Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 43 of 240
Found at i:14903868 original size:22 final size:22
Alignment explanation
Indices: 14903829--14903874 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14903819 TCAGAGGCTC
* *
14903829 TCCTCTTCTCTTCTTTTTTTCT
1 TCCTCTCCTCTTCTTTTTCTCT
14903851 TCCTCTCCT-TTCTCTTTTCTCT
1 TCCTCTCCTCTTCT-TTTTCTCT
14903873 TC
1 TC
14903875 TATTTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (22 bp):
TCCTCTCCTCTTCTTTTTCTCT
Found at i:14904148 original size:29 final size:29
Alignment explanation
Indices: 14904132--14904236 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
14904122 AGAAAATTTA
14904132 GGGTAAAAATGTAATTTTAAAAAGGTTAT
1 GGGTAAAAATGTAATTTTAAAAAGGTTAT
* * *
14904161 GGGTTAAAATGTAA-TTTCAAAAGGTTTAG
1 GGGTAAAAATGTAATTTTAAAAAGG-TTAT
* * * * * *
14904190 GGGTCAATATATAATTTCAAAAAGTTTAG
1 GGGTAAAAATGTAATTTTAAAAAGGTTAT
* *
14904219 GGGTCAAAATGTATTTTT
1 GGGTAAAAATGTAATTTT
14904237 TTATTTTTTG
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
28 9 0.15
29 45 0.74
30 7 0.11
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTAAAAAGGTTAT
Found at i:14904252 original size:16 final size:16
Alignment explanation
Indices: 14904231--14904261 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14904221 GTCAAAATGT
*
14904231 ATTTTTTTATTTTTTG
1 ATTTTTTAATTTTTTG
14904247 ATTTTTTAATTTTTT
1 ATTTTTTAATTTTTT
14904262 TTGAAGATTT
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:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
ATTTTTTAATTTTTTG
Found at i:14904613 original size:15 final size:15
Alignment explanation
Indices: 14904593--14904622 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14904583 CTTTTTTGGC
*
14904593 CGATTTGCTTTCTGT
1 CGATTTGCTCTCTGT
14904608 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
14904623 TTTACCCTCC
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:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:14904712 original size:7 final size:7
Alignment explanation
Indices: 14904700--14904726 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14904690 CGACTGATTT
14904700 CCTTCTC
1 CCTTCTC
14904707 CCTTCTC
1 CCTTCTC
14904714 CCTTCTC
1 CCTTCTC
14904721 CCTTCT
1 CCTTCT
14904727 TTTCTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (7 bp):
CCTTCTC
Found at i:14905683 original size:19 final size:19
Alignment explanation
Indices: 14905659--14905695 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14905649 GCATGACCTC
14905659 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
14905678 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
14905696 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:14907702 original size:119 final size:118
Alignment explanation
Indices: 14907579--14907887 Score: 422
Period size: 119 Copynumber: 2.6 Consensus size: 118
14907569 ATTAATTTGA
* * * *
14907579 ATTTATATTAAATAAGTAATTGAAAATATATATTTT-ATTAAATTATATTTAATAATAATTATGT
1 ATTTATATTAAA-AATTTATT-AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGT
* * *
14907643 TAAATTATATTTCATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAAT
64 TAAATTATATTTCACAGTATCATATATTATGATTTTAGAAAATTAATATAAGAAT
* *
14907698 ATTTAATATTAAGAATTTATTAAATTATATATTTTAATTAAAATATATTTAATAGTAATTATGTT
1 ATTT-ATATTAAAAATTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
* * *
14907763 AATTTATATTTTACAGTATCATATATTATGATTTTAGTAAATTAATATAAGAAT
65 AAATTATATTTCACAGTATCATATATTATGATTTTAGAAAATTAATATAAGAAT
* * *
14907817 ATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGT
1 ATTTA-TATTAA-AAATTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-
14907882 TTAAAT
63 TTAAAT
14907888 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
118 14 0.08
119 94 0.56
120 54 0.32
121 5 0.03
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.48
Consensus pattern (118 bp):
ATTTATATTAAAAATTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
AATTATATTTCACAGTATCATATATTATGATTTTAGAAAATTAATATAAGAAT
Found at i:14907859 original size:18 final size:17
Alignment explanation
Indices: 14907831--14907865 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14907821 ATTATTAAGA
*
14907831 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14907848 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14907866 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14907865 original size:16 final size:16
Alignment explanation
Indices: 14907831--14907885 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
14907821 ATTATTAAGA
14907831 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
14907848 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
14907864 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
14907878 ATGTTTAA
1 AT-TTTAA
14907886 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:14908122 original size:16 final size:16
Alignment explanation
Indices: 14908101--14908152 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
14908091 GATTTGCTAT
14908101 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
14908117 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
14908133 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14908149 TACA
1 TACA
14908153 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14909041 original size:176 final size:177
Alignment explanation
Indices: 14908755--14909093 Score: 524
Period size: 176 Copynumber: 1.9 Consensus size: 177
14908745 AAAAAAGTTT
* * **
14908755 GTGTCAGAGTCAGATATCAGTATACGAAAAAAATAAAAAATAAAAATTTTGGGTGTTGGCCTGTC
1 GTGTCAGAATAAGATATCAGTATACGAAAAAAAT----AATAAAAATTTTGGGTACTGGCCTGTC
*
14908820 AATGGCCGGCACCCAGTACAACTTAAAAAAAATTCTTTTTTTTTTCGTGTCAGAATCAGATATCA
62 AATAGCCGGCACCCAGTACAACTTAAAAAAAATTCTTTTTTTTTTCGTGTCAGAATCAGATATCA
14908885 GTATACGAAAAAA-AATTAAAAAATTTTAGGTGCTTAGAAAAAAAATTTTTTC
127 GTATACGAAAAAATAA--AAAAAATTTTAGGTGCTTAGAAAAAAAATTTTTTC
14908937 GTGTCAGAATAAGATATCAGTATACGAAAAAAAT-A-AAAAATTTTGGGTACTGGCCTGTCAATA
1 GTGTCAGAATAAGATATCAGTATACGAAAAAAATAATAAAAATTTTGGGTACTGGCCTGTCAATA
*
14909000 GCCGGCACCCAGTACAATTTAAAAAAAATT-TCTTTTTTTTTCGTGTCAGAATCAGATATCAGTA
66 GCCGGCACCCAGTACAACTTAAAAAAAATTCT-TTTTTTTTTCGTGTCAGAATCAGATATCAGTA
*
14909064 TACGAAAAAATAAAAAAAATTTTGGGTGCT
130 TACGAAAAAATAAAAAAAATTTTAGGTGCT
14909094 GGCCTGTCAA
Statistics
Matches: 148, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
175 17 0.11
176 96 0.65
177 3 0.02
182 32 0.22
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (177 bp):
GTGTCAGAATAAGATATCAGTATACGAAAAAAATAATAAAAATTTTGGGTACTGGCCTGTCAATA
GCCGGCACCCAGTACAACTTAAAAAAAATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTAT
ACGAAAAAATAAAAAAAATTTTAGGTGCTTAGAAAAAAAATTTTTTC
Found at i:14909158 original size:104 final size:105
Alignment explanation
Indices: 14908930--14909285 Score: 571
Period size: 104 Copynumber: 3.4 Consensus size: 105
14908920 AGAAAAAAAA
* * *
14908930 TTTTTTCGTGTCAGAATAAGATATCAGTATACGAAAAAA-ATAAAAAATTTTGGGTACTGGCCTG
1 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAATAAAAAAAATTTTGGGTGCTGGCCTG
*
14908994 TCAATAGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTT
66 TCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTT-TTT
14909035 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAATAAAAAAAATTTTGGGTGCTGGCCTG
1 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAATAAAAAAAATTTTGGGTGCTGGCCTG
* *
14909100 TCAATGGCCGGCACCCAGTACAAATTAAAAAAAA-TTATT
66 TCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTTTT
14909139 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAATAAAAAAAA--TT-GGTGCTGGCCTG
1 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAATAAAAAAAATTTTGGGTGCTGGCCTG
14909201 TCAATGGCCGGCACCCAGTAC-ATTTAAAAAAAAATTTTTTT
66 TCAATGGCCGGCACCCAGTACAATTT-AAAAAAAA-TTTTTT
*
14909242 TTTTTTCGTGTCAGAATCAGATTTCAGTATACGAAAAAAATAAA
1 TTTTTTCGTGTCAGAATCAGATATCAGTATACG-AAAAAATAAA
14909286 TATAATTATA
Statistics
Matches: 237, Mismatches: 9, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
100 3 0.01
101 41 0.17
102 2 0.01
103 36 0.15
104 60 0.25
105 40 0.17
106 55 0.23
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (105 bp):
TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAATAAAAAAAATTTTGGGTGCTGGCCTG
TCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTTTT
Found at i:14912375 original size:58 final size:58
Alignment explanation
Indices: 14912305--14912459 Score: 310
Period size: 58 Copynumber: 2.7 Consensus size: 58
14912295 TTACCAAATG
14912305 CCACAAATTGATGGGTTTCTCTACAGGTTTGTATCTACACCAAATGCCACAAAATGCT
1 CCACAAATTGATGGGTTTCTCTACAGGTTTGTATCTACACCAAATGCCACAAAATGCT
14912363 CCACAAATTGATGGGTTTCTCTACAGGTTTGTATCTACACCAAATGCCACAAAATGCT
1 CCACAAATTGATGGGTTTCTCTACAGGTTTGTATCTACACCAAATGCCACAAAATGCT
14912421 CCACAAATTGATGGGTTTCTCTACAGGTTTGTATCTACA
1 CCACAAATTGATGGGTTTCTCTACAGGTTTGTATCTACA
14912460 GGTTTGTATC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 97 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (58 bp):
CCACAAATTGATGGGTTTCTCTACAGGTTTGTATCTACACCAAATGCCACAAAATGCT
Found at i:14912459 original size:14 final size:14
Alignment explanation
Indices: 14912440--14912469 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14912430 GATGGGTTTC
14912440 TCTACAGGTTTGTA
1 TCTACAGGTTTGTA
14912454 TCTACAGGTTTGTA
1 TCTACAGGTTTGTA
14912468 TC
1 TC
14912470 AGCAAGCCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (14 bp):
TCTACAGGTTTGTA
Found at i:14913847 original size:118 final size:119
Alignment explanation
Indices: 14913696--14913977 Score: 435
Period size: 118 Copynumber: 2.4 Consensus size: 119
14913686 TAATTGAAAA
* *
14913696 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAA-TATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
14913760 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAA-TTTATTAAAT
65 TTATGATTTTAGAAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
14913814 TATATATTTTAATTAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATAT
1 TATATATTTTAATTAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATAT
*
14913879 TATGATTTTAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TATGATTTTAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
