCTA
Found at i:22785338 original size:23 final size:23
Alignment explanation
Indices: 22785253--22785339 Score: 65
Period size: 21 Copynumber: 4.0 Consensus size: 23
22785243 CTTGATCAAT
*
22785253 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
22785275 A-ACGACACACGAGGTGCTTG--
1 ATACGACACACAAAGTGCCTGAA
* * * *
22785295 GTACGACACACGAGGTACCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
22785318 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
22785340 TTGGTAAAGC
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
21 31 0.63
22 1 0.02
23 17 0.35
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:22785641 original size:22 final size:21
Alignment explanation
Indices: 22785613--22785653 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
22785603 AATATCACAA
22785613 TCTCATATATCCATATCAATTT
1 TCTCATATATCCA-ATCAATTT
*
22785635 TCTCATATTTCCAATCAAT
1 TCTCATATATCCAATCAAT
22785654 ATATTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (21 bp):
TCTCATATATCCAATCAATTT
Found at i:22785738 original size:15 final size:14
Alignment explanation
Indices: 22785714--22785753 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
22785704 TATATATTAT
22785714 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
22785728 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
22785743 ATAAATTCAAT
1 AT-AATTCAAT
22785754 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:22786487 original size:3 final size:3
Alignment explanation
Indices: 22786479--22786507 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22786469 TCAATTTATT
22786479 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22786508 GTTTAATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22796670 original size:19 final size:20
Alignment explanation
Indices: 22796646--22796691 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
22796636 ATTAGTGGAG
*
22796646 TTGTTAAGTTTGTTAAA-TT
1 TTGTTAAGATTGTTAAAGTT
22796665 TTGTTAAGATTGTTAAAGTT
1 TTGTTAAGATTGTTAAAGTT
*
22796685 TAGTTAA
1 TTGTTAA
22796692 AAAGGTTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (20 bp):
TTGTTAAGATTGTTAAAGTT
Found at i:22801241 original size:20 final size:20
Alignment explanation
Indices: 22801218--22801257 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22801208 GCTGTTAAGT
*
22801218 TTGTTAA-AGTTTTGTTAAAA
1 TTGTTAAGA-TTTAGTTAAAA
22801238 TTGTTAAGATTTAGTTAAAA
1 TTGTTAAGATTTAGTTAAAA
22801258 CAATTACTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
TTGTTAAGATTTAGTTAAAA
Found at i:22808106 original size:19 final size:20
Alignment explanation
Indices: 22808082--22808130 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
22808072 ATTTAATCAT
22808082 ATTTTTCTAAATAAAAATA-
1 ATTTTTCTAAATAAAAATAC
* *
22808101 ATTTTTAATAAATAAAATTAC
1 ATTTTT-CTAAATAAAAATAC
22808122 A-TTTTCTAA
1 ATTTTTCTAA
22808131 CTTTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 9 0.36
20 15 0.60
21 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTTTCTAAATAAAAATAC
Found at i:22816782 original size:5 final size:5
Alignment explanation
Indices: 22816772--22816812 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
22816762 ATTATCATTT
22816772 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
22816813 CCTTAATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:22824757 original size:19 final size:19
Alignment explanation
Indices: 22824733--22824770 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22824723 AAATGTATGT
*
22824733 GGTCAAGCTACTATGTTGC
1 GGTCAAGCCACTATGTTGC
22824752 GGTCAAGCCACTATGTTGC
1 GGTCAAGCCACTATGTTGC
22824771 AGCTAAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (19 bp):
GGTCAAGCCACTATGTTGC
Found at i:22826732 original size:26 final size:26
Alignment explanation
Indices: 22826701--22826754 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
22826691 TGCCTCAACT
*
22826701 TATTCAAAACAACTTGCATTCAATTC
1 TATTCAAAACAACTTGCATTAAATTC
22826727 TATTCAAAACAACTTGCATTAAATTC
1 TATTCAAAACAACTTGCATTAAATTC
22826753 TA
1 TA
22826755 ACATACCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (26 bp):
TATTCAAAACAACTTGCATTAAATTC
Found at i:22829072 original size:56 final size:56
Alignment explanation
Indices: 22828975--22829083 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 56
22828965 ACCATTGCAT
* * *
22828975 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
*
22829031 CGATATATGTGTGCGAGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGA
1 CGATATATGTGTGCGAGTAAGACCAC-GTCTGAGAC-GTTGGCATCGATATGTGA
22829084 TTACATGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 1 0.02
56 45 0.96
57 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
Found at i:22838397 original size:18 final size:19
Alignment explanation
Indices: 22838374--22838415 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
22838364 TACATTTTGG
*
22838374 AAAAACCT-TTATTTGCAT
1 AAAAACCTATTATTTGCAA
*
22838392 AAAAA-CTATTATTTTCAA
1 AAAAACCTATTATTTGCAA
22838410 AAAAAC
1 AAAAAC
22838416 TGTTTTGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAACCTATTATTTGCAA
Found at i:22843314 original size:21 final size:21
Alignment explanation
Indices: 22843290--22843329 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
22843280 GCTCTTTCAA
22843290 CCTTATCATCAACTTTAGCAG
1 CCTTATCATCAACTTTAGCAG
22843311 CCTTATCATCAACTTTAGC
1 CCTTATCATCAACTTTAGC
22843330 TCTGAATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (21 bp):
CCTTATCATCAACTTTAGCAG
Found at i:22856841 original size:50 final size:48
Alignment explanation
Indices: 22856730--22856912 Score: 158
Period size: 48 Copynumber: 3.8 Consensus size: 48
22856720 TCTATCAAGT
* * * *
22856730 CGATACCATGTACC-AGACATGGTCTTACACTGACTATCGA-AAT-CGAGGC
1 CGATGCCATGT-CCTAGACATGGTCTTACACTGAC-A-CCACTATACG-TGC
* * * * *
22856779 CGACGCCATGTCCTAAACATGGCCTTACACT-AGCTCTCACATATCCGTGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGA-CAC-CAC-TATACGTGC
* * *
22856829 CGATGCCATGTCCTAGAGATGGTCTTACACTGACACCTCTATACGTGT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACACCACTATACGTGC
*
22856877 CGATGCCATGTCCCAGACATGGTCTTACACTGACAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACAC
22856913 ATCTCATACC
Statistics
Matches: 109, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
47 1 0.01
48 45 0.41
49 27 0.25
50 33 0.30
51 3 0.03
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGACACCACTATACGTGC
Found at i:22856899 original size:48 final size:48
Alignment explanation
Indices: 22856686--22857089 Score: 191
Period size: 46 Copynumber: 8.5 Consensus size: 48
22856676 ATAATACCAG
* * * ** *
22856686 TGCCATGTCCCAGATATGGTCTTACGCTGGCTTATCTATCAAGT--CGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-ACGTGCCGA
* * * * * *
22856733 TACCATGTACCAGACATGGTCTTACACTGAC-TATCGAAATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACATCTATA-CG-TGCCGA
* * * * * * *
22856782 CGCCATGTCCTAAACATGGCCTTACACTAGCTCTCA-CATATCCGTGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TATACGTGCCGA
