Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 102 of 433
Found at i:31331777 original size:40 final size:40
Alignment explanation
Indices: 31331718--31331886 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
31331708 CGGGACTTTA
* * *
31331718 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
31331758 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
31331798 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
31331838 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
31331878 CCCGGATAT
1 CCCGGATAT
31331887 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:31345018 original size:41 final size:40
Alignment explanation
Indices: 31344844--31345020 Score: 162
Period size: 40 Copynumber: 4.4 Consensus size: 40
31344834 GATTGTCTTT
* * * * *
31344844 GGGACATAGCCCGG-TTATAGTGATTCGCACAATTGCCTTC
1 GGGACTTAGCCCGGATT-TAGTAACTAGCACAAATGCCTTC
* * * *
31344884 GGGAATTAGCCCAGATTTAGTAACTCGCATAAATGCCTTC
1 GGGACTTAGCCCGGATTTAGTAACTAGCACAAATGCCTTC
* * *
31344924 GGGACTTAACCC-GATTTTGGTAACTAGCACCAATGCCTTC
1 GGGACTTAGCCCGGA-TTTAGTAACTAGCACAAATGCCTTC
* * *
31344964 GGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGCCTTC
1 GGGACTTAG-CCCGGATTTAGTAAC-TAGCACAAATGCCTTC
31345005 GGGACTTAGCCCGGAT
1 GGGACTTAGCCCGGAT
31345021 ATCATTCGAA
Statistics
Matches: 111, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.02
40 77 0.69
41 31 0.28
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
GGGACTTAGCCCGGATTTAGTAACTAGCACAAATGCCTTC
Found at i:31346999 original size:43 final size:43
Alignment explanation
Indices: 31346918--31347003 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
31346908 AAATCGTACA
* **
31346918 ATGCCAACGTCCCAGACATGGTCTTACATGTAGTCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACATGTAAACACATATCG
31346961 ATGCC-ACTGTCCCAGACAAGGTCTTAC-TCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGACAAGGTCTTACAT-GTAAACACATATCG
31347004 GAATCACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.08
43 35 0.92
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACATGTAAACACATATCG
Found at i:31349304 original size:35 final size:35
Alignment explanation
Indices: 31349253--31349421 Score: 176
Period size: 35 Copynumber: 4.8 Consensus size: 35
31349243 AGGTAAGTAT
* *
31349253 ATGTGAGGTTACATTGAACTTGTATATTCGGCTGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
*
31349288 ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * * *
31349323 ATGTGAGATTATATTGAATTTGTATATTTGGCCAT
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * * * * *
31349358 ATGAGATGTTTTATTGAACTTGAACATTAGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * *
31349393 ATGTGATGATATATTGAACTTATATATTC
1 ATGTGAGGTTATATTGAACTTGTATATTC
31349422 AGCCATATGA
Statistics
Matches: 107, Mismatches: 27, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 107 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
Found at i:31349346 original size:70 final size:69
Alignment explanation
Indices: 31349253--31349431 Score: 209
Period size: 70 Copynumber: 2.6 Consensus size: 69
31349243 AGGTAAGTAT
* * * * * *
31349253 ATGTGAGGTTACATTGAACTTGTATATTCGGCTGCATGTGAG-GTTATATTGAACTTGTATATTC
1 ATGTGAGATTATATTGAACTTGTATATTCGGC--CATATGAGAGTTATATTGAACTTGAACATTA
31349317 GGTTAC
64 GGTTAC
* * *
31349323 ATGTGAGATTATATTGAATTTGTATATTTGGCCATATGAGATGTTTTATTGAACTTGAACATTAG
1 ATGTGAGATTATATTGAACTTGTATATTCGGCCATATGAGA-GTTATATTGAACTTGAACATTAG
31349388 GTTAC
65 GTTAC
* *
31349393 ATGTGATGA-TATATTGAACTTATATATTCAGCCATATGA
1 ATGTGA-GATTATATTGAACTTGTATATTCGGCCATATGA
31349432 AATAATATAA
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
68 7 0.08
70 84 0.90
71 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (69 bp):
ATGTGAGATTATATTGAACTTGTATATTCGGCCATATGAGAGTTATATTGAACTTGAACATTAGG
TTAC
Found at i:31352953 original size:45 final size:45
Alignment explanation
Indices: 31352889--31352979 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
31352879 TTCGGAGATA
31352889 GACTTGAGATCGGGTTATTATCAGTTGCGAGTCAGAGACTCCGAT
1 GACTTGAGATCGGGTTATTATCAGTTGCGAGTCAGAGACTCCGAT
31352934 GACTTGAGATCGGGTTATTATCAGTTGCGAGTCAGAGACTCCGAT
1 GACTTGAGATCGGGTTATTATCAGTTGCGAGTCAGAGACTCCGAT
31352979 G
1 G
31352980 TGCCAAAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (45 bp):
GACTTGAGATCGGGTTATTATCAGTTGCGAGTCAGAGACTCCGAT
Found at i:31354271 original size:27 final size:26
Alignment explanation
Indices: 31354232--31354312 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
31354222 AGCATGGCTG
* *
31354232 CCAGAACTGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
31354258 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
31354285 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
31354312 C
1 C
31354313 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.12
27 42 0.88
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:31354823 original size:27 final size:28
Alignment explanation
Indices: 31354761--31354824 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
31354751 CATTCACTTG
*
31354761 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
31354789 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
31354815 CCCACAAGGG
1 CCCACAAGGG
31354825 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:31354834 original size:27 final size:27
Alignment explanation
Indices: 31354804--31355115 Score: 399
Period size: 27 Copynumber: 11.6 Consensus size: 27
31354794 AGGGCAAAAT
* * * *
31354804 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
31354831 GGTAATTTTACCCCATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
31354858 AGTAATTCTACCCCATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31354885 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31354912 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
31354939 AGTAATTCTACCCTACAGGAATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31354966 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31354993 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31355020 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31355047 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
31355074 GGTAATTCTACCCTATAGTGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31355101 AGTAATTCTACCCTA
1 GGTAATTCTACCCTA
31355116 TAAGAATATT
Statistics
Matches: 255, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 255 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:31355116 original size:27 final size:27
Alignment explanation
Indices: 31354805--31355161 Score: 392
Period size: 27 Copynumber: 13.2 Consensus size: 27
31354795 GGGCAAAATG
* * * * *
31354805 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
31354832 GTAATTTTACCCCATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
31354859 GTAATTCTACCCCATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
31354886 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
31354913 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
** *
31354940 GTAATTCTACCCTACAGGAATATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
31354967 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
31354994 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
31355021 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
31355048 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
31355075 GTAATTCTACCCTATAGTGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
31355102 GTAATTCTACCCTATAAGAATATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* ** *
31355129 GTAATTTTA-CAAATCAAGGGTATTTCA
1 GTAATTCTACCCTA-CAGGGGTATTTCA
31355156 GTAATT
1 GTAATT
31355162 TTGCAAACTA
Statistics
Matches: 288, Mismatches: 41, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 286 0.99
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:31355151 original size:54 final size:54
Alignment explanation
Indices: 31354804--31355215 Score: 366
Period size: 54 Copynumber: 7.6 Consensus size: 54
31354794 AGGGCAAAAT
* ** * * * * * *
31354804 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTTTACCCCATAGGGGTATTTC
1 GGTAATTCTACCATACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* ** * * *
31354858 AGTAATTCTACCCCATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCATACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* * *
31354912 GGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTAC-AGGAATATTTC
1 GGTAATTCTACCATACAAGGGTATTTCAGTAATTCTACCCTACAAGG-GTATTTC
* * * *
31354966 GGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCATACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* * *
31355020 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCATACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* * * * **
31355074 GGTAATTCTACCCTA-TAGTGGTATTTTAGTAATTCTACCCTATAAGAATATTTC
1 GGTAATTCTACCATACAAG-GGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* * * ** **
31355128 AGTAATTTTA-CAAATCAAGGGTATTTCAGTAATT-TTGCAAACTAAGGGTATTTC
1 GGTAATTCTACCATA-CAAGGGTATTTCAGTAATTCTACCCTAC-AAGGGTATTTC
* * **
31355182 GGTAATTTTA-CAAATTGAGGGTATTTCAGTAATT
1 GGTAATTCTACCATA-CAAGGGTATTTCAGTAATT
31355216 TTACAATCGA
Statistics
Matches: 305, Mismatches: 47, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
53 9 0.03
54 292 0.96
55 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCATACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
Found at i:31355162 original size:27 final size:27
Alignment explanation
Indices: 31355122--31355297 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
31355112 CCTATAAGAA
*
31355122 TATTTCAGTAATTTTACAAATCAAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
31355149 TATTTCAGTAATTTTGCAAA-CTAAGGG
1 TATTTCAGTAATTTTACAAATC-GAGGG
* *
31355176 TATTTCGGTAATTTTACAAATTGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
31355203 TATTTCAGTAATTTTAC-AATCGACGA
1 TATTTCAGTAATTTTACAAATCGAGGG
* * *
31355229 TATTTC-GATAATTTTATAAACCGGGGG