14913933 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATT-AAATATATTTAATAATAATTATG-TTAAAT
14913978 ATGATTAAAT
Statistics
Matches: 149, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
117 4 0.03
118 89 0.60
119 30 0.20
120 21 0.14
121 5 0.03
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (119 bp):
TATATATTTTAATTAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATAT
TATGATTTTAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:14913949 original size:18 final size:17
Alignment explanation
Indices: 14913921--14913955 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14913911 ATTATTAAGA
*
14913921 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14913938 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14913956 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14913955 original size:16 final size:16
Alignment explanation
Indices: 14913921--14913975 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
14913911 ATTATTAAGA
14913921 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
14913938 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
14913954 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
14913968 ATGTTTAA
1 AT-TTTAA
14913976 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:14914020 original size:118 final size:114
Alignment explanation
Indices: 14913696--14914020 Score: 345
Period size: 118 Copynumber: 2.7 Consensus size: 114
14913686 TAATTGAAAA
* *
14913696 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA-TATA-TT-ACAG-ATTATATA
* *
14913760 TTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTATTAAAT
62 TTATGATTTTA-ATAATTTATATAAGAATATTTAATATTAAGAATTTATTAAAT
* * *
14913814 TATATATTTTAATT-AAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA---ATATATTACAG-ATTATATA
* *
14913878 TTATGATTTTAGTAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
62 TTATGATTTTAAT-AATTTATATAAGAATATTTAA-TATTAAGAA-TTTATTAAAT
* *
14913933 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAATATGATTA-A-ATTATTTATT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAATAT-ATTACAGATTATATATT
**
14913996 ATTGATAATAATAATCTTATTATAA
64 A-TGATTTTAATAAT-TTA-TATAA
14914021 TTTAAATAAC
Statistics
Matches: 177, Mismatches: 17, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
116 12 0.07
117 13 0.07
118 91 0.51
119 32 0.18
120 24 0.14
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (114 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATATATTACAGATTATATATTAT
GATTTTAATAATTTATATAAGAATATTTAATATTAAGAATTTATTAAAT
Found at i:14915711 original size:97 final size:96
Alignment explanation
Indices: 14915592--14915806 Score: 306
Period size: 96 Copynumber: 2.2 Consensus size: 96
14915582 AACAACTAGC
* * * *
14915592 TTTATTTGA-TTTTTCCTTAAAAATCCTAAATACTAAACCCCAGTCTAATTTTTTTAAAATTTAT
1 TTTATTTGATTTTTTCCTTAAAAATCATAAACACTAAACCCCAATCTAATTTTTTGAAAA-TTAT
* *
14915656 AATTAATTTACTCAAGTAACCCTAAACCCCAA
65 AATTAATTTAATCAAGAAACCCTAAACCCCAA
*
14915688 TTTATTTGATTTTTTCCTTAAAAATCATAAACACTAAACCCTAATCTAATTTTTTGAAAATTATA
1 TTTATTTGATTTTTTCCTTAAAAATCATAAACACTAAACCCCAATCTAATTTTTTGAAAATTATA
* **
14915753 ATTAATTTAATTAAGAAACCCTAAACCCTTA
66 ATTAATTTAATCAAGAAACCCTAAACCCCAA
* *
14915784 TTTATTTAATTTTTTACTTAAAA
1 TTTATTTGATTTTTTCCTTAAAA
14915807 CCCTAAAATC
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 61 0.58
97 45 0.42
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (96 bp):
TTTATTTGATTTTTTCCTTAAAAATCATAAACACTAAACCCCAATCTAATTTTTTGAAAATTATA
ATTAATTTAATCAAGAAACCCTAAACCCCAA
Found at i:14927984 original size:23 final size:24
Alignment explanation
Indices: 14927936--14927984 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
14927926 AATTTGACTC
**
14927936 TTTTAAAATGATTAAAATTATTTTT
1 TTTTAAAAT-ATTAAAATTAAATTT
14927961 TTTTAAAAT-TTAAAATTAAATTT
1 TTTTAAAATATTAAAATTAAATTT
14927984 T
1 T
14927985 ACTAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
25 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTAAAATATTAAAATTAAATTT
Found at i:14933906 original size:20 final size:20
Alignment explanation
Indices: 14933852--14933921 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
14933842 ATTATTATTC
14933852 TAGAATTTTTTTA-ATTTTT
1 TAGAATTTTTTTATATTTTT
* *
14933871 TA-ACTTCCTTTATATATTTTT
1 TAGAATT--TTTTTATATTTTT
*
14933892 TAGAATTTTTTTATAATTTT
1 TAGAATTTTTTTATATTTTT
*
14933912 TATAATTTTT
1 TAGAATTTTT
14933922 AAAAATATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 3 0.07
19 2 0.05
20 25 0.61
21 8 0.20
22 3 0.07
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (20 bp):
TAGAATTTTTTTATATTTTT
Found at i:14936356 original size:13 final size:13
Alignment explanation
Indices: 14936338--14936362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14936328 ACATGTTTGG
14936338 ATATGAAATTGAT
1 ATATGAAATTGAT
14936351 ATATGAAATTGA
1 ATATGAAATTGA
14936363 CATTGAATTT
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:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:14939052 original size:38 final size:38
Alignment explanation
Indices: 14938996--14939070 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
14938986 GAGAATGGAA
*
14938996 AATGTTAATGAGTAACTGATTTGTAACTTTTCGATAAC
1 AATGTTAATGAGTAACTGATTTGTAACTTTTCAATAAC
* * *
14939034 AATGTTAATGGGTGACTGATTTGTCACTTTTCAATAA
1 AATGTTAATGAGTAACTGATTTGTAACTTTTCAATAA
14939071 TGTTAGTGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (38 bp):
AATGTTAATGAGTAACTGATTTGTAACTTTTCAATAAC
Found at i:14946731 original size:17 final size:18
Alignment explanation
Indices: 14946699--14946749 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
14946689 TATAATATGA
*
14946699 TTTAGTAAATTCATATA-T
1 TTTATTAAATT-ATATATT
14946717 TTTATTAAATTATATATT
1 TTTATTAAATTATATATT
14946735 TTTATTAAATTATAT
1 TTTATTAAATTATAT
14946750 TTAATAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTATTAAATTATATATT
Found at i:14946954 original size:39 final size:41
Alignment explanation
Indices: 14946898--14947003 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
14946888 TTTCCTTATG
* *
14946898 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
14946938 C-ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTAC
*
14946983 CTATTACGCCTCTATTTCATT
1 CTATTACGCCTCTATTCCATT
14947004 ACGCATCTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 9 0.16
40 1 0.02
41 7 0.12
42 1 0.02
43 1 0.02
44 23 0.41
45 4 0.07
46 10 0.18
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:14946978 original size:44 final size:46
Alignment explanation
Indices: 14946911--14947003 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
14946901 TTACACCTCT
*
14946911 ATTCCATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
*
14946955 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTTC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
14947001 ATT
1 ATT
14947004 ACGCATCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 4 0.09
46 18 0.40
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:14947006 original size:16 final size:16
Alignment explanation
Indices: 14946985--14947037 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
14946975 AGAATTACCT
*
14946985 ATTACGCCTCTATTTC
1 ATTACGCCTCTATTCC
*
14947001 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
**
14947017 ATTATACCTCTATTCC
1 ATTACGCCTCTATTCC
14947033 ATTAC
1 ATTAC
14947038 AGCGAACCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.25, C:0.30, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:14947737 original size:21 final size:23
Alignment explanation
Indices: 14947707--14947752 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
14947697 TTTGAGAGAA
*
14947707 AAAAATATTG-TCGATTTTTATT
1 AAAAATATTGATAGATTTTTATT
*
14947729 AAAAA-ATTGATATATTTTTATT
1 AAAAATATTGATAGATTTTTATT
14947751 AA
1 AA
14947753 GTATATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (23 bp):
AAAAATATTGATAGATTTTTATT
Found at i:14956048 original size:29 final size:29
Alignment explanation
Indices: 14956010--14956067 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
14956000 GGACTATATA
14956010 AATCGATAATGATCGAAATACATCAAAAT
1 AATCGATAATGATCGAAATACATCAAAAT
*
14956039 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATCGAAATACATCAAAAT
14956068 GAAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (29 bp):
AATCGATAATGATCGAAATACATCAAAAT
Found at i:14956137 original size:29 final size:29
Alignment explanation
Indices: 14956010--14956131 Score: 101
Period size: 29 Copynumber: 4.3 Consensus size: 29
14956000 GGACTATATA
* *
14956010 AATCGATAATGATCGAAATACATCAAAAT
1 AATCGAAAATGATTGAAATACATCAAAAT
*
14956039 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGAAAATGATTGAAATACATCAAAAT
* * ** *
14956068 GAAAT-TAAAAT-ATTAAAATTTAT--ATA-
1 --AATCGAAAATGATTGAAATACATCAAAAT
*
14956094 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGAAAATGATTGAAATACATCAAAAT
*
14956123 AATCTAAAA
1 AATCGAAAA
14956132 ATATTGTTAT
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
24 3 0.04
25 4 0.06
26 9 0.13
27 2 0.03
28 2 0.03
29 44 0.62
30 4 0.06
31 3 0.04
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (29 bp):
AATCGAAAATGATTGAAATACATCAAAAT
Found at i:14958422 original size:49 final size:49
Alignment explanation
Indices: 14958368--14958471 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
14958358 TCATGTGTTA
* * ** * *
14958368 TAATTTTATACAGTGTTGAGTTTTTTATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
*
14958417 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
14958466 TAATTT
1 TAATTT
14958472 GTTTTTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:14960000 original size:110 final size:115
Alignment explanation
Indices: 14959839--14960101 Score: 378
Period size: 120 Copynumber: 2.3 Consensus size: 115
14959829 AATAAAGTAG
*
14959839 ATTA-TAAATTATATTTAAAAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA-T
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
*
14959901 T-TTAGTAAATTCATATAAG-A-A-TAAGAATTTTATTAAATTATATATT
66 TATTAGTAAATTCATATAAGAATATTAACAATTTTATTAAATTATATATT
*
