Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 82 of 297
Found at i:29433021 original size:90 final size:90
Alignment explanation
Indices: 29432864--29433031 Score: 221
Period size: 90 Copynumber: 1.9 Consensus size: 90
29432854 TTTGGATTGA
* * * *
29432864 GAAATAAGAAAGACTATAGTTGAAAGATACCATAACATTGTACCAGAAACGAAAAAGACCATGGT
1 GAAATAAGAAAGACTATAGTTGAAAGACACCATAACACTATACCAGAAACGAAAAAGACCATAGT
29432929 TGAAAGATACCATTGCATTATACCC
66 TGAAAGATACCATTGCATTATACCC
* * ** * * *
29432954 GAAATGAGAAAGA-TCATAGTTGAAAGACACTATGGCACTATACCAGAAATGTATAAGACCATAG
1 GAAATAAGAAAGACT-ATAGTTGAAAGACACCATAACACTATACCAGAAACGAAAAAGACCATAG
29433018 TTGAAAGATACCAT
65 TTGAAAGATACCAT
29433032 GACAATACAT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
89 1 0.02
90 65 0.98
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (90 bp):
GAAATAAGAAAGACTATAGTTGAAAGACACCATAACACTATACCAGAAACGAAAAAGACCATAGT
TGAAAGATACCATTGCATTATACCC
Found at i:29436586 original size:48 final size:47
Alignment explanation
Indices: 29436529--29436806 Score: 267
Period size: 48 Copynumber: 5.8 Consensus size: 47
29436519 ATGTTGAGGA
*
29436529 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGC
* * * * *
29436577 CGATACCATGTCCCGGGCATGATCTTACACTGGCTCTC-AT-AATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAA--T-GC
* * *
29436625 CAATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGC
* * * * *
29436673 CGATACCATGTCCCGGGCATGATCTTACACTGGCTCTC-AT-AATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAA--T-GC
* * * *
29436721 CAATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGC
* *
29436769 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC
29436807 ATAATGTGGC
Statistics
Matches: 181, Mismatches: 37, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
45 4 0.02
46 2 0.01
47 2 0.01
48 164 0.91
49 2 0.01
50 3 0.02
51 4 0.02
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAATGC
Found at i:29436671 original size:96 final size:96
Alignment explanation
Indices: 29436531--29436817 Score: 484
Period size: 96 Copynumber: 3.0 Consensus size: 96
29436521 GTTGAGGACG
*
29436531 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATACCATGTCCCGGGCA
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATACCATGTCCCGGGCA
29436596 TGATCTTACACTGGCTCTCATAATGTGGCCA
66 TGATCTTACACTGGCTCTCATAATGTGGCCA
29436627 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATACCATGTCCCGGGCA
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATACCATGTCCCGGGCA
29436692 TGATCTTACACTGGCTCTCATAATGTGGCCA
66 TGATCTTACACTGGCTCTCATAATGTGGCCA
* * * * * ***
29436723 ATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAAACA
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATACCATGTCCCGGGCA
*
29436788 TGGTCTTACACTGGCTCTCATAATGTGGCC
66 TGATCTTACACTGGCTCTCATAATGTGGCC
29436818 TGTAACACCC
Statistics
Matches: 181, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 181 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATACCATGTCCCGGGCA
TGATCTTACACTGGCTCTCATAATGTGGCCA
Found at i:29437764 original size:15 final size:16
Alignment explanation
Indices: 29437735--29437774 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
29437725 CCTCACTTGC
*
29437735 ACATTTCCA-TCC-AA
1 ACATTACCATTCCAAA
29437749 ACATTACCATTCCAAA
1 ACATTACCATTCCAAA
29437765 ACA-TACCATT
1 ACATTACCATT
29437775 TGTAAGCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 8 0.35
15 10 0.43
16 5 0.22
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
ACATTACCATTCCAAA
Found at i:29438493 original size:23 final size:23
Alignment explanation
Indices: 29438392--29438504 Score: 95
Period size: 23 Copynumber: 4.8 Consensus size: 23
29438382 AGGCTCTTCC
*
29438392 TGAGCTGATAAACAGTAAGCTCTAT
1 TGAGCTG--AAACGGTAAGCTCTAT
* * *
29438417 TGCGCTAAAAACGGTAAGCTTTAT
1 TGAGCT-GAAACGGTAAGCTCTAT
*
29438441 TAAGCT-AAACGGTAAGCTCT-T
1 TGAGCTGAAACGGTAAGCTCTAT
* * *
29438462 TCGATCTGAATCGGTAAGCTCTAA
1 T-GAGCTGAAACGGTAAGCTCTAT
*
29438486 TGAGCTGAAACAGTAAGCT
1 TGAGCTGAAACGGTAAGCT
29438505 TTTACAAGCT
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
21 2 0.03
22 16 0.23
23 28 0.40
24 19 0.27
25 5 0.07
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (23 bp):
TGAGCTGAAACGGTAAGCTCTAT
Found at i:29441743 original size:42 final size:42
Alignment explanation
Indices: 29441677--29441773 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
29441667 ACGGCTAACC
**
29441677 ACACGCCCATGTGCCAGCTTGTGTGCCAAACACGACCGATAG
1 ACACGCCCATGTGCCAGCCCGTGTGCCAAACACGACCGATAG
* * * * *
29441719 ACACGCCCATGTGCCTGCCCGTGTGCCACACAGGACTGATAT
1 ACACGCCCATGTGCCAGCCCGTGTGCCAAACACGACCGATAG
* *
29441761 ACACACCCTTGTG
1 ACACGCCCATGTG
29441774 TCAGGCCACA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.24, C:0.35, G:0.23, T:0.19
Consensus pattern (42 bp):
ACACGCCCATGTGCCAGCCCGTGTGCCAAACACGACCGATAG
Found at i:29446908 original size:23 final size:23
Alignment explanation
Indices: 29446832--29446989 Score: 129
Period size: 23 Copynumber: 6.7 Consensus size: 23
29446822 GACTCATCAT
* *
29446832 AGCTCATATGAGCTTATCGATATATC
1 AGCTCATAAGAGCTTACCG-T-T-TC
*
29446858 AGCTCATAAGAGCTTACTGTTTTC
1 AGCTCATAAGAGCTTACCG-TTTC
**
29446882 AGCTCATTGGAGCTTACCGTTTC
1 AGCTCATAAGAGCTTACCGTTTC
* *
29446905 AGCTCAAAAGAGCTTACCATTTC
1 AGCTCATAAGAGCTTACCGTTTC
* * *
29446928 AACTCGAT-AGAGCTTACTGTTTT
1 AGCTC-ATAAGAGCTTACCGTTTC
* * *
29446951 AACTCAAAAGAGCTTACCGTTTT
1 AGCTCATAAGAGCTTACCGTTTC
* *
29446974 AGATCATTAGAGCTTA
1 AGCTCATAAGAGCTTA
29446990 TTGTTATTAG
Statistics
Matches: 108, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
22 1 0.01
23 70 0.65
24 19 0.18
25 1 0.01
26 17 0.16
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (23 bp):
AGCTCATAAGAGCTTACCGTTTC
Found at i:29453357 original size:55 final size:56
Alignment explanation
Indices: 29453292--29453406 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
29453282 AGCATGGCTG
* *
29453292 CCAGATACAGA-AAATGTGAC-AGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAAG-GCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* *
29453348 CCAGA-ACAGATATATGTGGCAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
29453403 CCAG
1 CCAG
29453407 GATGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 20 0.38
57 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:29453374 original size:27 final size:27
Alignment explanation
Indices: 29453317--29453406 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 27
29453307 GTGACAGAGT
29453317 CACCAGATACAGATATTTTGTGGC-AGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAAG-GC
*
29453346 CACCAGAACAGATATATGTGGCAAGGC
1 CACCAGAACAGATATTTGTGGCAAGGC
29453373 CACCAGAACAGATAATTTGTGGCATA-GC
1 CACCAGAACAGAT-ATTTGTGGCA-AGGC
29453401 CACCAG
1 CACCAG
29453407 GATGCTTCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
27 22 0.39
28 26 0.46
29 8 0.14
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAAGGC
Found at i:29453402 original size:28 final size:28
Alignment explanation
Indices: 29453317--29453406 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 28
29453307 GTGACAGAGT
*
29453317 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
*
29453346 CACCAGAACAGAT-ATATGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
29453373 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
29453401 CACCAG
1 CACCAG
29453407 GATGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 8 0.15
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:29453559 original size:28 final size:28
Alignment explanation
Indices: 29453512--29453607 Score: 156
Period size: 28 Copynumber: 3.4 Consensus size: 28
29453502 AAATTAACCC
* * *
29453512 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
29453540 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
29453568 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
29453596 TAGGGGTATAAT
1 TAGGGGTATAAT
29453608 AGTGCATCTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:29455498 original size:71 final size:71
Alignment explanation
Indices: 29455416--29455559 Score: 270
Period size: 71 Copynumber: 2.0 Consensus size: 71
29455406 CTCTGCCATG
29455416 GTTACGCCAAAGCACTTTCACTAATGGTACAGATTTCCTCCTCAGAACCTTAACGTCTCGATCCA
1 GTTACGCCAAAGCACTTTCACTAATGGTACAGATTTCCTCCTCAGAACCTTAACGTCTCGATCCA
29455481 ATATTT
66 ATATTT
* *
29455487 GTTACGCCAAAGCACTTTCACTAATGGTACCGATTTCCTCCTCAGAACCTTAACGTCTCGATGCA
1 GTTACGCCAAAGCACTTTCACTAATGGTACAGATTTCCTCCTCAGAACCTTAACGTCTCGATCCA
29455552 ATATTT
66 ATATTT
29455558 GT
1 GT
29455560 ACAGACTCCT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (71 bp):
GTTACGCCAAAGCACTTTCACTAATGGTACAGATTTCCTCCTCAGAACCTTAACGTCTCGATCCA
ATATTT
Found at i:29461176 original size:55 final size:58
Alignment explanation
Indices: 29461059--29461192 Score: 161
Period size: 56 Copynumber: 2.4 Consensus size: 58
29461049 AGCATGGCTG
* * * * *
29461059 CCAGATACAGA-AA-ATGTGACAGAGTCACCAGATACAGATATTTTGGTGGCAGTGCCA
1 CCAGA-ACAGATAATATGTGGCAGGGCCACCAGATACAGATAATTTGGTGGCAGGGCCA
29461116 CCAGAACAGAT-ATATGTGGCAGGGCCACCAGA-ACAGATAATTT-GTGGCAGGGCCA
1 CCAGAACAGATAATATGTGGCAGGGCCACCAGATACAGATAATTTGGTGGCAGGGCCA
* *
29461171 CCAGAACATATAATTTGTGGCA
1 CCAGAACAGATAATATGTGGCA
29461193 TAACCACCAG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
55 21 0.31
56 25 0.37
57 21 0.31
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (58 bp):
CCAGAACAGATAATATGTGGCAGGGCCACCAGATACAGATAATTTGGTGGCAGGGCCA
Found at i:29461202 original size:28 final size:28
Alignment explanation
Indices: 29461084--29461192 Score: 157
Period size: 28 Copynumber: 3.9 Consensus size: 28
29461074 GTGACAGAGT
* *
29461084 CACCAGATACAGATATTTTGGTGGCAGTGC
1 CACCAGA-ACAGATAATTT-GTGGCAGGGC
*
29461114 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
29461141 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
*
29461169 CACCAGAACATATAATTTGTGGCA
1 CACCAGAACAGATAATTTGTGGCA
29461193 TAACCACCAG
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
27 22 0.30
28 38 0.52
29 6 0.08
30 7 0.10
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:29464837 original size:23 final size:23
Alignment explanation
Indices: 29464751--29464889 Score: 113
Period size: 23 Copynumber: 5.8 Consensus size: 23
29464741 GGACTCATCA
29464751 TAGCTCG-TATGAGCTTACCGATATAT
1 TAGCTCGATA-GAGCTTACCG-T-T-T
* *
29464777 CAGCTCG-TAAGAGCTTACTGTTT
1 TAGCTCGAT-AGAGCTTACCGTTT
*
29464800 TCAGCTC-ATTGGAGCTTACCGTTT
1 T-AGCTCGA-TAGAGCTTACCGTTT
* *
29464824 TAGCTTGATAGAGCTTACTGTTTT
1 TAGCTCGATAGAGCTTACCG-TTT
*
29464848 TCAACTCGATAGAGCTTACCGTTT
1 T-AGCTCGATAGAGCTTACCGTTT
*
29464872 CAGCTCGATAGAGCTTAC
1 TAGCTCGATAGAGCTTAC
29464890 TATTTCAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 17
0.76 0.11 0.14
Matches are distributed among these distances:
23 31 0.33
24 27 0.29
25 18 0.19
26 16 0.17
27 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (23 bp):
TAGCTCGATAGAGCTTACCGTTT
Found at i:29464864 original size:25 final size:24
Alignment explanation
Indices: 29464776--29464901 Score: 136
Period size: 23 Copynumber: 5.3 Consensus size: 24
29464766 TACCGATATA
29464776 TCAGCTCG-TAAGAGCTTACTGTTT
1 TCAGCTCGAT-AGAGCTTACTGTTT
* *
29464800 TCAGCTC-ATTGGAGCTTACCGTTT
1 TCAGCTCGA-TAGAGCTTACTGTTT
*
29464824 T-AGCTTGATAGAGCTTACTGTTTT
1 TCAGCTCGATAGAGCTTACTG-TTT
* *
29464848 TCAACTCGATAGAGCTTACCG-TT
1 TCAGCTCGATAGAGCTTACTGTTT
*
