Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002637.1 Hibiscus syriacus cultivar Beakdansim tig00005377_pilon, whole genome shotgun sequence
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: 3156206
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:2033732 original size:26 final size:26
Alignment explanation
Indices: 2033700--2033749 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
2033690 CAGATGGGCA
*
2033700 ACGGCCCAGGGTAGCATATAGGGGTG
1 ACGGCCCAGGGAAGCATATAGGGGTG
*
2033726 ACGGCCCAGGGAAGCATGTAGGGG
1 ACGGCCCAGGGAAGCATATAGGGG
2033750 CATACATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.44, T:0.12
Consensus pattern (26 bp):
ACGGCCCAGGGAAGCATATAGGGGTG
Found at i:2036918 original size:16 final size:17
Alignment explanation
Indices: 2036897--2036961 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 17
2036887 TTATTTTAAT
2036897 TTAATATATA-ATATTA
1 TTAATATATATATATTA
2036913 TTAATA-AT-TA-A-TA
1 TTAATATATATATATTA
2036926 TATAATATATATATATATA
1 T-TAATATATATATAT-TA
2036945 TATATATATATATATAT
1 T-TA-ATATATATATAT
2036962 AAATTTCTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.07
14 6 0.15
15 5 0.12
16 8 0.20
17 1 0.02
19 6 0.15
20 12 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATATATATATTA
Found at i:2036935 original size:2 final size:2
Alignment explanation
Indices: 2036923--2036962 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
2036913 TTAATAATTA
2036923 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2036963 AATTTCTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2037728 original size:23 final size:23
Alignment explanation
Indices: 2037693--2037765 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2037683 ATCAAACACA
* *
2037693 ATAACATATTAGGTAGCGCTTAT
1 ATAACGTAATAGGTAGCGCTTAT
*
2037716 ATAACGTAATAGGTAGTGCTTAT
1 ATAACGTAATAGGTAGCGCTTAT
* *
2037739 ATAACGTAATATGTAGCGGTTAT
1 ATAACGTAATAGGTAGCGCTTAT
2037762 ATAA
1 ATAA
2037766 TAAAATAGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (23 bp):
ATAACGTAATAGGTAGCGCTTAT
Found at i:2037909 original size:23 final size:23
Alignment explanation
Indices: 2037874--2037923 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
2037864 ATCAAGCACA
*
2037874 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
2037897 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2037920 ATAA
1 ATAA
2037924 TAAAATATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2037930 original size:23 final size:23
Alignment explanation
Indices: 2037874--2037930 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
2037864 ATCAAGCACA
* *
2037874 ATAACATATTAGGTAGCGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
**
2037897 ATAACGTAATAGGTAGCGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
*
2037920 ATAATAAAATA
1 ATAACAAAATA
2037931 TGTTAATTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (23 bp):
ATAACAAAATAGGTAGCGCTTAT
Found at i:2038004 original size:158 final size:158
Alignment explanation
Indices: 2037716--2038068 Score: 546
Period size: 158 Copynumber: 2.2 Consensus size: 158
2037706 TAGCGCTTAT
* * * * *
2037716 ATAACGTAATAGGTAGTGCTTATATAACGTAATATGTAGCGGTTATATAATAAAATAGGTTAATT
1 ATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATT
* * *
2037781 ATTTAATTTGTTATTATAACATATTAGGTAAACGCCTAAAATGTTACCAATGATAACATAACCGG
66 ACTTAATTCGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAATGATAACATAACCGG
** *
2037846 TTAATTACCGTTAATATTATCAAGCACA
131 TTAATTACCGGAAACATTATCAAGCACA
*
2037874 ATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATATGTTAATT
1 ATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATT
*
2037939 ACTTAATTCGTTATTACAACATATTAGGTAAGCGCCTAAAATGTTACCAA-GAATAACATAACCG
66 ACTTAATTCGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAATG-ATAACATAACCG
* *
2038003 GTTAATTACTGGAAACATTATCAAGCATA
130 GTTAATTACCGGAAACATTATCAAGCACA
*
2038032 ATAACATATTAGGTAGCGCTTATGTAACGTAATAGGT
1 ATAACATATTAGGTAGCGCTTATATAACGTAATAGGT
2038069 TGTGTATTAT
Statistics
Matches: 178, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
157 1 0.01
158 177 0.99
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (158 bp):
ATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATT
ACTTAATTCGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAATGATAACATAACCGG
TTAATTACCGGAAACATTATCAAGCACA
Found at i:2040765 original size:199 final size:198
Alignment explanation
Indices: 2040360--2041309 Score: 1248
Period size: 199 Copynumber: 4.8 Consensus size: 198
2040350 TTTAATTTTA
*
2040360 AAAATGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTTGACCTATTTTCTAATTAAACC
1 AAAA-GTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACC
* *
2040425 GGTATATTTTTACTGGTTACATTGTAAAATTT-CCTATTACATTATAATTATCAGTTTCGATGTT
65 GGTATATTTATACCGGTTACATTGT-AAATTTACCTATTACATTATAATTATCAGTTTCGATGTT
* * * * *
2040489 TTCGGAATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTAATT
129 TTTGGGATCGATACATTT--TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATT
*
2040554 TTGGAA-
192 CTGGAAC
* *
2040560 AAAAGTATCGACACATAA-TTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACT
1 AAAAGTATCGACACA-AATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACC
**
2040624 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT-ATGTTTTAATGTT
65 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCA-GTTTCGATGTT
2040688 TTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
129 TTTGGGATCGATAC-ATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
*
2040753 TGTAAC
193 TGGAAC
* * * * *
2040759 AAAAGTATTGACACAAATTTAAAAAGTGGCGATACATTATGTTGACATATTTTATAA-TAAACCA
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACCG
* * * ** * * **
2040823 GTATATTTTTGCCAGTTTTATTGTAAATTTACCTATCACATTATTATTATTGGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTT
* * * *
2040888 TGGGGTCGATAC-TTTTAAAAAATGTATCGACACTTTTTGTGTGCACCTCGTTGGCCATTCATTC
131 TGGGATCGATACATTTT---AAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
*
2040952 TGGACC
193 TGGAAC
* * *
2040958 AAAAGTATCGACACAAATTTTAAAAGTTTTGATACATTATGTTGACCTATTTTCTAATTAAACCG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACCG
* * * * * *
2041023 ATATATTTCTACTGGTTACATTGTAAATTTACCTATCACATTATAATGATCAGTTTTGATGTTTT
66 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTT
* **
2041088 TGGGGTCGATATTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGGCATTCATTC
131 TGGGATCGATACATTT--TAAATGTATCGACACTTTATGCGTGCACCTCG-TTGGGCATTCATTC
*
2041153 TGGACC
193 TGGAAC
* * * * *
2041159 AAAAATATTGACCCAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTTAATCG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACCG
*
2041224 GTATATTTATTCCGGTTACCA-TGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
66 GTATATTTATACCGGTTA-CATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
2041288 TTGGGATCGATACAATTTTAAA
130 TTGGGATCGATAC-ATTTTAAA
2041310 AATTATCGAT
Statistics
Matches: 654, Mismatches: 79, Indels: 34
0.85 0.10 0.04
Matches are distributed among these distances:
196 4 0.01
198 126 0.19
199 262 0.40
200 112 0.17
201 144 0.22
202 5 0.01
203 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (198 bp):
AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACCG
GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTT
TGGGATCGATACATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGG
AAC
Found at i:2042753 original size:24 final size:24
Alignment explanation
Indices: 2042734--2042782 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
2042724 CGAAATTTAT
2042734 ATTAAAATTCAAACTCAAATTGAA
1 ATTAAAATTCAAACTCAAATTGAA
* *
2042758 ATTTAAATTCAAACTCCAATT-AA
1 ATTAAAATTCAAACTCAAATTGAA
2042781 AT
1 AT
2042783 ATGAAATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTAAAATTCAAACTCAAATTGAA
Found at i:2042789 original size:24 final size:24
Alignment explanation
Indices: 2042738--2042789 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2042728 ATTTATATTA
*
2042738 AAATTCAAACTCAAATTGAAATTT
1 AAATTCAAACTCAAATTGAAATTG
*
2042762 AAATTCAAACTCCAATT-AAATATG
1 AAATTCAAACTCAAATTGAAAT-TG
2042786 AAAT
1 AAAT
2042790 GAACATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATTCAAACTCAAATTGAAATTG
Found at i:2044242 original size:6 final size:6
Alignment explanation
Indices: 2044204--2044255 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
2044194 CTTGTTTGTA
* * * * * *
2044204 TCATCA TCATCA TCTTCT TCTTCT TCTTCT TCATCT TCATCG TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
2044252 TCAT
1 TCAT
2044256 TGAGGGCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.15, C:0.33, G:0.02, T:0.50
Consensus pattern (6 bp):
TCATCT
Found at i:2046025 original size:199 final size:200
Alignment explanation
Indices: 2045672--2046634 Score: 1509
Period size: 199 Copynumber: 4.8 Consensus size: 200