1 TATTTCAG-TAATTTTACAAATCGAGGG
* * * *
31355256 TACTTCGGTAATTTTACAACT-GGGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
31355282 TATTTCAGTAATTTTA
1 TATTTCAGTAATTTTA
31355298 GTAAACTAAA
Statistics
Matches: 124, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.01
26 40 0.32
27 82 0.66
28 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGGG
Found at i:31355216 original size:54 final size:54
Alignment explanation
Indices: 31355122--31355297 Score: 196
Period size: 53 Copynumber: 3.3 Consensus size: 54
31355112 CCTATAAGAA
* * *
31355122 TATTTCAGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCAAACTAAGGG
1 TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGG
* * * * *
31355176 TATTTCGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAATC-GACGA
1 TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGG
* * * * * *
31355229 TATTTC-GATAATTTTATAAACCGGGGGTACTTCGGTAATTTTAC-AACTGGGGG
1 TATTTCAG-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGG
31355282 TATTTCAGTAATTTTA
1 TATTTCAGTAATTTTA
31355298 GTAAACTAAA
Statistics
Matches: 101, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
52 3 0.03
53 54 0.53
54 44 0.44
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGG
Found at i:31355240 original size:26 final size:27
Alignment explanation
Indices: 31355176--31355244 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
31355166 AAACTAAGGG
* * * *
31355176 TATTTCGGTAATTTTACAAATTGAGGG
1 TATTTCGATAATTTTACAAATCGACGA
31355203 TATTTC-AGTAATTTTAC-AATCGACGA
1 TATTTCGA-TAATTTTACAAATCGACGA
31355229 TATTTCGATAATTTTA
1 TATTTCGATAATTTTA
31355245 TAAACCGGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 20 0.56
27 16 0.44
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.43
Consensus pattern (27 bp):
TATTTCGATAATTTTACAAATCGACGA
Found at i:31357044 original size:39 final size:39
Alignment explanation
Indices: 31356961--31357084 Score: 158
Period size: 39 Copynumber: 3.2 Consensus size: 39
31356951 CCGAGAACAA
* * * * * *
31356961 TTTCTAGCACAAAGCCTGCAGTACTTTAAGCCCAGATATA
1 TTTCCAGCACATAGCCTGCAG-ACCTCAAGTCCAGATATG
*
31357001 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCAGATATG
1 TTTCCAGCACATAGCCTGCAGACCTCAAGTCCAGATATG
* *
31357040 TTTCCAGCACGTAGCCTGCAGACCTCAAGTCCGGATATG
1 TTTCCAGCACATAGCCTGCAGACCTCAAGTCCAGATATG
31357079 TTTCCA
1 TTTCCA
31357085 AGTATCATGC
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 56 0.76
40 18 0.24
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (39 bp):
TTTCCAGCACATAGCCTGCAGACCTCAAGTCCAGATATG
Found at i:31360874 original size:20 final size:20
Alignment explanation
Indices: 31360845--31360885 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
31360835 CGGGTCTATA
*
31360845 ATCGACACGAAGCCTACAAT
1 ATCGACACGAAGCCCACAAT
*
31360865 ATCGATACGAAGCCCACAAT
1 ATCGACACGAAGCCCACAAT
31360885 A
1 A
31360886 ATGGCGCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.29, G:0.15, T:0.15
Consensus pattern (20 bp):
ATCGACACGAAGCCCACAAT
Found at i:31360903 original size:98 final size:98
Alignment explanation
Indices: 31360725--31360963 Score: 379
Period size: 98 Copynumber: 2.4 Consensus size: 98
31360715 CGTGGCACAA
* * *
31360725 AGCCATCGATAACGGGTCTATAATCGGCACGAAGCCCACAATATCGATACGAAGCCCTCAATAAC
1 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
*
31360790 GGCACACAGCCTTCGGTAACATGATCGGCAATC
66 GGCACACAGCCTTCGGTAACACGATCGGCAATC
* *
31360823 AGCCATTGATAACGGGTCTATAATCGACACGAAGCCTACAATATCGATACGAAGCCCACAATAAT
1 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
* * * *
31360888 GGCGCATAGCTTTCGGTAACACGATCGGCACTC
66 GGCACACAGCCTTCGGTAACACGATCGGCAATC
*
31360921 AGCCATTGATAACGGGTCTATAATCGGCACCAAGCCTACAATA
1 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATA
31360964 ACGACACACA
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 129 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (98 bp):
AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
GGCACACAGCCTTCGGTAACACGATCGGCAATC
Found at i:31361079 original size:27 final size:26
Alignment explanation
Indices: 31361017--31361096 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
31361007 ATCAGTCAAT
* * * *
31361017 AGATATTGTGACAAAGTCACAAGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
*
31361044 AGATATTGTGGCAGAGCCATCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
31361070 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
31361097 GCTTCATCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 7 0.16
27 38 0.84
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:31361403 original size:27 final size:27
Alignment explanation
Indices: 31361320--31361621 Score: 333
Period size: 27 Copynumber: 11.3 Consensus size: 27
31361310 GGGGCAAAAT
* * *
31361320 GGTAATTTTACCCCACAAGGG-ATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31361346 GGTAATTCTACTCC-AC-AGGGTAGTTC
1 GGTAATTCTAC-CCTACAAGGGTATTTC
* * * *
31361372 AGTAATTCTACCCCATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31361399 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
31361426 GATAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31361453 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31361480 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31361507 GGTAGTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31361534 TGTAATTCTGCCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31361561 TGTAATTCTACCCTA-TAGTGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
31361588 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31361615 AGTAATT
1 GGTAATT
31361622 TTATAAATCG
Statistics
Matches: 240, Mismatches: 30, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
25 6 0.03
26 28 0.12
27 204 0.85
28 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31361720 original size:26 final size:27
Alignment explanation
Indices: 31361605--31361782 Score: 148
Period size: 27 Copynumber: 6.7 Consensus size: 27
31361595 CTACCCTACA
*
31361605 AGGGTATTTCAGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
31361632 AGGGCATTTCAGTAATTTTGCATATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * * *
31361659 AGGGTATGTCGGAAATTTTACAAGTCA
1 AGGGTATTTCAGTAATTTTACAAATCG
31361686 AGGGTATTTCAGTAATTTTA-AAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
31361712 ATGGTATTTC-GATAATTTTATAAACCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * *
31361739 GGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* *
31361765 GGGGTATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
31361783 CAGTAAACTA
Statistics
Matches: 119, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
25 4 0.03
26 35 0.29
27 76 0.64
28 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:31364014 original size:27 final size:27
Alignment explanation
Indices: 31363959--31364021 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
31363949 GATATTGTAA
* *
31363959 CAGAGTCACCAGATACAGATATTGGGG
1 CAGAGCCACCAGATACAGATAATGGGG
*
31363986 CAGAGCCACCAGA-ATCAGATAATGTGG
1 CAGAGCCACCAGATA-CAGATAATGGGG
*
31364013 CAAAGCCAC
1 CAGAGCCAC
31364022 TTAACAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.14
Consensus pattern (27 bp):
CAGAGCCACCAGATACAGATAATGGGG
Found at i:31364214 original size:98 final size:98
Alignment explanation
Indices: 31364043--31364281 Score: 334
Period size: 98 Copynumber: 2.4 Consensus size: 98
31364033 CATGGCACAA
* * * * * * *
31364043 AGCCATCGATAACAGGTTTATAATCGGCACGAAGCCCATAATATCGATACGAAGCCCACAGTGAC
1 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
* *
31364108 GGCACACAGCCTTTGGTAACATGATCGAAACTC
66 GGCACACAGCCTTCGGTAACACGATCGAAACTC
*
31364141 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAT
1 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
* **
31364206 GGCGCACAGCCTTCGGTAACACGATCGGCACTC
66 GGCACACAGCCTTCGGTAACACGATCGAAACTC
* * *
31364239 AGCCATTGATAACGTGTCTATAATCAGCACCAAGCCTACAATA
1 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATA
31364282 ACGGCACACA
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 125 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (98 bp):
AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
GGCACACAGCCTTCGGTAACACGATCGAAACTC
Found at i:31364668 original size:27 final size:27
Alignment explanation
Indices: 31364638--31364907 Score: 353
Period size: 27 Copynumber: 10.0 Consensus size: 27
31364628 TGGGCAAAAT
* *
31364638 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31364665 GGTAATTTTACCCCACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31364692 AGTAATTTTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31364719 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31364746 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31364773 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31364800 GGTATTTCTACCCTACAAGGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
31364827 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31364854 GGTAATTCTACCCTA-TAGTGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
31364881 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
31364908 ATTAATTTTA
Statistics
Matches: 216, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 2 0.01
27 212 0.98
28 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31364928 original size:27 final size:27
Alignment explanation
Indices: 31364898--31365077 Score: 156
Period size: 27 Copynumber: 6.7 Consensus size: 27
31364888 CTACCCTACA
* *
31364898 AGGGTATTTCATTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
31364925 AGGGTATTTCAATAATTTTGCCAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
** *
31364952 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
31364979 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
31365005 ATGGTATTTC-GATAATTTTATAAA-CT
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
31365031 AGGGGTACTTT-GGTAATTTTACAACT-G
