Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 117 of 202
Found at i:36040609 original size:40 final size:40
Alignment explanation
Indices: 36040565--36040644 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
36040555 TTCCGTATAT
36040565 GTAAACCATTTTCAAAGAAATATCATATCATCGTTAACAC
1 GTAAACCATTTTCAAAGAAATATCATATCATCGTTAACAC
36040605 GTAAACCATTTTCAAAGAAATATCATATCATCGTTAACAC
1 GTAAACCATTTTCAAAGAAATATCATATCATCGTTAACAC
36040645 ATATACATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (40 bp):
GTAAACCATTTTCAAAGAAATATCATATCATCGTTAACAC
Found at i:36041006 original size:17 final size:17
Alignment explanation
Indices: 36040951--36041009 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
36040941 TATAATCACC
36040951 TTTTCACATTTCTCATA
1 TTTTCACATTTCTCATA
** *
36040968 TAGT--CA-TGCTCATA
1 TTTTCACATTTCTCATA
36040982 TTTTCACATTTCTCA-A
1 TTTTCACATTTCTCATA
36040998 TTTTACACATTT
1 TTTT-CACATTT
36041010 GCATGTAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
14 9 0.28
15 2 0.06
16 7 0.22
17 14 0.44
ACGTcount: A:0.25, C:0.22, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTTCACATTTCTCATA
Found at i:36045238 original size:25 final size:24
Alignment explanation
Indices: 36045180--36045245 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
36045170 CCACAGCACT
* * *
36045180 TATGAGCTTACCAATTTTAGCTCG
1 TATGAGCTTACCGATTTCAGCTCA
*
36045204 TGA-GAACTTACCGATTCTCAGCTCA
1 T-ATGAGCTTACCGATT-TCAGCTCA
36045229 TATGAGCTTACCGATTT
1 TATGAGCTTACCGATTT
36045246 ACAACTCGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 14 0.41
25 20 0.59
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (24 bp):
TATGAGCTTACCGATTTCAGCTCA
Found at i:36050020 original size:50 final size:50
Alignment explanation
Indices: 36049959--36050053 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
36049949 AATAATAACA
*
36049959 TGCCAAAGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
36050009 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT
36050054 AATCTTAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:36057609 original size:150 final size:148
Alignment explanation
Indices: 36057356--36057627 Score: 375
Period size: 150 Copynumber: 1.8 Consensus size: 148
36057346 ACATGCCAAA
* * * *
36057356 GCCATGTCCCGGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCCCAGATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTAG-ACTGCCAACGCCATATCCCAGACAT
** * *
36057421 GATCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCAAGACATGGTCTTATGGGGGAC
65 GATCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCAAGACATGGTCTTATGGGGGAC
36057486 CTCTCATCTCGGTGCTAAC
130 CTCTCATCTCGGTGCTAAC
* *
36057505 GCCATGTCCCAGACATGGTCTTACATGGGACCTGTTATCTAG-GTGCCAACGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGA--TGTT-TCTAGACTGCCAACGCCATATCCCAGAC
* * * *
36057569 ATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTA
63 ATGATCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCAAGACATGGTCTTA
36057628 CATAGGACCT
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
149 29 0.27
150 69 0.65
151 4 0.04
152 4 0.04
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (148 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTAGACTGCCAACGCCATATCCCAGACATG
ATCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCAAGACATGGTCTTATGGGGGACC
TCTCATCTCGGTGCTAAC
Found at i:36057640 original size:50 final size:50
Alignment explanation
Indices: 36057349--36057640 Score: 329
Period size: 50 Copynumber: 5.9 Consensus size: 50
36057339 GATAATAACA
* * * * *
36057349 TGCCAAAGCCATGTCCCGGACATGGTCTTACATGGGA--TGTT-TCTTGTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG--G
* * * * ** * *
36057398 TGCCAATGCCATATCCCAGATATGATCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * * *** *
36057448 TGCCCATGCCATGTCCAAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * *
36057498 TGCTAACGCCATGTCCCAGACATGGTCTTACATGGGACCTGTTATCTAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
36057548 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
*
36057598 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
36057641 TACCCAAATG
Statistics
Matches: 205, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
49 32 0.16
50 168 0.82
51 2 0.01
52 3 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:36060953 original size:50 final size:50
Alignment explanation
Indices: 36060883--36061124 Score: 290
Period size: 50 Copynumber: 4.9 Consensus size: 50
36060873 TTGAGATTCA
*
36060883 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
*
36060933 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * *
36060983 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** ** * **
36061033 GAGAATTCCCATGTAAGACCAAATCTGGGATATGGCATTGGCA--GTTCAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGAT
* ** * * *
36061082 GAAACATCCCGTGTAAGACCATGTCTGGGACTTGGCTTTGGCA
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
36061125 TGTTATTATC
Statistics
Matches: 167, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 36 0.22
50 130 0.78
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:36062746 original size:19 final size:19
Alignment explanation
Indices: 36062714--36062750 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36062704 CATTTTACGA
* *
36062714 CTCATCTTTTCTCTTTTCT
1 CTCATATTTCCTCTTTTCT
36062733 CTCATATTTCCTCTTTTC
1 CTCATATTTCCTCTTTTC
36062751 CACCACATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.59
Consensus pattern (19 bp):
CTCATATTTCCTCTTTTCT
Found at i:36065371 original size:20 final size:20
Alignment explanation
Indices: 36065346--36065385 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
36065336 TTTATTGACT
*
36065346 CCATTTTTGGTGATTTTTCA
1 CCATTTTTAGTGATTTTTCA
36065366 CCATTTTTAGTGATTTTTCA
1 CCATTTTTAGTGATTTTTCA
36065386 AAGTCACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.55
Consensus pattern (20 bp):
CCATTTTTAGTGATTTTTCA
Found at i:36069855 original size:12 final size:12
Alignment explanation
Indices: 36069838--36069891 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
36069828 AGCATCTTCG
36069838 AAAAAAATTTCA
1 AAAAAAATTTCA
36069850 AAAAAAATTTCA
1 AAAAAAATTTCA
*
36069862 AAAAAAA--TCG
1 AAAAAAATTTCA
36069872 AAAAAAA-TTCA
1 AAAAAAATTTCA
36069883 GAAAAAAAT
1 -AAAAAAAT
36069892 AGTTTCCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
10 9 0.24
11 2 0.05
12 26 0.70
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.19
Consensus pattern (12 bp):
AAAAAAATTTCA
Found at i:36069875 original size:22 final size:22
Alignment explanation
Indices: 36069850--36069891 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
36069840 AAAAATTTCA
36069850 AAAAAAATTTCA-AAAAAAATCG
1 AAAAAAA-TTCAGAAAAAAATCG
36069872 AAAAAAATTCAGAAAAAAAT
1 AAAAAAATTCAGAAAAAAAT
36069892 AGTTTCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAAAAATTCAGAAAAAAATCG
Found at i:36069947 original size:14 final size:14
Alignment explanation
Indices: 36069928--36069966 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
36069918 GATATCAAGT
36069928 TGAAAAAAAAATCG
1 TGAAAAAAAAATCG
*
36069942 TG-AAAAAAAATTG
1 TGAAAAAAAAATCG
36069955 TGGAAAAAAAAA
1 T-GAAAAAAAAA
36069967 AGAAGAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.67, C:0.03, G:0.15, T:0.15
Consensus pattern (14 bp):
TGAAAAAAAAATCG
Found at i:36069949 original size:13 final size:14
Alignment explanation
Indices: 36069931--36069965 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
36069921 ATCAAGTTGA
36069931 AAAAAAAATCGT-G
1 AAAAAAAATCGTGG
*
36069944 AAAAAAAATTGTGG
1 AAAAAAAATCGTGG
36069958 AAAAAAAA
1 AAAAAAAA
36069966 AAGAAGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAAAAATCGTGG
Found at i:36076539 original size:28 final size:28
Alignment explanation
Indices: 36076506--36076563 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
36076496 CGAATATGAT
36076506 CTCCCACGGTCTCGGTGCGAATACCCAA
1 CTCCCACGGTCTCGGTGCGAATACCCAA
36076534 CTCCCACGGTCTCGGTGCGAATACCCAA
1 CTCCCACGGTCTCGGTGCGAATACCCAA
36076562 CT
1 CT
36076564 GAAACAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.40, G:0.21, T:0.19
Consensus pattern (28 bp):
CTCCCACGGTCTCGGTGCGAATACCCAA
Found at i:36078983 original size:51 final size:52
Alignment explanation
Indices: 36078906--36079034 Score: 190
Period size: 52 Copynumber: 2.5 Consensus size: 52
36078896 CGGATACCCG
* *
36078906 GTGGCCTGCACATAGTACCACCCTTGT-AGCCAAAAATA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAAATATCCTTCTTCACAAA
* *
36078957 GTGGCCTTCACATAGTACCACACTTGTGACCAAAACTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAAATATCCTTCTTCACAAA
*
36079009 GTGGCCTTCACATGGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
36079035 AGTCACTAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 33 0.46
52 38 0.54
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAAATATCCTTCTTCACAAA
Found at i:36080644 original size:30 final size:30
Alignment explanation
Indices: 36080610--36080671 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
36080600 CACTTTAGTT
36080610 CATGTATATAATCCAATACAGAACTCTTAC
1 CATGTATATAATCCAATACAGAACTCTTAC
36080640 CATGTATATAATCCAATACAGAACTCTTAC
1 CATGTATATAATCCAATACAGAACTCTTAC
36080670 CA
1 CA
36080672 AAACCTATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.29
Consensus pattern (30 bp):
CATGTATATAATCCAATACAGAACTCTTAC
Found at i:36083793 original size:61 final size:61
Alignment explanation
Indices: 36083642--36083793 Score: 146
Period size: 61 Copynumber: 2.5 Consensus size: 61
36083632 GGCATACCTT
* * * * * *
36083642 TCTAGAGTTTTGCCATAAAGGCTGCCTTTTACATGTAGTACTCACCACAAAAGCTTTTATG
1 TCTAGAGTTTTGCCATAAAGGTTGCCCTTTACATCTAGTACTCACAAAAAAAGCTTTTATA
* * * * * **
36083703 TCTAGATTTTTGCCACAAATGTTGTCCTTTACATCTAGT-TTCGTAAAAAAAGGCTTTCT-TA
1 TCTAGAGTTTTGCCATAAAGGTTGCCCTTTACATCTAGTACTCACAAAAAAA-GCTTT-TATA
*
36083764 TCTAGAGTTTTGCCATAAAGGTTACCCTTT
1 TCTAGAGTTTTGCCATAAAGGTTGCCCTTT
36083794 TTTACTAGTG
Statistics
Matches: 71, Mismatches: 18, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
60 7 0.10
61 63 0.89
62 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (61 bp):
TCTAGAGTTTTGCCATAAAGGTTGCCCTTTACATCTAGTACTCACAAAAAAAGCTTTTATA