* * * *
22856832 TGCCATGTCCTAGAGATGGTCTTACACTGACACCTCTATACGTGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACGTGCCGA
22856880 TGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAC---CCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACATCT-ATACGTGCCGA
* * * **
22856926 TG-CATGTCACAGACAT-GTCTTGCACTGGCTTACATCTCGA-G-GCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTATACGTGCCGA
* * * * * *
22856972 TG-CATATCCGAAACA-CGTCTTACACTAGCTCTCATCTCA-A--TGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCT-ATACGTGCCGA
* * * *
22857018 TGCCATGTCCCAAACATGGTCTTACACTGGCTC-TC-ATAATGTGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-ACGT-GCCGA
*
22857066 TG-CATGTCCCATACAT-GTCTTACA
1 TGCCATGTCCCAGACATGGTCTTACA
22857090 TTAGCGCACA
Statistics
Matches: 279, Mismatches: 52, Indels: 53
0.73 0.14 0.14
Matches are distributed among these distances:
43 1 0.00
44 11 0.04
45 18 0.06
46 65 0.23
47 53 0.19
48 64 0.23
49 31 0.11
50 30 0.11
51 4 0.01
52 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACGTGCCGA
Found at i:22864442 original size:46 final size:46
Alignment explanation
Indices: 22864379--22864558 Score: 159
Period size: 46 Copynumber: 3.9 Consensus size: 46
22864369 TACATTGACA
* *
22864379 CATCTCGTA-GCCTATGCATGTCCTAGACATGTCTTACACTGGCT-T
1 CATCTCG-AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* *
22864424 ACATCTCGAGGCCGATGCATGTCCCAGACATGTTTTACACTAGCTCT
1 -CATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* * * *** *
22864471 CGTCTCAATGTTAATGCCATGTCCGAGACATGGTCTTACACTGGCTCT
1 CATCTCGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
* * * *
22864519 CATAAT-GTGGCCGATACATGTCCCAGACATGTCTTGCACT
1 CAT-CTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
22864559 AGCGCACAAA
Statistics
Matches: 105, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 57 0.54
47 27 0.26
48 19 0.18
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:22872692 original size:21 final size:20
Alignment explanation
Indices: 22872639--22872695 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
22872629 GTTAAAATGA
*
22872639 TTTTAATCAAGTACAAATT-T
1 TTTTAAACAAGT-CAAATTGT
* *
22872659 TTTTCAACTAGTCAAATTGT
1 TTTTAAACAAGTCAAATTGT
22872679 TTTTAAAACAAGTCAAA
1 TTTT-AAACAAGTCAAA
22872696 ATAGCTCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 6 0.20
20 14 0.47
21 10 0.33
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTAAACAAGTCAAATTGT
Found at i:22874844 original size:46 final size:47
Alignment explanation
Indices: 22874761--22874851 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 47
22874751 CTAAATAAAG
* *
22874761 TAAATGCTGCAAATTATGAGGTTTGAAAGTCGGAAATTT-AGGTAAT
1 TAAATGCTGCAAATTATCAGGTTTGAAAGTCGAAAATTTGAGGTAAT
* * *
22874807 TAAATGCTGCAATTTATCATGTTTTGAAAG-CTAAAATTTGAGGTA
1 TAAATGCTGCAAATTATCA-GGTTTGAAAGTCGAAAATTTGAGGTA
22874852 CTAATGTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
46 24 0.63
47 14 0.37
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (47 bp):
TAAATGCTGCAAATTATCAGGTTTGAAAGTCGAAAATTTGAGGTAAT
Found at i:22883993 original size:25 final size:23
Alignment explanation
Indices: 22883943--22883994 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
22883933 GTCCGGGCTA
* *
22883943 CATAACGGGAAGCTCATAAGAGC
1 CATAACGGGAAGCTCAAAAGAAC
*
22883966 CATAATCGGGAAGTTCACAAAGAAC
1 CATAA-CGGGAAGCTCA-AAAGAAC
22883991 CATA
1 CATA
22883995 TTAGGAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 10 0.42
25 9 0.38
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.15
Consensus pattern (23 bp):
CATAACGGGAAGCTCAAAAGAAC
Found at i:22884001 original size:24 final size:24
Alignment explanation
Indices: 22883950--22884040 Score: 98
Period size: 24 Copynumber: 3.8 Consensus size: 24
22883940 CTACATAACG
* **
22883950 GGAAGCTCA-TAAGAGCCATAATCG
1 GGAAGCTCACAAAGAGCCAT-ATTA
* *
22883974 GGAAGTTCACAAAGAACCATATTA
1 GGAAGCTCACAAAGAGCCATATTA
22883998 GGAAGCTCACGAAA-AGCC-TATTA
1 GGAAGCTCAC-AAAGAGCCATATTA
22884021 GGAAGCTCACAAAGAGCCAT
1 GGAAGCTCACAAAGAGCCAT
22884041 GTAAGTAGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
22 3 0.05
23 19 0.34
24 23 0.41
25 11 0.20
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (24 bp):
GGAAGCTCACAAAGAGCCATATTA
Found at i:22884023 original size:23 final size:23
Alignment explanation
Indices: 22883974--22884038 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
22883964 GCCATAATCG
* *
22883974 GGAAGTTCACAAAGAACCATATTA
1 GGAAGCTCACAAAGAGCC-TATTA
22883998 GGAAGCTCACGAAA-AGCCTATTA
1 GGAAGCTCAC-AAAGAGCCTATTA
22884021 GGAAGCTCACAAAGAGCC
1 GGAAGCTCACAAAGAGCC
22884039 ATGTAAGTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.08
23 19 0.51
24 12 0.32
25 3 0.08
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.15
Consensus pattern (23 bp):
GGAAGCTCACAAAGAGCCTATTA
Found at i:22887121 original size:11 final size:11
Alignment explanation
Indices: 22887087--22887124 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
22887077 TAATATCTTC
22887087 AAAAATAAATA
1 AAAAATAAATA
22887098 AAAGACA-AAATA
1 AAA-A-ATAAATA
22887110 AAAAATAAATA
1 AAAAATAAATA
22887121 AAAA
1 AAAA
22887125 TAATAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 13 0.54
12 9 0.38
13 1 0.04
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:22889010 original size:5 final size:5
Alignment explanation
Indices: 22889002--22889030 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
22888992 GGGGGAAGGG
22889002 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA
22889031 GAAGGGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:22896508 original size:23 final size:23
Alignment explanation
Indices: 22896458--22896522 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
22896448 GCCATAATTG
* * * *
22896458 GGAAGTTCACATAGAACCATATCG
1 GGAAGCTCACAAAGAGCC-TATCA
22896482 GGAAGCTCACGAAA-AGCCTATCA
1 GGAAGCTCAC-AAAGAGCCTATCA
22896505 GGAAGCTCACAAAGAGCC
1 GGAAGCTCACAAAGAGCC
22896523 ATGTAACGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.09
23 18 0.51
24 12 0.34
25 2 0.06
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (23 bp):
GGAAGCTCACAAAGAGCCTATCA
Found at i:22896553 original size:73 final size:73
Alignment explanation
Indices: 22896476--22896669 Score: 212
Period size: 73 Copynumber: 2.7 Consensus size: 73
22896466 ACATAGAACC
* * * *
22896476 ATATCGGGAAGCTCACGAAAAGC-CTATCAGGAAGCTCACAAAGAGCCATGTAACGGGAAGCTTC
1 ATATCAGGAAGCTCAAG-AAAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCC
22896540 GGATAGCCA
65 GGATAGCCA
** * **
22896549 ATATCAGGTTGTTCAAGCGAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCCG
1 ATATCAGGAAGCTCAAGAAAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCCG
22896614 GATAGCCA
66 GATAGCCA
* * * ** * *
22896622 ATATCAGGTTA-TTTAAGTGAGCATTATCAGGAAGCTCCCAAAGAGCCA
1 ATATCAGG-AAGCTCAAGAAAGCACTATCAGGAAGCTCACAAAGAGCCA
22896670 ATTTAATGGG
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
72 3 0.03
73 101 0.96