14959947 ATTATTAAATTATATTTAATAATAATAATTTTAAATTATATTTTATAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA-T
14960012 TTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
65 TTATTAGTAAATTCATATAAG-A-A--TATTAACAATTTTATTAAATTATATATT
* * *
14960067 TTTATTTAATTATATTTAATAATAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTATTTTAAA
14960102 ATATGATTAA
Statistics
Matches: 136, Mismatches: 7, Indels: 12
0.88 0.05 0.08
Matches are distributed among these distances:
108 4 0.03
109 21 0.15
110 34 0.25
112 2 0.01
113 18 0.13
116 1 0.01
119 1 0.01
120 55 0.40
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (115 bp):
ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
TATTAGTAAATTCATATAAGAATATTAACAATTTTATTAAATTATATATT
Found at i:14960281 original size:39 final size:43
Alignment explanation
Indices: 14960228--14960334 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 43
14960218 TTTTCTTATG
* *
14960228 CTATTATACCTCTATTCTA-T-TCAACCAAACACAAGAA-TAC
1 CTATTACACCTCTATTCTATTATCAACCAAACAAAAGAATTAC
*
14960268 C-ATTACGCCTCTATTCTATTACAGTCAACCAAACAAAAGAATTAC
1 CTATTACACCTCTATTCTATT--A-TCAACCAAACAAAAGAATTAC
*
14960313 CTATTACACCTCTATTCCATTA
1 CTATTACACCTCTATTCTATTA
14960335 CGCCTCTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
39 15 0.27
40 2 0.04
44 17 0.31
45 4 0.07
46 17 0.31
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (43 bp):
CTATTACACCTCTATTCTATTATCAACCAAACAAAAGAATTAC
Found at i:14960296 original size:44 final size:46
Alignment explanation
Indices: 14960248--14960335 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
14960238 TCTATTCTAT
* * *
14960248 TCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCTATTACAG
1 TCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTACAG
14960292 TCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTAC
1 TCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTAC
14960336 GCCTCTATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 16 0.41
45 4 0.10
46 19 0.49
ACGTcount: A:0.40, C:0.30, G:0.05, T:0.26
Consensus pattern (46 bp):
TCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTACAG
Found at i:14960340 original size:16 final size:16
Alignment explanation
Indices: 14960315--14960352 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
14960305 AGAATTACCT
14960315 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
14960331 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
14960347 ATTACA
1 ATTACA
14960353 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:14960432 original size:10 final size:10
Alignment explanation
Indices: 14960419--14960479 Score: 70
Period size: 10 Copynumber: 6.1 Consensus size: 10
14960409 AAAGAAGGAG
14960419 AAGAAAGAA-A
1 AAGAAA-AAGA
*
14960429 AAGAAAAAAA
1 AAGAAAAAGA
* *
14960439 AAGGAAAGGA
1 AAGAAAAAGA
*
14960449 AAGAAGAAGA
1 AAGAAAAAGA
14960459 AAGAAAAAGA
1 AAGAAAAAGA
14960469 AAGAAAAAGA
1 AAGAAAAAGA
14960479 A
1 A
14960480 CGGAGAAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
9 2 0.05
10 41 0.95
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:14960442 original size:26 final size:25
Alignment explanation
Indices: 14960404--14960474 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
14960394 CCGGCTGGAG
* *
14960404 AGAAGAAAGAAGGAGAAGAAAGAAAA
1 AGAAAAAAAAAGGA-AAGAAAGAAAA
*
14960430 AGAAAAAAAAAGGAAAGGAAAGAAGA
1 AGAAAAAAAAAGGAAA-GAAAGAAAA
*
14960456 AGAAAGAAAAA-GAAAGAAA
1 AGAAAAAAAAAGGAAAGAAA
14960475 AAGAACGGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.10
25 6 0.15
26 30 0.75
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (25 bp):
AGAAAAAAAAAGGAAAGAAAGAAAA
Found at i:14960488 original size:10 final size:10
Alignment explanation
Indices: 14960413--14960499 Score: 58
Period size: 10 Copynumber: 9.1 Consensus size: 10
14960403 GAGAAGAAAG
14960413 AAGGAGAAGA
1 AAGGAGAAGA
* *
14960423 AAGAAAAAGA
1 AAGGAGAAGA
14960433 AA--A-AA-A
1 AAGGAGAAGA
14960439 AAGGA-AAGGA
1 AAGGAGAA-GA
*
14960449 AAGAAGAAGA
1 AAGGAGAAGA
* *
14960459 AAGAAAAAGA
1 AAGGAGAAGA
* *
14960469 AAGAAAAAGA
1 AAGGAGAAGA
*
14960479 ACGGAGAAGA
1 AAGGAGAAGA
14960489 AAGGAGAAGA
1 AAGGAGAAGA
14960499 A
1 A
14960500 GAAGAGGGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
6 3 0.05
7 2 0.03
8 4 0.06
10 53 0.83
11 2 0.03
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (10 bp):
AAGGAGAAGA
Found at i:14960488 original size:20 final size:20
Alignment explanation
Indices: 14960404--14960499 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
14960394 CCGGCTGGAG
14960404 AGAAGAAAG-AAGGAGAAGAA
1 AGAA-AAAGAAAGGAGAAGAA
14960424 AGAAAAAGAAA--A-AA-AA
1 AGAAAAAGAAAGGAGAAGAA
* * *
14960440 AGGAAAGGAAAGAAGAAGAA
1 AGAAAAAGAAAGGAGAAGAA
* *
14960460 AGAAAAAGAAAGAAAAAGAA
1 AGAAAAAGAAAGGAGAAGAA
* * *
14960480 CGGAGAAGAAAGGAGAAGAA
1 AGAAAAAGAAAGGAGAAGAA
14960500 GAAGAGGGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
16 11 0.18
17 2 0.03
18 2 0.03
19 6 0.10
20 40 0.66
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (20 bp):
AGAAAAAGAAAGGAGAAGAA
Found at i:14960489 original size:36 final size:37
Alignment explanation
Indices: 14960411--14960489 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 37
14960401 GAGAGAAGAA
*
14960411 AGAAGGAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
1 AGAAGAAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
* *
14960448 A-AAGAAGAAGAAAGAAAAAGAAAGAAAAA-GAACGG
1 AGAAGAAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
14960483 AGAAGAA
1 AGAAGAA
14960490 AGGAGAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 6 0.16
36 31 0.82
37 1 0.03
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (37 bp):
AGAAGAAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
Found at i:14960499 original size:46 final size:48
Alignment explanation
Indices: 14960404--14960542 Score: 135
Period size: 46 Copynumber: 2.9 Consensus size: 48
14960394 CCGGCTGGAG
14960404 AGAAGAAAGAAGGAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGGAAAGA
1 AGAAGAAAGAA-GAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGGAAAGA
*** *
14960453 AGAAGAAAGAA-A-AAGAAAGAAAAAGAACGGAGAA-GAAAGGAGAAGA
1 AGAAGAAAGAAGAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGGA-AAGA
* * *
14960499 AGAAG-AGGGAGGGAAGGAAA-AAGAAAGAAAAAAATAAGGAAAGG
1 AGAAGAAAGAAGAGAA-GAAAGAA-AAAGAAAAAAA-AAGGAAAGG
14960543 TAATTTTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
45 10 0.14
46 27 0.38
47 5 0.07
48 11 0.15
49 13 0.18
50 6 0.08
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.01
Consensus pattern (48 bp):
AGAAGAAAGAAGAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGGAAAGA
Found at i:14961188 original size:153 final size:155
Alignment explanation
Indices: 14960885--14961337 Score: 632
Period size: 153 Copynumber: 2.9 Consensus size: 155
14960875 AGGGTTTTTT
* * *
14960885 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAACGTAAAATTATAAAATACGAAAATAA
1 ACTAAATTAATACATTTCAAACTTAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAA
* *** * * * *
14960950 TATA-TTTTTTGAAA-CAATGAGGCTTCGGTAAAAAATACGAACAAAGGGCTAAAATAATGGTTT
66 TATATTTTTTTGAAAGTAAT-AAAATTCGGGAAAAAATATGAACAAAGGGCTGAAATAAGGGTTT
14961013 TTTACTAAATTTATTTTAAAAAA-AC
130 TTTACTAAATTTATTTTAAAAAACAC
*
14961038 ACTAAATTAATACATTTTAAACTTAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAA
1 ACTAAATTAATACATTTCAAACTTAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAA
* *
14961103 TATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAATATGAATAAAGGGCCGAAATAAGGGTTT
66 TATATTTTT-TTGAAAGTAATAAAATTCGGGAAAAAATATGAACAAAGGGCTGAAATAAGGGTTT
*
14961168 TTTACTAAATTTATTTAAAAAAACAC
130 TTTACTAAATTTATTTTAAAAAACAC
* *
14961194 ACTAAATTAATACATTTCAAA-TATAATGTACTAAAATAATGTAAAATCAGAAAAT-CAGAAAAT
1 ACTAAATTAATACATTTCAAACT-TAATGTACTAAAATAATGTAAAATAATAAAATAC-GAAAAT
* * *
14961257 AGTATATTTTTTT-AAAGTAATAAAATT-GGGGAAAAATATGAACAAAGGGCTGAAATAAGGATT
64 AATATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAATATGAACAAAGGGCTGAAATAAGGGTT
*
14961320 TTTTACTAAATTTGTTTT
129 TTTTACTAAATTTATTTT
14961338 GAAGTTGCAG
Statistics
Matches: 269, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
153 113 0.42
154 18 0.07
155 67 0.25
156 71 0.26
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (155 bp):
ACTAAATTAATACATTTCAAACTTAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAA
TATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAATATGAACAAAGGGCTGAAATAAGGGTTTT
TTACTAAATTTATTTTAAAAAACAC
Found at i:14963612 original size:8 final size:8
Alignment explanation
Indices: 14963598--14963639 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
14963588 AGGTGTTACC
14963598 ACAACATT
1 ACAACATT
*
14963606 GCAACATT
1 ACAACATT
14963614 ACAACATT
1 ACAACATT
*
14963622 AC-ACATA
1 ACAACATT
*
14963629 ACAACTTT
1 ACAACATT
14963637 ACA
1 ACA
14963640 GCATAAGCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (8 bp):
ACAACATT
Found at i:14963894 original size:22 final size:23
Alignment explanation
Indices: 14963855--14963910 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
14963845 TCTTCGAGGA
14963855 TATGTAATCTT---AGATATGA-
1 TATGTAATCTTAGAAGATATGAT
*
14963874 TATGTAATTTTAGAAGATATGAT
1 TATGTAATCTTAGAAGATATGAT
*
14963897 TTTGTAATCTTAGA
1 TATGTAATCTTAGA
14963911 GATTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 10 0.33
22 8 0.27
23 12 0.40
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.45
Consensus pattern (23 bp):
TATGTAATCTTAGAAGATATGAT
Found at i:14963913 original size:22 final size:21
Alignment explanation
Indices: 14963853--14963913 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 21
14963843 AATCTTCGAG
14963853 GATATGTAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
14963872 GATATGTAATTTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
14963894 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
14963914 TTAATTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 12 0.34
22 12 0.34
23 11 0.31
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:14964898 original size:16 final size:16
Alignment explanation
Indices: 14964879--14964967 Score: 62
Period size: 16 Copynumber: 5.6 Consensus size: 16