29464871 TCAGCTCGATAGAGCTTACT-ATT
1 TCAGCTCGATAGAGCTTACTGTTT
29464894 TCAGCTCG
1 TCAGCTCG
29464902 GGAGGAGCTT
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
23 44 0.51
24 25 0.29
25 17 0.20
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (24 bp):
TCAGCTCGATAGAGCTTACTGTTT
Found at i:29464867 original size:48 final size:47
Alignment explanation
Indices: 29464761--29464890 Score: 156
Period size: 48 Copynumber: 2.7 Consensus size: 47
29464751 TAGCTCGTAT
* *
29464761 GAGCTTACCGATATATCAGCTCG-TAAGAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACCG-T-T-TCAGCTCGAT-AGAGCTTACTGTTTTCAACTCATTA
* *
29464811 GAGCTTACCGTTTTAGCTTGATAGAGCTTACTGTTTTTCAACTCGA-TA
1 GAGCTTACCGTTTCAGCTCGATAGAGCTTACTG-TTTTCAACTC-ATTA
29464859 GAGCTTACCGTTTCAGCTCGATAGAGCTTACT
1 GAGCTTACCGTTTCAGCTCGATAGAGCTTACT
29464891 ATTTCAGCTC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
47 17 0.24
48 42 0.59
49 2 0.03
50 10 0.14
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (47 bp):
GAGCTTACCGTTTCAGCTCGATAGAGCTTACTGTTTTCAACTCATTA
Found at i:29468256 original size:21 final size:22
Alignment explanation
Indices: 29468232--29468276 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
29468222 ACAATGTCTC
29468232 AATTCACA-CAATTACTATATA
1 AATTCACATCAATTACTATATA
* * *
29468253 AATTCTCATCACTTGCTATATA
1 AATTCACATCAATTACTATATA
29468275 AA
1 AA
29468277 AGCTTTTCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (22 bp):
AATTCACATCAATTACTATATA
Found at i:29483998 original size:40 final size:40
Alignment explanation
Indices: 29483943--29484255 Score: 518
Period size: 40 Copynumber: 7.8 Consensus size: 40
29483933 GAGCATTGGA
29483943 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29483983 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29484023 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
29484063 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29484103 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
29484143 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29484183 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
29484223 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
29484256 TTTGCGGCTG
Statistics
Matches: 253, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 253 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:29486741 original size:26 final size:26
Alignment explanation
Indices: 29486705--29486756 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
29486695 TGACTAAACC
29486705 ATGCTTTGATACCACTAAATGTAACA
1 ATGCTTTGATACCACTAAATGTAACA
*
29486731 ATGCTTTGATACCGCTAAATGTAACA
1 ATGCTTTGATACCACTAAATGTAACA
29486757 CCCCTTACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (26 bp):
ATGCTTTGATACCACTAAATGTAACA
Found at i:29487116 original size:73 final size:75
Alignment explanation
Indices: 29486993--29487145 Score: 215
Period size: 73 Copynumber: 2.1 Consensus size: 75
29486983 ATGAAACAGG
* *
29486993 GTCACACGCCTCTCTGGAAATAGGGACACGCCCGTGTCTTCAGGCCGTGTAACTCTCTAATTATG
1 GTCACACGCCTCTCTGGAAATAGGGACACGCCCGTGTCCTCAAGCCGTGTAACTCTCTAATTATG
29487058 ACATCAGCAT
66 ACATCAGCAT
* * * *
29487068 GTCACACG-CTCGTGTGGACATA-GGAC-CGCCCGTGTCCTCAAGCTGTGTAACTCTCTATTTAT
1 GTCACACGCCTC-TCTGGAAATAGGGACACGCCCGTGTCCTCAAGCCGTGTAACTCTCTAATTAT
29487130 GACATCAGCAT
65 GACATCAGCAT
29487141 G-CACA
1 GTCACA
29487146 TCGTACTACA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
72 4 0.06
73 44 0.62
74 7 0.10
75 16 0.23
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (75 bp):
GTCACACGCCTCTCTGGAAATAGGGACACGCCCGTGTCCTCAAGCCGTGTAACTCTCTAATTATG
ACATCAGCAT
Found at i:29489129 original size:37 final size:37
Alignment explanation
Indices: 29489037--29489456 Score: 279
Period size: 37 Copynumber: 11.5 Consensus size: 37
29489027 ATGCCGACCT
* *
29489037 TTAAAAAAGGTTGGGATAGACCTAGTC-AAGGCCAACC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGG-TAACC
* * **
29489074 TTTGAAAAAGGTTAGGATAGACC-AATCTAAGGTAACAC
1 -TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAAC-C
* *
29489112 TTAAAAAAGGTTGGGATAGACTCAT-T-TAAGATAACC
1 TTAAAAAAGGTTGGGATAGAC-CTTGTCTAAGGTAACC
* *
29489148 TT-TAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAA-CC
* * *
29489185 TTAAAAAATGTTAGGATAGA-CTTGTTTAAGGTAACC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
*
29489221 TT-AAAAAGGTTGGGATAGACCTTCTCTAAGGTAACCC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAA-CC
* * ** * *
29489258 TTAAAAAAAGTTGGAATAGA-CTCCTCTAAAGCAACC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
* * * * *
29489294 CT-AAAAGGGTTAGGATAGACCTTGTTTAAGGCAACC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
** ** ** ***
29489330 TTTAAAAAA-GTTAAGATA-AAGTCATCTAATACAACC
1 -TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
* * ** *
29489366 TT-AAAAAGGTTGGGATATACCTTATCTAAGACAACT
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
* * * ** *
29489402 TTTAAAAAGGTTGGGATATACCTTATCTAAGACAACT
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
*
29489439 TTTAAAAAGGTTGGGATA
1 TTAAAAAAGGTTGGGATA
29489457 AACCCGTCTA
Statistics
Matches: 313, Mismatches: 52, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
34 7 0.02
35 55 0.18
36 66 0.21
37 125 0.40
38 60 0.19
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (37 bp):
TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
Found at i:29489169 original size:110 final size:108
Alignment explanation
Indices: 29489041--29489456 Score: 315
Period size: 110 Copynumber: 3.8 Consensus size: 108
29489031 CGACCTTTAA
* *
29489041 AAAAGGTTGGGATAGACCTAGTC-AAGGCCAACCTTTGAAAAAGGTTAGGATAGACCAATCTAAG
1 AAAAGGTTGGGATAGACCTAGTCTAAGG-CAACCCTTAAAAAAGGTTAGGATAGACCAATCTAAG
29489105 GTAACACTTAAAAAAGGTTGGGATAGACTCATTTAAGATAACCTTT
65 GTAAC-CTT-AAAAAGGTTGGGATAGACTCATTTAAGATAACCTTT
* * *** *
29489151 AAAAGGTTGGGATAGACCTTGTCTAAGGCAACCCTTAAAAAATGTTAGGATAGACTTGTTTAAGG
1 AAAAGGTTGGGATAGACCTAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACCAATCTAAGG
* * *
29489216 TAACCTTAAAAAGGTTGGGATAGACCTTC-TCTAAGGTAACCCTTAA
66 TAACCTTAAAAAGGTTGGGATAGA-C-TCATTTAAGATAA-CCTT-T
* * ** * * ** *
29489262 AAAAAGTTGGAATAGA-CTCCTCTAAAGCAACCC-T-AAAAGGGTTAGGATAGACCTTGTTTAAG
1 AAAAGGTTGGGATAGACCTAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACC-AATCTAAG
* * ** * * * * * *
29489324 GCAACCTTTAAAAAAGTTAAGATAAAGTCATCTAATACAACCTTA
65 GTAACC-TTAAAAAGGTTGGGATAGACTCATTTAAGATAACCTTT
* * * * * * *
29489369 AAAAGGTTGGGATATACCTTA-TCTAAGACAA-CTTTTAAAAAGGTTGGGATATACCTTATCTAA
1 AAAAGGTTGGGATAGACC-TAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACC-AATCTAA
** *
29489432 GACAACTTTTAAAAAGGTTGGGATA
64 GGTAAC-CTTAAAAAGGTTGGGATA
29489457 AACCCGTCTA
Statistics
Matches: 248, Mismatches: 45, Indels: 27
0.77 0.14 0.08
Matches are distributed among these distances:
107 15 0.06
108 49 0.20
109 75 0.30
110 91 0.37
111 18 0.07
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (108 bp):
AAAAGGTTGGGATAGACCTAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACCAATCTAAGG
TAACCTTAAAAAGGTTGGGATAGACTCATTTAAGATAACCTTT
Found at i:29489203 original size:73 final size:73
Alignment explanation
Indices: 29489037--29489456 Score: 343
Period size: 73 Copynumber: 5.7 Consensus size: 73
29489027 ATGCCGACCT
* * * *
29489037 TTAAAAAAGGTTGGGATAGAC-CTAGTC-AAGGCCAACCTTTGAAAAAGGTTAGGATAGACC-AA
1 TTAAAAAAGGTTAGGATAGACTC-A-TCTAA-GACAACCTTT--AAAAGGTTGGGATAGACCTTA
* *
29489099 TCTAAGGTAACAC
61 TCTAAGGCAACCC
* * * *
29489112 TTAAAAAAGGTTGGGATAGACTCATTTAAGATAACCTTTAAAAGGTTGGGATAGACCTTGTCTAA
1 TTAAAAAAGGTTAGGATAGACTCATCTAAGACAACCTTTAAAAGGTTGGGATAGACCTTATCTAA
29489177 GGCAACCC
66 GGCAACCC
* ** * ** * *
29489185 TTAAAAAATGTTAGGATAGACTTGTTTAAGGTAACCTTAAAAAGGTTGGGATAGACCTTCTCTAA
1 TTAAAAAAGGTTAGGATAGACTCATCTAAGACAACCTTTAAAAGGTTGGGATAGACCTTATCTAA
*
29489250 GGTAACCC
66 GGCAACCC
* * * * * *
29489258 TTAAAAAAAGTT-GGAATAGACTCCTCTAA-AGCAACC-CTAAAAGGGTTAGGATAGACCTTGTT
1 TTAAAAAAGGTTAGG-ATAGACTCATCTAAGA-CAACCTTTAAAA-GGTTGGGATAGACCTTATC
*
29489320 TAAGGCAACCT
63 TAAGGCAACCC
* * * * * *
29489331 TTAAAAAA-GTTAAGATAAAGTCATCTAATACAACCTTAAAAAGGTTGGGATATACCTTATCTAA
1 TTAAAAAAGGTTAGGATAGACTCATCTAAGACAACCTTTAAAAGGTTGGGATAGACCTTATCTAA
* *
29489395 GACAA-CT
66 GGCAACCC
* * * * *
29489402 TTTAAAAAGGTTGGGATATACCTTATCTAAGACAACTTTTAAAAAGGTTGGGATA
1 TTAAAAAAGGTTAGGATAGA-CTCATCTAAGACAACCTTT-AAAAGGTTGGGATA
29489457 AACCCGTCTA
Statistics
Matches: 284, Mismatches: 49, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
71 9 0.03
72 72 0.25
73 155 0.55
74 23 0.08
75 24 0.08
76 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (73 bp):
TTAAAAAAGGTTAGGATAGACTCATCTAAGACAACCTTTAAAAGGTTGGGATAGACCTTATCTAA
GGCAACCC
Found at i:29489277 original size:146 final size:145
Alignment explanation
Indices: 29489069--29489395 Score: 381
Period size: 146 Copynumber: 2.2 Consensus size: 145
29489059 TAGTCAAGGC
* * * *
29489069 CAACCTTTGAAAAAGGTTAGGATAGACC-AATCTAAGGTAACACTTAAAAAAGGTTGGGATAGAC
1 CAACC-TT-AAAAAGGTTGGGATAGACCTTATCTAAGGTAACACTTAAAAAAAGTTGGAATAGAC
* * * *
29489133 TCAT-TTAAGATAACCTTTAAAA-GGTTGGGATAGACCTTGTCTAAGGCAACCCTTAAAAAATGT
64 TCATCTAAAG-CAACC-CTAAAAGGGTTAGGATAGACCTTGTCTAAGGCAACCCTTAAAAAA-GT
* * ** * *
29489196 TAGGATAGACTTGTTTAAGG
126 TAAGATAAACTCATCTAAGA
* * *
29489216 TAACCTTAAAAAGGTTGGGATAGACCTTCTCTAAGGTAACCCTTAAAAAAAGTTGGAATAGACTC
1 CAACCTTAAAAAGGTTGGGATAGACCTTATCTAAGGTAACACTTAAAAAAAGTTGGAATAGACTC
* * *
29489281 CTCTAAAGCAACCCTAAAAGGGTTAGGATAGACCTTGTTTAAGGCAACCTTTAAAAAAGTTAAGA
66 ATCTAAAGCAACCCTAAAAGGGTTAGGATAGACCTTGTCTAAGGCAACCCTTAAAAAAGTTAAGA
* *
29489346 TAAAGTCATCTAATA
131 TAAACTCATCTAAGA
*
29489361 CAACCTTAAAAAGGTTGGGATATACCTTATCTAAG
1 CAACCTTAAAAAGGTTGGGATAGACCTTATCTAAG
29489396 ACAACTTTTA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
145 69 0.45
146 75 0.49
147 8 0.05
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (145 bp):
CAACCTTAAAAAGGTTGGGATAGACCTTATCTAAGGTAACACTTAAAAAAAGTTGGAATAGACTC
ATCTAAAGCAACCCTAAAAGGGTTAGGATAGACCTTGTCTAAGGCAACCCTTAAAAAAGTTAAGA
TAAACTCATCTAAGA
Found at i:29489737 original size:6 final size:7
Alignment explanation
Indices: 29489713--29489744 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
29489703 TACAACTAAA
29489713 AAAATAT
1 AAAATAT
29489720 AAAATAT
1 AAAATAT
29489727 AAAAT-T
1 AAAATAT
29489733 AAAAT-T
1 AAAATAT
29489739 AAAATA
1 AAAATA
29489745 ATAATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATAT
Found at i:29494988 original size:22 final size:23
Alignment explanation
Indices: 29494937--29494989 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
29494927 AGAAGACCAT
*
29494937 TTTAT-GTGTTAAATGTTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
*
29494959 TTTA-GGTGTTAAATGCTG-CAA
1 TTTATGGTGTTAAATGCTGAAAA
29494980 TTTATGGTGT
1 TTTATGGTGT
29494990 CTGAAAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:29502045 original size:50 final size:49
Alignment explanation
Indices: 29501882--29502065 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 49
29501872 GTGAGGTCAT
* *
29501882 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTGGATAATT-GATCGC
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTAC-AGATAATTAGATCAC
* * * ** * *
29501931 ATGTGTAGTACTAAGTGCAAGCTATTATGCATACCTGATAACTTCGATCAC
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-CAGATAA-TTAGATCAC
* ** *
29501982 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCAC
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-CAGATAATTAGATCAC
* *
29502032 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTAC
29502066 TTAAGATGCA
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
49 34 0.30
50 42 0.38
51 36 0.32
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
GTGTGTAGTACTAAGTGCAAGCTACTACGTGTACAGATAATTAGATCAC
Found at i:29503128 original size:44 final size:43
Alignment explanation
Indices: 29503064--29503178 Score: 133
Period size: 44 Copynumber: 2.7 Consensus size: 43
29503054 TATGTGTTTT
* *
29503064 CGTGTAAGACCACGTTTGGGACGTTGGCATCGATCTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGA-TTA
* * * *
29503108 CGTGTGAGACCATGTCTGGGACAG-TGGCATCTATATGTGATTA
1 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATATGATTA
* *
29503151 CATGTAAGAACACGTCTGGGACGTTGGC
1 CGTGTAAGACCACGTCTGGGACGTTGGC
29503179 GTTGTACGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
42 1 0.02
43 25 0.42
44 32 0.54
45 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTA
Found at i:29510168 original size:12 final size:12
Alignment explanation
Indices: 29510151--29510176 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29510141 ATAAAAACAC
29510151 GGTCTGGCACAT
1 GGTCTGGCACAT
29510163 GGTCTGGCACAT
1 GGTCTGGCACAT
29510175 GG
1 GG
29510177 CCTGCGACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (12 bp):
GGTCTGGCACAT
Found at i:29513043 original size:17 final size:18
Alignment explanation
Indices: 29513021--29513063 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
29513011 CTTCAATTTC
29513021 TTGTTTTAAATTTTG-TT
1 TTGTTTTAAATTTTGTTT
***
29513038 TTGTTTTTGTTTTTGTTT
1 TTGTTTTAAATTTTGTTT
29513056 TTGTTTTA
1 TTGTTTTA
29513064 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (18 bp):
TTGTTTTAAATTTTGTTT
Found at i:29513047 original size:6 final size:6
Alignment explanation
Indices: 29513031--29513062 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
29513021 TTGTTTTAAA
29513031 TTTTG- TTTTGT TTTTGT TTTTGT TTTTGT TTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTT
29513063 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTGT
Found at i:29515508 original size:335 final size:335
Alignment explanation
Indices: 29514898--29515570 Score: 1319
Period size: 335 Copynumber: 2.0 Consensus size: 335
29514888 TAATGCGCTT
29514898 ATTCAGAGGAGCAAAAGTCCCTGTCTAAGAGTAAATTTGTCATAATTGAGTGGAGTTGATTGCAT
1 ATTCAGAGGAGCAAAAGTCCCTGTCTAAGAGTAAATTTGTCATAATTGAGTGGAGTTGATTGCAT
29514963 GCCTAGAGATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGGTTCATAAAT
66 GCCTAGAGATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGGTTCATAAAT
29515028 CGAGTTAATGCAACACTAGGACGTTAACTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGAC
131 CGAGTTAATGCAACACTAGGACGTTAACTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGAC
*
29515093 GTTATTAGTCTCGAGAGAGATACTAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATA
196 GTTATTAGTCTCGAGAGAGATACTAATATAACTTAGGGATTTCTACGGATCAAGTCAAAAGAATA
29515158 AATCGTCTGATTCAGAGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTGGGTATTGTCTT
261 AATCGTCTGATTCAGAGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTGGGTATTGTCTT
*
29515223 AATCAATCGA
326 AATCAATCAA
29515233 ATTCAGAGGAGCAAAAGTCCCTGTCTAAGAGTAAATTTGTCATAATTGAGTGGAGTTGATTGCAT
1 ATTCAGAGGAGCAAAAGTCCCTGTCTAAGAGTAAATTTGTCATAATTGAGTGGAGTTGATTGCAT
29515298 GCCTAGAGATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGGTTCATAAAT
66 GCCTAGAGATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGGTTCATAAAT
29515363 CGAGTTAATGCAACACTAGGACGTTAACTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGAC
131 CGAGTTAATGCAACACTAGGACGTTAACTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGAC
*
29515428 GTTATTAGTCTCGAGAGAGATACTAATATAACTTAGGGATTTCTACGGATCGAGTCAAAAGAATA
196 GTTATTAGTCTCGAGAGAGATACTAATATAACTTAGGGATTTCTACGGATCAAGTCAAAAGAATA
29515493 AATCGTCTGATTCAGAGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTGGGTATTGTCTT
261 AATCGTCTGATTCAGAGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTGGGTATTGTCTT
29515558 AATCAATCAA
326 AATCAATCAA
29515568 ATT
1 ATT
29515571 TTCTAAAAGT
Statistics
Matches: 335, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
335 335 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (335 bp):
ATTCAGAGGAGCAAAAGTCCCTGTCTAAGAGTAAATTTGTCATAATTGAGTGGAGTTGATTGCAT
GCCTAGAGATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGGTTCATAAAT
CGAGTTAATGCAACACTAGGACGTTAACTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGAC
GTTATTAGTCTCGAGAGAGATACTAATATAACTTAGGGATTTCTACGGATCAAGTCAAAAGAATA
AATCGTCTGATTCAGAGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTGGGTATTGTCTT
AATCAATCAA
Found at i:29520810 original size:151 final size:151
Alignment explanation
Indices: 29520536--29520837 Score: 604
Period size: 151 Copynumber: 2.0 Consensus size: 151
29520526 TTCTACCATA
29520536 TTTAAATCTTTTGCAAAATAGTCCCTATAAGGGTTTTTCATGAAAATCAACTAGGAAAAAATGTT
1 TTTAAATCTTTTGCAAAATAGTCCCTATAAGGGTTTTTCATGAAAATCAACTAGGAAAAAATGTT
29520601 TAATACACATTCATCTTTCATATCCCTATAGAATCCATCAAAATACAAGCAAATCATGCATGGGT
66 TAATACACATTCATCTTTCATATCCCTATAGAATCCATCAAAATACAAGCAAATCATGCATGGGT
29520666 AAATTTTTAAACATGAACCCT
131 AAATTTTTAAACATGAACCCT
29520687 TTTAAATCTTTTGCAAAATAGTCCCTATAAGGGTTTTTCATGAAAATCAACTAGGAAAAAATGTT
1 TTTAAATCTTTTGCAAAATAGTCCCTATAAGGGTTTTTCATGAAAATCAACTAGGAAAAAATGTT
29520752 TAATACACATTCATCTTTCATATCCCTATAGAATCCATCAAAATACAAGCAAATCATGCATGGGT
66 TAATACACATTCATCTTTCATATCCCTATAGAATCCATCAAAATACAAGCAAATCATGCATGGGT
29520817 AAATTTTTAAACATGAACCCT
131 AAATTTTTAAACATGAACCCT
29520838 AGCATGAAAT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (151 bp):
TTTAAATCTTTTGCAAAATAGTCCCTATAAGGGTTTTTCATGAAAATCAACTAGGAAAAAATGTT
TAATACACATTCATCTTTCATATCCCTATAGAATCCATCAAAATACAAGCAAATCATGCATGGGT
AAATTTTTAAACATGAACCCT
Found at i:29526476 original size:31 final size:32
Alignment explanation
Indices: 29526438--29526497 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
29526428 CATAAAGGGG
*
29526438 CACACGCCCATGTA-GGTGGGCCGTGTGGACT
1 CACACGCCCATGTATGATGGGCCGTGTGGACT
*
29526469 CACACGCCCATGTATTATGGGCCGTGTGG
1 CACACGCCCATGTATGATGGGCCGTGTGG
29526498 TCACCCACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.22
Consensus pattern (32 bp):
CACACGCCCATGTATGATGGGCCGTGTGGACT
Found at i:29536815 original size:55 final size:56
Alignment explanation
Indices: 29536728--29536984 Score: 267
Period size: 55 Copynumber: 4.8 Consensus size: 56
29536718 ATTAGGGTTT
*
29536728 AAGGATACCATGTAAGACCATG-CTAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAAGGTTTCATAAGGC
* * * *
29536783 AAGGAAATCATGTAAGACCATGTCAATACATGGC-ATTGAT-AGGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTC-ATAAGGC
* * * *
29536838 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTCATAAGGC
29536891 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTTC--AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTCATAAGGC
* * *
29536940 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGT
29536985 ACCCGTGTAT
Statistics
Matches: 174, Mismatches: 19, Indels: 23
0.81 0.09 0.11
Matches are distributed among these distances:
49 39 0.22
50 2 0.01
52 6 0.03
53 46 0.26
54 12 0.07
55 63 0.36
56 6 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (56 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTCATAAGGC
Found at i:29536937 original size:108 final size:110
Alignment explanation
Indices: 29536735--29536984 Score: 304
Period size: 108 Copynumber: 2.4 Consensus size: 110
29536725 TTTAAGGATA
* *
29536735 CCATGTAAGACCATGCTAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* * *
29536800 CCATGTCAATACATGGCATTGATAGGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* *
29536845 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* * *
29536907 ACCATGTCAAGACATGGCAATGGTAAGTTTC-AAAAGG---A--TA
65 ACCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* * *
29536947 CCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGT
29536985 ACCCGTGTAT
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
102 30 0.25
103 2 0.02
104 1 0.01
107 8 0.07
108 48 0.39
109 7 0.06
110 26 0.21
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:29563217 original size:43 final size:43
Alignment explanation
Indices: 29563169--29563251 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
29563159 ACATGTATCA
* * * *
29563169 CATCCATTATAAACTCAGACCATTTAACGAGCTTGGATGCTCG
1 CATCCATAATAAACTCAGACCACTCAACGAGCTCGGATGCTCG
* *
29563212 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
1 CATCCATAATAAACTCAGACCACTCAACGAGCTCGGATGC
29563252 CACATATATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
CATCCATAATAAACTCAGACCACTCAACGAGCTCGGATGCTCG
Found at i:29570166 original size:40 final size:40
Alignment explanation
Indices: 29570118--29570403 Score: 459
Period size: 40 Copynumber: 7.2 Consensus size: 40
29570108 GGACTAAGAT
* *
29570118 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* **
29570158 CCGAAGGCATTTGTGCTAGCAACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
29570198 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
29570238 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
29570278 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
29570318 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * * *
29570358 CCGAAGGCATTTGAGCAAG-TAGCTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTC
29570397 CCGAAGG
1 CCGAAGG
29570404 TACTTGGTTT
Statistics
Matches: 231, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 16 0.07
40 215 0.93
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:29578165 original size:47 final size:47
Alignment explanation
Indices: 29578106--29578384 Score: 477
Period size: 47 Copynumber: 5.9 Consensus size: 47
29578096 TAGTAAGGAA
*
29578106 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
29578153 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
29578200 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
29578247 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
29578294 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
29578341 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29578385 TCCCGAAGGG
Statistics
Matches: 221, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 221 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:29580373 original size:29 final size:29
Alignment explanation
Indices: 29580338--29580411 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
29580328 GTTGTGAGAT
* * *
29580338 TGGCACTAAGTGTGCGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTAAAATACA
*
29580367 TGGCACTAAGTGTGCGAGTTTAAAATACA
1 TGGCACTAAGTGTGCGAGCTTAAAATACA
29580396 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29580412 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTAAAATACA
Found at i:29580849 original size:40 final size:40
Alignment explanation
Indices: 29580724--29580958 Score: 210
Period size: 40 Copynumber: 5.9 Consensus size: 40
29580714 TCGATTGATG
** **
29580724 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTA
* ** * * **
29580764 TCCGGACTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
29580803 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
29580843 TTCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * * * * *
29580883 TCCGGGCTAAGTTCTGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * *
29580923 TCCGGGCT-AGGCCTCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGTGA
29580959 CGTGTATTCG
Statistics
Matches: 164, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 29 0.18
40 123 0.75
41 12 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:29580874 original size:23 final size:23
Alignment explanation
Indices: 29580808--29580874 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
29580798 CTAAATCCGG
29580808 GCTAAGTCCCGAAGAGCATTCAT
1 GCTAAGTCCCGAAGAGCATTCAT
* * **
29580831 GCT-AGT---G-A-TGTATTCGG
1 GCTAAGTCCCGAAGAGCATTCAT
29580848 GCTAAGTCCCGAAGAGCATTCAT
1 GCTAAGTCCCGAAGAGCATTCAT
29580871 GCTA
1 GCTA
29580875 GTGATGTATC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 4 0.13
19 1 0.03
21 1 0.03
22 4 0.13
23 12 0.40
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCAT
Found at i:29588911 original size:47 final size:47
Alignment explanation
Indices: 29588858--29589347 Score: 971
Period size: 47 Copynumber: 10.4 Consensus size: 47
29588848 TTAGGATTCT
29588858 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29588905 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29588952 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29588999 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29589046 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29589093 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29589140 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29589187 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29589234 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29589281 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29589328 ATGTGATGAATGTGATAAGT
1 ATGTGATGAATGTGA-AAGT
29589348 CCCGAAGGGC
Statistics
Matches: 442, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
47 438 0.99
48 4 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:29589521 original size:37 final size:37
Alignment explanation
Indices: 29589465--29589543 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29589455 CCGAGCTCTA
* * *
29589465 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
29589502 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29589539 AAGAC
1 AAGAC
29589544 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29596186 original size:40 final size:40
Alignment explanation
Indices: 29596131--29596313 Score: 321
Period size: 40 Copynumber: 4.6 Consensus size: 40
29596121 GATGATAACT
29596131 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
29596171 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
29596211 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
* **
29596251 GGGCTAAGTCCCGAAGGCATTTGTGGGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
**
29596291 GGGCTAAGTCTTGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
29596314 AGCAAGTAGC
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
Found at i:29603193 original size:21 final size:21
Alignment explanation
Indices: 29603143--29603196 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
29603133 ACCTGCCAAG
*
29603143 AGAAAAGTAAATTAATAAATA
1 AGAAAAATAAATTAATAAATA
* * *
29603164 ATAATAATAAATTAAATTAA-A
1 AGAAAAATAAATT-AATAAATA
29603185 AGAAAAATAAAT
1 AGAAAAATAAAT
29603197 GGCTAGAGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (21 bp):
AGAAAAATAAATTAATAAATA
Found at i:29604745 original size:30 final size:30
Alignment explanation
Indices: 29604700--29604758 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
29604690 AAAAATCATG
* *
29604700 CTTTTACAAATTTGCATTTTTA-CCCCTAAC
1 CTTTCACAAATTTGCA-ATTTAGCCCCTAAC
*
29604730 CTTTCACATATTTGCAATTTAGCCCCTAA
1 CTTTCACAAATTTGCAATTTAGCCCCTAA
29604759 GCTCGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.41
Consensus pattern (30 bp):
CTTTCACAAATTTGCAATTTAGCCCCTAAC
Found at i:29607223 original size:15 final size:14
Alignment explanation
Indices: 29607203--29607255 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
29607193 GACATGAAAA
29607203 CCAAGATAAAGAAGT
1 CCAAGATAAAGAA-T
*
29607218 CCAAGACAAAGAAAT
1 CCAAGATAAAG-AAT
*
29607233 CCATGATAAAGCAAT
1 CCAAGATAAAG-AAT
29607248 CCAAGATA
1 CCAAGATA
29607256 CAATATCATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 30 0.94
16 2 0.06
ACGTcount: A:0.53, C:0.19, G:0.15, T:0.13
Consensus pattern (14 bp):
CCAAGATAAAGAAT
Found at i:29614725 original size:12 final size:12
Alignment explanation
Indices: 29614708--29614732 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29614698 ACATCATATA
29614708 TTCAGAAAAATC
1 TTCAGAAAAATC
29614720 TTCAGAAAAATC
1 TTCAGAAAAATC
29614732 T
1 T
29614733 AATATCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TTCAGAAAAATC
Found at i:29618686 original size:28 final size:28
Alignment explanation
Indices: 29618629--29618781 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
29618619 TAAATTGTGC
* *
29618629 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
29618656 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
29618684 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
29618712 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
29618740 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
29618767 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29618782 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 37 0.32
28 79 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:29618772 original size:83 final size:83
Alignment explanation
Indices: 29618629--29618781 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
29618619 TAAATTGTGC
* *
29618629 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
29618694 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
29618712 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAG
29618776 TGTGCG
65 TGTGCG
29618782 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 38 0.60
84 25 0.40
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:29628637 original size:72 final size:72
Alignment explanation
Indices: 29628553--29628695 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
29628543 AAGCCTAACC
29628553 AAAATTTCACCTTAAAATTTATAGCACATATATTCTACAAAATTTAGAATTTTTCTTCAATTTTC
1 AAAATTTCACCTTAAAATTTATAGCACATATATTCTACAAAATTTAGAATTTTTCTTCAATTTTC
29628618 ACAAATT
66 ACAAATT
29628625 AAAATTTCACCTTAAAATTTATAGCACATATATTCTACAAAATTTAGAATTTTTCTTCAATTTTC
1 AAAATTTCACCTTAAAATTTATAGCACATATATTCTACAAAATTTAGAATTTTTCTTCAATTTTC
*
29628690 AGAAAT
66 ACAAAT
29628696 GTACATTTTA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (72 bp):
AAAATTTCACCTTAAAATTTATAGCACATATATTCTACAAAATTTAGAATTTTTCTTCAATTTTC
ACAAATT
Found at i:29634028 original size:50 final size:50
Alignment explanation
Indices: 29633951--29634189 Score: 268
Period size: 50 Copynumber: 4.8 Consensus size: 50
29633941 GTAAGATACT
* * * * *
29633951 GATGCCATGTCCTAGACTTAGTTTTACATTGGCTCTCATATATCGGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCC
29634001 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGAG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGCC
* * * * *
29634051 AATGCCATGTCTCAAACATGATCTTACACTAGCTCTCATATATCGGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCC
* * * * **
29634101 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCTTAT-TAT-GATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCC
* * * *
29634149 GATGCCATGTTCGAAACATGGTCTTACACTGGCTCACATAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT
29634190 TACCTTAGTA
Statistics
Matches: 160, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
48 35 0.22
49 5 0.03
50 119 0.74
51 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCC
Found at i:29643008 original size:47 final size:44
Alignment explanation
Indices: 29642944--29643111 Score: 137
Period size: 47 Copynumber: 3.6 Consensus size: 44
29642934 AGAGCTAGTA
*
29642944 TAAGACCATGTCTGGGACATGGCATCGGTATTGAGAGTAAGGCTAGTG
1 TAAGACCATGTCTGGGACAT-GCATCGG-ATT-AGAGTAA-GCCAGTG
*
29642992 TAAGA-CATGTCTGGGACATGCATCAGCCACATTA-AG-ATAGCCAGTG
1 TAAGACCATGTCTGGGACATGCATC-G---GATTAGAGTA-AGCCAGTG
* * * *
29643038 TAAGACCATGTTTGAGACATGGCATCGGAGTAGAGATGACTGCCAGTG
1 TAAGACCATGTCTGGGACAT-GCATCGGATTAGAG-T-A-AGCCAGTG
29643086 TAAGA-CATGTCTGGGACATGCATCGG
1 TAAGACCATGTCTGGGACATGCATCGG
29643112 CCTCGATGAT
Statistics
Matches: 99, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 24 0.24
47 43 0.43
48 24 0.24
49 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (44 bp):
TAAGACCATGTCTGGGACATGCATCGGATTAGAGTAAGCCAGTG
Found at i:29643105 original size:94 final size:92
Alignment explanation
Indices: 29642944--29643251 Score: 295
Period size: 94 Copynumber: 3.3 Consensus size: 92
29642934 AGAGCTAGTA
* * * *
29642944 TAAGACCATGTCTGGGACATGGCATCGGTATTGAGAGTAAGGCTAGTGTAAGACATGTCTGGGAC
1 TAAGACCATGTCTGAGACATGGCATCGG-ATAGAGA-TGATGCTAGTGTAAGACATGTCTGGGAC
*
29643009 ATGCATCAGCCACATTAAGATAGCCAGTG
64 ATGCATCAGCCACATAAAGATAGCCAGTG
* *
29643038 TAAGACCATGTTTGAGACATGGCATCGGAGTAGAGATGACTGCCAGTGTAAGACATGTCTGGGAC
1 TAAGACCATGTCTGAGACATGGCATCGGA-TAGAGATGA-TGCTAGTGTAAGACATGTCTGGGAC
* * * *
29643103 ATGCATCGGCCTCGATGATGATAGCCAGTG
64 ATGCATCAGCCAC-ATAAAGATAGCCAGTG
** * *** *
29643133 TAAGA-TGTGTCTG-GTACAT-GCATCGGCTCAGTTTTG-TGCTAGTGTAAGACATGTCTGGGAT
1 TAAGACCATGTCTGAG-ACATGGCATCGGAT-AGAGATGATGCTAGTGTAAGACATGTCTGGGAC
* * *
29643194 ATGCATCAG-CACGTAACACGAGAGCTAGTG
64 ATGCATCAGCCACATAA-A-GATAGCCAGTG
29643224 TAAGACCATGTCT-AGGACATGGCATCGG
1 TAAGACCATGTCTGA-GACATGGCATCGG
29643252 CCTCGATGGA
Statistics
Matches: 175, Mismatches: 28, Indels: 23
0.77 0.12 0.10
Matches are distributed among these distances:
89 2 0.01
90 2 0.01
91 45 0.26
92 10 0.06
93 23 0.13
94 74 0.42
95 19 0.11
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (92 bp):
TAAGACCATGTCTGAGACATGGCATCGGATAGAGATGATGCTAGTGTAAGACATGTCTGGGACAT
GCATCAGCCACATAAAGATAGCCAGTG
Found at i:29643198 original size:44 final size:47
Alignment explanation
Indices: 29642988--29643289 Score: 228
Period size: 47 Copynumber: 6.4 Consensus size: 47
29642978 GAGTAAGGCT
* * * *
29642988 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTAAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCC
* * ** *
29643034 AGTGTAAGACCATGTTTGAGACATGGCATCGGAGTAGA-GATGACT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGATGA-TAGCC
29643082 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCC
** * ** *
29643129 AGTGTAAGATGTGTCTGGTACATGCATCGG-CTC-AGTTTTG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-TGATGATAGCC
* * * ** * * *
29643173 AGTGTAAGACATGTCTGGGATATGCATCAG-CACGTAACACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCG-ATGATGATAGCC
*
29643220 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGGA-GATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAT-GATGATAGCC
29643269 A-TCGTAAGACCATGTCTGGGA
1 AGT-GTAAGA-CATGTCTGGGA
29643290 TATGGCAGCA
Statistics
Matches: 200, Mismatches: 40, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
44 29 0.14
45 3 0.01
46 27 0.14
47 71 0.35
48 34 0.17
49 32 0.16
50 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCC
Found at i:29650734 original size:94 final size:93
Alignment explanation
Indices: 29650573--29650886 Score: 343
Period size: 94 Copynumber: 3.4 Consensus size: 93
29650563 GTTATATGAG
* * * * * *