2045662 TTAAAAAATA
* * * *
2045672 TATCGACACAAATTAAAAAAGTGTCTATACATTATGTTAACCTATATTCTAATTAAATCGGTATA
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTTAACCTATTTTCTAATTAAACCGGTATA
* *
2045737 TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGG
66 TTTCTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGG
** * *
2045802 TCGATACTTTTAAAAAA-GTATCGACACATTATGCGTGCACCTCGTTGATCATTCATTATGGACC
131 TCGATACTTTTAAAAAATGTATCGACACATTATGCGTGCACCTCGTTGGGCATTCATTCTAGACC
2045866 AAAAG
196 AAAAG
* *
2045871 TATCGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATA
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTTAACCTATTTTCTAATTAAACCGGTATA
* * * *
2045936 TTTCTATCAGTTACATTGTAAATTTACCTATTAAATTATAATTATCGGTTTTGATG-TTTTGGGG
66 TTTCTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGG
* *
2046000 TCGATACTTTTAAAAAATTTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTAGACC
131 TCGATACTTTTAAAAAATGTATCGACACATTATGCGTGCACCTCGTTGGGCATTCATTCTAGACC
2046065 AAAAG
196 AAAAG
* *
2046070 TATCGACACAAATTTAAAAAGTGTTGATACATTATGTTAACCTATTTTCTAATTAAACTGGTATA
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTTAACCTATTTTCTAATTAAACCGGTATA
*
2046135 TTTCTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGTGG
66 TTTCTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGG
* *
2046200 TCGATACTTTTAAAAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACC
131 TCGATACTTTTAAAAAATGTATCGACACATTATGCGTGCACCTCGTTGGGCATTCATTCTAGACC
2046265 AAAAG
196 AAAAG
* *
2046270 TATCGACACAAATTTAAAAAGTATTGATACATTATGTTAACCTATTTTCTAATTAAACCGGTATA
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTTAACCTATTTTCTAATTAAACCGGTATA
** * *
2046335 TTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCATTTTCGATGTTTTTGGGA
66 TTTCTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGG
* * ** *
2046400 CCGATACTTTTAAAAATAT-TATCAACACATTATGCGTATATCTCGTTTGGGCATTCATTCTAGA
131 TCGATACTTTTAAAAA-ATGTATCGACACATTATGCGTGCACCTCG-TTGGGCATTCATTCTAGA
2046464 CCAAAAG
194 CCAAAAG
* * * *
2046471 TATCGACACAAATTTAAAAAGTGTCGATACGTTATGTTGATCTATTTTCTAATTAAACCGGTAAA
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTTAACCTATTTTCTAATTAAACCGGTATA
* *
2046536 TTTCTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAATTTCGATGTTTTTGGTG
66 TTTCTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGG
* *
2046601 TCGATACTTTAAAAAAATGTATAGACACATTATG
131 TCGATACTTTTAAAAAATGTATCGACACATTATG
2046635 TTTACTATTC
Statistics
Matches: 703, Mismatches: 56, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
198 25 0.04
199 270 0.38
200 236 0.34
201 172 0.24
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (200 bp):
TATCGACACAAATTTAAAAAGTGTCGATACATTATGTTAACCTATTTTCTAATTAAACCGGTATA
TTTCTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGG
TCGATACTTTTAAAAAATGTATCGACACATTATGCGTGCACCTCGTTGGGCATTCATTCTAGACC
AAAAG
Found at i:2050812 original size:14 final size:16
Alignment explanation
Indices: 2050784--2050816 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
2050774 CTCTTCATTG
2050784 CATTTATTTCACCCTT
1 CATTTATTTCACCCTT
2050800 CATTT-TTTC-CCCTT
1 CATTTATTTCACCCTT
2050814 CAT
1 CAT
2050817 CCAACTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 4 0.24
16 5 0.29
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (16 bp):
CATTTATTTCACCCTT
Found at i:2053754 original size:182 final size:183
Alignment explanation
Indices: 2053435--2054270 Score: 1108
Period size: 183 Copynumber: 4.6 Consensus size: 183
2053425 TTATTAAAGT
* * *
2053435 ATCGACACTTTCAACATGTCTGGTAGCGCTTTACCGCTTTTATCATAATGAAACATGTTTTGTCA
1 ATCGACACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACATGTTTTGTCA
* *
2053500 TATTTTTACCTGTTATATTGTTATGGATCGATACGTTTTTATAAAGTATTGACACTTTATAGGCG
66 TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCG
*
2053565 TTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
131 CTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
* *
2053618 ATTGACACTTTCAACATATCTGGTAGC-CTTTACCGGTTTTGTCATAATGATACATGTTTTGTCA
1 ATCGACACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACATGTTTTGTCA
* *
2053682 TATTTTAACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACA-TTTCATAGGC
66 TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT-ATAGGC
* * *
2053746 ACTATTACTTCTTCTCTTTTAAATTTCAAAAGTGTCGATACTTATTTCAATGGA
130 GCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
* * * * * * * *
2053800 ATCGACATTTTCAACATATCCGGTAGCACTTTACCAGTTTTGTCATAATGATACCTGTTTTTTTA
1 ATCGACACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACATGTTTTGTCA
** * *
2053865 TATTTTTATTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACTTTATATGCG
66 TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCG
* * * * *
2053930 CTATTACTGCTTCTCTTTTAAATTTCAAAATTGTTGATACTTATTTCAGTGGT
131 CTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
* * * * * *
2053983 ATCGACACATTCAACATATATGGTAGAGATTTACCAGTTTTGTCATAATGAAAC-CGATTTTGTC
1 ATCGACACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACATG-TTTTGTC
* ** * *
2054047 ATATTTTTACCGGTTATATTGTTATGGATCGATACA-TTTTAT-TTGTATCGACACTTTATTGAC
65 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGC
* * * * **
2054110 GGTATTACTGCTTCTCTTTTAAATTCCAAAAATGTCGATACTAATTACAATCTA
130 GCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
* * * * * *
2054164 ATCGATACTTTCAACATATCCGGTAGCGCTTTACCGATTTTATCATAATGAAA-TTGGTTTTGCC
1 ATCGACACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACAT-GTTTTGTC
* *
2054228 ATATTTTTACCTGTTATATTGTTATGGATTGATACATATTTAT
65 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTAT
2054271 TTGTATCGAC
Statistics
Matches: 570, Mismatches: 76, Indels: 15
0.86 0.11 0.02
Matches are distributed among these distances:
181 146 0.26
182 177 0.31
183 244 0.43
184 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (183 bp):
ATCGACACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACATGTTTTGTCA
TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCG
CTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
Found at i:2054560 original size:9 final size:9
Alignment explanation
Indices: 2054540--2054569 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
2054530 CTTTCCGATA
2054540 ATAATATATT
1 ATAAT-TATT
2054550 ATAATTATT
1 ATAATTATT
2054559 ATAATTATT
1 ATAATTATT
2054568 AT
1 AT
2054570 TTTCTATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
ATAATTATT
Found at i:2062068 original size:38 final size:37
Alignment explanation
Indices: 2062016--2062143 Score: 120
Period size: 38 Copynumber: 3.4 Consensus size: 37
2062006 TTCTAAGATC
* *
2062016 GTTTCCCTAAAAACCTCAACATTCACTTTCATAAGACT
1 GTTTCTCTAGAAACCTCAACATT-ACTTTCATAAGACT
* * * *
2062054 ATTTCTTTAGAAACCT-AA-ATTTACTTTTTCTTAAGATT
1 GTTTCTCTAGAAACCTCAACA-TTAC--TTTCATAAGACT
2062092 GTTTC-CTAGAAACCTCAACCATGT-CTTTCATAAGACT
1 GTTTCTCTAGAAACCTCAA-CAT-TACTTTCATAAGACT
2062129 GTTTCTCTAGAAACC
1 GTTTCTCTAGAAACC
2062144 AACTTTGTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
36 3 0.04
37 28 0.39
38 37 0.51
39 2 0.03
40 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (37 bp):
GTTTCTCTAGAAACCTCAACATTACTTTCATAAGACT
Found at i:2062084 original size:75 final size:75
Alignment explanation
Indices: 2062004--2062143 Score: 196
Period size: 75 Copynumber: 1.9 Consensus size: 75
2061994 GAATTTGGTC
*
2062004 TTTTC-TAAGATCGTTTCCCTAAAAACCTCAA-CAT-TCACTTTCATAAGACTATTTCTTTAGAA
1 TTTTCTTAAGATCGTTT-CCTAAAAACCTCAACCATGT--CTTTCATAAGACTATTTCTCTAGAA
2062066 ACCTAAATTTACT
63 ACCTAAATTTACT
* * *
2062079 TTTTCTTAAGATTGTTTCCTAGAAACCTCAACCATGTCTTTCATAAGACTGTTTCTCTAGAAACC
1 TTTTCTTAAGATCGTTTCCTAAAAACCTCAACCATGTCTTTCATAAGACTATTTCTCTAGAAACC
2062144 AACTTTGTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
75 44 0.76
76 13 0.22
77 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (75 bp):
TTTTCTTAAGATCGTTTCCTAAAAACCTCAACCATGTCTTTCATAAGACTATTTCTCTAGAAACC
TAAATTTACT
Found at i:2062595 original size:31 final size:32
Alignment explanation
Indices: 2062547--2062609 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
2062537 TGTTGTTTTA
*
2062547 AATGAATTTATTTGAAAAATGAGAAATTGATT
1 AATGAATTTATTTGAAAAAAGAGAAATTGATT
*
2062579 AATGAATTT-TTTGAAAAAAGAGAATTTGATT
1 AATGAATTTATTTGAAAAAAGAGAAATTGATT
2062610 TTCGAAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (32 bp):
AATGAATTTATTTGAAAAAAGAGAAATTGATT
Found at i:2063088 original size:3 final size:3
Alignment explanation
Indices: 2063080--2063241 Score: 195
Period size: 3 Copynumber: 53.0 Consensus size: 3
2063070 GTATTTATAG
* *
2063080 TAT TAT TAT TAGT TAT AATT TAT TAT GGT-T TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TA-T TAT TAT --TAT TAT TAT TAT TAT TAT TAT
2063128 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
2063176 TAT TAT TAT TTT TAT TAT TAT TAC TAT TAT T-T CAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2063222 TAT TAT GGTAT TAT TGT TAT