14964869 ATTTTATGAT
14964879 TTATATATTTATTACC
1 TTATATATTTATTACC
14964895 TTATATATATGTAATTA--
1 TTATATAT-T-T-ATTACC
* *
14964912 TTAT-T-TTTATGA-T
1 TTATATATTTATTACC
14964925 TTATATATTTATTACC
1 TTATATATTTATTACC
* *
14964941 TTATATATATATGTACG
1 TTATATATTTAT-TACC
14964958 TATATATATT
1 T-TATATATT
14964968 ATACTTTCTA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
12 3 0.05
13 5 0.09
14 2 0.03
15 7 0.12
16 20 0.34
17 9 0.16
18 8 0.14
19 4 0.07
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (16 bp):
TTATATATTTATTACC
Found at i:14964913 original size:45 final size:46
Alignment explanation
Indices: 14964853--14964950 Score: 180
Period size: 46 Copynumber: 2.2 Consensus size: 46
14964843 TTTTTAAGTT
*
14964853 TATACATGTAATTATTA-TTTTATGATTTATATATTTATTACCTTA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
14964898 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
14964944 TATATAT
1 TATATAT
14964951 ATGTACGTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 16 0.31
46 35 0.69
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (46 bp):
TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
Found at i:14964948 original size:48 final size:48
Alignment explanation
Indices: 14964853--14965052 Score: 176
Period size: 48 Copynumber: 4.1 Consensus size: 48
14964843 TTTTTAAGTT
*
14964853 TATACATGTAATTATTA-TTTTATGATTTATATATTTATTACC-T-TA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
14964898 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
** * * **
14964946 TATATATGTACGTA-TATATATTAT-ACTTTCTATACATATTTTATAATTTCTATA
1 TATATATGTAATTATTAT-TTTTATGA--TT-TAT--ATA-TTTATTACCT-TATA
* * * * * *
14965000 TATATATATTATCATTATCTTTATGATCTATATATTTATTAACTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
14965048 TATAT
1 TATAT
14965053 GTACGTATAT
Statistics
Matches: 124, Mismatches: 18, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
45 16 0.13
46 25 0.20
47 5 0.04
48 28 0.23
49 9 0.07
50 6 0.05
52 6 0.05
53 8 0.06
54 17 0.14
55 4 0.03
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (48 bp):
TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
Found at i:14965000 original size:52 final size:51
Alignment explanation
Indices: 14964944--14965104 Score: 185
Period size: 52 Copynumber: 3.2 Consensus size: 51
14964934 TATTACCTTA
14964944 TATATATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATATATGTACGTATATATATTATACTTTCTAT-CATATTTTATAATTTC
* *
14964996 TATATATA--TA--TAT-TATCATTAT-CTTTATGATCTATATATTTATTAA-CT-
1 TATATATATGTACGTATATAT-ATTATACTTTCT-ATC-ATAT-TTTA-TAATTTC
14965044 TATATATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATATATGTACGTATATATATTATACTTTCTAT-CATATTTTATAATTTC
14965096 TATATATAT
1 TATATATAT
14965105 ATTTTTCTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 28
0.74 0.03 0.23
Matches are distributed among these distances:
47 9 0.10
48 22 0.24
49 5 0.05
50 10 0.11
51 5 0.05
52 31 0.34
53 9 0.10
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (51 bp):
TATATATATGTACGTATATATATTATACTTTCTATCATATTTTATAATTTC
Found at i:14965006 original size:102 final size:100
Alignment explanation
Indices: 14964896--14965106 Score: 341
Period size: 100 Copynumber: 2.1 Consensus size: 100
14964886 TTTATTACCT
* * * * *
14964896 TATATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATATGTACGTAT
1 TATATATATATAATCATTATCTTTATGATCTATATATTTATTAAC-T-TATATATATGTACGTAT
14964961 ATATATTATACTTTCTATACATATTTTATAATTTCTA
64 ATATATTATACTTTCTATACATATTTTATAATTTCTA
*
14964998 TATATATATATTATCATTATCTTTATGATCTATATATTTATTAACTTATATATATGTACGTATAT
1 TATATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATGTACGTATAT
*
14965063 ATATTATACTTTCTATCCATATTTTATAATTTCTA
66 ATATTATACTTTCTATACATATTTTATAATTTCTA
14965098 TATATATAT
1 TATATATAT
14965107 TTTTCTTTAT
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 62 0.61
101 1 0.01
102 39 0.38
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (100 bp):
TATATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATGTACGTATAT
ATATTATACTTTCTATACATATTTTATAATTTCTA
Found at i:14965078 original size:48 final size:48
Alignment explanation
Indices: 14964880--14965078 Score: 146
Period size: 50 Copynumber: 4.1 Consensus size: 48
14964870 TTTTATGATT
* ** *
14964880 TATATATTTATTACCTTATATATATGTAATTATTAT-TTTTA-TGATT-
1 TATATATTTATTAACTTATATATATGTACGTATTATATTATACT-ATTC
*
14964926 TATATATTTATTACCTTATATATATATGTACGTATATATATTATACT-TTC
1 TATATATTTATTAAC-T-TATATATATGTACGTAT-TATATTATACTATTC
* * *
14964976 TATACATATTT-TATAATTTCTATATATATA--TATTATCATTAT-CTTTATGATC
1 TAT--ATATTTAT-TAACTTATATATATGTACGTATTAT-ATTATAC--TAT--TC
14965028 TATATATTTATTAACTTATATATATGTACGTATATATATTATACT-TTC
1 TATATATTTATTAACTTATATATATGTACGTAT-TATATTATACTATTC
14965076 TAT
1 TAT
14965079 CCATATTTTA
Statistics
Matches: 123, Mismatches: 10, Indels: 38
0.72 0.06 0.22
Matches are distributed among these distances:
46 15 0.12
47 5 0.04
48 28 0.23
49 6 0.05
50 39 0.32
51 5 0.04
52 21 0.17
53 4 0.03
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (48 bp):
TATATATTTATTAACTTATATATATGTACGTATTATATTATACTATTC
Found at i:14965102 original size:18 final size:18
Alignment explanation
Indices: 14965058--14965104 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
14965048 TATATGTACG
*
14965058 TATATATATTATACTTTC
1 TATATATATTATAATTTC
*
14965076 TATCCATATTTTATAATTTC
1 TAT--ATATATTATAATTTC
14965096 TATATATAT
1 TATATATAT
14965105 ATTTTTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.33
20 16 0.67
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATATATTATAATTTC
Found at i:14965104 original size:20 final size:20
Alignment explanation
Indices: 14964958--14965006 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
14964948 TATATGTACG
*
14964958 TATATATATTATACTTTCTA
1 TATATATATTATAATTTCTA
* *
14964978 TACATATTTTATAATTTCTA
1 TATATATATTATAATTTCTA
14964998 TATATATAT
1 TATATATAT
14965007 ATTATCATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATATATTATAATTTCTA
Found at i:14966301 original size:41 final size:40
Alignment explanation
Indices: 14966203--14966301 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 40
14966193 TAATGTAAAA
* *
14966203 ACTAACAATCATACTAACTAAAATAATAATTAAGGTTTTT
1 ACTAACAATAATACTAACCAAAATAATAATTAAGGTTTTT
* * *
14966243 ACTAATC-CTAATAACTAACCATAATAAT-ATTATTAGTTTTTT
1 ACTAA-CAATAAT-ACTAACCAAAATAATAATTA--AGGTTTTT
14966285 ACTAACAATAATACTAA
1 ACTAACAATAATACTAA
14966302 GTAACAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
40 12 0.25
41 20 0.42
42 16 0.33
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.36
Consensus pattern (40 bp):
ACTAACAATAATACTAACCAAAATAATAATTAAGGTTTTT
Found at i:14966544 original size:3 final size:3
Alignment explanation
Indices: 14966536--14966600 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
14966526 CCTGCGCCAC
* **
14966536 CTT CTT CTT CTT CTT CTT CTC CTT CTT CAG CTCT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT CTT CTT CTT
* * *
14966582 CTC CTT CTC CTT CTC CTT C
1 CTT CTT CTT CTT CTT CTT C
14966601 AGCTGGGCTG
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 47 0.96
4 2 0.04
ACGTcount: A:0.02, C:0.42, G:0.02, T:0.55
Consensus pattern (3 bp):
CTT
Found at i:14967613 original size:40 final size:40
Alignment explanation
Indices: 14967563--14967646 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
14967553 TTCAATGCAA
*
14967563 ATTTCAAAGGCCTCACACCCTTTTTTTTTTCATTT-ATTTC
1 ATTTAAAAGGCCTCACACCC-TTTTTTTTTCATTTCATTTC
*
14967603 ATTTAAAAGGCCTCACATCCTTTTTTTTTCATTTCATTTC
1 ATTTAAAAGGCCTCACACCCTTTTTTTTTCATTTCATTTC
14967643 ATTT
1 ATTT
14967647 TTATTTCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 14 0.34
40 27 0.66
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (40 bp):
ATTTAAAAGGCCTCACACCCTTTTTTTTTCATTTCATTTC
Found at i:14967652 original size:16 final size:17
Alignment explanation
Indices: 14967627--14967658 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14967617 ACATCCTTTT
14967627 TTTTTCATTTCATTTCA
1 TTTTTCATTTCATTTCA
14967644 TTTTT-ATTTCATTTC
1 TTTTTCATTTCATTTC
14967659 CATTACCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTCATTTCATTTCA
Found at i:14967797 original size:49 final size:49
Alignment explanation
Indices: 14967691--14967833 Score: 216
Period size: 49 Copynumber: 2.9 Consensus size: 49
14967681 TTCATTCTAA
14967691 TTTA-ATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCTCATTTCAT
1 TTTATATTTAAATTTTCTATTTTCAATGC-AA---ATTTTTTTCTCATTTCAT
*
14967743 TTTATATTTAAAATTTCTATTTTCAATGCAAATTTTTTTCTCATTTCAT
1 TTTATATTTAAATTTTCTATTTTCAATGCAAATTTTTTTCTCATTTCAT
* *
14967792 TTTATATTTAAATTTTCTATTTTCAATTCAATTTTTTTTCTC
1 TTTATATTTAAATTTTCTATTTTCAATGCAAATTTTTTTCTC
14967834 CTCATTTAAA
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
49 57 0.66
52 6 0.07
53 23 0.27
ACGTcount: A:0.27, C:0.12, G:0.01, T:0.60
Consensus pattern (49 bp):
TTTATATTTAAATTTTCTATTTTCAATGCAAATTTTTTTCTCATTTCAT
Found at i:14970339 original size:112 final size:112
Alignment explanation
Indices: 14970142--14970368 Score: 445
Period size: 112 Copynumber: 2.0 Consensus size: 112
14970132 GACATCACGG
14970142 TAGGACTGATCATCATTATCGGACCCTTCATCACTATCTTCCGTAGTGGCCAACACCTCTGGATG
1 TAGGACTGATCATCATTATCGGACCCTTCATCACTATCTTCCGTAGTGGCCAACACCTCTGGATG
*
14970207 GATCTCTAGACGAGGACACGAGTCTGGGGTGTTATACGAACATCCAC
66 GATCTCTAGACGAGGACACGAGTCTGGGGTATTATACGAACATCCAC
14970254 TAGGACTGATCATCATTATCGGACCCTTCATCACTATCTTCCGTAGTGGCCAACACCTCTGGATG
1 TAGGACTGATCATCATTATCGGACCCTTCATCACTATCTTCCGTAGTGGCCAACACCTCTGGATG
14970319 GATCTCTAGACGAGGACACGAGTCTGGGGTATTATACGAACATCCAC
66 GATCTCTAGACGAGGACACGAGTCTGGGGTATTATACGAACATCCAC
14970366 TAG
1 TAG
14970369 TGTTTGGATT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 114 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (112 bp):
TAGGACTGATCATCATTATCGGACCCTTCATCACTATCTTCCGTAGTGGCCAACACCTCTGGATG
GATCTCTAGACGAGGACACGAGTCTGGGGTATTATACGAACATCCAC
Found at i:14976352 original size:30 final size:32
Alignment explanation
Indices: 14976318--14976397 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 32
14976308 GCAATATATA
