Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 15 of 52
Found at i:2357678 original size:42 final size:43
Alignment explanation
Indices: 2357217--2357701 Score: 238
Period size: 42 Copynumber: 11.4 Consensus size: 43
2357207 GTCCATCGGT
* * ** *
2357217 TTAGACCCAGGAAACTT-CTTCATCCATTTTTTGCCTGTCGAC
1 TTAGACCCGGGAGACTTCCTTCATCCATAGTTTGCCCGTCGAC
* * * *
2357259 TTAGTCTCGGGAGACTTCCTTTATCAATCA-TTTGCCCGTC-AGC
1 TTAGACCCGGGAGACTTCCTTCATCCAT-AGTTTGCCCGTCGA-C
** * * *
2357302 TTAGAGTCGAGAAACTT-CTTCATCCATAGTCTGCCCGTCGAC
1 TTAGACCCGGGAGACTTCCTTCATCCATAGTTTGCCCGTCGAC
* * * * * * **
2357344 TCAGTCCTGGGAGACTTCCTTTATCAATCA-TCTATCCGTCGAC
1 TTAGACCCGGGAGACTTCCTTCATCCAT-AGTTTGCCCGTCGAC
* * * * * *
2357387 TTAGACCCGAGAGACTT-TTTCATCCATCGTCTGCCCATCGGC
1 TTAGACCCGGGAGACTTCCTTCATCCATAGTTTGCCCGTCGAC
* * * * * * * ** * * *
2357429 TCAGTCTCGGGATACTTTCTTTATCAACCGTCTGCCTAGT-GGC
1 TTAGACCCGGGAGACTTCCTTCATCCATAGTTTGCC-CGTCGAC
** * *
2357472 TTAGACTTGGGAGACTT-CTTCATCCATAGTTTGCTCGTCAAC
1 TTAGACCCGGGAGACTTCCTTCATCCATAGTTTGCCCGTCGAC
* * * * * * ** * *
2357514 TCAGTCCCAGGAAACTTCCTTTATCAACCGTCTGCCCATCGAC
1 TTAGACCCGGGAGACTTCCTTCATCCATAGTTTGCCCGTCGAC
* * * *
2357557 TTAAACTCGGGAGACGTT--TTCATCCATTGTTTGCCCATCGA-
1 TTAGACCCGGGAGAC-TTCCTTCATCCATAGTTTGCCCGTCGAC
* * * * * *
2357598 TTCAGTCCCGGGAGACTTCCTTTATCAATCGTCTGCCCGTCAAC
1 TT-AGACCCGGGAGACTTCCTTCATCCATAGTTTGCCCGTCGAC
2357642 TTAGACCCGGGAGAC-TCCTTCATCCATAGTTTGCCCGTCGAC
1 TTAGACCCGGGAGACTTCCTTCATCCATAGTTTGCCCGTCGAC
* *
2357684 TTAGTCTCGGGAGACTTC
1 TTAGACCCGGGAGACTTC
2357702 TGTCACAACG
Statistics
Matches: 321, Mismatches: 104, Indels: 35
0.70 0.23 0.08
Matches are distributed among these distances:
41 7 0.02
42 157 0.49
43 151 0.47
44 6 0.02
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.32
Consensus pattern (43 bp):
TTAGACCCGGGAGACTTCCTTCATCCATAGTTTGCCCGTCGAC
Found at i:2358933 original size:28 final size:28
Alignment explanation
Indices: 2358874--2358941 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
2358864 ATAAAGCCGG
** * * *
2358874 GGTTGGAGTATCCCCTCGGAAGTAATGG
1 GGTTGGAGTATCCCCGAGGAAATAACGA
*
2358902 GGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCGAGGAAATAACGA
*
2358930 GGTTGAAGTATC
1 GGTTGGAGTATC
2358942 ATCGATTGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGAGGAAATAACGA
Found at i:2359002 original size:51 final size:51
Alignment explanation
Indices: 2358944--2359046 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 51
2358934 GAAGTATCAT
* *
2358944 CGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTGGAATATCCC
1 CGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGAGTTCGAATATCCC
* * * * *
2358995 CGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGGGTTCGAGTATCCC
1 CGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGAGTTCGAATATCCC
2359046 C
1 C
2359047 TCAAAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
CGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGAGTTCGAATATCCC
Found at i:2359065 original size:79 final size:80
Alignment explanation
Indices: 2358982--2359157 Score: 273
Period size: 80 Copynumber: 2.2 Consensus size: 80
2358972 TAAAATCGGA
* * * * *
2358982 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCG-GGGTTCGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGGTTCGAGTATCCC
*
2359046 CTCAAAAATAACGGG
66 CTCAAAAATAACGAG
* *
2359061 GTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGGTTCGAGTATCCC
2359126 CTCAAAAATAACGAG
66 CTCAAAAATAACGAG
2359141 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
2359158 GATTAACGGG
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 43 0.49
80 44 0.51
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (80 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGGTTCGAGTATCCC
CTCAAAAATAACGAG
Found at i:2359082 original size:237 final size:239
Alignment explanation
Indices: 2358766--2359284 Score: 679
Period size: 237 Copynumber: 2.2 Consensus size: 239
2358756 CCTAATTATA
* * * * *
2358766 GAAAA-TAGATGTTTCAAAAATAAAGTCGGGATTGGAGTATCCCCGTGAAAATAATAGGGTTGGA
1 GAAAATTAG-TGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGTAAAAATAACAGGGTTGGA
* * * **
2358830 GTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCG-GGGTTGGAGTATCCCCTCGGA
65 GTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAACCGAGGGTTGGAGTATCCCCTCAAA
* * * *
2358894 AGTAATGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGAAGTATCATCGATTGTGAAAAATT
130 AATAACGAGGTTGGAGTATCCCCGATG-AATAACGAGGTTGAAGTATCACCGATTGTGAAAAATT
**
2358959 AGTG-TTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATT-GTG
194 AGTGTTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTAAAG
* * * * *
2359003 GAGAATTGGTGTTTTAGAAATAAAATCGGGGTTCGAGTATCCCC-TCAAAAATAACGGGGTTGGA
1 GAAAATTAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGT-AAAAATAACAGGGTTGGA
* * ** * *
2359067 GTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGGTTGGAGTATCCCCTCAAA
65 GTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAACCGAGGGTTGGAGTATCCCCTCAAA
* * * *
2359132 AATAACGAGGTTGGAGTATCCCCGATGATTAACGGGGTTGAAGTATCCCCGATTGTGAAAAATTG
130 AATAACGAGGTTGGAGTATCCCCGATGAATAACGAGGTTGAAGTATCACCGATTGTGAAAAATTA
*
2359197 GTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
195 GTGTTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTAAAG
*
2359242 GAAAATTAGTGTTTTAAAAATAAAACCGGGGTTGGAGTATCCC
1 GAAAATTAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCC
2359285 GATTGTGGAA
Statistics
Matches: 240, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
236 1 0.00
237 119 0.50
238 81 0.34
239 39 0.16
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (239 bp):
GAAAATTAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGTAAAAATAACAGGGTTGGAG
TATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAACCGAGGGTTGGAGTATCCCCTCAAAA
ATAACGAGGTTGGAGTATCCCCGATGAATAACGAGGTTGAAGTATCACCGATTGTGAAAAATTAG
TGTTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTAAAG
Found at i:2359331 original size:102 final size:103
Alignment explanation
Indices: 2359164--2359401 Score: 372
Period size: 102 Copynumber: 2.3 Consensus size: 103
2359154 CGATGATTAA
* * *
2359164 CGGGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCGGAGTTGGAGTA
2359229 TCCCCGATTAAAGGAAAATTAGTGTTTTAAAAATAAAAC
66 TCCCCGATT-AAGGAAAATTAGTGTTTTAAAAATAAAAC
*
2359268 CGGGGTTGGAGTAT-CCCGATTGTGGAAAATTGGTG-TTTCGAAAATAAAATCGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCGGAGTTGGAGTA
** *
2359331 TCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
66 TCCCCGATTAAGGAAAATTAGTGTTTTAAAAATAAAAC
* *
2359369 CAGGGTTGGAGTATCCCCGATTATGAAAAATTG
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTG
2359402 AGAAACTTAA
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
101 39 0.32
102 51 0.41
103 20 0.16
104 13 0.11
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.29
Consensus pattern (103 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCGGAGTTGGAGTA
TCCCCGATTAAGGAAAATTAGTGTTTTAAAAATAAAAC
Found at i:2359355 original size:51 final size:51
Alignment explanation
Indices: 2359168--2359400 Score: 283
Period size: 51 Copynumber: 4.5 Consensus size: 51
2359158 GATTAACGGG
* * * * *
2359168 GTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTGAAAATAAAACCGGA
** * *
2359220 GTTGGAGTATCCCCGATTAAAGGAAAATTAGTGTTTTAAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGGAAAATTAGTGTTTTGAAAATAAAACCGGA
* * *
2359272 GTTGGAGTAT-CCCGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGAAAATAAAACCGGA
2359322 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTT-AGAAATAAAACCAGG-
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGA-AAATAAAACC-GGA
* *
2359373 GTTGGAGTATCCCCGATTATGAAAAATT
1 GTTGGAGTATCCCCGATTGTGGAAAATT
2359401 GAGAAACTTA
Statistics
Matches: 156, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
50 37 0.24
51 65 0.42
52 44 0.28
53 10 0.06
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGAAAATAAAACCGGA
Found at i:2361844 original size:19 final size:21
Alignment explanation
Indices: 2361820--2361871 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
2361810 AGCGATACAC
* *
2361820 TGTATCGATATA-TTACT-TA
1 TGTATCGATACATTTACTGAA
2361839 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
2361860 TGTATCGATACA
1 TGTATCGATACA
2361872 AATTATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.38
20 5 0.17
21 13 0.45
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:2362682 original size:42 final size:41
Alignment explanation
Indices: 2362592--2362696 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 41
2362582 CGTCTCATTT
* * * *
2362592 TTTGAGGACAAAGGAAAAAGGGAAACGAAATACGTCTTGCTC
1 TTTGAGGACAAAAGAAAAA-GGAAAAGAAATACGTCCTACTC
* * *
2362634 TCTGAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCCTACTC
1 TTTGAGGACAAAAGAAAAAGGAAAAGAAA-TACGTCCTACTC
2362676 TTTGAGGACAAAAGAGAAAAG
1 TTTGAGGACAAAAGA-AAAAG
2362697 AAGGGAAGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 8 0.15
42 40 0.75
43 5 0.09
ACGTcount: A:0.45, C:0.13, G:0.25, T:0.17
Consensus pattern (41 bp):
TTTGAGGACAAAAGAAAAAGGAAAAGAAATACGTCCTACTC
Found at i:2362937 original size:122 final size:123
Alignment explanation
Indices: 2362718--2362944 Score: 323
Period size: 122 Copynumber: 1.8 Consensus size: 123
2362708 GTGTGCCCTA
* *
2362718 CTCTTTCAGGACTGAAAAGTGCCACCAACTCGTGTGGGGGCTTTGAAAAGAAAAGGTGTCCTGCC
1 CTCTTTCAAGACTGAAAAGTGCCACCAACTC-TGTGGGGGCTTTGAAAAGAAAAGGCGTCCTGCC
* *
2362783 CTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTG
65 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTG
* * * *
2362842 CTCTTTGAAGACTGAAAAGTGCCACCAACT-TGTGTGGGCTTT-AAAAGGAGAAGGCGTCCTGCT
1 CTCTTTCAAGACTGAAAAGTGCCACCAACTCTGTGGGGGCTTTGAAAA-GAAAAGGCGTCCTGCC
***
2362905 CTTTGAGGACTGAAAAGTGCCACTGGCTTGTGTGGGCTTT
65 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
2362945 AAAAGGCATC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
121 4 0.04
122 59 0.65
124 28 0.31
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (123 bp):
CTCTTTCAAGACTGAAAAGTGCCACCAACTCTGTGGGGGCTTTGAAAAGAAAAGGCGTCCTGCCC
TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTG
Found at i:2362950 original size:61 final size:61
Alignment explanation
Indices: 2362718--2362949 Score: 290
Period size: 61 Copynumber: 3.8 Consensus size: 61
2362708 GTGTGCCCTA
* * * *
2362718 CTCTTTCAGGACTGAAAAGTGCCACCAACTCGTGTGGGGGCTTTGAAAAGAAAAGGTGTCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACT--TGTGTGGGCTTTGAAAAGAGAAGGCGTCCTG
* * * * *
2362781 CCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAAGCATCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAGGCGTCCTG
*
2362842 CTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAGGCGTCCTG
***
2362903 CTCTTTGAGGACTGAAAAGTGCCACTGGCTTGTGTGGGCTTT-AAAAG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
2362950 GCATCCTGCT
Statistics
Matches: 147, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
59 4 0.03
60 1 0.01
61 112 0.76
62 4 0.03
63 26 0.18
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (61 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCGTCCTG
Found at i:2363078 original size:61 final size:60
Alignment explanation
Indices: 2362992--2363304 Score: 416
Period size: 61 Copynumber: 5.3 Consensus size: 60
2362982 GGAGAGAGCA
*
2362992 TCCTGCTCTTTGAGGACT-AGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
*
2363053 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
2363113 TCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTATGTGGGCTTTGAAAAGGAAAA-GCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAA-GAAAAGGCG
* **
2363174 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAG---AGATG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
2363229 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
2363284 TCCTGCTCTTTGAGGACTGAA
1 TCCTGCTCTTTGAGGACTGAA
2363305 GGGTGAAAGG
Statistics
Matches: 231, Mismatches: 15, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
53 1 0.00
54 1 0.00
55 70 0.30
57 1 0.00
58 2 0.01
60 52 0.23
61 98 0.42
62 6 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:2363206 original size:121 final size:117
Alignment explanation
Indices: 2362992--2363279 Score: 438
Period size: 121 Copynumber: 2.4 Consensus size: 117
2362982 GGAGAGAGCA
*
2362992 TCCTGCTCTTTGAGGACTAGG-AAATGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTC
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCATC
*
2363055 CTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
65 CTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT--AAG---AGACG
* *
2363113 TCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTATGTGGGCTTTGAAAAGGAAAA-GCATCC
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCATCC
* * *
2363177 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGATG
66 TACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGACG
2363229 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
2363280 GGCGTCCTGC
Statistics
Matches: 156, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
116 52 0.33
119 3 0.02
120 2 0.01
121 89 0.57
122 10 0.06
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (117 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCATCC
TACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGACG
Found at i:2363365 original size:331 final size:336
Alignment explanation
Indices: 2362714--2363406 Score: 1010
Period size: 331 Copynumber: 2.1 Consensus size: 336
2362704 GGAAGTGTGC
* * *
2362714 CCTACTCTTTCAGGACTGAAAAGTGCCACCAACTCGTGTGGGGGCTTTGAAAAGAAAAGGTGTCC
1 CCTACTCTTTGAGGACTGAAAAATGCCACCAACTC-TGTGGGGGCTTTGAAAAGAAAAGGCGTCC
** *
2362779 TGCCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCT
65 TGCCCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGCAAAAAGAAAGCATCCTGCT
2362844 CTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTT
130 CTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAGAA-GCGTCCTGCTCTTT
***
2362909 GAGGACTGAAAAGTGCCACTGGCTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTAAGGACAAAA
193 GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTAAGGACAAAA
*
2362974 AGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTT
258 AGGCGAAAGGAGAGAGCACCCTGCTCTTTGAGGACTA-GAAATGCCACCAACTTGTGTGGGCTTT
*
2363039 AAAAGGAAAAGGCGT
322 AAAAGGAAAAGGCAT
*
2363054 CCTACTCTTTGAGGACTGAAAAATGCCACCAACT-TGTGTGGGCTTT-AAAAGAAAAGGCGTCCT
1 CCTACTCTTTGAGGACTGAAAAATGCCACCAACTCTGTGGGGGCTTTGAAAAGAAAAGGCGTCCT
* * *
2363117 GCTCTTTGAGGACTGGAAAATGCCACCCACTTATGTGGGCTTTG-AAAAGGAAAAGCATCCTGCT
66 GCCCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGCAAAAAG-AAAGCATCCTGCT
* *
2363181 CTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AA-GAG-A-TGTCCTGCTCTTTG
130 CTTTGAAGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAAGCGTCCTGCTCTTTG
* * * **
2363241 AGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAA
194 AGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTAAGGACAAAA
* * *
2363305 GGGTGAAAGGAGAGAGCGCCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTT
258 AGGCGAAAGGAGAGAGCACCCTGCTCTTTGAGGACTAGAAA--TGCCACCAACTTGTGTGGGCTT
2363369 TAAAAGGAAAAGGCAT
321 TAAAAGGAAAAGGCAT
2363385 CCTACTCTTTGAGGACTGAAAA
1 CCTACTCTTTGAGGACTGAAAA
2363407 GCGGAAGGAG
Statistics
Matches: 323, Mismatches: 25, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
329 3 0.01
331 155 0.48
332 5 0.02
333 1 0.00
334 3 0.01
335 2 0.01
336 5 0.02
337 101 0.31
338 16 0.05
340 32 0.10
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (336 bp):
CCTACTCTTTGAGGACTGAAAAATGCCACCAACTCTGTGGGGGCTTTGAAAAGAAAAGGCGTCCT
GCCCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGCAAAAAGAAAGCATCCTGCTC
TTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAAGCGTCCTGCTCTTTGAG
GACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTAAGGACAAAAAGG
CGAAAGGAGAGAGCACCCTGCTCTTTGAGGACTAGAAATGCCACCAACTTGTGTGGGCTTTAAAA
GGAAAAGGCAT
Found at i:2364396 original size:1 final size:1
Alignment explanation
Indices: 2364390--2364445 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
2364380 TTTCTCTTTG
* * * ** *
2364390 TTTTTTTTTTGTTTTTTTTGTTTTTGTTTTTTTTTTGCTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2364446 AAAAGAGAAG
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:2364408 original size:26 final size:28
Alignment explanation
Indices: 2364379--2364436 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 28
2364369 CTTTTCTCTC
2364379 TTTTCTCTTTGTTTTTTTTTTG-TTTT-
1 TTTTCTCTTTGTTTTTTTTTTGCTTTTG
* *
2364405 TTTTGTTTTTGTTTTTTTTTTGCTTTTG
1 TTTTCTCTTTGTTTTTTTTTTGCTTTTG
2364433 TTTT
1 TTTT
2364437 TTTTTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 20 0.71
27 4 0.14
28 4 0.14
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.84
Consensus pattern (28 bp):
TTTTCTCTTTGTTTTTTTTTTGCTTTTG
Found at i:2364413 original size:17 final size:17
Alignment explanation
Indices: 2364393--2364443 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
2364383 CTCTTTGTTT
2364393 TTTTTTTGTTTTTTTTG-
1 TTTTTTT-TTTTTTTTGC
2364410 TTTTTGTTTTTTTTTTGC
1 TTTTT-TTTTTTTTTTGC
2364428 TTTTGTTTTTTTTTTT
1 TTTT-TTTTTTTTTTT
2364444 TTAAAAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 14 0.45
18 16 0.52
19 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTGC
Found at i:2364439 original size:26 final size:26
Alignment explanation
Indices: 2364386--2364445 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
2364376 CTCTTTTCTC
*
2364386 TTTGTTTTTTTTTTGTTTTTTTTGTT
1 TTTGTTTTTTTTTTGTTTTGTTTGTT
2364412 TTTGTTTTTTTTTTGCTTTTGTTT-TT
1 TTTGTTTTTTTTTTG-TTTTGTTTGTT
2364438 TTT-TTTTT
1 TTTGTTTTT
2364446 AAAAGAGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 5 0.16
26 20 0.62
27 7 0.22
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (26 bp):
TTTGTTTTTTTTTTGTTTTGTTTGTT
Found at i:2371822 original size:52 final size:52
Alignment explanation
Indices: 2371674--2371802 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2371664 CGAAATATGA
* *
2371674 AAATTTGCCTGCATATATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
*
2371726 AAATTTACCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
2371778 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2371803 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
Found at i:2371829 original size:13 final size:13
Alignment explanation
Indices: 2371811--2371835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2371801 CAAAGATCAG
2371811 TGTATCGATACAA
1 TGTATCGATACAA
2371824 TGTATCGATACA
1 TGTATCGATACA
2371836 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2371902 original size:19 final size:19
Alignment explanation
Indices: 2371878--2371935 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
2371868 TAGCTTACAT
2371878 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2371897 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
2371910 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
2371930 TGTATC
1 TGTATC
2371936 TGTCATAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
13 9 0.28
14 1 0.03
16 6 0.19
19 10 0.31
20 6 0.19
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2371914 original size:32 final size:33
Alignment explanation
Indices: 2371873--2371935 Score: 119
Period size: 32 Copynumber: 1.9 Consensus size: 33
2371863 GGCAGTAGCT
2371873 TACATTGTATCGATACAACAC-TTATGTATCGA
1 TACATTGTATCGATACAACACTTTATGTATCGA
2371905 TACATTGTATCGATACAACACTTTATGTATC
1 TACATTGTATCGATACAACACTTTATGTATC
2371936 TGTCATAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (33 bp):
TACATTGTATCGATACAACACTTTATGTATCGA
Found at i:2371915 original size:13 final size:13
Alignment explanation
Indices: 2371897--2371921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2371887 ACAACACTTA
2371897 TGTATCGATACAT
1 TGTATCGATACAT
2371910 TGTATCGATACA
1 TGTATCGATACA
2371922 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2375042 original size:33 final size:34
Alignment explanation
Indices: 2375005--2375071 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
2374995 ATTTGCCTGC
*
2375005 ATGTATCGATACA-TTGAATAGTGTATCGATACA
1 ATGTATCGATACATTTGAATAATGTATCGATACA
*
2375038 ATGTATCGATACATTTGAGTAATGTATCGATACA
1 ATGTATCGATACATTTGAATAATGTATCGATACA
2375072 TTTTTTGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (34 bp):
ATGTATCGATACATTTGAATAATGTATCGATACA
Found at i:2375044 original size:13 final size:13
Alignment explanation
Indices: 2375026--2375050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2375016 CATTGAATAG
2375026 TGTATCGATACAA
1 TGTATCGATACAA
2375039 TGTATCGATACA
1 TGTATCGATACA
2375051 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2375128 original size:33 final size:33
Alignment explanation
Indices: 2375091--2375157 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2375081 AGTAGCTTAA
2375091 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2375124 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2375157 A
1 A
2375158 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2375131 original size:13 final size:13
Alignment explanation
Indices: 2375113--2375137 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2375103 CAAAAAAATA
2375113 TGTATCGATACAT
1 TGTATCGATACAT
2375126 TGTATCGATACA
1 TGTATCGATACA
2375138 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2376326 original size:52 final size:50
Alignment explanation
Indices: 2376193--2376572 Score: 360
Period size: 52 Copynumber: 7.7 Consensus size: 50
2376183 GAAAAGTGAT
* * * * * *
2376193 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-----A
* * * * * *
2376248 AAAGATGTCAATGTGCTGATTTAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--A
*
2376300 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--A
*
2376352 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGC-T-----T-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATA
* *
2376395 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATA
* * *
2376444 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATA
* *
2376487 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATA
* *
2376536 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
2376573 AGGCTTAGAA
Statistics
Matches: 273, Mismatches: 37, Indels: 36
0.79 0.11 0.10
Matches are distributed among these distances:
43 74 0.27
44 2 0.01
46 1 0.00
48 1 0.00
49 69 0.25
51 1 0.00
52 86 0.32
55 39 0.14
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (50 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATA
Found at i:2376413 original size:43 final size:44
Alignment explanation
Indices: 2376353--2376584 Score: 279
Period size: 43 Copynumber: 5.1 Consensus size: 44
2376343 AAAGGTGGAA
2376353 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAG
* * *
2376396 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT-----AG
*
2376445 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAG
* * *
2376488 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT-----AG
* *
2376537 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAG
2376581 AAGG
1 AAGG
2376585 GTTGCCACCG
Statistics
Matches: 161, Mismatches: 16, Indels: 23
0.81 0.08 0.12
Matches are distributed among these distances:
43 77 0.48
44 7 0.04
48 2 0.01
49 75 0.47
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (44 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAG
Found at i:2376490 original size:92 final size:92
Alignment explanation
Indices: 2376300--2376584 Score: 482
Period size: 92 Copynumber: 3.1 Consensus size: 92
2376290 TAAAGATGGA
* *
2376300 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAA-AAGGTGCCAAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA----GAAGAAGGTGCCAAT
*
2376364 ATGCTGATTCAAGGCCAGCTATATTGGGCTT
62 ATGCTGATTCAAGGCCAGCGATATTGGGCTT
2376395 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
2376460 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGGCTT
2376487 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
2376552 TGATTCAAGGCCAGCGATATTAGGCTT
66 TGATTCAAGGCCAGCGATATTGGGCTT
2376579 AGAAGG
1 A-AAGG
2376585 GTTGCCACCG
Statistics
Matches: 184, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
91 3 0.02
92 133 0.72
93 4 0.02
95 44 0.24
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGGCTT
Found at i:2376608 original size:30 final size:30
Alignment explanation
Indices: 2376577--2376664 Score: 113
Period size: 33 Copynumber: 2.8 Consensus size: 30
2376567 GATATTAGGC
2376577 TTAGAAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAA-GGTTGCCACCGACTTGTGTGGGCT
*
2376608 TTAGAGAATGGTTGCCACCAACTTGTGTGGGCT
1 TT--AGAA-GGTTGCCACCGACTTGTGTGGGCT
* *
2376641 TTAGAAGGTTGCTACTGACTTGTG
1 TTAGAAGGTTGCCACCGACTTGTG
2376665 GGCTTTTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
30 15 0.30
31 6 0.12
33 29 0.58
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (30 bp):
TTAGAAGGTTGCCACCGACTTGTGTGGGCT
Found at i:2376621 original size:33 final size:33
Alignment explanation
Indices: 2376579--2376645 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
2376569 TATTAGGCTT
*
2376579 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
2376612 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
2376645 A
1 A
2376646 AGGTTGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:2376700 original size:36 final size:35
Alignment explanation
Indices: 2376660--2376741 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 35
2376650 TGCTACTGAC
* * * *
2376660 TTGTGGGCTTTTAAAAGGAAAAAGAGTGCTATAGAG
1 TTGTGGGCTTTCAAAA-AAAAAAGAGTGCCACAGAG
* * *
2376696 TTGTGAGCTTACAAAAAAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTTCAAAAAAAAAAGAGTGCCACAGAG
*
2376731 TTGTGGACTTT
1 TTGTGGGCTTT
2376742 GGAAAAGATG
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
35 23 0.64
36 13 0.36
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (35 bp):
TTGTGGGCTTTCAAAAAAAAAAGAGTGCCACAGAG
Found at i:2376834 original size:57 final size:58
Alignment explanation
Indices: 2376714--2376921 Score: 222
Period size: 57 Copynumber: 3.6 Consensus size: 58
2376704 TTACAAAAAA
* * * * * * *
2376714 AAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
* * *
2376772 AAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGTTGCCACTGACTTGTGGGCTTTTG
1 -AAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGC-TTTG
* * *
2376830 AAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAAAAATGTCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTTG--AAAAGATGCCACTGACTTGTGGGCTTTG
* * *
2376890 AAAAAGATGTCACTGACTTGTGGGCTTTTGAA
1 AAAAGGGTGCCACTGACTTGTGGGCTTTTGAA
2376922 GGGTGAGGAA
Statistics
Matches: 125, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
57 43 0.34
58 12 0.10
59 21 0.17
60 30 0.24
61 19 0.15
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (58 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:2376921 original size:30 final size:29
Alignment explanation
Indices: 2376713--2376917 Score: 207
Period size: 30 Copynumber: 7.0 Consensus size: 29
2376703 CTTACAAAAA
* * *
2376713 AAAAAGAGTGCCACGGAGTTGTGGACTTTG
1 AAAAAGA-TGCCACTGACTTGTGGGCTTTG
* * *
2376743 GAAAAGATGCCACCGACTTGTGGGCTTCG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
* *
2376772 AAAAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAAA-GATGCCACTGACTTGTGGGCTTTG
* *
2376802 --AAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAAAAGATGCCACTGACTTGTGGGC-TTTG
* * *
2376830 AAAAGGGTGCCACTAACTTGTGGGCTTTTG
1 AAAAAGATGCCACTGACTTGTGGGC-TTTG
* *
2376860 AAAAAAAATGTCACTGACTTGTGGGCTTTG
1 -AAAAAGATGCCACTGACTTGTGGGCTTTG
*
2376890 AAAAAGATGTCACTGACTTGTGGGCTTT
1 AAAAAGATGCCACTGACTTGTGGGCTTT
2376918 TGAAGGGTGA
Statistics
Matches: 149, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.12
28 6 0.04
29 49 0.33
30 56 0.38
31 20 0.13
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (29 bp):
AAAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:2378379 original size:1 final size:1
Alignment explanation
Indices: 2378373--2378471 Score: 108
Period size: 1 Copynumber: 99.0 Consensus size: 1
2378363 GTTGTTGTTG
* * * * * * *
2378373 TTTTTTTTTCTTTTTTATTTTGTTTTTTTTTCTTTTTTTCTTTTTTTTTTGTTTTTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
2378438 TTTTGTTTTTTTTTTGTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2378472 GTGGAGGACG
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 78 1.00
ACGTcount: A:0.01, C:0.03, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:2378395 original size:22 final size:21
Alignment explanation
Indices: 2378370--2378468 Score: 121
Period size: 22 Copynumber: 4.6 Consensus size: 21
2378360 GTTGTTGTTG
2378370 TTGTTTTTTTTTCTTTTTTATT
1 TTGTTTTTTTTTCTTTTTT-TT
2378392 TTGTTTTTTTTTCTTTTTTTCT
1 TTGTTTTTTTTTCTTTTTTT-T
*
2378414 TT-TTTTTTTGT-TTTTTTTT
1 TTGTTTTTTTTTCTTTTTTTT
*
2378433 TTGTTTTTTGTTTTTTTTTTGTTT
1 TTG-TTTTT-TTTTCTTTTT-TTT
2378457 TTGTTTTTTTTT
1 TTGTTTTTTTTT
2378469 TTTGTGGAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
19 3 0.04
20 7 0.10
21 14 0.20
22 29 0.42
23 10 0.14
24 6 0.09
ACGTcount: A:0.01, C:0.03, G:0.07, T:0.89
Consensus pattern (21 bp):
TTGTTTTTTTTTCTTTTTTTT
Found at i:2378411 original size:18 final size:17
Alignment explanation
Indices: 2378370--2378471 Score: 125
Period size: 18 Copynumber: 5.9 Consensus size: 17
2378360 GTTGTTGTTG
*
2378370 TTGTTTTTTTTTCTTTT
1 TTGTTTTTTTTTTTTTT
* *
2378387 TTATTTTGTTTTTTTTTC
1 TTGTTTT-TTTTTTTTTT
*
2378405 TT-TTTTTCTTTTTTTT
1 TTGTTTTTTTTTTTTTT
2378421 TTGTTTTTTTTTTTGTTTT
1 TTG-TTTTTTTTTT-TTTT
*
2378440 TTGTTTTTTTTTTGTTT
1 TTGTTTTTTTTTTTTTT
2378457 TTGTTTTTTTTTTTT
1 TTGTTTTTTTTTTTT
2378472 GTGGAGGACG
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
16 10 0.14
17 27 0.37
18 29 0.40
19 7 0.10
ACGTcount: A:0.01, C:0.03, G:0.07, T:0.89
Consensus pattern (17 bp):
TTGTTTTTTTTTTTTTT
Found at i:2378418 original size:41 final size:41
Alignment explanation
Indices: 2378373--2378471 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
2378363 GTTGTTGTTG
2378373 TTTTTTTTTCTTTTTTATTTTGTTTTTT-TTTCTTTTTTTCT
1 TTTTTTTTTCTTTTTTATTTTGTTTTTTGTTT-TTTTTTTCT
* * *
2378414 TTTTTTTTTGTTTTTTTTTTTGTTTTTTGTTTTTTTTTTGT
1 TTTTTTTTTCTTTTTTATTTTGTTTTTTGTTTTTTTTTTCT
*
2378455 TTTTGTTTTTTTTTTTT
1 TTTT-TTTTTCTTTTTT
2378472 GTGGAGGACG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
41 38 0.73
42 14 0.27
ACGTcount: A:0.01, C:0.03, G:0.06, T:0.90
Consensus pattern (41 bp):
TTTTTTTTTCTTTTTTATTTTGTTTTTTGTTTTTTTTTTCT
Found at i:2378473 original size:30 final size:29
Alignment explanation
Indices: 2378373--2378471 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 29
2378363 GTTGTTGTTG
2378373 TTTTTTTTTCTTTTTTATTTTGTTTTTTTT
1 TTTTTTTTTCTTTTTT-TTTTGTTTTTTTT
*
2378403 TCTTTTTTTCTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTCTTTTTTTTTTGTTTTTTTT
*
2378432 TTTGTTTTTTGTTTTTTTTTTGTTTTTGTTT
1 TTT-TTTTTTCTTTTTTTTTTGTTTTT-TTT
2378463 TTTTTTTTT
1 TTTTTTTTT
2378472 GTGGAGGACG
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
29 15 0.23
30 43 0.67
31 6 0.09
ACGTcount: A:0.01, C:0.03, G:0.06, T:0.90
Consensus pattern (29 bp):
TTTTTTTTTCTTTTTTTTTTGTTTTTTTT
Found at i:2383242 original size:49 final size:49
Alignment explanation
Indices: 2383123--2383245 Score: 210
Period size: 49 Copynumber: 2.5 Consensus size: 49
2383113 ATATGCGGCT
* * *
2383123 AGCGATATTGGACTTAAAGATAAAGGTGGCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
*
2383172 ATCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
2383221 AGCGACATTGGACTTAAAGATGAAG
1 AGCGACATTGGACTTAAAGATGAAG