29650573 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGACATTGAGAGGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
29650638 TCTGGGACATGCATCAGCCACATTAAGAT
65 TCTGGGACATGCATCAGCCACATTAAGAT
* *
29650667 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
* * * *
29650732 TCTGGGACATGCATCGGCCTCGATGATGAT
65 TCTGGGACATGCATCAGCCAC-ATTAAGAT
* * * *
29650762 AGCCAATGTAAGA-CGTGTCTAGGACAT-G-ATCGGCTA-AG-TGTTGTTCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTAGAGATG-AGTGCTAGTGTAAGACATG
* * *
29650822 TTTGGGACATGCATCAG-CACGTATACACGAG
65 TCTGGGACATGCATCAGCCACAT-TA-A-GAT
*
29650853 AGCTAGTGTAAGACCATGTCTAGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATC
29650887 TGCCTCGATG
Statistics
Matches: 185, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
88 1 0.01
89 5 0.03
90 33 0.18
91 15 0.08
92 19 0.10
93 2 0.01
94 92 0.50
95 18 0.10
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCCACATTAAGAT
Found at i:29650760 original size:47 final size:48
Alignment explanation
Indices: 29650568--29650926 Score: 221
Period size: 47 Copynumber: 7.6 Consensus size: 48
29650558 ATTGGGTTAT
* * * * *
29650568 ATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGACATTGA-G
1 ATGAGTGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGATG
* * * * * *
29650616 AGGAGGGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCAC-ATT
1 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGATG
* * *
29650662 AAGA-TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGA-G
1 ATGAGT-GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGATG
29650710 ATGAGTGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGATG
1 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGATG
* * * *
29650757 ATGA-TAGCCAATGTAAGA-CGTGTCTAGGACATG-ATCGG-CT--AAG
1 ATGAGT-GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGATG
* * * * * * *
29650800 -TGTTGTTCTAGTGTAAGA-CATGTTTGGGACATGCATCAG-CACGTATAC
1 ATG-AGTGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCG-AT-G
* * * * *
29650848 ACGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCTGCCTCGATG
1 ATGAGTGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGATG
**
29650897 --GAGATAGCCAACGTAAGACCATGTCTGGGA
1 ATGAG-T-GCCAGTGTAAGACCATGTCTGGGA
29650927 TATGGCAGCA
Statistics
Matches: 240, Mismatches: 50, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
42 2 0.01
43 23 0.10
44 6 0.03
45 3 0.01
46 37 0.15
47 75 0.31
48 48 0.20
49 35 0.15
50 8 0.03
51 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGATG
Found at i:29652240 original size:50 final size:49
Alignment explanation
Indices: 29652160--29652304 Score: 186
Period size: 50 Copynumber: 3.0 Consensus size: 49
29652150 GGGTGTTACA
*
29652160 GATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATC
1 GATGCCGATGCTATGTCCCAAACATGGTCTTACACTAGCTCTCATATA-C
* *
29652210 GATGTCGATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCAT-TAC
1 GATGCCGATGCTATGTCCCAAACATGGTCTTACACTAGCTCTCATATAC
* * * * *
29652258 AATACCGATG-TCATGTTCCAAACATGGTCTTACACTGGCTCACATAT
1 GATGCCGATGCT-ATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
29652305 TACCCTAGTA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
47 1 0.01
48 37 0.45
49 3 0.04
50 42 0.51
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (49 bp):
GATGCCGATGCTATGTCCCAAACATGGTCTTACACTAGCTCTCATATAC
Found at i:29652434 original size:19 final size:20
Alignment explanation
Indices: 29652407--29652444 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29652397 AAAATCGCAC
*
29652407 ATTCCATAC-AATAACAATT
1 ATTCAATACAAATAACAATT
29652426 ATTCAATACAAATAACAAT
1 ATTCAATACAAATAACAAT
29652445 AGAATGGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTCAATACAAATAACAATT
Found at i:29654250 original size:14 final size:14
Alignment explanation
Indices: 29654231--29654258 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29654221 GAAAAAGTCC
29654231 TTTTAAGGTTTGAA
1 TTTTAAGGTTTGAA
29654245 TTTTAAGGTTTGAA
1 TTTTAAGGTTTGAA
29654259 ACAGACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
TTTTAAGGTTTGAA
Found at i:29659460 original size:3 final size:3
Alignment explanation
Indices: 29659174--29659441 Score: 94
Period size: 3 Copynumber: 91.0 Consensus size: 3
29659164 TATTATTCAA
* ** * *
29659174 ATT ATT ACT ATT ATT ATT ATT ATT ATT CCT ATGT -GT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* * *
29659219 ACTT A-T ATG ATT GTT ATT -TCT ACT ATT ATT ATT ATT ATT ATT ATT
1 A-TT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
29659264 ATT ATT ATT ATT ATG AAT A-T ATC AGT ATT -TT CAAT A-T ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* * * * * * * *
29659307 ATT ATT AGT ATT ATT GTC AGT GTC AGT ATT ATT -TT CCTT ACCTT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT A--TT ATT
* * *
29659353 -TT ATT TTT ATT TTT ATT ATT -TCT ATT ATT GTT ATT ATT -TT -TT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
* * * * * *
29659395 ATT ACT ATT ATT GTT A-T ATT ATC GTT ATT ATT CTT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
29659442 GTTAATGCAA
Statistics
Matches: 187, Mismatches: 59, Indels: 38
0.66 0.21 0.13
Matches are distributed among these distances:
2 23 0.12
3 155 0.83
4 7 0.04
5 2 0.01
ACGTcount: A:0.27, C:0.07, G:0.06, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:29659757 original size:17 final size:18
Alignment explanation
Indices: 29659727--29659763 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
29659717 GTATTTCTAG
29659727 TACTATATTACA-TTTAT
1 TACTATATTACATTTTAT
29659744 TACT-TATTAGCATTTTAT
1 TACTATATTA-CATTTTAT
29659762 TA
1 TA
29659764 TTACTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 6 0.33
18 7 0.39
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (18 bp):
TACTATATTACATTTTAT
Found at i:29661778 original size:28 final size:28
Alignment explanation
Indices: 29661738--29661807 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
29661728 GCAATCAAAT
* *
29661738 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
29661766 ATGGCACTTAGTGTGCGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
29661794 ATGACACTTAGTGT
1 ATGGCACTTAGTGT
29661808 GGAAAATATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:29661816 original size:28 final size:28
Alignment explanation
Indices: 29661747--29661812 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
29661737 TATGGTACTC
* *
29661747 AGTGTACGAAATATTGAGAATGGCACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
29661775 AGTGTGCGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
29661803 AGTGTG-GAAA
1 AGTGTGCGAAA
29661813 ATATCAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 4 0.11
28 32 0.89
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.27
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:29662095 original size:41 final size:41
Alignment explanation
Indices: 29661990--29662136 Score: 118
Period size: 40 Copynumber: 3.6 Consensus size: 41
29661980 AGGCTTTGGG
* * * * *
29661990 CCTAGCATGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCAGACTTAAAA
* * * *
29662033 CCTAGCAGGCAAAATGTCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTGAATGAATTCAGACTTAAAA
* ** * **
29662074 TCTAGCAGGCTTCATGCCGGTG-ATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAATGAATTCAGACTTAAAA
29662114 CCTAGCAGGCTAAATGCCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
29662137 TTTGATAAAA
Statistics
Matches: 82, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
40 32 0.39
41 30 0.37
42 10 0.12
43 10 0.12
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAATGCCGGTGAATGAATTCAGACTTAAAA
Found at i:29666624 original size:93 final size:93
Alignment explanation
Indices: 29666512--29666683 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
29666502 GCCCATAAGT
* *
29666512 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29666577 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
29666605 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29666670 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
29666684 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:29666679 original size:46 final size:46
Alignment explanation
Indices: 29666504--29666679 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
29666494 TGTAACCCGC
* *
29666504 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
29666550 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
29666596 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
29666643 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
29666680 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:29670419 original size:40 final size:40
Alignment explanation
Indices: 29670364--29670574 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
29670354 ATTTGAATGA
*
29670364 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
29670404 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
29670444 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
29670484 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
29670524 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
29670564 TATCC-GGCTAA
1 TATCCGGGCTAA
29670575 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:29687679 original size:78 final size:78
Alignment explanation
Indices: 29687550--29687705 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 78
29687540 CACGCCCGTG
*
29687550 TGTAGCAATTTCCTAGCCTCATTTGTCACCAAAACTTACCATTTTCCTGCACTAAAACTCACAAA
1 TGTAGCAATTTCCTAGCCTCATTTGTCACCAAAACTTACCATTTTCCTGCACCAAAACTCACAAA
29687615 CATATATCCACCA
66 CATATATCCACCA
29687628 TGTAGCAATTTCCTAGCCTCATTTGTCACCAAAACTTACCATTTTCCTGCACCAAAACTCACAAA
1 TGTAGCAATTTCCTAGCCTCATTTGTCACCAAAACTTACCATTTTCCTGCACCAAAACTCACAAA
*
29687693 CATTTATCCACCA
66 CATATATCCACCA
29687706 ATCCAATATC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.29
Consensus pattern (78 bp):
TGTAGCAATTTCCTAGCCTCATTTGTCACCAAAACTTACCATTTTCCTGCACCAAAACTCACAAA
CATATATCCACCA
Found at i:29690115 original size:24 final size:24
Alignment explanation
Indices: 29690060--29690131 Score: 108
Period size: 24 Copynumber: 2.9 Consensus size: 24
29690050 GAATCTTGGT
*
29690060 CGGTAAGCTCCTCTTGAGCTGAAAAA
1 CGGTAAGCT-CTATTGAGCTG-AAAA
*
29690086 CAGTAAGCTCTATTGAGCTGAAAA
1 CGGTAAGCTCTATTGAGCTGAAAA
29690110 CGGTAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
29690132 CAGTAAGCTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 25 0.58
25 10 0.23
26 8 0.19
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (24 bp):
CGGTAAGCTCTATTGAGCTGAAAA
Found at i:29690140 original size:22 final size:23
Alignment explanation
Indices: 29690062--29690142 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 23
29690052 ATCTTGGTCG
*
29690062 GTAAGCTCCTCTTGAGCTGAAAAACA
1 GTAAGCT-CTATTGAGCTG--AAACA
*
29690088 GTAAGCTCTATTGAGCTGAAAACG
1 GTAAGCTCTATTGAGCTG-AAACA
29690112 GTAAGCTCTATTGAGCTG-AACA
1 GTAAGCTCTATTGAGCTGAAACA
29690134 GTAAGCTCT
1 GTAAGCTCT
29690143 TTCAAGCTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
22 12 0.23
24 23 0.44
25 10 0.19
26 7 0.13
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACA
Found at i:29690151 original size:46 final size:48
Alignment explanation
Indices: 29690060--29690153 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 48
29690050 GAATCTTGGT
* *
29690060 CGGTAAGCTCCTCTTGAGCTGAAAAACAGTAAGCTCTATTGAGCTGAAAA
