Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 115 of 208
Found at i:37549254 original size:56 final size:56
Alignment explanation
Indices: 37549187--37549306 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
37549177 TATTAGTTTA
37549187 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
37549243 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
37549299 TTGCCCAT
1 TTGCCCAT
37549307 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:37556265 original size:47 final size:47
Alignment explanation
Indices: 37556211--37556527 Score: 463
Period size: 47 Copynumber: 6.6 Consensus size: 47
37556201 TATTTGAATA
37556211 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37556258 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37556309 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37556356 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37556407 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
37556454 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
37556501 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
37556528 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
47 155 0.63
51 91 0.37
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:37556283 original size:51 final size:51
Alignment explanation
Indices: 37556223--37556472 Score: 417
Period size: 51 Copynumber: 5.1 Consensus size: 51
37556213 TGTGAAAGTG
37556223 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
37556274 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
37556321 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
37556372 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
37556419 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
37556470 TAT
1 TAT
37556473 GTGACAGGGC
Statistics
Matches: 185, Mismatches: 6, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
47 91 0.49
51 94 0.51
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (51 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:37556324 original size:98 final size:98
Alignment explanation
Indices: 37556211--37556527 Score: 516
Period size: 98 Copynumber: 3.3 Consensus size: 98
37556201 TATTTGAATA
37556211 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
37556276 TATATGTGATAAGGCCTAATGGCCGACGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
*
37556309 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
37556374 TATATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
*
37556407 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
37556468 TATATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
* *
37556501 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
37556528 TCCCGAAGGG
Statistics
Matches: 208, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 53 0.25
98 155 0.75
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (98 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATATGTGATAAGGCCTAATGGCCGACGTGATG
Found at i:37556702 original size:37 final size:37
Alignment explanation
Indices: 37556646--37556724 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
37556636 CCGAGCTCTA
* *
37556646 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
37556683 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37556720 AAGAC
1 AAGAC
37556725 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37574296 original size:39 final size:40
Alignment explanation
Indices: 37574171--37574354 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
37574161 GCTACTCGTT
*
37574171 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
37574211 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
37574251 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
37574290 CAAATGCCTTC-GGACCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