1 TAT TAT --TAT TAT TAT TAT
2063242 ACTTGTATTA
Statistics
Matches: 138, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.03
3 124 0.90
4 6 0.04
5 4 0.03
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2064230 original size:16 final size:18
Alignment explanation
Indices: 2064198--2064237 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
2064188 AGAGAATTGA
2064198 AATCTGTGAAGGAATTAG
1 AATCTGTGAAGGAATTAG
2064216 AATCTGT-AA-GAATTAG
1 AATCTGTGAAGGAATTAG
2064232 AATCTG
1 AATCTG
2064238 AATCTGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 2 0.09
18 7 0.32
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (18 bp):
AATCTGTGAAGGAATTAG
Found at i:2064854 original size:27 final size:28
Alignment explanation
Indices: 2064793--2064856 Score: 96
Period size: 27 Copynumber: 2.3 Consensus size: 28
2064783 CCTAAACCCG
2064793 AACCCGACCTGAATATCACACTTAAAAA
1 AACCCGACCTGAATATCACACTTAAAAA
*
2064821 AATCCGA-CTCGAATATCA-ACTTAAAAA
1 AACCCGACCT-GAATATCACACTTAAAAA
2064848 AACCCGACC
1 AACCCGACC
2064857 CTACCTGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 17 0.53
28 15 0.47
ACGTcount: A:0.45, C:0.30, G:0.08, T:0.17
Consensus pattern (28 bp):
AACCCGACCTGAATATCACACTTAAAAA
Found at i:2068259 original size:2 final size:2
Alignment explanation
Indices: 2068254--2068287 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2068244 AAATATATCC
2068254 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2068288 GAAATATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2068698 original size:18 final size:19
Alignment explanation
Indices: 2068683--2068732 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
2068673 GATTAATAAA
2068683 TTTTAATTTTTTAATAGAGT
1 TTTTAATTTTTTAATAGA-T
* *
2068703 TTTTAGTATTTTTAATATAT
1 TTTTAAT-TTTTTAATAGAT
2068723 TTTTAATTTT
1 TTTTAATTTT
2068733 AATAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 10 0.38
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTTAATTTTTTAATAGAT
Found at i:2069032 original size:8 final size:8
Alignment explanation
Indices: 2069006--2069056 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
2068996 GATAAAAGTT
2069006 TTTG-ATA
1 TTTGAATA
* *
2069013 TATGAATT
1 TTTGAATA
2069021 TTTGAATA
1 TTTGAATA
*
2069029 TTTGGATA
1 TTTGAATA
* *
2069037 TATGAATT
1 TTTGAATA
2069045 TTTGAATA
1 TTTGAATA
2069053 TTTG
1 TTTG
2069057 GATCCGAATA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
7 3 0.09
8 30 0.91
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (8 bp):
TTTGAATA
Found at i:2069036 original size:24 final size:24
Alignment explanation
Indices: 2069009--2069059 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
2068999 AAAAGTTTTT
2069009 GATATATGAATTTTTGAATATTTG
1 GATATATGAATTTTTGAATATTTG
2069033 GATATATGAATTTTTGAATATTTG
1 GATATATGAATTTTTGAATATTTG
2069057 GAT
1 GAT
2069060 CCGAATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (24 bp):
GATATATGAATTTTTGAATATTTG
Found at i:2076196 original size:21 final size:21
Alignment explanation
Indices: 2076172--2076211 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2076162 TTTATTTTAT
2076172 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
2076193 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
2076212 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:2076259 original size:33 final size:33
Alignment explanation
Indices: 2076206--2076304 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
2076196 TTTGTTTCAA
2076206 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2076238 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
2076271 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2076304 T
1 T
2076305 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:2076333 original size:13 final size:13
Alignment explanation
Indices: 2076290--2076344 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
2076280 TTGGAAGTAT
2076290 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
2076303 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
2076317 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
2076330 TTAAGTATTTGAA
1 TTAAGTATTTCAA
2076343 TT
1 TT
2076345 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:2076566 original size:21 final size:21
Alignment explanation
Indices: 2076540--2076588 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2076530 TGGAGCGTGG
2076540 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTACCCTCTCATA
***
2076561 GGGAATCGGTTTTCTCTCATA
1 GGGAATCGGTACCCTCTCATA
2076582 GGGAATC
1 GGGAATC
2076589 AGTTCCCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (21 bp):
GGGAATCGGTACCCTCTCATA
Found at i:2076767 original size:15 final size:15
Alignment explanation
Indices: 2076742--2076797 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
2076732 ATCTGGAATA
*
2076742 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
2076757 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
2076772 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
2076789 TTAAAACCG
1 TTAAAACCG
2076798 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:2076806 original size:21 final size:18
Alignment explanation
Indices: 2076761--2076794 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2076751 GTTTTTTTAT
2076761 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
2076778 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
2076795 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:2079999 original size:29 final size:30
Alignment explanation
Indices: 2079966--2080046 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 30
2079956 AATGAACTTG
2079966 TTATGTTTTAAGTTTGTTGGATA-AAATTA
1 TTATGTTTTAAGTTTGTTGGATATAAATTA
* *
2079995 TTATGTTTT-ATTGTTATTGGATATTGAAATTA
1 TTATGTTTTAAGT-TTGTTGGATA-T-AAATTA
2080027 TTATGTTTTTAAGTTTGTTG
1 TTATG-TTTTAAGTTTGTTG
2080047 TATTTTAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 2 0.05
29 18 0.43
32 11 0.26
33 9 0.21
34 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (30 bp):
TTATGTTTTAAGTTTGTTGGATATAAATTA
Found at i:2081421 original size:19 final size:19
Alignment explanation
Indices: 2081395--2081446 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
2081385 ATAGTTAGAG
*
2081395 AATATTGTTGTTTTTAAAT
1 AATATTGTTGTTTATAAAT
* *
2081414 ATTATTGTTGTTCATAAAT
1 AATATTGTTGTTTATAAAT
2081433 AATATTGTTGTTTA
1 AATATTGTTGTTTA
2081447 ACATTGTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (19 bp):
AATATTGTTGTTTATAAAT
Found at i:2084938 original size:15 final size:15
Alignment explanation
Indices: 2084918--2084947 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2084908 AATTTCTCTC
2084918 TCGTTATCTAAACCA
1 TCGTTATCTAAACCA
*
2084933 TCGTTATCTAGACCA
1 TCGTTATCTAAACCA
2084948 AAAGTGTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (15 bp):
TCGTTATCTAAACCA
Found at i:2085510 original size:13 final size:12
Alignment explanation
Indices: 2085476--2085512 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
2085466 ACCTAATGGG
2085476 CAATTTTGAAAA
1 CAATTTTGAAAA
*
2085488 CTATTTTGAAAA
1 CAATTTTGAAAA
2085500 CAATGTTTGAAAA
1 CAAT-TTTGAAAA
2085513 ATCATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (12 bp):
CAATTTTGAAAA
Found at i:2086035 original size:21 final size:22
Alignment explanation
Indices: 2085987--2086041 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
2085977 CCCTCTAGGG
2085987 GTATCGATACACATTCAAGGAAT
1 GTATCGATACACATTCAAGG-AT
* *
2086010 GTATCGGTATACATTCAAGG-T
1 GTATCGATACACATTCAAGGAT
2086031 GTATCGATACA
1 GTATCGATACA
2086042 TAGCAAGGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.36
23 18 0.64
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (22 bp):
GTATCGATACACATTCAAGGAT
Found at i:2086069 original size:14 final size:14
Alignment explanation
Indices: 2086050--2086076 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2086040 CATAGCAAGG
2086050 GGGTATCGATACAT
1 GGGTATCGATACAT
2086064 GGGTATCGATACA
1 GGGTATCGATACA
2086077 CTTTACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (14 bp):
GGGTATCGATACAT
Found at i:2093617 original size:21 final size:21
Alignment explanation
Indices: 2093593--2093662 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
2093583 GGAATCAATA
2093593 TCCCCTTGAAGGGGAACCGAT
1 TCCCCTTGAAGGGGAACCGAT
2093614 TCCCCCTTTGAAGGGGAACCGAT
1 T-CCCC-TTGAAGGGGAACCGAT
* * *
2093637 TCCCCCTGTAGGGGAATCGAT
1 TCCCCTTGAAGGGGAACCGAT
*
2093658 ACCCC
1 TCCCC
2093663 CTGGAGGTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.42
22 8 0.19
23 17 0.40
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.20
Consensus pattern (21 bp):
TCCCCTTGAAGGGGAACCGAT
Found at i:2093628 original size:23 final size:22
Alignment explanation
Indices: 2093594--2093664 Score: 99
Period size: 23 Copynumber: 3.2 Consensus size: 22