2383246 ATGAGAAAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (49 bp):
AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
Found at i:2383341 original size:171 final size:171
Alignment explanation
Indices: 2383144--2383589 Score: 732
Period size: 171 Copynumber: 2.6 Consensus size: 171
2383134 ACTTAAAGAT
* * * *
2383144 AAAGG-TGGCAATGTGCTGATTCAAGGCCATCGACATTGGACTTAAAGATGAAGGTGCCAATGTG
1 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGGTGCCAATGTG
2383208 CTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAAAA
66 CTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAAAA
*
2383273 TGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGGA
131 TGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGGA
2383314 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGGTGCCAATGTG
1 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGGTGCCAATGTG
* * * * *
2383379 CTGATTCAAAGCGAGTGACATTAGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATA
66 CTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAAAA
2383444 TGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGGA
131 TGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGGA
2383485 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT-G--AAGGTGCCAAT
* * * *
2383550 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAA
63 GTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
2383590 AGTGCCAATG
Statistics
Matches: 254, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
170 5 0.02
171 205 0.81
172 1 0.00
174 43 0.17
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (171 bp):
AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGGTGCCAATGTG
CTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAAAA
TGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGGA
Found at i:2383380 original size:49 final size:49
Alignment explanation
Indices: 2383323--2383416 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 49
2383313 AAAAGGATGT
*
2383323 CAATGTGCTGATTCAAGGCCAGCT-ACATT-GAACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAAGCCAG-TGACATTAG-ACTTAAAGATGAAGGTGC
*
2383372 CAATGTGCTGATTCAAAGCGAGTGACATTAGACTTAAAGATGAAG
1 CAATGTGCTGATTCAAAGCCAGTGACATTAGACTTAAAGATGAAG
2383417 ATGAGAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
48 1 0.02
49 39 0.95
50 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAAGCCAGTGACATTAGACTTAAAGATGAAGGTGC
Found at i:2383700 original size:92 final size:92
Alignment explanation
Indices: 2383538--2384284 Score: 1058
Period size: 92 Copynumber: 8.1 Consensus size: 92
2383528 TAAAGATGGA
* * * * *
2383538 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAAGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
2383603 TGATTCAAGGCCAGCGACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * * *
2383630 AAAGATGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATATTC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
2383695 TGATTCAAGGTCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
2383722 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
2383787 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
2383814 AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
2383879 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
2383906 GAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
2383971 TGATTCAAGGCTAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
2383998 GGAA-GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
1 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
* *
2384062 CTGATTCAAGGCCAGCAATTTTGGACTTGGAGGT
65 CTGATTCAAGGCCAGCGATATTGGAC-T-----T
* *
2384096 GAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCA
1 -----AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
2384161 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
2384194 AAAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTT---G--G-AGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
2384253 TGATTCAAGGCCAGCTATACTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
2384280 AAAGG
1 AAAGG
2384285 AAGATGCCAT
Statistics
Matches: 595, Mismatches: 47, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
86 42 0.07
87 1 0.00
89 1 0.00
92 456 0.77
93 9 0.02
98 2 0.00
102 2 0.00
103 2 0.00
104 80 0.13
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:2384141 original size:55 final size:49
Alignment explanation
Indices: 2383484--2384283 Score: 725
Period size: 43 Copynumber: 17.0 Consensus size: 49
2383474 AAAGATGAGG
* * *
2383484 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGA
1 AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* *
2383534 TGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT
1 ---AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA-GA
* * *
2383587 GAAA-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* * * *
2383634 ---A--TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
** * * * *
2383678 TGAAGGTGCCAATATTCTGATTCAAGGTCAGCGATATTGGACTT---G-
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
*
2383723 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* *
2383770 AGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* *
2383814 -AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
** * *
2383862 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G-
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* *
2383907 --AAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGA
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* * * *
2383954 AGAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT---G-
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
*
2383999 -GAA-GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
** * ** *
2384046 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATTTTGGACTTGGAGGTGAGA
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT--A---AAGA
* *
2384100 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* * *
2384150 TGAAA-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----
1 -AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* *
2384194 -AAAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTT---G-
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* * * *
2384238 --GAGGTGCCAATGTGCTGATTCAAGGCCAGCTATACTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
2384284 GAAGATGCCA
Statistics
Matches: 638, Mismatches: 66, Indels: 93
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.00
43 263 0.41
44 4 0.01
46 7 0.01
47 1 0.00
48 4 0.01
49 260 0.41
50 7 0.01
51 4 0.01
52 37 0.06
53 8 0.01
54 7 0.01
55 33 0.05
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
Found at i:2384191 original size:104 final size:104
Alignment explanation
Indices: 2384006--2384193 Score: 340
Period size: 104 Copynumber: 1.8 Consensus size: 104
2383996 TTGGAAGTGC
*
2384006 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATGCTGATTCAA
*
2384071 GGCCAGCAATTTTGGACTTGGAGGTGAGAAAAAGGATGT
66 GGCCAGCAATATTGGACTTGGAGGTGAGAAAAAGGATGT
*
2384110 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATGCTGATTCAA
*
2384175 GGCCAGCGATATTGGACTT
66 GGCCAGCAATATTGGACTT
2384194 AAAGGTGCCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 80 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (104 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATGCTGATTCAA
GGCCAGCAATATTGGACTTGGAGGTGAGAAAAAGGATGT
Found at i:2384366 original size:32 final size:31
Alignment explanation
Indices: 2384289--2384509 Score: 253
Period size: 32 Copynumber: 6.8 Consensus size: 31
2384279 TAAAGGAAGA
* *
2384289 TGCCATCAACTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAG-AG-AGGT
* * *
2384322 TGCCACCGACTTGTGTGGTCTTTAGAGGGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGG-T
*
2384354 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAG--AGAGGT
* *
2384387 TGCCACCAACTTGTGTTGGCTTTAGAGGGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGG-T
* *
2384419 TGCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAG--AGAGGT
*
2384452 TGCCACCAACTTGTGTGGGCTTTAGAGGGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGG-T
*
2384484 TGCCACCGACTTGTGTGGGCTTTAGA
1 TGCCACCAACTTGTGTGGGCTTTAGA
2384510 AAAAGGGTGA
Statistics
Matches: 161, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
31 8 0.05
32 76 0.47
33 71 0.44
34 6 0.04
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTAGAGAGGT
Found at i:2384393 original size:65 final size:64
Alignment explanation
Indices: 2384289--2384515 Score: 373
Period size: 65 Copynumber: 3.5 Consensus size: 64
2384279 TAAAGGAAGA
* * * *
2384289 TGCCATCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGTCTTTAGAGGGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGG-CTTTAGAGGGGAT
2384354 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTTGGCTTTAGAGGGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTG-TGGCTTTAGAGGGGAT
*
2384419 TGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGT-GGCTTTAGAGGGGAT
*
2384484 TGCCACCGACTTGTGTGGGCTTTAGAAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGG
2384516 GTGAAAGATG
Statistics
Matches: 155, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
64 1 0.01
65 151 0.97
66 3 0.02
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (64 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGCTTTAGAGGGGAT
Found at i:2384591 original size:31 final size:31
Alignment explanation
Indices: 2384553--2384964 Score: 212
Period size: 31 Copynumber: 12.8 Consensus size: 31
2384543 TAAAAGGAAC
*
2384553 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAGGTGCCACGGAGTTGTGGACTTTGAAAAG
* *
2384584 AAGGTGCCACGGAGTTGTGGACTTAGAAAGG
1 AAGGTGCCACGGAGTTGTGGACTTTGAAAAG
** ** *
2384615 AAGGTGCCACGGAGTCATGGACTTAAAAGGAAC
1 AAGGTGCCACGGAGTTGTGGACTTTGAA--AAG
*
2384648 AAGGTGCCACGGGGTTGTGGACTTT-AAAAGGG
1 AAGGTGCCACGGAGTTGTGGACTTTGAAAA--G
* *
2384680 AAAAAGAATGCCACGGAGTTGTGGGCTTTGAAAAG
1 ---AAG-GTGCCACGGAGTTGTGGACTTTGAAAAG
* ** *
2384715 AAGGTGCCACGGAGTCGTGGACTTAAAAGGAAC
1 AAGGTGCCACGGAGTTGTGGACTTTGAA--AAG
**
2384748 AAGGTGCCATTGAGTTGTGGACTTT-AAAAGGG
1 AAGGTGCCACGGAGTTGTGGACTTTGAAAA--G
*
2384780 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 ---AAG-GTGCCACGGAGTTGTGGACTTTGAAAAG
** ** * *
2384815 AAAATGCCATTGAGTCGTGGACTTTAGGACAA-
1 AAGGTGCCACGGAGTTGTGGACTTT--GAAAAG
* * * * *
2384847 AA--TGCCACTGAATCGTGGGCTTTGAGAAGAAA
1 AAGGTGCCACGGAGTTGTGGACTTT--GAA-AAG
*
2384879 AAGGTGCCACGGAGTCGTGGACTTTAGAAAA-
1 AAGGTGCCACGGAGTTGTGGACTTT-GAAAAG
* * * *
2384910 AA-ATGCCACTGA-TTCGTGGGCTTTGAGAAG
1 AAGGTGCCACGGAGTT-GTGGACTTTGAAAAG
* * *
2384940 -AGATTGCCACTGAGTCGTGGACTTT
1 AAG-GTGCCACGGAGTTGTGGACTTT
2384965 AAGAAGGTAT
Statistics
Matches: 298, Mismatches: 54, Indels: 58
0.73 0.13 0.14
Matches are distributed among these distances:
29 6 0.02
30 40 0.13
31 111 0.37
32 16 0.05
33 53 0.18
34 18 0.06
35 8 0.03
36 38 0.13
37 8 0.03
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.22
Consensus pattern (31 bp):
AAGGTGCCACGGAGTTGTGGACTTTGAAAAG
Found at i:2384652 original size:64 final size:62
Alignment explanation
Indices: 2384524--2384803 Score: 247
Period size: 64 Copynumber: 4.3 Consensus size: 62
2384514 GGGTGAAAGA
* * * **
2384524 TGCCACGAAATTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG-A-AAGGTGCCACGGAGTTGTGGACTTAAAAAAGAAGG
** *
2384588 TGCCACGGAGTTGTGGACTTAGAAAGG-AAGGTGCCACGGAGTCATGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTA-AAAGGAAAGGTGCCACGGAGTTGTGGACTTAAAA--AAGAAGG
* * * **
2384652 TGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAATGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 TGCCACGGAGTTGTGGAC-TTAAAA-GG--AAAG-GTGCCACGGAGTTGTGGACTTAAAAAAGAA
2384717 GG
61 GG
* ** *
2384719 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCATTGAGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGG-A-AAGGTGCCACGGAGTTGTGGAC-TTAAAA---AAGA
2384784 AGAG
60 AG-G
2384788 TGCCACGGAGTTGTGG
1 TGCCACGGAGTTGTGG
2384804 GCTTTGAAAA
Statistics
Matches: 175, Mismatches: 26, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
62 23 0.13
64 62 0.35
65 19 0.11
66 6 0.03
67 22 0.13
68 8 0.05
69 35 0.20
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (62 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAGGTGCCACGGAGTTGTGGACTTAAAAAAGAAGG
Found at i:2384695 original size:36 final size:34
Alignment explanation
Indices: 2384519--2384904 Score: 282
Period size: 31 Copynumber: 11.8 Consensus size: 34
2384509 AAAAAGGGTG
* * *
2384519 AAAGATGCCACGAAATTGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* *
2384552 CAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGAA
2384584 -AAGGTGCCACGGAGTTGTGGAC-TTAGAAAGG--
1 AAAGGTGCCACGGAGTTGTGGACTTTA-AAAGGAA
**
2384615 -AAGGTGCCACGGAGTCATGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* *
2384647 CAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAA-GGAA
* *
2384682 AAAGAATGCCACGGAGTTGTGGGCTTTGAAAA-G--
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGGAA
*
2384715 -AAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* **
2384747 CAAGGTGCCATTGAGTTGTGGACTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAA-GGAA
*
2384782 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G-A
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGGAA
** *
2384816 AAA--TGCCATTGAGTCGTGGACTTT---AGGACA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGA-A
* * * * *
2384846 AAA--TGCCACTGAATCGTGGGCTTTGAGAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGAA
*
2384878 AAAGGTGCCACGGAGTCGTGGACTTTA
1 AAAGGTGCCACGGAGTTGTGGACTTTA
2384905 GAAAAAAATG
Statistics
Matches: 290, Mismatches: 35, Indels: 56
0.76 0.09 0.15
Matches are distributed among these distances:
27 1 0.00
28 1 0.00
29 5 0.02
30 35 0.12
31 78 0.27
32 7 0.02
33 59 0.20
34 38 0.13
35 20 0.07
36 38 0.13
37 8 0.03
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA
Found at i:2384736 original size:100 final size:100
Alignment explanation
Indices: 2384536--2384838 Score: 438
Period size: 100 Copynumber: 3.1 Consensus size: 100
2384526 CCACGAAATT
*
2384536 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG-GTGCCACG
1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAGAGTGCCACG
* * *
2384595 GAGTTGTGGACTTAGAAAGGAAGGTGCCACGGAGTC
65 GAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTC
* * *
2384631 ATGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAATGCCACGG
1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
2384696 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTC
66 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTC
**
2384731 GTGGACTTAAAAGGAACAAGGTGCCATTGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
** **
2384796 AGTTGTGGGCTTTGAAAAGAAAATGCCATTGAGTC
66 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTC
2384831 GTGGACTT
1 GTGGACTT
2384839 TAGGACAAAA
Statistics
Matches: 186, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
94 4 0.02
95 39 0.21
96 1 0.01
99 3 0.02
100 139 0.75
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.21
Consensus pattern (100 bp):
GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTC
Found at i:2384823 original size:131 final size:128
Alignment explanation
Indices: 2384519--2384814 Score: 355
Period size: 131 Copynumber: 2.2 Consensus size: 128
2384509 AAAAAGGGTG
* * * *
2384519 AAAGATGCCACGAAATTGTGGAC-TTAAAAGGAACA-AGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA-AGA-ATGCCACGGAGTTGTGGGCTTTGAAA
*
2384582 AGAAGGTGCCACGGAGTTGTGGACTTAGAAAGGAAGGTGCCACGGAGTCATGGACTTAAAAGGAA
64 AGAAGGTGCCACGGAGTCGTGGACTTAGAAAGGAAGGTGCCACGGAGTCATGGACTTAAAAGGAA
* *
2384647 CAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAATGCCACGGAGTTGTGGGCTTTGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAA-GG--AAAGAATGCCACGGAGTTGTGGGCTTTGAA