37574331 CAAA-GCCTTCGGGACTTA-CCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37574355 CATCATTCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 36 0.30
40 71 0.58
41 13 0.11
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37574339 original size:79 final size:81
Alignment explanation
Indices: 37574171--37574354 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 81
37574161 GCTACTCGTT
* *
37574171 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
37574235 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * ** *
37574252 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGACCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
* *
37574314 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
37574331 CAAAGCCTTCGGGACTTA-CCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
37574355 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 63 0.72
80 18 0.21
81 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCAC
Found at i:37583248 original size:43 final size:43
Alignment explanation
Indices: 37583187--37583480 Score: 263
Period size: 43 Copynumber: 6.8 Consensus size: 43
37583177 TAGGTTATAT
* * *
37583187 TTCGGTTTAGCTGATGATGAACTGTGTGTGCCAATATAGATGC
1 TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTATAGATGC
* * *
37583230 TTCGGTTTATCCGATGATGCACTATGTGTGCCAGTATATATGC
1 TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTATAGATGC
* * *
37583273 TTCGGTTTATTCGATGACGCAA-TGTGTGTGCCAGTATAGTTGC
1 TTCGGTTTATCCGATGATG-AACTGTGTGTGCCAGTATAGATGC
* * * * *
37583316 TTTGATTTATCAGATGATGCATA-T-TGTGTACTAGTATAGATGC
1 TTCGGTTTATCCGATGATG-A-ACTGTGTGTGCCAGTATAGATGC
* * ** *
37583359 TTCGGTTTATCTGATGATGCACAATGTGTGCCAGTATAGATGT
1 TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTATAGATGC
* * * * *
37583402 TTTGGTTTATCCGATGATGCATTGTGTGTTCCAATATATG-TGC
1 TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTATA-GATGC
* * * * *
37583445 TTCAGTTCATCCGATGATGAATTGTATGCGCCAGTA
1 TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTA
37583481 AAATTGCTTC
Statistics
Matches: 202, Mismatches: 44, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
41 1 0.00
43 197 0.98
44 4 0.02
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.38
Consensus pattern (43 bp):
TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTATAGATGC
Found at i:37583325 original size:86 final size:86
Alignment explanation
Indices: 37583199--37583551 Score: 299
Period size: 86 Copynumber: 4.1 Consensus size: 86
37583189 CGGTTTAGCT
* * *
37583199 GATGATG-AACTGTGTGTGCCAATATAGATGCTTCGGTTTATCCGATGATGCACTATGTGTGCCA
1 GATGATGCAA-TGTGTGTGCCAGTATAGATGCTTTGATTTATCCGATGATGCACTATGTGTGCCA
37583263 GTATATATGCTTCGGTTTATTC
65 GTATATATGCTTCGGTTTATTC
* * * * *
37583285 GATGACGCAATGTGTGTGCCAGTATAGTTGCTTTGATTTATCAGATGATGCA-TATTGTGTACTA
1 GATGATGCAATGTGTGTGCCAGTATAGATGCTTTGATTTATCCGATGATGCACTA-TGTGTGCCA
*
37583349 GTATAGATGCTTCGGTTTA-TC
65 GTATATATGCTTCGGTTTATTC
* * * * * *
37583370 TGATGATGCACA-ATGTGTGCCAGTATAGATGTTTTGGTTTATCCGATGATGCATTGTGTGTTCC
1 -GATGATGCA-ATGTGTGTGCCAGTATAGATGCTTTGATTTATCCGATGATGCACTATGTGTGCC
* * * * *
37583434 AATATATGTGCTTCAGTTCATCC
64 AGTATATATGCTTCGGTTTATTC
* * * * * * **
37583457 GATGATG-AATTGTATGCGCCAGTA-AAATTGCTTCT-ATTAATCTGGTGATGCACTACATGTGC
1 GATGATGCAA-TGTGTGTGCCAGTATAGA-TGCTT-TGATTTATCCGATGATGCACTATGTGTGC
* * *
37583519 CAGTATATTTCCTTTC-GTTTATCC
63 CAGTATATATGC-TTCGGTTTATTC
37583543 GATGATGCA
1 GATGATGCA
37583552 CTACATGTAT
Statistics
Matches: 213, Mismatches: 42, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
84 1 0.00
85 7 0.03
86 195 0.92
87 10 0.05
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (86 bp):
GATGATGCAATGTGTGTGCCAGTATAGATGCTTTGATTTATCCGATGATGCACTATGTGTGCCAG
TATATATGCTTCGGTTTATTC
Found at i:37583489 original size:129 final size:129
Alignment explanation
Indices: 37583221--37583551 Score: 339