14976318 TTTTTTATTTTTAAAAATA-TTTTAAAATAC-
1 TTTTTTATTTTTAAAAATATTTTTAAAATACT
*
14976348 TTTTTTATTTTT-AAAGTATTTTTAAAATACT
1 TTTTTTATTTTTAAAAATATTTTTAAAATACT
14976379 TTTTTTAATTTTCTAAAAA
1 TTTTTT-ATTTT-TAAAAA
14976398 AAATTTTGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 5 0.12
30 23 0.53
31 6 0.14
32 5 0.12
33 1 0.02
34 3 0.07
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (32 bp):
TTTTTTATTTTTAAAAATATTTTTAAAATACT
Found at i:14977744 original size:40 final size:39
Alignment explanation
Indices: 14977698--14977834 Score: 179
Period size: 40 Copynumber: 3.4 Consensus size: 39
14977688 CGTTTGGACA
14977698 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAC
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAC
* *
14977737 ACAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTAT-C
1 A-AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAC
*
14977776 AAGAAAGCGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTAC
1 AA-AAA-CGCCGCTAAAAATCGAGCATTAGCGGCG-CTTTAC
*
14977817 AAAAAACGCCGCAAAAAA
1 -AAAAACGCCGCTAAAAA
14977835 CCTAAGCCCA
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
38 1 0.01
39 20 0.23
40 59 0.69
41 4 0.05
42 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAC
Found at i:14977928 original size:41 final size:41
Alignment explanation
Indices: 14977869--14978105 Score: 357
Period size: 41 Copynumber: 5.8 Consensus size: 41
14977859 GGACCTTTCG
* *
14977869 GGGCTTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * * *
14977910 GGGCTTTAGCGGCATTTTTGGAGAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
*
14977951 GGGCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
14977992 GGGCTTTAGCGGCGTTTTTGAATAAGCGCTGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * *
14978033 AGGCTTTAGCGGCGTTTTTGGAAAAGCGACGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
*
14978074 GGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
14978106 AAAAACATTT
Statistics
Matches: 176, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 176 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
Found at i:14979072 original size:55 final size:54
Alignment explanation
Indices: 14979010--14979126 Score: 182
Period size: 55 Copynumber: 2.1 Consensus size: 54
14979000 ATAATTGCAA
* *
14979010 AAGAGATAAT-ATTAATTTTAATATATTAAAATTATGATTATAGTTTAAATTATTT
1 AAGAGATAATAATCAATTAT-ATATATT-AAATTATGATTATAGTTTAAATTATTT
14979065 AAGAGATAATAGATCAATTATATATATTAAATTATGATTATAGTTTAAATTATTT
1 AAGAGATAATA-ATCAATTATATATATTAAATTATGATTATAGTTTAAATTATTT
14979120 AAGAGAT
1 AAGAGAT
14979127 TAGATCGGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
55 44 0.76
56 7 0.12
57 7 0.12
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (54 bp):
AAGAGATAATAATCAATTATATATATTAAATTATGATTATAGTTTAAATTATTT
Found at i:14979973 original size:3 final size:3
Alignment explanation
Indices: 14979965--14979999 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14979955 CATTGAGCTG
14979965 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
14980000 TTGGTTAATT
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:14983286 original size:27 final size:27
Alignment explanation
Indices: 14983256--14983311 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
14983246 AATTTTGAGG
*
14983256 TTTATAATTTATAATTTTTATTAATTA
1 TTTATAATTTATAACTTTTATTAATTA
** * *
14983283 TTTATGTTTTCTCACTTTTATTAATTA
1 TTTATAATTTATAACTTTTATTAATTA
14983310 TT
1 TT
14983312 ATTATTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTATAATTTATAACTTTTATTAATTA
Found at i:14983599 original size:43 final size:43
Alignment explanation
Indices: 14983540--14983785 Score: 366
Period size: 43 Copynumber: 5.7 Consensus size: 43
14983530 AAAGGTTTGA
* *
14983540 TCTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGG
* *
14983583 CCTATAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGATCATGG
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGG
* *
14983626 TCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGATCATGG
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGG
* * * *
14983669 TCTTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAGGTCATGG
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGG
* * *
14983712 CCTATAGTGGCGTTTGTGAGAAAAGCGCCGCTAAAGATCATGG
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGG
*
14983755 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
14983786 AAATACTTTT
Statistics
Matches: 182, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 182 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (43 bp):
TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGG
Found at i:14983774 original size:129 final size:129
Alignment explanation
Indices: 14983544--14983785 Score: 421
Period size: 129 Copynumber: 1.9 Consensus size: 129
14983534 GTTTGATCTA
* *
14983544 TAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGGAAAAAC
1 TAGCGGCATTTGTGGGAAAAGCGCCACTAAAGGTCATGGCCTATAGCGGCGTTTGTGAGAAAAAC
14983609 GCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGATCATGGTCTT
66 GCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGATCATGGTCTT
* * * *
14983673 TAGCGGCGTTTGTGGGAAAAGCGTCACTAAAGGTCATGGCCTATAGTGGCGTTTGTGAGAAAAGC
1 TAGCGGCATTTGTGGGAAAAGCGCCACTAAAGGTCATGGCCTATAGCGGCGTTTGTGAGAAAAAC
*
14983738 GCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
66 GCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAACGCCGC
14983786 AAATACTTTT
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 106 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (129 bp):
TAGCGGCATTTGTGGGAAAAGCGCCACTAAAGGTCATGGCCTATAGCGGCGTTTGTGAGAAAAAC
GCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGATCATGGTCTT
Found at i:14983979 original size:28 final size:28
Alignment explanation
Indices: 14983944--14984013 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
14983934 GTTTAGGGAT
*
14983944 TTTAGGGTTTAGGGTTTTGTTAAAATAG
1 TTTAGGGTTTAGGGTTTTGTTAAAATAA
*
14983972 TTTAGGGTATAGGGTTTTGTTAAAATAA
1 TTTAGGGTTTAGGGTTTTGTTAAAATAA
14984000 TTTA-GGTTTAGGGT
1 TTTAGGGTTTAGGGT
14984014 GTACGGTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 9 0.23
28 30 0.77
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (28 bp):
TTTAGGGTTTAGGGTTTTGTTAAAATAA
Found at i:14984080 original size:34 final size:34
Alignment explanation
Indices: 14984038--14984167 Score: 140
Period size: 34 Copynumber: 3.8 Consensus size: 34
14984028 TTTTAAAAAA
*
14984038 TAAATTAGGGTTTAGAGTTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTAGAGTTTTTTAAAAAATTAAT
* * * *
14984072 TAAATTAGGTTTTAGGGGTTTTAAATAAATAAATAAAT
1 TAAATTAGGGTTTA-GAGTTTT--TTAAA-AAATTAAT
*
14984110 AAAATTAGGGTTTAGAG-TTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGAGTTTTTTAA-AAAATTAAT
14984144 TAAATTAGGGTTT--AGTTTTTTAAA
1 TAAATTAGGGTTTAGAGTTTTTTAAA
14984168 TGATTTTGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
32 3 0.04
33 7 0.09
34 35 0.44
35 7 0.09
36 3 0.04
37 5 0.06
38 19 0.24
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (34 bp):
TAAATTAGGGTTTAGAGTTTTTTAAAAAATTAAT
Found at i:14984553 original size:125 final size:125
Alignment explanation
Indices: 14984226--14984623 Score: 532
Period size: 126 Copynumber: 3.2 Consensus size: 125
14984216 AGGATTTTGT
* * * *
14984226 TTTTTTTCTACATTAGTT-TCAGAAAAATTAATTTTGGGAAGACGGTTCTGAA-AAGATAATGTC
1 TTTTTTTCTACAGTAGTTCTTA-AAAAA-TAATTTTGAGAAGACGGTTCTGAACAA-ATAGTGTC
** *
14984289 AAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTAAAAGC
63 AAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGC
*
14984352 TTGTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAA
1 TTTTTTTCTACAGTAGTTCTT-AAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAA
* * *
14984417 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCTCATGTGGACGT
65 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGC
* * *
14984478 TTTTTTTCTACAGTAGTTCTTAAAAAATAATTTTGAGAAAATGGTTCTGAACAAATGGTGTCAAA
1 TTTTTTTCTACAGTAGTTCTTAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAA
** * * * *
14984543 AATACTTCAAGCAGGATGCACTATCAGCAAAATTGA-TGGAAAAAAAACTCCCACGTGGACAC
66 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATT-ACT-G-AAAAAAGCTCCCATGTGGACGC
14984605 TTTTTTTCTACAGTAGTTC
1 TTTTTTTCTACAGTAGTTC
14984624 CTGTTTGGCC
Statistics
Matches: 242, Mismatches: 24, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
125 72 0.30
126 125 0.52
127 44 0.18
128 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (125 bp):
TTTTTTTCTACAGTAGTTCTTAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAA
AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGC
Found at i:14986228 original size:24 final size:23
Alignment explanation
Indices: 14986172--14986228 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
14986162 AAAAACTTCT
14986172 ATTTTATTAAAAATATAAAAACA
1 ATTTTATTAAAAATATAAAAACA
14986195 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
14986220 ACTTTTATT
1 A-TTTTATT
14986229 TTATTAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 10 0.33
25 13 0.43
26 3 0.10
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:14986642 original size:18 final size:18
Alignment explanation
Indices: 14986616--14986669 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
14986606 GACTAGGCAA
* *
14986616 AGGAAACATATAGGGGTT
1 AGGATACATATAGGGGCT
*
14986634 AGGATACATATAAGGGCT
1 AGGATACATATAGGGGCT
14986652 AGGATACATATAAGGGGC
1 AGGATACATAT-AGGGGC
14986670 CCGGGGTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.39, C:0.09, G:0.31, T:0.20
Consensus pattern (18 bp):
AGGATACATATAGGGGCT
Found at i:14999791 original size:24 final size:24
Alignment explanation
Indices: 14999764--14999833 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
14999754 TTATTAACAT
14999764 TGTTCGTGAACATGTTCAATTAT-A
1 TGTTCGTGAACATGTTC-ATTATAA
* * * *
14999788 TGTTCATGAACATATTCGTTTTAA
1 TGTTCGTGAACATGTTCATTATAA
*
14999812 TATTCGTGAACATGTTCGATTA
1 TGTTCGTGAACATGTTC-ATTA
14999834 AGTTAAATGA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
23 3 0.09
24 30 0.86
25 2 0.06
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCATTATAA
Found at i:15000648 original size:27 final size:27