74 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (73 bp):
ATATCAGGAAGCTCAAGAAAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCCG
GATAGCCA
Found at i:22897720 original size:13 final size:13
Alignment explanation
Indices: 22897702--22897726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22897692 TTTACTTTAT
22897702 TATTTATCATCTG
1 TATTTATCATCTG
22897715 TATTTATCATCT
1 TATTTATCATCT
22897727 TTCCAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (13 bp):
TATTTATCATCTG
Found at i:22898345 original size:13 final size:13
Alignment explanation
Indices: 22898306--22898390 Score: 55
Period size: 13 Copynumber: 6.5 Consensus size: 13
22898296 ATTATGTGCT
*
22898306 AAATGTGTAAATG
1 AAATGTTTAAATG
* *
22898319 AAATGATAAAATG
1 AAATGTTTAAATG
*
22898332 AAATGTTTAGATG
1 AAATGTTTAAATG
* * **
22898345 AAATGGTTATACA
1 AAATGTTTAAATG
*
22898358 AAATAGTTT-TATG
1 AAAT-GTTTAAATG
* *
22898371 AAATGATTACATG
1 AAATGTTTAAATG
22898384 AAATGTT
1 AAATGTT
22898391 ATATGAATTG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
12 3 0.06
13 48 0.89
14 3 0.06
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.34
Consensus pattern (13 bp):
AAATGTTTAAATG
Found at i:22898387 original size:26 final size:25
Alignment explanation
Indices: 22898316--22898413 Score: 79
Period size: 26 Copynumber: 3.8 Consensus size: 25
22898306 AAATGTGTAA
* *
22898316 ATGAAATGATAAAATGAAATGTTTAG
1 ATGAAATGATTAAATGAAATGTTT-T
* * **
22898342 ATGAAATGGTTATACAAAATAGTTTT
1 ATGAAATGATTAAATGAAAT-GTTTT
* *
22898368 ATGAAATGATTACATGAAATGTTAT
1 ATGAAATGATTAAATGAAATGTTTT
* *
22898393 ATGAATTGATTATAAGGAAAT
1 ATGAAATGATTA-AATGAAAT
22898414 AGATGTATGA
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
25 15 0.27
26 37 0.66
27 4 0.07
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.35
Consensus pattern (25 bp):
ATGAAATGATTAAATGAAATGTTTT
Found at i:22898405 original size:13 final size:13
Alignment explanation
Indices: 22898316--22898406 Score: 69
Period size: 13 Copynumber: 7.1 Consensus size: 13
22898306 AAATGTGTAA
* *
22898316 ATGAAATGATAAA
1 ATGAAATGATTAT
* *
22898329 ATGAAATGTTTAG
1 ATGAAATGATTAT
*
22898342 ATGAAATGGTTAT
1 ATGAAATGATTAT
** *
22898355 ACAAAAT-AGTTTT
1 ATGAAATGA-TTAT
*
22898368 ATGAAATGATTAC
1 ATGAAATGATTAT
22898381 ATGAAATG-TTAT
1 ATGAAATGATTAT
*
22898393 ATGAATTGATTAT
1 ATGAAATGATTAT
22898406 A
1 A
22898407 AGGAAATAGA
Statistics
Matches: 60, Mismatches: 15, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
12 10 0.17
13 49 0.82
14 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.36
Consensus pattern (13 bp):
ATGAAATGATTAT
Found at i:22898414 original size:52 final size:52
Alignment explanation
Indices: 22898316--22898424 Score: 123
Period size: 52 Copynumber: 2.1 Consensus size: 52
22898306 AAATGTGTAA
* * *
22898316 ATGAAATGATAAAATGAAATGTTTAGATGAAATGGTTATACAAAATAGTTTT
1 ATGAAATGATAAAATGAAATGTTTAGATGAAATGATTATACAAAATAGATGT
* * * *
22898368 ATGAAATGATTACATGAAATG-TTATATGAATTGATTATA-AGGAAATAGATGT
1 ATGAAATGATAAAATGAAATGTTTAGATGAAATGATTATACA--AAATAGATGT
22898420 ATGAA
1 ATGAA
22898425 TTGAGACATT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
50 1 0.02
51 15 0.31
52 32 0.67
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.34
Consensus pattern (52 bp):
ATGAAATGATAAAATGAAATGTTTAGATGAAATGATTATACAAAATAGATGT
Found at i:22904392 original size:3 final size:3
Alignment explanation
Indices: 22904384--22904410 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22904374 GAGTGAATCA
22904384 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
22904411 TTTATTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:22911306 original size:108 final size:109
Alignment explanation
Indices: 22911114--22911328 Score: 292
Period size: 108 Copynumber: 2.0 Consensus size: 109
22911104 GTGGCCAGGC
* *
22911114 TGTGTGGCATCAGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCTAGGGGACAC
1 TGTGTGGCATCAGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCCAGAGGACAC
* * *
22911179 GGCTGTGTATAAATCG-AAAAAATTCCCAAATC-AGCCACACGGT
66 GACCGTGTATAAATCGAAAAAAATCCCCAAATCGA-CCACACGGT
** *
22911222 TGTGTGGCA-CTAGATCACTAAATTTCTAATTCCCAAATACACACGCCCGTGTACCCAGAGGACA
1 TGTGTGGCATC-AGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCCAGAGGACA
* * *
22911286 TGACCGTGTGTAAATTGAAAAAAATCCCCAAATCGACCACACG
65 CGACCGTGTATAAATCGAAAAAAATCCCCAAATCGACCACACG
22911329 ACCGTGTGGC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
107 1 0.01
108 69 0.74
109 22 0.24
110 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.21
Consensus pattern (109 bp):
TGTGTGGCATCAGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCCAGAGGACAC
GACCGTGTATAAATCGAAAAAAATCCCCAAATCGACCACACGGT
Found at i:22924341 original size:18 final size:19
Alignment explanation
Indices: 22924313--22924359 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
22924303 ATTATAAAAA
*
22924313 AAATTTAATAAAAAATAAT
1 AAATATAATAAAAAATAAT
*
22924332 AAA-ATAATAAAAGATAAT
1 AAATATAATAAAAAATAAT
22924350 AAATATAATA
1 AAATATAATA
22924360 TTGGGCTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATATAATAAAAAATAAT
Found at i:22926676 original size:12 final size:12
Alignment explanation
Indices: 22926656--22926689 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22926646 CGAAGCCACA
* *
22926656 AGGCTGTGTGGT
1 AGGCCGTGTAGT
22926668 AGGCCGTGTAGT
1 AGGCCGTGTAGT
22926680 AGGCCGTGTA
1 AGGCCGTGTA
22926690 CTATAACACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.44, T:0.26
Consensus pattern (12 bp):
AGGCCGTGTAGT
Found at i:22928384 original size:21 final size:21
Alignment explanation
Indices: 22928358--22928399 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22928348 CTATTTAGCC
*
22928358 ACAAAAATTAGGGGAAAATGT
1 ACAAAAATTAAGGGAAAATGT
22928379 ACAAAAATTAAGGGAAAATGT
1 ACAAAAATTAAGGGAAAATGT
22928400 TTTATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.21, T:0.19
Consensus pattern (21 bp):
ACAAAAATTAAGGGAAAATGT
Found at i:22929171 original size:14 final size:15
Alignment explanation
Indices: 22929154--22929185 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
22929144 AAAATATGTG
22929154 AATGAAATA-ATAGA
1 AATGAAATACATAGA
22929168 AATGAAATACATAGA
1 AATGAAATACATAGA
22929183 AAT
1 AAT
22929186 TTGATATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.22
Consensus pattern (15 bp):
AATGAAATACATAGA
Found at i:22931645 original size:50 final size:50
Alignment explanation
Indices: 22931570--22931672 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
22931560 ATGGCTAGAA
*
22931570 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATGTTAAATTTTT
1 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
22931620 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
1 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
22931670 GTG
1 GTG
22931673 GATATTGAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.51
Consensus pattern (50 bp):
GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
Found at i:22939325 original size:14 final size:14