Period size: 129 Copynumber: 2.6 Consensus size: 129
37583211 TGTGTGCCAA
* * * *
37583221 TATAGATGCTTCGGTTTATCCGATGATGCACTATGTGTGCCAGTATATATGCTTCGGTTTATTCG
1 TATAAATGCTTCGGTTTATCTGATGATGCACTATGTGTGCCAGTATATATGCTTTGGTTTATCCG
* * * * * *
37583286 ATGACGCAATGTGTGTGCCAGTATAGTTGCTTTGATTTATCAGATGATGCATATTGTGTACTAG
66 ATGATGCAATGTGTGTGCCAATATAGTTGCTTAGATTCATCAGATGATGCATATTGTGCACCAG
* * * *
37583350 TATAGATGCTTCGGTTTATCTGATGATGCACAATGTGTGCCAGTATAGATGTTTTGGTTTATCCG
1 TATAAATGCTTCGGTTTATCTGATGATGCACTATGTGTGCCAGTATATATGCTTTGGTTTATCCG
* * * *
37583415 ATGATGCATTGTGTGTTCCAATATA-TGTGCTTCAG-TTCATCCGATGATG-A-ATTGTATGCGC
66 ATGATGCAATGTGTGTGCCAATATAGT-TGCTT-AGATTCATCAGATGATGCATATTG--TGCAC
37583476 CAG
127 CAG
** * * ** * * *
37583479 TA-AAATTGCTTCTATTAATCTGGTGATGCACTACATGTGCCAGTATATTTCCTTTCGTTTATCC
1 TATAAA-TGCTTCGGTTTATCTGATGATGCACTATGTGTGCCAGTATATATGCTTTGGTTTATCC
37583543 GATGATGCA
65 GATGATGCA
37583552 CTACATGTAT
Statistics
Matches: 168, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
127 4 0.02
128 4 0.02
129 159 0.95
130 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (129 bp):
TATAAATGCTTCGGTTTATCTGATGATGCACTATGTGTGCCAGTATATATGCTTTGGTTTATCCG
ATGATGCAATGTGTGTGCCAATATAGTTGCTTAGATTCATCAGATGATGCATATTGTGCACCAG
Found at i:37583549 original size:43 final size:43
Alignment explanation
Indices: 37583502--37583608 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
37583492 ATTAATCTGG
* *
37583502 TGATGCACTACATGTGCCAGTATATTTCCTTTCG-TTTATCCGA
1 TGATGCACTACATGTGCCAGTATATTTCC-TACGAATTATCCGA
*** * *
37583545 TGATGCACTACATGTATTAGTATATTTCCTAGGAATTATCCGG
1 TGATGCACTACATGTGCCAGTATATTTCCTACGAATTATCCGA
37583588 TGATGCACTA-AGTGTGCCAGT
1 TGATGCACTACA-TGTGCCAGT
37583609 GTAATTGCTC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 3 0.06
43 49 0.94
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (43 bp):
TGATGCACTACATGTGCCAGTATATTTCCTACGAATTATCCGA
Found at i:37586208 original size:29 final size:29
Alignment explanation
Indices: 37586175--37586230 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
37586165 CACAGCCAAG
37586175 TGGCCATGTGGCAGAC-AGTGTGGGTCATA
1 TGGCCATGTGGCAGACTA-TGTGGGTCATA
37586204 TGGCCATGTGGCAGACTATGTGGGTCA
1 TGGCCATGTGGCAGACTATGTGGGTCA
37586231 CATGACTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.25
Consensus pattern (29 bp):
TGGCCATGTGGCAGACTATGTGGGTCATA
Found at i:37587805 original size:15 final size:15
Alignment explanation
Indices: 37587785--37587825 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
37587775 AGTAAGTATG
37587785 TGTACTTTAGTTAAC-
1 TGTACTTTAGTT-ACT
37587800 TGTACTTTAGTTACT
1 TGTACTTTAGTTACT
*
37587815 TTTACTTTAGT
1 TGTACTTTAGT
37587826 ATTTTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (15 bp):
TGTACTTTAGTTACT
Found at i:37589998 original size:40 final size:40
Alignment explanation
Indices: 37589942--37590168 Score: 175
Period size: 41 Copynumber: 5.5 Consensus size: 40
37589932 GTTACTGGCA
*
37589942 TTTTTCCCATAAACGCCGCAAAAGGTAAAGCAACAGCGGCG
1 TTTTT-CCATAAACGCCGCAAAAGGTAAAGCAATAGCGGCG
* ** * *** * * *
37589983 TTTTTGCATAAACGCCATAAAAGATTAAAATGATAGTGACAT
1 TTTTTCCATAAACGCCGCAAAAG-GTAAAGCAATAGCGGC-G
* * * * * *
37590025 TTTTTTCATAAACGCCACTAAAGGTAAAGCAATGGCAGCA
1 TTTTTCCATAAACGCCGCAAAAGGTAAAGCAATAGCGGCG
* * *
37590065 TTTTTGCATAAACGCCGCAAAAGGTTAAAACAATAGCTGCG
1 TTTTTCCATAAACGCCGCAAAAGG-TAAAGCAATAGCGGCG
* * * *
37590106 TTTTTCCCATAAATGCCGCTAAAGTTAAAGCAATAGTGGCG
1 TTTTT-CCATAAACGCCGCAAAAGGTAAAGCAATAGCGGCG
*
37590147 TTTTTCCCATAAATGCCGCAAA
1 TTTTT-CCATAAACGCCGCAAA
37590169 TATTTTTATT
Statistics
Matches: 144, Mismatches: 38, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
40 36 0.25
41 73 0.51
42 35 0.24
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (40 bp):
TTTTTCCATAAACGCCGCAAAAGGTAAAGCAATAGCGGCG