Alignment explanation
Indices: 15000617--15000668 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
15000607 AAGAATAAAG
15000617 ATGATCCTTGCTTTCCATTCAAGATAC
1 ATGATCCTTGCTTTCCATTCAAGATAC
15000644 ATGATCCTTGCTTTCCATTCAAGAT
1 ATGATCCTTGCTTTCCATTCAAGAT
15000669 GCTACTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (27 bp):
ATGATCCTTGCTTTCCATTCAAGATAC
Found at i:15001517 original size:41 final size:41
Alignment explanation
Indices: 15001500--15001653 Score: 290
Period size: 41 Copynumber: 3.8 Consensus size: 41
15001490 ACTTATAGCA
15001500 TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
1 TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
*
15001541 TGATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACC
1 TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
*
15001582 TGATTCAGATCACCGGCACGTAGCCTACTAGGTTTATAACC
1 TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
15001623 TGATTCAGATCACCGGCACGTAGCCTGCTAG
1 TGATTCAGATCACCGGCACGTAGCCTGCTAG
15001654 ACTTAAAGTC
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 109 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (41 bp):
TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
Found at i:15003630 original size:13 final size:13
Alignment explanation
Indices: 15003612--15003636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15003602 CAATCAAATG
15003612 CACACAAAATAAA
1 CACACAAAATAAA
15003625 CACACAAAATAA
1 CACACAAAATAA
15003637 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:15006478 original size:19 final size:20
Alignment explanation
Indices: 15006454--15006495 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
15006444 ACTAAACTTG
* *
15006454 AAAATTGGACTCGAG-ATCA
1 AAAATTGAACCCGAGAATCA
15006473 AAAATTGAACCCGAGAATCA
1 AAAATTGAACCCGAGAATCA
15006493 AAA
1 AAA
15006496 CCCGAGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (20 bp):
AAAATTGAACCCGAGAATCA
Found at i:15013849 original size:19 final size:19
Alignment explanation
Indices: 15013825--15013862 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15013815 TAGGGATTAG
*
15013825 TTAATTAGGTTTAATTAAC
1 TTAATTAGATTTAATTAAC
*
15013844 TTAATTATATTTAATTAAC
1 TTAATTAGATTTAATTAAC
15013863 AAAAAAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (19 bp):
TTAATTAGATTTAATTAAC
Found at i:15015201 original size:20 final size:19
Alignment explanation
Indices: 15015175--15015223 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
15015165 GGTTGGATGA
15015175 TTTTTTTTCTCTTCTCTCT
1 TTTTTTTTCTCTTCTCTCT
* *
15015194 TCTTTTTTTGTTTTCTCTCT
1 T-TTTTTTTCTCTTCTCTCT
*
15015214 TTTATTTTCT
1 TTTTTTTTCT
15015224 TCCTTCGATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCTCTTCTCTCT
Found at i:15018286 original size:22 final size:21
Alignment explanation
Indices: 15018253--15018305 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
15018243 TTTAGAAATT
* *
15018253 ATTTTTA-AAATTTTATGTAT
1 ATTTTTATAAAATTTATGTAC
* *
15018273 ATTTTTATAAAATTTGTGTGC
1 ATTTTTATAAAATTTATGTAC
15018294 ATTTTTATAAAA
1 ATTTTTATAAAA
15018306 AAAATTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (21 bp):
ATTTTTATAAAATTTATGTAC
Found at i:15018362 original size:15 final size:16
Alignment explanation
Indices: 15018330--15018369 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
15018320 AATACTTTTC
15018330 TATTTTTGAAGTTCAT
1 TATTTTTGAAGTTCAT
* *
15018346 TATTTTTTAA-TTTAT
1 TATTTTTGAAGTTCAT
15018361 TATTTTTGA
1 TATTTTTGA
15018370 TTTTTTAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (16 bp):
TATTTTTGAAGTTCAT
Found at i:15034653 original size:13 final size:13
Alignment explanation
Indices: 15034635--15034666 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15034625 TTTCCAGTAA
15034635 TTATGAATTTATT
1 TTATGAATTTATT
15034648 TTATGAATTTATT
1 TTATGAATTTATT
*
15034661 TGATGA
1 TTATGA
15034667 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:15037324 original size:42 final size:42
Alignment explanation
Indices: 15037198--15037351 Score: 125
Period size: 42 Copynumber: 3.7 Consensus size: 42
15037188 GCACATAAGT
* * * * *
15037198 GCTAAA-TGGAAACCCGTAAGGGTTGAACGGAAGCTCATAGGA
1 GCTAAACT-GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
* * * * *
15037240 ACTGAAC-GAAAACCCATAAGGGTTAATCTGAAGCTTAGAAGA
1 GCTAAACTG-AAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
* *
15037282 GCTAAACTGAAACCCATTAGGGTTAAACTGAATCTCAAAAGA
1 GCTAAACTGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
* * * *
15037324 GTTGAACTG-AACCTAGAAGGGTTAAACT
1 GCTAAACTGAAACCCATAAGGGTTAAACT
15037352 AAAACTCATA
Statistics
Matches: 88, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
41 17 0.19
42 70 0.80
43 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (42 bp):
GCTAAACTGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
Found at i:15038799 original size:12 final size:12
Alignment explanation
Indices: 15038782--15038807 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15038772 GATTTCGGTT
15038782 GTAAGTGGTGGC
1 GTAAGTGGTGGC
15038794 GTAAGTGGTGGC
1 GTAAGTGGTGGC
15038806 GT
1 GT
15038808 TATAAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.50, T:0.27
Consensus pattern (12 bp):
GTAAGTGGTGGC
Found at i:15042094 original size:50 final size:50
Alignment explanation
Indices: 15042022--15042146 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 50
15042012 TATCCCAAAT
* ** * ***
15042022 ATGGTCTTACATGGGAGTTCTCATATCAGTGCCCATGTCATGTCCCAGAC
1 ATGGTCTTACAGGGGACCTCTCATATCAGTGCCAACACCATGTCCCAGAC
** * * * *
15042072 ATGGTCTTATGGGGGACCTCTCATCTCGGTGTCAACACCATGTCGCAGAC
1 ATGGTCTTACAGGGGACCTCTCATATCAGTGCCAACACCATGTCCCAGAC
*
15042122 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACAGGGGACCTCTCATA
15042147 ACCTCAATGA
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
ATGGTCTTACAGGGGACCTCTCATATCAGTGCCAACACCATGTCCCAGAC
Found at i:15046929 original size:13 final size:14
Alignment explanation
Indices: 15046907--15046935 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15046897 AAGGGTGTAT
15046907 AAGAAGGAAAAGAA
1 AAGAAGGAAAAGAA
15046921 AAGAA-GAAAAGAA
1 AAGAAGGAAAAGAA
15046934 AA
1 AA
15046936 TGATTTGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAGAAGGAAAAGAA
Found at i:15056654 original size:30 final size:30
Alignment explanation
Indices: 15056587--15056654 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
15056577 GAAAATTTGA
* * * *
15056587 AAAGATTTTAAAATAAAACTTTTTATCTTG
1 AAAGAATTAAAAATAAAACTTCTTATCTTC
*
15056617 AATGAATTAAAAATAAAACGTTCTTAT-TTC
1 AAAGAATTAAAAATAAAAC-TTCTTATCTTC
15056647 AAAGAATT
1 AAAGAATT
15056655 TAAACATCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
30 25 0.81
31 6 0.19
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (30 bp):
AAAGAATTAAAAATAAAACTTCTTATCTTC
Found at i:15057239 original size:26 final size:26
Alignment explanation
Indices: 15057210--15057263 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
15057200 ATACATATAT
15057210 TATAGGAAA-TGT-ATGTATATATAAAA
1 TATA-GAAAGTGTAATGTAT-TATAAAA
15057236 TATAGAAAGTGTACATGTATTATAAAA
1 TATAGAAAGTGTA-ATGTATTATAAAA
15057263 T
1 T
15057264 GTATATGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 4 0.16
26 7 0.28
27 8 0.32
28 6 0.24
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (26 bp):
TATAGAAAGTGTAATGTATTATAAAA
Found at i:15060069 original size:7 final size:7
Alignment explanation
Indices: 15060059--15060084 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15060049 ACTGCTATTT
15060059 CCTATCC
1 CCTATCC
15060066 CCTATCC
1 CCTATCC
15060073 CCTATCC
1 CCTATCC
15060080 CCTAT
1 CCTAT
15060085 ATTTTACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.31
Consensus pattern (7 bp):
CCTATCC
Found at i:15071557 original size:16 final size:17
Alignment explanation
Indices: 15071536--15071569 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15071526 AAAGGTCACA
15071536 AAAAAAGA-CAAATTAC
1 AAAAAAGACCAAATTAC
15071552 AAAAAAGACCAAATTAC
1 AAAAAAGACCAAATTAC
15071569 A
1 A
15071570 CAATATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.68, C:0.15, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAAGACCAAATTAC
Found at i:15075082 original size:30 final size:28
Alignment explanation
Indices: 15075045--15075117 Score: 101
Period size: 30 Copynumber: 2.5 Consensus size: 28
15075035 AATTAATTAA
15075045 ATTTTTAAAAATAAAAAATATAAAAATAT
1 ATTTTTAAAAATAAAAAATATAAAAA-AT
* *
15075074 ATTTTTTAAAAACTAAAGATTATAAAAAAT
1 A-TTTTTAAAAA-TAAAAAATATAAAAAAT
15075104 ATTTTTAAAAATAA
1 ATTTTTAAAAATAA
15075118 TTAATTGCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 3 0.08
29 11 0.28
30 13 0.32
31 13 0.32
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (28 bp):
ATTTTTAAAAATAAAAAATATAAAAAAT
Found at i:15077261 original size:11 final size:10
Alignment explanation
Indices: 15077236--15077333 Score: 55
Period size: 10 Copynumber: 9.8 Consensus size: 10
15077226 TTTCATTACG
15077236 ATAA-TTTTT
1 ATAATTTTTT
15077245 ATAATTTTTT
1 ATAATTTTTT
15077255 ATGAA--TTTT
1 AT-AATTTTTT
15077264 AT-ATTTCTTT
1 ATAATTT-TTT
*
15077274 A-CATTTTTT
1 ATAATTTTTT
15077283 ATAATTTTCTT
1 ATAATTTT-TT
* * *
15077294 ATGACTTTAT
1 ATAATTTTTT
15077304 ATATATTTTTT
1 ATA-ATTTTTT
*
15077315 CTATATTTTTCT
1 ATA-ATTTTT-T
15077327 AT-ATTTT
1 ATAATTTT
15077334 ATAGATTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
7 1 0.01
9 15 0.21
10 28 0.40
11 24 0.34
12 2 0.03
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:15077265 original size:19 final size:19
Alignment explanation
Indices: 15077241--15077314 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 19
15077231 TTACGATAAT
15077241 TTTTATAATTTTTTATGAA
1 TTTTATAATTTTTTATGAA
* *
15077260 TTTTAT-ATTTCTTTA-CATT
1 TTTTATAATTT-TTTATGA-A
*
15077279 TTTTATAATTTTCTTATGAC
1 TTTTATAATTTT-TTATGAA
15077299 TTTATATATATTTTTT
1 TTT-TATA-ATTTTTT
15077315 CTATATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
18 5 0.11
19 17 0.39
20 10 0.23
21 7 0.16
22 5 0.11
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTTATGAA
Found at i:15077301 original size:28 final size:28
Alignment explanation