Alignment explanation
Indices: 22939304--22939344 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
22939294 CTTACCTAAT
22939304 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* *
22939318 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTGA
22939332 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
22939345 CAAGTTGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:22943901 original size:14 final size:14
Alignment explanation
Indices: 22943880--22943920 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
22943870 CTTACCTAAT
22943880 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* *
22943894 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTGA
22943908 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
22943921 CAAGTTGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:22946157 original size:3 final size:3
Alignment explanation
Indices: 22946149--22946175 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22946139 ATCTAGTTTT
22946149 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
22946176 ATTTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22948404 original size:13 final size:13
Alignment explanation
Indices: 22948386--22948411 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22948376 ATTATTTGGT
22948386 TATAAGTTGTTCA
1 TATAAGTTGTTCA
22948399 TATAAGTTGTTCA
1 TATAAGTTGTTCA
22948412 AATAGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TATAAGTTGTTCA
Found at i:22950757 original size:28 final size:28
Alignment explanation
Indices: 22950725--22950778 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
22950715 CCACATGGTA
*
22950725 GATGAATGGGCCCATATTCGTTTCAGGG
1 GATGAATGGACCCATATTCGTTTCAGGG
22950753 GATGAATGGACCCATATTCGTTTCAG
1 GATGAATGGACCCATATTCGTTTCAG
22950779 AAATGCAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (28 bp):
GATGAATGGACCCATATTCGTTTCAGGG
Found at i:22954628 original size:49 final size:48
Alignment explanation
Indices: 22954571--22955031 Score: 714
Period size: 49 Copynumber: 9.6 Consensus size: 48
22954561 TTAAACCCAT
22954571 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
22954620 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
22954669 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
**
22954718 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATTCCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
22954767 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
22954816 ATGTGAAAGTGTATAT-ATGTGATAAGGCCTAATGGCCAATGTGAGGA
1 ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
22954863 ATGTGAAAGTGTATACATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
22954912 ATGTGAAAGTGTATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
22954959 ATGTGAAAGTGTATAT-ATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
22955006 ATGTGAAAGTGTATA-AATGTGATAAG
1 ATGTGAAAGTGTATATAATGTGATAAG
22955032 TCCCGAAGGG
Statistics
Matches: 385, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 137 0.36
49 248 0.64
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (48 bp):
ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:22955206 original size:37 final size:37
Alignment explanation
Indices: 22955150--22955228 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22955140 CCGAGCTCTA
* * *
22955150 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22955187 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22955224 AAGAC
1 AAGAC
22955229 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22956552 original size:24 final size:24
Alignment explanation
Indices: 22956525--22956570 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
22956515 GAATTTAACA
22956525 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
22956549 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
22956571 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:22958983 original size:40 final size:40
Alignment explanation
Indices: 22958934--22959058 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
22958924 CATTTGGATA
*
22958934 AAAACGCCGCTATAGATTGAGCATTAGCGACGCTTTCAAAC
1 AAAA-GCCGCTATAGATTGAGAATTAGCGACGCTTTCAAAC
* * * * *
22958975 AAAAGCCGCTATAGAACT-AGTATTAGCGGCGCAAATT-GAA-
1 AAAAGCCGCTATAG-ATTGAGAATTAGCGACGC--TTTCAAAC
* *
22959015 AAATGCCGCTATAGATCGAGAATTAGCGACGCTTTCCAAAC
1 AAAAGCCGCTATAGATTGAGAATTAGCGACGCTTT-CAAAC
22959056 AAA
1 AAA
22959059 CATCGTTATA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
38 2 0.03
39 1 0.02
40 49 0.75
41 11 0.17
42 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (40 bp):
AAAAGCCGCTATAGATTGAGAATTAGCGACGCTTTCAAAC
Found at i:22961022 original size:40 final size:40
Alignment explanation
Indices: 22960957--22961034 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
22960947 TGCGGTACCT
* * *
22960957 TATGGTGTGTAGGGTTGGATAGGTCGATTATATCCCCATA
1 TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCATA
* * *
22960997 TATGGTGTGCAGGGATGGGTGGGTCGATTTTACCCCCA
1 TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCA
22961035 CATAGTGTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.32
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCATA
Found at i:22969112 original size:14 final size:15
Alignment explanation
Indices: 22969093--22969275 Score: 82
Period size: 14 Copynumber: 12.6 Consensus size: 15
22969083 TCCTAAAGCT
22969093 CTAAA-CCTTAAACC
1 CTAAATCCTTAAACC
* *
22969107 CTAAA--CTTGAATCA
1 CTAAATCCTT-AAACC
* *
22969121 GTAAATCCTTAAGCC
1 CTAAATCCTTAAACC
* * *
22969136 CTTAAATAC-AAAATC
1 C-TAAATCCTTAAACC
* *
22969151 CTAAATCCTAAAACT
1 CTAAATCCTTAAACC
22969166 CTAAA-CCTTAAACC
1 CTAAATCCTTAAACC
* *
22969180 CTAAA-CC-AAAATCA
1 CTAAATCCTTAAA-CC
* *
22969194 CTAAACCCTTAAGCC
1 CTAAATCCTTAAACC
* * *
22969209 CTTAAATAC-AAAATC
1 C-TAAATCCTTAAACC
* *
22969224 CTAAATCCTAAAACT
1 CTAAATCCTTAAACC
22969239 CTAAA-CCTTAAACC
1 CTAAATCCTTAAACC
22969253 CTAAA-CAC-TAAACC
1 CTAAATC-CTTAAACC
22969267 CTAAATCCT
1 CTAAATCCT
22969276 ATACCATAAA
Statistics
Matches: 126, Mismatches: 30, Indels: 25
0.70 0.17 0.14
Matches are distributed among these distances:
13 6 0.05
14 69 0.55
15 35 0.28
16 16 0.13
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (15 bp):
CTAAATCCTTAAACC
Found at i:22969145 original size:73 final size:73
Alignment explanation
Indices: 22969053--22969258 Score: 331
Period size: 73 Copynumber: 2.8 Consensus size: 73
22969043 TATAAACACT
* * * * ***
22969053 CCCTTAAACCCTTAAATACAAATTCCTATATCCTAAAGCTCTAAACCTTAAACCCTAAACTTGAA
1 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
*
22969118 TCAGTAAA
66 TCACTAAA
*
22969126 TCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
1 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
22969191 TCACTAAA
66 TCACTAAA
22969199 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAAC
1 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAAC
22969259 ACTAAACCCT
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 123 1.00