2093584 GAATCAATAT
2093594 CCCCTTGAAGGGGAACCGATTC
1 CCCCTTGAAGGGGAACCGATTC
2093616 CCCCTTTGAAGGGGAACCGATTC
1 CCCC-TTGAAGGGGAACCGATTC
* * *
2093639 CCCC-TGTAGGGGAATCGATAC
1 CCCCTTGAAGGGGAACCGATTC
2093660 CCCCT
1 CCCCT
2093665 GGAGGTTCTG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 18 0.41
22 4 0.09
23 22 0.50
ACGTcount: A:0.21, C:0.34, G:0.25, T:0.20
Consensus pattern (22 bp):
CCCCTTGAAGGGGAACCGATTC
Found at i:2103394 original size:18 final size:18
Alignment explanation
Indices: 2103353--2103395 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2103343 AATTCCAACA
*
2103353 TTCTTCTTTTTCTCCGTC
1 TTCTTCTTTGTCTCCGTC
*
2103371 TCCTTCTTTGTCT-CGTCC
1 TTCTTCTTTGTCTCCGT-C
2103389 TTCTTCT
1 TTCTTCT
2103396 CGAGGTCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.00, C:0.35, G:0.07, T:0.58
Consensus pattern (18 bp):
TTCTTCTTTGTCTCCGTC
Found at i:2109749 original size:16 final size:16
Alignment explanation
Indices: 2109724--2109763 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2109714 GAAAACTTGT
*
2109724 TGCTCGTTAAGCTCGA
1 TGCTCATTAAGCTCGA
2109740 TGCTCATTAAGCTCGA
1 TGCTCATTAAGCTCGA
2109756 TGCTCATT
1 TGCTCATT
2109764 GCTCGCCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (16 bp):
TGCTCATTAAGCTCGA
Found at i:2112238 original size:29 final size:30
Alignment explanation
Indices: 2112183--2112242 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
2112173 AAAATTGAAT
*
2112183 ATTTTAAATACTTATTTTGACAAAAAAATA
1 ATTTTAAATACTTATTTTAACAAAAAAATA
* *
2112213 ATTTTAATTACTTCTTTTAACAAAAAAATA
1 ATTTTAAATACTTATTTTAACAAAAAAATA
2112243 CTTGAGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (30 bp):
ATTTTAAATACTTATTTTAACAAAAAAATA
Found at i:2116516 original size:2 final size:2
Alignment explanation
Indices: 2116511--2116540 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2116501 TTCTTTTTTA
2116511 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2116541 GTTTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2117740 original size:23 final size:24
Alignment explanation
Indices: 2117694--2117746 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
2117684 TATGTGAGAC
* *
2117694 CAGATACTAGTAGAGTGTCGCATT
1 CAGATACTAGTACAGTGTCACATT
*
2117718 CAGATACTAGT-CCGTGTCACATT
1 CAGATACTAGTACAGTGTCACATT
2117741 CAGATA
1 CAGATA
2117747 ATACATAGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
CAGATACTAGTACAGTGTCACATT
Found at i:2118736 original size:20 final size:20
Alignment explanation
Indices: 2118711--2118762 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2118701 ATTGTGTAGT
2118711 AGTATCGATACTATTACATC
1 AGTATCGATACTATTACATC
2118731 AGTATCGATACTATTACATC
1 AGTATCGATACTATTACATC
2118751 AGTATCGATACT
1 AGTATCGATACT
2118763 CACTTAACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
AGTATCGATACTATTACATC
Found at i:2120200 original size:5 final size:5
Alignment explanation
Indices: 2120190--2120222 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
2120180 GAAACAATCT
*
2120190 ATAAC ATAAC ATAGC ATAAC ATAAC ATAAC ATA
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATA
2120223 TGCATGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.21
Consensus pattern (5 bp):
ATAAC
Found at i:2120207 original size:10 final size:10
Alignment explanation
Indices: 2120194--2120227 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2120184 CAATCTATAA
2120194 CATAACATAG
1 CATAACATAG
*
2120204 CATAACATAA
1 CATAACATAG
2120214 CATAACATATG
1 CATAACATA-G
2120225 CAT
1 CAT
2120228 GAATTTAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.86
11 3 0.14
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.24
Consensus pattern (10 bp):
CATAACATAG
Found at i:2126507 original size:21 final size:23
Alignment explanation
Indices: 2126481--2126532 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2126471 AGGGTATCGA
*
2126481 TCCCCCCATG-A-GGGAACTGAT
1 TCCCCCCATGAAGGGGAACCGAT
**
2126502 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCATGAAGGGGAACCGAT
2126525 TCCCCCCA
1 TCCCCCCA
2126533 CAGGGGAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 8 0.33
22 1 0.04
23 15 0.62
ACGTcount: A:0.21, C:0.38, G:0.21, T:0.19
Consensus pattern (23 bp):
TCCCCCCATGAAGGGGAACCGAT
Found at i:2126539 original size:21 final size:21
Alignment explanation
Indices: 2126513--2126552 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2126503 CCCCCTTTGA
*
2126513 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2126534 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2126553 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2131549 original size:18 final size:18
Alignment explanation
Indices: 2131528--2131567 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
2131518 AATTTGAATA
*
2131528 AATATTTTTATATTTAAT
1 AATATTTTTATAATTAAT
2131546 AATA-TTTTATAATTAAT
1 AATATTTTTATAATTAAT
*
2131563 TATAT
1 AATAT
2131568 GACAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATATTTTTATAATTAAT
Found at i:2132036 original size:19 final size:18
Alignment explanation
Indices: 2131982--2132062 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 18
2131972 TGTTTTTAAC
* *
2131982 AAAAAATTAAAAATTCTTT
1 AAAAAATTTAATATT-TTT
2132001 AAGAAAATTAGTAAATATTTTT
1 AA-AAAATT--T-AATATTTTT
2132023 AAAAAATTTGAATATATTTT
1 AAAAAATTT-AATAT-TTTT
* *
2132043 -TAAAATTTAATATTTAT
1 AAAAAATTTAATATTTTT
2132060 AAA
1 AAA
2132063 TATTACCCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
17 3 0.06
18 6 0.12
19 15 0.30
20 10 0.20
21 6 0.12
22 5 0.10
23 5 0.10
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (18 bp):
AAAAAATTTAATATTTTT
Found at i:2132039 original size:21 final size:21
Alignment explanation
Indices: 2131982--2132047 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
2131972 TGTTTTTAAC
2131982 AAAAAATTA--AAA-ATTCTTT
1 AAAAAATTAGTAAATATT-TTT
2132001 AAGAAAATTAGTAAATATTTTT
1 AA-AAAATTAGTAAATATTTTT
*
2132023 AAAAAATTTG-AATATATTTTT
1 AAAAAATTAGTAA-ATATTTTT
2132044 AAAA
1 AAAA
2132048 TTTAATATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 2 0.05
20 9 0.22
21 19 0.46
22 8 0.20
23 3 0.07
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAAAATTAGTAAATATTTTT
Found at i:2139521 original size:27 final size:28
Alignment explanation
Indices: 2139491--2139544 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
2139481 ATGCATTTGA
*
2139491 TTTTATTT-TTGAATTTAGTCACTGTTT
1 TTTTATTTATTCAATTTAGTCACTGTTT
*
2139518 TTTTATTTATTCATTTTAGTCACTGTT
1 TTTTATTTATTCAATTTAGTCACTGTT
2139545 CGGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.63
Consensus pattern (28 bp):
TTTTATTTATTCAATTTAGTCACTGTTT
Found at i:2145535 original size:21 final size:20
Alignment explanation
Indices: 2145497--2145535 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2145487 GATCATGACA
*
2145497 TTTCAATATACATGTATATT
1 TTTCAATATACATATATATT
*
2145517 TTTCACTATAACATATATA
1 TTTCAATAT-ACATATATA
2145536 ACTATATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTCAATATACATATATATT
Found at i:2146334 original size:20 final size:20
Alignment explanation
Indices: 2146309--2146368 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
2146299 TCCCAAACTG
*
2146309 AGGTATAGATACCCTGTTTA
1 AGGTATAGATACCCTGTATA
* *
2146329 AGGTATAGATACCCTATATG
1 AGGTATAGATACCCTGTATA
*
2146349 GGGTATAGATACCCTG-ATA
1 AGGTATAGATACCCTGTATA
2146368 A
1 A
2146369 CATTATGGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (20 bp):
AGGTATAGATACCCTGTATA
Found at i:2150228 original size:17 final size:17
Alignment explanation
Indices: 2150208--2150246 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
2150198 GTCTACAGTC
2150208 GATATTAGCGTAATAAT
1 GATATTAGCGTAATAAT
2150225 GATATTAGCGTAATAAT
1 GATATTAGCGTAATAAT
2150242 GATAT
1 GATAT
2150247 AACCAATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (17 bp):
GATATTAGCGTAATAAT
Found at i:2152549 original size:39 final size:40
Alignment explanation
Indices: 2152500--2152601 Score: 134
Period size: 39 Copynumber: 2.6 Consensus size: 40
2152490 GGCACTGAAT
* *
2152500 ATTTGTCCCGAAGGACGACTATATCCCGAAGGATCACT-G
1 ATTTGTCCCGAAGGACCACTATATCCCGAAGGACCACTGG
* * *
2152539 ATTTGTCCCGAAGTACCACTATGTCCCGAAGGACCATTGG
1 ATTTGTCCCGAAGGACCACTATATCCCGAAGGACCACTGG
* *
2152579 ATATGTCCCGAAGGACTACTATA
1 ATTTGTCCCGAAGGACCACTATA
2152602 ACCCTCGACT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
ATTTGTCCCGAAGGACCACTATATCCCGAAGGACCACTGG
Found at i:2152574 original size:18 final size:18
Alignment explanation
Indices: 2152503--2152574 Score: 81
Period size: 18 Copynumber: 3.8 Consensus size: 18
2152493 ACTGAATATT
*
2152503 TGTCCCGAAGGACGACTA
1 TGTCCCGAAGGACCACTA
* *
2152521 TATCCCGAAGGATCACTGA
1 TGTCCCGAAGGACCACT-A
*
2152540 TTTGTCCCGAAGTACCACTA
1 --TGTCCCGAAGGACCACTA
2152560 TGTCCCGAAGGACCA
1 TGTCCCGAAGGACCA