1 CGGTAAGCTCCTATTGAGCTG--AAACAGTAAGCTCTATTAAGCTGAAAA
29690110 CGGTAAGCT-CTATTGAGCTG-AACAGTAAGCTCT-TTCAAGCTGAA
1 CGGTAAGCTCCTATTGAGCTGAAACAGTAAGCTCTATT-AAGCTGAA
29690154 TCGATAAACT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
45 2 0.05
46 20 0.49
49 10 0.24
50 9 0.22
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (48 bp):
CGGTAAGCTCCTATTGAGCTGAAACAGTAAGCTCTATTAAGCTGAAAA
Found at i:29696050 original size:26 final size:26
Alignment explanation
Indices: 29696019--29696126 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
29696009 TGAAATGCCC
*
29696019 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
29696045 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
29696071 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
29696097 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29696123 ATCA
1 ATCA
29696127 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29699051 original size:48 final size:48
Alignment explanation
Indices: 29698980--29699121 Score: 171
Period size: 48 Copynumber: 3.0 Consensus size: 48
29698970 AAGACATTTG
*
29698980 GTTGATATGTGTGCTAGTGTAAGACCATATCTGGGATATGGCATCGAT
1 GTTGATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCGAT
*
29699028 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATC-A-
1 GTTGATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCGAT
*** * * * *
29699074 GCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 G-TTGA-TATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCG
29699122 GCCTCAATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 80 0.96
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
GTTGATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCGAT
Found at i:29699139 original size:48 final size:48
Alignment explanation
Indices: 29698995--29699266 Score: 210
Period size: 48 Copynumber: 5.6 Consensus size: 48
29698985 TATGTGTGCT
* * *** * ** *
29698995 AGTGTAAGACCATATCTGGGATATGGCATCGATGTTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTAAGCC
* *
29699043 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-TATGTA-AGCC
*
29699091 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTAAGCC
* * * * * ** * * * *
29699139 AATGTAAGACCATGTTTGGAACATGGTAAT-AGTATTGTTATGTATGTC
1 AGTGTAAGACCATGTCTGGGACATGG-CATCGGCCTCGATATGTAAGCC
* * * *
29699187 AGTGTAAGACTATGTCTGGGACATGGCATTGGCAC-CGATGTATAACAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATATGT-A-AGCC
*
29699237 AATGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
29699267 AGCATTTTAT
Statistics
Matches: 173, Mismatches: 42, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
47 3 0.02
48 136 0.79
49 5 0.03
50 29 0.17
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTAAGCC
Found at i:29699163 original size:96 final size:97
Alignment explanation
Indices: 29698995--29699269 Score: 263
Period size: 96 Copynumber: 2.8 Consensus size: 97
29698985 TATGTGTGCT
* * *** * ** * *
29698995 AGTGTAAGACCATATCTGGGATATGGCATCGATGTTGATATGTGTGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTAAGCCAATGTAAGACCATGTCT
29699060 GGGACATGGCATCAGCCA-CATTATG-AGAGCC
66 GGGACATGGCATCAGCCATCATTATGTA-AGCC
* *
29699091 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTAAGCCAATGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTAAGCCAATGTAAGACCATGTCT
* * * ** * *
29699156 GGAACATGGTAAT-AG-TATTGTTATGTATGTC
66 GGGACATGG-CATCAGCCATCATTATGTAAGCC
* * * *
29699187 AGTGTAAGACTATGTCTGGGACATGGCATTGGCAC-CGATGTATAACAGCCAATGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATATGT-A-AGCCAATGTAAGACCATG
29699251 TCTGGGACATGGCATCAGC
63 TCTGGGACATGGCATCAGC
29699270 ATTTTATCCT
Statistics
Matches: 144, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
95 1 0.01
96 106 0.74
97 7 0.05
98 30 0.21
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (97 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTAAGCCAATGTAAGACCATGTCT
GGGACATGGCATCAGCCATCATTATGTAAGCC
Found at i:29699416 original size:20 final size:20
Alignment explanation
Indices: 29699391--29699431 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
29699381 TGGTACGAGT
*
29699391 ATGTGTGCAAAACTCATGAG
1 ATGTGTACAAAACTCATGAG
29699411 ATGTGTACAAAACTCATGAG
1 ATGTGTACAAAACTCATGAG
29699431 A
1 A
29699432 AATGATCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (20 bp):
ATGTGTACAAAACTCATGAG
Found at i:29708994 original size:29 final size:29
Alignment explanation
Indices: 29708928--29709046 Score: 134
Period size: 29 Copynumber: 4.2 Consensus size: 29
29708918 CACATACCTG
* * * *
29708928 TATATGGCCCACTAGACCC-AATTATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
29708956 CACATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
29708985 TATATGGCCCTTTAGGCCCAAATCACATC
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
29709014 TATGTGGCCAATTAGGCCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAAATCACATT
29709042 TATAT
1 TATAT
29709047 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 19 0.25
29 56 0.75
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:29710863 original size:50 final size:50
Alignment explanation
Indices: 29710809--29711135 Score: 320
Period size: 50 Copynumber: 6.5 Consensus size: 50
29710799 CTGGTATGAA
* *
29710809 TAGTAGCCTGCACTTAGTATTATACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* * * * *
29710859 TAGTAGCCTGTACTTAGTACTACACACGTGACTTATCCATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* ** * ** *
29710909 TAGTAGCCTACACTTAGTACTGCACACATGATCGAAGT-T-AA-CGGGTATGCA
1 TAGTAGCCTGCACTTAGTACT--ACACATG--CGACCTATCAATCTGGTACACG
* * * * *
29710960 TAGTAGTCTGAAGTTAGTACTACACATGCGACCTATCAATTTGGTTCACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* * * * * *
29711010 TAGTAACCTGCACTTAGTACTGCACA-CCTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGC-GACCTATCAATCTGGTACACG
* *
29711060 TAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* *
29711110 TAGTAGCCTGCACTTCGTGCTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
29711136 CGTGACTTAA
Statistics
Matches: 218, Mismatches: 50, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
47 4 0.02
48 1 0.00
49 10 0.05
50 168 0.77
51 24 0.11
52 7 0.03
53 1 0.00
54 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
Found at i:29711075 original size:151 final size:151
Alignment explanation
Indices: 29710801--29711085 Score: 408
Period size: 151 Copynumber: 1.9 Consensus size: 151
29710791 GAAGCTCTCT
* * * *
29710801 GGTATGAATAGTAGCCTGCACTTAGTATTATACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTATGAATAGTAGCCTGAACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAAC
* * * * * *
29710866 CTGTACTTAGTACTACACACGTGACTTATCCATCTGGTACACGTAGTAGCCTACACTTAGTACTG
66 CTGCACTTAGTACTACACACCTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTA
29710931 CACACATGATCGAAGTTAACG
131 CACACATGATCGAAGTTAACG
* * * * *
29710952 GGTATGCATAGTAGTCTGAAGTTAGTACTACACATGCGACCTATCAATTTGGTTCACGTAGTAAC
1 GGTATGAATAGTAGCCTGAACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAAC
* * *
29711017 CTGCACTTAGTACTGCACACCTGACCTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACCTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTA
29711082 CACA
131 CACA
29711086 TGCGACCTAA
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
151 116 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (151 bp):
GGTATGAATAGTAGCCTGAACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAAC
CTGCACTTAGTACTACACACCTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTA
CACACATGATCGAAGTTAACG
Found at i:29712548 original size:49 final size:50
Alignment explanation
Indices: 29712432--29712549 Score: 177
Period size: 50 Copynumber: 2.4 Consensus size: 50
29712422 CACGTTTGTC
*
29712432 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTA
* * *
29712482 GTACTAAGTGCAGGCTACTACGTGTA-CTGGATTGTT-GGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGGTCACATGTGTA
29712531 GTACTAAGTGCAGGCTACT
1 GTACTAAGTGCAGGCTACT
29712550 GTGCATACCA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 31 0.49
50 32 0.51
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (50 bp):
GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTA
Found at i:29712783 original size:16 final size:15
Alignment explanation
Indices: 29712762--29712791 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
29712752 GAATGGAGTA
29712762 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
29712778 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
29712792 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:29713686 original size:16 final size:15
Alignment explanation
Indices: 29713665--29713696 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
29713655 AGCCACGAGA
29713665 TGTGGCTTGTAATGCT
1 TGTGGCTTGTAA-GCT
29713681 TGTGGCTTGTAAGCT
1 TGTGGCTTGTAAGCT
29713696 T
1 T
29713697 AATTATCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.12, C:0.12, G:0.31, T:0.44
Consensus pattern (15 bp):
TGTGGCTTGTAAGCT
Found at i:29718512 original size:16 final size:16
Alignment explanation
Indices: 29718491--29718523 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
29718481 GTGTGCCAGT
29718491 GTAAGACCATATCTGG
1 GTAAGACCATATCTGG
29718507 GTAAGACCATATCTGG
1 GTAAGACCATATCTGG
29718523 G
1 G
29718524 ACATGGCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (16 bp):
GTAAGACCATATCTGG
Found at i:29718578 original size:48 final size:48
Alignment explanation
Indices: 29718507--29718773 Score: 247
Period size: 48 Copynumber: 5.6 Consensus size: 48
29718497 CCATATCTGG
* *
29718507 GTAAGACCATATCTGGGACATGGCATCGGCCATTTTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCAGCCATTTTATGAGAGCCAGT
* ** * * * *
29718555 GTAAGATCATGTCTGGGACATGGCATCAG-TGTTGATATGTGTGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCAGCCATT-TTATGAGAGCCAGT
* **
29718603 GTAAGACCACGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCAGCCATTTTATGAGAGCCAGT
** * *
29718651 GTAAGACCATGTCTAGGG-CATGGCATCAGCC-TCAATACGCGAGCCAGT
1 GTAAGACCATGTCT-GGGACATGGCATCAGCCAT-TTTATGAGAGCCAGT
* * * * * *
29718699 GTAAGACCATGTTTGGAACATGGCAT-TGGCATTGTTAT-ATGTGTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCAGCCATT-TTATGA-GAGCCAGT
*
29718747 GTAAGACCATGTCTAGGACATGGCATC
1 GTAAGACCATGTCTGGGACATGGCATC
29718774 GACACCGATG
Statistics
Matches: 173, Mismatches: 37, Indels: 17
0.76 0.16 0.07
Matches are distributed among these distances:
47 6 0.03
48 164 0.95
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCAGCCATTTTATGAGAGCCAGT
Found at i:29718700 original size:96 final size:96
Alignment explanation
Indices: 29718507--29718773 Score: 288
Period size: 96 Copynumber: 2.8 Consensus size: 96
29718497 CCATATCTGG
* * * *
29718507 GTAAGACCATATCTGGGACATGGCATCGGCCATTTTATGAGAGCCAGTGTAAGATCATGTCT-GG
1 GTAAGACCATGTCTGGGACATGGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTAGG
** ** * * * *
29718571 GACATGGCATCAGTGTTGATATGTGTGCTAGT
66 G-CATGGCATCAGCCTCAATACGCGAGCCAGT
* *
29718603 GTAAGACCACGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTAGG
1 GTAAGACCATGTCTGGGACATGGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTAGG
29718668 GCATGGCATCAGCCTCAATACGCGAGCCAGT
66 GCATGGCATCAGCCTCAATACGCGAGCCAGT
* * * * * * *
29718699 GTAAGACCATGTTTGGAACATGGCAT-TGGCATTGTTAT-ATGTGTCAGTGTAAGACCATGTCTA
1 GTAAGACCATGTCTGGGACATGGCATCAGCCA-TATTATGA-GAGCCAGTGTAAGACCATGTCTA