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.25
Consensus pattern (73 bp):
CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
TCACTAAA
Found at i:22969156 original size:7 final size:7
Alignment explanation
Indices: 22969146--22969276 Score: 63
Period size: 7 Copynumber: 18.1 Consensus size: 7
22969136 CTTAAATACA
22969146 AAATCCT
1 AAATCCT
22969153 AAATCCT
1 AAATCCT
*
22969160 AAAACTCT
1 AAATC-CT
22969168 AAA-CCTT
1 AAATCC-T
*
22969175 AAACCCT
1 AAATCCT
*
22969182 AAA-CCA
1 AAATCCT
22969188 AAATCACT
1 AAATC-CT
*
22969196 AAACCCTT
1 AAATCC-T
**
22969204 AAGCCCTT
1 AAATCC-T
* *
22969212 AAATACA
1 AAATCCT
22969219 AAATCCT
1 AAATCCT
22969226 AAATCCT
1 AAATCCT
*
22969233 AAAACTCT
1 AAATC-CT
22969241 AAA-CCTT
1 AAATCC-T
*
22969248 AAACCCT
1 AAATCCT
22969255 AAA-CACT
1 AAATC-CT
*
22969262 AAACCCT
1 AAATCCT
22969269 AAATCCT
1 AAATCCT
22969276 A
1 A
22969277 TACCATAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
6 8 0.08
7 61 0.61
8 31 0.31
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.22
Consensus pattern (7 bp):
AAATCCT
Found at i:22969198 original size:21 final size:22
Alignment explanation
Indices: 22969174--22969354 Score: 86
Period size: 22 Copynumber: 8.3 Consensus size: 22
22969164 CTCTAAACCT
22969174 TAAACCCTAAA-CC-AAAATCAC
1 TAAACCCTAAACCCTAAAA-CAC
* * *
22969195 TAAACCCTTAAGCCCTTAAATAC
1 TAAACCC-TAAACCCTAAAACAC
* * * *
22969218 AAAATCCTAAATCCTAAAACTC
1 TAAACCCTAAACCCTAAAACAC
*
22969240 TAAACCTTAAACCCT-AAACAC
1 TAAACCCTAAACCCTAAAACAC
* * *
22969261 TAAACCCTAAATCCTATACCA-
1 TAAACCCTAAACCCTAAAACAC
* *
22969282 TAAAACCATAAA--CTATAGACAC
1 T-AAACCCTAAACCCTA-AAACAC
* * *
22969304 TAAACCCTTAAGCCCTTAAATAC
1 TAAACCC-TAAACCCTAAAACAC
* * ** *
22969327 AAAATCCTAAATGCTAAAACTC
1 TAAACCCTAAACCCTAAAACAC
22969349 TAAACC
1 TAAACC
22969355 AAATCATTAA
Statistics
Matches: 112, Mismatches: 38, Indels: 19
0.66 0.22 0.11
Matches are distributed among these distances:
20 3 0.03
21 33 0.29
22 53 0.47
23 18 0.16
24 5 0.04
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (22 bp):
TAAACCCTAAACCCTAAAACAC
Found at i:22969264 original size:109 final size:109
Alignment explanation
Indices: 22969151--22969570 Score: 309
Period size: 109 Copynumber: 3.9 Consensus size: 109
22969141 ATACAAAATC
* * *
22969151 CTAAATCCTAAAACTCTAAACC-TTAAACCCTAAACCA-AAATCACTAAACCCTTAAGCCCTTAA
1 CTAAACCCTAAAAC-CTAAACCATAAAACCATAAACCATAAA-CACTAAACCCTTAAGCCCTTAA
22969214 ATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACA
64 ATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACA
* * * *
22969260 CTAAACCCTAAATCCTATACCATAAAACCATAAACTATAGACACTAAACCCTTAAGCCCTTAAAT
1 CTAAACCCTAAAACCTAAACCATAAAACCATAAACCATAAACACTAAACCCTTAAGCCCTTAAAT
* ** *
22969325 ACAAAATCCTAAATGCTAAAACTCTAAACC--AAATCATTAAACC
66 ACAAAATCCTAAATCCTAAAACTCTAAACCTTAAA-CCCTAAACA
* * * * * *
22969368 CTTAAGCCCTTAAATA-CGAAATCCA-AAATCCA-AAATCC-TAAATC-CTAAAACCATAA-ACC
1 C-TAAACCC-TAAA-ACCTAAA-CCATAAAACCATAAA-CCATAAA-CACTAAACCCTTAAGCCC
** * * * * * * *
22969427 TTAAACCCTAAATCCTAACA-CATAAAACCCAAAATC-AAAACCC---ATA
60 TTAAATACAAAATCCTAA-ATCCTAAAACTCTAAACCTTAAACCCTAAACA
* * * * * *
22969473 --AAACCC-AAAATCATAACCCATAAAACCCTAAACTATAGACACTAAACCCTTAAACCCTTAAA
1 CTAAACCCTAAAA-CCTAAACCATAAAACCATAAACCATAAACACTAAACCCTTAAGCCCTTAAA
* *
22969535 TACAAAATCCTAAATCCTAAAACTATAAACCGTAAA
65 TACAAAATCCTAAATCCTAAAACTCTAAACCTTAAA
22969571 AATAAATTTC
Statistics
Matches: 238, Mismatches: 53, Indels: 45
0.71 0.16 0.13
Matches are distributed among these distances:
99 1 0.00
100 6 0.03
101 9 0.04
102 22 0.09
103 28 0.12
104 3 0.01
105 1 0.00
107 3 0.01
108 42 0.18
109 103 0.43
110 17 0.07
111 3 0.01
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.21
Consensus pattern (109 bp):
CTAAACCCTAAAACCTAAACCATAAAACCATAAACCATAAACACTAAACCCTTAAGCCCTTAAAT
ACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACA
Found at i:22969271 original size:73 final size:72
Alignment explanation
Indices: 22969022--22969271 Score: 326
Period size: 73 Copynumber: 3.4 Consensus size: 72
22969012 TTAAATTTCC
** * * *
22969022 CTAAACCCGAAACCCTAAACCTATAAACACT---CCCTTAAACCCTTAAATACAAATTCCTATAT
1 CTAAACCTTAAACCCTAAACC--TAAACACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAAT
*
22969084 CCTAAAGCT
64 CCTAAAACT
* * * *
22969093 CTAAACCTTAAACCCTAAACTTGAATCAGTAAATCCTTAAGCCCTTAAATACAAAATCCTAAATC
1 CTAAACCTTAAACCCTAAACCT-AAACACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATC
22969158 CTAAAACT
65 CTAAAACT
*
22969166 CTAAACCTTAAACCCTAAACCAAAATCACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATC
1 CTAAACCTTAAACCCTAAACCTAAA-CACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATC
22969231 CTAAAACT
65 CTAAAACT
*
22969239 CTAAACCTTAAACCCTAAACACTAAACCCTAAA
1 CTAAACCTTAAACCCTAAAC-CTAAACACTAAA
22969272 TCCTATACCA
Statistics
Matches: 156, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
69 1 0.01
70 5 0.03
71 18 0.12
72 2 0.01
73 126 0.81
74 4 0.03
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.23
Consensus pattern (72 bp):
CTAAACCTTAAACCCTAAACCTAAACACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATCC
TAAAACT
Found at i:22969429 original size:58 final size:58
Alignment explanation
Indices: 22969304--22969439 Score: 156
Period size: 58 Copynumber: 2.4 Consensus size: 58
22969294 CTATAGACAC
* * *
22969304 TAAACCCTTAAGCCCTTAAATACAAAATCCTAAATGCTAAAACTCTAAACCAAATCAT
1 TAAACCCTTAAGCCCTTAAATACAAAATCCAAAATGCCAAAACTCTAAACCAAACCAT
*
22969362 TAAACCCTTAAGCCCTTAAATACGAAATCCAAAAT-CCAAAA-TCCTAAATCCTAAAACCA-
1 TAAACCCTTAAGCCCTTAAATACAAAATCCAAAATGCCAAAACT-CTAAA-CC--AAACCAT
*
22969421 TAAA-CCTTAAACCC-TAAAT
1 TAAACCCTTAAGCCCTTAAAT
22969440 CCTAACACAT
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
56 1 0.01
57 15 0.22
58 44 0.64
59 4 0.06
60 5 0.07
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (58 bp):
TAAACCCTTAAGCCCTTAAATACAAAATCCAAAATGCCAAAACTCTAAACCAAACCAT
Found at i:22969443 original size:7 final size:7
Alignment explanation
Indices: 22969386--22969444 Score: 57
Period size: 7 Copynumber: 8.3 Consensus size: 7
22969376 CTTAAATACG
*
22969386 AAATCCA
1 AAATCCT
*
22969393 AAATCCA
1 AAATCCT
22969400 AAATCCT
1 AAATCCT
22969407 AAATCCT
1 AAATCCT
*
22969414 AAAACCAT
1 AAATCC-T
22969422 AAA-CCTT
1 AAATCC-T
*
22969429 AAACCCT
1 AAATCCT
22969436 AAATCCT
1 AAATCCT
22969443 AA
1 AA
22969445 CACATAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (7 bp):
AAATCCT
Found at i:22969454 original size:22 final size:22
Alignment explanation
Indices: 22969429--22969500 Score: 108
Period size: 22 Copynumber: 3.3 Consensus size: 22
22969419 CATAAACCTT
* * *
22969429 AAACCCTAAATCCTAACACATA
1 AAACCCAAAATCATAACCCATA
*
22969451 AAACCCAAAATCAAAACCCATA
1 AAACCCAAAATCATAACCCATA
22969473 AAACCCAAAATCATAACCCATA
1 AAACCCAAAATCATAACCCATA
22969495 AAACCC
1 AAACCC
22969501 TAAACTATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.12
Consensus pattern (22 bp):
AAACCCAAAATCATAACCCATA
Found at i:22969873 original size:3 final size:3