Found at i:37590151 original size:82 final size:82
Alignment explanation
Indices: 37589940--37590168 Score: 262
Period size: 82 Copynumber: 2.8 Consensus size: 82
37589930 GCGTTACTGG
* * **
37589940 CATTTTTCCCATAAACGCCGCAAAAGGTAAAGCAACAGCGGCGTTTTTGCATAAACGCCATAAAA
1 CATTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAGCGGCGTTTTTGCATAAACGCCGCAAAA
**
37590005 GATTAAAATGATAGTGA
66 GATTAAAACAATAGTGA
** * * * *
37590022 CATTTTTTTCATAAACGCCACTAAAGGTAAAGCAATGGCAGCATTTTTGCATAAACGCCGCAAAA
1 CATTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAGCGGCGTTTTTGCATAAACGCCGCAAAA
*
37590087 GGTTAAAACAATAGCTG-
66 GATTAAAACAATAG-TGA
* * * * * *
37590104 CGTTTTTCCCATAAATGCCGCTAAAGTTAAAGCAATAGTGGCGTTTTTCCCATAAATGCCGCAAA
1 CATTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAGCGGCGTTTTT-GCATAAACGCCGCAAA
37590169 TATTTTTATT
Statistics
Matches: 120, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
82 104 0.87
83 16 0.13
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (82 bp):
CATTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAGCGGCGTTTTTGCATAAACGCCGCAAAA
GATTAAAACAATAGTGA
Found at i:37595839 original size:12 final size:12
Alignment explanation
Indices: 37595822--37595848 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37595812 AACCAGTTTT
37595822 AAACTAGTATTA
1 AAACTAGTATTA
37595834 AAACTAGTATTA
1 AAACTAGTATTA
37595846 AAA
1 AAA
37595849 TCAAAAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (12 bp):
AAACTAGTATTA
Found at i:37595965 original size:51 final size:51
Alignment explanation
Indices: 37595875--37596112 Score: 343
Period size: 51 Copynumber: 4.6 Consensus size: 51
37595865 GGTGGATAAC
*
37595875 ATTAAATAAATAACCATATTTCATAATAATTAATTAATTAATTAATTTTTGATTA
1 ATTAAATAAATAATCATATTTCATAATAA-T-A--AATTAATTAATTTTTGATTA
*
37595930 ATTAAATAAATAATAATATTTCATAATAATAAATTAATTAATTTTTGATTA
1 ATTAAATAAATAATCATATTTCATAATAATAAATTAATTAATTTTTGATTA
* * *
37595981 ACTAAATAAATAATCATATTTCATAATAATTAATTAATTAATTTTCGATTA
1 ATTAAATAAATAATCATATTTCATAATAATAAATTAATTAATTTTTGATTA
* *
37596032 ATTAAATAAATAATCATATTTCATAATAATTAATTAACTAATTTTCT-ATTA
1 ATTAAATAAATAATCATATTTCATAATAATAAATTAATTAATTTT-TGATTA
* *
37596083 TTTAATTAAATAATCATATTTCATAATAAT
1 ATTAAATAAATAATCATATTTCATAATAAT
37596113 CATAAAAATC
Statistics
Matches: 171, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
51 142 0.83
53 1 0.01
54 1 0.01
55 27 0.16
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (51 bp):
ATTAAATAAATAATCATATTTCATAATAATAAATTAATTAATTTTTGATTA
Found at i:37620806 original size:38 final size:38
Alignment explanation
Indices: 37620748--37620855 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
37620738 CATCAGCAGA
* *
37620748 AAGCCTACTAGGCGCTAAGCCTGAATAACACCGGCACT
1 AAGCCTACTAGGCACTAAGCCTGAATAACACCGACACT
* * *
37620786 AAGTCTGCTAGGCACTAAGCCTAAATAACACCGACACT
1 AAGCCTACTAGGCACTAAGCCTGAATAACACCGACACT
* *
37620824 GAGCCTACTAGGCACTGAGCCTGAATAACACC
1 AAGCCTACTAGGCACTAAGCCTGAATAACACC
37620856 CAATTTGAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (38 bp):
AAGCCTACTAGGCACTAAGCCTGAATAACACCGACACT
Found at i:37626344 original size:16 final size:16
Alignment explanation
Indices: 37626306--37626344 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
37626296 TTCTCATACG
* *
37626306 TTCTTTCCTGTTCCTT
1 TTCTTTTCTGTTCCTA
*
37626322 TTGTTTTCTGTTCCTA
1 TTCTTTTCTGTTCCTA
37626338 TTCTTTT
1 TTCTTTT
37626345 TCTAATTCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.03, C:0.23, G:0.08, T:0.67
Consensus pattern (16 bp):
TTCTTTTCTGTTCCTA
Found at i:37635215 original size:21 final size:21
Alignment explanation
Indices: 37635189--37635229 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37635179 TTTTAACACA
37635189 TTTAAT-TTTCATAATTTCATC
1 TTTAATATTT-ATAATTTCATC
*
37635210 TTTAATATTTATCATTTCAT
1 TTTAATATTTATAATTTCAT