*
29718762 GGACATGGCATC
64 GGGCATGGCATC
29718774 GACACCGATG
Statistics
Matches: 144, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
95 4 0.03
96 137 0.95
97 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (96 bp):
GTAAGACCATGTCTGGGACATGGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTAGG
GCATGGCATCAGCCTCAATACGCGAGCCAGT
Found at i:29723534 original size:26 final size:24
Alignment explanation
Indices: 29723504--29723570 Score: 98
Period size: 24 Copynumber: 2.7 Consensus size: 24
29723494 GTCATGGTCG
*
29723504 GTAAGCTCCTCTTGAGCTAATAAACA
1 GTAAGCT-CTATTGAGCTAA-AAACA
*
29723530 GTAAGCTCTATTGAGCTGAAAACA
1 GTAAGCTCTATTGAGCTAAAAACA
29723554 GTAAGCTCTATTGAGCT
1 GTAAGCTCTATTGAGCT
29723571 GACCAGTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
24 22 0.56
25 10 0.26
26 7 0.18
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (24 bp):
GTAAGCTCTATTGAGCTAAAAACA
Found at i:29723625 original size:23 final size:23
Alignment explanation
Indices: 29723525--29723630 Score: 124
Period size: 23 Copynumber: 4.6 Consensus size: 23
29723515 TTGAGCTAAT
29723525 AAACAGTAAGCTCTATTGAGCTG
1 AAACAGTAAGCTCTATTGAGCTG
29723548 AAAACAGTAAGCTCTATTGAGCTG
1 -AAACAGTAAGCTCTATTGAGCTG
* * *
29723572 -ACCAGTAAGCTCTTTTGAGTTG
1 AAACAGTAAGCTCTATTGAGCTG
*** * *
29723594 AATTGGTAAGCTCCAATGAGCTG
1 AAACAGTAAGCTCTATTGAGCTG
29723617 AAACAGTAAGCTCT
1 AAACAGTAAGCTCT
29723631 TATGATCAGT
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
22 19 0.28
23 25 0.37
24 23 0.34
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (23 bp):
AAACAGTAAGCTCTATTGAGCTG
Found at i:29731875 original size:15 final size:14
Alignment explanation
Indices: 29731848--29731888 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 14
29731838 TTCTCCAATG
29731848 AAATAAACAAAAAT
1 AAATAAACAAAAAT
29731862 AAATAAAGCAAAAAT
1 AAATAAA-CAAAAAT
29731877 AAATAAAACAAA
1 AAAT-AAACAAA
29731889 GAAGCTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.28
15 15 0.60
16 3 0.12
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.12
Consensus pattern (14 bp):
AAATAAACAAAAAT
Found at i:29733719 original size:16 final size:16
Alignment explanation
Indices: 29733700--29733730 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
29733690 TTATTTTTAA
29733700 ATAAATCTAATTAAAT
1 ATAAATCTAATTAAAT
29733716 ATAAATCTAATTAAA
1 ATAAATCTAATTAAA
29733731 AGATTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAATCTAATTAAAT
Found at i:29736122 original size:46 final size:46
Alignment explanation
Indices: 29736072--29736187 Score: 146
Period size: 46 Copynumber: 2.5 Consensus size: 46
29736062 GACGAGAGCT
29736072 AGTGTAAGACATGTCTGGGACATGCAACGGCCT-CGAGA-CATAACCC
1 AGTGTAAGACATGTCTGGGACATGCAACGG-CTACGAGATCAT-ACCC
* * **
29736118 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCAACGGCTACGAGATCATACCC
*
29736164 AGTGTAAGACCGTGTCTGGGACAT
1 AGTGTAAGA-CATGTCTGGGACAT
29736188 CGTATCGGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
45 2 0.03
46 45 0.73
47 15 0.24
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCAACGGCTACGAGATCATACCC
Found at i:29740584 original size:19 final size:19
Alignment explanation
Indices: 29740560--29740600 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
29740550 GAATCTTAAA
*
29740560 ATTC-AAATTTTTAATTTTG
1 ATTCAAAATTTTGAA-TTTG
29740579 ATTCAAAATTTTGAATTTG
1 ATTCAAAATTTTGAATTTG
29740598 ATT
1 ATT
29740601 GAGGCATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (19 bp):
ATTCAAAATTTTGAATTTG
Found at i:29740650 original size:54 final size:54
Alignment explanation
Indices: 29740528--29740650 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
29740518 GTTTTTTTCA
* *
29740528 TCAAAA-TTGAAATTTGGTTGAGGAATCTTAAAATTCAAATTTTTAATTTTGAT
1 TCAAAATTTTAAATTTGATTGAGGAATCTTAAAATTCAAATTTTTAATTTTGAT
* *
29740581 TCAAAATTTTGAATTTGATTGAGGCATCTTAAAATTCAAATTCTTTAATTTTGAT
1 TCAAAATTTTAAATTTGATTGAGGAATCTTAAAATTCAAATT-TTTAATTTTGAT
* *
29740636 T-TATATTTTAAATTT
1 TCAAAATTTTAAATTT
29740651 TTTCAAAGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
53 6 0.10
54 42 0.69
55 13 0.21
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.47
Consensus pattern (54 bp):
TCAAAATTTTAAATTTGATTGAGGAATCTTAAAATTCAAATTTTTAATTTTGAT
Found at i:29750813 original size:40 final size:40
Alignment explanation
Indices: 29750762--29751116 Score: 478
Period size: 40 Copynumber: 8.8 Consensus size: 40
29750752 ATTTGAATTT
* * * *
29750762 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
*
29750802 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
* *
29750842 TATCCGGGCTAAGACCTGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
29750882 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATA
* *
29750924 TATCCGGGCTAAGACCCGAAGGCATTCGTACGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
* *
29750964 TATCCGGGCTAAGACCTGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
29751004 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATA
* * *
29751046 TATCCGGGCTAAGACCCGAAGGCATTCGTACGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
** * *
29751086 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
29751117 TTGTGGTAAT
Statistics
Matches: 283, Mismatches: 27, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
40 206 0.73
41 3 0.01
42 74 0.26
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
Found at i:29750968 original size:82 final size:80
Alignment explanation
Indices: 29750762--29751116 Score: 478
Period size: 82 Copynumber: 4.4 Consensus size: 80
29750752 ATTTGAATTT
* * * *
29750762 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCA
29750826 TTCGTGCGAGTTGATA
65 TTCGTGCGAGTTGATA
* * *
29750842 TATCCGGGCTAAGACCTGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
*
29750907 TTGTGCGAGTTGATATA
66 TCGTGCGAGTTG--ATA
* * * *
29750924 TATCCGGGCTAAGACCCGAAGGCATTCGTACGAGTTGATATATCCGGGCTAAGACCTGCAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
*
29750989 TTGTGCGAGTTGATA
66 TCGTGCGAGTTGATA
*
29751004 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATATATCCGGGCTAAGACCCGAAGGC
* *
29751069 ATTCGTACGAGTTGCTA
64 ATTCGTGCGAGTTGATA
** * *
29751086 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
29751117 TTGTGGTAAT
Statistics
Matches: 244, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
80 102 0.42
81 3 0.01
82 139 0.57
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTTGATA
Found at i:29751132 original size:122 final size:122
Alignment explanation
Indices: 29750762--29751116 Score: 579
Period size: 122 Copynumber: 2.9 Consensus size: 122
29750752 ATTTGAATTT
* * * * *
29750762 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGAT-TTTATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
*
29750825 ATTCGTGCGAGTTGATATATCCGGGCTAAGACCTGCAGGCATTTGTGCGAGTTGATA
66 ATTCGTACGAGTTGATATATCCGGGCTAAGACCTGCAGGCATTTGTGCGAGTTGATA
29750882 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
29750947 ATTCGTACGAGTTGATATATCCGGGCTAAGACCTGCAGGCATTTGTGCGAGTTGATA
66 ATTCGTACGAGTTGATATATCCGGGCTAAGACCTGCAGGCATTTGTGCGAGTTGATA
29751004 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
* ** * * * *
29751069 ATTCGTACGAGTTGCTATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
66 ATTCGTACGAGTTGATATATCCGGGCTAAGACCTGCAGGCATTTGTGC
29751117 TTGTGGTAAT
Statistics
Matches: 220, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
120 30 0.14
121 4 0.02
122 186 0.85
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (122 bp):
TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
ATTCGTACGAGTTGATATATCCGGGCTAAGACCTGCAGGCATTTGTGCGAGTTGATA
Found at i:29762514 original size:40 final size:40
Alignment explanation
Indices: 29762361--29762546 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
29762351 TTGAATGATG
* * * *
29762361 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* * *
29762401 TCCGGACTAAGAT-CCAAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29762441 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29762481 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
29762522 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29762547 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29771739 original size:60 final size:60
Alignment explanation
Indices: 29771665--29771785 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
29771655 GTGGCAAACC
29771665 CGGTAACTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTCGGGTTT
1 CGGTAACTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTCGGGTTT
*
29771725 CGGTAATTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTCGGGTTT
1 CGGTAACTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTCGGGTTT
29771785 C
1 C
29771786 TTTTCTAATT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (60 bp):
CGGTAACTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTCGGGTTT
Found at i:29807588 original size:43 final size:43
Alignment explanation
Indices: 29807535--29807676 Score: 212
Period size: 43 Copynumber: 3.3 Consensus size: 43
29807525 AGTGAATAAC
*
29807535 AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAGAT
1 AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT
*
29807578 AATATAGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT
1 AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT
* * * *
29807621 AATATCGAGCTTAGAGCCTAGCAGGCTATAATGCCGGTGAAAT
1 AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT
* *
29807664 GATATCAGGCTTC
1 AATATCGGGCTTC
29807677 AAACCTAGCA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT
Found at i:29807684 original size:43 final size:42
Alignment explanation
Indices: 29807551--29807783 Score: 155
Period size: 43 Copynumber: 5.6 Consensus size: 42
29807541 GGGCTTCGGG
* * * ***
29807551 CCTAGCAGGCTATAATGCTGGTGAGATAATAT-AGGGCTTCGGG
1 CCTAGCAGGCTATAATGCCGGTGAAATGATATCA-GGCTT-AAA
* * *
29807594 CCTAGCAGGCTATAATGCCGGTGAGATAATATC-GAGCTTAGAG
1 CCTAGCAGGCTATAATGCCGGTGAAATGATATCAG-GCTTA-AA
29807637 CCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTTCAAA
1 CCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTT-AAA
* *
29807680 CCTAGCAGG-TGA-AATGCCGATG-AATGAGT-TCAGACTTAAA
1 CCTAGCAGGCT-ATAATGCCGGTGAAATGA-TATCAGGCTTAAA
* ** * *
29807720 GTCTAGCAGGCT-TCGTGCTGGTG--ATGA-ATTCAGGTTTAAAA
1 -CCTAGCAGGCTATAATGCCGGTGAAATGATA-TCAGGCTT-AAA
29807761 CCTAGCAGGCTA-AATGCCGGTGA
1 CCTAGCAGGCTATAATGCCGGTGA
29807784 TTTGATAAAA
Statistics
Matches: 156, Mismatches: 19, Indels: 32
0.75 0.09 0.15
Matches are distributed among these distances:
40 30 0.19
41 29 0.19
42 13 0.08
43 82 0.53
44 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (42 bp):
CCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTTAAA
Found at i:29807684 original size:86 final size:84
Alignment explanation
Indices: 29807535--29807783 Score: 226
Period size: 86 Copynumber: 3.0 Consensus size: 84
29807525 AGTGAATAAC
* * * * ***
29807535 AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAGATAATAT-AGGGCTTCGGGCCTAG
1 AATATCGAGCTTAGAGCCTAGCAGGCTATAATGCTGGTGA-ATGATATCA-GGCTTCAAACCTAG
29807599 CAGGCTATAATGCCGGTGAGAT-
64 CAGGCTA-AATGCCGGTGA-ATG
*
29807621 AATATCGAGCTTAGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTTCAAACCTAGC
1 AATATCGAGCTTAGAGCCTAGCAGGCTATAATGCTGGTG-AATGATATCAGGCTTCAAACCTAGC
*
29807686 AGG-TGAAATGCCGATGAATG
65 AGGCT-AAATGCCGGTGAATG
* * * ** * *