Alignment explanation
Indices: 22969865--22969902 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22969855 CATTTTAGTA
22969865 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22969903 AGAGAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22970140 original size:116 final size:114
Alignment explanation
Indices: 22970012--22970367 Score: 396
Period size: 115 Copynumber: 3.1 Consensus size: 114
22970002 GCCCGTTTTG
* * *
22970012 TAGCTTTGTTATTAGTGGCGCTTTTAAAAAAATGCCGCAAAAGGTATGTATTACCGACGTTTTTA
1 TAGCCTTGTTATTAGTGGCGCTTTTAAAAAAA-GCCGCAAAAGGTATGTATTACCGGCGTTTTCA
*
22970077 TCTAAAACGCCACAAAACATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
65 -CTAAAACGCCACAAAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
* * *
22970128 TAGCCTTGTTATTAGTGGCGCTTTCT-AAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCA
1 TAGCCTTGTTATTAGTGGCGCTTT-TAAAAAAAGCCGCAAAAGGTATGTATTACCGGCGTTTTCA
* * *
22970192 CCTAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
65 -CTAAAACGCCACAAAA--TATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
* * * ** *
22970245 TAGCCTTGTTATAAGTGGCGC-TTTAATAAACA-CCGCAAAAGGTGTAAATTACCGGTGTTTTCA
1 TAGCCTTGTTATTAGTGGCGCTTTTAA-AAAAAGCCGCAAAAGGTATGTATTACCGGCGTTTTCA
* * * ** *
22970308 CGAGAAAACGCCAC-AAATATCTATTAACAGATTGCAAAAACATCGTCATTTA
65 C--TAAAACGCCACAAAATATCTATTAAGAGATTG-TAAAACGGCGTCGTTTA
22970360 TAGCCTTG
1 TAGCCTTG
22970368 AAACTAGTGG
Statistics
Matches: 203, Mismatches: 29, Indels: 17
0.82 0.12 0.07
Matches are distributed among these distances:
114 15 0.07
115 65 0.32
116 59 0.29
117 64 0.32
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (114 bp):
TAGCCTTGTTATTAGTGGCGCTTTTAAAAAAAGCCGCAAAAGGTATGTATTACCGGCGTTTTCAC
TAAAACGCCACAAAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
Found at i:22970249 original size:117 final size:114
Alignment explanation
Indices: 22970012--22970287 Score: 374
Period size: 117 Copynumber: 2.4 Consensus size: 114
22970002 GCCCGTTTTG
* * * *
22970012 TAGCTTTGTTATTAGTGGCGCTTTTAAAAAAATGCCGCAAAAGGTATGTATTACCGACGTTTTTA
1 TAGCCTTGTTATTAGTGGCGCTTTT--AAAAACGCCGCAAAAGGTACGTATTACCGACGTTTTCA
* * *
22970077 TCTAAAACGCCACAAAACATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
64 CCTAAAACGCCAAAAAACATCTATTAAGAGATTGTAAAACGGCATCGTTTA
* *
22970128 TAGCCTTGTTATTAGTGGCGCTTTCTAAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCAC
1 TAGCCTTGTTATTAGTGGCGCTTT-TAAAAACGCCGCAAAAGGTACGTATTACCGACGTTTTCAC
* *
22970193 CTAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
65 CTAAAACGCCAAAAAA--CATCTATTAAGAGATTGTAAAACGGCATCGTTTA
* *
22970245 TAGCCTTGTTATAAGTGGCGC-TTTAATAAACACCGCAAAAGGT
1 TAGCCTTGTTATTAGTGGCGCTTTTAA-AAACGCCGCAAAAGGT
22970288 GTAAATTACC
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
115 51 0.36
116 39 0.27
117 52 0.37
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (114 bp):
TAGCCTTGTTATTAGTGGCGCTTTTAAAAACGCCGCAAAAGGTACGTATTACCGACGTTTTCACC
TAAAACGCCAAAAAACATCTATTAAGAGATTGTAAAACGGCATCGTTTA
Found at i:22970316 original size:117 final size:116
Alignment explanation
Indices: 22970012--22970320 Score: 317
Period size: 117 Copynumber: 2.6 Consensus size: 116
22970002 GCCCGTTTTG
* * * * ** * *
22970012 TAGCTTTGTTATTAGTGGCGCTTT-TAAAAAAATGCCGCAAAAGGTATGTATTACCGACGTTTTT
1 TAGCCTTGTTATAAGTGGCGCTTTCTAAAAACA--CCGCAAAATGTA-CAATTACCGGCGTTTTC
* * * * *
22970076 ATC-TAAAACGCCACAAAA--CATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
63 A-CAGAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
* * *
22970128 TAGCCTTGTTATTAGTGGCGCTTTCTAAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCAC
1 TAGCCTTGTTATAAGTGGCGCTTTCTAAAAACACCGCAAAATGTAC-AATTACCGGCGTTTTCAC
**
22970193 CTAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
65 AGAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
*
22970245 TAGCCTTGTTATAAGTGGCGC-TT-TAATAAACACCGCAAAAGGTGTA-AATTACCGGTGTTTTC
1 TAGCCTTGTTATAAGTGGCGCTTTCTAA-AAACACCGCAAAA--TGTACAATTACCGGCGTTTTC
22970307 ACGAGAAAACGCCA
63 AC-AGAAAACGCCA
22970321 CAAATATCTA
Statistics
Matches: 167, Mismatches: 17, Indels: 17
0.83 0.08 0.08
Matches are distributed among these distances:
114 1 0.01
115 43 0.26
116 53 0.32
117 66 0.40
118 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (116 bp):
TAGCCTTGTTATAAGTGGCGCTTTCTAAAAACACCGCAAAATGTACAATTACCGGCGTTTTCACA
GAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
Found at i:22970389 original size:115 final size:111
Alignment explanation
Indices: 22970080--22970389 Score: 325
Period size: 117 Copynumber: 2.7 Consensus size: 111
22970070 GTTTTTATCT
*
22970080 AAAACGCCACAAAACATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTATTAGTG
1 AAAACGCCAC-AAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTA-TAGTG
* * * **
22970145 GCGCTTTCTAAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCACCT
64 GCGCTTTC-ATAAACACCGCAAAATGTAC-AATTACCGGCGTTTTCACAG
* * *
22970195 AAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAG
1 AAAACGCC-ACAAA--TATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTAT-AG
* *
22970260 TGGCGCTTTAATAAACACCGCAAAAGGTGTA-AATTACCGGTGTTTTCACGAG
62 TGGCGCTTTCATAAACACCGCAAAA--TGTACAATTACCGGCGTTTTCAC-AG
* * ** * **
22970312 AAAACGCCACAAATATCTATTAACAGATTGCAAAAACATCGTCATTTATAGCCTTGAAACTAGTG
1 AAAACGCCACAAATATCTATTAAGAGATTG-TAAAACGGCGTCGTTTATAGCCTTGTTA-TAGTG
*
22970377 GCGTTTTCATAAA
64 GCGCTTTCATAAA
22970390 AAAACGCCAC
Statistics
Matches: 163, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
114 15 0.09
115 47 0.29
116 36 0.22
117 61 0.37
118 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (111 bp):
AAAACGCCACAAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTATAGTGGC
GCTTTCATAAACACCGCAAAATGTACAATTACCGGCGTTTTCACAG
Found at i:22972776 original size:9 final size:9
Alignment explanation
Indices: 22972758--22972946 Score: 165
Period size: 9 Copynumber: 21.0 Consensus size: 9
22972748 GTTTAAATTT
22972758 CATAACTTA
1 CATAACTTA
*
22972767 CATAATTTA
1 CATAACTTA
22972776 CATAACTTA
1 CATAACTTA
22972785 CATAA--TA
1 CATAACTTA
*
22972792 CATAA-ATA
1 CATAACTTA
* *
22972800 TATATCATATA
1 CATAAC-T-TA
22972811 -ATAACTTA
1 CATAACTTA
*
22972819 TATAACTTA
1 CATAACTTA
22972828 -ATAACTTA
1 CATAACTTA
*
22972836 CATATATCATA
1 CATA-A-CTTA
22972847 TCATAACTTA
1 -CATAACTTA
*
22972857 CATAACTCA
1 CATAACTTA
22972866 CATAACTTA
1 CATAACTTA
22972875 CATAACTTA
1 CATAACTTA
22972884 CATAAC-TA
1 CATAACTTA
22972892 CATAACTTAA
1 CATAACTT-A
* *
22972902 CATACCTCA
1 CATAACTTA
* *
22972911 GAAAACTTA
1 CATAACTTA
* *
22972920 CGTAACTCA
1 CATAACTTA
22972929 CATAACTTA
1 CATAACTTA
22972938 CATAACTTA
1 CATAACTTA
22972947 TTCGTGTAAT
Statistics
Matches: 147, Mismatches: 22, Indels: 22
0.77 0.12 0.12
Matches are distributed among these distances:
7 7 0.05
8 23 0.16
9 92 0.63
10 15 0.10
11 6 0.04
12 4 0.03
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:22972841 original size:21 final size:21
Alignment explanation
Indices: 22972799--22972860 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