** **
2384712 AAGAAGGTGCCACGGAGTCGTGGACTTA-AAAGGAACAAGGTGCCATTGAGTTGTGGACTTTAAA
63 AAGAAGGTGCCACGGAGTCGTGGACTTAGAAAGG---AAGGTGCCACGGAGTCATGGAC-TTAAA
2384776 AGGGAA
124 A-GGAA
*
2384782 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AAAAG
2384815 AAAATGCCAT
Statistics
Matches: 142, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
128 18 0.13
129 6 0.04
130 7 0.05
131 52 0.37
132 3 0.02
133 18 0.13
134 6 0.04
135 7 0.05
136 21 0.15
137 4 0.03
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.20
Consensus pattern (128 bp):
AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAGAATGCCACGGAGTTGTGGGCTTTGAAAAG
AAGGTGCCACGGAGTCGTGGACTTAGAAAGGAAGGTGCCACGGAGTCATGGACTTAAAAGGAA
Found at i:2384851 original size:30 final size:29
Alignment explanation
Indices: 2384779--2384965 Score: 140
Period size: 30 Copynumber: 6.0 Consensus size: 29
2384769 CTTTAAAAGG
* * *
2384779 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
1 GAAAAA-A-TGCCACTGAGTCGTGGACTTT-A
* *
2384811 AAAGAAAATGCCATTGAGTCGTGGACTTTA
1 GAA-AAAATGCCACTGAGTCGTGGACTTTA
* * *
2384841 GGACAAAATGCCACTGAATCGTGGGCTTTGA
1 -GAAAAAATGCCACTGAGTCGTGGACTTT-A
*
2384872 GAAGAAAAAGGTGCCACGGAGTCGTGGACTTTA
1 G-A-AAAAA--TGCCACTGAGTCGTGGACTTTA
* *
2384905 GAAAAAAATGCCACTGATTCGTGGGCTTTGA
1 G-AAAAAATGCCACTGAGTCGTGGACTTT-A
* *
2384936 GAAGAGATTGCCACTGAGTCGTGGACTTTA
1 GAA-AAAATGCCACTGAGTCGTGGACTTTA
2384966 AGAAGGTATT
Statistics
Matches: 125, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
30 45 0.36
31 43 0.34
32 12 0.10
33 7 0.06
34 18 0.14
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.24
Consensus pattern (29 bp):
GAAAAAATGCCACTGAGTCGTGGACTTTA
Found at i:2384913 original size:64 final size:61
Alignment explanation
Indices: 2384800--2384965 Score: 233
Period size: 64 Copynumber: 2.7 Consensus size: 61
2384790 CCACGGAGTT
* * * *
2384800 GTGGGCTTTGAAAAGAAAATGCCATTGAGTCGTGGACTTTAGGACAAAATGCCACTGAATC
1 GTGGGCTTTGAGAAGAAAATGCCACTGAGTCGTGGACTTTAGAAAAAAATGCCACTGAATC
* *
2384861 GTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCGTGGACTTTAGAAAAAAATGCCACTGATTC
1 GTGGGCTTTGAGAAG-AAAA--TGCCACTGAGTCGTGGACTTTAGAAAAAAATGCCACTGAATC
* *
2384925 GTGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTA
1 GTGGGCTTTGAGAAGAAAATGCCACTGAGTCGTGGACTTTA
2384966 AGAAGGTATT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
61 35 0.38
62 4 0.04
63 2 0.02
64 52 0.56
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (61 bp):
GTGGGCTTTGAGAAGAAAATGCCACTGAGTCGTGGACTTTAGAAAAAAATGCCACTGAATC
Found at i:2384948 original size:95 final size:96
Alignment explanation
Indices: 2384587--2384970 Score: 283
Period size: 100 Copynumber: 3.9 Consensus size: 96
2384577 TGAAAAGAAG
* * * ** * * * **
2384587 GTGCCACGGAGTTGTGGACTTAGAAAGGAAGGTGCCACGGAGTCATGGACTTAAAAGGAACAAGG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTT--TA-GAACAAAA
* ** *
2384652 TGCCACGGGGTTGTGGACTTTAA-AAGGGAAAAAGA
63 TGCCACTGAATCGTGGACTTTAAGAA--GAAAAAGA
* * * ** * * **
2384687 ATGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTT--TA-GAACAAAA
* * *
2384752 TGCCATTGAGTTGTGGACTTTAA-AAGGGAAAAAGA
63 TGCCACTGAATCGTGGACTTTAAGAA--GAAAAAGA
* * * *
2384787 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAATGCCATTGAGTCGTGGACTTTAGGACAAAATGC
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTTAGAACAAAATGC
* *
2384852 CACTGAATCGTGGGCTTTGAGAAGAAAAAG-
66 CACTGAATCGTGGACTTTAAGAAGAAAAAGA
* * * * *
2384882 GTGCCACGGAGTCGTGGACTTT-AGAAA-AAAATGCCACTGATTCGTGGGCTTTGAGAAGAGATT
1 GTGCCACGGAGTCGTGGACTTTGA-AAAGAAAATGCCACTGAGTCGTGGACTTT-AGAACAAAAT
*
2384945 GCCACTGAGTCGTGGACTTTAAGAAG
64 GCCACTGAATCGTGGACTTTAAGAAG
2384971 GTATTTGAAG
Statistics
Matches: 247, Mismatches: 34, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
94 23 0.09
95 52 0.21
96 7 0.03
97 23 0.09
98 3 0.01
100 139 0.56
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.22
Consensus pattern (96 bp):
GTGCCACGGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTTAGAACAAAATGC
CACTGAATCGTGGACTTTAAGAAGAAAAAGA
Found at i:2385935 original size:17 final size:17
Alignment explanation
Indices: 2385913--2385945 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2385903 TTTTTTCTTC
*
2385913 TTTTTTTTTGTTTTTTG
1 TTTTTTTTTCTTTTTTG
2385930 TTTTTTTTTCTTTTTT
1 TTTTTTTTTCTTTTTT
2385946 TGTGAAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (17 bp):
TTTTTTTTTCTTTTTTG
Found at i:2393308 original size:52 final size:52
Alignment explanation
Indices: 2393160--2393288 Score: 258
Period size: 52 Copynumber: 2.5 Consensus size: 52
2393150 TGAAATATGA
2393160 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
2393212 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
2393264 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2393289 AAGATCAGTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:2393315 original size:13 final size:13
Alignment explanation
Indices: 2393297--2393321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2393287 CAAAGATCAG
2393297 TGTATCGATACAA
1 TGTATCGATACAA
2393310 TGTATCGATACA
1 TGTATCGATACA
2393322 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2402073 original size:182 final size:182
Alignment explanation
Indices: 2401766--2402130 Score: 712
Period size: 182 Copynumber: 2.0 Consensus size: 182
2401756 AAAATGATCT
2401766 ACGGGTGCTCTAGAGAAAAGTTTGGAATTTAAGAGAATTCAAAAAGAAATAAAGTTGGAATATTC
1 ACGGGTGCTCTAGAGAAAAGTTTGGAATTTAAGAGAATTCAAAAAGAAATAAAGTTGGAATATTC
*
2401831 ACTCGGGGACGCGGTTAGAATACATCCCCCGATGAGAAATTTAATATTTTGAAGATAATAACGGG
66 ACTCGGGGACACGGTTAGAATACATCCCCCGATGAGAAATTTAATATTTTGAAGATAATAACGGG
2401896 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGAATCCTCGATTGTGAAA
131 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGAATCCTCGATTGTGAAA
*
2401948 ACGGGTGCTCTAGAGAAAATTTTGGAATTTAAGAGAATTCAAAAAGAAATAAAGTTGGAATATTC
1 ACGGGTGCTCTAGAGAAAAGTTTGGAATTTAAGAGAATTCAAAAAGAAATAAAGTTGGAATATTC
2402013 ACTCGGGGACACGGTTAGAATACATCCCCCGATGAGAAATTTAATATTTTGAAGATAATAACGGG
66 ACTCGGGGACACGGTTAGAATACATCCCCCGATGAGAAATTTAATATTTTGAAGATAATAACGGG
2402078 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGAATCCTCGATTGTGAAA
131 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGAATCCTCGATTGTGAAA
2402130 A
1 A
2402131 ATCGATGATT
Statistics
Matches: 181, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 181 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (182 bp):
ACGGGTGCTCTAGAGAAAAGTTTGGAATTTAAGAGAATTCAAAAAGAAATAAAGTTGGAATATTC
ACTCGGGGACACGGTTAGAATACATCCCCCGATGAGAAATTTAATATTTTGAAGATAATAACGGG
GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGAATCCTCGATTGTGAAA
Found at i:2404151 original size:20 final size:21
Alignment explanation
Indices: 2404126--2404166 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2404116 GATGTATCGA
*
2404126 TACAAA-GTATTGATACATTT
1 TACAAATGTATCGATACATTT
2404146 TACAAATGTATCGATACATTT
1 TACAAATGTATCGATACATTT
2404167 CCTTGGCAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
TACAAATGTATCGATACATTT
Found at i:2404897 original size:170 final size:170
Alignment explanation
Indices: 2404707--2405067 Score: 458
Period size: 170 Copynumber: 2.1 Consensus size: 170
2404697 CGTGAGGTTT
* * * * *
2404707 TTCATCCACTGTCTGCCCATCGGCTCAGTCTTGGGATACTTTCTTTATCAA-CAATCTGCCTATC
1 TTCATCCATTGTCTGCCCATCGGCTCAGTCTTGGGAGACTTCCCTTATCAATC-ATCTACCTATC
** ** * * ** * *
2404771 GGCTTAGACTTGGGAGACTTCTTCATCCA-TAGTTTGCCTGTTGGCTCAGTCACGGGAGACTTCC
65 AACTTAGACCCGGGAGACTTCTTCATCCATTA-TCTACCCATCGGCTCAGTCACGGGAAACTTCC
** * *
2404835 TTTATCAATTGTTTGCCCGA-CGACTTAAACCTGGGAGACTTC
129 TTTATCAATCATTTG-CCAATCGACTTAAACCCGGGAGACTTC
* *
2404877 TTCATCCATTGTCTGCCCATCGGCTCAGTCTTGGGAGACTTCCCTTATCAATCGTCTACCTGTCA
1 TTCATCCATTGTCTGCCCATCGGCTCAGTCTTGGGAGACTTCCCTTATCAATCATCTACCTATCA
*
2404942 ACTTAGACCCGGGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCTCGGGAAACTTCCTT
66 ACTTAGACCCGGGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCACGGGAAACTTCCTT
*
2405007 TATCAATCATTTGCCAATCGACTTAGACCCGGGAGACTTC
131 TATCAATCATTTGCCAATCGACTTAAACCCGGGAGACTTC
*
2405047 TCCATCCATTGTCTGCCCATC
1 TTCATCCATTGTCTGCCCATC
2405068 AGCTTAGACC
Statistics
Matches: 164, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
169 3 0.02
170 158 0.96
171 3 0.02
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (170 bp):
TTCATCCATTGTCTGCCCATCGGCTCAGTCTTGGGAGACTTCCCTTATCAATCATCTACCTATCA
ACTTAGACCCGGGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCACGGGAAACTTCCTT
TATCAATCATTTGCCAATCGACTTAAACCCGGGAGACTTC
Found at i:2405088 original size:85 final size:85
Alignment explanation
Indices: 2404689--2405067 Score: 404
Period size: 85 Copynumber: 4.5 Consensus size: 85
2404679 TACTTTTTGG
* * * * * * *
2404689 CTTAGACCCGTGAG-GTTTTTCATCCACTGTCTGCCCATCGGCTCAGTCTTGGGATACTTTCTTT
1 CTTAGACCCGGGAGACTTCTTCATCCATTGTCTGCCCATCGGCTCAGTCTCGGGAGACTTCCTTT
* * * *
2404753 ATCAA-CAATCTGCCTATCGG
66 ATCAATC-GTTTGCCAATCGA
** * * ** * *
2404773 CTTAGACTTGGGAGACTTCTTCATCCATAGTTTGCCTGTTGGCTCAGTCACGGGAGACTTCCTTT
1 CTTAGACCCGGGAGACTTCTTCATCCATTGTCTGCCCATCGGCTCAGTCTCGGGAGACTTCCTTT
* *
2404838 ATCAATTGTTTGCCCGA-CGA
66 ATCAATCGTTTG-CCAATCGA
* * * *
2404858 CTTAAACCTGGGAGACTTCTTCATCCATTGTCTGCCCATCGGCTCAGTCTTGGGAGACTTCCCTT
1 CTTAGACCCGGGAGACTTCTTCATCCATTGTCTGCCCATCGGCTCAGTCTCGGGAGACTTCCTTT
* * ** *
2404923 ATCAATCGTCTACCTGTCAA
66 ATCAATCGTTTGCCAATCGA
* * *
2404943 CTTAGACCCGGGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCTCGGGAAACTTCCTTT
1 CTTAGACCCGGGAGACTTCTTCATCCATTGTCTGCCCATCGGCTCAGTCTCGGGAGACTTCCTTT
*
2405008 ATCAATCATTTGCCAATCGA
66 ATCAATCGTTTGCCAATCGA
*
2405028 CTTAGACCCGGGAGACTTCTCCATCCATTGTCTGCCCATC
1 CTTAGACCCGGGAGACTTCTTCATCCATTGTCTGCCCATC
2405068 AGCTTAGACC
Statistics
Matches: 239, Mismatches: 52, Indels: 7
0.80 0.17 0.02
Matches are distributed among these distances:
84 13 0.05
85 223 0.93
86 3 0.01
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (85 bp):
CTTAGACCCGGGAGACTTCTTCATCCATTGTCTGCCCATCGGCTCAGTCTCGGGAGACTTCCTTT
ATCAATCGTTTGCCAATCGA
Found at i:2405125 original size:127 final size:127
Alignment explanation
Indices: 2404943--2405201 Score: 313
Period size: 127 Copynumber: 2.0 Consensus size: 127
2404933 TACCTGTCAA
**
2404943 CTTAGACCCGGGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCTCGGGAAACTTCCTTT
1 CTTAGACCCACGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCTCGGGAAACTTCCTTT
* * * *
2405008 ATCAATCATTTGCCAATCGACTTAGACCCGGGAGACTTCTCCATCCATTGTCTGCCCATCAG
66 ATCAATCATCTCCCAATCGACTTAGACCCGAGAGACTTCTCCATCCATAGTCTGCCCATCAG
* * ** * * *
2405070 CTTAGACCCACGAGACTTCTTCATCCATTGTCTGCCTTTTGGCTCGGTC-CTGGGAAACTTCTTT
1 CTTAGACCCACGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCTC-GGGAAACTTCCTT
* ** ** * * *
2405134 TATCAATCGTCTCCCCGTCGACTTAGATTCGAGAGACTTCTTCATCCATAGTCTGCCCGTCGG
65 TATCAATCATCTCCCAATCGACTTAGACCCGAGAGACTTCTCCATCCATAGTCTGCCCATCAG
2405197 CTTAG
1 CTTAG
2405202 TCTTGAGATA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
126 1 0.01
127 109 0.99
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (127 bp):
CTTAGACCCACGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCTCGGGAAACTTCCTTT
ATCAATCATCTCCCAATCGACTTAGACCCGAGAGACTTCTCCATCCATAGTCTGCCCATCAG
Found at i:2405221 original size:85 final size:84
Alignment explanation
Indices: 2405066--2405603 Score: 210
Period size: 85 Copynumber: 6.4 Consensus size: 84
2405056 TGTCTGCCCA
* * * ** * * *
2405066 TCAGCTTAGACCCACGAGACTTCTTCATCCATTGTCTGCCTTTTGGCTCGGTCCTGGGAAACTTC
1 TCAGCTTAGACTC-GGAGACTTCTTCATCCATAGTCTGCCCGTCGGCTCAGTCCTGAGAAACTTC
* * *
2405131 TTTTATCAATCGTCTCCCCG
65 CTTTATCAACCATCTCCCCG
* * * * *
2405151 TC-GACTTAGATTCGAGAGACTTCTTCATCCATAGTCTGCCCGTCGGCTTAGTCTTGAGATATTT
1 TCAG-CTTAGACTCG-GAGACTTCTTCATCCATAGTCTGCCCGTCGGCTCAGTCCTGAGAAACTT
*
2405215 CCTTTATCAACCATCTGCCCG
64 CCTTTATCAACCATCTCCCCG
* ** * * * * * * *
2405236 TCAGCTTAGACTCGGTAGA-TTCTTCATCCATAGTTTGCTTGTCAGTTTAGACCCGGGAGACATT
1 TCAGCTTAGACTCGG-AGACTTCTTCATCCATAGTCTGCCCGTCGGCTCAGTCCTGAGAAAC-TT
* ***** * *** *
2405300 --TTGATCTTTTGTTTGGTCA
64 CCTTTATCAACCATCTCCCCG
* * * * * * * * *
2405319 TCGGCTTAGACTTGGGAGACTTCTTCATCCATCA-TCTGCTCATCGGCTTAGACCCGTGAGACTT
1 TCAGCTTAGAC-TCGGAGACTTCTTCATCCAT-AGTCTGCCCGTCGGCTCAGTCCTGAGAAACTT
** *** * *
2405383 TTTTTATCAATTGTCTGCCTG
64 CCTTTATCAACCATCTCCCCG
* * * *
2405404 TCAGCTTAGACCCGGGAGACTTCTTCATCCATAGTCTGCTCGTTGGCTCAGTCCCT-AGAGACTT
1 TCAGCTTAGACTC-GGAGACTTCTTCATCCATAGTCTGCCCGTCGGCTCAGT-CCTGAGAAACTT
* * * *
2405468 CCTTTATCAATCGTCTGCCTG
64 CCTTTATCAACCATCTCCCCG
* * * * * * * * *
2405489 TCAGCTTAGACCTAGGTGACTTCTTCATCCATTGTTTGCCTGTCAGCTTAGTCCT-AGGATATTT
1 TCAGCTTAGA-CTCGGAGACTTCTTCATCCATAGTCTGCCCGTCGGCTCAGTCCTGA-GAAACTT
** * **
2405553 CCTTTATCAACTGTCTGCTTG
64 CCTTTATCAACCATCTCCCCG
* *
2405574 TCGGCTTAGACCTGGGAGA-TTCTTCATCCA
1 TCAGCTTAGA-CTCGGAGACTTCTTCATCCA
2405604 CCATTTACTC
Statistics
Matches: 353, Mismatches: 85, Indels: 31
0.75 0.18 0.07
Matches are distributed among these distances:
83 24 0.07
84 86 0.24
85 239 0.68
86 4 0.01
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (84 bp):
TCAGCTTAGACTCGGAGACTTCTTCATCCATAGTCTGCCCGTCGGCTCAGTCCTGAGAAACTTCC
TTTATCAACCATCTCCCCG
Found at i:2405246 original size:212 final size:211
Alignment explanation
Indices: 2404869--2405266 Score: 503
Period size: 212 Copynumber: 1.9 Consensus size: 211
2404859 TTAAACCTGG
* *
2404869 GAGACTTCTTCATCCATTGTCTGCCCATCGGCTCAGTCTTGGGAGACTTCCCTTATCAATCGTCT
1 GAGACTTCTTCATCCATTGTCTGCCCATCGGCTCAGTCCTGGGAAACTTCCCTTATCAATCGTCT
* * *
2404934 ACCTGTCAACTTAGACCCGGGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCTCGGGAA
66 ACCCGTCAACTTAGACCCGAGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCTCGAGAA
* *
2404999 ACTTCCTTTATCAATCATTTGCCAATCGACTTAGACCCGGGAGACTTCTCCATCCATTGTCTGCC
131 ACTTCCTTTATCAACCATCTGCCAATCGACTTAGACCCGGGAGA-TTCTCCATCCATTGTCTGCC
2405064 CATCAGCTTAGACCCAC
195 CATCAGCTTAGACCCAC
** * * **
2405081 GAGACTTCTTCATCCATTGTCTGCCTTTTGGCTCGGTCCTGGGAAACTTCTTTTATCAATCGTCT
1 GAGACTTCTTCATCCATTGTCTGCCCATCGGCTCAGTCCTGGGAAACTTCCCTTATCAATCGTCT
* * ** * * * *
2405146 CCCCGTCGACTTAGATTCGAGAGACTTCTTCATCCA-TAGTCTGCCCGTCGGCTTAGTCTTGAGA
66 ACCCGTCAACTTAGACCCGAGAGACTTCTTCATCCATTA-TCTACCCATCGGCTCAGTCTCGAGA
* * ** * * *
2405210 TATTTCCTTTATCAACCATCTGCCCGTC-AGCTTAGACTCGGTAGATTCTTCATCCAT
130 AACTTCCTTTATCAACCATCTGCCAATCGA-CTTAGACCCGGGAGATTCTCCATCCAT
2405267 AGTTTGCTTG
Statistics
Matches: 156, Mismatches: 28, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
211 14 0.09
212 142 0.91
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.32
Consensus pattern (211 bp):
GAGACTTCTTCATCCATTGTCTGCCCATCGGCTCAGTCCTGGGAAACTTCCCTTATCAATCGTCT
ACCCGTCAACTTAGACCCGAGAGACTTCTTCATCCATTATCTACCCATCGGCTCAGTCTCGAGAA
ACTTCCTTTATCAACCATCTGCCAATCGACTTAGACCCGGGAGATTCTCCATCCATTGTCTGCCC
ATCAGCTTAGACCCAC
Found at i:2405362 original size:42 final size:42
Alignment explanation
Indices: 2404760--2405937 Score: 410
Period size: 42 Copynumber: 27.9 Consensus size: 42
2404750 TTTATCAACA
** *
2404760 ATCTGCCTATCGGCTTAGACTTGGGAGACTTCTTCATCCAT-
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * * * * *
2404801 AGTTTGCCTGTTGGCTCAGTCAC-GGGAGACTTCCTTTATCAATT
1 A-TCTGCCCGTCGGCTTAGAC-CTGGGAGACTT-CTTCATCCATC
* * * * * *
2404845 GTTTGCCCGACGACTTAAACCTGGGAGACTTCTTCATCCATT
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * * *
2404887 GTCTGCCCATCGGCTCAGTCTTGGGAGACTTCCCTT-ATCAATC
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTT--CTTCATCCATC
* * * ** * *
2404930 GTCTACCTGTCAACTTAGACCCGGGAGACTTCTTCATCCATT
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * * * *
2404972 ATCTACCCATCGGCTCAG-TCTCGGGAAACTTCCTTTATCAATC
1 ATCTGCCCGTCGGCTTAGACCT-GGGAGACTT-CTTCATCCATC
* ** * * * *
2405015 ATTTGCCAATCGACTTAGACCCGGGAGACTTCTCCATCCATT
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * *** *