1 A-GGGTA-TTTCAGTAATTTTACAAATCG
*
31365058 GGGGTATTTCAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
31365078 GTAAACTAAA
Statistics
Matches: 122, Mismatches: 22, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
25 4 0.03
26 38 0.31
27 76 0.62
28 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:31364929 original size:81 final size:78
Alignment explanation
Indices: 31364639--31364941 Score: 268
Period size: 81 Copynumber: 3.7 Consensus size: 78
31364629 GGGCAAAATG
* * * ** *
31364639 GTAATTTTACCCTACAAGGGTATCTCGGTAATTTTACCCCA-CAAGGGTATTTCAGTAATTTTAC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA--TAATC-AGGGTATTTCAGTAATTCTAC
31364703 CCTACAAGGGTATTTTA
63 CCTA-AAGGGTATTTTA
* * *
31364720 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTA-CAGGGGTATTTTAGTAATTCTAC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA--TAATCA-GGGTATTTCAGTAATTCTAC
* **
31364784 CCTACAGGGGTATTTCG
63 CCTA-AAGGGTATTTTA
* * *** *
31364801 GTATTTCTACCCTACAAGGATATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATAAT-C-AGGGTATTTCAGTAATTCTACC
*
31364866 CTATAGTGGTATTTTA
64 CTAAAG-GGTATTTTA
** * *
31364882 GTAATTCTACCCTACAAGGGTATTTCATTAATTTTATAAATCGAGGGTATTTCAATAATT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTAT-AATC-AGGGTATTTCAGTAATT
31364942 TTGCCAACTG
Statistics
Matches: 182, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
80 2 0.01
81 178 0.98
82 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (78 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATAATCAGGGTATTTCAGTAATTCTACCCT
AAAGGGTATTTTA
Found at i:31364931 original size:54 final size:52
Alignment explanation
Indices: 31364655--31364995 Score: 247
Period size: 54 Copynumber: 6.3 Consensus size: 52
31364645 TTACCCTACA
* * * * * **
31364655 AGGGTATCTCGGTAATTTTACCCCACAAGGGTATTTCAGTAATTTTACCCTAC
1 AGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAT-C
* * * **
31364708 AAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTAC
1 -AGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAT-C
* * **
31364762 AGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACCCTAC
1 A-GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTT-TACAAT-C
* * * *
31364816 AAGGATATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAT-
1 -AGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTA--CAATC
* ** *
31364870 AGTGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCATTAATTTTATAAATC
1 AG-GGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTA-CAATC
* ** * * * *
31364924 GAGGGTATTTCAATAATT-TTGCCAACTGAGGGTATTTTGGTAATTTTACAAATTG
1 -AGGGTATTTCAGTAATTCTACCCTAC-AAGGGTATTTCGGTAATTTTAC-AA-TC
31364979 AGGGTATTTCAGTAATT
1 AGGGTATTTCAGTAATT
31364996 TTACAATCGA
Statistics
Matches: 236, Mismatches: 39, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
53 13 0.06
54 214 0.91
55 7 0.03
56 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (52 bp):
AGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAATC
Found at i:31364958 original size:81 final size:80
Alignment explanation
Indices: 31364873--31365077 Score: 191
Period size: 80 Copynumber: 2.6 Consensus size: 80
31364863 ACCCTATAGT
** *
31364873 GGTATTTTAGTAATTCTAC-CCTACAAGGGTATTTCATTAATTTTATAAATCGAGGGTATTTCAA
1 GGTATTTTAGTAATTCTACAAAT-CAAGGGTATTTCAGTAATTTTA-AAATCGAGGGTATTTCAA
31364937 TAATTTTGCCAACTGAG
64 TAATTTTGCCAACTGAG
* * ** * * *
31364954 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAATCGATGGTATTTCGATA
1 GGTATTTTAGTAATTCTACAAATCAAGGGTATTTCAGTAATTTTAAAATCGAGGGTATTTCAATA
***
31365019 ATTTTATAAACT-AGG
66 ATTTTGCCAACTGA-G
* * * * **
31365034 GGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAGTAATTTTA
1 GGTATTTTAGTAATTCTACAAATCAAGGGTATTTCAGTAATTTTA
31365078 GTAAACTAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 21 0.20
80 48 0.45
81 36 0.34
82 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (80 bp):
GGTATTTTAGTAATTCTACAAATCAAGGGTATTTCAGTAATTTTAAAATCGAGGGTATTTCAATA
ATTTTGCCAACTGAG
Found at i:31365037 original size:53 final size:53
Alignment explanation
Indices: 31364898--31365082 Score: 189
Period size: 53 Copynumber: 3.5 Consensus size: 53
31364888 CTACCCTACA
* * * *
31364898 AGGGTATTTCATTAATTTTATAAATCGAGGGTATTTCAATAATTTTGCCAACTG
1 AGGGTATTTCAGTAATTTTATAAATAGAGGGTATTTCAGTAATTTT-ACAACTG
** * *
31364952 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAA-TCG
1 AGGGTATTTCAGTAATTTTATAAATAGAGGGTATTTCAGTAATTTTACAACT-G
* *
31365005 ATGGTATTTC-GATAATTTTATAAACTAG-GGGTACTTT-GGTAATTTTACAACTG
1 AGGGTATTTCAG-TAATTTTATAAA-TAGAGGGTA-TTTCAGTAATTTTACAACTG
*
31365058 GGGGTATTTCAGTAATTTTAGTAAA
1 AGGGTATTTCAGTAATTTTA-TAAA
31365083 CTAAAGTATT
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 57 0.52
54 51 0.46
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (53 bp):
AGGGTATTTCAGTAATTTTATAAATAGAGGGTATTTCAGTAATTTTACAACTG
Found at i:31365043 original size:80 final size:80
Alignment explanation
Indices: 31364898--31365082 Score: 239
Period size: 80 Copynumber: 2.3 Consensus size: 80
31364888 CTACCCTACA
* * * *
31364898 AGGGTATTTCATTAATTTTATAAATCGAGGGTATTTCAATAATTTTGCCAACTGAGGGTATTTTG
1 AGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTCAATAATTTTACAAACTGAGGGTACTTTG
*
31364963 GTAATTTTACAAATTG
66 GTAATTTTAC-AACTG
* * * *
31364979 AGGGTATTTCAGTAATTTTA-CAATCGATGGTATTTCGATAATTTTATAAACT-AGGGGTACTTT
1 AGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTCAATAATTTTACAAACTGA-GGGTACTTT
31365042 GGTAATTTTACAACTG
65 GGTAATTTTACAACTG
*
31365058 GGGGTATTTCAGTAATTTTAGTAAA
1 AGGGTATTTCAGTAATTTTA-TAAA
31365083 CTAAAGTATT
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 24 0.27
80 45 0.50
81 21 0.23
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTCAATAATTTTACAAACTGAGGGTACTTTG
GTAATTTTACAACTG
Found at i:31369594 original size:35 final size:35
Alignment explanation
Indices: 31369553--31369759 Score: 216
Period size: 35 Copynumber: 5.9 Consensus size: 35
31369543 AGGTAAGTAT
*
31369553 ATGTGAGGTTATATTGAACTTGTATATTCGGCTGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * **
31369588 ATGTGAGGTTATATTGAACTTGTGTATTTGATTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * *
31369623 ATGTGAGCTTATATTGAACTTGTATATCCGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * *
31369658 ATGTGAGATTATATTGAATTTGTATATTCGGCCAT
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * * * * *
31369693 ATGAGATGTTTTATTGAACTTGAACATTAGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * *
31369728 ATGTGATGATATATTGAACTTATATATTCGGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGC
31369760 CATATGAAAT
Statistics
Matches: 137, Mismatches: 35, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 137 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.42
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
Found at i:31369708 original size:105 final size:104
Alignment explanation
Indices: 31369553--31369754 Score: 255
Period size: 105 Copynumber: 1.9 Consensus size: 104
31369543 AGGTAAGTAT
* * *** *
31369553 ATGTGAGGTTATATTGAACTTGTATATTCGGCTGCATGTGAGGTTATATTGAACTTGTGTATTTG
1 ATGTGAGATTATATTGAACTTGTATATTCGGC-GCATATGAGGTTATATTGAACTTGAACATTAG
* *
31369618 ATTACATGTGA-GCTTATATTGAACTTGTATATCCGGTTAC
65 ATTACATGTGATG-ATATATTGAACTTATATATCCGGTTAC
* *
31369658 ATGTGAGATTATATTGAATTTGTATATTCGGC-CATATGAGATGTTTTATTGAACTTGAACATTA
1 ATGTGAGATTATATTGAACTTGTATATTCGGCGCATATGAG--GTTATATTGAACTTGAACATTA
*
31369722 GGTTACATGTGATGATATATTGAACTTATATAT
64 GATTACATGTGATGATATATTGAACTTATATAT
31369755 TCGGCCATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
103 7 0.08
105 75 0.90
106 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (104 bp):
ATGTGAGATTATATTGAACTTGTATATTCGGCGCATATGAGGTTATATTGAACTTGAACATTAGA
TTACATGTGATGATATATTGAACTTATATATCCGGTTAC
Found at i:31370989 original size:17 final size:17
Alignment explanation
Indices: 31370969--31371001 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31370959 TATTATGTTA
31370969 TGTATATATGTATGAAT
1 TGTATATATGTATGAAT
31370986 TGTATATATGTATGAA
1 TGTATATATGTATGAA
31371002 CTATAATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (17 bp):
TGTATATATGTATGAAT
Found at i:31379514 original size:40 final size:39
Alignment explanation
Indices: 31379349--31379522 Score: 136
Period size: 40 Copynumber: 4.4 Consensus size: 39
31379339 AAATTGAATG
* * *
31379349 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
31379389 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
31379429 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
31379469 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
*
31379508 GATATCCGGGTTAAG
1 -ATATCCGGGCTAAG
31379523 TCCCATAGGC
Statistics
Matches: 105, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 96 0.91
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:31385697 original size:48 final size:48
Alignment explanation
Indices: 31385620--31385892 Score: 366
Period size: 48 Copynumber: 5.7 Consensus size: 48
31385610 ACCATGCTGA
* * *
31385620 ATGTGCCTGTGTAAGACCGTGTCTGGGACATGGAATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
* * *
31385668 ATGTACCTGTGTAAGACTATGTCTAGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
* * * *
31385716 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
* * *
31385764 ATGTGCATGTGCAAGACCATGTCTAGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
* * *
31385812 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCAGCGGTGATGT
1 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
** * *
31385860 ATGTGCCCATGTAAGACTATGTCTGGGACATGG
1 ATGTGCCTGTGTAAGACCATGTCTAGGACATGG
31385893 AATTGGTACT
Statistics
Matches: 195, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 195 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
Found at i:31385882 original size:144 final size:144
Alignment explanation
Indices: 31385620--31385892 Score: 408
Period size: 144 Copynumber: 1.9 Consensus size: 144