Found at i:36085420 original size:79 final size:79
Alignment explanation
Indices: 36085323--36085469 Score: 231
Period size: 79 Copynumber: 1.9 Consensus size: 79
36085313 TGAACGATCC
* * *
36085323 ATTAATTTGATTCATTCAGCTCTACTCCTTAAGTCCGCTCTAATGGCTGTTCGGGAACTCCAAAT
1 ATTAATTTGATTCATTCAGCTCAACTCCTTAAGTCCACTCTAATGGCTATTCGGGAACTCCAAAT
36085388 GTCCAAGCTAATCA
66 GTCCAAGCTAATCA
* * * *
36085402 ATTAATTTGATTTATTCAGCTCAACTCTTTAAGTCCACTCTAATGGCTATTCGGGAACTTCAAGT
1 ATTAATTTGATTCATTCAGCTCAACTCCTTAAGTCCACTCTAATGGCTATTCGGGAACTCCAAAT
36085467 GTC
66 GTC
36085470 AAAGACTGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (79 bp):
ATTAATTTGATTCATTCAGCTCAACTCCTTAAGTCCACTCTAATGGCTATTCGGGAACTCCAAAT
GTCCAAGCTAATCA
Found at i:36105215 original size:38 final size:38
Alignment explanation
Indices: 36105026--36105217 Score: 222
Period size: 38 Copynumber: 5.1 Consensus size: 38
36105016 ATTTGCATTA
* * * * * *
36105026 CACCGACATAAAGCCTGCTAGGAATAAAGCCCGAATAA
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* *
36105064 CACCAGCACAAAGCCTGCTAGGCACATAGCCCTAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * *
36105102 CACTGGCACAAAGCCTGCTAGGCACATAGTCTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * * **
36105140 CACCGACACAAAGCCTACTAGGCACACAGCTTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* *
36105178 CACCGGTACAAAGCCTACTAGGCACATAGCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
36105216 CA
1 CA
36105218 TTACGTTTTT
Statistics
Matches: 130, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 130 1.00
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (38 bp):
CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
Found at i:36107371 original size:405 final size:405
Alignment explanation
Indices: 36106620--36107430 Score: 1622
Period size: 405 Copynumber: 2.0 Consensus size: 405
36106610 ACAGAATAAG
36106620 TATGAGAAGAAAAACTGCGTTTAGTGGAAAGATAAATTAAGTACATTAGGAGGTACTTGCTATAG
1 TATGAGAAGAAAAACTGCGTTTAGTGGAAAGATAAATTAAGTACATTAGGAGGTACTTGCTATAG
36106685 TCAGAATTGCATGAATCTTTAGGAACTTTTCTTTTTATGCAACATTTTCTGCACTCCGTATGCTA
66 TCAGAATTGCATGAATCTTTAGGAACTTTTCTTTTTATGCAACATTTTCTGCACTCCGTATGCTA
36106750 AACTAACCTATAAAATTTGAACCAAATTTTTTTAGACAGAAGACTGCTGAGAATGGTGGTATAAA
131 AACTAACCTATAAAATTTGAACCAAATTTTTTTAGACAGAAGACTGCTGAGAATGGTGGTATAAA
36106815 ATATGTTTCATTTGGTTTAGCAGTACAAGAGGCAATTCTATAGTTATGGAAAATTTATGCATTCA
196 ATATGTTTCATTTGGTTTAGCAGTACAAGAGGCAATTCTATAGTTATGGAAAATTTATGCATTCA
36106880 TAAAAATTCTACTTGAGGACAAGAAAGAACTCAGGTTTGGAGGTGTGATAACTCTTGAAAAGAGT
261 TAAAAATTCTACTTGAGGACAAGAAAGAACTCAGGTTTGGAGGTGTGATAACTCTTGAAAAGAGT
36106945 TATATTTTGAACCTTTAAGCTTGATTAAATGTCTATACTTAAGTAGATATATTTTCATTTTTAGG
326 TATATTTTGAACCTTTAAGCTTGATTAAATGTCTATACTTAAGTAGATATATTTTCATTTTTAGG
36107010 TTATTTTTAGAACAT
391 TTATTTTTAGAACAT
36107025 TATGAGAAGAAAAACTGCGTTTAGTGGAAAGATAAATTAAGTACATTAGGAGGTACTTGCTATAG
1 TATGAGAAGAAAAACTGCGTTTAGTGGAAAGATAAATTAAGTACATTAGGAGGTACTTGCTATAG
36107090 TCAGAATTGCATGAATCTTTAGGAACTTTTCTTTTTATGCAACATTTTCTGCACTCCGTATGCTA
66 TCAGAATTGCATGAATCTTTAGGAACTTTTCTTTTTATGCAACATTTTCTGCACTCCGTATGCTA
36107155 AACTAACCTATAAAATTTGAACCAAATTTTTTTAGACAGAAGACTGCTGAGAATGGTGGTATAAA
131 AACTAACCTATAAAATTTGAACCAAATTTTTTTAGACAGAAGACTGCTGAGAATGGTGGTATAAA
36107220 ATATGTTTCATTTGGTTTAGCAGTACAAGAGGCAATTCTATAGTTATGGAAAATTTATGCATTCA
196 ATATGTTTCATTTGGTTTAGCAGTACAAGAGGCAATTCTATAGTTATGGAAAATTTATGCATTCA
36107285 TAAAAATTCTACTTGAGGACAAGAAAGAACTCAGGTTTGGAGGTGTGATAACTCTTGAAAAGAGT
261 TAAAAATTCTACTTGAGGACAAGAAAGAACTCAGGTTTGGAGGTGTGATAACTCTTGAAAAGAGT
36107350 TATATTTTGAACCTTTAAGCTTGATTAAATGTCTATACTTAAGTAGATATATTTTCATTTTTAGG
326 TATATTTTGAACCTTTAAGCTTGATTAAATGTCTATACTTAAGTAGATATATTTTCATTTTTAGG
36107415 TTATTTTTAGAACAT
391 TTATTTTTAGAACAT
36107430 T
1 T
36107431 GCATAATAAC
Statistics
Matches: 406, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
405 406 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (405 bp):
TATGAGAAGAAAAACTGCGTTTAGTGGAAAGATAAATTAAGTACATTAGGAGGTACTTGCTATAG
TCAGAATTGCATGAATCTTTAGGAACTTTTCTTTTTATGCAACATTTTCTGCACTCCGTATGCTA
AACTAACCTATAAAATTTGAACCAAATTTTTTTAGACAGAAGACTGCTGAGAATGGTGGTATAAA
ATATGTTTCATTTGGTTTAGCAGTACAAGAGGCAATTCTATAGTTATGGAAAATTTATGCATTCA
TAAAAATTCTACTTGAGGACAAGAAAGAACTCAGGTTTGGAGGTGTGATAACTCTTGAAAAGAGT
TATATTTTGAACCTTTAAGCTTGATTAAATGTCTATACTTAAGTAGATATATTTTCATTTTTAGG
TTATTTTTAGAACAT
Found at i:36108883 original size:14 final size:12
Alignment explanation
Indices: 36108853--36108878 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36108843 CCTACCTCCT
36108853 TTTTTACCCATA
1 TTTTTACCCATA
36108865 TTTTTACCCATA
1 TTTTTACCCATA
36108877 TT
1 TT
36108879 CTTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTTTACCCATA
Found at i:36111798 original size:6 final size:6
Alignment explanation
Indices: 36111789--36111846 Score: 82
Period size: 6 Copynumber: 9.7 Consensus size: 6
36111779 TATCTTTGTC
36111789 TTTAAT TTTAA- TTTAAT TTTAAT TTTAATT TTTAAT TTTAAT TTTAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAA-T TTTAAT TTTAAT TTTAAT
**
36111837 GATAAT TTTA
1 TTTAAT TTTA
36111847 TTTATTTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 5 0.11
6 35 0.76
7 6 0.13
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (6 bp):
TTTAAT
Found at i:36111808 original size:30 final size:30
Alignment explanation
Indices: 36111787--36111846 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
36111777 TTTATCTTTG
36111787 TCTTTAATTTTAATTTAATTTTAATTTTAA
1 TCTTTAATTTTAATTTAATTTTAATTTTAA
* **
36111817 TTTTTAATTTTAATTTTAATGATAATTTTA
1 TCTTTAATTTTAA-TTTAATTTTAATTTTA
36111847 TTTATTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (30 bp):
TCTTTAATTTTAATTTAATTTTAATTTTAA
Found at i:36111824 original size:19 final size:18
Alignment explanation
Indices: 36111789--36111846 Score: 82
Period size: 19 Copynumber: 3.2 Consensus size: 18
36111779 TATCTTTGTC
36111789 TTTAATTTTAA-TTTAAT
1 TTTAATTTTAATTTTAAT
36111806 TTTAATTTTAATTTTTAAT
1 TTTAATTTTAA-TTTTAAT
**
36111825 TTTAATTTTAATGATAAT
1 TTTAATTTTAATTTTAAT
36111843 TTTA
1 TTTA
36111847 TTTATTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 11 0.30
18 9 0.24
19 17 0.46
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTAATTTTAATTTTAAT
Found at i:36111833 original size:25 final size:24
Alignment explanation
Indices: 36111789--36111845 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 24
36111779 TATCTTTGTC
36111789 TTTAA-TTTTAATTTAATTTTAAT
1 TTTAATTTTTAATTTAATTTTAAT
36111812 TTTAATTTTTAATTTTAATTTTAAT
1 TTTAATTTTTAA-TTTAATTTTAAT
**
36111837 GATAATTTT
1 TTTAATTTT
36111846 ATTTATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 5 0.17
24 6 0.20
25 19 0.63
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTAATTTTTAATTTAATTTTAAT
Found at i:36112255 original size:13 final size:13
Alignment explanation
Indices: 36112237--36112261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36112227 CCAAAATCTC
36112237 AAAATTTCTTCCA
1 AAAATTTCTTCCA
36112250 AAAATTTCTTCC
1 AAAATTTCTTCC
36112262 TTGTCGCAAG
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:0.24, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTTCTTCCA
Found at i:36118377 original size:29 final size:29
Alignment explanation
Indices: 36118344--36118575 Score: 163
Period size: 29 Copynumber: 8.0 Consensus size: 29
36118334 TTACACAAGA
*
36118344 CATTCCTTTAACTGAGATAGCTACAAAGG
1 CATTCCTTTAACTGAGATAGCCACAAAGG
* * *
36118373 TATTCATTTAACTGAGATAGCCATAAAGG
1 CATTCCTTTAACTGAGATAGCCACAAAGG
* * * *
36118402 CATCCCTTTAACAGAGATCA-CCACAGAGA
1 CATTCCTTTAACTGAGAT-AGCCACAAAGG
* * *
36118431 CATTCATTTAACTAAGATAGCCATAAAGG
1 CATTCCTTTAACTGAGATAGCCACAAAGG
** * *
36118460 CACCCCTTTAA-TAGAGATCA-CCATAAAGA
1 CATTCCTTTAACT-GAGAT-AGCCACAAAGG
* * *
36118489 CATT-GTTTAACTGAGATAGTCATAAAGG
1 CATTCCTTTAACTGAGATAGCCACAAAGG
*
36118517 CA-TCCTCTTAA-TAGAGATCGCCACAAAGG
1 CATTCCT-TTAACT-GAGATAGCCACAAAGG
** *
36118546 C-TTCCTTATAACAAAGATTGCCACAAAGG
1 CATTCCTT-TAACTGAGATAGCCACAAAGG
36118575 C
1 C
36118576 TACCTTTCAG
Statistics
Matches: 156, Mismatches: 35, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
27 2 0.01
28 24 0.15
29 128 0.82
30 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.25
Consensus pattern (29 bp):
CATTCCTTTAACTGAGATAGCCACAAAGG
Found at i:36118419 original size:58 final size:58
Alignment explanation
Indices: 36118348--36118544 Score: 238
Period size: 58 Copynumber: 3.4 Consensus size: 58
36118338 ACAAGACATT
* * **
36118348 CCTTTAACTGAGAT-AGCTACAAAGGTATTCATTTAACTGAGATAGCCATAAAGGCATC
1 CCTTTAACAGAGATCA-CCACAAAGACATTCATTTAACTGAGATAGCCATAAAGGCATC
* * *
36118406 CCTTTAACAGAGATCACCACAGAGACATTCATTTAACTAAGATAGCCATAAAGGCACC
1 CCTTTAACAGAGATCACCACAAAGACATTCATTTAACTGAGATAGCCATAAAGGCATC
* * * *
36118464 CCTTTAATAGAGATCACCATAAAGACATT-GTTTAACTGAGATAGTCATAAAGGCAT-
1 CCTTTAACAGAGATCACCACAAAGACATTCATTTAACTGAGATAGCCATAAAGGCATC
* *
36118520 CCTCTTAATAGAGATCGCCACAAAG
1 CCT-TTAACAGAGATCACCACAAAG
36118545 GCTTCCTTAT
Statistics
Matches: 121, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
56 3 0.02
57 42 0.35
58 75 0.62
59 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (58 bp):
CCTTTAACAGAGATCACCACAAAGACATTCATTTAACTGAGATAGCCATAAAGGCATC
Found at i:36120499 original size:21 final size:22
Alignment explanation
Indices: 36120455--36120500 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
36120445 CTTGGACTAG
**
36120455 GATTTCCAAGATTTGAAATCTT
1 GATTTCCAAGATTCCAAATCTT
*
36120477 GATTTCCAAGA-TCCAATTCTT
1 GATTTCCAAGATTCCAAATCTT
36120498 GAT
1 GAT
36120501 GTTCTCTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (22 bp):
GATTTCCAAGATTCCAAATCTT
Found at i:36129101 original size:18 final size:18
Alignment explanation
Indices: 36129078--36129113 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36129068 TTCTCTTATT
36129078 TTGAGCAACCAAACAAGA
1 TTGAGCAACCAAACAAGA
*
36129096 TTGAGCAACCAAATAAGA
1 TTGAGCAACCAAACAAGA
36129114 CGATGCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.17, T:0.14
Consensus pattern (18 bp):
TTGAGCAACCAAACAAGA
Found at i:36131732 original size:17 final size:17
Alignment explanation
Indices: 36131710--36131743 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36131700 AAGTGTATTT
36131710 AAATATGTTTAATCAAA