2405057 GTCTGCCCATCAGCTTAGACCCACGAGACTTCTTCATCCATT
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* ** * ** * * * *
2405099 GTCTGCCTTTTGGCTCGGTCCTGGGAAACTTCTTTTATCAATC
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTC-TTCATCCATC
* * * * *
2405142 GTCTCCCCGTCGACTTAGA-TTCGAGAGACTTCTTCATCCAT-
1 ATCTGCCCGTCGGCTTAGACCT-GGGAGACTTCTTCATCCATC
* * * * * * * *
2405183 AGTCTGCCCGTCGGCTTAGTCTTGAGATATTTCCTTTATCAACC
1 A-TCTGCCCGTCGGCTTAGACCTGGGAGACTT-CTTCATCCATC
* *
2405227 ATCTGCCCGTCAGCTTAGA-CTCGGTAGA-TTCTTCATCCAT-
1 ATCTGCCCGTCGGCTTAGACCT-GGGAGACTTCTTCATCCATC
* ** * * * * ** *
2405267 AGTTTGCTTGTCAGTTTAGACCCGGGAGACATT-TTGATCTTTT
1 A-TCTGCCCGTCGGCTTAGACCTGGGAGAC-TTCTTCATCCATC
* * ** * *
2405310 GTTTGGTCATCGGCTTAGACTTGGGAGACTTCTTCATCCATC
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * * * * *
2405352 ATCTGCTCATCGGCTTAGACCCGTGAGACTTTTTTTATCAATT
1 ATCTGCCCGTCGGCTTAGACCTGGGAGAC-TTCTTCATCCATC
* * * *
2405395 GTCTGCCTGTCAGCTTAGACCCGGGAGACTTCTTCATCCAT-
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * * * *
2405436 AGTCTGCTCGTTGGCTCAGTCCCT-AGAGACTTCCTTTATCAATC
1 A-TCTGCCCGTCGGCTTAG-ACCTGGGAGACTT-CTTCATCCATC
* * * * * *
2405480 GTCTGCCTGTCAGCTTAGACCTAGGTGACTTCTTCATCCATT
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * * * * * * *
2405522 GTTTGCCTGTCAGCTTAGTCCTAGGATATTTCCTTTAT-CAAC
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTT-CTTCATCCATC
* ** *
2405564 TGTCTGCTTGTCGGCTTAGACCTGGGAGA-TTCTTCATCCACC
1 -ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * ** *
2405606 ATTTACTCGTCGGCTTAGACCTGGGAGACTTTTTCATCTTTT
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * ***
2405648 GTTTGCCCGTTGGCTTAGACCCATGAGACTTCTTCATCCATC
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * * *
2405690 ATCTGCCCATTGACTTAGACCTGGGAGACTTGCTTTATCAACC
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTT-CTTCATCCATC
* * * *** *
2405733 ATTTGCCTGTCGGCTTAGACCTGGGAGACTTATTCATTTTTT
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * * * * *
2405775 ATTTGCCCATCGACTTAGTCCTGGGAGACCTCCTTTATCAACC
1 ATCTGCCCGTCGGCTTAGACCTGGGAGA-CTTCTTCATCCATC
* * ***
2405818 ATTTGCCCGTCGGCTTAGACTTGGGAGACTTCTTCATTTTTC
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * *
2405860 ATCTACCCGTCGACTTAGACCCGAGAGACTTTTTCATCCA-C
1 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
* * * * *
2405901 TGTTTG-CCTTCAGCTTAGA-CTGGAAGACTTCTTCATC
1 -ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATC
2405938 TCTTTATTTG
Statistics
Matches: 821, Mismatches: 279, Indels: 75
0.70 0.24 0.06
Matches are distributed among these distances:
40 15 0.02
41 73 0.09
42 436 0.53
43 292 0.36
44 5 0.01
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (42 bp):
ATCTGCCCGTCGGCTTAGACCTGGGAGACTTCTTCATCCATC
Found at i:2405560 original size:338 final size:337
Alignment explanation
Indices: 2404938--2405769 Score: 863
Period size: 338 Copynumber: 2.5 Consensus size: 337
2404928 TCGTCTACCT
* ** * * * * * *
2404938 GTCAACTTAGACCCGGGAGAC-TTCTTCATCCATTATCTACCCATCGGCTCAGTCTCGGGAAACT
1 GTCAGCTTAGACCCGGGAGACATT-TTCATCTTTTGTTTGCCCATCGGCTTAGACTCGGGAGACT
* * * ** * **
2405002 TCCTTTATCAATCATTTGCCAATCGACTTAGACCCGGGAGAC-TTCTCCATCCATTGTCTGCCCA
65 T-CTTCATCCATCATCTGCC-ATCGACTTAGACCCGGGAGACTTTCTTTATCAATTGTCTGCCTG
** * * * *
2405066 TCAGCTTAGACCCACGAGACTTCTTCATCCATTGTCTGCCTTTTGGCTCGGTCCTGGGAAACTTC
128 TCAGCTTAGACCCGGGAGACTTCTTCATCCATAGTCTGCCTGTTGGCTCAGTCCTGAGAAACTTC
* * * *
2405131 TTTTATCAATCGTCTCCCCGTCGACTTAGATTCGAGAGACTTCTTCATCCATAGTCTGCCCGTCG
193 CTTTATCAATCGTCTCCCCGTCGACTTAGACTAGAGAGACTTCTTCATCCATAGTCTGCCCGTCA
* *
2405196 GCTTAGTCTTGAGATATTTCCTTTATCAACCATCTGCCCGTCAGCTTAGA-CTCGGTAGATTCTT
258 GCTTAGTCTAGAGATATTTCCTTTATCAACCATCTGCCCGTCAGCTTAGACCT-GGGAGATTCTT
* * *
2405260 CATCCA-TAGTTTGCTT
322 CATCCACCA-TTTACTC
* * ** *
2405276 GTCAGTTTAGACCCGGGAGACATTTTGATCTTTTGTTTGGTCATCGGCTTAGACTTGGGAGACTT
1 GTCAGCTTAGACCCGGGAGACATTTTCATCTTTTGTTTGCCCATCGGCTTAGACTCGGGAGACTT
* * *
2405341 CTTCATCCATCATCTGCTCATCGGCTTAGACCCGTGAGACTTTTTTTATCAATTGTCTGCCTGTC
66 CTTCATCCATCATCTGC-CATCGACTTAGACCCGGGAGACTTTCTTTATCAATTGTCTGCCTGTC
*
2405406 AGCTTAGACCCGGGAGACTTCTTCATCCATAGTCTG-CTCGTTGGCTCAGTCCCT-AGAGACTTC
130 AGCTTAGACCCGGGAGACTTCTTCATCCATAGTCTGCCT-GTTGGCTCAGT-CCTGAGAAACTTC
* * * * * *
2405469 CTTTATCAATCGTCTGCCTGTC-AGCTTAGACCTAG-GTGACTTCTTCATCCATTGTTTGCCTGT
193 CTTTATCAATCGTCTCCCCGTCGA-CTTAGA-CTAGAGAGACTTCTTCATCCATAGTCTGCCCGT
** ** *
2405532 CAGCTTAGTCCTAG-GATATTTCCTTTATCAACTGTCTGCTTGTCGGCTTAGACCTGGGAGATTC
256 CAGCTTAGT-CTAGAGATATTTCCTTTATCAACCATCTGCCCGTCAGCTTAGACCTGGGAGATTC
2405596 TTCATCCACCATTTACTC
320 TTCATCCACCATTTACTC
* * * * * * **
2405614 GTCGGCTTAGACCTGGGAGACTTTTTCATCTTTTGTTTGCCCGTTGGCTTAGACCCATGAGACTT
1 GTCAGCTTAGACCCGGGAGACATTTTCATCTTTTGTTTGCCCATCGGCTTAGACTCGGGAGACTT
* * * *** *
2405679 CTTCATCCATCATCTGCCCATTGACTTAGACCTGGGAGACTTGCTTTATCAACCATTTGCCTGTC
66 CTTCATCCATCATCTG-CCATCGACTTAGACCCGGGAGACTTTCTTTATCAATTGTCTGCCTGTC
* * *
2405744 GGCTTAGACCTGGGAGACTTATTCAT
130 AGCTTAGACCCGGGAGACTTCTTCAT
2405770 TTTTTATTTG
Statistics
Matches: 405, Mismatches: 78, Indels: 22
0.80 0.15 0.04
Matches are distributed among these distances:
337 36 0.09
338 355 0.88
339 14 0.03
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (337 bp):
GTCAGCTTAGACCCGGGAGACATTTTCATCTTTTGTTTGCCCATCGGCTTAGACTCGGGAGACTT
CTTCATCCATCATCTGCCATCGACTTAGACCCGGGAGACTTTCTTTATCAATTGTCTGCCTGTCA
GCTTAGACCCGGGAGACTTCTTCATCCATAGTCTGCCTGTTGGCTCAGTCCTGAGAAACTTCCTT
TATCAATCGTCTCCCCGTCGACTTAGACTAGAGAGACTTCTTCATCCATAGTCTGCCCGTCAGCT
TAGTCTAGAGATATTTCCTTTATCAACCATCTGCCCGTCAGCTTAGACCTGGGAGATTCTTCATC
CACCATTTACTC
Found at i:2405782 original size:85 final size:84
Alignment explanation
Indices: 2405461--2405954 Score: 307
Period size: 85 Copynumber: 5.9 Consensus size: 84
2405451 TCAGTCCCTA
* * * * * * *** *
2405461 GAGACTTCCTTTATCAATCGTCTGCCTGTCAGCTTAGACCTAGGTGACTTCTTCATCCATTGTTT
1 GAGACTT-CTTTATCAACCATTTGCCTGTCGGCTTAGACCTGGGAGACTTCTTCATTTTTTATTT
** * *
2405526 GCCTGTC-AGCTTAGTCCTAG
65 GCCCATCGA-CTTAGACCTGG
* * ** * * *****
2405546 GATATTTCCTTTATCAACTGTCTGCTTGTCGGCTTAGACCTGGGAGA-TTCTTCATCCACCATTT
1 GAGACTT-CTTTATCAACCATTTGCCTGTCGGCTTAGACCTGGGAGACTTCTTCATTTTTTATTT
* * * *
2405610 ACTCGTCGGCTTAGACCTGG
65 GCCCATCGACTTAGACCTGG
***** * * *** *** * *
2405630 GAGACTT-TTTCATCTTTTGTTTGCCCGTTGGCTTAGACCCATGAGACTTCTTCATCCATCATCT
1 GAGACTTCTTT-ATCAACCATTTGCCTGTCGGCTTAGACCTGGGAGACTTCTTCATTTTTTATTT
*
2405694 GCCCATTGACTTAGACCTGG
65 GCCCATCGACTTAGACCTGG
*
2405714 GAGACTTGCTTTATCAACCATTTGCCTGTCGGCTTAGACCTGGGAGACTTATTCATTTTTTATTT
1 GAGACTT-CTTTATCAACCATTTGCCTGTCGGCTTAGACCTGGGAGACTTCTTCATTTTTTATTT
*
2405779 GCCCATCGACTTAGTCCTGG
65 GCCCATCGACTTAGACCTGG
* * * * *
2405799 GAGACCTCCTTTATCAACCATTTGCCCGTCGGCTTAGACTTGGGAGACTTCTTCATTTTTCATCT
1 GAGA-CTTCTTTATCAACCATTTGCCTGTCGGCTTAGACCTGGGAGACTTCTTCATTTTTTATTT
* * * *
2405864 ACCCGTCGACTTAGACCCGA
65 GCCCATCGACTTAGACCTGG
* ** * * *
2405884 GAGACTT-TTTCATCCACTGTTTGCCT-TCAGCTTAGA-CTGGAAGACTTCTTCATCTCTTTATT
1 GAGACTTCTTT-ATCAACCATTTGCCTGTCGGCTTAGACCTGGGAGACTTCTTCAT-TTTTTATT
*
2405946 TGCCTATCG
64 TGCCCATCG
2405955 GCTCAACCTT
Statistics
Matches: 322, Mismatches: 79, Indels: 18
0.77 0.19 0.04
Matches are distributed among these distances:
82 18 0.06
83 48 0.15
84 82 0.25
85 169 0.52
86 5 0.02
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (84 bp):
GAGACTTCTTTATCAACCATTTGCCTGTCGGCTTAGACCTGGGAGACTTCTTCATTTTTTATTTG
CCCATCGACTTAGACCTGG
Found at i:2405803 original size:127 final size:127
Alignment explanation
Indices: 2405578--2405854 Score: 317
Period size: 127 Copynumber: 2.2 Consensus size: 127
2405568 TGCTTGTCGG
* *
2405578 CTTAGACCTGGGAGA-TTCTTCATCCACCATTTACTCGTCGGCTTAGACCTGGGAGACTTTTTCA
1 CTTAGACCTGGGAGACTTCTTCATCAACCATTTACTCGTCGGCTTAGACCTGGGAGACTTATTCA
* * * * * * * * *
2405642 TCTTTTGTTTGCCCGTTGGCTTAGACCCATGAGA-CTTCTTCATCCATCATCTGCCCATTGA
66 TCTTTTATTTGCCCATCGACTTAGACCCAGGAGACCTCCTTCATCAACCATCTGCCCATCGA
* *
2405703 CTTAGACCTGGGAGACTTGCTTTATCAACCATTTGC-CTGTCGGCTTAGACCTGGGAGACTTATT
1 CTTAGACCTGGGAGACTT-CTTCATCAACCATTTACTC-GTCGGCTTAGACCTGGGAGACTTATT
* * ** * * * *
2405767 CATTTTTTATTTGCCCATCGACTTAGTCCTGGGAGACCTCCTTTATCAACCATTTGCCCGTCGG
64 CATCTTTTATTTGCCCATCGACTTAGACCCAGGAGACCTCCTTCATCAACCATCTGCCCATCGA
*
2405831 CTTAGACTTGGGAGACTTCTTCAT
1 CTTAGACCTGGGAGACTTCTTCAT
2405855 TTTTCATCTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
125 15 0.12
126 3 0.02
127 71 0.57
128 36 0.29
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (127 bp):
CTTAGACCTGGGAGACTTCTTCATCAACCATTTACTCGTCGGCTTAGACCTGGGAGACTTATTCA
TCTTTTATTTGCCCATCGACTTAGACCCAGGAGACCTCCTTCATCAACCATCTGCCCATCGA
Found at i:2405877 original size:170 final size:168
Alignment explanation
Indices: 2405649--2405954 Score: 373
Period size: 170 Copynumber: 1.8 Consensus size: 168
2405639 TCATCTTTTG
* * * * * *
2405649 TTTGCCCGTTGGCTTAGACCCATGAGACTTCTTCATCCATCATCTGCCCATTGACTTAGACCTGG
1 TTTGCCCGTCGGCTTAGACCCAGGAGACTTCTTCATCCATCATCTACCCATCGACTTAGACCCGA
* * *
2405714 GAGACTTGCTTT-ATCAACCATTTGCCTGTCGGCTTAGACCTGGGAGACTTATTCAT-TTTTTAT
66 GAGACTT--TTTCATCAACCATTTGCCT-TCAGCTTAGA-CTGGAAGACTTATTCATCTCTTTAT
2405777 TTGCCCATCGACTTAGTCCTGGGAGACCTCCTTTATCAACCA
127 TTGCCCATCGACTTAGTCCTGGGAGACCTCCTTTATCAACCA
*** *** *
2405819 TTTGCCCGTCGGCTTAGACTTGGGAGACTTCTTCATTTTTCATCTACCCGTCGACTTAGACCCGA
1 TTTGCCCGTCGGCTTAGACCCAGGAGACTTCTTCATCCATCATCTACCCATCGACTTAGACCCGA
* ** *
2405884 GAGACTTTTTCATCCACTGTTTGCCTTCAGCTTAGACTGGAAGACTTCTTCATCTCTTTATTTGC
66 GAGACTTTTTCATCAACCATTTGCCTTCAGCTTAGACTGGAAGACTTATTCATCTCTTTATTTGC
*
2405949 CTATCG
131 CCATCG
2405955 GCTCAACCTT
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
167 15 0.13
168 27 0.24
169 12 0.11
170 59 0.52
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (168 bp):
TTTGCCCGTCGGCTTAGACCCAGGAGACTTCTTCATCCATCATCTACCCATCGACTTAGACCCGA
GAGACTTTTTCATCAACCATTTGCCTTCAGCTTAGACTGGAAGACTTATTCATCTCTTTATTTGC
CCATCGACTTAGTCCTGGGAGACCTCCTTTATCAACCA
Found at i:2405919 original size:253 final size:253
Alignment explanation
Indices: 2405319--2405937 Score: 649
Period size: 253 Copynumber: 2.4 Consensus size: 253
2405309 TGTTTGGTCA
* * *
2405319 TCGGCTTAGACTTGGGAGACTTCTTCATCCATCATCTGCTCATCGGCTTAGACCCGTGAGACTTT
1 TCGGCTTAGACTTGGGAGACTTCTTCATCCATCATCTACTCGTCGGCTTAGACCCGAGAGAC-TT
* * * * *
2405384 TTTTATCAATTGTCTGCCTGTCAGCTTAGACCCGGGAGACTTCTTCATCCATAGTCTGCTCGTTG
65 TTTCATCAATTGTTTGCCT-TCAGCTTAGACCCAGGAGACTTCTTCATCCATAGTCTGCCCATTG
* * * * * *
2405449 GCTCAGTCCCTAGAGACTTCCTTTATCAATCGTCTGCCTGTCAGCTTAGACCTAGGTGACTTCTT
129 ACTCAGTACCTAGAGACTTCCTTTATCAACCATCTGCCTGTCAGCTTAGACCTAGGAGACTTATT
* ** * ** ** **
2405514 CATCCATTGTTTGCCTGTCAGCTTAGTCCTAGGATATTTCCTTTATCAACTGTCTGCTTG
194 CATCCATTATTTGCCCATCAGCTTAGTCCTAGGAGACCTCCTTTATCAACCATCTGCCCG
* * * * *
2405574 TCGGCTTAGACCTGGGAGA-TTCTTCATCCACCATTTACTCGTCGGCTTAGACCTGGGAGACTTT
1 TCGGCTTAGACTTGGGAGACTTCTTCATCCATCATCTACTCGTCGGCTTAGACCCGAGAGACTTT
** * *
2405638 TTCATCTTTTGTTTGCCCGTT-GGCTTAGACCCATGAGACTTCTTCATCCATCA-TCTGCCCATT
66 TTCATCAATTGTTTG-CC-TTCAGCTTAGACCCAGGAGACTTCTTCATCCAT-AGTCTGCCCATT
* * * * * *
2405701 GACTTAG-ACCTGGGAGACTTGCTTTATCAACCATTTGCCTGTCGGCTTAGACCTGGGAGACTTA
128 GACTCAGTACCT-AGAGACTTCCTTTATCAACCATCTGCCTGTCAGCTTAGACCTAGGAGACTTA
*** * *
2405765 TTCATTTTTTATTTGCCCATC-GACTTAGTCCTGGGAGACCTCCTTTATCAACCATTTGCCCG
192 TTCATCCATTATTTGCCCATCAG-CTTAGTCCTAGGAGACCTCCTTTATCAACCATCTGCCCG
*** * *
2405827 TCGGCTTAGACTTGGGAGACTTCTTCATTTTTCATCTACCCGTCGACTTAGACCCGAGAGACTTT
1 TCGGCTTAGACTTGGGAGACTTCTTCATCCATCATCTACTCGTCGGCTTAGACCCGAGAGACTTT
* * *
2405892 TTCATCCACTGTTTGCCTTCAGCTTAGA--CTGGAAGACTTCTTCATC
66 TTCATCAATTGTTTGCCTTCAGCTTAGACCCAGG-AGACTTCTTCATC
2405938 TCTTTATTTG
Statistics
Matches: 297, Mismatches: 59, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
251 2 0.01
252 19 0.06
253 169 0.57
254 88 0.30
255 19 0.06
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.35
Consensus pattern (253 bp):
TCGGCTTAGACTTGGGAGACTTCTTCATCCATCATCTACTCGTCGGCTTAGACCCGAGAGACTTT
TTCATCAATTGTTTGCCTTCAGCTTAGACCCAGGAGACTTCTTCATCCATAGTCTGCCCATTGAC
TCAGTACCTAGAGACTTCCTTTATCAACCATCTGCCTGTCAGCTTAGACCTAGGAGACTTATTCA
TCCATTATTTGCCCATCAGCTTAGTCCTAGGAGACCTCCTTTATCAACCATCTGCCCG
Found at i:2406062 original size:84 final size:83
Alignment explanation
Indices: 2405972--2406262 Score: 397
Period size: 84 Copynumber: 3.5 Consensus size: 83
2405962 CTTGGGAAAT
* * *
2405972 AACCTTCATCCATTATTTACCTATCAACTTAGTCCCCGATAAACCCTATCTCTCCTTGGTGGCCT
1 AACCTTCATCCATTATTTACCTATCGACTCAGTCCCCGGTAAACCC-ATCTCTCCTTGGTGGCCT
2406037 GTCAGCTCAGTCTCCGGTC
65 GTCAGCTCAGTCTCCGGTC
*
2406056 AACCTTCATCCATTATTTACCTATCGACTCAGTCCTCGGTAAACCCCATCTCTCCTTGGTGGCCT
1 AACCTTCATCCATTATTTACCTATCGACTCAGTCCCCGGTAAA-CCCATCTCTCCTTGGTGGCCT
2406121 GTCAGCTCAGTCTCCGGTC
65 GTCAGCTCAGTCTCCGGTC
* * * *
2406140 AACCTTCATCCATTATTTACATGTCGACTCAGTCCCCGGTAAACCCATC-CT-TTATGGTGACCT
1 AACCTTCATCCATTATTTACCTATCGACTCAGTCCCCGGTAAACCCATCTCTCCT-TGGTGGCCT
* **
2406203 GTCAGCTTAGTCTCTAGTC
65 GTCAGCTCAGTCTCCGGTC
* * * * *
2406222 AACCTTCACCCATTGTTTACCTGTCGACTTAGTCCCTGGTA
1 AACCTTCATCCATTATTTACCTATCGACTCAGTCCCCGGTA
2406263 GACCTGTCAG
Statistics
Matches: 188, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
81 1 0.01
82 62 0.33
83 6 0.03
84 116 0.62
85 3 0.02
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.32
Consensus pattern (83 bp):
AACCTTCATCCATTATTTACCTATCGACTCAGTCCCCGGTAAACCCATCTCTCCTTGGTGGCCTG
TCAGCTCAGTCTCCGGTC
Found at i:2406173 original size:41 final size:41
Alignment explanation
Indices: 2406034--2406255 Score: 145
Period size: 41 Copynumber: 5.4 Consensus size: 41
2406024 TCCTTGGTGG
2406034 CCTGTC-AGCTCAGTCTCCGGTCAACCTTCATCCATTATTTA
1 CCTGTCGA-CTCAGTCTCCGGTCAACCTTCATCCATTATTTA
* * ** **
2406075 CCTATCGACTCAGTC-CTCGGTAAACCCCATCTC-TCC-TTGGTGG
1 CCTGTCGACTCAGTCTC-CGGTCAA--CC-T-TCATCCATTATTTA
2406118 CCTGTC-AGCTCAGTCTCCGGTCAACCTTCATCCATTATTTA
1 CCTGTCGA-CTCAGTCTCCGGTCAACCTTCATCCATTATTTA
* * * * *
2406159 CATGTCGACTCAGTCCCCGGTAAACC--CATCCTTTATGGTGA
1 CCTGTCGACTCAGTCTCCGGTCAACCTTCATCCATTAT--TTA
* ** * *
2406200 CCTGTC-AGCTTAGTCTCTAGTCAACCTTCACCCATTGTTTA
1 CCTGTCGA-CTCAGTCTCCGGTCAACCTTCATCCATTATTTA
*
2406241 CCTGTCGACTTAGTC
1 CCTGTCGACTCAGTC
2406256 CCTGGTAGAC
Statistics
Matches: 137, Mismatches: 27, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
39 11 0.08
40 6 0.04
41 79 0.58
42 4 0.03
43 30 0.22
44 5 0.04
45 2 0.01
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.32
Consensus pattern (41 bp):
CCTGTCGACTCAGTCTCCGGTCAACCTTCATCCATTATTTA
Found at i:2406698 original size:84 final size:82
Alignment explanation
Indices: 2406420--2406717 Score: 226
Period size: 84 Copynumber: 3.6 Consensus size: 82
2406410 ACTTTCTTCC
* ** **
2406420 ATCTTTTGTTGACTTGTCGGTCCAAT-CTCGGTCAACTTTTTATCCTTTGTTTACCCACCGGCCC
1 ATCTCTTGTTGACTTGTCGGTTTAATCCT-GGTCAACTTTTTATCCTTTGTTTACCC-CCAACCC
*
2406484 AGTCCTGAGTAAATCCTTT
64 AGTCCTGGGTAAATCCTTT
* ** * * * *
2406503 ATCCCTCCTTGACTTGTCGGTTTAATCCTAGTCAACTTTTTATCCTTT-ATT-CCCCTATCGGCT
1 ATCTCTTGTTGACTTGTCGGTTTAATCCTGGTCAACTTTTTATCCTTTGTTTACCCCCAAC--C-
** ** *
2406566 TC-GTCCCAGGTACTTCTTTTT
63 -CAGTCCTGGGTAAATC-CTTT
* ** * **
2406587 ATCTTTTGTTGACTCATTGGTCCAATCCTGGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCC
1 ATCTCTTGTTGACTTGTCGGTTTAATCCTGGTCAAC-TTTTTATCCTTTGTTTACCC-CCAACCC
2406652 AGTCCTGGGTAAATCCTTT
64 AGTCCTGGGTAAATCCTTT
* * * * *
2406671 ATCTCTTGTTAACTTGTCGATTTAATCCCGATTAACTTTTTATCCTT
1 ATCTCTTGTTGACTTGTCGGTTTAATCCTGGTCAACTTTTTATCCTT
2406718 CATTCACCTG
Statistics
Matches: 158, Mismatches: 46, Indels: 22
0.70 0.20 0.10
Matches are distributed among these distances:
80 2 0.01
81 3 0.02
82 3 0.02
83 58 0.37
84 61 0.39
85 22 0.14
86 3 0.02
87 3 0.02
88 3 0.02
ACGTcount: A:0.17, C:0.27, G:0.13, T:0.43
Consensus pattern (82 bp):
ATCTCTTGTTGACTTGTCGGTTTAATCCTGGTCAACTTTTTATCCTTTGTTTACCCCCAACCCAG