31385610 ACCATGCTGA
* * * *
31385620 ATGTGCCTGTGTAAGACCGTGTCTGGGACATGGAATCGGCGATGATATATGTACCTGTGTAAGAC
1 ATGTGCATGTGCAAGACCATGTCTAGGACATGGAATCGGCGATGATATATGTACCTGTGTAAGAC
* *
31385685 TATGTCTAGGACATGGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGC
66 CATGTCTAGGACATGGCATCGGTGATGATATGTGTCCCAGTGTAAGACCATGTCTGGGACATGGC
31385750 ATCGGCAATGATAT
131 ATCGGCAATGATAT
* * *
31385764 ATGTGCATGTGCAAGACCATGTCTAGGACATGGCATCGGTGATGATATATGTGCCTGTGTAAGAC
1 ATGTGCATGTGCAAGACCATGTCTAGGACATGGAATCGGCGATGATATATGTACCTGTGTAAGAC
*
31385829 CATGTCTAGGACATGGCATCAGCGGTGATG-TATGTG-CCCA-TGTAAGACTATGTCTGGGACAT
66 CATGTCTAGGACATGGCAT---CGGTGATGATATGTGTCCCAGTGTAAGACCATGTCTGGGACAT
31385891 GG
128 GG
31385893 AATTGGTACT
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
144 99 0.85
145 3 0.03
146 6 0.05
147 8 0.07
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (144 bp):
ATGTGCATGTGCAAGACCATGTCTAGGACATGGAATCGGCGATGATATATGTACCTGTGTAAGAC
CATGTCTAGGACATGGCATCGGTGATGATATGTGTCCCAGTGTAAGACCATGTCTGGGACATGGC
ATCGGCAATGATAT
Found at i:31389791 original size:40 final size:40
Alignment explanation
Indices: 31389689--31389872 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
31389679 AAATTGAATG
* * * * * *
31389689 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
31389729 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
31389769 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
31389809 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
31389849 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
31389873 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:31389897 original size:80 final size:80
Alignment explanation
Indices: 31389729--31389917 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
31389719 GCTGGAAATT
* * *
31389729 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
31389794 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
31389809 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
31389872 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
31389889 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
31389918 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:31396366 original size:40 final size:40
Alignment explanation
Indices: 31396264--31396447 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
31396254 AAATTGAATG
* * * * * *
31396264 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
31396304 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
31396344 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
31396384 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
31396424 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
31396448 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:31396472 original size:80 final size:80
Alignment explanation
Indices: 31396304--31396492 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
31396294 GCTGGAAATT
* * *
31396304 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
31396369 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
31396384 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
31396447 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
31396464 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
31396493 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:31404914 original size:66 final size:68
Alignment explanation
Indices: 31404838--31405024 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
31404828 TAGTACCACT
*
31404838 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
31404900 CACG
65 CACG
31404904 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
31404969 ATCACG
63 ATCACG
31404975 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
31405025 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:31404949 original size:71 final size:71
Alignment explanation
Indices: 31404861--31405024 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31404851 CGATTTGTCT
31404861 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31404926 CTTTCA
66 CTTTCA
31404932 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31404997 CTTTCA
66 CTTTCA
31405003 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
31405025 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:31405062 original size:71 final size:70
Alignment explanation
Indices: 31404861--31405058 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
31404851 CGATTTGTCT
* * *
31404861 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
31404926 CTTTCA
65 CTTTCA
* * *
31404932 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
31404997 CTTTCA
65 CTTTCA
* *
31405003 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
31405059 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:31412482 original size:66 final size:68
Alignment explanation
Indices: 31412406--31412592 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
31412396 TAGTACCACT
*
31412406 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
31412468 CACG
65 CACG
31412472 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
31412537 ATCACG
63 ATCACG
31412543 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
31412593 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:31412517 original size:71 final size:71
Alignment explanation
Indices: 31412429--31412592 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31412419 CGATTTGTCT
31412429 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31412494 CTTTCA
66 CTTTCA
31412500 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31412565 CTTTCA
66 CTTTCA
31412571 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
31412593 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:31412630 original size:71 final size:70
Alignment explanation
Indices: 31412429--31412626 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
31412419 CGATTTGTCT
* * *
31412429 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
31412494 CTTTCA
65 CTTTCA
* * *
31412500 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
31412565 CTTTCA
65 CTTTCA
* *
31412571 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
31412627 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:31419771 original size:40 final size:40
Alignment explanation
Indices: 31419705--31419855 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
31419695 AAATTGAATG
* * *
31419705 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
31419744 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
31419784 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
31419824 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
31419856 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:31427911 original size:7 final size:7
Alignment explanation
Indices: 31427899--31427923 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31427889 GTTGTCTTCT
31427899 TGTTTGA
1 TGTTTGA
31427906 TGTTTGA
1 TGTTTGA
31427913 TGTTTGA
1 TGTTTGA
31427920 TGTT
1 TGTT
31427924 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:31428851 original size:27 final size:28
Alignment explanation
Indices: 31428795--31428864 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
31428785 AAATTTGTAC
31428795 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
31428823 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
31428850 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31428865 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:31434363 original size:43 final size:43
Alignment explanation
Indices: 31434302--31434527 Score: 321
Period size: 43 Copynumber: 5.2 Consensus size: 43
31434292 CCTTGCTCGA
** *
31434302 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
31434345 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
31434388 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
31434431 ATCACCGGCACGAAGCCTGCTAGGCACGAA-GCCC-AATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* *
31434472 ATCATCGGCACGAAGCCTGAGCCTGCTAGGCACGAAGGCCCCAATACAC
1 ATCACCGGCACG-A-----AGCCTGCTAGGCACGAAGGCCCGAATACAC
31434521 ATCACCG
1 ATCACCG
31434528 AGTTTCATGC
Statistics
Matches: 168, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
41 17 0.10
42 5 0.03
43 112 0.67
47 17 0.10
48 4 0.02
49 13 0.08
ACGTcount: A:0.31, C:0.34, G:0.23, T:0.12
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:31435960 original size:35 final size:35
Alignment explanation
Indices: 31435921--31435993 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
31435911 ACACATTCTT
31435921 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
31435956 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
31435991 TAT
1 TAT
31435994 ATCACATACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (35 bp):
TATTCTCGTCAGATCAATCTCACATAAATAATATA
Found at i:31440640 original size:22 final size:24
Alignment explanation
Indices: 31440593--31440649 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
31440583 AAAACATTTA
* *
31440593 TTTATT-ATTTTATGTTTTTAATT
1 TTTATTAAATTTATGTTTTTAACT
31440616 TTTATTAAATTTAT-TTTTT-ACT
1 TTTATTAAATTTATGTTTTTAACT
*
31440638 TTTATTATATTT
1 TTTATTAAATTT
31440650 TAGAATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.43
23 11 0.37
24 6 0.20
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTATTAAATTTATGTTTTTAACT
Found at i:31440651 original size:23 final size:25
Alignment explanation
Indices: 31440589--31440651 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
31440579 TTTAAAAACA
*
31440589 TTTATTTATTATTTTATGTTTTTAATT
1 TTTA-TTA-TATTTTATGTTTTTAACT
*
31440616 TTTATTA-AATTTAT-TTTTT-ACT
1 TTTATTATATTTTATGTTTTTAACT
31440638 TTTATTATATTTTA
1 TTTATTATATTTTA
31440652 GAATTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 9 0.28
23 10 0.31
24 6 0.19
26 3 0.09
27 4 0.12
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTATTATATTTTATGTTTTTAACT
Found at i:31442875 original size:46 final size:46
Alignment explanation
Indices: 31442822--31442997 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
31442812 TATTTGGGCA
31442822 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
31442868 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
31442915 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
31442961 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31442998 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:31442977 original size:93 final size:93
Alignment explanation
Indices: 31442818--31442989 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31442808 GGGATATTTG
* *
31442818 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31442883 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
31442911 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31442976 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
31442990 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:31445955 original size:15 final size:15
Alignment explanation
Indices: 31445916--31445996 Score: 85
Period size: 15 Copynumber: 5.5 Consensus size: 15
31445906 GTATCTTGGG
*
31445916 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
31445931 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
31445946 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
31445961 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
31445976 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
31445990 TTTCTTT
1 TTTCTTT
31445997 CCATAATTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
14 11 0.20
15 41 0.76
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:31445985 original size:30 final size:30
Alignment explanation
Indices: 31445907--31445994 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
31445897 CATAGTATCG
* * *
31445907 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
31445937 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
31445967 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
31445995 TTCCATAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:31448419 original size:46 final size:46
Alignment explanation
Indices: 31448366--31448541 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
31448356 TATTTGGGCA
31448366 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
31448412 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
31448459 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
31448505 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31448542 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:31448521 original size:93 final size:93
Alignment explanation
Indices: 31448362--31448533 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31448352 GGGATATTTG
* *
31448362 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31448427 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
31448455 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31448520 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
31448534 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:31452384 original size:40 final size:40
Alignment explanation
Indices: 31452257--31452386 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
31452247 ATGCTGGAAA
* *
31452257 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGG
* * *
31452297 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGG
*
31452337 TTCTATCCGGGCTAAGACCCGAAGGCAATTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGG
31452377 TTATATCCGG
1 TTATATCCGG
31452387 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 4 0.05
40 70 0.91
41 3 0.04
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGG
Found at i:31473973 original size:49 final size:50
Alignment explanation
Indices: 31473895--31474134 Score: 268
Period size: 49 Copynumber: 4.8 Consensus size: 50
31473885 ATCTATTGTG
31473895 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * ** *
31473945 -GGTCGCATGTGTAGTACTAAGTGAAGGCTACTATGCATACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * ** **
31473995 CGATCACGTGTGTAGTACTAAGTGCAGACTACTACATGTATCAAATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
** *
31474045 AGGTCATGTGTGTAGTAATAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
31474095 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTAC
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
31474135 TAGATAGCCT
Statistics
Matches: 152, Mismatches: 36, Indels: 5
0.79 0.19 0.03
Matches are distributed among these distances:
49 76 0.50
50 43 0.28
51 33 0.22
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:31477214 original size:15 final size:14
Alignment explanation
Indices: 31477196--31477238 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
31477186 TGCTGTAAAT
31477196 TGGATTCTTGTATCA
1 TGGATTCTT-TATCA
*
31477211 TGGATTTCTTTATCT
1 TGGA-TTCTTTATCA
31477226 TGGATTTCTTTAT
1 TGGA-TTCTTTAT
31477239 TTTGGGCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (14 bp):
TGGATTCTTTATCA
Found at i:31477265 original size:15 final size:15
Alignment explanation
Indices: 31477211--31477273 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
31477201 TCTTGTATCA
* *
31477211 TGGATTTCTTTATCT
1 TGGATTTCTCTATTT
*
31477226 TGGATTTCTTTATTT
1 TGGATTTCTCTATTT
**
31477241 TGGGCTTCTCTATTT
1 TGGATTTCTCTATTT
* *
31477256 TAGATTTCTCTATCT
1 TGGATTTCTCTATTT
31477271 TGG
1 TGG
31477274 TTTTTCTAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.13, C:0.14, G:0.16, T:0.57
Consensus pattern (15 bp):
TGGATTTCTCTATTT
Found at i:31480089 original size:49 final size:50
Alignment explanation
Indices: 31480008--31480240 Score: 254
Period size: 49 Copynumber: 4.7 Consensus size: 50
31479998 ATCTATTGTG
*
31480008 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
31480058 -GGTCGCATGTGTAGTACTAAGTGCAGCCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * ** **
31480108 CGATCACGTATGTAGTACTAAGTGCAGGCTGCTACGTGTATCAAATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
31480158 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
31480208 -GGTCGCATATGTACTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
31480241 TGCGCACTAG
Statistics
Matches: 147, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
49 69 0.47
50 44 0.30
51 34 0.23
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:31491077 original size:12 final size:12
Alignment explanation
Indices: 31491060--31491085 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31491050 CAACGAAAAG
31491060 AGAAGAATTACC
1 AGAAGAATTACC
31491072 AGAAGAATTACC
1 AGAAGAATTACC
31491084 AG
1 AG
31491086 GATTAACACC
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:0.50, C:0.15, G:0.19, T:0.15
Consensus pattern (12 bp):
AGAAGAATTACC
Found at i:31495257 original size:24 final size:23
Alignment explanation
Indices: 31495172--31495275 Score: 99
Period size: 24 Copynumber: 4.4 Consensus size: 23
31495162 TAGCTCGTAT
31495172 GAGCTTACTGTATCAGCTCAGA-A
1 GAGCTTACTGTATCAGCTCA-ATA
*
31495195 GAGCTTATTGT-TCAGCTCAATA
1 GAGCTTACTGTATCAGCTCAATA
*
31495217 GAGCTTACCAT-TTTCAGCTCAATA
1 GAGCTTA-C-TGTATCAGCTCAATA
*
31495241 GAGCTTATTGTTATCAGCTC-ATGAA
1 GAGCTTACTG-TATCAGCTCAAT--A
31495266 GAGCTTACTG
1 GAGCTTACTG
31495276 GCCATGTCTC
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
21 1 0.01
22 17 0.25
23 13 0.19
24 27 0.40
25 10 0.15
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (23 bp):
GAGCTTACTGTATCAGCTCAATA
Found at i:31497394 original size:29 final size:29
Alignment explanation
Indices: 31497362--31497522 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
31497352 AATTTAAGCC
* *** *
31497362 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
31497391 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* * * *
31497420 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACTTAGTGCCATATATTTCCAGC-T
*
31497450 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
31497478 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
31497507 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
31497523 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 113 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:31505234 original size:29 final size:29
Alignment explanation
Indices: 31505202--31505337 Score: 166
Period size: 29 Copynumber: 4.7 Consensus size: 29
31505192 ATACCCTTCG
** * *
31505202 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
31505231 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
31505260 AGCAT-GCACACTTAGTGCCATATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
31505289 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
31505318 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
31505338 ATCTCGTCAC
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
29 95 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:31505269 original size:58 final size:58
Alignment explanation
Indices: 31505177--31505337 Score: 160
Period size: 58 Copynumber: 2.8 Consensus size: 58
31505167 AATTTAAGCC
* *** * * * * *
31505177 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
31505235 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* **
31505293 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCA
31505338 ATCTCGTCAC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 84 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:31509032 original size:40 final size:40
Alignment explanation
Indices: 31508982--31509122 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
31508972 CCCAAGGCCA
* * *
31508982 TCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
* * *
31509022 TCGGGACTTAGCCCGGATATAGTTACTTGCACAAATACCT
1 TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
* * *
31509062 TC-GGATCTTAGTCCGGATGTAGTCACTTAGCACAAAAGCCT
1 TCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGCCT
*
31509103 TCGGGACTTAGCCCGTATAT