1 AAATATGTTTAATCAAA
*
36131727 AAATATTTTTAATCAAA
1 AAATATGTTTAATCAAA
36131744 GGTTGGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATATGTTTAATCAAA
Found at i:36145556 original size:25 final size:25
Alignment explanation
Indices: 36145527--36145582 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
36145517 TAAAACTCTT
*
36145527 CATAAATTGACCTGTATCACTTCAA
1 CATAAATTGACCTATATCACTTCAA
36145552 CATAAATTGACCTATATCACTTCAA
1 CATAAATTGACCTATATCACTTCAA
36145577 CATAAA
1 CATAAA
36145583 CTTACCATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (25 bp):
CATAAATTGACCTATATCACTTCAA
Found at i:36154363 original size:25 final size:25
Alignment explanation
Indices: 36154329--36154384 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
36154319 CAAAACTCAT
*
36154329 CATAAATTGACATGTATCACTTCAA
1 CATAAATTGACATATATCACTTCAA
*
36154354 CATAAATTGACCTATATCACTTCAA
1 CATAAATTGACATATATCACTTCAA
36154379 CATAAA
1 CATAAA
36154385 CTTACCATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.30
Consensus pattern (25 bp):
CATAAATTGACATATATCACTTCAA
Found at i:36157626 original size:30 final size:30
Alignment explanation
Indices: 36157592--36157651 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
36157582 TATATTATTG
36157592 GTTAACACTTTAATTAAGATTTTATGCATA
1 GTTAACACTTTAATTAAGATTTTATGCATA
36157622 GTTAACACTTTAATTAAGATTTTATGCATA
1 GTTAACACTTTAATTAAGATTTTATGCATA
36157652 ATATTAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (30 bp):
GTTAACACTTTAATTAAGATTTTATGCATA
Found at i:36157681 original size:5 final size:5
Alignment explanation
Indices: 36157671--36157698 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
36157661 GTTTTTTATA
36157671 AATTT AATTT AATTT AATTT AATTT AAT
1 AATTT AATTT AATTT AATTT AATTT AAT
36157699 CTTGTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:36160901 original size:17 final size:17
Alignment explanation
Indices: 36160879--36160922 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
36160869 ATTGTAATTG
*
36160879 AAAAAAATATTT-GAAGT
1 AAAAAAAAATTTCG-AGT
36160896 AAAAAAAAATTTCGAGT
1 AAAAAAAAATTTCGAGT
36160913 ATAAAAAAAA
1 A-AAAAAAAA
36160923 ACGAAGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (17 bp):
AAAAAAAAATTTCGAGT
Found at i:36160903 original size:19 final size:18
Alignment explanation
Indices: 36160879--36160922 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
36160869 ATTGTAATTG
36160879 AAAAAAATATTT-GAAGTA-
1 AAAAAAA-ATTTCG-AGTAT
36160897 AAAAAAAATTTCGAGTAT
1 AAAAAAAATTTCGAGTAT
36160915 AAAAAAAA
1 AAAAAAAA
36160923 ACGAAGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AAAAAAAATTTCGAGTAT
Found at i:36161850 original size:12 final size:13
Alignment explanation
Indices: 36161833--36161866 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
36161823 TAATCGAATG
36161833 AAGAAGAAAA-AA
1 AAGAAGAAAACAA
36161845 AAGAAGAAAACAA
1 AAGAAGAAAACAA
36161858 AA-AAGAAAA
1 AAGAAGAAAA
36161867 GCCAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAACAA
Found at i:36161852 original size:15 final size:15
Alignment explanation
Indices: 36161832--36161864 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
36161822 TTAATCGAAT
36161832 GAAGAAGAA-AAAAAA
1 GAAGAA-AACAAAAAA
36161847 GAAGAAAACAAAAAA
1 GAAGAAAACAAAAAA
36161862 GAA
1 GAA
36161865 AAGCCAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (15 bp):
GAAGAAAACAAAAAA
Found at i:36161904 original size:27 final size:26
Alignment explanation
Indices: 36161843--36161918 Score: 64
Period size: 27 Copynumber: 2.9 Consensus size: 26
36161833 AAGAAGAAAA
*
36161843 AAAAGAAGAAAACAAAAAAGAAAAGCC
1 AAAAGAA-AAAAAAAAAAAGAAAAGCC
* * **
36161870 AAATGAAAAAAAAAGAAAAGGAAAGTG
1 AAAAGAAAAAAAAA-AAAAGAAAAGCC
* *
36161897 AAAAG-AAAATAAGAAAAGAAAA
1 AAAAGAAAAAAAAAAAAAGAAAA
36161919 ACAAGAAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 8 0.21
26 12 0.31
27 19 0.49
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (26 bp):
AAAAGAAAAAAAAAAAAAGAAAAGCC
Found at i:36161935 original size:22 final size:21
Alignment explanation
Indices: 36161899--36161939 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
36161889 GGAAAGTGAA
36161899 AAGAAAATAAGAAAAGAAAAAC
1 AAGAAAATAAGAAAA-AAAAAC
*
36161921 AAGAAAAT-ATAAAAAAAAA
1 AAGAAAATAAGAAAAAAAAA
36161940 GTCTGATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.07
Consensus pattern (21 bp):
AAGAAAATAAGAAAAAAAAAC
Found at i:36163887 original size:20 final size:20
Alignment explanation
Indices: 36163862--36163902 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
36163852 AAAAATGAGA
36163862 AAAGATTCTATTTTTGTTGT
1 AAAGATTCTATTTTTGTTGT
36163882 AAAGATTCTATTTTTGTTGT
1 AAAGATTCTATTTTTGTTGT
36163902 A
1 A
36163903 GTGGATCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.54
Consensus pattern (20 bp):
AAAGATTCTATTTTTGTTGT
Found at i:36170136 original size:11 final size:11
Alignment explanation
Indices: 36170111--36170159 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
36170101 ATAGTTTTGA
* *
36170111 GGTGGTGCAAG
1 GGTGGTGCTAT
*
36170122 GGTGGTGCTGT
1 GGTGGTGCTAT
*
36170133 GGTGGTGGTAT
1 GGTGGTGCTAT
36170144 GGTGGTGCTAT
1 GGTGGTGCTAT
*
36170155 AGTGG
1 GGTGG
36170160 AGAAGTGGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.10, C:0.06, G:0.53, T:0.31
Consensus pattern (11 bp):
GGTGGTGCTAT
Found at i:36171914 original size:95 final size:94
Alignment explanation
Indices: 36171759--36171939 Score: 218
Period size: 95 Copynumber: 1.9 Consensus size: 94
36171749 CATTACCGAG
* * * * * ** *
36171759 CTATGTTCTTACACAATCTACCCTATGTTTAACGTCTTGGCGGACTACCTCATGTTTATTGTCCC
1 CTATGGTCATACACAATCTACCCCATGTTTAACATCATGGCGGACTACAACATATTTATTGTCCC
* *
36171824 GACGGACTCCATATACTACCAAAGCCAAC
66 AACGAACTCCATATACTACCAAAGCCAAC
* * *
36171853 CTATGGTCATACACAATCTAACCCCATGTTTAACATCATGGCTGACTATAACTTATTTATTGTCC
1 CTATGGTCATACACAATCT-ACCCCATGTTTAACATCATGGCGGACTACAACATATTTATTGTCC
* *
36171918 CAATGAACTCCATATGCTACCA
65 CAACGAACTCCATATACTACCA
36171940 TAGTTAAGCA
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
94 17 0.24
95 54 0.76
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (94 bp):
CTATGGTCATACACAATCTACCCCATGTTTAACATCATGGCGGACTACAACATATTTATTGTCCC
AACGAACTCCATATACTACCAAAGCCAAC
Found at i:36171961 original size:95 final size:94
Alignment explanation
Indices: 36171765--36171961 Score: 214
Period size: 95 Copynumber: 2.1 Consensus size: 94
36171755 CGAGCTATGT
* * * ** * * *
36171765 TCTTACACAATCTACCCTATGTTTAACGTCTTGGCGGACTACCTCATGTTTATTGTCCCGACGGA
1 TCTTACACAATCTACCCCATGTTTAACATCATGGCGGACTACAACATATTTATTGTCCCAACGAA
*
36171830 CTCCATATACTACCAAAGCCAACCTATGG
66 CTCCATATACTACCAAAGCCAACCAATGG
* * * * *
36171859 TCATACACAATCTAACCCCATGTTTAACATCATGGCTGACTATAACTTATTTATTGTCCCAATGA
1 TCTTACACAATCT-ACCCCATGTTTAACATCATGGCGGACTACAACATATTTATTGTCCCAACGA
* * ** *
36171924 ACTCCATATGCTACCATAGTTAAGCAATGG
65 ACTCCATATACTACCAAAGCCAACCAATGG
36171954 TCTTACAC
1 TCTTACAC
36171962 CTTAAACCTC
Statistics
Matches: 82, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
94 12 0.15
95 70 0.85
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (94 bp):
TCTTACACAATCTACCCCATGTTTAACATCATGGCGGACTACAACATATTTATTGTCCCAACGAA
CTCCATATACTACCAAAGCCAACCAATGG
Found at i:36178961 original size:26 final size:24
Alignment explanation
Indices: 36178878--36178966 Score: 83
Period size: 26 Copynumber: 3.6 Consensus size: 24
36178868 CACAGCTCTT
* **
36178878 ATGAGCTTACCGGTATATCAGCTCTT
1 ATGAGCTTACC-G-ATTTCAGCTCAG
36178904 ATGAGCTTACC-ATTTCAGCT-AG
1 ATGAGCTTACCGATTTCAGCTCAG
*
36178926 ATAGAGCTTACCGTTCTTCAGCTCAG
1 AT-GAGCTTACCGAT-TTCAGCTCAG
36178952 AATGAGCTTACCGAT
1 -ATGAGCTTACCGAT
36178967 CATGGCTCGA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
22 2 0.04
23 17 0.32
24 1 0.02
25 7 0.13
26 24 0.45
27 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (24 bp):
ATGAGCTTACCGATTTCAGCTCAG
Found at i:36187457 original size:42 final size:42
Alignment explanation
Indices: 36187398--36187497 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
36187388 AATGGGTCTA
* *
36187398 CTCACACAAGCTGTGGGTCAGAATGTAAGCTACACGATGCTG
1 CTCACACGAGCTGTGGGTCAAAATGTAAGCTACACGATGCTG
* * *
36187440 CTCACACGAGTTGTGGGTCAAAATGTAAGCTACATGATGGTG
1 CTCACACGAGCTGTGGGTCAAAATGTAAGCTACACGATGCTG
*
36187482 CTTACACGAGCTGTGG
1 CTCACACGAGCTGTGG
36187498 AGTATCCACA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (42 bp):
CTCACACGAGCTGTGGGTCAAAATGTAAGCTACACGATGCTG
Found at i:36206527 original size:16 final size:16
Alignment explanation
Indices: 36206506--36206537 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36206496 AACTTATTGC
*
36206506 AAAATTTTCCTTAGCA
1 AAAATTGTCCTTAGCA
36206522 AAAATTGTCCTTAGCA
1 AAAATTGTCCTTAGCA
36206538 GTGGATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (16 bp):
AAAATTGTCCTTAGCA
Found at i:36209980 original size:101 final size:102
Alignment explanation
Indices: 36209860--36210044 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
36209850 AAAGTGATGG
* ** *
36209860 TCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTTGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGCAGT
* *
36209923 ACTATGTGTAGGCTATTATGCGCACTGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGCACTGGATAGTTTCGA
* *
36209961 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGCAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGCAGTA
36210026 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
36210045 TGAACCAAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.54
102 30 0.41
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGCAGTA
CTATGTGCAGGCTACTATGCGCACTGGATAGTTTCGA
Found at i:36210026 original size:51 final size:49
Alignment explanation
Indices: 36209856--36210042 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 49
36209846 AGTGAAAGTG
* * *
36209856 ATGGTCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGG-ATGGT
** * * * * * *
36209907 A-GGTTGCATGTGTAGTACTATGTGTAGGCTATTATGCGCACTGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC-GGATGGT
* * *
36209956 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGGATGGT
*
36210007 AATGGTCACATGTGCAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
36210043 TGTGAACCAA
Statistics