2152575 TTGGATATGT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 28 0.64
19 1 0.02
20 1 0.02
21 14 0.32
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2153171 original size:20 final size:20
Alignment explanation
Indices: 2153148--2153200 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2153138 TCCCTAACTG
*
2153148 AGGTATAGATACCCTGTCTA
1 AGGTATAGATACCCTATCTA
*
2153168 AGGTATAGATACCCTATCTG
1 AGGTATAGATACCCTATCTA
*
2153188 GGGTATAGATACC
1 AGGTATAGATACC
2153201 ATGATAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (20 bp):
AGGTATAGATACCCTATCTA
Found at i:2153256 original size:45 final size:46
Alignment explanation
Indices: 2153187--2153291 Score: 115
Period size: 45 Copynumber: 2.3 Consensus size: 46
2153177 TACCCTATCT
* **
2153187 GGGGTATAGATACCATGATAACATTATGGAAATTTTCA-TCTTCAG
1 GGGGTATCGATACCATGATAACATTATGGAAATTTTCATTCAACAG
* * * * *
2153232 GGGGTATCGATACCAT-ACTGACATTCTGTAATTTTTCATTCAAGAG
1 GGGGTATCGATACCATGA-TAACATTATGGAAATTTTCATTCAACAG
2153278 GGGGTATCGATACC
1 GGGGTATCGATACC
2153292 CCTTCATAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.02
45 31 0.62
46 18 0.36
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (46 bp):
GGGGTATCGATACCATGATAACATTATGGAAATTTTCATTCAACAG
Found at i:2157054 original size:17 final size:17
Alignment explanation
Indices: 2157034--2157072 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
2157024 GTCTACAGTC
2157034 GATATTAGCGTAATAAT
1 GATATTAGCGTAATAAT
2157051 GATATTAGCGTAATAAT
1 GATATTAGCGTAATAAT
2157068 GATAT
1 GATAT
2157073 AACCAATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (17 bp):
GATATTAGCGTAATAAT
Found at i:2159349 original size:22 final size:21
Alignment explanation
Indices: 2159328--2159427 Score: 81
Period size: 18 Copynumber: 5.0 Consensus size: 21
2159318 CACTGAATAT
*
2159328 TTGTCCCGAAGGACGACTATA
1 TTGTCCCGAAGGACCACTATA
*
2159349 ---TCCCGAAGGATCACTGAT-
1 TTGTCCCGAAGGACCACT-ATA
*
2159367 TTGTCCCGAAGTACCAC--TA
1 TTGTCCCGAAGGACCACTATA
2159386 -TGTCCCGAAGGACCACTGGATA
1 TTGTCCCGAAGGACCACT--ATA
*
2159408 -TGTCCCGAAGGACTACTATA
1 TTGTCCCGAAGGACCACTATA
2159428 ACCCTCGACT
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
18 29 0.45
19 2 0.03
20 3 0.05
21 12 0.19
22 18 0.28
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (21 bp):
TTGTCCCGAAGGACCACTATA
Found at i:2159375 original size:39 final size:40
Alignment explanation
Indices: 2159326--2159427 Score: 143
Period size: 39 Copynumber: 2.6 Consensus size: 40
2159316 GGCACTGAAT
* *
2159326 ATTTGTCCCGAAGGACGACTATATCCCGAAGGATCACT-G
1 ATTTGTCCCGAAGGACCACTATATCCCGAAGGACCACTGG
* *
2159365 ATTTGTCCCGAAGTACCACTATGTCCCGAAGGACCACTGG
1 ATTTGTCCCGAAGGACCACTATATCCCGAAGGACCACTGG
* *
2159405 ATATGTCCCGAAGGACTACTATA
1 ATTTGTCCCGAAGGACCACTATA
2159428 ACCCTCGACT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
39 34 0.63
40 20 0.37
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
ATTTGTCCCGAAGGACCACTATATCCCGAAGGACCACTGG
Found at i:2160020 original size:20 final size:20
Alignment explanation
Indices: 2159965--2160026 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
2159955 ATCTGTACAT
* *
2159965 CCCTAACTGAGGTATAGGTA
1 CCCTATCTGAGGTATAGATA
* * *
2159985 CCCTGTCTAAGATATAGATA
1 CCCTATCTGAGGTATAGATA
*
2160005 CCCTATCTGGGGTATAGATA
1 CCCTATCTGAGGTATAGATA
2160025 CC
1 CC
2160027 ATGATAACAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (20 bp):
CCCTATCTGAGGTATAGATA
Found at i:2160082 original size:45 final size:46
Alignment explanation
Indices: 2160013--2160117 Score: 115
Period size: 45 Copynumber: 2.3 Consensus size: 46
2160003 TACCCTATCT
* **
2160013 GGGGTATAGATACCATGATAACATTATGGAAATTTTCA-TCTTCAG
1 GGGGTATCGATACCATGATAACATTATGGAAATTTTCATTCAACAG
* * * * *
2160058 GGGGTATCGATACCAT-ACTGACATTCTGTAATTTTTCATTCAAGAG
1 GGGGTATCGATACCATGA-TAACATTATGGAAATTTTCATTCAACAG
2160104 GGGGTATCGATACC
1 GGGGTATCGATACC
2160118 CCTTCATAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.02
45 31 0.62
46 18 0.36
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (46 bp):
GGGGTATCGATACCATGATAACATTATGGAAATTTTCATTCAACAG
Found at i:2161227 original size:32 final size:32
Alignment explanation
Indices: 2161178--2161331 Score: 175
Period size: 32 Copynumber: 4.8 Consensus size: 32
2161168 TTGAAGTTCA
* *
2161178 TGTGAATTATCTGAATGCAACACTAACTCTAT
1 TGTGCATTATCTGAATGCAACACTGACTCTAT
* * * *
2161210 TGTGCATAATCTAAATGCAACACCGACTCTGT
1 TGTGCATTATCTGAATGCAACACTGACTCTAT
2161242 TGTGCATTATCTGAATGCAACACTGACTCTAT
1 TGTGCATTATCTGAATGCAACACTGACTCTAT
* * * * *
2161274 TATGTATTATCTGAATACAATATTGACTCTGA-
1 TGTGCATTATCTGAATGCAACACTGACTCT-AT
* *
2161306 TGTGCATTATCTAAATGAAACACTGA
1 TGTGCATTATCTGAATGCAACACTGA
2161332 TACTACTATG
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
32 98 0.99
33 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTGCATTATCTGAATGCAACACTGACTCTAT
Found at i:2161330 original size:64 final size:64
Alignment explanation
Indices: 2161148--2161331 Score: 217
Period size: 64 Copynumber: 2.9 Consensus size: 64
2161138 GTATCTGATG
* * * * *
2161148 TGCATTATCTAAATGCAATATTGAAGT-TCATGTGAATTATCTGAATGCAACACTAACTCTATTG
1 TGCATTATCTAAATGCAATATTG-ACTCTGATGTGCATTATCTGAATGCAACACTGACTCTATTA
* * ** *
2161212 TGCATAATCTAAATGCAACACCGACTCTGTTGTGCATTATCTGAATGCAACACTGACTCTATTA
1 TGCATTATCTAAATGCAATATTGACTCTGATGTGCATTATCTGAATGCAACACTGACTCTATTA
* * * * *
2161276 TGTATTATCTGAATACAATATTGACTCTGATGTGCATTATCTAAATGAAACACTGA
1 TGCATTATCTAAATGCAATATTGACTCTGATGTGCATTATCTGAATGCAACACTGA
2161332 TACTACTATG
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
63 2 0.02
64 97 0.98
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (64 bp):
TGCATTATCTAAATGCAATATTGACTCTGATGTGCATTATCTGAATGCAACACTGACTCTATTA
Found at i:2163878 original size:17 final size:17
Alignment explanation
Indices: 2163856--2163889 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2163846 AATATAATTT
2163856 TTATTAA-TTAATATAAA
1 TTATTAACTTAA-ATAAA
2163873 TTATTAACTTAAATAAA
1 TTATTAACTTAAATAAA
2163890 AAATTATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATTAACTTAAATAAA
Found at i:2165985 original size:27 final size:26
Alignment explanation
Indices: 2165955--2166016 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
2165945 ACCCTGTATC
*
2165955 TGTAAAATGACCAAAATACCCCTAAAG
1 TGTAAAATGACAAAAAT-CCCCTAAAG
* * *
2165982 TGTAAAATAACAAAAATGCCTTAAAG
1 TGTAAAATGACAAAAATCCCCTAAAG
2166008 TGTAAAATG
1 TGTAAAATG
2166017 GCCTACAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.23
Consensus pattern (26 bp):
TGTAAAATGACAAAAATCCCCTAAAG
Found at i:2167486 original size:43 final size:43
Alignment explanation
Indices: 2167390--2167677 Score: 324
Period size: 43 Copynumber: 6.7 Consensus size: 43
2167380 GGAAGTATTT
* * * * * *
2167390 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCG
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAG-CCTTACAGTTTCCC
* *
2167434 CAGGCTCCTTTGCTGTATGCAAGGGTAAGCCTTACAGTTTCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
** * *
2167477 CAGGTTCCTTTAATGTTTGCAAGGGTAAGCCTTATAGTTTCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* * * *
2167520 CTAGGTTCTTTTGCTGTGGGGAAGGGTAAGCCTTATAGTTTCCC
1 C-AGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* *
2167564 CAGGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTAGAGTTTCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* * *
2167607 CAGGATCCTTTGTTATGTGCAAGGGTAAGCCTTACAGTTTCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* * * * *
2167650 CAGGCTCTTTTGTTATGTGAAAGGGTAA
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAA
2167678 TACCTTACCA
Statistics
Matches: 215, Mismatches: 28, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
43 152 0.71
44 63 0.29
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.33
Consensus pattern (43 bp):
CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
Found at i:2167553 original size:87 final size:86
Alignment explanation
Indices: 2167405--2167653 Score: 309
Period size: 87 Copynumber: 2.9 Consensus size: 86
2167395 TCCTCTGCTA
** * * * * **
2167405 TGTGCAAGGGTAAGTCCTTACCGTTACCGCAGGCTCCTTTGCTGTATGCAAGGGTAAGCCTTACA
1 TGTGCAAGGGTAAG-CCTTAGAGTTTCCCCAGGATCCTTTGCTATGGGCAAGGGTAAGCCTTACA
2167470 GTTTCCCCAGGTTCCTTTAATG
65 GTTTCCCCAGGTTCCTTTAATG
* * * * * * *
2167492 TTTGCAAGGGTAAGCCTTATAGTTTCCCCTAGGTTCTTTTGCTGTGGGGAAGGGTAAGCCTTATA
1 TGTGCAAGGGTAAGCCTTAGAGTTTCCCC-AGGATCCTTTGCTATGGGCAAGGGTAAGCCTTACA
**
2167557 GTTTCCCCAGGTTCCTTTGTTG
65 GTTTCCCCAGGTTCCTTTAATG
* *
2167579 TGTGCAAGGGTAAGCCTTAGAGTTTCCCCAGGATCCTTTGTTATGTGCAAGGGTAAGCCTTACAG
1 TGTGCAAGGGTAAGCCTTAGAGTTTCCCCAGGATCCTTTGCTATGGGCAAGGGTAAGCCTTACAG
2167644 TTTCCCCAGG
66 TTTCCCCAGG
2167654 CTCTTTTGTT
Statistics
Matches: 139, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
86 50 0.36
87 89 0.64
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (86 bp):