22972789 ATACATAAAT
*
22972799 ATATATCATATAATAACTT--
1 ATATATAATATAATAACTTAC
*
22972818 ATATA-ACT-TAATAACTTAC
1 ATATATAATATAATAACTTAC
* *
22972837 ATATATCATATCATAACTTAC
1 ATATATAATATAATAACTTAC
22972858 ATA
1 ATA
22972861 ACTCACATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 9 0.26
18 1 0.03
19 10 0.29
20 1 0.03
21 13 0.38
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATATAATATAATAACTTAC
Found at i:22972847 original size:38 final size:39
Alignment explanation
Indices: 22972758--22972878 Score: 127
Period size: 38 Copynumber: 3.3 Consensus size: 39
22972748 GTTTAAATTT
22972758 CATAACTTACATA-AT--T-TACATAACTTACATAA-T-A
1 CATAACTTACATATATCATATA-ATAACTTACATAACTCA
* * *
22972792 CATAA---ATATATATCATATAATAACTTATATAACTTA
1 CATAACTTACATATATCATATAATAACTTACATAACTCA
*
22972828 -ATAACTTACATATATCATATCATAACTTACATAACTCA
1 CATAACTTACATATATCATATAATAACTTACATAACTCA
22972866 CATAACTTACATA
1 CATAACTTACATA
22972879 ACTTACATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
31 4 0.06
32 2 0.03
34 18 0.25
35 7 0.10
36 1 0.01
38 27 0.38
39 12 0.17
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (39 bp):
CATAACTTACATATATCATATAATAACTTACATAACTCA
Found at i:22975360 original size:27 final size:27
Alignment explanation
Indices: 22975330--22975384 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
22975320 AGAAAGGTGC
22975330 TAATTTATTTGTAAAGTATTCATTCAT
1 TAATTTATTTGTAAAGTATTCATTCAT
22975357 TAATTTATTTGTAAAGTATTCATTCAT
1 TAATTTATTTGTAAAGTATTCATTCAT
22975384 T
1 T
22975385 CACCTCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (27 bp):
TAATTTATTTGTAAAGTATTCATTCAT
Found at i:22977967 original size:13 final size:14
Alignment explanation
Indices: 22977951--22977979 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22977941 TTTTAAATAT
22977951 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
22977964 TTATAATGGTTTAA
1 TTATAATGGTTTAA
22977978 TT
1 TT
22977980 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:22981739 original size:30 final size:28
Alignment explanation
Indices: 22981701--22981774 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 28
22981691 ATAACATTGA
*
22981701 ATTTTTTATTTTTTTTTATATTTTTAAA-
1 ATTTTTTATTTTTTTTTA-AATTTTAAAT
22981729 ATCATTTTTATGTTTATTTTTAAATTTTAAAT
1 AT--TTTTTAT-TTT-TTTTTAAATTTTAAAT
22981761 ATTTTTTATTTTTT
1 ATTTTTTATTTTTT
22981775 CACAATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
28 4 0.10
29 3 0.08
30 14 0.35
31 11 0.28
32 8 0.20
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (28 bp):
ATTTTTTATTTTTTTTTAAATTTTAAAT
Found at i:22984271 original size:3 final size:3
Alignment explanation
Indices: 22984252--22984473 Score: 61
Period size: 3 Copynumber: 70.3 Consensus size: 3
22984242 ATATTATAAA
* *
22984252 ATT ATT -TT ATAT ATT ATT ATT ATT ATT ATT CATT ATAT GTT ATT CTT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT
** *
22984299 CACA AGTT ATT ATT ATT -TT GCATC ATT ATTT ATAT ATT ATTT ATAT ATT
1 -ATT A-TT ATT ATT ATT ATT --ATT ATT A-TT AT-T ATT A-TT AT-T ATT
* * *
22984348 A-T ATGT -TT ACT ATAT ATT ATAT ATT ATT TTT A-T ATAT ATG ATT -TT
1 ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT ATT AT-T ATT ATT ATT
* *
22984393 A-T ATT A-T ATT ATA ATT ATT -TT ATAT ATT ATT AAGTC ATT -TT -TGT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT -A-TT ATT ATT AT-T
* *
22984437 ATT ATT ATAT ATT TTT ATCT ATAT ATT ATT ATC ATT A
1 ATT ATT AT-T ATT ATT AT-T AT-T ATT ATT ATT ATT A
22984474 AAGGTCTTAA
Statistics
Matches: 163, Mismatches: 25, Indels: 62
0.65 0.10 0.25
Matches are distributed among these distances:
2 20 0.12
3 95 0.58
4 46 0.28
5 2 0.01
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:22984339 original size:11 final size:11
Alignment explanation
Indices: 22984323--22984423 Score: 83
Period size: 11 Copynumber: 9.5 Consensus size: 11
22984313 ATTTTGCATC
22984323 ATTATTTATAT
1 ATTATTTATAT
22984334 ATTATTTATAT
1 ATTATTTATAT
*
22984345 ATTA--TATGT
1 ATTATTTATAT
*
22984354 -TTA-CTATAT
1 ATTATTTATAT
*
22984363 ATTATATAT-T
1 ATTATTTATAT
22984373 ATT-TTTATAT
1 ATTATTTATAT
22984383 ATATGATTT-TAT
1 AT-T-ATTTATAT
22984395 ATTATATTATA-
1 ATTAT-TTATAT
22984406 ATTATTTTATAT
1 ATTA-TTTATAT
22984418 ATTATT
1 ATTATT
22984424 AAGTCATTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
8 3 0.04
9 12 0.16
10 12 0.16
11 33 0.44
12 12 0.16
13 3 0.04
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (11 bp):
ATTATTTATAT
Found at i:22984369 original size:36 final size:37
Alignment explanation
Indices: 22984323--22984422 Score: 129
Period size: 36 Copynumber: 2.8 Consensus size: 37
22984313 ATTTTGCATC
22984323 ATTAT-TTATATATTATTTATATATTATATG-TTTACT
1 ATTATATTATATATTATTTATATATTATATGATTTA-T
*
22984359 A-TATATTATATATTATTTTTATA-TATATGATTTTAT
1 ATTATATTATATATTATTTATATATTATATGA-TTTAT
22984395 ATTATATTATA-ATTATTTTATATATTAT
1 ATTATATTATATATTA-TTTATATATTAT
22984423 TAAGTCATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
35 9 0.16
36 24 0.43
37 20 0.36
38 3 0.05
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (37 bp):
ATTATATTATATATTATTTATATATTATATGATTTAT
Found at i:22984454 original size:10 final size:10
Alignment explanation
Indices: 22984236--22984465 Score: 75
Period size: 9 Copynumber: 23.6 Consensus size: 10
22984226 TTATTTTTTA
22984236 TATTATATAT
1 TATTATATAT
*
22984246 TA-TA-AAAT
1 TATTATATAT
*
22984254 TATTTTATA-
1 TATTATATAT
22984263 TATTAT-TAT
1 TATTATATAT
22984272 TATTAT-TAT
1 TATTATATAT
*
22984281 TCATTATATGT
1 T-ATTATATAT
* *
22984292 TATTCTTCACAAGT
1 TATT-AT-A-TA-T
22984306 TATTAT-TAT
1 TATTATATAT
**
22984315 T-TTGCATCAT
1 TATTATAT-AT
22984325 TATTTATATAT
1 TA-TTATATAT
22984336 TATT-TATA-
1 TATTATATAT
*
22984344 TATTATATGTT
1 TATTATAT-AT
*
22984355 TACTATATAT
1 TATTATATAT
22984365 TA-TATATTAT
1 TATTATA-TAT
*
22984375 TTTTATATA-
1 TATTATATAT
*
22984384 TATGAT-T-T
1 TATTATATAT
22984392 TA-TATTATAT
1 TATTA-TATAT
*
22984402 TATAAT-TAT
1 TATTATATAT
22984411 T-TTATATAT
1 TATTATATAT
22984420 TATTA-AGTCAT
1 TATTATA-T-AT
*
22984431 T-TT-TGTAT
1 TATTATATAT
22984439 TATTATATAT
1 TATTATATAT
* *
22984449 TTTTATCTAT
1 TATTATATAT
22984459 ATATTAT
1 -TATTAT
22984466 TATCATTAAA
Statistics
Matches: 161, Mismatches: 28, Indels: 61
0.64 0.11 0.24
Matches are distributed among these distances:
7 1 0.01
8 23 0.14
9 49 0.30
10 49 0.30
11 28 0.17
12 5 0.03
13 1 0.01
14 5 0.03
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (10 bp):
TATTATATAT
Found at i:22984461 original size:14 final size:14
Alignment explanation
Indices: 22984329--22984469 Score: 60
Period size: 13 Copynumber: 10.9 Consensus size: 14
22984319 CATCATTATT
*
22984329 TATA-TATTATTTA
1 TATATTATTATCTA
*
22984342 TATATTA-TATGT-
1 TATATTATTATCTA
*
22984354 T-TACTATATAT-TA
1 TATATTAT-TATCTA
*
22984367 TATATTATT-TTTA
1 TATATTATTATCTA
* *
22984380 TATA-TATGAT-TT
1 TATATTATTATCTA
22984392 TATATTA-TAT-TA
1 TATATTATTATCTA
22984404 TA-ATTATT-T-TA
1 TATATTATTATCTA
22984415 TATATTATTAAGTC-A