Indices: 15077248--15077302 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
15077238 AATTTTTATA
**
15077248 ATTTTTTATGAATTTTATATTTCTTTAC
1 ATTTTTTATGAATTTTATATGACTTTAC
*
15077276 ATTTTTTAT-AATTTTCTTATGACTTTA
1 ATTTTTTATGAATTTT-ATATGACTTTA
15077303 TATATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.64
Consensus pattern (28 bp):
ATTTTTTATGAATTTTATATGACTTTAC
Found at i:15105907 original size:15 final size:16
Alignment explanation
Indices: 15105881--15105910 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15105871 TACCAAATAT
15105881 GAATATAAAATTAAAC
1 GAATATAAAATTAAAC
15105897 GAATA-AAAATTAAA
1 GAATATAAAATTAAA
15105911 TCATGCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (16 bp):
GAATATAAAATTAAAC
Found at i:15108554 original size:17 final size:17
Alignment explanation
Indices: 15108528--15108568 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
15108518 CCATTAGTCA
15108528 TTCCCAACAT-GATGTTG
1 TTCCCAACATAGA-GTTG
*
15108545 TTCCCGACATAGAGTTG
1 TTCCCAACATAGAGTTG
15108562 TTCCCAA
1 TTCCCAA
15108569 AATGCTCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (17 bp):
TTCCCAACATAGAGTTG
Found at i:15113619 original size:24 final size:25
Alignment explanation
Indices: 15113592--15113638 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
15113582 GAGGAAAGTT
15113592 TAAAGAACATAAAA-GAAAAAAAAC
1 TAAAGAACATAAAACGAAAAAAAAC
** *
15113616 TAAATTACTTAAAACGAAAAAAA
1 TAAAGAACATAAAACGAAAAAAA
15113639 TATGGGGATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.70, C:0.09, G:0.06, T:0.15
Consensus pattern (25 bp):
TAAAGAACATAAAACGAAAAAAAAC
Found at i:15116869 original size:19 final size:19
Alignment explanation
Indices: 15116845--15116901 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
15116835 AAAATAAAAC
15116845 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTTTAA
*
15116864 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTT-TTAA
*
15116883 AATTTAAAA-AA-TTTTAA
1 AATTCAAAATAATTTTTAA
15116900 AA
1 AA
15116902 AAAAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 5 0.15
18 6 0.18
19 22 0.67
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTCAAAATAATTTTTAA
Found at i:15116902 original size:19 final size:19
Alignment explanation
Indices: 15116839--15116903 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
15116829 AAAAATAAAA
15116839 TAAAACAATTCAAAATAATTT
1 TAAAA-AATTCAAAA-AATTT
* *
15116860 T-TAAAATTCAAAATA-TT
1 TAAAAAATTCAAAAAATTT
*
15116877 TATAAAAATTTAAAAAATTT
1 TA-AAAAATTCAAAAAATTT
15116897 TAAAAAA
1 TAAAAAA
15116904 AAATTAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 25 0.69
20 6 0.17
21 1 0.03
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAAATTCAAAAAATTT
Found at i:15117008 original size:25 final size:25
Alignment explanation
Indices: 15116954--15117008 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
15116944 TCAAGTATCT
* * *
15116954 TATTTTTTAAATATTTTTATTTGAA
1 TATTTTTTAAATATATATATTTCAA
15116979 TATTTTTTAAATATATATAGTTTCAA
1 TATTTTTTAAATATATATA-TTTCAA
15117005 -ATTT
1 TATTT
15117009 ATGTGCTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (25 bp):
TATTTTTTAAATATATATATTTCAA
Found at i:15128314 original size:14 final size:16
Alignment explanation
Indices: 15128290--15128321 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15128280 ATAATTTATG
15128290 TAAACTAGAAG-GCAA
1 TAAACTAGAAGTGCAA
15128305 TAAA-TAGAAGTGCAA
1 TAAACTAGAAGTGCAA
15128320 TA
1 TA
15128322 GTGAATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (16 bp):
TAAACTAGAAGTGCAA
Found at i:15128780 original size:18 final size:18
Alignment explanation
Indices: 15128737--15128780 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
15128727 TCCCAATCCA
* *
15128737 AACCCAAGTATCCAACCC
1 AACCCAATTACCCAACCC
15128755 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
15128773 AACCCAAT
1 AACCCAAT
15128781 CATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:15129521 original size:33 final size:33
Alignment explanation
Indices: 15129479--15129547 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
15129469 TATAAAGTTT
15129479 ATATGTTGACCAAATGCTGGAAAATTAGCATAC
1 ATATGTTGACCAAATGCTGGAAAATTAGCATAC
15129512 ATATGTTGACCAAATGCTGGAAAATTAGCATAC
1 ATATGTTGACCAAATGCTGGAAAATTAGCATAC
15129545 ATA
1 ATA
15129548 CTCCCTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (33 bp):
ATATGTTGACCAAATGCTGGAAAATTAGCATAC
Found at i:15129711 original size:56 final size:56
Alignment explanation
Indices: 15129614--15129854 Score: 236
Period size: 57 Copynumber: 4.3 Consensus size: 56
15129604 TTACTGTTTG
* ** *
15129614 CATGCTGT-TATAAATTGAATTAAAGTTGTTGTTTGAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCT-TAAATTGAA-TAAAGCTACTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
15129671 CATACTGTCTTAAATTGAATCAAGCTACTGTTTTCGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCTTAAATTGAATAAAGCTACTGTTTTAGTGTTTCAAATTGAGCATTTT
* * ** *
15129727 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTT
1 CATGCTGTCTTAAATTGAA-TAAAGCTACTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * ** * * *
15129784 CATGTTGTCTTAAATTAAATTAAGCTGTTG-TTTAATGTTCCAAATTGAGTATTATT
1 CATGCTGTCTTAAATTGAATAAAGCTACTGTTTTAGTGTTTCAAATTGAGCATT-TT
*
15129840 -ATGCTGTCCTAAATT
1 CATGCTGTCTTAAATT
15129855 AAATTACAGT
Statistics
Matches: 154, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
55 32 0.21
56 58 0.38
57 63 0.41
58 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (56 bp):
CATGCTGTCTTAAATTGAATAAAGCTACTGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:15129772 original size:113 final size:113
Alignment explanation
Indices: 15129614--15129860 Score: 327
Period size: 113 Copynumber: 2.2 Consensus size: 113
15129604 TTACTGTTTG
* * *
15129614 CATGCTGTTATAAATTGAATTAAAGTTGTTGTTTGAGTGTTTCAAATTGAGCATTTTCATACTGT
1 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTGAGCATTTTCATACTGT
* ** *
15129679 CTTAAATTGAATCAAGCTACTGTTTTCGTGTTTCAAATTGAGCATT-TT
66 CTTAAATTAAATCAAGCTACTG-TTTAATGTTCCAAATTGAGCATTATT
* **
15129727 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTTCATGTTGT
1 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTGAGCATTTTCATACTGT
* ** *
15129792 CTTAAATTAAATTAAGCTGTTGTTTAATGTTCCAAATTGAGTATTATT
66 CTTAAATTAAATCAAGCTACTGTTTAATGTTCCAAATTGAGCATTATT
* *
15129840 -ATGCTGTCCTAAATTAAATTA
1 CATGCTGTCATAAATTGAATTA
15129861 CAGTGTTGCT
Statistics
Matches: 117, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
112 38 0.32
113 79 0.68
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.44
Consensus pattern (113 bp):
CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTGAGCATTTTCATACTGT
CTTAAATTAAATCAAGCTACTGTTTAATGTTCCAAATTGAGCATTATT
Found at i:15129785 original size:57 final size:57
Alignment explanation
Indices: 15129614--15129900 Score: 280
Period size: 56 Copynumber: 5.1 Consensus size: 57
15129604 TTACTGTTTG
* * *
15129614 CATGCTGTTATAAATTGAATTAAAGTTGTTGTTTGAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * ** *
15129671 CATACTGTCTTAAATTGAA-TCAAGCTACTGTTTTCGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
15129727 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * * * *
15129784 CATGTTGTCTTAAATTAAATT-AAGCTGTTG-TTTAATGTTCCAAATTGAGTATTATT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATT-TT
* * * * * * * *
15129840 -ATGCTGTCCTAAATTAAATTACAG-TGTTGCTTCAGTGTCTCAAAGTAAGCATTATT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATT-TT
15129896 -ATGCT
1 CATGCT
15129901 ATTGAAAAAT
Statistics
Matches: 190, Mismatches: 36, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
55 42 0.22
56 83 0.44
57 65 0.34
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (57 bp):
CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:15132492 original size:25 final size:27
Alignment explanation
Indices: 15132464--15132518 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
15132454 CATTTCAATT
15132464 ATGTGTTAAT-TTC-AAGACTTATGTA
1 ATGTGTTAATATTCAAAGACTTATGTA
*
15132489 A--TGTTAGTGATTCAAAGACTTATGTA
1 ATGTGTTAAT-ATTCAAAGACTTATGTA
15132515 ATGT
1 ATGT
15132519 TTCTAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
23 6 0.25
25 4 0.17
26 13 0.54
28 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (27 bp):
ATGTGTTAATATTCAAAGACTTATGTA
Found at i:15132553 original size:9 final size:9
Alignment explanation
Indices: 15132539--15132614 Score: 80
Period size: 9 Copynumber: 8.4 Consensus size: 9
15132529 GTAGTGATTC
15132539 AATTCGGTT
1 AATTCGGTT
*
15132548 AATTCGATT
1 AATTCGGTT
* *
15132557 AATTAGGGT
1 AATTCGGTT
* *
15132566 AATTTGGGT
1 AATTCGGTT
*
15132575 AATTCAGTT
1 AATTCGGTT
*
15132584 AATTCGGGT
1 AATTCGGTT
*
15132593 AATTTGGTT
1 AATTCGGTT
15132602 AATTCGGTT
1 AATTCGGTT
15132611 AATT
1 AATT
15132615 TTTAACCAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:15132577 original size:27 final size:27
Alignment explanation
Indices: 15132547--15132614 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
15132537 TCAATTCGGT
15132547 TAATTCGATTAATTAGGGTAATTTGGG
1 TAATTCGATTAATTAGGGTAATTTGGG
* *
15132574 TAATTC-AGTTAATTCGGGTAATTTGGT
1 TAATTCGA-TTAATTAGGGTAATTTGGG
*
15132601 TAATTCGGTTAATT
1 TAATTCGATTAATT
15132615 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (27 bp):
TAATTCGATTAATTAGGGTAATTTGGG
Found at i:15135443 original size:94 final size:93
Alignment explanation
Indices: 15135276--15135544 Score: 337
Period size: 94 Copynumber: 2.9 Consensus size: 93
15135266 ACCTCAAATT
* * * *
15135276 TTATCTTCCTAAAGTTGCAGTGGAGC-ATATGAAGCTACAAATCTTATACCCCTGAAGTTGCAGA
1 TTATCTTCCTAAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CCCTGAAGTTGCAGT
* * *
15135340 GGGTTGGATTGAATTTACCATAGAAAGTC
65 GGGTCGGATTGAAGTTACCATAGAAAGCC
15135369 TTATC-TCCTTAAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAG
1 TTATCTTCC-TAAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CCCTGAAGTTGCAG
**
15135433 TGGGTCGGATTGAAGTTACCATAGCGAGCC
64 TGGGTCGGATTGAAGTTACCATAGAAAGCC
* * * * * *
15135463 TTATCTTCCTGAAGTTA-CAGTGGAGAAAGATAAAGTTACAAATCCAATACCCTTAAAGTTGCAG
1 TTATCTTCCTAAAG-TAGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCC-TGAAGTTGCAG