Matches: 105, Mismatches: 26, Indels: 10
0.74 0.18 0.07
Matches are distributed among these distances:
49 4 0.04
50 32 0.30
51 67 0.64
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGGATGGT
Found at i:36210117 original size:45 final size:45
Alignment explanation
Indices: 36210053--36210138 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
36210043 TGTGAACCAA
* *
36210053 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
36210098 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
36210139 TCAAGTATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:36212046 original size:15 final size:14
Alignment explanation
Indices: 36212026--36212055 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
36212016 TCATAAGTTG
36212026 AAAAAAGAAGATGAA
1 AAAAAAGAA-ATGAA
36212041 AAAAAAGAAATGAA
1 AAAAAAGAAATGAA
36212055 A
1 A
36212056 GTTTATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAAAAGAAATGAA
Found at i:36212589 original size:29 final size:29
Alignment explanation
Indices: 36212547--36212604 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
36212537 CATAGAGAAA
36212547 ACGAAGTACTCAATTCTGTAAGACGTTCT
1 ACGAAGTACTCAATTCTGTAAGACGTTCT
36212576 ACGAAGTACTCAATTCTGTAAGACGTTCT
1 ACGAAGTACTCAATTCTGTAAGACGTTCT
36212605 CTAATTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (29 bp):
ACGAAGTACTCAATTCTGTAAGACGTTCT
Found at i:36213832 original size:35 final size:35
Alignment explanation
Indices: 36213786--36213855 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
36213776 AATAGATGAA
36213786 AGAATTATTGGTTTGTTTGGGTTATGTTTGACATT
1 AGAATTATTGGTTTGTTTGGGTTATGTTTGACATT
36213821 AGAATTATTGGTTTGTTTGGGTTATGTTTGACATT
1 AGAATTATTGGTTTGTTTGGGTTATGTTTGACATT
36213856 GTCATGTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.03, G:0.26, T:0.51
Consensus pattern (35 bp):
AGAATTATTGGTTTGTTTGGGTTATGTTTGACATT
Found at i:36215498 original size:101 final size:102
Alignment explanation
Indices: 36215378--36215562 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
36215368 AAAGTGATGG
* ** *
36215378 TCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTTGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGCAGT
* *
36215441 ACTATGTGTAGGCTATTATGCGCACTGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGCACTGGATAGTTTCGA
* *
36215479 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGCAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGCAGTA
36215544 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
36215563 TGAACCAAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.54
102 30 0.41
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGCAGTA
CTATGTGCAGGCTACTATGCGCACTGGATAGTTTCGA
Found at i:36215544 original size:51 final size:49
Alignment explanation
Indices: 36215374--36215560 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 49
36215364 AGTGAAAGTG
* * *
36215374 ATGGTCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGG-ATGGT
** * * * * * *
36215425 A-GGTTGCATGTGTAGTACTATGTGTAGGCTATTATGCGCACTGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC-GGATGGT
* * *
36215474 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGGATGGT
*
36215525 AATGGTCACATGTGCAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
36215561 TGTGAACCAA
Statistics
Matches: 105, Mismatches: 26, Indels: 10
0.74 0.18 0.07
Matches are distributed among these distances:
49 4 0.04
50 32 0.30
51 67 0.64
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGGATGGT
Found at i:36215635 original size:45 final size:45
Alignment explanation
Indices: 36215571--36215656 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
36215561 TGTGAACCAA
* *
36215571 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
36215616 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
36215657 TCAAGTATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:36220745 original size:33 final size:33
Alignment explanation
Indices: 36220706--36220772 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
36220696 AGTTTTTGTA
36220706 TGTCTACAGAACTAAAGAATGATATCTAGATTT
1 TGTCTACAGAACTAAAGAATGATATCTAGATTT
36220739 TGTCTACAGAACTAAAGAATGATATCTAGATTT
1 TGTCTACAGAACTAAAGAATGATATCTAGATTT
36220772 T
1 T
36220773 TATCCCTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTCTACAGAACTAAAGAATGATATCTAGATTT
Found at i:36224664 original size:17 final size:18
Alignment explanation
Indices: 36224623--36224664 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
36224613 CCTAACATTG
36224623 AAAAAAGAAAAATTAAGC
1 AAAAAAGAAAAATTAAGC
36224641 AAGAAAAG-AAAATT-AGC
1 AA-AAAAGAAAAATTAAGC
36224658 ATAAAAA
1 A-AAAAA
36224665 TTAGAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.36
18 9 0.41
19 5 0.23
ACGTcount: A:0.71, C:0.05, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAAAGAAAAATTAAGC
Found at i:36226228 original size:12 final size:14
Alignment explanation
Indices: 36226200--36226231 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
36226190 TTCTGTGCCT
36226200 TTCCTATATCTAAA
1 TTCCTATATCTAAA
36226214 TTCC-ATATC-AAA
1 TTCCTATATCTAAA
36226226 TTCCTA
1 TTCCTA
36226232 CAATAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 6 0.35
14 4 0.24
ACGTcount: A:0.34, C:0.25, G:0.00, T:0.41
Consensus pattern (14 bp):
TTCCTATATCTAAA
Found at i:36229786 original size:29 final size:29
Alignment explanation
Indices: 36229754--36230104 Score: 354
Period size: 29 Copynumber: 12.0 Consensus size: 29
36229744 TTCGACTATT
*
36229754 GAATATGAAAAGGGATGGTGACGAGCATC
1 GAATATGAAAAGGGATGGTGACGACCATC
* * * * *
36229783 GAATATGAAAAGGAATAGCT-TCGGCTATC
1 GAATATGAAAAGGGAT-GGTGACGACCATC
*
36229812 GATTATGAAAAGGGATGGTGACGACCATC
1 GAATATGAAAAGGGATGGTGACGACCATC
*
36229841 -AACTATGGAAAGGGATGGTGACGACCATC
1 GAA-TATGAAAAGGGATGGTGACGACCATC
* * * *
36229870 GATTAATGAAAAGGGATAGCT-TCGACTATC
1 GAAT-ATGAAAAGGGAT-GGTGACGACCATC
*
36229900 GATTATGAAAAGGGATGGTGACGACCATC
1 GAATATGAAAAGGGATGGTGACGACCATC
*
36229929 -AACTATGGAAAGGGATGGTGACGACCATC
1 GAA-TATGAAAAGGGATGGTGACGACCATC
* * * *
36229958 GATTAATGAAAAGGGATAGCT-TCGACTATC
1 GAAT-ATGAAAAGGGAT-GGTGACGACCATC
*
36229988 GATTATGAAAAGGGATGGTGACGACCATC
1 GAATATGAAAAGGGATGGTGACGACCATC
*
36230017 -AACTATGGAAAGGGATGGTGACGACCATC
1 GAA-TATGAAAAGGGATGGTGACGACCATC
* **
36230046 GATTAATGAAAAGGGATGGTTTCGACCATC
1 GAAT-ATGAAAAGGGATGGTGACGACCATC
* *
36230076 GAATATGAAAAGGGATGGTTACAACCATC
1 GAATATGAAAAGGGATGGTGACGACCATC
36230105 ATTTAGCACA
Statistics
Matches: 266, Mismatches: 41, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
28 9 0.03
29 179 0.67
30 74 0.28
31 4 0.02
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.21
Consensus pattern (29 bp):
GAATATGAAAAGGGATGGTGACGACCATC
Found at i:36229909 original size:88 final size:88
Alignment explanation
Indices: 36229757--36230105 Score: 592
Period size: 88 Copynumber: 4.0 Consensus size: 88
36229747 GACTATTGAA
* * * * *
36229757 TATGAAAAGGGATGGTGACGAGCATCGAAT-ATGAAAAGGAATAGCTTCGGCTATCGATTATGAA
1 TATGGAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATAGCTTCGACTATCGATTATGAA
36229821 AAGGGATGGTGACGACCATCAAC
66 AAGGGATGGTGACGACCATCAAC
36229844 TATGGAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATAGCTTCGACTATCGATTATGAA
1 TATGGAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATAGCTTCGACTATCGATTATGAA
36229909 AAGGGATGGTGACGACCATCAAC
66 AAGGGATGGTGACGACCATCAAC
36229932 TATGGAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATAGCTTCGACTATCGATTATGAA
1 TATGGAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATAGCTTCGACTATCGATTATGAA
36229997 AAGGGATGGTGACGACCATCAAC
66 AAGGGATGGTGACGACCATCAAC
* * * *
36230020 TATGGAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTTTCGACCATCGAATATGAA
1 TATGGAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATAGCTTCGACTATCGATTATGAA
* *
36230085 AAGGGATGGTTACAACCATCA
66 AAGGGATGGTGACGACCATCA
36230106 TTTAGCACAC
Statistics
Matches: 250, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
87 27 0.11
88 223 0.89
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.21
Consensus pattern (88 bp):
TATGGAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATAGCTTCGACTATCGATTATGAA
AAGGGATGGTGACGACCATCAAC
Found at i:36229912 original size:59 final size:58
Alignment explanation
Indices: 36229757--36230104 Score: 378
Period size: 59 Copynumber: 5.9 Consensus size: 58
36229747 GACTATTGAA
* * * * * * *
36229757 TATGAAAAGGGATGGTGACGAGCATCGAATATGAAAAGGAATAGCT-TCGGCTATCGAT
1 TATGAAAAGGGATGGTGACGACCATCGACTATGAAAAGGGAT-GGTGACGACCATCGAT
* *
36229815 TATGAAAAGGGATGGTGACGACCATCAACTATGGAAAGGGATGGTGACGACCATCGAT
1 TATGAAAAGGGATGGTGACGACCATCGACTATGAAAAGGGATGGTGACGACCATCGAT
* * * * * *
36229873 TAATGAAAAGGGATAGCT-TCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
1 T-ATGAAAAGGGAT-GGTGACGACCATCGACTATGAAAAGGGATGGTGACGACCATCGAT
* * * * *
36229932 TATGGAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATAGCT-TCGACTATCGAT
1 TATGAAAAGGGATGGTGACGACCATCGACT-ATGAAAAGGGAT-GGTGACGACCATCGAT
* *
36229991 TATGAAAAGGGATGGTGACGACCATCAACTATGGAAAGGGATGGTGACGACCATCGAT
1 TATGAAAAGGGATGGTGACGACCATCGACTATGAAAAGGGATGGTGACGACCATCGAT
** * * *
36230049 TAATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTTACAACCATC
1 T-ATGAAAAGGGATGGTGACGACCATCGACTATGAAAAGGGATGGTGACGACCATC
36230105 ATTTAGCACA
Statistics
Matches: 242, Mismatches: 40, Indels: 15
0.81 0.13 0.05
Matches are distributed among these distances:
57 6 0.02
58 91 0.38
59 141 0.58
60 4 0.02
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (58 bp):
TATGAAAAGGGATGGTGACGACCATCGACTATGAAAAGGGATGGTGACGACCATCGAT
Found at i:36239440 original size:49 final size:51
Alignment explanation
Indices: 36239314--36239465 Score: 175
Period size: 51 Copynumber: 3.0 Consensus size: 51
36239304 TCATCCATCC
* * * * * *
36239314 ATAACACCATTTGTAGACAAGTCACCACTGATTTGTAGATAAACTACCACTG
1 ATAACA-CTTTTGTGGACAAGCCACCACTGATTTGAACATATACTACCACTG
*
36239366 ATAACACTTTTGTGGACAAGCCACCACTGATATGAACATATACTACCACT-
1 ATAACACTTTTGTGGACAAGCCACCACTGATTTGAACATATACTACCACTG
* * *
36239416 ATTAA-A-TTTTGTGGACAAGCCACCACTGATTTGCATATATACTGCCACTG
1 A-TAACACTTTTGTGGACAAGCCACCACTGATTTGAACATATACTACCACTG
36239466 CTTCCCCCTT
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