29807706 AGT-TC-AGACTTAAAGTCTAGCAGGCT-TCGTGCTGGTG-ATGA-ATTCAGGTTTAAAACCTAG
1 AATATCGAG-CTTAGAGCCTAGCAGGCTATAATGCTGGTGAATGATA-TCAGGCTTCAAACCTAG
29807766 CAGGCTAAATGCCGGTGA
64 CAGGCTAAATGCCGGTGA
29807784 TTTGATAAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
80 1 0.01
81 34 0.25
82 1 0.01
83 10 0.07
84 20 0.14
85 13 0.09
86 57 0.41
87 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (84 bp):
AATATCGAGCTTAGAGCCTAGCAGGCTATAATGCTGGTGAATGATATCAGGCTTCAAACCTAGCA
GGCTAAATGCCGGTGAATG
Found at i:29811432 original size:47 final size:47
Alignment explanation
Indices: 29811374--29811507 Score: 139
Period size: 47 Copynumber: 2.9 Consensus size: 47
29811364 GGGTAAGGTC
* *
29811374 CCGATGCCATGTCCCAGACACAGTCTTACACTGGCTCAT-ATCTC-AAG
1 CCGAAGCCATGTCCCAGACA-AGTCTTACACTGGCT-ATCACCTCGAAG
* * *
29811421 TCGAAGCCATGTCCCAGACATGGTCTTACACTGACTATCACCTCGAAG
1 CCGAAGCCATGTCCCAGACA-AGTCTTACACTGGCTATCACCTCGAAG
* * * *
29811469 CCGACG-CATGTCCCAGACATGTCTTACATTGGCTTTCAC
1 CCGAAGCCATGTCCCAGACAAGTCTTACACTGGCTATCAC
29811508 AAGTGACCCA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 18 0.25
47 48 0.66
48 7 0.10
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (47 bp):
CCGAAGCCATGTCCCAGACAAGTCTTACACTGGCTATCACCTCGAAG
Found at i:29822236 original size:47 final size:48
Alignment explanation
Indices: 29822164--29822290 Score: 163
Period size: 47 Copynumber: 2.7 Consensus size: 48
29822154 GTAAAGTGCT
* * *
29822164 GATGCCATGTCCCAGACACGATCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATCTCGAAGCC
* *
29822211 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGAAGCC
*
29822259 GATG-CATGTCCTAGACAT-GTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
29822291 TTCACAAGTG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 15 0.21
47 49 0.69
48 7 0.10
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGAAGCC
Found at i:29824036 original size:14 final size:14
Alignment explanation
Indices: 29824013--29824044 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
29824003 AGTCCAGACC
29824013 ACATAATTTTCATA
1 ACATAATTTTCATA
*
29824027 ACATATTTTTCATA
1 ACATAATTTTCATA
29824041 ACAT
1 ACAT
29824045 GCCCCTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.44
Consensus pattern (14 bp):
ACATAATTTTCATA
Found at i:29824238 original size:12 final size:12
Alignment explanation
Indices: 29824221--29824248 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
29824211 TTAAAATATA
29824221 TCAAAGTAAGCT
1 TCAAAGTAAGCT
29824233 TCAAAGTAAGCT
1 TCAAAGTAAGCT
29824245 TCAA
1 TCAA
29824249 TAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (12 bp):
TCAAAGTAAGCT
Found at i:29826332 original size:21 final size:22
Alignment explanation
Indices: 29826280--29826332 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
29826270 AAATAAAATC
*
29826280 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
29826301 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
29826323 CATGTATCAT
1 CATGTATCAT
29826333 CATTTACTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:29829013 original size:47 final size:47
Alignment explanation
Indices: 29828943--29829158 Score: 180
Period size: 47 Copynumber: 4.6 Consensus size: 47
29828933 GTAAGGTACC
* * *
29828943 GATGCCTTATCCCAGACACGGTCTTACACTAGCTCATATCTCATG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCATGCT
*
29828989 CGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGTAGCT
1 -GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCAT-ATCTCAT-GCT
** * * *
29829038 GATG-CATGTCCCAGACA-CATCTTACACTAGCACTTGTCTCGATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTC-ATGCT
* * *
29829084 GATGTCATGTCCCAGACATGGTCTTACACTGGGTCTCATAATGTC--GCT
1 GATGCCATGTCCCAGACATGGTCTTACACT-AG-CTCAT-ATCTCATGCT
*
29829132 GATG-CATGTCCCAAACAT-GTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
29829159 AAGCCCACAA
Statistics
Matches: 139, Mismatches: 18, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
46 33 0.24
47 77 0.55
48 21 0.15
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCATGCT
Found at i:29829113 original size:94 final size:93
Alignment explanation
Indices: 29828952--29829158 Score: 256
Period size: 94 Copynumber: 2.2 Consensus size: 93
29828942 CGATGCCTTA
*
29828952 TCCCAGACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAGACATGGTCTTAC
1 TCCCAGACAC-GTCTTACACTAGCACATATCTCATGTCGATGCCATGTCCCAGACATGGTCTTAC
*
29829017 ACTGACTATCAT-CTCGTAGCTGATGCATG
65 ACTGACTATCATAAT-GTAGCTGATGCATG
* * * *
29829046 TCCCAGACACATCTTACACTAGCACTTGTCTCGATG-CTGATGTCATGTCCCAGACATGGTCTTA
1 TCCCAGACACGTCTTACACTAGCACATATCTC-ATGTC-GATGCCATGTCCCAGACATGGTCTTA
** * *
29829110 CACTGGGTCTCATAATGTCGCTGATGCATG
64 CACTGACTATCATAATGTAGCTGATGCATG
* *
29829140 TCCCAAACATGTCTTACAC
1 TCCCAGACACGTCTTACAC
29829159 AAGCCCACAA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 19 0.20
94 77 0.79
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
TCCCAGACACGTCTTACACTAGCACATATCTCATGTCGATGCCATGTCCCAGACATGGTCTTACA
CTGACTATCATAATGTAGCTGATGCATG
Found at i:29831801 original size:24 final size:24
Alignment explanation
Indices: 29831774--29831897 Score: 169
Period size: 24 Copynumber: 5.0 Consensus size: 24
29831764 CGGCATTGTG
29831774 CTAAGTGAAATAA-TACCATGGCAT
1 CTAAGTGAAATAAGT-CCATGGCAT
*
29831798 CTAAGTGAAATAAGTCTATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
29831825 GCTAAGTGAAATAAGTCCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
29831850 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
**
29831874 CTAAACGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
29831898 GGTGCTAAGT
Statistics
Matches: 91, Mismatches: 4, Indels: 10
0.87 0.04 0.10
Matches are distributed among these distances:
24 65 0.71
25 3 0.03
27 2 0.02
28 21 0.23
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:29831835 original size:52 final size:52
Alignment explanation
Indices: 29831765--29831897 Score: 186
Period size: 52 Copynumber: 2.6 Consensus size: 52
29831755 TCTAGGATAC
* *
29831765 GGCATTGTGCTAAGTGAAATAA-TACCATGGCATCTAAGTGAAATAAGTCTAT
1 GGCAATGTGCTAAGTGAAATAAGT-CCATGGCATCTAAGTGAAATAAGTCCAT
29831817 GGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCAT
1 GGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCAT
**
29831869 GGC-A--T-CTAAACGAAATAAGTCCATGGCAT
1 GGCAATGTGCTAAGTGAAATAAGTCCATGGCAT
29831898 GGTGCTAAGT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
48 22 0.29
49 1 0.01
51 1 0.01
52 51 0.67
53 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (52 bp):
GGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCAT
Found at i:29831988 original size:51 final size:51
Alignment explanation
Indices: 29831933--29832080 Score: 251
Period size: 51 Copynumber: 2.9 Consensus size: 51
29831923 TGAACCTTAG
* *
29831933 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTCAATGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
29831984 GAATATAATATCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
29832035 GAATAAAATAGCTTTGGACACGAGTGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC
29832081 CGTGTATCAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 90 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:29834782 original size:32 final size:32
Alignment explanation
Indices: 29834743--29834807 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
29834733 AAAATCACTA
29834743 AAAAAACTCAAAAATTAAGGTATGGCTTAGCT
1 AAAAAACTCAAAAATTAAGGTATGGCTTAGCT
*
29834775 AAAAAACTCAAAACTTAAGGTATGGCTTAGCT
1 AAAAAACTCAAAAATTAAGGTATGGCTTAGCT
29834807 A
1 A
29834808 GTACTCAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (32 bp):
AAAAAACTCAAAAATTAAGGTATGGCTTAGCT
Found at i:29845466 original size:27 final size:27
Alignment explanation
Indices: 29845436--29845613 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
29845426 ATATTGAGTC
* * *
29845436 CGCACACTCAGTGCTATATAATTAACT
1 CGCACACTTAGTGCTACATAATAAACT
*
29845463 CGCACACTTAGTGCTACGTAATCAAA-T
1 CGCACACTTAGTGCTACATAAT-AAACT
*
29845490 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAAT-AAACT
** ** * *
29845518 CGCACACTTAGTGCCGCATGGTTAATT
1 CGCACACTTAGTGCTACATAATAAACT
* * **
29845545 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATAAACT
* *
29845572 CGCACACTTAGTGCAACATAGTCAAA-T
1 CGCACACTTAGTGCTACATAAT-AAACT
29845599 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29845614 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATAAACT
Found at i:29845575 original size:82 final size:81
Alignment explanation
Indices: 29845457--29845612 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29845447 TGCTATATAA
* *
29845457 TTAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TTAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
29845522 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29845539 TTAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TTAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
29845603 CACTTAGTGC
65 CACTTAGTGC
29845613 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (81 bp):
TTAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29845625 original size:82 final size:83
Alignment explanation
Indices: 29845436--29845625 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 83
29845426 ATATTGAGTC
* * * * *
29845436 CGCACACTCAGTGCTATATAA-TTAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTTAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
29845500 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
29845518 CGCACACTTAGTGCCG--C-ATGGTTAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TTAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
29845579 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
29845599 CGCACACTTAGTGCTGTACAATTTAAT
1 CGCACACTTAGTGCTGTACAATTTAAT
29845626 CCCGCGCACT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 69 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTTAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:29861091 original size:93 final size:93
Alignment explanation
Indices: 29860978--29861149 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29860968 CGCCCATAAG
* *
29860978 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29861043 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
29861071 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29861136 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
29861150 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29861146 original size:46 final size:46
Alignment explanation
Indices: 29860971--29861146 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
29860961 TGTAACCCGC
* * *
29860971 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
29861017 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
29861067 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
29861110 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
29861147 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:29872918 original size:20 final size:20
Alignment explanation
Indices: 29872893--29872933 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29872883 AGAATATGGA
29872893 TAACTATCATCCTATAGATT
1 TAACTATCATCCTATAGATT
29872913 TAACTATCATCCTATAGATT
1 TAACTATCATCCTATAGATT
29872933 T
1 T
29872934 GTGTCCGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (20 bp):
TAACTATCATCCTATAGATT
Done.