TGTGCAAGGGTAAGCCTTAGAGTTTCCCCAGGATCCTTTGCTATGGGCAAGGGTAAGCCTTACAG
TTTCCCCAGGTTCCTTTAATG
Found at i:2167684 original size:130 final size:130
Alignment explanation
Indices: 2167391--2167685 Score: 358
Period size: 130 Copynumber: 2.3 Consensus size: 130
2167381 GAAGTATTTC
* * * * *
2167391 AGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCGCAGGCTCCTTTGCTGTATGCAA
1 AGGCTCTTTTGCTATGTGAAAGGGTAA-TCCTTACAGTTACCCCAGGCTCCTTTGCTGTATGCAA
* * * *
2167456 GGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTAATGTTTGCAAGGGTAAGCCTTATAGTTTCCCC
65 GGGTAAGCCTTACAGTTTCCCCAGGATCCTTTAATATGTGCAAGGGTAAGCCTTACAGTTTCCCC
2167521 T
130 T
* * * * * * * * * *
2167522 AGGTTCTTTTGCTGTGGGGAAGGGTAAGCCTTATAGTTTCCCCAGGTTCCTTTGTTGTGTGCAAG
1 AGGCTCTTTTGCTATGTGAAAGGGTAATCCTTACAGTTACCCCAGGCTCCTTTGCTGTATGCAAG
* **
2167587 GGTAAGCCTTAGAGTTTCCCCAGGATCCTTTGTTATGTGCAAGGGTAAGCCTTACAGTTTCCCC-
66 GGTAAGCCTTACAGTTTCCCCAGGATCCTTTAATATGTGCAAGGGTAAGCCTTACAGTTTCCCCT
*
2167651 AGGCTCTTTTGTTATGTGAAAGGGTAATACCTTAC
1 AGGCTCTTTTGCTATGTGAAAGGGTAAT-CCTTAC
2167686 CATTTTTGCA
Statistics
Matches: 135, Mismatches: 28, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
129 22 0.16
130 92 0.68
131 21 0.16
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (130 bp):
AGGCTCTTTTGCTATGTGAAAGGGTAATCCTTACAGTTACCCCAGGCTCCTTTGCTGTATGCAAG
GGTAAGCCTTACAGTTTCCCCAGGATCCTTTAATATGTGCAAGGGTAAGCCTTACAGTTTCCCCT
Found at i:2171845 original size:76 final size:75
Alignment explanation
Indices: 2171711--2171940 Score: 291
Period size: 76 Copynumber: 3.0 Consensus size: 75
2171701 TTAACTGGTT
* * *
2171711 AAAATAAAATAAGTACTACCTATTATGTTAAACTACCTACCAGTTTGTTTGAAGGTTACTAATAA
1 AAAATAAAAT-AGTACTACCTATTACGTTAAAATACCTACCAGTTTGTTTAAAGGTTACTAATAA
*
2171776 AGTAAACGGTA
65 TGTAAACGGTA
* * * *
2171787 AAAATAAAATAGCCACTACCTATTACGTTAAAATACCTATCGGTTTGTTTAAATGTTACTAATAA
1 AAAATAAAATAG-TACTACCTATTACGTTAAAATACCTACCAGTTTGTTTAAAGGTTACTAATAA
2171852 TGTAAACGGT-
65 TGTAAACGGTA
* * * * * *
2171862 AAAATAAAATAGGTGCTACCTATTACCTTAAATTAGCTACCTGTTTGTTTAAAGGTTAATAATAA
1 AAAATAAAATA-GTACTACCTATTACGTTAAAATACCTACCAGTTTGTTTAAAGGTTACTAATAA
*
2171927 TGTAAATGGTA
65 TGTAAACGGTA
2171938 AAA
1 AAA
2171941 TATATACAAC
Statistics
Matches: 133, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
75 65 0.49
76 68 0.51
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (75 bp):
AAAATAAAATAGTACTACCTATTACGTTAAAATACCTACCAGTTTGTTTAAAGGTTACTAATAAT
GTAAACGGTA
Found at i:2171908 original size:75 final size:75
Alignment explanation
Indices: 2171710--2171942 Score: 304
Period size: 75 Copynumber: 3.1 Consensus size: 75
2171700 CTTAACTGGT
* * * *
2171710 TAAAATAAAATAAGTACTACCTATTATGTTAAACTACCTACCAGTTTGTTTGAAGGTTACTAATA
1 TAAAATAAAATAGGTACTACCTATTACGTTAAAATACCTACCAGTTTGTTTAAAGGTTACTAATA
*
2171775 AAGTAAACGG
66 ATGTAAACGG
** * * *
2171785 TAAAAATAAAATAGCCACTACCTATTACGTTAAAATACCTATCGGTTTGTTTAAATGTTACTAAT
1 T-AAAATAAAATAGGTACTACCTATTACGTTAAAATACCTACCAGTTTGTTTAAAGGTTACTAAT
2171850 AATGTAAACGG
65 AATGTAAACGG
* * * * * *
2171861 TAAAATAAAATAGGTGCTACCTATTACCTTAAATTAGCTACCTGTTTGTTTAAAGGTTAATAATA
1 TAAAATAAAATAGGTACTACCTATTACGTTAAAATACCTACCAGTTTGTTTAAAGGTTACTAATA
*
2171926 ATGTAAATGG
66 ATGTAAACGG
2171936 TAAAATA
1 TAAAATA
2171943 TATACAACTT
Statistics
Matches: 136, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
75 71 0.52
76 65 0.48
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (75 bp):
TAAAATAAAATAGGTACTACCTATTACGTTAAAATACCTACCAGTTTGTTTAAAGGTTACTAATA
ATGTAAACGG
Found at i:2172738 original size:107 final size:109
Alignment explanation
Indices: 2172603--2172834 Score: 319
Period size: 107 Copynumber: 2.1 Consensus size: 109
2172593 AGTTTGAGGG
* *
2172603 CCCATCAGCTTAAAATTTGGTAACATTTTAGG-AGCTACCTAATATGTTGATAATATTAATAAGA
1 CCCATCAGCTTAAACTTTGGTAACATTTTAGGCA-CTAACTAATATGTTGATAATATTAATAA-A
* *
2172667 AA-A-TAAATAATTAACCTATTTTGTTATCCTCAGATTTCTAA-GT
64 AATATTAAATAATTAACCAATTTTGTTATCCTCAGATTTCTAAGGC
* * * *
2172710 CCCATCAACTTAAACTTTGGTAATATTTTAGGCACTAACTAATATGTTTATAATATTGATAAAAA
1 CCCATCAGCTTAAACTTTGGTAACATTTTAGGCACTAACTAATATGTTGATAATATTAATAAAAA
* *
2172775 TATTAAGTAATTAACCAATTTTGTTATCGTCAGATTTCTAAGGC
66 TATTAAATAATTAACCAATTTTGTTATCCTCAGATTTCTAAGGC
2172819 CCCATCAGCTTTAAAC
1 CCCATCAGC-TTAAAC
2172835 AGACGCTACC
Statistics
Matches: 109, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
106 3 0.03
107 55 0.50
108 36 0.33
109 9 0.08
110 6 0.06
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (109 bp):
CCCATCAGCTTAAACTTTGGTAACATTTTAGGCACTAACTAATATGTTGATAATATTAATAAAAA
TATTAAATAATTAACCAATTTTGTTATCCTCAGATTTCTAAGGC
Found at i:2173102 original size:225 final size:226
Alignment explanation
Indices: 2172674--2173143 Score: 628
Period size: 225 Copynumber: 2.1 Consensus size: 226
2172664 AGAAAATAAA
*
2172674 TAATTAACCTATTTTGTTATCCTCAGATTTCTAAGTCCCATCAACTTAAACTTTGGTAATATTTT
1 TAATTAACCTATTTTGTTATCCTCAGATTTCTAAGGCCCATCAACTTAAACTTTGGTAATATTTT
* * *
2172739 AGGCACTAACTAATATGTTTATAATATTGATAAAAATATTAAGTAATTAACCAATTTTGTTATCG
66 AGGCACTAACTAATATGTTGATAATATTGATAAAAATATCAAGTAATTAACCAATTTTATTATCG
*
2172804 TCAGATTTCTAAGGCCCCATCAGCTTTAAACAGACGCTACCTATTACATTAAATAAGCCATACAT
131 TCAGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACATTAAATAAGCCATACAT
* * *
2172869 GTTATGTTATTATGGTTGATAGTGTTT-CTAG
196 GTTATGTTATTATGGTTAATAATATTTCCT-G
* * * * *
2172900 TAATTAACTTATTTTTTTATCGTC-GAATTTGTAAGGCTCCATCAACTTACACTTTGGTAATATT
1 TAATTAACCTATTTTGTTATCCTCAG-ATTTCTAAGGC-CCATCAACTTAAACTTTGGTAATATT
* * * **
2172964 TTTGGCACTACCTAATATGTTGATAATATTGATAATAA-ATCAAGTAATTAACTTA-TTTATTAT
64 TTAGGCACTAACTAATATGTTGATAATATTGATAAAAATATCAAGTAATTAACCAATTTTATTAT
* * * *
2173027 CGTCGGATTTCTAAGGCTCCATCAGCTTTAAAAATG-CGCTACCTATTACGTTACATAAGCGC-T
129 CGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAA-GACGCTACCTATTACATTAAATAAGC-CAT
*
2173090 ACCTGTTATGTTATTATGGTTAATAATATTTCCTG
192 ACATGTTATGTTATTATGGTTAATAATATTTCCTG
* *
2173125 TAATTAACCGATTATGTTA
1 TAATTAACCTATTTTGTTA
2173144 AAGTCAGTAA
Statistics
Matches: 212, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
225 105 0.50
226 48 0.23
227 59 0.28
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (226 bp):
TAATTAACCTATTTTGTTATCCTCAGATTTCTAAGGCCCATCAACTTAAACTTTGGTAATATTTT
AGGCACTAACTAATATGTTGATAATATTGATAAAAATATCAAGTAATTAACCAATTTTATTATCG
TCAGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACATTAAATAAGCCATACAT
GTTATGTTATTATGGTTAATAATATTTCCTG
Found at i:2174899 original size:29 final size:29
Alignment explanation
Indices: 2174867--2174932 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
2174857 GAGACCAGGT
2174867 CAATGCTTGAGTTTGTACGGGAACTGTAC
1 CAATGCTTGAGTTTGTACGGGAACTGTAC
2174896 CAATGCTTGAGTTTGTACGGGAACTGTAC
1 CAATGCTTGAGTTTGTACGGGAACTGTAC
2174925 CAATGCTT
1 CAATGCTT
2174933 TGTGACACTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (29 bp):
CAATGCTTGAGTTTGTACGGGAACTGTAC
Found at i:2183905 original size:2 final size:2
Alignment explanation
Indices: 2183898--2183956 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
2183888 GATTGATTGA
2183898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2183940 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
2183957 AAATGGTTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2184065 original size:2 final size:2
Alignment explanation
Indices: 2184058--2184097 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2184048 AGACCTCCGA
2184058 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2184098 TAGAATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2186923 original size:64 final size:64
Alignment explanation
Indices: 2186810--2187011 Score: 196
Period size: 64 Copynumber: 3.1 Consensus size: 64
2186800 TGCACTAAGA
* * *
2186810 GTGCATCGATACATGAAGTGCATTCGATGTTTGAA--AAAT-AGCCTGGTGCATCGATGCATGGA
1 GTGCATCGATACATGAAATGCATTCGATGTTTCAATTAAATCAG---AGTGCATCGATGCATGGA
2186872 TT
63 TT
* * **
2186874 GTGCATCGATACATCAAATGCATTCGATGTTTTAATTAAATCAGAGTGCATCGATGCATGGAGA
1 GTGCATCGATACATGAAATGCATTCGATGTTTCAATTAAATCAGAGTGCATCGATGCATGGATT
* * * * * *
2186938 GTGCATCGGTGCATGGAATTCATTCGATGTTTCAATTTATTCATTGA-TGCATCGATGCATGGTA
1 GTGCATCGATACATGAAATGCATTCGATGTTTCAATTAAATCA--GAGTGCATCGATGCATGG-A
2187002 TT
63 TT
2187004 GATGCATC
1 G-TGCATC
2187012 AGTGCATGCC
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
64 84 0.73
65 15 0.13
66 8 0.07
67 8 0.07
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (64 bp):
GTGCATCGATACATGAAATGCATTCGATGTTTCAATTAAATCAGAGTGCATCGATGCATGGATT
Found at i:2186940 original size:19 final size:19
Alignment explanation
Indices: 2186916--2186954 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2186906 TAATTAAATC
2186916 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
2186935 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
2186954 A
1 A