49 39 0.45
50 2 0.02
51 40 0.46
52 6 0.07
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (51 bp):
ATAACACTTTTGTGGACAAGCCACCACTGATTTGAACATATACTACCACTG
Found at i:36250609 original size:934 final size:934
Alignment explanation
Indices: 36248802--36250642 Score: 2530
Period size: 934 Copynumber: 2.0 Consensus size: 934
36248792 AGGGACGCGA
* * * *
36248802 CCGTGTGACCCCTACAGTTAAACTTTTCTAACTTTCTTCTTGAACTTTTCAAATGTTTCCAATTT
1 CCGTGTGACCCCTACAATTAAACTTTTCTAACTTTCTTCTTAAACTTTCCAAAAGTTTCCAATTT
*
36248867 AGTCCCAAATTGTTTCTAATGTATTTCTAGGTCTCGAAAGCTCGATTTAGGGACGATATGTATAA
66 ACTCCCAAATTGTTTCTAATGTATTTCTAGGTCTCGAAAGCTCGATTTAGGGACGATATGTATAA
* * * *
36248932 GAGTGGATGCATTATGATATATTTTCAATGATGTATGAAATGTATGTTCTAATGTTTCATTTGTA
131 GAGTGAATGAATTATGATATATTTTCAATGATGTATGAAACGTATGTTCTAATGTTTCACTTGTA
* ** * * * * *
36248997 TGATAATACTTTGTAACCCTAATCTGGCGATGTATACGGGTTAGGGGTGCTACAAATTAGGTTAT
196 CGATAATACTTTGTAACCCTAATCCAGCGACGGATACGGGGTAGGGGTGCTACAAATTAAGATAT
* * *
36249062 ATATATTCAGGCTAGAGAAAGGGAGAGGTTGTCTTCTTCCTTCTTCAGAAGTATTGTTATTTGAA
261 ATATATTCACGCTAGAGAAAGGGAGAGGTTGTCTTCTTCCTTCTTAAGAAGTACTGTTATTTGAA
* * *
36249127 TCTTAAGGAACGGACAACATTTCTTTATCCTTTAAGTTGAAGTTGAAATTCTTCATTTTATCAAT
326 TCTTAAGGAACGAACAACATTTCTCTATCCTATAAGTTGAAGTTGAAATTCTTCATTTTATCAAT
* * * * *
36249192 AATTACTCTAAGTGAAGGTAAGTTTGACGACTCTGTTTGTTAAATTTATGAATGATTAAGTCTAT
391 AATTACTCTAAGTGAAGGTAAGTTTGACGACTCTATATCTTAAAGTTATGAAAGATTAAGTCTAT
*
36249257 AAGAGTGCATGAAGAATAAAAAGAAGAAGCAAGACTTTGCATGAGGGTTATCTAGGTTCGAGATG
456 AAGAATGCATGAAGAATAAAAAGAAGAAGCAAGACTTTGCATGAGGGTTATCTAGGTTCGAGATG
* * *
36249322 ATGGTAAAGGTTATACGAATGATTTTTAATGATTGCTTTAGAAAGTATCTATGGTCACTTTTGAT
521 ATGGTAAAGGTTATACAAATGAGTTTTAATGATTGCTTTAGAAAGTACCTATGGTCACTTTTGAT
* ** * * *
36249387 AATGGATGATAAGGGTTTATTAGTATCATTTAATGGTTTGTGTCATTAAGCTACCTTACGTTGTA
586 AATGGATGAGAACAGTTTATTAGTACCATTGAATGGTTTGTGTCATTAAGCTACCTTACGTTGCA
* * * * *
36249452 TGTTTAGTAAGTTCTTGGAATTAGTAGATGATCGATGGTAAGTGGTAAAATTTACATGATTAGGT
651 CGCTTAGCAAGTTCTTAGAAATAGTAGATGATCGATGGTAAGTGGTAAAATTTACATGATTAGGT
* * * * * * *
36249517 AGGTTTTGGTGATTGCAATTGACGTTCCTTAAATGGCATATTGATTAGTTAATTTAGGACTCTTG
716 AGGGTTTGGGGATCGCAATTGACGTGCCTTAAATGACATATGGACTAGTTAATTTAGGACTCTTG
*
36249582 AATTGGTATTTATATGTATGTTTTGATAGGGTCTTCTTGCTTCGAATATGTGCACAATTAGCCTA
781 AATTGGTATTTATATGTATGTTTTGATAGGGTCTTCTTCCTTCGAATATGTGCACAATTAGCCTA
* * *
36249647 AAGAGACTTGCATGAGTTAGTGTTGGAAATGGCTT-AATTTTGGGGC-AATTCATGTCCACACGA
846 AAGAGACTAGCATCAGTTAGTGTTGGAAATGGCTTGAA-TTT-GGGCAAATTAATGTCCACACGA
36249710 TCTAAGACACGGGCCTAGCCACAAGG
909 TCTAAGACACGGGCCTAGCCACAAGG
* *
36249736 CCGTGTGATCCCTACAATTAAATTTTTCTAACTTT-TCTCTTAAACTTTCCAAAAGTTTCCAATT
1 CCGTGTGACCCCTACAATTAAACTTTTCTAACTTTCT-TCTTAAACTTTCCAAAAGTTTCCAATT
** * *
36249800 TACTCTGAAATTGTTTCTAATGTATTTCTAGGTCTCGAAGGCTCGATTTAGGGATGATATGTATA
65 TACTCCCAAATTGTTTCTAATGTATTTCTAGGTCTCGAAAGCTCGATTTAGGGACGATATGTATA
* * * * **
36249865 AGAGTGAATGAATTATTATATGTTTTCAGTGATGTATGAAACGTATGTTTTAATGTTTTGCTTGT
130 AGAGTGAATGAATTATGATATATTTTCAATGATGTATGAAACGTATGTTCTAATGTTTCACTTGT
* * ** *
36249930 ACGATAATGCTTTGTAACCCTAATCCAGCGACGGATACGGGGTAGGGGTGTTGGAACTTAAGATA
195 ACGATAATACTTTGTAACCCTAATCCAGCGACGGATACGGGGTAGGGGTGCTACAAATTAAGATA
* * *
36249995 TATATATTGACGCTAGAGAAAGGGAGA-GTTGTTCTTCTTTCTTCTTAAGAAGTGCTGTTATTTG
260 TATATATTCACGCTAGAGAAAGGGAGAGGTTG-TCTTCTTCCTTCTTAAGAAGTACTGTTATTTG
* *
36250059 AATCTTAAGGAACGAACAACATTTCTCTCTCCTATAAGTTGAAGTTGATATTCTTCATTTTATCA
324 AATCTTAAGGAACGAACAACATTTCTCTATCCTATAAGTTGAAGTTGAAATTCTTCATTTTATCA
* * * * *
36250124 ATAATTACTCTATGTGAAGGTAAGTTTTATGAGTCTATATCTTAAAGTTATGAAAGATTAATTCT
389 ATAATTACTCTAAGTGAAGGTAAGTTTGACGACTCTATATCTTAAAGTTATGAAAGATTAAGTCT
* * * * *
36250189 ATAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGA-A
454 ATAAGAATGCATGAAGAATAAAAAGAAGAAGCAAGACTTTGCATGAGGGTTATCTAGGTTCGAGA
*
36250253 TTGATGGTAAAGGTTATACAAATGAGTTTTAATGA-TGTCTTTGGAAAGTACCTATGGTCACTTT
519 -TGATGGTAAAGGTTATACAAATGAGTTTTAATGATTG-CTTTAGAAAGTACCTATGGTCACTTT
*** * * * * *
36250317 TGATAATTTTTTAGAACAGTTTATTAGTACCATTGGATGGTTTGTGTCATTGAGCTACTTTATGT
582 TGATAATGGATGAGAACAGTTTATTAGTACCATTGAATGGTTTGTGTCATTAAGCTACCTTACGT
* * *
36250382 TGCACGCTTAGCAAGTTCTTAGAAATAGTAGTTGAT-GAATGGTAAGTGGTAAATTTTGCATGAT
647 TGCACGCTTAGCAAGTTCTTAGAAATAGTAGATGATCG-ATGGTAAGTGGTAAAATTTACATGAT
* * * *
36250446 TAGGTAGGGTTTGGGGATCGCAATTGAGGTGCCTTGAATGACATATGGGCTAGTTCATTTAGGAC
711 TAGGTAGGGTTTGGGGATCGCAATTGACGTGCCTTAAATGACATATGGACTAGTTAATTTAGGAC
* * * *
36250511 TCTTGAATTGGTATTTATATGTATGTTTTGATAGGTTCTTGTTCCCTT-GAGTATGTGTACAATT
776 TCTTGAATTGGTATTTATATGTATGTTTTGATAGGGTCTTCTT-CCTTCGAATATGTGCACAATT
* * * * * *
36250575 GGCCTCAAGGGTC-AGACGTCAGTTAGTGTTGGAAATTGCTTGAATTTGGGCAAATTAATGTCCA
840 AGCCTAAAGAGACTAG-CATCAGTTAGTGTTGGAAATGGCTTGAATTTGGGCAAATTAATGTCCA
36250639 CACG
904 CACG
36250643 GCCTCAGACA
Statistics
Matches: 786, Mismatches: 112, Indels: 18
0.86 0.12 0.02
Matches are distributed among these distances:
933 14 0.02
934 767 0.98
935 5 0.01
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (934 bp):
CCGTGTGACCCCTACAATTAAACTTTTCTAACTTTCTTCTTAAACTTTCCAAAAGTTTCCAATTT
ACTCCCAAATTGTTTCTAATGTATTTCTAGGTCTCGAAAGCTCGATTTAGGGACGATATGTATAA
GAGTGAATGAATTATGATATATTTTCAATGATGTATGAAACGTATGTTCTAATGTTTCACTTGTA
CGATAATACTTTGTAACCCTAATCCAGCGACGGATACGGGGTAGGGGTGCTACAAATTAAGATAT
ATATATTCACGCTAGAGAAAGGGAGAGGTTGTCTTCTTCCTTCTTAAGAAGTACTGTTATTTGAA
TCTTAAGGAACGAACAACATTTCTCTATCCTATAAGTTGAAGTTGAAATTCTTCATTTTATCAAT
AATTACTCTAAGTGAAGGTAAGTTTGACGACTCTATATCTTAAAGTTATGAAAGATTAAGTCTAT
AAGAATGCATGAAGAATAAAAAGAAGAAGCAAGACTTTGCATGAGGGTTATCTAGGTTCGAGATG
ATGGTAAAGGTTATACAAATGAGTTTTAATGATTGCTTTAGAAAGTACCTATGGTCACTTTTGAT
AATGGATGAGAACAGTTTATTAGTACCATTGAATGGTTTGTGTCATTAAGCTACCTTACGTTGCA
CGCTTAGCAAGTTCTTAGAAATAGTAGATGATCGATGGTAAGTGGTAAAATTTACATGATTAGGT
AGGGTTTGGGGATCGCAATTGACGTGCCTTAAATGACATATGGACTAGTTAATTTAGGACTCTTG
AATTGGTATTTATATGTATGTTTTGATAGGGTCTTCTTCCTTCGAATATGTGCACAATTAGCCTA
AAGAGACTAGCATCAGTTAGTGTTGGAAATGGCTTGAATTTGGGCAAATTAATGTCCACACGATC
TAAGACACGGGCCTAGCCACAAGG
Found at i:36252626 original size:70 final size:70
Alignment explanation
Indices: 36252543--36252685 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
36252533 ATTAATTCTA
36252543 TAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGAATT
1 TAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGAATT
36252608 GATGG
66 GATGG
36252613 TAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGAATT
1 TAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGAATT
36252678 GATGG
66 GATGG
36252683 TAA
1 TAA
36252686 AGGTTATACA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.30
Consensus pattern (70 bp):
TAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGAATT
GATGG
Found at i:36262235 original size:70 final size:70
Alignment explanation
Indices: 36262122--36262264 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
36262112 TTTAATGGTA
36262122 TAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGAATT
1 TAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGAATT
36262187 GATGG
66 GATGG
36262192 TAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGAATT
1 TAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGAATT
36262257 GATGG
66 GATGG
36262262 TAA
1 TAA
36262265 AGGTTATACA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.30
Consensus pattern (70 bp):
TAAGAATGTATGAAGAATAAAATGAAGAAGTAAGACTTTGGATGAGGGTTATCTAGGTTTGAATT
GATGG
Found at i:36263484 original size:12 final size:12
Alignment explanation
Indices: 36263467--36263492 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36263457 TTAATTCTAT
36263467 AAGAATAAAATG
1 AAGAATAAAATG
36263479 AAGAATAAAATG
1 AAGAATAAAATG
36263491 AA
1 AA
36263493 AAAGTATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (12 bp):
AAGAATAAAATG
Found at i:36267534 original size:468 final size:469
Alignment explanation
Indices: 36266638--36267579 Score: 1298
Period size: 468 Copynumber: 2.0 Consensus size: 469
36266628 CTATTAATGT
* *
36266638 CACAAGTGAATAAACCCCATAAACTGATTCAGGATCTATTCTACATGGGTCCAATCTGATATATT
1 CACAAGTGAATAAACCCCATAAACTGATTCAGGATCTATTCTACATGGGTCCAATCTAATATACT
* * * *
36266703 GTTAGTCTAGTCAATCACATCTATGTCTCTATCTTCTCGGAGTCATCTGTTCTGATGCCTAAGAC
66 GTTAGTCCAGTCAATCACATCTATGTCTCTATCTTCTCGAAGTCATCTGCTCTGATGCCCAAGAC
* * *
36266768 GAAGCATCTCCCTAATTGGACATGATAGAGGGTATATTAGTCTTTCAATCGGTTTGCTCATTTTC
131 AAAACATCTCCCTAATTAGACATGATAGAGGGTATATTAGTCTTTCAATCGGTTTGCTCATTTTC
* * **
36266833 GATTAGACAAAGGACATGTTTAGGTTCGCCTACTAGTATAAGTTGTCTTTCCATATTATGATCCA
196 GATTAGACAAAGGACATGTTTAGGTTCACCTACTAGTATAAGTTGTCTTTCCATATAACAATCCA
* * *
36266898 ACCATGTAATATCGCTTAGTATTAGCTAAACATTAGACAACTAGTGAGCTAATATTTGCTTTTAT
261 ACCACGTAATATCGCTTAATATTAGCTAAACATTAGACAACCAGTGAGCTAATATTTGCTTTTAT
* * *
36266963 TTTGTTTTACATGCAAAATCCACAAGAGGACAGTATACAAAGAATATTAATGAAATTCATGAATA
326 TTTGCTTTACATGCAAAATCCACAAGAGGACAGTATACAAAGAATACTAATGAAATTCATAAATA
* ** * * * *
36267028 ATTTTATTAACCAATTTGTTCGAGAAAATTACAAGTATACGAACGAATATACTATAATTAGCATA
391 ATTTTATTAACCAATCTGTTAAAAAAAATTACAAGTATACAAACGAATATACTACAATTAGCACA
36267093 CCAAATCCAATAGA
456 CCAAATCCAATAGA
* * * * *
36267107 CACAAGTGAATAAA-CCCATAAACTGATTCAGGATGTATTCTTCTTGGGTCCAGT-TCAATTTAC
1 CACAAGTGAATAAACCCCATAAACTGATTCAGGATCTATTCTACATGGGTCCAATCT-AATATAC
* * * *
36267170 TGTTAGTCCAGTTAGTCACATCTATGTCTCTGTCTTGTCGAAGTCATCTGCTCTGATGCCCAAGA
65 TGTTAGTCCAGTCAATCACATCTATGTCTCTATCTTCTCGAAGTCATCTGCTCTGATGCCCAAGA
* * * *
36267235 TAAAACATCTCCCTAATTAGACTTGATAGATGGTATATTAGTCTTTCAATTGGTTTGCTCA-TTT
130 CAAAACATCTCCCTAATTAGACATGATAGAGGGTATATTAGTCTTTCAATCGGTTTGCTCATTTT
* * * *
36267299 CTGATTAGACTAATGACATGTTTAGGTTCATCTACTAGTATAAGTTGTCTTTCCATATAACAATT
195 C-GATTAGACAAAGGACATGTTTAGGTTCACCTACTAGTATAAGTTGTCTTTCCATATAACAATC
** * * *
36267364 TGACTACGTAATATTGCTTAATATTAGTTAAACATTAGACAACCAGTGAGCTAATATTTG-TTTC
259 CAACCACGTAATATCGCTTAATATTAGCTAAACATTAGACAACCAGTGAGCTAATATTTGCTTT-
* * * * *
36267428 TATTTTGCTTTACATGCAAAGTCCACATGATGACATTATACAAAGAATACTAATGAAATTTATAA
323 TATTTTGCTTTACATGCAAAATCCACAAGAGGACAGTATACAAAGAATACTAATGAAATTCATAA
* * *
36267493 ATAATTTTATTAACCAATCTGTTAAAAAAAATTATAAGTATACAAATGAATATACTACAATTAGG
388 ATAATTTTATTAACCAATCTGTTAAAAAAAATTACAAGTATACAAACGAATATACTACAATTAGC