37635230 TCAGAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAATATTTATAATTTCATC
Found at i:37640046 original size:37 final size:37
Alignment explanation
Indices: 37640005--37640099 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 37
37639995 ACCATAGTTG
*
37640005 CATCTAGACAAAAAAGGAAGCAATGTGGAAGCAACCACA
1 CATCTAGACAAAAAAGGAAGCAACGTGGAAGCAA-CA-A
*
37640044 TCTATGTCCAGACAAAAAAGGAAGCAACGTGGAAGCAACAA
1 -C-A--TCTAGACAAAAAAGGAAGCAACGTGGAAGCAACAA
37640085 CATC-AGGACAAAAAA
1 CATCTA-GACAAAAAA
37640100 ATGTCATCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
36 1 0.02
37 11 0.22
39 1 0.02
40 2 0.04
41 2 0.04
42 2 0.04
43 30 0.61
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.11
Consensus pattern (37 bp):
CATCTAGACAAAAAAGGAAGCAACGTGGAAGCAACAA
Found at i:37646683 original size:51 final size:51
Alignment explanation
Indices: 37646562--37646745 Score: 169
Period size: 51 Copynumber: 3.6 Consensus size: 51
37646552 AGTTGCTAGG
* * * * * *
37646562 TCACGTGTGTGGTACTATGTGCAGGCTACTA-CCTGTATCGGAATG-ATA-GG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGC-GTACCGG-ATGAAAATGA
* * **
37646612 TCCCATGTGTAGTACCATGTGCAGGCTACTATGCGTACCGGAT-AACTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAAT-GA
* * * * * *
37646663 TCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATCGGATGAAAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGA
37646714 TCACATGTGTAGTACTATGTGCAGGCTACTAT
1 TCACATGTGTAGTACTATGTGCAGGCTACTAT
37646746 ATGAACCGGG
Statistics
Matches: 107, Mismatches: 22, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
49 3 0.03
50 33 0.31
51 68 0.64
52 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGA
Found at i:37649627 original size:41 final size:40
Alignment explanation
Indices: 37649555--37649724 Score: 205
Period size: 41 Copynumber: 4.1 Consensus size: 40
37649545 TCGATATAAT
* * *
37649555 AAATATTTTTTACATACTTTTTAAATTTTTTTAAAAATTTTA
1 AAATATTTTTAAAATACTTTTTTAA--TTTTTAAAAATTTTA
***
37649597 AAATATTTTTAAAATACTTTTTTTAATTTTTTTTAATTTTA
1 AAATATTTTTAAAATAC-TTTTTTAATTTTTAAAAATTTTA
**
37649638 AAATATTTTTAAAATACTTTTTTTAATTTTTTTAAATTTTA
1 AAATATTTTTAAAATAC-TTTTTTAATTTTTAAAAATTTTA
* *
37649679 AAATATTTTTAAAATACTTTTTTACTTTTTTAAAATTTTTA
1 AAATATTTTTAAAATACTTTTTTA-ATTTTTAAAAATTTTA
37649720 AAATA
1 AAATA
37649725 AAAATGGGTC
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
40 7 0.06
41 86 0.75
42 15 0.13
43 7 0.06
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (40 bp):
AAATATTTTTAAAATACTTTTTTAATTTTTAAAAATTTTA
Found at i:37649636 original size:31 final size:31
Alignment explanation
Indices: 37649601--37649688 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 31
37649591 ATTTTAAAAT
**
37649601 ATTTTTAAAATACTTTTTTTAAT-TTTTTTTA
1 ATTTTTAAAATA-TTTTTAAAATATTTTTTTA
37649632 A-TTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATATTTTTAAAATA-TTTTTTTA
**
37649663 ATTTTTTTAA-A-TTTTAAAATATTTTT
1 ATTTTTAAAATATTTTTAAAATATTTTT
37649689 AAAATACTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
29 13 0.26
30 20 0.40
31 11 0.22
32 6 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (31 bp):
ATTTTTAAAATATTTTTAAAATATTTTTTTA
Found at i:37649669 original size:9 final size:10
Alignment explanation
Indices: 37649572--37649677 Score: 63
Period size: 10 Copynumber: 10.2 Consensus size: 10
37649562 TTTTACATAC
37649572 TTTTTAAATT
1 TTTTTAAATT
**
37649582 TTTTTAAAAA
1 TTTTTAAATT
*
37649592 TTTTAAAATAT
1 TTTTTAAAT-T
*
37649603 TTTTAAAATACT
1 TTTTTAAAT--T
*
37649615 TTTTTTAATT
1 TTTTTAAATT
*
37649625 TTTTTTAA--
1 TTTTTAAATT
*
37649633 TTTTAAAATAT
1 TTTTTAAAT-T
*
37649644 TTTTAAAATACT
1 TTTTTAAAT--T
*
37649656 TTTTTTAATT
1 TTTTTAAATT
37649666 TTTTTAAATT
1 TTTTTAAATT
37649676 TT
1 TT
37649678 AAAATATTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
8 6 0.08
10 36 0.47
11 18 0.24