2186955 ATTCATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:2187004 original size:21 final size:21
Alignment explanation
Indices: 2186980--2187019 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2186970 CAATTTATTC
2186980 ATTGATGCATC-GATGCATGGT
1 ATTGATGCATCAG-TGCATGGT
2187001 ATTGATGCATCAGTGCATG
1 ATTGATGCATCAGTGCATG
2187020 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCAGTGCATGGT
Found at i:2189625 original size:21 final size:22
Alignment explanation
Indices: 2189570--2189628 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
2189560 CATGGTCTTG
*
2189570 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATGC-AGGCA
2189593 TGCATC-AGTGCATCATGC-GG-A
1 TGCATCGA-TGCA-CATGCAGGCA
2189614 TGCATCGATGCACAT
1 TGCATCGATGCACAT
2189629 TCAAAGAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
20 3 0.09
21 11 0.34
22 4 0.12
23 10 0.31
24 4 0.12
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (22 bp):
TGCATCGATGCACATGCAGGCA
Found at i:2195158 original size:17 final size:19
Alignment explanation
Indices: 2195138--2195172 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2195128 TCCCCGGGAA
2195138 TTTAAAA-AAAA-ACTTTG
1 TTTAAAACAAAATACTTTG
2195155 TTTAAAACAAAATACTTT
1 TTTAAAACAAAATACTTT
2195173 AATTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (19 bp):
TTTAAAACAAAATACTTTG
Found at i:2195509 original size:22 final size:20
Alignment explanation
Indices: 2195470--2195510 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
2195460 TTTCAATATG
*
2195470 CATATATATATATTTCATGA
1 CATATATATATATGTCATGA
2195490 CATATATATAATCATGTCATG
1 CATATATAT-AT-ATGTCATG
2195511 CACACATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (20 bp):
CATATATATATATGTCATGA
Found at i:2195742 original size:15 final size:15
Alignment explanation
Indices: 2195722--2195786 Score: 121
Period size: 15 Copynumber: 4.3 Consensus size: 15
2195712 CCGTAGGACC
*
2195722 ACTACGTCTCGAAGG
1 ACTACGTCCCGAAGG
2195737 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
2195752 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
2195767 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
2195782 ACTAC
1 ACTAC
2195787 AATACCCTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.15
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:2196089 original size:14 final size:15
Alignment explanation
Indices: 2196062--2196090 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2196052 ATATCATATA
2196062 TCTTATGTTTTATGC
1 TCTTATGTTTTATGC
2196077 TCTTATG-TTTATGC
1 TCTTATGTTTTATGC
2196091 ATATCATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TCTTATGTTTTATGC
Found at i:2198005 original size:23 final size:24
Alignment explanation
Indices: 2197979--2198023 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
2197969 CATTTATTCT
2197979 TATAC-CATCTTCATTC-AAATTAC
1 TATACACAT-TTCATTCTAAATTAC
*
2198002 TATACACATTTCTTTCTAAATT
1 TATACACATTTCATTCTAAATT
2198024 TTACTCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (24 bp):
TATACACATTTCATTCTAAATTAC
Found at i:2201622 original size:22 final size:20
Alignment explanation
Indices: 2201583--2201623 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
2201573 TTTCAATATG
*
2201583 CATATATATATATTTCATGA
1 CATATATATATATGTCATGA
2201603 CATATATATAATCATGTCATG
1 CATATATAT-AT-ATGTCATG
2201624 CACACATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (20 bp):
CATATATATATATGTCATGA
Found at i:2201855 original size:15 final size:15
Alignment explanation
Indices: 2201835--2201869 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2201825 CCGTAGGACC
*
2201835 ACTACGTCTCGAAGG
1 ACTACGTCCCGAAGG
2201850 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
2201865 ACTAC
1 ACTAC
2201870 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:2202170 original size:14 final size:15
Alignment explanation
Indices: 2202143--2202171 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2202133 ATATCATATA
2202143 TCTTATGTTTTATGC
1 TCTTATGTTTTATGC
2202158 TCTTATG-TTTATGC
1 TCTTATGTTTTATGC
2202172 ATATCATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TCTTATGTTTTATGC
Found at i:2202554 original size:19 final size:20
Alignment explanation
Indices: 2202518--2202555 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2202508 TTTCATTTAG
2202518 GGGGGAATCGATACCCCCCA
1 GGGGGAATCGATACCCCCCA
2202538 GGGGGAATCGATACCCCC
1 GGGGGAATCGATACCCCC
2202556 TGGATATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGGAATCGATACCCCCCA
Found at i:2203469 original size:62 final size:63
Alignment explanation
Indices: 2203382--2203542 Score: 186
Period size: 62 Copynumber: 2.6 Consensus size: 63
2203372 CGGTGCACTA
* * *
2203382 AGAGTGCAACGATGCATGAAGTGCATTCGATGTTTAA-AAAAT-AGCCTGGTGCATCGATGCA-G
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTAATAAAATCAG---AGTGCATCGATGCATG
2203444 G
63 G
* * *
2203445 A-TGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCAGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGAAATGCATTCGATG-TTTAATAAAATCAGAGTGCATCGATGCATGG
* *
2203508 AGAGTGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTT
2203543 CAATTTATCC
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
62 39 0.47
63 12 0.14
64 30 0.36
65 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (63 bp):
AGAGTGCATCGATGCATGAAATGCATTCGATGTTTAATAAAATCAGAGTGCATCGATGCATGG
Found at i:2203513 original size:19 final size:19
Alignment explanation
Indices: 2203489--2203539 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
2203479 TAATTAAATC
2203489 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
2203508 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
2203527 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
2203540 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:2204041 original size:2 final size:2
Alignment explanation
Indices: 2204034--2204070 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2204024 TTATAAAACA
2204034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2204071 GTTTCTGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2208412 original size:12 final size:12
Alignment explanation
Indices: 2208395--2208419 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2208385 GTCAAATAAT
2208395 TTAGGCACCAAA
1 TTAGGCACCAAA
2208407 TTAGGCACCAAA
1 TTAGGCACCAAA
2208419 T
1 T
2208420 GGTGCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (12 bp):
TTAGGCACCAAA
Found at i:2217805 original size:19 final size:21
Alignment explanation
Indices: 2217761--2217805 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
2217751 CATTTTTTCA
2217761 TATTTTCACAAATTAAATACT
1 TATTTTCACAAATTAAATACT
* *
2217782 T-TTTTTACAATTTAAA-A-T
1 TATTTTCACAAATTAAATACT
2217800 TATTTT
1 TATTTT
2217806 ATTTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.10
19 5 0.24
20 13 0.62
21 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTTCACAAATTAAATACT
Found at i:2221202 original size:32 final size:32
Alignment explanation
Indices: 2221153--2221245 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
2221143 CAATTTAAGG
2221153 CAAAATGG-TTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
2221184 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
2221216 CAAAAT-GTTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
2221246 TTCAAAATTT
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
30 11 0.18
31 21 0.34
32 29 0.48
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.44
Consensus pattern (32 bp):
CAAAATGGTTTTTTGGACTTGAATTGAATTTA
Found at i:2221489 original size:21 final size:21
Alignment explanation
Indices: 2221463--2221504 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2221453 ATTTGAATAT
* *
2221463 TATGAAGGGGTATCGATTCCC
1 TATGAAAGGGTACCGATTCCC
2221484 TATGAAAGGGTACCGATTCCC
1 TATGAAAGGGTACCGATTCCC
2221505 CCCATTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (21 bp):
TATGAAAGGGTACCGATTCCC
Found at i:2221566 original size:21 final size:21
Alignment explanation
Indices: 2221533--2221572 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
2221523 TTTGAGTAGA
*
2221533 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
2221555 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
2221573 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:2221826 original size:34 final size:32
Alignment explanation
Indices: 2221787--2221856 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
2221777 TTTTGTAAAG
*
2221787 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
2221821 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
2221853 GGGA
1 GGGA
2221857 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:2224490 original size:23 final size:23
Alignment explanation
Indices: 2224463--2224510 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
2224453 GTTTGGTTTG