1 TCGGGACTTAGCCCGGATAT
31509123 GATTCGAGTA
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
39 3 0.04
40 53 0.64
41 24 0.29
42 3 0.04
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
Found at i:31514713 original size:18 final size:18
Alignment explanation
Indices: 31514690--31514728 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
31514680 TCAACAAGTA
31514690 CCACAAATTCTCGGATTT
1 CCACAAATTCTCGGATTT
31514708 CCACAAATTCTCGGATTT
1 CCACAAATTCTCGGATTT
31514726 CCA
1 CCA
31514729 AGATGCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (18 bp):
CCACAAATTCTCGGATTT
Found at i:31516943 original size:41 final size:40
Alignment explanation
Indices: 31516818--31516962 Score: 159
Period size: 40 Copynumber: 3.6 Consensus size: 40
31516808 CTCGTCCAAG
* * *
31516818 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
31516858 GCCTTTTGGA-CTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCC-TTCGGATCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
31516898 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGATCTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
31516939 GCCTTCGGGA-CTTAGCCCGTATAT
1 GCCTTC-GGATCTTAGCCCGGATAT
31516963 GATTCGAGTA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 5 0.06
40 49 0.56
41 30 0.34
42 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:31520566 original size:29 final size:29
Alignment explanation
Indices: 31520527--31520606 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
31520517 CTTAATAATC
*
31520527 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
31520557 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
31520586 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
31520607 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:31526965 original size:40 final size:40
Alignment explanation
Indices: 31526921--31527145 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
31526911 AACCCAATTA
* * ** *
31526921 CCTTCGCGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGCGACTTAACCCGGAAATAACAACCAGCACGAATG
* * * * * *
31526961 CCTTCGGGGCTTAACCTGAAAATAGCAACCAGCATGAATG
1 CCTTCGCGACTTAACCCGGAAATAACAACCAGCACGAATG
*
31527001 CCTTCGAGACTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGCGACTTAACCCGGAAATAACAACCAGCACGAATG
*
31527041 CCTTCGCGACTTAACCCGGGAATAACAACCAGCACGAATG
1 CCTTCGCGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
31527081 CCTTC-CGGACTTAACCCGAAAATAACAACCAGCATGAATG
1 CCTTCGC-GACTTAACCCGGAAATAACAACCAGCACGAATG
* *
31527121 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGCGACTTAACCCGGAAATAA
31527146 TCCTCAATTG
Statistics
Matches: 158, Mismatches: 25, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 157 0.99
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.18
Consensus pattern (40 bp):
CCTTCGCGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:31527134 original size:120 final size:120
Alignment explanation
Indices: 31526921--31527145 Score: 344
Period size: 120 Copynumber: 1.9 Consensus size: 120
31526911 AACCCAATTA
* * * * * * *
31526921 CCTTCGCGATTTAGCCCGGATGTAACAACCAGCACAAATGCCTTCGGGGCTTAACCTGAAAATAG
1 CCTTCGCGACTTAACCCGGATATAACAACCAGCACAAATGCCTTCCGGACTTAACCCGAAAATAA
31526986 CAACCAGCATGAATGCCTTCGAGACTTAACCCGGAAATAACAACCAGCACGAATG
66 CAACCAGCATGAATGCCTTCGAGACTTAACCCGGAAATAACAACCAGCACGAATG
*
31527041 CCTTCGCGACTTAACCCGGGA-ATAACAACCAGCACGAATGCCTTCCGGACTTAACCCGAAAATA
1 CCTTCGCGACTTAACCC-GGATATAACAACCAGCACAAATGCCTTCCGGACTTAACCCGAAAATA
* *
31527105 ACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATATAA
65 ACAACCAGCATGAATGCCTTCGAGACTTAACCCGGAAATAA
31527146 TCCTCAATTG
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
120 91 0.97
121 3 0.03
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.18
Consensus pattern (120 bp):
CCTTCGCGACTTAACCCGGATATAACAACCAGCACAAATGCCTTCCGGACTTAACCCGAAAATAA
CAACCAGCATGAATGCCTTCGAGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:31530116 original size:40 final size:40
Alignment explanation
Indices: 31530061--31530268 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
31530051 TGAATGATAC
*
31530061 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
31530101 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* ** * *
31530141 CCGGGCTAAGACCCAAAGGCATTCGTGCGAGTTG-TTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
31530181 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * * * *
31530221 CTGAGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
31530261 CC-GGCTAA
1 CCGGGCTAA
31530269 ATTCCGAAGA
Statistics
Matches: 138, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 5 0.04
40 131 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:31537340 original size:28 final size:28
Alignment explanation
Indices: 31537300--31537354 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
31537290 TCCTTGGCTT
31537300 GTAAAATAATTTTTATTCAATTTCCTTC
1 GTAAAATAATTTTTATTCAATTTCCTTC
*
31537328 GTAAAGTAATTTTTATTCAATTTCCTT
1 GTAAAATAATTTTTATTCAATTTCCTT
31537355 ACATTTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (28 bp):
GTAAAATAATTTTTATTCAATTTCCTTC
Found at i:31540420 original size:22 final size:22
Alignment explanation
Indices: 31540377--31540419 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31540367 AATTATTAAC
*
31540377 ATAATTAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
31540399 ATAATAAATTTTGA-TAATTTT
1 ATAATAAATTTTAATTAATTTT
31540420 TTATTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:31543236 original size:47 final size:46
Alignment explanation
Indices: 31543166--31543259 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 46
31543156 GTGTTGGAGG
* *
31543166 TCTTGTGTTCGATTCTTTGCATTGGTAAGGGATAGTATTTTTTTGTT
1 TCTTGTGTTCGATTCTCTACATTGGTAAGGGATAGTA-TTTTTTGTT
*
31543213 TCTTGTTTTCGATTCTCTACATTGGTAAGGGATAGTATTTTTTGTT
1 TCTTGTGTTCGATTCTCTACATTGGTAAGGGATAGTATTTTTTGTT
31543259 T
1 T
31543260 AGTTCTCGGC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 10 0.23
47 34 0.77
ACGTcount: A:0.16, C:0.10, G:0.21, T:0.53
Consensus pattern (46 bp):
TCTTGTGTTCGATTCTCTACATTGGTAAGGGATAGTATTTTTTGTT
Found at i:31545599 original size:7 final size:7
Alignment explanation
Indices: 31545589--31545652 Score: 62
Period size: 7 Copynumber: 9.0 Consensus size: 7
31545579 TAAAAATAGA
31545589 ATTTATT
1 ATTTATT
31545596 ATTTCATTTT
1 ATTT-A--TT
31545606 ATTTTATT
1 A-TTTATT
31545614 ATTTATT
1 ATTTATT
31545621 A--T-TT
1 ATTTATT
*
31545625 GTTTATT
1 ATTTATT
31545632 ATTTATT
1 ATTTATT
31545639 ATTTATT
1 ATTTATT
31545646 ATTTATT
1 ATTTATT
31545653 TAATTTAACT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
4 2 0.04
5 1 0.02
6 1 0.02
7 33 0.69
8 4 0.08
10 4 0.08
11 3 0.06
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (7 bp):
ATTTATT
Found at i:31545613 original size:18 final size:17
Alignment explanation
Indices: 31545590--31545658 Score: 74
Period size: 18 Copynumber: 4.1 Consensus size: 17
31545580 AAAAATAGAA
31545590 TTTATTATTTCATTTTAT
1 TTTATTATTT-ATTTTAT
31545608 TTTATTATTTATTATT-T
1 TTTATTATTTATT-TTAT
31545625 GTTTATTATTTA--TTA-
1 -TTTATTATTTATTTTAT
*
31545640 TTTATTATTTATTTAAT
1 TTTATTATTTATTTTAT
31545657 TT
1 TT
31545659 AACTTTAGCC
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
14 11 0.25
15 2 0.05
16 2 0.05
17 6 0.14
18 23 0.52
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTATTATTTATTTTAT
Found at i:31545623 original size:25 final size:24
Alignment explanation
Indices: 31545589--31545658 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 24
31545579 TAAAAATAGA
31545589 ATTTATTATTTCATTTTATTTTATT
1 ATTTATTATTT-ATTTTATTTTATT
*
31545614 ATTTATTATTT-GTTTATTATTTATT
1 ATTTATTATTTATTTTA-T-TTTATT
*
31545639 ATTTATTATTTATTTAATTT
1 ATTTATTATTTATTTTATTT
31545659 AACTTTAGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 4 0.10
24 3 0.08
25 29 0.74
26 3 0.08
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (24 bp):
ATTTATTATTTATTTTATTTTATT
Found at i:31548239 original size:18 final size:18
Alignment explanation
Indices: 31548208--31548245 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31548198 ATGATACAAA
*
31548208 TCGCGGCCACGACACTAG
1 TCGCGCCCACGACACTAG
*
31548226 TCGCGCCCATGACACTAG
1 TCGCGCCCACGACACTAG
31548244 TC
1 TC
31548246 AAGATAGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.39, G:0.24, T:0.16
Consensus pattern (18 bp):
TCGCGCCCACGACACTAG
Found at i:31555260 original size:27 final size:27
Alignment explanation
Indices: 31555233--31555450 Score: 235
Period size: 27 Copynumber: 8.1 Consensus size: 27
31555223 ACCAAAGTAC
*
31555233 CCCT-GATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
* *
31555259 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
* * *
31555286 CCCTTGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
**
31555313 CCCTCGATAGACAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
* * * *
31555340 CCCTCAATTTAAAAAATTACAATTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
* * * *
31555367 CCCTTGATTGATAAAATTACTATTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
31555394 CCCTCGATTTACAGAATTACCT-TTTTA
1 CCCTCGATTTACAGAATTA-CTATTTTA
* *
31555421 CCCTCGATTTATAAAATTA-TCATTTTA
1 CCCTCGATTTACAGAATTACT-ATTTTA
31555448 CCC
1 CCC
31555451 CTAGGGTGTT
Statistics
Matches: 162, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.01
26 4 0.02
27 155 0.96
28 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACTATTTTA
Found at i:31555296 original size:54 final size:54
Alignment explanation
Indices: 31555233--31555450 Score: 262
Period size: 54 Copynumber: 4.1 Consensus size: 54
31555223 ACCAAAGTAC
* *
31555233 CCCT-GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACTGTTTTACCCTCGATTGACAAAATTACTATTTTA
* * * *
31555286 CCCTTGATTTATAGAATTACTGTTTTACCCTCGATAGACAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACTGTTTTACCCTCGATTGACAAAATTACTATTTTA