12 16 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:37649684 original size:82 final size:82
Alignment explanation
Indices: 37649555--37649724 Score: 245
Period size: 82 Copynumber: 2.1 Consensus size: 82
37649545 TCGATATAAT
* *
37649555 AAATATTTTTTACATACTTTTTAAATTTTTTTAAAAATTTTAAAATATTTTTAAAATACTTTTTT
1 AAATATTTTTAAAATACTTTTTAAATTTTTTT-AAAATTTTAAAATATTTTTAAAATAC-TTTTT
**
37649620 TAATTTTTTTTAA-TTTTA
64 TAATTTTTTAAAATTTTTA
*
37649638 AAATATTTTTAAAATACTTTTTTTAATTTTTTT-AAATTTTAAAATATTTTTAAAATACTTTTTT
1 AAATATTTTTAAAATAC-TTTTTAAATTTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTTT
*
37649702 ACTTTTTTAAAATTTTTA
65 AATTTTTTAAAATTTTTA
37649720 AAATA
1 AAATA
37649725 AAAATGGGTC
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
81 15 0.19
82 35 0.44
83 15 0.19
84 14 0.18
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (82 bp):
AAATATTTTTAAAATACTTTTTAAATTTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTTTA
ATTTTTTAAAATTTTTA
Found at i:37649700 original size:30 final size:31
Alignment explanation
Indices: 37649644--37649724 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
37649634 TTTAAAATAT
**
37649644 TTTTAAAATACTTTTTTTAAT--TTTTTTAAA
1 TTTTAAAATA-TTTTTAAAATACTTTTTTAAA
**
37649674 TTTTAAAATATTTTTAAAATACTTTTTTACT
1 TTTTAAAATATTTTTAAAATACTTTTTTAAA
*
37649705 TTTTTAAA-ATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATA
37649725 AAAATGGGTC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 8 0.18
30 22 0.50
31 14 0.32
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAAA
Found at i:37652138 original size:17 final size:18
Alignment explanation
Indices: 37652125--37652158 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37652115 TTTTTAAAGA
*
37652125 ATTCTTTAT-ATTAAAAT
1 ATTCTATATAATTAAAAT
37652142 ATTCTATATAATTAAAA
1 ATTCTATATAATTAAAA
37652159 AAGTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTCTATATAATTAAAAT
Found at i:37652943 original size:13 final size:13
Alignment explanation
Indices: 37652925--37652950 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37652915 AAAAGAGAAA
37652925 TTTTATTTTTTAT
1 TTTTATTTTTTAT
37652938 TTTTATTTTTTAT
1 TTTTATTTTTTAT
37652951 GCCTGTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:37653397 original size:19 final size:18
Alignment explanation
Indices: 37653368--37653414 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
37653358 AGTATTCTAG
37653368 AAATT-ATAAAAATCAAA
1 AAATTAATAAAAATCAAA
*
37653385 AAATTAAATAAAATTCAAA
1 AAATT-AATAAAAATCAAA
*
37653404 AGATTAATAAA
1 AAATTAATAAA
37653415 TAATTTCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 5 0.19
18 6 0.23
19 15 0.58
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATTAATAAAAATCAAA
Found at i:37656856 original size:50 final size:50
Alignment explanation
Indices: 37656795--37656982 Score: 270
Period size: 50 Copynumber: 3.8 Consensus size: 50
37656785 TACTGTCAAT
* * * ** * * *
37656795 GCCATATCCCAGATATGGTCTTACATGTGAGTTCTCATATCGGTGCCTAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
37656845 GCCATGTCCCAGACATGGCCTTAC-TGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAT-GGGACCTCTCATCTCGGTGCCAAC
37656895 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
37656945 GCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
37656983 AATCTCAATA
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
49 1 0.01
50 123 0.98
51 1 0.01
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:37658729 original size:27 final size:27
Alignment explanation
Indices: 37658699--37658759 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
37658689 AGTTTTCCAT
* *
37658699 GAAGGCTTTCATTTCGTATATTGCCAC
1 GAAGGCATTCATTTCGTATATTACCAC
*
37658726 GAAGGCATTCCTTTCGTATATTACCAC
1 GAAGGCATTCATTTCGTATATTACCAC
*
37658753 AAAGGCA
1 GAAGGCA