TCCTGGGTAAATCCTTT
Found at i:2406751 original size:167 final size:168
Alignment explanation
Indices: 2406374--2406809 Score: 576
Period size: 167 Copynumber: 2.6 Consensus size: 168
2406364 TCAATCAACC
* **
2406374 TTTATCCTTCATTCACCTATCGACTTGGTCCCAGGTACTT-TCTTCCATCTTTTGTTGACTTGTC
1 TTTATCCTTCATTCACCTATCGGCTTGGTCCCAGGTACTTCT-TTTTATCTTTTGTTGACTTGTC
**
2406438 GGTCCAATCTCGGTCAAC-TTTTTATCCTTTGTTTACCCACCGGCCCAGTCCTGAGTAAATCCTT
65 GGTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACCCACCAACCCAGTCCTGAGTAAATCCTT
* * *
2406502 TATCCCTCCTTGACTTGTCGGTTTAATCCTAGTCAACTT
130 TATCCCTCCTTAACTTGTCGATTTAATCCGAGTCAACTT
* * * ** *
2406541 TTTATCCTTTATTCCCCTATCGGCTTCGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTCATTG
1 TTTATCCTTCATTCACCTATCGGCTTGGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTTGTCG
* *
2406606 GTCCAATC-CTGGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCCAGTCCTGGGTAAATCCTT
66 GTCCAATCTC-GGTCAACTTTTTTATCCTTTGTTTACCCACCAACCCAGTCCTGAGTAAATCCTT
* ** *
2406670 TATCTCTTGTTAACTTGTCGATTTAATCCCGA-TTAACTT
130 TATCCCTCCTTAACTTGTCGATTTAAT-CCGAGTCAACTT
* * * *
2406709 TTTATCCTTCATTCACCTGTCGGCTTGGTCCCA-GTACTTCTTTTTATATTTTATTAACTTGTCG
1 TTTATCCTTCATTCACCTATCGGCTTGGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTTGTCG
* *
2406773 GTCTAATCTCGGTCAACTTTTTTATCCCTTGTTTACC
66 GTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACC
2406810 TATCGACTTA
Statistics
Matches: 232, Mismatches: 32, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
166 1 0.00
167 127 0.55
168 101 0.44
169 3 0.01
ACGTcount: A:0.17, C:0.27, G:0.13, T:0.43
Consensus pattern (168 bp):
TTTATCCTTCATTCACCTATCGGCTTGGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTTGTCG
GTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACCCACCAACCCAGTCCTGAGTAAATCCTTT
ATCCCTCCTTAACTTGTCGATTTAATCCGAGTCAACTT
Found at i:2406875 original size:252 final size:253
Alignment explanation
Indices: 2406602--2407063 Score: 696
Period size: 252 Copynumber: 1.8 Consensus size: 253
2406592 TTGTTGACTC
*
2406602 ATTGGTCCAATCCTGGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCCAGTCCTGGGTAAATC
1 ATTGGTCCAATCCTAGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCCAGTCCTGGGTAAATC
* * *
2406667 CTTTATCTCTTGTTAACTTGTC-GATTTAATCCCGATTAACTTTTTATCCTTCATTCACC-TGTC
66 CTTTATCCCTTGGTAACTTGTCAG-TTTAATCCCGATCAACTTTTTATCCTTCATTC-CCTTGTC
* * * ** *
2406730 GGCTTGGTCCCA-GTACTTCTTTTTATATTTTATTAACTTGTCGGTCTAATCTCGGTCAACTTTT
129 GGCTTGGTCCCAGGTACTTCCTTTTATATTTTATTAACTTGTCGGTCCAATCCCAATCAACTTCT
2406794 TTATCCCTTGTTTACCTATCGACTTAGTCTCGGATAAATCTTTTATTTTTTTATTAACTT
194 TTATCCCTTGTTTACCTATCGACTTAGTCTCGGATAAATCTTTTATTTTTTTATTAACTT
* * *** *
2406854 ATTGGTCCAATCTTAGTCAACTTTTTTATCCTTTGTTTACTCGCTGGCCTAGTCCTGGGTAAATC
1 ATTGGTCCAATCCTAGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCCAGTCCTGGGTAAATC
*
2406919 CTTTATCCCTTGGTGACTTGTCAGTTTAATCCCGATCAACTTTTTATCCTTCATTCCCTTGTCGG
66 CTTTATCCCTTGGTAACTTGTCAGTTTAATCCCGATCAACTTTTTATCCTTCATTCCCTTGTCGG
* * *
2406984 CTTGGTCCCAGGTACTTCCTTTTATCTTTTGTTGACTTGTCGGTCCAATCCCAATCAACTTCTTT
131 CTTGGTCCCAGGTACTTCCTTTTATATTTTATTAACTTGTCGGTCCAATCCCAATCAACTTCTTT
*
2407049 ATCCTTTGTTTACCT
196 ATCCCTTGTTTACCT
2407064 GCCAGCCTAG
Statistics
Matches: 186, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
251 2 0.01
252 124 0.67
253 60 0.32
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.44
Consensus pattern (253 bp):
ATTGGTCCAATCCTAGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCCAGTCCTGGGTAAATC
CTTTATCCCTTGGTAACTTGTCAGTTTAATCCCGATCAACTTTTTATCCTTCATTCCCTTGTCGG
CTTGGTCCCAGGTACTTCCTTTTATATTTTATTAACTTGTCGGTCCAATCCCAATCAACTTCTTT
ATCCCTTGTTTACCTATCGACTTAGTCTCGGATAAATCTTTTATTTTTTTATTAACTT
Found at i:2406878 original size:168 final size:166
Alignment explanation
Indices: 2406374--2406886 Score: 548
Period size: 167 Copynumber: 3.1 Consensus size: 166
2406364 TCAATCAACC
* **
2406374 TTTATCCTTCATTCACCTATCGACTTGGTCCCAGGTACTT-TCTTCCATCTTTTGTTGACTTGTC
1 TTTATCCTTCATTCACCTATCGGCTTGGTCCCAGGTACTTCT-TTTTATCTTTTGTTGACTTGTC
* *
2406438 GGTCCAATCTCGGTCAAC-TTTTTATCCTTTGTTTACCCACCGGCCCAGTCCTGAGTAAATCCTT
65 GGTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACCCACCGACCCAGTCCGGA-TAAATCCTT
* ** *
2406502 TATCCCTCCTTGACTTGTCGGTTTAATCCTAGTCAACTT
129 TATCTCTTATTAACTTGTCGGTTTAAT-CTAGTCAACTT
* * * ** *
2406541 TTTATCCTTTATTCCCCTATCGGCTTCGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTCATTG
1 TTTATCCTTCATTCACCTATCGGCTTGGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTTGTCG
* * *
2406606 GTCCAATC-CTGGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCCAGTCCTGGGTAAATCCTT
66 GTCCAATCTC-GGTCAACTTTTTTATCCTTTGTTTACCCACCGACCCAGTCC-GGATAAATCCTT
* * ** *
2406670 TATCTCTTGTTAACTTGTCGATTTAATCCCGATTAACTT
129 TATCTCTTATTAACTTGTCGGTTTAATCTAG-TCAACTT
* * * *
2406709 TTTATCCTTCATTCACCTGTCGGCTTGGTCCCA-GTACTTCTTTTTATATTTTATTAACTTGTCG
1 TTTATCCTTCATTCACCTATCGGCTTGGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTTGTCG
* * * * ** *
2406773 GTCTAATCTCGGTCAACTTTTTTATCCCTTGTTTACCTATCGACTTAGTCTCGGATAAATCTTTT
66 GTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACCCACCGACCCAGTC-CGGATAAATCCTTT
* * * * **
2406838 ATTTTTTTATTAACTTATTGGTCCAATCTTAGTCAACTTT
130 A-TCTCTTATTAACTTGTCGGTTTAATC-TAGTCAAC-TT
2406878 TTTATCCTT
1 TTTATCCTT
2406887 TGTTTACTCG
Statistics
Matches: 283, Mismatches: 53, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
166 1 0.00
167 148 0.52
168 121 0.43
169 13 0.05
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.44
Consensus pattern (166 bp):
TTTATCCTTCATTCACCTATCGGCTTGGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTTGTCG
GTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACCCACCGACCCAGTCCGGATAAATCCTTTA
TCTCTTATTAACTTGTCGGTTTAATCTAGTCAACTT
Found at i:2406907 original size:85 final size:85
Alignment explanation
Indices: 2406757--2406924 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
2406747 TCTTTTTATA
* * * * *
2406757 TTTTATTAACTTGTCGGTCTAATCTCGGTCAACTTTTTTATCCCTTGTTTACCTATCGACTTAGT
1 TTTTATTAACTTATCGGTCCAATCTCAGTCAACTTTTTTATCCCTTGTTTACCGATCGACCTAGT
*
2406822 -CTCGGATAAATCTTTTATTT
66 CCT-GGATAAATCCTTTATTT
* * * * *
2406842 TTTTATTAACTTATTGGTCCAATCTTAGTCAACTTTTTTATCCTTTGTTTACTCGCT-GGCCTAG
1 TTTTATTAACTTATCGGTCCAATCTCAGTCAACTTTTTTATCCCTTGTTTAC-CGATCGACCTAG
*
2406906 TCCTGGGTAAATCCTTTAT
65 TCCTGGATAAATCCTTTAT
2406925 CCCTTGGTGA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 65 0.94
86 4 0.06
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (85 bp):
TTTTATTAACTTATCGGTCCAATCTCAGTCAACTTTTTTATCCCTTGTTTACCGATCGACCTAGT
CCTGGATAAATCCTTTATTT
Found at i:2407020 original size:84 final size:83
Alignment explanation
Indices: 2406932--2407189 Score: 257
Period size: 84 Copynumber: 3.1 Consensus size: 83
2406922 TATCCCTTGG
*
2406932 TGACTTGTCAGTTTAATCCCGATCAACTTTTTATCCTTCATTCCCTTGTCGGCTTGGTCCCAGGT
1 TGACTTGTCAGTTTAATCCCGATCAACTTTTTATCCTTCATTCCC-TGTCAGCTTGGTCCCAGGT
2406997 ACTTCCTTTTATCTTTTGT
65 ACTTCCTTTTATCTTTTGT
* ** * ** * * * *
2407016 TGACTTGTCGGTCCAATCCCAATCAACTTCTTTATCCTTTGTTTACCTGCCAGCCTAGTCCCAGG
1 TGACTTGTCAGTTTAATCCCGATCAACTT-TTTATCC-TTCATTCCCTGTCAGCTTGGTCCCAGG
** ** *
2407081 TAAATCC-TTTATCCCTCGT
64 TACTTCCTTTTATCTTTTGT
* * * * *
2407100 TGACTTGTCAGTTTGATCCCGGTCAACTTTTTACCCTTCATTCACCTCTCAGCTTGGTCCTAGGT
1 TGACTTGTCAGTTTAATCCCGATCAACTTTTTATCCTTCATTC-CCTGTCAGCTTGGTCCCAGGT
* * *
2407165 ACTTCTTTTTATATTTTAT
65 ACTTCCTTTTATCTTTTGT
2407184 TGACTT
1 TGACTT
2407190 ATCGTCCAAT
Statistics
Matches: 131, Mismatches: 39, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
82 4 0.03
83 25 0.19
84 70 0.53
85 26 0.20
86 6 0.05
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.42
Consensus pattern (83 bp):
TGACTTGTCAGTTTAATCCCGATCAACTTTTTATCCTTCATTCCCTGTCAGCTTGGTCCCAGGTA
CTTCCTTTTATCTTTTGT
Found at i:2407055 original size:168 final size:167
Alignment explanation
Indices: 2406833--2407276 Score: 518
Period size: 168 Copynumber: 2.6 Consensus size: 167
2406823 TCGGATAAAT
* * * ** * *
2406833 CTTTTATTTTTTTATTAACTTATTGGTCCAATCTTAGTCAACTTTTTTATCCTTTGTTTA-CTCG
1 CTTTTA-TATTTTATTGACTTA-TCGTCCAATCCCAATCAACTTCTTTATCCTTTGTTTACCT-G
* *
2406897 CTGGCCTAGTCCTGGGTAAATCCTTTATCCCTTGGTGACTTGTCAGTTTAATCCCGATCAACTTT
63 CTGGCCTAGTCCTAGGTAAATCCTTTATCCCTTGTTGACTTGTCAGTTTAATCCCGATCAACTTT
* * *
2406962 TTATCCTTCATTC-CCTTGTCGGCTTGGTCCCAGGTACTTC
128 TTACCCTTCATTCACC-TCTCAGCTTGGTCCCAGGTACTTC
* * * *
2407002 CTTTTATCTTTTGTTGACTTGTCGGTCCAATCCCAATCAACTTCTTTATCCTTTGTTTACCTGCC
1 CTTTTATATTTTATTGACTTATC-GTCCAATCCCAATCAACTTCTTTATCCTTTGTTTACCTGCT
* * * * *
2407067 AGCCTAGTCCCAGGTAAATCCTTTATCCCTCGTTGACTTGTCAGTTTGATCCCGGTCAACTTTTT
65 GGCCTAGTCCTAGGTAAATCCTTTATCCCTTGTTGACTTGTCAGTTTAATCCCGATCAACTTTTT
*
2407132 ACCCTTCATTCACCTCTCAGCTTGGTCCTAGGTACTTC
130 ACCCTTCATTCACCTCTCAGCTTGGTCCCAGGTACTTC
* * **
2407170 TTTTTATATTTTATTGACTTATCGTCCAATCTCGGTCAACTTCTTTATCGC-TTGTTTACCTG-T
1 CTTTTATATTTTATTGACTTATCGTCCAATCCCAATCAACTTCTTTATC-CTTTGTTTACCTGCT
* * * * *
2407233 CGACATAGTCCTAGATAAATCTTTTATCCTTTGTTGACTTGTCA
65 -GGCCTAGTCCTAGGTAAATCCTTTATCCCTTGTTGACTTGTCA
2407277 ATTCGATCCC
Statistics
Matches: 233, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
167 70 0.30
168 153 0.66
169 10 0.04
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (167 bp):
CTTTTATATTTTATTGACTTATCGTCCAATCCCAATCAACTTCTTTATCCTTTGTTTACCTGCTG
GCCTAGTCCTAGGTAAATCCTTTATCCCTTGTTGACTTGTCAGTTTAATCCCGATCAACTTTTTA
CCCTTCATTCACCTCTCAGCTTGGTCCCAGGTACTTC
Found at i:2407127 original size:252 final size:252
Alignment explanation
Indices: 2406606--2407131 Score: 621
Period size: 252 Copynumber: 2.1 Consensus size: 252
2406596 TGACTCATTG
2406606 GTCCAATCCTGGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCCAGTCCTGGGTAAATCCTTT
1 GTCCAATCCTGGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCCAGTCCTGGGTAAATCCTTT
* * *
2406671 ATCTCTTGTTAACTTGTCGATTTAATCCCGATTAACTTTTTATCCTTCATTCACCTGTCGGCTTG
66 ATCCCTTGGTAACTTGTCGATTTAATCCCGATCAACTTTTTATCCTTCATTCACCTGTCGGCTTG
* * * ** *
2406736 GTCCCAGTACTTCTTTTTATATTTTATTAACTTGTCGGTCTAATCTCGGTCAACTTTTTTATCCC
131 GTCCCAGTACTTCCTTTTATATTTTATTAACTTGTCGGTCCAATCCCAATCAACTTCTTTATCCC
* * * * *** * **
2406801 TTGTTTACCTATCGACTTAGTCTCGGATAAATCTTTTATTTTTTTATTAACTTATTG
196 TTGTTTACCTACCGACCTAGTCCCGGATAAATCCTTTATTCCCTCATTAACTTATCA
* * * *** *
2406858 GTCCAATCTTAGTCAACTTTTTTATCCTTTGTTTACTCGCTGGCCTAGTCCTGGGTAAATCCTTT
1 GTCCAATCCTGGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCCAGTCCTGGGTAAATCCTTT
*
2406923 ATCCCTTGGTGACTTGTC-AGTTTAATCCCGATCAACTTTTTATCCTTCATTC-CCTTGTCGGCT
66 ATCCCTTGGTAACTTGTCGA-TTTAATCCCGATCAACTTTTTATCCTTCATTCACC-TGTCGGCT
* * *
2406986 TGGTCCCAGGTACTTCCTTTTATCTTTTGTTGACTTGTCGGTCCAATCCCAATCAACTTCTTTAT
129 TGGTCCCA-GTACTTCCTTTTATATTTTATTAACTTGTCGGTCCAATCCCAATCAACTTCTTTAT
* * * * *
2407051 CCTTTGTTTACCTGCC-AGCCTAGTCCCAGG-TAAATCCTTTA-TCCCTCGTTGACTTGTCA
193 CCCTTGTTTACCTACCGA-CCTAGTCCC-GGATAAATCCTTTATTCCCTCATTAACTTATCA
*** *
2407110 GTTTGATCCCGGTCAACTTTTT
1 GTCCAATCCTGGTCAACTTTTT
2407132 ACCCTTCATT
Statistics
Matches: 228, Mismatches: 41, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
251 3 0.01
252 146 0.64
253 77 0.34
254 2 0.01
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.43
Consensus pattern (252 bp):
GTCCAATCCTGGTCAACTTTTTTATCCTTTGTTTACCCGCCAACCCAGTCCTGGGTAAATCCTTT
ATCCCTTGGTAACTTGTCGATTTAATCCCGATCAACTTTTTATCCTTCATTCACCTGTCGGCTTG
GTCCCAGTACTTCCTTTTATATTTTATTAACTTGTCGGTCCAATCCCAATCAACTTCTTTATCCC
TTGTTTACCTACCGACCTAGTCCCGGATAAATCCTTTATTCCCTCATTAACTTATCA
Found at i:2407252 original size:420 final size:419
Alignment explanation
Indices: 2406438--2407259 Score: 1148
Period size: 420 Copynumber: 2.0 Consensus size: 419
2406428 TTGACTTGTC
*
2406438 GGTCCAATCTCGGTCAACTTTTTATCCTTTGTTTACCCACCGGCCCAGTCCTGAGTAAATCCTTT
1 GGTCCAATCTCAGTCAACTTTTTATCCTTTGTTTACCCACCGGCCCAGTCCTGAGTAAATCCTTT
* * * *
2406503 ATCCCTCCTTGACTTGTCGGTTTAATCCTAGTCAACTTTTTATCCTTTATTCCCCTATCGGCTTC
66 ATCCCTCCGTGACTTGTCAGTTTAATCCGAGTCAACTTTTTATCCTTCATTCCCCTATCGGCTTC
* * *** *
2406568 GTCCCAGGTACTTCTTTTTATCTTTTGTTGACTCATTGGTCCAATCCTGGTCAACTTTTTTATCC
131 GTCCCAGGTACTTCCTTTTATCTTTTGTTGACTCATCGGTCCAATCCCAATCAACTTCTTTATCC
** * *
2406633 TTTGTTTACCCGCCAACCCAGTCCTGGGTAAATCCTTTATCTCTTGTTAACTTGTCGATTTAATC
196 TTTGTTTACCCGCCAACCCAGTCCCAGGTAAATCCTTTATCCCTCGTTAACTTGTCGATTTAATC
* * * *
2406698 CCGATTAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAGTACTTCTTTTTATATTTTAT
261 CCGATCAACTTTTTACCCTTCATTCACCTCTCAGCTTGGTCCCAGTACTTCTTTTTATATTTTAT
* * * * *
2406763 TAACTTGTCGGTCTAATCTCGGTCAACTTTTTTATCCCTTGTTTACCTATCGACTTAGTCTCGGA
326 TAACTTATCGGTCCAATCTCGGTCAACTTCTTTATCCCTTGTTTACCTATCGACATAGTCTCAGA
2406828 TAAATCTTTTATTTTTTTATTAACTTATT
391 TAAATCTTTTATTTTTTTATTAACTTATT
* * * * * *
2406857 GGTCCAATCTTAGTCAACTTTTTTATCCTTTGTTTACTCGCTGGCCTAGTCCTGGGTAAATCCTT
1 GGTCCAATCTCAGTCAAC-TTTTTATCCTTTGTTTACCCACCGGCCCAGTCCTGAGTAAATCCTT
** * *
2406922 TATCCCTTGGTGACTTGTCAGTTTAATCCCGA-TCAACTTTTTATCCTTCATTCCCTTGTCGGCT
65 TATCCCTCCGTGACTTGTCAGTTTAAT-CCGAGTCAACTTTTTATCCTTCATTCCCCTATCGGCT
* **
2406986 TGGTCCCAGGTACTTCCTTTTATCTTTTGTTGACTTGTCGGTCCAATCCCAATCAACTTCTTTAT
129 TCGTCCCAGGTACTTCCTTTTATCTTTTGTTGACTCATCGGTCCAATCCCAATCAACTTCTTTAT
* * * * *
2407051 CCTTTGTTTACCTGCCAGCCTAGTCCCAGGTAAATCCTTTATCCCTCGTTGACTTGTC-AGTTTG
194 CCTTTGTTTACCCGCCAACCCAGTCCCAGGTAAATCCTTTATCCCTCGTTAACTTGTCGA-TTTA
* *
2407115 ATCCCGGTCAACTTTTTACCCTTCATTCACCTCTCAGCTTGGTCCTAGGTACTTCTTTTTATATT
258 ATCCCGATCAACTTTTTACCCTTCATTCACCTCTCAGCTTGGTCCCA-GTACTTCTTTTTATATT
* * *
2407180 TTATTGACTTATC-GTCCAATCTCGGTCAACTTCTTTATCGCTTGTTTACCTGTCGACATAGTC-
322 TTATTAACTTATCGGTCCAATCTCGGTCAACTTCTTTATCCCTTGTTTACCTATCGACATAGTCT
2407243 CTAGATAAATCTTTTAT
387 C-AGATAAATCTTTTAT
2407260 CCTTTGTTGA
Statistics
Matches: 351, Mismatches: 47, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
419 18 0.05
420 302 0.86
421 31 0.09
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.43
Consensus pattern (419 bp):
GGTCCAATCTCAGTCAACTTTTTATCCTTTGTTTACCCACCGGCCCAGTCCTGAGTAAATCCTTT
ATCCCTCCGTGACTTGTCAGTTTAATCCGAGTCAACTTTTTATCCTTCATTCCCCTATCGGCTTC
GTCCCAGGTACTTCCTTTTATCTTTTGTTGACTCATCGGTCCAATCCCAATCAACTTCTTTATCC
TTTGTTTACCCGCCAACCCAGTCCCAGGTAAATCCTTTATCCCTCGTTAACTTGTCGATTTAATC
CCGATCAACTTTTTACCCTTCATTCACCTCTCAGCTTGGTCCCAGTACTTCTTTTTATATTTTAT
TAACTTATCGGTCCAATCTCGGTCAACTTCTTTATCCCTTGTTTACCTATCGACATAGTCTCAGA
TAAATCTTTTATTTTTTTATTAACTTATT
Found at i:2408418 original size:51 final size:51
Alignment explanation
Indices: 2408362--2408470 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 51
2408352 ATGGGGCTGA
*
2408362 AGTATCCTCGATTAT-GAAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGG
1 AGTATCCTCGATTATAG-AAAATCGGTGTTTTGAAAATAAAATCGGCGTTGG
* *
2408413 AGTATCCTTGATTATAGAAAATCGGTGTTTTGAAAATAAAATTGGCGTTGG
1 AGTATCCTCGATTATAGAAAATCGGTGTTTTGAAAATAAAATCGGCGTTGG
2408464 AGTATCC
1 AGTATCC
2408471 CTTCGAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 53 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (51 bp):
AGTATCCTCGATTATAGAAAATCGGTGTTTTGAAAATAAAATCGGCGTTGG
Found at i:2408542 original size:79 final size:79
Alignment explanation
Indices: 2408446--2408788 Score: 366
Period size: 79 Copynumber: 4.3 Consensus size: 79
2408436 GGTGTTTTGA
* * * ** *
2408446 AAATAAAATTGGCGTTGGAGTATCCCTTCGAAAATAACGGGGTTAAAGTATCCCTGATTGTGAAA
1 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
*
2408511 AATCGATGCTTTAG
66 AATCAATGCTTTAG
** * * *
2408525 AAATAAGGTCGGGGTTGGAGTATCCCCACGAAAATAACGGGGTTGGAGTATCCCCGCTTGTGAGA
1 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
**
2408590 AATCAATATTTTAG
66 AATCAATGCTTTAG
* * * *
2408604 AAATAAAGTCGGGGTTGGAGTAT-CCC-CGATGAAATAATGGAGTTGGTGTATCCCCGATTGTGA
1 AAATAAAATCGGGGTTGGAGTATCCCCTCGA--AAATAACGGGGTTGGAGTATCCCCGATTGTGA
***
2408667 AAAATTGGTGCTTTAG
64 AAAATCAATGCTTTAG