* * * ** * *
31555340 CCCTCAATTTAAAAAATTACAATTTTACCCTTGATTGATAAAATTACTATTTTA
1 CCCTCGATTTACAGAATTACTGTTTTACCCTCGATTGACAAAATTACTATTTTA
* *
31555394 CCCTCGATTTACAGAATTACCT-TTTTACCCTCGATTTATAAAATTA-TCATTTTA
1 CCCTCGATTTACAGAATTA-CTGTTTTACCCTCGATTGACAAAATTACT-ATTTTA
31555448 CCC
1 CCC
31555451 CTAGGGTGTT
Statistics
Matches: 141, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
53 5 0.04
54 135 0.96
55 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (54 bp):
CCCTCGATTTACAGAATTACTGTTTTACCCTCGATTGACAAAATTACTATTTTA
Found at i:31555331 original size:81 final size:80
Alignment explanation
Indices: 31555242--31555450 Score: 285
Period size: 81 Copynumber: 2.6 Consensus size: 80
31555232 CCCCTGATTT
* ** * *
31555242 ACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTTGATTTATAGAATTACT
1 ACAGAATTACT-TTTTACCCTCGATTTAAAAAATTACAATTTTACCCTTGATTGATAAAATTACT
*
31555307 GTTTTACCCTCGATAG
65 ATTTTACCCTCGATAG
*
31555323 ACAGAATTACTATTTTACCCTCAATTTAAAAAATTACAATTTTACCCTTGATTGATAAAATTACT
1 ACAGAATTACT-TTTTACCCTCGATTTAAAAAATTACAATTTTACCCTTGATTGATAAAATTACT
**
31555388 ATTTTACCCTCGATTT
65 ATTTTACCCTCGATAG
*
31555404 ACAGAATTACCTTTTTACCCTCGATTTATAAAATTATC-ATTTTACCC
1 ACAGAATTA-CTTTTTACCCTCGATTTAAAAAATTA-CAATTTTACCC
31555451 CTAGGGTGTT
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
81 111 0.97
82 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (80 bp):
ACAGAATTACTTTTTACCCTCGATTTAAAAAATTACAATTTTACCCTTGATTGATAAAATTACTA
TTTTACCCTCGATAG
Found at i:31555809 original size:26 final size:27
Alignment explanation
Indices: 31555779--31555838 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
31555769 ACATATATGT
*
31555779 ATATCTGT-TCTAGTGGCTTAGCCACA
1 ATATCTGTATCTAGTGACTTAGCCACA
* * *
31555805 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTAGTGACTTAGCCACA
31555832 ATATCTG
1 ATATCTG
31555839 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTAGTGACTTAGCCACA
Found at i:31555989 original size:25 final size:25
Alignment explanation
Indices: 31555961--31556022 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
31555951 ATTCATATTT
* * *
31555961 TGATTTTGATTCTGTTACCTGATTC
1 TGATTCTGATTCAGTCACCTGATTC
31555986 TGATTCTGATTCAGTCACCTGATTC
1 TGATTCTGATTCAGTCACCTGATTC
*
31556011 TGATTCTAATTC
1 TGATTCTGATTC
31556023 TCATTTTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
TGATTCTGATTCAGTCACCTGATTC
Found at i:31557069 original size:30 final size:30
Alignment explanation
Indices: 31557033--31557090 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
31557023 AAGTTCTAGT
31557033 TGAAGTGTGATAGTGATAGTAGGATCAGAG
1 TGAAGTGTGATAGTGATAGTAGGATCAGAG
31557063 TGAAGTGTGATAGTGATAGTAGGATCAG
1 TGAAGTGTGATAGTGATAGTAGGATCAG
31557091 TGTGCGCAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.36, T:0.28
Consensus pattern (30 bp):
TGAAGTGTGATAGTGATAGTAGGATCAGAG
Found at i:31558120 original size:27 final size:27
Alignment explanation
Indices: 31558098--31558310 Score: 286
Period size: 27 Copynumber: 7.9 Consensus size: 27
31558088 AGTACCCCTA
*
31558098 ATTTACAAAATTATTATTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
31558125 ATTTACAAAATTACTGTTTTACCCTTG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
31558152 ATTTACAGAATTA-TCGTTTTACCCTCG
1 ATTTACAAAATTACT-ATTTTACCCTCG
* *
31558179 ATTGACAAAATTACTATTTTACCCTCA
1 ATTTACAAAATTACTATTTTACCCTCG
31558206 ATTTACAAAATTACTATTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
31558233 ATTTACAAAATTACTGTTTTACCTTCG
1 ATTTACAAAATTACTATTTTACCCTCG
*
31558260 ATTTACAGAATTACCT-TTTTACCCTCG
1 ATTTACAAAATTA-CTATTTTACCCTCG
* *
31558287 ATTTATAAAATTACCATTTTACCC
1 ATTTACAAAATTACTATTTTACCC
31558311 CTAGGGTGTT
Statistics
Matches: 164, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 159 0.97
28 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (27 bp):
ATTTACAAAATTACTATTTTACCCTCG
Found at i:31558871 original size:31 final size:31
Alignment explanation
Indices: 31558824--31558896 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
31558814 TCGCATTCAC
* * * * *
31558824 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTA
* *
31558855 ATTTTGATTCTAATTCTGTCACCTAATTCTA
1 ATTCTGATTCTAATTCTGTCACCTAATACTA
31558886 ATTCTGATTCT
1 ATTCTGATTCT
31558897 CATTTTGATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTAATACTA
Found at i:31560971 original size:9 final size:9
Alignment explanation
Indices: 31560959--31560991 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
31560949 AAAAATAGAA
31560959 TTTATTTTT
1 TTTATTTTT
31560968 TTTA-TTTT
1 TTTATTTTT
31560976 TTTATTTTT
1 TTTATTTTT
*
31560985 TTAATTT
1 TTTATTT
31560992 AGCTTTAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTATTTTT
Found at i:31560981 original size:17 final size:17
Alignment explanation
Indices: 31560959--31560991 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31560949 AAAAATAGAA
*
31560959 TTTATTTTTTTTATTTT
1 TTTATTTTTTTAATTTT
31560976 TTTATTTTTTTAATTT
1 TTTATTTTTTTAATTT
31560992 AGCTTTAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTATTTTTTTAATTTT
Found at i:31562165 original size:25 final size:25
Alignment explanation
Indices: 31562121--31562169 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
31562111 CATCAGTTTT
* *
31562121 CTGAAACTGTTTTTGATAGTATATC
1 CTGAAACTGTTATAGATAGTATATC
*
31562146 CTGAAACTGTTATAGGTAGTATAT
1 CTGAAACTGTTATAGATAGTATAT
31562170 GCTAAGACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (25 bp):
CTGAAACTGTTATAGATAGTATATC
Found at i:31568817 original size:40 final size:40
Alignment explanation
Indices: 31568772--31568901 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
31568762 CGGAATATAA
31568772 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
31568812 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
31568852 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
31568892 CCGGATATAA
1 CCGGATATAA
31568902 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:31568916 original size:40 final size:39
Alignment explanation
Indices: 31568788--31568938 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
31568778 ATAACCATGT
* * *
31568788 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
31568828 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
31568868 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
31568907 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
31568939 CATTCAAATT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:31568922 original size:80 final size:79
Alignment explanation
Indices: 31568772--31568938 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
31568762 CGGAATATAA
*
31568772 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
31568837 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
31568852 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
31568914 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
31568931 CCGGATAT
1 CCGGATAT
31568939 CATTCAAATT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:31573734 original size:42 final size:43
Alignment explanation
Indices: 31573674--31573777 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
31573664 ATGATTTATG
** * *
31573674 TGTAAGACCACATCTGGGAT-GTTGGCATCG-TACTTGATTTCG
1 TGTAAGACCATGTCTGGGATAG-TGGCATCGATACTTGATTACA
* * *
31573716 TGTAAGACCGTGTTTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGATAGTGGCATCGATACTTGATTACA
31573759 TGTAAGACCATGTCTGGGA
1 TGTAAGACCATGTCTGGGA
31573778 CATTAGCATT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 24 0.47
43 27 0.53
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGATAGTGGCATCGATACTTGATTACA
Found at i:31574769 original size:20 final size:20
Alignment explanation
Indices: 31574746--31574785 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
31574736 TTTTTTGAAA
31574746 TTTTATGGAAGAATATGAGT
1 TTTTATGGAAGAATATGAGT
31574766 TTTTATGGAAGAATATGAGT
1 TTTTATGGAAGAATATGAGT
31574786 CTTAGTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (20 bp):
TTTTATGGAAGAATATGAGT
Found at i:31576508 original size:40 final size:40
Alignment explanation
Indices: 31576449--31576669 Score: 286
Period size: 40 Copynumber: 5.5 Consensus size: 40
31576439 TATTCGGATG
* *
31576449 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
31576489 A-AATCCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTTATT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
31576529 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31576569 ATAACCGGGCTAAGTCCCGAAGGCATATGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** *
31576609 ATAACCGGGCTAAGTCCCGAAGATATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
31576649 ATATCC-GGCTAAACCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAG
31576670 CTACTTGGTG
Statistics
Matches: 162, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 17 0.10
40 144 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:31583186 original size:13 final size:13
Alignment explanation
Indices: 31583168--31583193 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31583158 CGTACCTAGA
31583168 AGAAAAAAAAAAG
1 AGAAAAAAAAAAG
31583181 AGAAAAAAAAAAG
1 AGAAAAAAAAAAG
31583194 GCTTCATCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:31584144 original size:40 final size:40
Alignment explanation
Indices: 31584088--31584212 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
31584078 GAATAGCCGT
* *
31584088 CGAAGGCATTTTTGCGAGTTATTATAACCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
*
31584128 CGAAGGCATATGTGCGAGTTACTATAACCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
* * * **
31584168 CGAAGACATTTGAGCGAG-TAGCTATATCC-GGCTAAACCC
1 CGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCC
31584207 CGAAGG
1 CGAAGG
31584213 TACTTGGTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
39 15 0.20
40 59 0.80
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