15135527 TGGGTCGGATTGAAGTTA
64 TGGGTCGGATTGAAGTTA
15135545 GGCATAATTT
Statistics
Matches: 155, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
92 3 0.02
93 24 0.15
94 123 0.79
95 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (93 bp):
TTATCTTCCTAAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCTGAAGTTGCAGTG
GGTCGGATTGAAGTTACCATAGAAAGCC
Found at i:15135992 original size:64 final size:64
Alignment explanation
Indices: 15135913--15136053 Score: 246
Period size: 64 Copynumber: 2.2 Consensus size: 64
15135903 AATATTCTTA
*
15135913 AAATCCCTAAAAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAAAATGAAATCATG
1 AAATCCCTAAAAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAAAATAAAATCATG
* *
15135977 AAATCCCTAACAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAGAATAAAATCATG
1 AAATCCCTAAAAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAAAATAAAATCATG
*
15136041 AAATCCCTTAAAA
1 AAATCCCTAAAAA
15136054 CCAAATTGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 72 1.00
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (64 bp):
AAATCCCTAAAAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAAAATAAAATCATG
Found at i:15136037 original size:32 final size:32
Alignment explanation
Indices: 15135913--15136054 Score: 157
Period size: 32 Copynumber: 4.4 Consensus size: 32
15135903 AATATTCTTA
* *
15135913 AAATCCCTAAAAATTTTACAAATCAAATCATTG
1 AAATCCCTAAAACTATTACAAATCAAATCA-TG
* *
15135946 -AATCCCTAAAACTATTAAAAATGAAATCATG
1 AAATCCCTAAAACTATTACAAATCAAATCATG
*
15135977 AAATCCCTAACAA-TTTTACAAATCAAATCATTG
1 AAATCCCTAA-AACTATTACAAATCAAATCA-TG
*
15136010 -AATCCCTAAAACTATTA-AGAATAAAATCATG
1 AAATCCCTAAAACTATTACA-AATCAAATCATG
15136041 AAATCCCTTAAAAC
1 AAATCCC-TAAAAC
15136055 CAAATTGTGA
Statistics
Matches: 93, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
31 7 0.08
32 76 0.82
33 10 0.11
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.27
Consensus pattern (32 bp):
AAATCCCTAAAACTATTACAAATCAAATCATG
Found at i:15143082 original size:18 final size:18
Alignment explanation
Indices: 15143049--15143101 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
15143039 ATTCACCTAA
*
15143049 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
* *
15143068 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
15143086 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
15143102 CCCAATCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.42, C:0.47, G:0.02, T:0.09
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:15143284 original size:27 final size:27
Alignment explanation
Indices: 15143252--15143320 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
15143242 TGTAGTGATT
15143252 TAATTCGGTTAATTTGGGTAATTCAGG
1 TAATTCGGTTAATTTGGGTAATTCAGG
* * * *
15143279 TAATTCGGGTAATTCGGTTAATTCAGT
1 TAATTCGGTTAATTTGGGTAATTCAGG
*
15143306 TAATTTGGTTAATTT
1 TAATTCGGTTAATTT
15143321 TTAACCAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (27 bp):
TAATTCGGTTAATTTGGGTAATTCAGG
Found at i:15143320 original size:9 final size:9
Alignment explanation
Indices: 15143251--15143319 Score: 77
Period size: 9 Copynumber: 7.7 Consensus size: 9
15143241 ATGTAGTGAT
15143251 TTAATTCGG
1 TTAATTCGG
*
15143260 TTAATTTGG
1 TTAATTCGG
*
15143269 GTAATTCAGG
1 TTAATTC-GG
15143279 -TAATTCGG
1 TTAATTCGG
*
15143287 GTAATTCGG
1 TTAATTCGG
*
15143296 TTAATTCAG
1 TTAATTCGG
*
15143305 TTAATTTGG
1 TTAATTCGG
15143314 TTAATT
1 TTAATT
15143320 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
8 2 0.04
9 47 0.92
10 2 0.04
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (9 bp):
TTAATTCGG
Found at i:15143691 original size:51 final size:51
Alignment explanation
Indices: 15143618--15143718 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
15143608 CGTGCAGCAG
*
15143618 CAACATTATCCAGTCCATCTGATGTTGCAAAATCACCAACATATTCATCAA
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCATCAA
*
15143669 CAACATTATCCACTCCATCTGATGTTGGAAAATCACCAACATATTCATCA
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCATCA
15143719 GCAGCAACTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.37, C:0.28, G:0.08, T:0.28
Consensus pattern (51 bp):
CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCATCAA
Found at i:15143926 original size:33 final size:33
Alignment explanation
Indices: 15143889--15143963 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
15143879 CCTTTTCCAG
* * *
15143889 ATCACCTTCACTATCAGA-TTCTACCCCTTCATC
1 ATCACCCTCACCATCA-ACTTCTACCCCTTCAGC
*
15143922 ATCACCCTCCCCATCAACTTCTACCCCTTCAGC
1 ATCACCCTCACCATCAACTTCTACCCCTTCAGC
15143955 ATCACCCTC
1 ATCACCCTC
15143964 CTTAGTAGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.23, C:0.47, G:0.03, T:0.28
Consensus pattern (33 bp):
ATCACCCTCACCATCAACTTCTACCCCTTCAGC
Found at i:15145465 original size:44 final size:44
Alignment explanation
Indices: 15145415--15145792 Score: 166
Period size: 44 Copynumber: 8.3 Consensus size: 44
15145405 CTTATCTTAC
15145415 TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
1 TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
* * * *
15145459 TGAAGTTGCAGTGGATCGAA-TTGAAGA-TAC-AATTCTTATACCCC
1 TGAAGTTGCAGTGGAGC-AAGATGAA-ACTACAAATTC-TATATCCT
* * * *
15145503 TGAAGTTGCAGTGG-GTC-TGAATGAAATTACAATGGCAAATCTTATTTCCT
1 TGAAGTTGCAGTGGAG-CAAG-ATGAAACTAC-A----AATTC-TATATCCT
** * *
15145553 TGAAGTTGCAGTGGAATAAGATGAAGCTACAAATCCTATATCCT
1 TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
* * * * *
15145597 TGAAGTTGCAGTGGATC-AGATTAAAGATAC-AATTCCTATACCCC
1 TGAAGTTGCAGTGGAGCAAGATGAAA-CTACAAATT-CTATATCCT
* *** * * *
15145641 TGAAGTTGCAATGG-GTTGGAATGAAATTAC-AATGGTGAATCCTATCTCT
1 TGAAGTTGCAGTGGAGCAAG-ATGAAACTACAAAT--T--CT-ATATC-CT
* * * *
15145690 CGAAAGTTGCAGTGGAGCAATATGAAGCTACAAATCCTATATCCT
1 TG-AAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
* * * * * *
15145735 TAAAGTTGCAGTGGATC-GGATTAAA-TATACAATTCCTATACCCT
1 TGAAGTTGCAGTGGAGCAAGATGAAACTACA-AATT-CTATATCCT
15145779 TGAAGTTGCAGTGG
1 TGAAGTTGCAGTGG
15145793 GTCAGAATGA
Statistics
Matches: 245, Mismatches: 60, Indels: 58
0.67 0.17 0.16
Matches are distributed among these distances:
42 3 0.01
43 22 0.09
44 138 0.56
45 13 0.05
46 5 0.02
47 2 0.01
48 3 0.01
49 3 0.01
50 51 0.21
51 5 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
Found at i:15145628 original size:94 final size:93
Alignment explanation
Indices: 15145455--15145956 Score: 216
Period size: 94 Copynumber: 5.4 Consensus size: 93
15145445 AAATTCTATA
* * * *
15145455 TCCTTGAAGTTGCAGTGGATCGAATTGAAGATACAATTCTTATACCCCTGAAGTTGCAGTGGGTC
1 TCCTTGAAGTTGCAGTGGATC-AAATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGGATC
* *
15145520 TGAATGAAATTACAATGGCAAATCTTATT
65 AGAATGAAAATACAATGGCAAATCTTATT
* * *
15145549 TCCTTGAAGTTGCAGTGGAAT-AAGATGAAGCTACAAATCCTATATCCTTGAAGTTGCAGTGGAT
1 TCCTTGAAGTTGCAGTGG-ATCAA-ATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGGAT
* * *
15145613 CAG-ATTAAAGATACAAT------TCCTATA
64 CAGAATGAAA-ATACAATGGCAAATCTTATT
* * * * ** *
15145637 CCCCTGAAGTTGCAATGGGTTGGAATGAA-ATTACAATGGTGAATCCTAT--CTCTCGAAAGTTG
1 TCCTTGAAGTTGCAGT-GGATCAAATGAAGA-TAC-A-----AATCCTATACCCCT-G-AAGTTG
* * * * *
15145699 CAGTGGAGCA-ATATG--AA-GC--T-ACAAATCCTATA
56 CAGTGGATCAGA-ATGAAAATACAATGGCAAATCTTATT
* * * * * * * *
15145731 TCCTTAAAGTTGCAGTGGATCGGATTAAATATACAATTCCTATACCCTTGAAGTTGCAGTGGGTC
1 TCCTTGAAGTTGCAGTGGATC-AAATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGGATC
* * **
15145796 AGAATGAAATTATAATGGTGAATCTTATCT
65 AGAATGAAAATACAATGGCAAATCTTAT-T
* * * * * * * *
15145826 TCC-TGAAGTTGCAGTGGAACAAGATAAAGATACAAATCCAATACCCATAAAGTTACAGTGGGTT
1 TCCTTGAAGTTGCAGTGGATCAA-ATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGGATC
* * * * *
15145890 AGATTGAAACTACCATGGCGAATCTTATC
65 AGAATGAAAATACAATGGCAAATCTTATT
* * *
15145919 TCCTT-AAGGATGCAGTGGAGCAAAATGAAGCTACAAAT
1 TCCTTGAA-GTTGCAGTGGATC-AAATGAAGATACAAAT
15145957 ATTATATCCC
Statistics
Matches: 306, Mismatches: 65, Indels: 74
0.69 0.15 0.17
Matches are distributed among these distances:
88 51 0.17
89 7 0.02
90 3 0.01
91 1 0.00
92 3 0.01
93 20 0.07
94 211 0.69
95 10 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (93 bp):
TCCTTGAAGTTGCAGTGGATCAAATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGGATCA
GAATGAAAATACAATGGCAAATCTTATT
Found at i:15145650 original size:138 final size:137
Alignment explanation
Indices: 15145401--15145864 Score: 657
Period size: 138 Copynumber: 3.4 Consensus size: 137
15145391 TTACTATAAC
* * * *
15145401 GAATCTTATCTTACTGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCTTGAAGTT
1 GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAGTT
* *
15145466 GCAGTGGATCGAATTGAAGATACAATTCTTATACCCCTGAAGTTGCAGTGGGTCTGAATGAAATT
66 GCAGTGGATCG-ATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCTGAATGAAATT
*
15145531 ACAATGGC
130 ACAATGGT
* *
15145539 AAATCTTAT-TTCCTTGAAGTTGCAGTGGAATAAGATGAAGCTACAAATCCTATATCCTTGAAGT
1 GAATCTTATCTTCC-TGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAGT
*
15145603 TGCAGTGGATCAGATTAAAGATACAATTCCTATACCCCTGAAGTTGCAATGGGT-TGGAATGAAA
65 TGCAGTGGATC-GATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCT-GAATGAAA
15145667 TTACAATGGT
128 TTACAATGGT
* * * *
15145677 GAATCCTATC-T-CTCGAAAGTTGCAGTGGAGCAATATGAAGCTACAAATCCTATATCCTTAAAG
1 GAATCTTATCTTCCT-G-AAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAG
* * *
15145740 TTGCAGTGGATCGGATTAAATATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAA
64 TTGCAGTGGATC-GATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCTGAATGAAA
*
15145805 TTATAATGGT
128 TTACAATGGT
* *
15145815 GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATAAAGATACAAATCC
1 GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCC
15145865 AATACCCATA
Statistics
Matches: 290, Mismatches: 27, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
136 1 0.00
137 6 0.02
138 278 0.96
139 3 0.01
140 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (137 bp):
GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAGTT
GCAGTGGATCGATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCTGAATGAAATTA
CAATGGT
Done.