* * * * * * *
2408683 AAATAAAATCAGGGTTGGAATATCCCCTCGGAAATAACGGGATTGGAGTATCTCTGATTATGAAA
1 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
* * *
2408748 AATTAATGTTTTGG
66 AATCAATGCTTTAG
*
2408762 AAATAAAATTGGGGTTGGAGTATCCCC
1 AAATAAAATCGGGGTTGGAGTATCCCC
2408789 GAGATGAAAA
Statistics
Matches: 217, Mismatches: 43, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
77 3 0.01
78 3 0.01
79 206 0.95
80 3 0.01
81 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
AATCAATGCTTTAG
Found at i:2408698 original size:158 final size:158
Alignment explanation
Indices: 2408493--2408790 Score: 416
Period size: 158 Copynumber: 1.9 Consensus size: 158
2408483 CGGGGTTAAA
* ** * *
2408493 GTATCCCTGATTGTGAAAAATCGATGCTTTAGAAATAAGGTCGGGGTTGGAGTATCCCCACGAAA
1 GTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAATCAGGGTTGGAATATCCCCACGAAA
* * * * *
2408558 ATAACGGGGTTGGAGTATCCCCGCTTGTGAGAAATCAATATTTTAGAAATAAAGTCGGGGTTGGA
66 ATAACGGGATTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGA
2408623 GTATCCCCGATGAAATAATGGAGTTGGT
131 GTATCCCCGATGAAATAATGGAGTTGGT
* * * *
2408651 GTATCCCCGATTGTGAAAAATTGGTGCTTTAGAAATAAAATCAGGGTTGGAATATCCCCTCGGAA
1 GTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAATCAGGGTTGGAATATCCCCACGAAA
* * * * * *
2408716 ATAACGGGATTGGAGTATCTCTGATTATGAAAAATTAATGTTTTGGAAATAAAATTGGGGTTGGA
66 ATAACGGGATTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGA
2408781 GTATCCCCGA
131 GTATCCCCGA
2408791 GATGAAAAAT
Statistics
Matches: 120, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
158 120 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (158 bp):
GTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAATCAGGGTTGGAATATCCCCACGAAA
ATAACGGGATTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGA
GTATCCCCGATGAAATAATGGAGTTGGT
Found at i:2411199 original size:30 final size:30
Alignment explanation
Indices: 2411163--2411235 Score: 146
Period size: 30 Copynumber: 2.4 Consensus size: 30
2411153 GCAATGAACA
2411163 ATGTATTGATACATCTGGGTAAAACCCAGC
1 ATGTATTGATACATCTGGGTAAAACCCAGC
2411193 ATGTATTGATACATCTGGGTAAAACCCAGC
1 ATGTATTGATACATCTGGGTAAAACCCAGC
2411223 ATGTATTGATACA
1 ATGTATTGATACA
2411236 ATGAATAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (30 bp):
ATGTATTGATACATCTGGGTAAAACCCAGC
Found at i:2413177 original size:168 final size:166
Alignment explanation
Indices: 2412796--2413234 Score: 553
Period size: 168 Copynumber: 2.6 Consensus size: 166
2412786 TTTTTATTAA
* * *
2412796 TTTTTAATTTTCAAAATTCATCAAATATCATTATTTATGTCATATTAATTTAGTTTTCAAAAATT
1 TTTTAAATTTTTAAAATTCATCAAACATCATTATTTAT-TCATATTAATTTAGTTTTCAAAAATT
* * * *
2412861 CAATAATTTTCATTCA-TTTTTTATTTTTTCCTTGAAACTTTTATTTTTTTTCCAAAATACGGTG
65 CATTCATTTTCA-TGAGTTTTTTATTTTTTCCTTGAAACTTTTATTTTTCTT-C-AAATACGGTG
*
2412925 TTTGCTACTCTGTAAATTTTTTTGAGGGAATTTTTCTTAG
127 TTTGCTACTCTGTAAATTTTTTTGAGGGAATTTTTCTCAG
* * * * *
2412965 TTTTCAAGTTTTAAAATTCATCAAACATCATTATTTACTTCATATTAATTCAATTTTCAAAAGTT
1 TTTTAAATTTTTAAAATTCATCAAACATCATTATTTA-TTCATATTAATTTAGTTTTCAAAAATT
2413030 CATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGAAACTTCTT-TTTTTCTT-AAATACGGTGT
65 CATTCATTTTCATGAGTTTTTTA-TTTTTTCCTTGAAACTT-TTATTTTTCTTCAAATACGGTGT
* * *
2413093 TTTCTACT-TCGTAAATTTTTTTTGAGGGTATTTTTCTCGG
128 TTGCTACTCT-GTAAA-TTTTTTTGAGGGAATTTTTCTCAG
* * *
2413133 TTTTAAATTTTTAGAATTCATCAAACATCATCATTTGATTCATATTAATTTTGTTTTCAAAAATT
1 TTTTAAATTTTTAAAATTCATCAAACATCATTATTT-ATTCATATTAATTTAGTTTTCAAAAATT
* * * *
2413198 CATCCATTTTCATGAGTTTTTGAATTTTTCTTTGAAA
65 CATTCATTTTCATGAGTTTTTTATTTTTTCCTTGAAA
2413235 TCTCTATTTT
Statistics
Matches: 236, Mismatches: 27, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
166 1 0.00
167 35 0.15
168 99 0.42
169 74 0.31
170 25 0.11
171 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (166 bp):
TTTTAAATTTTTAAAATTCATCAAACATCATTATTTATTCATATTAATTTAGTTTTCAAAAATTC
ATTCATTTTCATGAGTTTTTTATTTTTTCCTTGAAACTTTTATTTTTCTTCAAATACGGTGTTTG
CTACTCTGTAAATTTTTTTGAGGGAATTTTTCTCAG
Found at i:2414337 original size:21 final size:21
Alignment explanation
Indices: 2414311--2414384 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
2414301 ACAATTCAAA
2414311 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGAAAAAGAT
****
2414332 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGAAAAAGAT
*
2414352 GTATCGATACATAAAAAAGAT
1 GTATCGATACATGAAAAAGAT
2414373 GTATCGATACAT
1 GTATCGATACAT
2414385 TTCTTGGCAG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (21 bp):
GTATCGATACATGAAAAAGAT
Found at i:2414341 original size:41 final size:41
Alignment explanation
Indices: 2414291--2414383 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
2414281 ACCCCTAAAA
*
2414291 GTATCGATACACAATT-CAAAGTATCGATACATGAAAAAGAT
1 GTATCGATACA-AATTGCAAAGTATCGATACATAAAAAAGAT
** *
2414332 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACAAATTGCAAAGTATCGATACATAAAAAAGAT
2414373 GTATCGATACA
1 GTATCGATACA
2414384 TTTCTTGGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
40 2 0.04
41 45 0.96
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (41 bp):
GTATCGATACAAATTGCAAAGTATCGATACATAAAAAAGAT
Found at i:2414441 original size:13 final size:13
Alignment explanation
Indices: 2414423--2414448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2414413 TACAGCAAGT
2414423 ATGTATCGATACA
1 ATGTATCGATACA
2414436 ATGTATCGATACA
1 ATGTATCGATACA
2414449 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2418530 original size:15 final size:15
Alignment explanation
Indices: 2418510--2418540 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2418500 TAAAAATGTC
*
2418510 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2418525 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2418540 C
1 C
2418541 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2420633 original size:20 final size:21
Alignment explanation
Indices: 2420554--2420632 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
2420544 AATGTCCAAA
*
2420554 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
2420574 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
2420599 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
2420619 TTGTATCGATACAT
1 ATGTATCGATACAT
2420633 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:2420637 original size:13 final size:13
Alignment explanation
Indices: 2420619--2420657 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2420609 ACATTTTTCT
2420619 TTGTATCGATACA
1 TTGTATCGATACA
2420632 TTGTATCGATACA
1 TTGTATCGATACA
*
2420645 CTGTATCGATACA
1 TTGTATCGATACA
2420658 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2422505 original size:18 final size:16
Alignment explanation
Indices: 2422464--2422509 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
2422454 AATTACTTGA
2422464 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
2422480 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
2422496 TTAAACGGGGGAGA
1 TT-AA-GGGGGAGA
2422510 CAAAGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 18 0.64
17 2 0.07
18 8 0.29
ACGTcount: A:0.28, C:0.02, G:0.39, T:0.30
Consensus pattern (16 bp):
TTAAGGGGGAGATTTT
Found at i:2422624 original size:50 final size:50
Alignment explanation
Indices: 2422549--2422662 Score: 203
Period size: 50 Copynumber: 2.3 Consensus size: 50
2422539 TAAGGGGGAG
*
2422549 AATGTACAAA-TTCGTAAAATTTATTTTGATTAAGGGAAAAATAAAGGAAA
1 AATGTA-AAATTTTGTAAAATTTATTTTGATTAAGGGAAAAATAAAGGAAA
2422599 AATGTAAAATTTTGTAAAATTTATTTTGATTAAGGGAAAAATAAAGGAAA
1 AATGTAAAATTTTGTAAAATTTATTTTGATTAAGGGAAAAATAAAGGAAA
2422649 AATGTAAAATTTTG
1 AATGTAAAATTTTG
2422663 ACTTTTGAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
49 3 0.05
50 59 0.95
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (50 bp):
AATGTAAAATTTTGTAAAATTTATTTTGATTAAGGGAAAAATAAAGGAAA
Found at i:2423190 original size:21 final size:21
Alignment explanation
Indices: 2423164--2423237 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
2423154 ACAATTCAAA
2423164 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGAAAAAGAT
****
2423185 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGAAAAAGAT
*
2423205 GTATCGATACATAAAAAAGAT
1 GTATCGATACATGAAAAAGAT
2423226 GTATCGATACAT
1 GTATCGATACAT
2423238 TTCTTGGCAG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (21 bp):
GTATCGATACATGAAAAAGAT
Found at i:2423194 original size:41 final size:41
Alignment explanation
Indices: 2423144--2423236 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
2423134 ACCCCTAAAA
*
2423144 GTATCGATACACAATT-CAAAGTATCGATACATGAAAAAGAT
1 GTATCGATACA-AATTGCAAAGTATCGATACATAAAAAAGAT
** *
2423185 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACAAATTGCAAAGTATCGATACATAAAAAAGAT
2423226 GTATCGATACA
1 GTATCGATACA
2423237 TTTCTTGGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
40 2 0.04
41 45 0.96
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (41 bp):
GTATCGATACAAATTGCAAAGTATCGATACATAAAAAAGAT
Found at i:2423294 original size:13 final size:13
Alignment explanation
Indices: 2423276--2423301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2423266 TACAGCAAGT
2423276 ATGTATCGATACA
1 ATGTATCGATACA
2423289 ATGTATCGATACA
1 ATGTATCGATACA
2423302 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2425719 original size:156 final size:153
Alignment explanation
Indices: 2425455--2426261 Score: 603
Period size: 156 Copynumber: 5.2 Consensus size: 153
2425445 GCGTCGAATA
* ** * * * *
2425455 TATCCCTTAAGGGCATTTTGGTAATTTTTTTAAAACTGAGTCTTAGGCTGTCACCGGGT-TCGCT
1 TATCCCAT-AGGGCATTTTCATAA-TTTTTTAGAACCGAATCCTAGGCTGTCACCGGGTCT-GCT
* * * *
2425519 TTCATGCCGAAAGTGGGCATTTAGGATAGCTTCATTGCATTTCTAGTCTTTTGAAGTCCTTTAGG
63 TTTATGCTGAAAGTGGGCATTTAGGATAGGTTCA-TCCATTTCTAGTCTTTTGAAGTCCTTTAGG
* * * **
2425584 GTTGCCGGGGTACTTTTATGTCAAAGG
127 GTTACCGGGATACTTTCACATCAAAGG
** * * *
2425611 TATACCCATAGGGCCATTTTCATGCTTTCTTAGAACCGAATCCTAGGCTATCACCGGGTCTACTT
1 TAT-CCCATAGGG-CATTTTCATAATTTTTTAGAACCGAATCCTAGGCTGTCACCGGGTCTGCTT
** * *
2425676 TTATGCTGAAAGTGGATATTTAGGATAGGTGCATCACATTTCTAGTCTTTTTTAAGTCCTTTAGG
64 TTATGCTGAAAGTGGGCATTTAGGATAGGTTCATC-CATTTCTAGTC-TTTTGAAGTCCTTTAGG
* *
2425741 GGTACCGGGATACTTTCACATCGAAGG
127 GTTACCGGGATACTTTCACATCAAAGG
* * * * * * *
2425768 TATCTCTTAGGGGCATTTTCGTAATTTTTTAGAACC-AACTTCTAGGTTGTCACCAGGTCCGCTT
1 TATCCCATA-GGGCATTTTCATAATTTTTTAGAACCGAA-TCCTAGGCTGTCACCGGGTCTGCTT
* * * * ** *
2425832 TTATGCT-AAAGGTGGGCAGTTAGGGTAGGTTTATGCCATTT-AAACCTTTTTAAGTCCTTTAGG
64 TTATGCTGAAA-GTGGGCATTTAGGATAGGTTCAT-CCATTTCTAGTCTTTTGAAGTCCTTTAGG
* *
2425895 G-TACCAGGATACTTTCACGTCCAAA-G
127 GTTACCGGGATACTTTCACAT-CAAAGG
* * * ***
2425921 TATCCCCTAGAGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGG-TCGTTGTCGGGTCTGCT
1 TATCCCATAG-GGCATTTTCATAATTTTT-TAGAACCGAATCCTAGGCT-GTCACCGGGTCTGCT
* * *
2425985 TTTATGCTGAAGGTGGGCATTTAGGATAGGTTCATCCTTATTATGAGTCTTTTGAAGTCCTTTAG
63 TTTATGCTGAAAGTGGGCATTTAGGATAGGTTCATCCAT-TTCT-AGTCTTTTGAAGTCCTTTAG
* *
2426050 GGTTACCGGGATACTTTTACATCGAAGG
126 GGTTACCGGGATACTTTCACATCAAAGG
* ** * ** * * * ***
2426078 TATACTCATAGAGATATTTTCATAATTTTCTAGAA-TTAACTCTTAGG-TCGTCACTGGGCCCAT
1 TAT-CCCATAG-GGCATTTTCATAATTTTTTAGAACCGAA-TCCTAGGCT-GTCACCGGGTCTGC
* * * * *
2426141 TTTTATGCTGAAGGTGGGCATTTAGGATATGTTTATCCCATTTCTA-TCTTTTTTAGGTCCTTTA
62 TTTTATGCTGAAAGTGGGCATTTAGGATAGGTTCAT-CCATTTCTAGTC-TTTTGAAGTCCTTT-
* * *
2426205 AGGG-TATCGGG-TACTTTTATATCAAAGG
124 AGGGTTACCGGGATACTTTCACATCAAAGG
* **
2426233 TATCCCCTAGGGGTGTTTTCATAATTTTT
1 TATCCCATA-GGGCATTTTCATAATTTTT
2426262 CTTGAATTTA
Statistics
Matches: 519, Mismatches: 106, Indels: 54
0.76 0.16 0.08
Matches are distributed among these distances:
152 1 0.00
153 46 0.09
154 92 0.18
155 32 0.06
156 189 0.36
157 135 0.26
158 24 0.05
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (153 bp):
TATCCCATAGGGCATTTTCATAATTTTTTAGAACCGAATCCTAGGCTGTCACCGGGTCTGCTTTT
ATGCTGAAAGTGGGCATTTAGGATAGGTTCATCCATTTCTAGTCTTTTGAAGTCCTTTAGGGTTA
CCGGGATACTTTCACATCAAAGG
Found at i:2425998 original size:154 final size:153
Alignment explanation
Indices: 2425673--2426268 Score: 482
Period size: 154 Copynumber: 3.8 Consensus size: 153
2425663 ACCGGGTCTA
* ** ** ** *
2425673 CTTTTATGCTGAAAGTGGATATTTAGGATAGGTGCATCACATTTCTAGTCTTTTTTAAGTCCTTT
1 CTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTTATC-CA-TT-TAAACCTTTTTAAGTCCTTT
* * * * * *
2425738 AGGGGTACCGGGATACTTTCACATCGAAGGTATCTCTTAGGGGCATTTTCGTAATTTTT-TAGAA
63 A-GGGTACCGGGATACTTTCACATCCAAAGTATCCCCTAGAGGCATTTTCATAATTTTTCTAGAA
* * * * * *
2425802 CCAACTTCTAGGTTGTCACCAGGTCCG
127 TCAACTCCTAGGTCGTTAACGGGTCCG
* * *
2425829 CTTTTATGCTAAAGGTGGGCAGTTAGGGTAGGTTTATGCCATTTAAACCTTTTTAAGTCCTTTAG
1 CTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTTAT-CCATTTAAACCTTTTTAAGTCCTTTAG
* * *
2425894 GGTACCAGGATACTTTCACGTCCAAAGTATCCCCTAGAGGCATTTTCATAATTTTTCTAGAATCG
65 GGTACCGGGATACTTTCACATCCAAAGTATCCCCTAGAGGCATTTTCATAATTTTTCTAGAATCA
* ** *
2425959 AGTCCTAGGTCGTTGTCGGGTCTG
130 ACTCCTAGGTCGTTAACGGGTCCG
* * ** *
2425983 CTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCATCCTTATTATGAGTCTTTTGAAGTCCTTT
1 CTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTTATCC--ATT-TAAACCTTTTTAAGTCCTTT
* * * * * **
2426048 AGGGTTACCGGGATACTTTTACATCGAAGGTATACTCATAGAGATATTTTCATAA-TTTTCTAGA
63 AGGG-TACCGGGATACTTTCACATCCAAAGTAT-CCCCTAGAGGCATTTTCATAATTTTTCTAGA
* * * * *
2426112 ATTAACTCTTAGGTCG-TCACTGGGCCCA
126 ATCAACTCCTAGGTCGTTAAC-GGGTCCG
* * * * * *
2426140 TTTTTATGCTGAAGGTGGGCATTTAGGATATGTTTATCCCATTTCTATCTTTTTTAGGTCCTTTA
1 CTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTTAT-CCATTT-AAACCTTTTTAAGTCCTTT-
* * * * ** *
2426205 AGGGTATCGGG-TACTTTTATAT-CAAAGGTATCCCCTAGGGGTGTTTTCATAATTTTTCTTGAA
63 AGGGTACCGGGATACTTTCACATCCAAA-GTATCCCCTAGAGGCATTTTCATAATTTTTCTAGAA
2426268 T
127 T
2426269 TTAGCCCTTT
Statistics
Matches: 353, Mismatches: 74, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
153 51 0.14
154 91 0.26
155 30 0.08
156 75 0.21
157 87 0.25
158 19 0.05
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (153 bp):
CTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTTATCCATTTAAACCTTTTTAAGTCCTTTAGG
GTACCGGGATACTTTCACATCCAAAGTATCCCCTAGAGGCATTTTCATAATTTTTCTAGAATCAA
CTCCTAGGTCGTTAACGGGTCCG
Found at i:2426045 original size:310 final size:312
Alignment explanation
Indices: 2425665--2426268 Score: 736
Period size: 311 Copynumber: 1.9 Consensus size: 312
2425655 AGGCTATCAC
* * *
2425665 CGGGTCTACTTTTATGCTGAAAGTGGATATTTAGGATAGGTGCATCACATTTCTAGTCTTTTTTA
1 CGGGTCTACTTTTATGCTGAAAGTGGACATTTAGGATAGGTGCATCACATTTATAGTCTTTTTGA
* * * *
2425730 AGTCCTTTAGGGGTACCGGGATACTTTCACATCGAAGGTAT-CTCTTAGGGGCATTTTCGTAATT
66 AGTCCTTTAGGGGTACCGGGATACTTTCACATCGAAGGTATACTCATAGAGACATTTTCATAATT
* * * * *
2425794 TTTTAGAACCAACT-TCTAGGTTGTCACCAGGTCCGCTTTTATGCTAAAGGTGGGCAGTTAGGGT
131 TTCTAGAACCAACTCT-TAGGTCGTCACCAGGCCCACTTTTATGCTAAAGGTGGGCAGTTAGGAT
* *
2425858 AGGTTTATGCCATTT-AAACCTTTTTAAGTCCTTT-AGGGTACCAGGATACTTTCACGTCCAAA-
195 AGGTTTATCCCATTTCAAACCTTTTTAAGTCCTTTAAGGGTACC-GGATACTTTCACAT-CAAAG
2425920 GTATCCCCTAGAGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTCGTTGT
258 GTATCCCCTAGAGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTCGTTGT
* * * * *
2425975 CGGGTCTGCTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCATC-CTTATTATGAGTC-TTTT
1 CGGGTCTACTTTTATGCTGAAAGTGGACATTTAGGATAGGTGCATCACAT-TTAT-AGTCTTTTT
* * *
2426038 GAAGTCCTTTAGGGTTACCGGGATACTTTTACATCGAAGGTATACTCATAGAGATATTTTCATAA
64 GAAGTCCTTTAGGGGTACCGGGATACTTTCACATCGAAGGTATACTCATAGAGACATTTTCATAA
** ** * * *
2426103 TTTTCTAGAATTAACTCTTAGGTCGTCACTGGGCCCATTTTTATGCTGAAGGTGGGCATTTAGGA
129 TTTTCTAGAACCAACTCTTAGGTCGTCACCAGGCCCACTTTTATGCTAAAGGTGGGCAGTTAGGA
* * * * * * * * *
2426168 TATGTTTATCCCATTTCTATCTTTTTTAGGTCCTTTAAGGGTATCGGGTACTTTTATATCAAAGG
194 TAGGTTTATCCCATTTCAAACCTTTTTAAGTCCTTTAAGGGTACCGGATACTTTCACATCAAAGG