Found at i:31587598 original size:20 final size:20
Alignment explanation
Indices: 31587560--31587598 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31587550 ATAATTAAGA
* *
31587560 ACAAGTCAAATATTTATAAT
1 ACAAGTCAAATAATAATAAT
*
31587580 ACAATTCAAATAATAATAA
1 ACAAGTCAAATAATAATAA
31587599 CAAGATCCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (20 bp):
ACAAGTCAAATAATAATAAT
Found at i:31591611 original size:20 final size:20
Alignment explanation
Indices: 31591573--31591611 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31591563 ATAATTAAGA
* *
31591573 ACAAGTCAAATATTTATAAT
1 ACAAGTCAAATAATAATAAT
*
31591593 ACAATTCAAATAATAATAA
1 ACAAGTCAAATAATAATAA
31591612 CAAGATCCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (20 bp):
ACAAGTCAAATAATAATAAT
Found at i:31599543 original size:11 final size:11
Alignment explanation
Indices: 31599527--31599551 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31599517 CTATAGTTGG
31599527 AAAATGGTCCC
1 AAAATGGTCCC
31599538 AAAATGGTCCC
1 AAAATGGTCCC
31599549 AAA
1 AAA
31599552 TATTTACGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (11 bp):
AAAATGGTCCC
Found at i:31601307 original size:27 final size:26
Alignment explanation
Indices: 31601259--31601318 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
31601249 GCGAGACTGC
*
31601259 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
31601286 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
31601312 CATATAT
1 CAGATAT
31601319 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:31603890 original size:31 final size:31
Alignment explanation
Indices: 31603855--31603918 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
31603845 CCTTTTCATG
31603855 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
31603886 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
31603917 TT
1 TT
31603919 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:31604161 original size:24 final size:24
Alignment explanation
Indices: 31604110--31604252 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
31604100 GCTTTATCAT
*
31604110 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
31604135 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
31604159 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
31604182 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
31604206 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
31604230 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
31604253 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:31604189 original size:47 final size:48
Alignment explanation
Indices: 31604110--31604251 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
31604100 GCTTTATCAT
* *
31604110 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
31604159 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
31604206 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
31604252 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:31604210 original size:71 final size:72
Alignment explanation
Indices: 31604109--31604252 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
31604099 TGCTTTATCA
*
31604109 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
31604174 GCCCTTT
66 GCCCTTT
* * **
31604181 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
31604244 AGCCCTTT
65 AGCCCTTT
31604252 T
1 T
31604253 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:31604327 original size:20 final size:20
Alignment explanation
Indices: 31604302--31604362 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
31604292 TTATGATTAC
31604302 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
31604322 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
31604342 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
31604362 A
1 A
31604363 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31604437 original size:25 final size:25
Alignment explanation
Indices: 31604405--31604452 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31604395 ATACATAAAC
* * *
31604405 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
31604430 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
31604453 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:31609413 original size:16 final size:16
Alignment explanation
Indices: 31609394--31609425 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31609384 GAAATGAAAA
31609394 GAAATTGAATTTCAAG
1 GAAATTGAATTTCAAG
31609410 GAAATTGAATTTCAAG
1 GAAATTGAATTTCAAG
31609426 TCGGTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
GAAATTGAATTTCAAG
Found at i:31611213 original size:46 final size:48
Alignment explanation
Indices: 31611067--31611332 Score: 223
Period size: 47 Copynumber: 5.7 Consensus size: 48
31611057 CTTGTGGCTT
* *
31611067 AGTGTAAGA-CATGTCTGGGACATGCATCGG-CTAC-A-TTTTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGT-AGAGCC
* ** * * *
31611113 AGTGTAAGACCATGTCTGAGACATGACATCAACATTGAGACG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCCTCGAGATGTAGAGCC
* *
31611161 AGTGTAAGA-CATGTTTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
* * * *
31611207 AGTGTAAGA-CATGTATGGGACATGTATCGG-CTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAGAGCC
* * ** *
31611253 AATGTAAGACCATGTCTGGGACATGGCATC-GACTTAAGATAT-GAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAGCC
31611300 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC
31611333 AACTTACCCA
Statistics
Matches: 179, Mismatches: 28, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
45 3 0.02
46 70 0.39
47 78 0.44
48 26 0.15
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
Found at i:31611320 original size:140 final size:141
Alignment explanation
Indices: 31611067--31611332 Score: 360
Period size: 140 Copynumber: 1.9 Consensus size: 141
31611057 CTTGTGGCTT
* ** *
31611067 AGTGTAAGACATGTCTGGGACATGCATCGGCTACATTTTGAGAGCCAGTGTAAGACCATGTCTGA
1 AGTGTAAGACATGTATGGGACATGCATCGGCTACATGATGAGAGCCAATGTAAGACCATGTCTGA
* *
31611132 GACATGACATCAACATTGAGACGAGAGCCAGTGTAAGACATGTTTGGGACAT-GCATCGGCCTCG
66 GACATGACATCAACATTAAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
31611196 AGACGTAAGCC
131 AGACGTAAGCC
* * *
31611207 AGTGTAAGACATGTATGGGACATGTATCGGCTACGA-GATGATAGTCAATGTAAGACCATGTCTG
1 AGTGTAAGACATGTATGGGACATGCATCGGCTAC-ATGATGAGAGCCAATGTAAGACCATGTCTG
* * * *
31611271 GGACATGGCATCGAC-TTAAGA-TATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
65 AGACATGACATCAACATTAAGACGA-GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
31611333 AACTTACCCA
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.17
140 80 0.73
141 9 0.08
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTATGGGACATGCATCGGCTACATGATGAGAGCCAATGTAAGACCATGTCTGA
GACATGACATCAACATTAAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
AGACGTAAGCC
Found at i:31614226 original size:46 final size:46
Alignment explanation
Indices: 31614159--31614330 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
31614149 AACCCGCCCC
*
31614159 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
31614205 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
31614253 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
31614298 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
31614331 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:31614271 original size:93 final size:93
Alignment explanation
Indices: 31614164--31614334 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
31614154 GCCCCTAAGT
* *
31614164 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31614229 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
31614257 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31614322 CGAGTTCGGATGC
66 CGAGTTCGGATGC
31614335 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31614772 original size:30 final size:30
Alignment explanation
Indices: 31614738--31614797 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31614728 ATTTAATACG
31614738 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
31614768 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
31614798 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:31621815 original size:92 final size:93
Alignment explanation
Indices: 31621704--31621873 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
31621694 GCCCCTAAGT
* *
31621704 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31621769 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
31621797 GAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31621861 CGAGTTCGGATGC
66 CGAGTTCGGATGC
31621874 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 68 0.92
93 6 0.08
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31621870 original size:46 final size:46
Alignment explanation
Indices: 31621699--31621870 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
31621689 AACCCGCCCC
* * *
31621699 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
31621745 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
31621793 TCA-CGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
31621837 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31621871 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 2 0.02
44 2 0.02
45 6 0.06
46 76 0.71
47 6 0.06
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:31629335 original size:93 final size:93
Alignment explanation
Indices: 31629227--31629396 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
31629217 CCCCTAAGTG
* *
31629227 AACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACT-GAGACTCAACTCAA
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCG-GACTCAACTCAA
31629291 CGAGTTCGGATGCCTAGTTACATCTCACA
65 CGAGTTCGGATGCCTAGTTACATCTCACA
* * *
31629320 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
31629385 TAGTTCGGATGC
66 GAGTTCGGATGC
31629397 TCAACCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Done.