2224463 AAAAATTCAATTTCTTAATAAAA
1 AAAAATTCAATTTCTTAATAAAA
*
2224486 AAAAATTCAATTTCTTAATGAAA
1 AAAAATTCAATTTCTTAATAAAA
2224509 AA
1 AA
2224511 GGGGGAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAAATTCAATTTCTTAATAAAA
Found at i:2224768 original size:31 final size:31
Alignment explanation
Indices: 2224669--2224760 Score: 161
Period size: 32 Copynumber: 3.0 Consensus size: 31
2224659 CAATTTAAGG
2224669 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2224700 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
1 CAAAATGG-TTTTTGGACTTGAATTGAATTTA
2224732 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2224761 TTCAAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.18
30 11 0.18
31 9 0.15
32 29 0.48
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:2224858 original size:19 final size:19
Alignment explanation
Indices: 2224830--2224891 Score: 97
Period size: 19 Copynumber: 3.3 Consensus size: 19
2224820 TTTTACGAAT
*
2224830 AGTAATTTACTATTTGAAC
1 AGTAAATTACTATTTGAAC
2224849 AGTAAATTACTATTTGAAC
1 AGTAAATTACTATTTGAAC
* *
2224868 AGTAAATAACTGTTTGAAC
1 AGTAAATTACTATTTGAAC
2224887 AGTAA
1 AGTAA
2224892 CCCGAGGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (19 bp):
AGTAAATTACTATTTGAAC
Found at i:2225023 original size:21 final size:21
Alignment explanation
Indices: 2224997--2225038 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2224987 ATTTGAATAT
*
2224997 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
2225018 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
2225039 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:2225100 original size:21 final size:21
Alignment explanation
Indices: 2225067--2225106 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
2225057 TTTGAGTAGA
*
2225067 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
2225089 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
2225107 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:2225357 original size:34 final size:32
Alignment explanation
Indices: 2225318--2225387 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
2225308 TTTTGTAAAG
*
2225318 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
2225352 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
2225384 GGGA
1 GGGA
2225388 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:2231775 original size:51 final size:52
Alignment explanation
Indices: 2231700--2231812 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 52
2231690 GATAAGTTTA
* *
2231700 TTATATGTTTAGTATGCTTCCATTATCTTAGGTTATACATATCATTCCTATG
1 TTATATGATTAGTATGCATCCATTATCTTAGGTTATACATATCATTCCTATG
2231752 TTATATGATTA-TATGCATCCATTATCTTAGGTTATACATATCATTCCTATG
1 TTATATGATTAGTATGCATCCATTATCTTAGGTTATACATATCATTCCTATG
2231803 TTATATGATT
1 TTATATGATT
2231813 GCATTTCATC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 49 0.83
52 10 0.17
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (52 bp):
TTATATGATTAGTATGCATCCATTATCTTAGGTTATACATATCATTCCTATG
Found at i:2244065 original size:23 final size:23
Alignment explanation
Indices: 2244039--2244144 Score: 122
Period size: 23 Copynumber: 4.6 Consensus size: 23
2244029 TTTGAACATA
* * *
2244039 TAAACGGACATGTTCGCAAACAC
1 TAAACGAACATGTTTGCGAACAC
*
2244062 TAAACGAATATGTTTGCGAACAC
1 TAAACGAACATGTTTGCGAACAC
* *
2244085 TAAATGAACATGTTTACGAACAC
1 TAAACGAACATGTTTGCGAACAC
* * *
2244108 TAAATGAACATGTTTACGAACAT
1 TAAACGAACATGTTTGCGAACAC
*
2244131 TAAAGGAACATGTT
1 TAAACGAACATGTT
2244145 CGTGGATAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 74 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (23 bp):
TAAACGAACATGTTTGCGAACAC
Found at i:2247193 original size:11 final size:11
Alignment explanation
Indices: 2247177--2247202 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2247167 TCATTTAAGC
2247177 ATTTTACATCA
1 ATTTTACATCA
2247188 ATTTTACATCA
1 ATTTTACATCA
2247199 ATTT
1 ATTT
2247203 CCTCGACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTTACATCA
Found at i:2254900 original size:14 final size:14
Alignment explanation
Indices: 2254881--2254907 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2254871 GTGATTAAGT
2254881 AATAAAAGGGATTA
1 AATAAAAGGGATTA
2254895 AATAAAAGGGATT
1 AATAAAAGGGATT
2254908 TTAAGTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (14 bp):
AATAAAAGGGATTA
Found at i:2257560 original size:21 final size:22
Alignment explanation
Indices: 2257525--2257576 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2257515 TTTTAATTCA
* * *
2257525 TTATTTATTATTTTATTATT-T
1 TTATTTTTTAATTTATAATTAT
*
2257546 TTCTTTTTTAATTTATAATTAT
1 TTATTTTTTAATTTATAATTAT
2257568 TTATTTTTT
1 TTATTTTTT
2257577 TATACCTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (22 bp):
TTATTTTTTAATTTATAATTAT
Found at i:2264954 original size:18 final size:18
Alignment explanation
Indices: 2264931--2264971 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
2264921 GTTTTGAAAT
2264931 GTTATGATACTTTTATAG
1 GTTATGATACTTTTATAG
2264949 GTTATGATACTTTTATAG
1 GTTATGATACTTTTATAG
2264967 GTTAT
1 GTTAT
2264972 CTTACCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.51
Consensus pattern (18 bp):
GTTATGATACTTTTATAG
Found at i:2268660 original size:18 final size:20
Alignment explanation
Indices: 2268614--2268661 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2268604 TCTCATATGG
*
2268614 GGAGTATCGATACTCTACAC
1 GGAGTATCGACACTCTACAC
2268634 TGG-GTATCGACACTCT-CA-
1 -GGAGTATCGACACTCTACAC
2268652 GGAGTATCGA
1 GGAGTATCGA
2268662 TAGCAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 7 0.28
19 2 0.08
20 12 0.48
21 2 0.08
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (20 bp):
GGAGTATCGACACTCTACAC
Found at i:2268729 original size:21 final size:20
Alignment explanation
Indices: 2268703--2268750 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2268693 GCCTCGATAC
2268703 CGATACTA-ACCCTTTGAGTAT
1 CGATACTAGACCC--TGAGTAT
*
2268724 CGATACTAGGCCCTGAGTAT
1 CGATACTAGACCCTGAGTAT
2268744 CGATACT
1 CGATACT
2268751 CCTTGAAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 14 0.56
21 8 0.32
22 3 0.12
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (20 bp):
CGATACTAGACCCTGAGTAT
Found at i:2272616 original size:14 final size:14
Alignment explanation
Indices: 2272591--2272627 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2272581 GTACTCCCAC
2272591 TGGTCATCACTACCT
1 TGGTC-TCACTACCT
2272606 TGGTCTCACTACCT
1 TGGTCTCACTACCT
2272620 TGGTCTCA
1 TGGTCTCA
2272628 TTATCCTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.35
Consensus pattern (14 bp):
TGGTCTCACTACCT
Found at i:2275615 original size:62 final size:64
Alignment explanation
Indices: 2275511--2275636 Score: 159
Period size: 62 Copynumber: 2.0 Consensus size: 64
2275501 TACTAACTCT
* * * *
2275511 AAATTTGCTTCGATATTTTAAAAATTACCCTGGGTATCGATACT-GCCT-TGAGTATCGATACC
1 AAATTTGCTTCAATATTTTAAAAAATACCCTCGGTATCGATACTACCCTCTGAGTATCGATACC
* *
2275573 AAATTTGGCTTCAATGTTTTAAAAAATA-CCTCGGTTTCGATACTAACCCTCTGAGTATCGATAC
1 AAATTT-GCTTCAATATTTTAAAAAATACCCTCGGTATCGATACT-ACCCTCTGAGTATCGATAC
2275637 TAGGCCCTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
62 20 0.37
63 18 0.33
64 3 0.06
65 13 0.24
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (64 bp):
AAATTTGCTTCAATATTTTAAAAAATACCCTCGGTATCGATACTACCCTCTGAGTATCGATACC
Found at i:2275648 original size:20 final size:21
Alignment explanation
Indices: 2275609--2275657 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
2275599 TACCTCGGTT
2275609 TCGATACTAACCCTCTGAGTA
1 TCGATACTAACCCTCTGAGTA
**
2275630 TCGATACTAGGCC-CTGAGTA
1 TCGATACTAACCCTCTGAGTA
2275650 TCGATACT
1 TCGATACT
2275658 CCATGAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (21 bp):
TCGATACTAACCCTCTGAGTA
Found at i:2288578 original size:18 final size:19
Alignment explanation
Indices: 2288535--2288583 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
2288525 GGAGAGAGAG
2288535 AAGTAAAAATAATGAAATA
1 AAGTAAAAATAATGAAATA
*
2288554 AA--AAAAAGAAATG-AATA
1 AAGTAAAAA-TAATGAAATA
2288571 AAGTAAAAATAAT
1 AAGTAAAAATAAT
2288584 ATTTTACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
17 11 0.44
18 7 0.28
19 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.18
Consensus pattern (19 bp):
AAGTAAAAATAATGAAATA
Found at i:2291459 original size:28 final size:28
Alignment explanation
Indices: 2291412--2291468 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
2291402 TTTCATATTT
2291412 TATAATATATAGTTTGTACATA-TAGTA
1 TATAATATATAGTTTGTACATATTAGTA
2291439 TATAATATATTAGTTTGTACATATTAGTA
1 TATAATATA-TAGTTTGTACATATTAGTA
2291468 T
1 T
2291469 TAGTTGCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 9 0.32
28 13 0.46
29 6 0.21
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.47
Consensus pattern (28 bp):
TATAATATATAGTTTGTACATATTAGTA
Done.