* * *
36267558 GCACCAGATCCAATTGA
453 ACACCAAATCCAATAGA
36267575 CACAA
1 CACAA
36267580 AAAAATGTTA
Statistics
Matches: 411, Mismatches: 59, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
467 8 0.02
468 389 0.95
469 14 0.03
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (469 bp):
CACAAGTGAATAAACCCCATAAACTGATTCAGGATCTATTCTACATGGGTCCAATCTAATATACT
GTTAGTCCAGTCAATCACATCTATGTCTCTATCTTCTCGAAGTCATCTGCTCTGATGCCCAAGAC
AAAACATCTCCCTAATTAGACATGATAGAGGGTATATTAGTCTTTCAATCGGTTTGCTCATTTTC
GATTAGACAAAGGACATGTTTAGGTTCACCTACTAGTATAAGTTGTCTTTCCATATAACAATCCA
ACCACGTAATATCGCTTAATATTAGCTAAACATTAGACAACCAGTGAGCTAATATTTGCTTTTAT
TTTGCTTTACATGCAAAATCCACAAGAGGACAGTATACAAAGAATACTAATGAAATTCATAAATA
ATTTTATTAACCAATCTGTTAAAAAAAATTACAAGTATACAAACGAATATACTACAATTAGCACA
CCAAATCCAATAGA
Found at i:36279345 original size:15 final size:16
Alignment explanation
Indices: 36279316--36279345 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36279306 CAAACATGCT
36279316 TTAACACATTATCAAA
1 TTAACACATTATCAAA
36279332 TTAACACA-TATCAA
1 TTAACACATTATCAA
36279346 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:36287627 original size:23 final size:23
Alignment explanation
Indices: 36287597--36287641 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
36287587 TGTTATGGAC
36287597 GAACTCATTTAAACCATGTATAT
1 GAACTCATTTAAACCATGTATAT
36287620 GAACTCATTTAAACCATGTATA
1 GAACTCATTTAAACCATGTATA
36287642 AATGTACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (23 bp):
GAACTCATTTAAACCATGTATAT
Found at i:36297953 original size:16 final size:17
Alignment explanation
Indices: 36297932--36297967 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
36297922 TCAATCATCC
36297932 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
36297948 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
36297965 CTC
1 CTC
36297968 TCAACACTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:36319818 original size:27 final size:27
Alignment explanation
Indices: 36319788--36319885 Score: 142
Period size: 27 Copynumber: 3.6 Consensus size: 27
36319778 CTTATTTGTG
* *
36319788 AACACAGTTCTCCAAAACACATCTGCA
1 AACATAGTTCACCAAAACACATCTGCA
** *
36319815 AACATAGTTCACCAAGTCACACCTGCA
1 AACATAGTTCACCAAAACACATCTGCA
*
36319842 AACTTAGTTCACCAAAACACATCTGCA
1 AACATAGTTCACCAAAACACATCTGCA
36319869 AACATAGTTCACCAAAA
1 AACATAGTTCACCAAAA
36319886 GTATCTGTCA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (27 bp):
AACATAGTTCACCAAAACACATCTGCA
Found at i:36323465 original size:54 final size:54
Alignment explanation
Indices: 36323407--36323516 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 54
36323397 TCTGGTAAGG
* *
36323407 TATCTTTCT-GAGAGG-ATTTCGATTAGTATAATTAATTAAAATTCGTGTTTATTA
1 TATCTTTCTAG-GAGGAATTT-GATTAGTATAATTAATCAAAATTCATGTTTATTA
* *
36323461 TATCTTTCTAGGAGGAATTTTATTAGTATAGTTAATCAAAATTCATGTTTATTA
1 TATCTTTCTAGGAGGAATTTGATTAGTATAATTAATCAAAATTCATGTTTATTA
36323515 TA
1 TA
36323517 ACATTGGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 45 0.90
55 5 0.10
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (54 bp):
TATCTTTCTAGGAGGAATTTGATTAGTATAATTAATCAAAATTCATGTTTATTA
Found at i:36327047 original size:19 final size:18
Alignment explanation
Indices: 36327018--36327062 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
36327008 ATAATATATA
*
36327018 AATAAAATTAATTTATTT
1 AATAAAATTAATTAATTT
36327036 AATAATAATTAATTAATTT
1 AATAA-AATTAATTAATTT
*
36327055 AATCAAAT
1 AATAAAAT
36327063 CCTTATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAAAATTAATTAATTT
Found at i:36328948 original size:35 final size:36
Alignment explanation
Indices: 36328900--36328976 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 36
36328890 ATTTGTTAGA
*
36328900 TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
*
36328936 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAAAT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
36328971 TATTGA
1 TATTGA
36328977 CAATGACAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.27, C:0.04, G:0.17, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
Found at i:36330296 original size:14 final size:15
Alignment explanation
Indices: 36330274--36330350 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
36330264 CAATCAAACA
36330274 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
36330288 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
36330303 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
36330323 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
36330337 CCGGAAAA-CATTTT
1 CCAGAAAATCATTTT
36330351 ACTGCCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 23 0.45
15 14 0.27
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:36330315 original size:20 final size:20
Alignment explanation
Indices: 36330290--36330329 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36330280 AATATTTTCC
*
36330290 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
36330310 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
36330330 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:36344595 original size:10 final size:10
Alignment explanation
Indices: 36344580--36344609 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
36344570 AACAAATATA
36344580 AATCACATTT
1 AATCACATTT
*
36344590 AATCACATTC
1 AATCACATTT
36344600 AATCACATTT
1 AATCACATTT
36344610 TATGATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (10 bp):
AATCACATTT
Found at i:36358935 original size:21 final size:21
Alignment explanation
Indices: 36358909--36358956 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
36358899 ATTGTTTAAA
*
36358909 AGGAAGTTGC-TGCTGCAGAAG
1 AGGAAGTT-CTTGCTGAAGAAG
36358930 AGGAAGTTCTTGCTGAAGAAG
1 AGGAAGTTCTTGCTGAAGAAG
*
36358951 AAGAAG
1 AGGAAG
36358957 AAGCTGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.35, C:0.10, G:0.35, T:0.19
Consensus pattern (21 bp):
AGGAAGTTCTTGCTGAAGAAG
Found at i:36366158 original size:12 final size:13
Alignment explanation
Indices: 36366141--36366189 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
36366131 AATGTAAACT
36366141 AATTTTTTTTT-G
1 AATTTTTTTTTCG
36366153 AATTTTTTTTTTCG
1 AA-TTTTTTTTTCG
*
36366167 AATTTTTTTTTCA
1 AATTTTTTTTTCG
36366180 AATTTTTTTT
1 AATTTTTTTT
36366190 CAAAGAAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 2 0.06
13 29 0.85
14 3 0.09
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (13 bp):
AATTTTTTTTTCG
Found at i:36366190 original size:12 final size:12
Alignment explanation
Indices: 36366157--36366193 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
36366147 TTTTTGAATT
*
36366157 TTTTTTTTCGAAT
1 TTTTTTTTC-AAA
36366170 TTTTTTTTCAAA
1 TTTTTTTTCAAA
36366182 TTTTTTTTCAAA
1 TTTTTTTTCAAA
36366194 GAAACTACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:36368645 original size:6 final size:6
Alignment explanation
Indices: 36368634--36368660 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
36368624 GTTGAAACCA
36368634 TTCCTT TTCCTT TTCCTT TTCCTT TTC
1 TTCCTT TTCCTT TTCCTT TTCCTT TTC
36368661 ATAGATGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TTCCTT
Found at i:36372140 original size:66 final size:65
Alignment explanation
Indices: 36372012--36372140 Score: 186
Period size: 66 Copynumber: 2.0 Consensus size: 65
36372002 ACACCAAATA
** * *
36372012 GACTCATAGAGTCAAACATGTCCCATAAGTGAAGCATAAAGCTAACACTCTCCAAGACAACAATT
1 GACTCATAGAGTCAAACAACTCCCAAAAGTGAAGCATAAAGCTAACACTCTCCAACACAACAATT
** *
36372077 GACTCATAGAGTTGAACAACTCCCAAAAAGTGAAGCATAAAGCTAACACTCTCCAACATAACAA
1 GACTCATAGAGTCAAACAACTCCC-AAAAGTGAAGCATAAAGCTAACACTCTCCAACACAACAA
36372141 ACACGTCCTG
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
65 20 0.36
66 36 0.64
ACGTcount: A:0.43, C:0.25, G:0.13, T:0.19
Consensus pattern (65 bp):
GACTCATAGAGTCAAACAACTCCCAAAAGTGAAGCATAAAGCTAACACTCTCCAACACAACAATT
Found at i:36377847 original size:14 final size:15
Alignment explanation
Indices: 36377824--36377857 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
36377814 AATTTAGTTG
*
36377824 ATAAAGAAAA-TAAA
1 ATAAACAAAAGTAAA
36377838 ATAAACAAAAGTAAA
1 ATAAACAAAAGTAAA
36377853 ATAAA
1 ATAAA
36377858 ATATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (15 bp):
ATAAACAAAAGTAAA
Found at i:36381529 original size:36 final size:35
Alignment explanation
Indices: 36381482--36381588 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 35
36381472 TGAAGTCTCG
36381482 ATTGCACTAGCTCGATCTCTATGGGATCTTCAGCCA
1 ATTGCACTAGCTCGATCTCT-TGGGATCTTCAGCCA
* *
36381518 ATTGCACTAGCTCGATTGCACCTTCCAGGGA-CTTCAGCCG
1 ATTGCACTAGCTCGA-T-C-TCTT---GGGATCTTCAGCCA
36381558 ATTGCACTAGCTCGATCTCTGTGGGATCTTC
1 ATTGCACTAGCTCGATCTCT-TGGGATCTTC
36381589 TACTTACTGT
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
35 4 0.07
36 19 0.32
37 3 0.05
38 4 0.07
39 3 0.05
40 23 0.38
41 4 0.07
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (35 bp):
ATTGCACTAGCTCGATCTCTTGGGATCTTCAGCCA
Found at i:36383109 original size:28 final size:28
Alignment explanation
Indices: 36383041--36383190 Score: 158
Period size: 28 Copynumber: 5.2 Consensus size: 28
36383031 AGTGACAGTA
* *
36383041 CAGTGTGGGCCTCAGCCCAATATAGTAATAGT
1 CAGTGTGGGCCTTAGCCCAATACAG--A-A-T
*
36383073 ACAGTGTGGGCCTTAGCCCAATACTGAAT
1 -CAGTGTGGGCCTTAGCCCAATACAGAAT
* * *
36383102 CAATGTGGGCCTTAGCCCATTGCAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
** *
36383130 TGGTGTGGGCCTTATCCCAATACAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
36383158 CAGTGTGGGCCTTAGCCCAATACAGTAAT
1 CAGTGTGGGCCTTAGCCCAATACAG-AAT
36383187 -AGTG
1 CAGTG
36383191 CAGTGCAATA
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
28 72 0.72
29 4 0.04
30 1 0.01
31 1 0.01
33 22 0.22
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACAGAAT
Found at i:36383348 original size:26 final size:26
Alignment explanation
Indices: 36383287--36383355 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
36383277 CAGCCAACAC
*
36383287 ACCAATATCGCAGCAAAGCGGCCAGT
1 ACCAGTATCGCAGCAAAGCGGCCAGT
** * * *
36383313 AATAGCATCGCAGCAGAGCTGCCAGT
1 ACCAGTATCGCAGCAAAGCGGCCAGT
*
36383339 ACCAGTATCGGAGCAAA
1 ACCAGTATCGCAGCAAA
36383356 AACTACCAGT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.28, G:0.25, T:0.13