* ** *
2426233 TATCCCCTAGGGGTGTTTTCATAATTTTTCTTGAAT
259 TATCCCCTAGAGGCATTTTCATAATTTTTCTAGAAT
2426269 TTAGCCCTTT
Statistics
Matches: 245, Mismatches: 42, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
309 2 0.01
310 88 0.36
311 89 0.36
312 59 0.24
313 7 0.03
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (312 bp):
CGGGTCTACTTTTATGCTGAAAGTGGACATTTAGGATAGGTGCATCACATTTATAGTCTTTTTGA
AGTCCTTTAGGGGTACCGGGATACTTTCACATCGAAGGTATACTCATAGAGACATTTTCATAATT
TTCTAGAACCAACTCTTAGGTCGTCACCAGGCCCACTTTTATGCTAAAGGTGGGCAGTTAGGATA
GGTTTATCCCATTTCAAACCTTTTTAAGTCCTTTAAGGGTACCGGATACTTTCACATCAAAGGTA
TCCCCTAGAGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTCGTTGT
Found at i:2427820 original size:75 final size:74
Alignment explanation
Indices: 2427695--2427878 Score: 296
Period size: 75 Copynumber: 2.4 Consensus size: 74
2427685 CGAGGTTGAA
* *
2427695 GTATCCCCTTACAGATGATGCAGTTGGAGTATCCCCAAAGATGAATAATTCGATTTTGTGGTAGT
1 GTATCCCCTTACAGATGATG-GGTTGGAGTATCCCCAAAGATGAAGAATTCGATTTTGTGGTAGT
2427760 AAAAAATGGG
65 AAAAAATGGG
2427770 GTATCCCCTTACAGATGATGTGGTTGGAGTATCCCCAAAGATGAAGAATTCGATTTTGTGGTAGT
1 GTATCCCCTTACAGATGATG-GGTTGGAGTATCCCCAAAGATGAAGAATTCGATTTTGTGGTAGT
2427835 AAAAAATGGG
65 AAAAAATGGG
** *
2427845 GTATCCCCTTGGAGATGGTAGGGTTGGAGTATCC
1 GTATCCCCTTACAGATGAT-GGGTTGGAGTATCC
2427879 TAGAGATAAA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
75 101 0.99
76 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (74 bp):
GTATCCCCTTACAGATGATGGGTTGGAGTATCCCCAAAGATGAAGAATTCGATTTTGTGGTAGTA
AAAAATGGG
Found at i:2429095 original size:61 final size:61
Alignment explanation
Indices: 2429000--2429146 Score: 231
Period size: 61 Copynumber: 2.4 Consensus size: 61
2428990 TATGGTTTAT
* * * *
2429000 CATTGACACTAAGGAACCCAATAACGGCTTAGGACTCGATGGAATTATCTCTAAAGCTTAC
1 CATTGACACTAAGGCACCCGATAACGGCTTAGGACTCAATGGAATTATCCCTAAAGCTTAC
* *
2429061 CATTGACACTAAGGCACCGGATAACGGTTTAGGACTCAATGGAATTATCCCTAAAGCTTAC
1 CATTGACACTAAGGCACCCGATAACGGCTTAGGACTCAATGGAATTATCCCTAAAGCTTAC
*
2429122 AATTGACACTAAGGCACCCGATAAC
1 CATTGACACTAAGGCACCCGATAAC
2429147 TTTAAAGGGC
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 78 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (61 bp):
CATTGACACTAAGGCACCCGATAACGGCTTAGGACTCAATGGAATTATCCCTAAAGCTTAC
Found at i:2434058 original size:20 final size:20
Alignment explanation
Indices: 2434033--2434109 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
2434023 GTAAAAAGAC
*
2434033 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTAA
*
2434053 AGAATGTATCGATACATTCAT
1 AGAATGTATCGATACATT-AA
*
2434074 A-CATGTATCGATACATTAA
1 AGAATGTATCGATACATTAA
*
2434093 AGAATGCATCGATACAT
1 AGAATGTATCGATACAT
2434110 CTGGGTACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.04
20 46 0.94
21 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:2435104 original size:28 final size:28
Alignment explanation
Indices: 2434990--2435550 Score: 611
Period size: 28 Copynumber: 19.5 Consensus size: 28
2434980 CATTAACTTG
* *
2434990 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * * *
2435020 CGTGTGGGCTTTGAAAAGAGTTACCATTGGCT
1 --TGTGGGCTTTG-AAAG-GGTGCCACTGACT
*
2435052 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
2435081 TGTGAGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
2435109 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
2435137 TGTGGGCTTTGAAAAGAGTGCCACTAACCTGACT
1 TGTGGGCTTTG-AAAGGGTG-C-C--A-CTGACT
* *
2435171 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
2435199 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
2435228 TGTTGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * **
2435256 CGTGAGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
2435285 CGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
2435313 TGTGGGCTTT-CAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* **
2435340 TATGGGCTTTGAAAATAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
2435369 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
2435397 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
2435425 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
2435453 TGTGGGCTTTGATAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
2435481 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
2435510 TGTGGGCTTTGAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
2435538 TATTGGCTTTGAA
1 TGTGGGCTTTGAA
2435551 GAGATGAACG
Statistics
Matches: 455, Mismatches: 63, Indels: 26
0.84 0.12 0.05
Matches are distributed among these distances:
27 24 0.05
28 243 0.53
29 118 0.26
30 17 0.04
31 2 0.00
32 27 0.06
33 7 0.02
34 17 0.04
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:2435125 original size:57 final size:58
Alignment explanation
Indices: 2434990--2435550 Score: 624
Period size: 57 Copynumber: 9.7 Consensus size: 58
2434980 CATTAACTTG
* * * * *
2434990 TGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTTACCATTGGCT
1 TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAAG-GGTGCCACTGACT
*
2435052 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGAGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
*
2435109 TGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACCTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTG-C-C--A-CTGACT
* * * *
2435171 TGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
* * * * * **
2435228 TGTTGGCTTTG-AAAGGGTGCCACTAACTCGTGAGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
* * * * * *
2435285 CGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTT--CAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
2435340 TATGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
2435397 TGTGGGCTTTGAAAGGA-TGCCACTGACTTATGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
2435453 TGTGGGCTTTGATAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
* * * *
2435510 TGTGGGCTTTG-AAAGGGTACCACTGACTTATTGGCTTTGAA
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
2435551 GAGATGAACG
Statistics
Matches: 438, Mismatches: 50, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
55 21 0.05
56 123 0.28
57 194 0.44
58 6 0.01
59 11 0.03
60 1 0.00
61 12 0.03
62 70 0.16
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (58 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
Found at i:2435377 original size:141 final size:140
Alignment explanation
Indices: 2435050--2435556 Score: 726
Period size: 141 Copynumber: 3.6 Consensus size: 140
2435040 TTACCATTGG
* *
2435050 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGAGCTTTGAAAGGGTGCCACTGACTTGTGGG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGG
*
2435115 CTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACCTGACTTGTGGGCTT
66 CTTTGAAAAGATGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACT-A----ACTTGTGGGCTT
2435180 TGAAAGGATGCCACTAA
125 T-AAAGGATGCCACTAA
* * * *
2435197 CTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTTGGCTTTGAAAGGGTGCCACTAACTCGTGAG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGG
* * *
2435262 CTTTGAAAAAAGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTCAAG
66 CTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAG
2435327 GATGCCACTAA
130 GATGCCACTAA
* *
2435338 CTTATGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGG
* * * * *
2435403 CTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGATAG
66 CTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTT-AAAG
*
2435468 GATGCCACTGA
130 GATGCCACTAA
* * * *
2435479 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTACCACTGACTTATTGG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGG
*
2435544 CTTTGAAGAGATG
66 CTTTGAAAAGATG
2435557 AACGTTCTAG
Statistics
Matches: 325, Mismatches: 33, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
140 45 0.14
141 164 0.50
142 13 0.04
146 1 0.00
147 81 0.25
148 21 0.06
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (140 bp):
CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGG
CTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAGG
ATGCCACTAA
Found at i:2450255 original size:9 final size:10
Alignment explanation
Indices: 2450226--2450293 Score: 61
Period size: 9 Copynumber: 6.9 Consensus size: 10
2450216 TATATTTATG
*
2450226 TTATATATAT
1 TTATATATTT
*
2450236 ATATCATATTT
1 TTAT-ATATTT
2450247 TTATA-ATTT
1 TTATATATTT
*
2450256 TAATATATTT
1 TTATATATTT
*
2450266 TAAATATATTT
1 T-TATATATTT
2450277 TTAT-TATTT
1 TTATATATTT
2450286 TT-TATATT
1 TTATATATT
2450294 ATATCCGAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
8 1 0.02
9 19 0.39
10 11 0.22
11 18 0.37
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (10 bp):
TTATATATTT
Found at i:2450273 original size:22 final size:22
Alignment explanation
Indices: 2450248--2450289 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2450238 ATCATATTTT
2450248 TATAATTTTAATATATTTTAAA
1 TATAATTTTAATATATTTTAAA
* * *
2450270 TATATTTTTATTATTTTTTA
1 TATAATTTTAATATATTTTA
2450290 TATTATATCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATAATTTTAATATATTTTAAA
Found at i:2451544 original size:51 final size:50
Alignment explanation
Indices: 2451489--2451632 Score: 159
Period size: 51 Copynumber: 2.9 Consensus size: 50
2451479 CTCTCGACGA
* * *
2451489 AAAATTTGATATTTTGGAGATAAAA-CGAGGCTGGAGTATCCCTGATTATGG
1 AAAATTTGGTATTTTGGAAATAAAATCGAGGTTGGAGTATCCC-GATTAT-G
* * *
2451540 AAAA-TCGGTATTTTGAAAATAAAATC-AGAGTTGGAGTATTCCCGATTGTG
1 AAAATTTGGTATTTTGGAAATAAAATCGAG-GTTGGAGTA-TCCCGATTATG
* *
2451590 AAAATTTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCC
1 AAAATTTGGTATTTTGGAAATAAAATCGAGGTTGGAGTATCCC
2451633 CTCGAAAATA
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
50 27 0.35
51 46 0.59
52 5 0.06
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (50 bp):
AAAATTTGGTATTTTGGAAATAAAATCGAGGTTGGAGTATCCCGATTATG
Found at i:2451699 original size:107 final size:107
Alignment explanation
Indices: 2451569--2451768 Score: 285
Period size: 107 Copynumber: 1.9 Consensus size: 107
2451559 TAAAATCAGA
* * * *** * *
2451569 GTTGGAGTATTCCCGATTGTGAAAATTTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
2451634 TCGAAAATAACGGGATTGGAGTATCCCCGATGACCTAACGGG
66 TCGAAAATAACGGGATTGGAGTATCCCCGATGACCTAACGGG
*
2451676 GTTGGAGTA-CCCTCGATTATGAAAAATCAATATTTTAGATATAAAACCAGGGTTGGAGTATCCC
1 GTTGGAGTATCCC-CGATTATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCC
* *
2451740 CTCGGAAATAACGGGGTTGGAGTATCCCC
65 CTCGAAAATAACGGGATTGGAGTATCCCC
2451769 AATTGTGAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 2 0.02
107 79 0.98
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (107 bp):
GTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
TCGAAAATAACGGGATTGGAGTATCCCCGATGACCTAACGGG
Found at i:2451799 original size:79 final size:79
Alignment explanation
Indices: 2451669--2451819 Score: 189
Period size: 79 Copynumber: 1.9 Consensus size: 79
2451659 CCCGATGACC
* *
2451669 TAACGGGGTTGGAGTACCCTCGATTATGAAAAATCAATATTTTAGATATAAAACCAGG-GTTGGA
1 TAACGGGGTTGGAGTACCCTCAATTATGAAAAATCAATATTTTAGAAATAAAACC-GGAGTTGGA
2451733 GTATCCCCTCGGAAA
65 GTATCCCCTCGGAAA
* *** * * *
2451748 TAACGGGGTTGGAGTATCCC-CAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTA-CCCTCAATTATGAAAAATCAATATTTTAGAAATAAAACCGGAGTTGGA
2451812 GTATCCCC
65 GTATCCCC
2451820 GATTAAGAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
78 2 0.03
79 56 0.92
80 3 0.05
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
TAACGGGGTTGGAGTACCCTCAATTATGAAAAATCAATATTTTAGAAATAAAACCGGAGTTGGAG
TATCCCCTCGGAAA
Found at i:2451816 original size:51 final size:50
Alignment explanation
Indices: 2451753--2451972 Score: 215
Period size: 51 Copynumber: 4.3 Consensus size: 50
2451743 GGAAATAACG
** * *
2451753 GGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATC
1 GGGTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATAAAACC
* * * *
2451803 GGAGTTGGAGTATCCCCGATTAAGAAAATTTGATGTTTTGGAGATGAAACC
1 GG-GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATAAAACC
** ** ** * * *
2451854 GGGATTGGAGTATCCCCGGTTGCGGTAAATCGATGTTTTAGAAATAAAATCA
1 GGG-TTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATAAAA-CC
* * * *
2451906 GAGTTAGAGTATCCCTAATTAAGAAAAATTGATGTTTTGGAAATGAAACC
1 GGGTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATAAAACC
2451956 GGGATTGGAGTATCCCC
1 GGG-TTGGAGTATCCCC
2451973 GAGATGAAAA
Statistics
Matches: 131, Mismatches: 35, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
50 6 0.05
51 122 0.93
52 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATAAAACC
Found at i:2451932 original size:102 final size:102
Alignment explanation
Indices: 2451785--2451973 Score: 315
Period size: 102 Copynumber: 1.9 Consensus size: 102
2451775 GAAAAATTGG
* * * * * *
2451785 TGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAATTTGATGTTTTGGAGATGA
1 TGTTTTAGAAATAAAATCAGAGTTAGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATGA
2451850 AACCGGGATTGGAGTATCCCCGGTTGCGGTAAATCGA
66 AACCGGGATTGGAGTATCCCCGGTTGCGGTAAATCGA
*
2451887 TGTTTTAGAAATAAAATCAGAGTTAGAGTATCCCTAATTAAGAAAAATTGATGTTTTGGAAATGA
1 TGTTTTAGAAATAAAATCAGAGTTAGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATGA
2451952 AACCGGGATTGGAGTATCCCCG
66 AACCGGGATTGGAGTATCCCCG
2451974 AGATGAAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 80 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (102 bp):
TGTTTTAGAAATAAAATCAGAGTTAGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATGA
AACCGGGATTGGAGTATCCCCGGTTGCGGTAAATCGA
Found at i:2454333 original size:53 final size:53
Alignment explanation
Indices: 2454271--2454377 Score: 139
Period size: 53 Copynumber: 2.0 Consensus size: 53
2454261 AAAATGCCTG
* *
2454271 AATGTATCGATACACTAT-A-AAATGTATTGATACAATG-AGCAATGTATCGATAC
1 AATGTATCGATACA--ATGAGAAATGTATCGATACAATGCA-AAATGTATCGATAC
*
2454324 AATGTATCGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
2454377 A
1 A
2454378 TTTAGGTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
51 2 0.04
52 1 0.02
53 44 0.92
54 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:2454336 original size:33 final size:33
Alignment explanation
Indices: 2454291--2454360 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
2454281 TACACTATAA
*
2454291 AATGTATTGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
2454324 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
2454357 AATG
1 AATG
2454361 CAAAATGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:2454346 original size:20 final size:19
Alignment explanation
Indices: 2454271--2454377 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 19
2454261 AAAATGCCTG
*
2454271 AATGTATCGATACACTAT-AA
1 AATGTATCGATACA--ATGAC
*
2454291 AATGTATTGATACAATGAGC
1 AATGTATCGATACAATGA-C
2454311 AATGTATCG-----AT-AC
1 AATGTATCGATACAATGAC
2454324 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
*
2454344 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AC
2454364 AATGTATCGATACA
1 AATGTATCGATACA
2454378 TTTAGGTAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
13 10 0.14
14 1 0.01
15 2 0.03
18 4 0.05
19 2 0.03
20 53 0.73
21 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:2454359 original size:13 final size:13
Alignment explanation
Indices: 2454310--2454340 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2454300 ATACAATGAG
2454310 CAATGTATCGATA
1 CAATGTATCGATA
2454323 CAATGTATCGATA
1 CAATGTATCGATA
2454336 CAATG
1 CAATG
2454341 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2454440 original size:13 final size:13
Alignment explanation
Indices: 2454393--2454422 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2454383 GTAAACCCAG
2454393 AATGTATCGATAC
1 AATGTATCGATAC
2454406 AATGTATCGATAC
1 AATGTATCGATAC
2454419 AATG
1 AATG
2454423 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Done.