37658760 ATCCTTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (27 bp):
GAAGGCATTCATTTCGTATATTACCAC
Found at i:37658764 original size:27 final size:27
Alignment explanation
Indices: 37658710--37658767 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
37658700 AAGGCTTTCA
* * *
37658710 TTTCGTATATTGCCACGAAGGCATTCC
1 TTTCGTATATTACCACAAAGGCAATCC
37658737 TTTCGTATATTACCACAAAGGCAATCC
1 TTTCGTATATTACCACAAAGGCAATCC
37658764 TTTC
1 TTTC
37658768 ATAGCATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (27 bp):
TTTCGTATATTACCACAAAGGCAATCC
Found at i:37661150 original size:48 final size:48
Alignment explanation
Indices: 37661079--37661173 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
37661069 TTCTTTGCTT
*
37661079 AAAAATGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
*
37661127 AAAAACGCCTAAGTCAGCCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
37661174 AATTCTCTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
Found at i:37661399 original size:17 final size:17
Alignment explanation
Indices: 37661377--37661440 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
37661367 CCTCAAAGGC
*
37661377 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
37661394 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
37661413 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
37661430 TACAATTAGAA
1 TACAATTAGAA
37661441 CTCTACGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:37666248 original size:48 final size:48
Alignment explanation
Indices: 37666177--37666270 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
37666167 TTCTTTGCTT
* *
37666177 AAAAATGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAAC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACAAC
* *
37666225 AAAAACGCCTAAGTCGGCCTAACTTGCAATGATAAAAGATTCAACA
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACA
37666271 GAATTCTCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACAAC
Found at i:37670415 original size:20 final size:18
Alignment explanation
Indices: 37670386--37670422 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
37670376 CATACATTAT
37670386 ATATTATTTTTAAATATGC
1 ATATTA-TTTTAAATATGC
37670405 ATATGTATTTTAAATATG
1 ATAT-TATTTTAAATATG
37670423 TGATTTCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (18 bp):
ATATTATTTTAAATATGC
Found at i:37672352 original size:22 final size:22
Alignment explanation
Indices: 37672324--37672368 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
37672314 GATGAATAAC
*
37672324 TAATTCTTCGTATACATCCATT
1 TAATTCTTCATATACATCCATT
*
37672346 TAATTCTTCATATATATCCATT
1 TAATTCTTCATATACATCCATT
37672368 T
1 T
37672369 CAATGGGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (22 bp):
TAATTCTTCATATACATCCATT
Found at i:37679570 original size:14 final size:15
Alignment explanation
Indices: 37679546--37679576 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
37679536 CAATAATAAA
37679546 GAAAAAGAAAAAAGG
1 GAAAAAGAAAAAAGG
37679561 GAAAAA-AAAAAAGG
1 GAAAAAGAAAAAAGG
37679575 GA
1 GA
37679577 TTTAAGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAAAGG
Found at i:37685534 original size:31 final size:33
Alignment explanation
Indices: 37685479--37685543 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
37685469 TTTTTTGCAT
**
37685479 AGAGTTTTAATTTTTTTTGGAAATTATAAGTAG
1 AGAGTTTTAATTTTTTTTAAAAATTATAAGTAG
* *
37685512 AGAG-TTTAA-TTTTTTTAAAAATTTTAATTAG
1 AGAGTTTTAATTTTTTTTAAAAATTATAAGTAG
37685543 A
1 A
37685544 TTCTCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 19 0.68
32 5 0.18
33 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (33 bp):
AGAGTTTTAATTTTTTTTAAAAATTATAAGTAG
Found at i:37686700 original size:64 final size:64
Alignment explanation
Indices: 37686621--37686741 Score: 233
Period size: 64 Copynumber: 1.9 Consensus size: 64
37686611 AAATAAAATA