Consensus pattern (26 bp):
ACCAGTATCGCAGCAAAGCGGCCAGT
Found at i:36383655 original size:27 final size:27
Alignment explanation
Indices: 36383606--36383931 Score: 301
Period size: 27 Copynumber: 12.3 Consensus size: 27
36383596 GGGTATAACA
* *
36383606 GTCATTTTACCCTGTAAGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
36383633 GTCATTTTACCCTAT-GGGAGTATTTCG
1 GTCATTTTACCCTATAGGG-GTATTTCG
36383660 GTCATTTTA--CTATACGGGGGTATTTCG
1 GTCATTTTACCCTATA--GGGGTATTTCG
* *
36383687 GTCATTTTACCTTATAAGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
36383714 GTCATTCTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
36383741 GTTATTTTACCTTATAGGGGTGTTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* **
36383768 GTCATTTTACCTTACGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
36383795 GTTATTTTACCC--T---GGAATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* **
36383817 GTTATTTTACCCTACGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * * * *
36383844 GTTATTTTATCCTATGGGGGGAATTTTG
1 GTCATTTTACCCTAT-AGGGGTATTTCG
* * * *
36383872 ATTATTTTACCTTATAGGGATATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
36383899 GTCATTTTATCCTATA-GGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
36383925 ATCATTT
1 GTCATTT
36383932 ATCAACCTCT
Statistics
Matches: 247, Mismatches: 40, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
22 19 0.08
25 4 0.02
26 17 0.07
27 178 0.72
28 25 0.10
29 4 0.02
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:36388413 original size:50 final size:53
Alignment explanation
Indices: 36388299--36388434 Score: 170
Period size: 56 Copynumber: 2.6 Consensus size: 53
36388289 GGTAAAAAGA
* **
36388299 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCC-T--GATCATGAGAAC
*
36388355 TCCAATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC-GAT-ATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCTGATCATGAGAAC
* *
36388405 TCCCATGTAAGACCATATCTAGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
36388435 TTTGGCATGT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
50 33 0.45
51 3 0.04
55 2 0.03
56 35 0.48
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (53 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCTGATCATGAGAAC
Found at i:36396786 original size:50 final size:50
Alignment explanation
Indices: 36396684--36396969 Score: 270
Period size: 50 Copynumber: 5.6 Consensus size: 50
36396674 CTATCACCAC
* *
36396684 GTAAGACCATGTCTGGGGCATGGCATTGGCATCCTTGAGATCATGAGAGGTCCAAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGGTCCCAT
*
36396740 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAT
* * * **
36396790 GTAAGACAATGTCTGGGACATGGCGTTAGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAT
* * ** * ** *
36396840 GTAAGACTATGTCTGGGACATGGCATGGGCACTAATATGAGAACTCTCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAT
* * * * * * **
36396890 GTAAGACCATATCTGGGATATGACATTGGTA--GTACATGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCCCAT
*
36396939 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
36396970 TGTTATTGTC
Statistics
Matches: 191, Mismatches: 38, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
49 37 0.19
50 119 0.62
53 3 0.02
55 2 0.01
56 30 0.16
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAT
Found at i:36407964 original size:24 final size:23
Alignment explanation
Indices: 36407936--36407980 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
36407926 TCGAATTTCC
* *
36407936 TTGATTTTCTCCCCAATCTCCTCA
1 TTGATTTGCTCCACAAT-TCCTCA
36407960 TTGATTTGCTCCACAATTCCT
1 TTGATTTGCTCCACAATTCCT
36407981 TCCAAAGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.18, C:0.33, G:0.07, T:0.42
Consensus pattern (23 bp):
TTGATTTGCTCCACAATTCCTCA
Found at i:36410086 original size:19 final size:20
Alignment explanation
Indices: 36410054--36410091 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
36410044 CAAGCAGACT
36410054 TTAGCTCAATTTCAGCTCCC
1 TTAGCTCAATTTCAGCTCCC
36410074 TTAGCTC-ATTTCAGCTCC
1 TTAGCTCAATTTCAGCTCC
36410092 AATCAGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.34, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGCTCAATTTCAGCTCCC
Found at i:36410099 original size:20 final size:19
Alignment explanation
Indices: 36410056--36410101 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
36410046 AGCAGACTTT
* *
36410056 AGCTCAATTTCAGCTCCCTT
1 AGCTC-ATTTCAGCTCCATC
36410076 AGCTCATTTCAGCTCCAATC
1 AGCTCATTTCAGCTCC-ATC
36410096 AGCTCA
1 AGCTCA
36410102 CTTGAGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.30
Consensus pattern (19 bp):
AGCTCATTTCAGCTCCATC
Found at i:36412506 original size:5 final size:6
Alignment explanation
Indices: 36412490--36412562 Score: 51
Period size: 6 Copynumber: 11.7 Consensus size: 6
36412480 AACAGCATGT
** *
36412490 GAAAAA GAAAAA GAAAAA GAAATAA -AAAAA GTGATA GAAAAA GAAATCGAA
1 GAAAAA GAAAAA GAAAAA GAAA-AA GAAAAA GAAAAA GAAAAA GAAA---AA
*
36412541 G-AAAA GAAAATT GAAAAA GAAA
1 GAAAAA GAAAA-A GAAAAA GAAA
36412563 TTGAAATTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
5 5 0.10
6 35 0.67
7 7 0.13
8 2 0.04
9 3 0.06
ACGTcount: A:0.73, C:0.01, G:0.18, T:0.08
Consensus pattern (6 bp):
GAAAAA
Found at i:36412563 original size:12 final size:12
Alignment explanation
Indices: 36412490--36412568 Score: 68
Period size: 12 Copynumber: 6.3 Consensus size: 12
36412480 AACAGCATGT
*
36412490 GAAAAAGAAAAA
1 GAAAAAGAAATA
36412502 GAAAAAGAAATA
1 GAAAAAGAAATA
* **
36412514 AAAAAAGTGATA
1 GAAAAAGAAATA
*
36412526 GAAAAAGAAATC
1 GAAAAAGAAATA
*
36412538 GAAGAAAAGAAAATT
1 G-A-AAAAG-AAATA
*
36412553 GAAAAAGAAATT
1 GAAAAAGAAATA
36412565 GAAA
1 GAAA
36412569 TTGAGAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
12 38 0.69
13 6 0.11
14 6 0.11
15 5 0.09
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (12 bp):
GAAAAAGAAATA
Found at i:36412569 original size:18 final size:18
Alignment explanation
Indices: 36412548--36412586 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36412538 GAAGAAAAGA
36412548 AAATTGA-AAAAGAAATTG
1 AAATTGAGAAAA-AAATTG
*
36412566 AAATTGAGAAAAAATTTG
1 AAATTGAGAAAAAAATTG
36412584 AAA
1 AAA
36412587 AATAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
AAATTGAGAAAAAAATTG
Found at i:36414725 original size:19 final size:20
Alignment explanation
Indices: 36414693--36414730 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
36414683 CAAGTTGAAT
36414693 TTAGCTCAATTTCAGCTCCC
1 TTAGCTCAATTTCAGCTCCC
36414713 TTAGCTC-ATTTCAGCTCC
1 TTAGCTCAATTTCAGCTCC
36414731 AATCAGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.34, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGCTCAATTTCAGCTCCC
Found at i:36414738 original size:20 final size:19
Alignment explanation
Indices: 36414695--36414740 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
36414685 AGTTGAATTT
* *
36414695 AGCTCAATTTCAGCTCCCTT
1 AGCTC-ATTTCAGCTCCATC
36414715 AGCTCATTTCAGCTCCAATC
1 AGCTCATTTCAGCTCC-ATC
36414735 AGCTCA
1 AGCTCA
36414741 CTTGAGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.30
Consensus pattern (19 bp):
AGCTCATTTCAGCTCCATC
Found at i:36416152 original size:51 final size:51
Alignment explanation
Indices: 36416014--36416188 Score: 176
Period size: 51 Copynumber: 3.5 Consensus size: 51
36416004 GGATCACGTT
* * * *
36416014 TGTGTAGTCCTATGTGCAGGCTACTACGTGTACCGGA-A-TGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAAT-GATCACA
* * * * * *
36416064 TGTGTAGTACTATATGCAGGCTTCTATGCGTACCGGATAGT-TTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAAT-GATCACA
* * * * *
36416115 TGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGTCATA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATGATCACA
36416166 TGTGTAGTACTATGTGCAGGCTA
1 TGTGTAGTACTATGTGCAGGCTA
36416189 ATATGTGAAC
Statistics
Matches: 100, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
50 32 0.32
51 66 0.66
52 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.33
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATGATCACA
Found at i:36416267 original size:45 final size:45
Alignment explanation
Indices: 36416197--36416291 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
36416187 TAATATGTGA
* * *
36416197 ACCGAACATCATTGATTAGTTAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
36416242 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
36416287 ACCGA
1 ACCGA
36416292 GTATCTGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:36426979 original size:27 final size:27
Alignment explanation
Indices: 36426941--36427186 Score: 250
Period size: 27 Copynumber: 9.1 Consensus size: 27
36426931 ATTCGTGGGC
*
36426941 AAATGACTGAAATACCCCTAGAGGGTA
1 AAATGACCGAAATACCCCTAGAGGGTA
* *
36426968 AAATCACCGAAATACCCCTAGAAGGTA
1 AAATGACCGAAATACCCCTAGAGGGTA
* *
36426995 AAATGACCGAAATA-CCCTCACAGGTTA
1 AAATGACCGAAATACCCCT-AGAGGGTA
* *
36427022 AAATGATCGAAATACCCC-CGAAGGGTA
1 AAATGACCGAAATACCCCTAG-AGGGTA
* * *
36427049 AAATGATCGAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCCTAGAGGGTA
* *
36427076 AAATGACCGAAGTACCCC-CGAAGGGTA
1 AAATGACCGAAATACCCCTAG-AGGGTA
*
36427103 AAATGATCGAAATACCCCTAGAGGGTA
1 AAATGACCGAAATACCCCTAGAGGGTA
* * * *
36427130 AACTGATCG-AATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCCTAGAGGGTA
* *
36427156 AAATGACTGAAATA-CCCTCATAGGGTA
1 AAATGACCGAAATACCCCT-AGAGGGTA
36427183 AAAT
1 AAAT
36427187 AACTGTTATA
Statistics
Matches: 183, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
26 28 0.15
27 151 0.83
28 4 0.02
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCCTAGAGGGTA
Found at i:36427007 original size:54 final size:54
Alignment explanation
Indices: 36426941--36427186 Score: 277
Period size: 54 Copynumber: 4.6 Consensus size: 54
36426931 ATTCGTGGGC
* *
36426941 AAATGACTGAAATACCCCTAGAGGGTAAAATCACCGAAATACCCCTAGAA-GGTA
1 AAATGACCGAAATACCCCTAGAGGGTAAAATGACCGAAATACCCC-AGAAGGGTA
* * * *
36426995 AAATGACCGAAATA-CCCTCACAGGTTAAAATGATCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCCT-AGAGGGTAAAATGACCGAAATACCCCAGAAGGGTA
* * * * *
36427049 AAATGATCGAAATACCCCCAAAGGGTAAAATGACCGAAGTACCCCCGAAGGGTA
1 AAATGACCGAAATACCCCTAGAGGGTAAAATGACCGAAATACCCCAGAAGGGTA
* * *