1 TATATTATT-A-TCTA
* *
22984430 TTTTTGTATTAT-TA
1 TATAT-TATTATCTA
*
22984444 TATATTTTTATCTA
1 TATATTATTATCTA
22984458 TATATTATTATC
1 TATATTATTATC
22984470 ATTAAAGGTC
Statistics
Matches: 98, Mismatches: 13, Indels: 33
0.68 0.09 0.23
Matches are distributed among these distances:
11 13 0.13
12 23 0.23
13 27 0.28
14 25 0.26
15 6 0.06
16 4 0.04
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (14 bp):
TATATTATTATCTA
Found at i:22995330 original size:28 final size:28
Alignment explanation
Indices: 22995299--22995354 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
22995289 TATTTTCGTC
* * *
22995299 CACACAAGCGTGTGTCTTAGTCGTGTGT
1 CACACAAGCGTGTGGCCTAGCCGTGTGT
* *
22995327 CACATAGGCGTGTGGCCTAGCCGTGTGT
1 CACACAAGCGTGTGGCCTAGCCGTGTGT
22995355 TCCCTACATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.29
Consensus pattern (28 bp):
CACACAAGCGTGTGGCCTAGCCGTGTGT
Found at i:23002227 original size:42 final size:42
Alignment explanation
Indices: 23002112--23002248 Score: 148
Period size: 42 Copynumber: 3.3 Consensus size: 42
23002102 GTTTAACTCA
* * * * *
23002112 TATGAGTTTCCGTTCAACCCTAACAGGTTTCCGTTCAACTCT
1 TATGAGCTTCTGTTCAACCCTTACAGGTTTCTGTTCAGCTCT
* * * * *
23002154 TCTAAGCTTCTGTTGAACCCTTATAGGTTTCTATTCAGCTCT
1 TATGAGCTTCTGTTCAACCCTTACAGGTTTCTGTTCAGCTCT
* * *
23002196 TATGAGCTTTTGTTCAACCCTTACAGGTTTCTGTTTAGCACT
1 TATGAGCTTCTGTTCAACCCTTACAGGTTTCTGTTCAGCTCT
*
23002238 TATGTGCTTCT
1 TATGAGCTTCT
23002249 ATTTAGACTT
Statistics
Matches: 75, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCTGTTCAACCCTTACAGGTTTCTGTTCAGCTCT
Found at i:23002230 original size:21 final size:21
Alignment explanation
Indices: 23002117--23002230 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
23002107 ACTCATATGA
* *
23002117 GTTTCCGTTCAACCCTAACAG
1 GTTTCTGTTCAACCCTTACAG
* * *
23002138 GTTTCCGTTCAACTCTT-CTAA
1 GTTTCTGTTCAACCCTTAC-AG
* * *
23002159 GCTTCTGTTGAACCCTTATAG
1 GTTTCTGTTCAACCCTTACAG
* * * *
23002180 GTTTCTATTCAGCTCTTATGAG
1 GTTTCTGTTCAACCCTTA-CAG
*
23002202 CTTT-TGTTCAACCCTTACAG
1 GTTTCTGTTCAACCCTTACAG
23002222 GTTTCTGTT
1 GTTTCTGTT
23002231 TAGCACTTAT
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
20 6 0.09
21 57 0.84
22 5 0.07
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.41
Consensus pattern (21 bp):
GTTTCTGTTCAACCCTTACAG
Found at i:23004447 original size:25 final size:23
Alignment explanation
Indices: 23004419--23004475 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 23
23004409 TACCGGTCAA
23004419 GATGCTCACAGGAA-CTATATAACAG
1 GATGCTCA-A-GAAGCT-TATAACAG
*
23004444 GATGCTCAAGAAGGCTTTTAACAG
1 GATGCTCAAGAA-GCTTATAACAG
23004468 GATGCTCA
1 GATGCTCA
23004476 TCCGAGCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 16 0.55
25 10 0.34
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (23 bp):
GATGCTCAAGAAGCTTATAACAG
Found at i:23006480 original size:22 final size:20
Alignment explanation
Indices: 23006443--23006482 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
23006433 GCACCTAAGG
23006443 AAAATTTTAAAATTTTGGGA
1 AAAATTTTAAAATTTTGGGA
*
23006463 AAAATTCTCTAAACTTTTGG
1 AAAATT-T-TAAAATTTTGG
23006483 TTTAGTCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (20 bp):
AAAATTTTAAAATTTTGGGA
Found at i:23011812 original size:17 final size:18
Alignment explanation
Indices: 23011792--23011826 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23011782 AGATTTAGGT
23011792 TTAAAAA-TTTTAATTAA
1 TTAAAAATTTTTAATTAA
23011809 TTAAAAATTTTTAATTAA
1 TTAAAAATTTTTAATTAA
23011827 AAATCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAAATTTTTAATTAA
Found at i:23013701 original size:14 final size:14
Alignment explanation
Indices: 23013682--23013713 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
23013672 TCCAATCACC
23013682 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
23013696 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
23013710 GGGC
1 GGGC
23013714 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:23018824 original size:14 final size:14
Alignment explanation
Indices: 23018805--23018836 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
23018795 TCCAATCACC
23018805 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
23018819 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
23018833 GGGC
1 GGGC
23018837 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:23027012 original size:126 final size:125
Alignment explanation
Indices: 23026787--23027181 Score: 517
Period size: 126 Copynumber: 3.1 Consensus size: 125
23026777 GGCCAAACAG
* *
23026787 GAACTACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCAA
1 GAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTG-AA
*
23026851 CTTGT-TTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
64 -TTCTCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* * * * * *
23026913 GAACTACTATAGAAAAAAAACGTCCACGTGGGAGATTTTTTCAGTATTTTTACTGACTGTGGATT
1 GAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGAATT
* * *
23026978 CTACTTGAAGCGTTTTTAACACTATTTATTTAGAACCATCTTCTCAAAATTATTTTTTGAA
66 CT-CTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* * * * *
23027039 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGAATT
* * * *
23027104 CTGCTTGAAGCATTTTTGACATTATTTGTTTAGAACCATCTCCTCAAAATTATTTTTTCAG
66 CT-CTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* *
23027165 GAATTACTGTA-AAAAAA
1 GAACTACTATAGAAAAAA
23027182 CAAAATCCTT
Statistics
Matches: 234, Mismatches: 32, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
124 3 0.01
125 6 0.03
126 224 0.96
127 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (125 bp):
GAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGAATT
CTCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
Found at i:23027372 original size:36 final size:36
Alignment explanation
Indices: 23027240--23027376 Score: 131
Period size: 36 Copynumber: 3.9 Consensus size: 36
23027230 CTAAACAAAA
* *
23027240 AATTATTTTAAAAAAAC--TAAACCCTAATTTAATT
1 AATTTTTTTTAAAAAACTATAAACCCTAATTTAATT
* *
23027274 AATTTTCTTT--AAAACTCTAAACCCTAATTTAATT
1 AATTTTTTTTAAAAAACTATAAACCCTAATTTAATT
* * ** * * *
23027308 TA-TTTATTTAAAACCCCTAAAAAACCTAATATAATT
1 AATTTTTTTTAAAA-AACTATAAACCCTAATTTAATT
23027344 AATTTTTTTTAAAAAACTATAAACCCTAATTTA
1 AATTTTTTTTAAAAAACTATAAACCCTAATTTA
23027377 TTTTTTAAAA
Statistics
Matches: 79, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
32 5 0.06
33 6 0.08
34 25 0.32
35 2 0.03
36 31 0.39
37 10 0.13
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (36 bp):
AATTTTTTTTAAAAAACTATAAACCCTAATTTAATT
Found at i:23027380 original size:28 final size:27
Alignment explanation
Indices: 23027346--23027400 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
23027336 ATATAATTAA
23027346 TTTTTTTTAAAAAACTATAAACCCTAAT
1 TTTTTTTTAAAAAACT-TAAACCCTAAT
**
23027374 TTATTTTTTAAAATTCTTAAACCCTAA
1 TT-TTTTTTAAAAAACTTAAACCCTAA
23027401 ACTTAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (27 bp):
TTTTTTTTAAAAAACTTAAACCCTAAT
Done.