36427103 AAATGATCGAAATACCCCTAGAGGGTAAACTGATCG-AATACCCCCA-AAGGGTA
1 AAATGACCGAAATACCCCTAGAGGGTAAAATGACCGAAATA-CCCCAGAAGGGTA
* *
36427156 AAATGACTGAAATA-CCCTCATAGGGTAAAAT
1 AAATGACCGAAATACCCCT-AGAGGGTAAAAT
36427187 AACTGTTATA
Statistics
Matches: 165, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
52 4 0.02
53 39 0.24
54 119 0.72
55 3 0.02
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (54 bp):
AAATGACCGAAATACCCCTAGAGGGTAAAATGACCGAAATACCCCAGAAGGGTA
Found at i:36427076 original size:81 final size:80
Alignment explanation
Indices: 36426941--36427186 Score: 329
Period size: 81 Copynumber: 3.0 Consensus size: 80
36426931 ATTCGTGGGC
* * *
36426941 AAATGA-CTGAAATACCCCTAGAGGGTAAAATCACCGAAATACCCCTAGAA-GGTAAAATGACCG
1 AAATGATC-GAAATACCCCTAGAGGGTAAAATGATCGAAATACCCCCA-AAGGGTAAAATGACCG
*
36427004 AAATACCCTCACAGGTTA
64 AAATACCCTCA-AGGGTA
*
36427022 AAATGATCGAAATACCCC-CGAAGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACCGA
1 AAATGATCGAAATACCCCTAG-AGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACCGA
* *
36427086 AGTACCCCCGAAGGGTA
65 AATACCCTC-AAGGGTA
* *
36427103 AAATGATCGAAATACCCCTAGAGGGTAAACTGATCG-AATACCCCCAAAGGGTAAAATGACTGAA
1 AAATGATCGAAATACCCCTAGAGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACCGAA
36427167 ATACCCTCATAGGGTA
66 ATACCCTCA-AGGGTA
36427183 AAAT
1 AAAT
36427187 AACTGTTATA
Statistics
Matches: 147, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
79 1 0.01
80 46 0.31
81 97 0.66
82 3 0.02
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (80 bp):
AAATGATCGAAATACCCCTAGAGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACCGAA
ATACCCTCAAGGGTA
Found at i:36427421 original size:26 final size:26
Alignment explanation
Indices: 36427388--36427461 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
36427378 ACATATACTG
* *
36427388 TTACTGGCAGCTTCGTTGCGATTCTA
1 TTACTGGCAGCTTTGCTGCGATTCTA
*
36427414 TTACTGGCAGCTTTGCTGCAATTCTA
1 TTACTGGCAGCTTTGCTGCGATTCTA
36427440 TTACTGGCAGCTTTGCTGCGAT
1 TTACTGGCAGCTTTGCTGCGAT
36427462 ATTGGTGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGATTCTA
Found at i:36427610 original size:28 final size:28
Alignment explanation
Indices: 36427570--36427652 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 28
36427560 ACTGTACTGG
36427570 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
36427598 TTACTGTATTGGGCTAAAGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
36427626 TTACTATTTTGGGCTAAGGCCTACACT
1 TTACTGTATTGGGCTAAGGCCCACACT
36427653 GTACTGTTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:36429984 original size:16 final size:16
Alignment explanation
Indices: 36429963--36429993 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36429953 CCTACACATT
36429963 CGCATATCATTTCACA
1 CGCATATCATTTCACA
36429979 CGCATATCATTTCAC
1 CGCATATCATTTCAC
36429994 CATAATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (16 bp):
CGCATATCATTTCACA
Found at i:36441536 original size:27 final size:27
Alignment explanation
Indices: 36441498--36441554 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
36441488 TGTAGAGAGT
36441498 AAGAAAATATATTGGGTACCATCCTTG
1 AAGAAAATATATTGGGTACCATCCTTG
36441525 AAGAAAATATATTGGGTACCATCCTTG
1 AAGAAAATATATTGGGTACCATCCTTG
36441552 AAG
1 AAG
36441555 CTTGTAGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (27 bp):
AAGAAAATATATTGGGTACCATCCTTG
Found at i:36443766 original size:15 final size:14
Alignment explanation
Indices: 36443746--36443779 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
36443736 CTGTTTTTAT
*
36443746 TTTATTTTATGTTTG
1 TTTATTTTAT-TTTC
36443761 TTTATTTTATTTTC
1 TTTATTTTATTTTC
36443775 TTTAT
1 TTTAT
36443780 CAACTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTATTTTATTTTC
Found at i:36445665 original size:46 final size:45
Alignment explanation
Indices: 36445599--36445851 Score: 301
Period size: 46 Copynumber: 5.5 Consensus size: 45
36445589 GAATCAAACA
36445599 AATAAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCAACATGAC-GAAAATG
* * *
36445645 AATATGACCATAGTTGAAAGAAACTATGGCATCATGACAGAAAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCAACATGAC-GAAAATG
*
36445691 AAT-AGCACCATAGTTGAAAGACACTATGGCAACATGATGGAAAATG
1 AATAAG-ACCATAGTTGAAAGACACTATGGCAACATGA-CGAAAATG
* * **
36445737 AATAAGACCATAGTTGAAAGACACAATGGAAACACAACGAAAAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCAACATGACG-AAAATG
** * * * * *
36445783 AATAAGGTCATGGTTGAAAGACACTATGGCACCAAGTCGAGAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCAACATGACGAAAATG
* *
36445828 AATAAGAACATGGTTGAAAGACAC
1 AATAAGACCATAGTTGAAAGACAC
36445852 CATGACATCA
Statistics
Matches: 179, Mismatches: 24, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
45 29 0.16
46 148 0.83
47 2 0.01
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (45 bp):
AATAAGACCATAGTTGAAAGACACTATGGCAACATGACGAAAATG
Found at i:36445674 original size:91 final size:92
Alignment explanation
Indices: 36445556--36445848 Score: 274
Period size: 92 Copynumber: 3.2 Consensus size: 92
36445546 TTCTATCGAG
* * ** **
36445556 TAAGATCATAGCTGAAAGACGCTATGGCATCACGA-ATCAAACAAATAAG-ACCATAGTTGAAAG
1 TAAGACCATAGTTGAAAGAAACTATGGCATCACGACAGAAAACAAAT-AGCACCATAGTTGAAAG
36445619 ACACTATGGCAACATGACAGAAAATGAA
65 ACACTATGGCAACATGACAGAAAATGAA
* * **
36445647 TATGACCATAGTTGAAAGAAACTATGGCATCATGACAGAAAATGAATAGCACCATAGTTGAAAGA
1 TAAGACCATAGTTGAAAGAAACTATGGCATCACGACAGAAAACAAATAGCACCATAGTTGAAAGA
**
36445712 CACTATGGCAACATGATGGAAAATGAA
66 CACTATGGCAACATGACAGAAAATGAA
* * * * * ** *
36445739 TAAGACCATAGTTGAAAGACACAATGGAAACACAAC-GAAAA-ATGAATAAG-GTCATGGTTGAA
1 TAAGACCATAGTTGAAAGAAACTATGGCATCACGACAGAAAACA--AAT-AGCACCATAGTTGAA
* * * *
36445801 AGACACTATGGCACCAAGTC-GAGAATGAA
63 AGACACTATGGCAACATGACAGAAAATGAA
* *
36445830 TAAGAACATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGA
36445849 CACCATGACA
Statistics
Matches: 167, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
91 61 0.37
92 104 0.62
93 2 0.01
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (92 bp):
TAAGACCATAGTTGAAAGAAACTATGGCATCACGACAGAAAACAAATAGCACCATAGTTGAAAGA
CACTATGGCAACATGACAGAAAATGAA
Found at i:36448448 original size:16 final size:17
Alignment explanation
Indices: 36448417--36448451 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
36448407 CGGGAACGGC
36448417 TTTTGTTTGATGTTTAT
1 TTTTGTTTGATGTTTAT
*
36448434 TTTTGTTTG-TTTTTAT
1 TTTTGTTTGATGTTTAT
36448450 TT
1 TT
36448452 CTTAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (17 bp):
TTTTGTTTGATGTTTAT
Found at i:36448605 original size:11 final size:11
Alignment explanation
Indices: 36448589--36448614 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36448579 TTAGAGGAGA
36448589 ATTCATCTTCT
1 ATTCATCTTCT
36448600 ATTCATCTTCT
1 ATTCATCTTCT
36448611 ATTC
1 ATTC
36448615 GGGCGTTGGA
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:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTCATCTTCT
Found at i:36453845 original size:50 final size:50
Alignment explanation
Indices: 36453765--36453897 Score: 158
Period size: 50 Copynumber: 2.7 Consensus size: 50
36453755 CAATGTCATA
* * * ** * * *
36453765 TCCCAGATATGGGCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTACCAAGGCCATG
* * *
36453815 TCCTAGACATGGTCTTACGGGGGACCTCTCATATTGGTACCAAGGCCATG
1 TCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTACCAAGGCCATG
*
36453865 TCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TCCCAGACATGGTCTTACAGGGGACCTCTCATA
36453898 ACGTCAATAA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTACCAAGGCCATG
Found at i:36462389 original size:18 final size:18
Alignment explanation
Indices: 36462366--36462407 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
36462356 ACTATGAAAT
36462366 TGATTTTCTTGAAAACAC
1 TGATTTTCTTGAAAACAC
*
36462384 TGATTTTCTTGAAAACAT
1 TGATTTTCTTGAAAACAC
36462402 TGATTT
1 TGATTT
36462408 AATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (18 bp):
TGATTTTCTTGAAAACAC
Found at i:36464189 original size:20 final size:20
Alignment explanation
Indices: 36464164--36464203 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
36464154 AGGAGGTTTT
*
36464164 GTAAAATTAGAGTGAAATAG
1 GTAAAAGTAGAGTGAAATAG
* *
36464184 GTAAAAGTAGTGTGATATAG
1 GTAAAAGTAGAGTGAAATAG
36464204 TGATTATATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (20 bp):
GTAAAAGTAGAGTGAAATAG
Found at i:36467464 original size:14 final size:14
Alignment explanation
Indices: 36467445--36467489 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
36467435 AAATCAATAC
36467445 ATTAAGACTAATGT
1 ATTAAGACTAATGT
*
36467459 ATTAAGAACAATAATGC
1 ATTAAG-AC--TAATGT
36467476 ATTAAGACTAATGT
1 ATTAAGACTAATGT
36467490 GTAGTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.42
15 2 0.08
16 2 0.08
17 11 0.42
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (14 bp):
ATTAAGACTAATGT
Found at i:36470039 original size:21 final size:21
Alignment explanation
Indices: 36469992--36470052 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
36469982 TTTGGGTGGA
* *
36469992 TCAGCTCTTTTGAGCTTTTGT
1 TCAGCTCTTTTGAGCTTCTAT
* *
36470013 TTAGCTCTTTTGTGCTTCTAT
1 TCAGCTCTTTTGAGCTTCTAT
**
36470034 TCAGCTCTTACGAGCTTCT
1 TCAGCTCTTTTGAGCTTCT
36470053 GTTGGCATGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.11, C:0.23, G:0.16, T:0.49
Consensus pattern (21 bp):
TCAGCTCTTTTGAGCTTCTAT
Found at i:36477121 original size:27 final size:25
Alignment explanation
Indices: 36477071--36477121 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
36477061 ACTTGGCAAG
*
36477071 AGAAAAATCAAGAGAAATTCTTAAA
1 AGAAAAATCAAGAGAAATTATTAAA
36477096 AGAAAAACTCAA-AGAAAATTTATTAA
1 AGAAAAA-TCAAGAG-AAA-TTATTAA
36477122 GTTAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 9 0.41
26 7 0.32
27 6 0.27
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.22
Consensus pattern (25 bp):
AGAAAAATCAAGAGAAATTATTAAA
Found at i:36477346 original size:8 final size:8
Alignment explanation
Indices: 36477333--36477357 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36477323 TAAAAATTTC
36477333 AAATAATA
1 AAATAATA
36477341 AAATAATA
1 AAATAATA
36477349 AAATAATA
1 AAATAATA
36477357 A
1 A
36477358 GAGCTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Done.