37686621 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAATATATT
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAATATATT
*
37686685 AAAATTGGATCATTAGATTTAATCAAGTAAACAACTTGATTAAAAAACAAATATTCA
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCA
37686742 TTGTTATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (64 bp):
AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAATATATT
Found at i:37690330 original size:18 final size:17
Alignment explanation
Indices: 37690276--37690359 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 17
37690266 ATAATTATTT
37690276 TAAATTATAT-TTTATAG
1 TAAATTATATATTT-TAG
*
37690293 TATTATATATTATGATTTTAG
1 TA-AAT-TA-TAT-ATTTTAG
*
37690314 TAAATTCATATATTTTAT
1 TAAATT-ATATATTTTAG
*
37690332 TAAATTATATATTTGTAT
1 TAAATTATATATTT-TAG
*
37690350 TAAACTATAT
1 TAAATTATAT
37690360 TTAATAATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
17 10 0.18
18 26 0.46
19 6 0.11
20 6 0.11
21 5 0.09
22 3 0.05
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (17 bp):
TAAATTATATATTTTAG
Found at i:37690558 original size:39 final size:43
Alignment explanation
Indices: 37690506--37690607 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
37690496 TTTCCTTATG
** *
37690506 CTATTACATCTCTATTC-T-ATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCATCATTCAACCAAACAAAAGAATTAC
37690546 C-ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-CA-T-CATTCAACCAAACAAAAGAATTAC
*
37690591 CTATTACGTCTCTATTC
1 CTATTACGCCTCTATTC
37690608 CATTACACAT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
39 12 0.24
40 2 0.04
42 1 0.02
44 18 0.35
45 5 0.10
46 13 0.25
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.31
Consensus pattern (43 bp):
CTATTACGCCTCTATTCATCATTCAACCAAACAAAAGAATTAC
Found at i:37690574 original size:44 final size:46
Alignment explanation
Indices: 37690519--37690611 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
37690509 TTACATCTCT
* *
37690519 ATTCTATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
*
37690563 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGTCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
37690609 ATT
1 ATT
37690612 ACACATCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 22 0.50
45 4 0.09
46 18 0.41
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:37694777 original size:14 final size:15
Alignment explanation
Indices: 37694758--37694786 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37694748 TTTAAAGGTG
37694758 AAATAAATC-AAATA
1 AAATAAATCTAAATA
37694772 AAATAAATCTAAATA
1 AAATAAATCTAAATA
37694787 CCATCTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATCTAAATA
Found at i:37694932 original size:10 final size:10
Alignment explanation
Indices: 37694916--37694984 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
37694906 TAATTTTCTC
37694916 ATAAAAATAT
1 ATAAAAATAT
*
37694926 TTAAAAATAT
1 ATAAAAATAT
37694936 ATAAAAA-ATT
1 ATAAAAATA-T
*
37694946 ATTAAAAT-T
1 ATAAAAATAT
37694955 ATAAAAACT-T
1 ATAAAAA-TAT
*
37694965 ATAAATATTAT
1 ATAAA-AATAT
*
37694976 ATATAAATA
1 ATAAAAATA
37694985 ATTTTCTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
9 8 0.17
10 33 0.70
11 6 0.13
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:37694957 original size:19 final size:19
Alignment explanation
Indices: 37694916--37694976 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
37694906 TAATTTTCTC
*
37694916 ATAAAAATATT-TAAAAATAT
1 ATAAAAA-ATTATTAAAAT-T
37694936 ATAAAAAATTATTAAAATT
1 ATAAAAAATTATTAAAATT
*
37694955 ATAAAAACTTA-TAAATATT
1 ATAAAAAATTATTAAA-ATT
37694974 ATA
1 ATA
37694977 TATAAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.11
19 20 0.54
20 13 0.35
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAAAAATTATTAAAATT
Found at i:37694961 original size:9 final size:9
Alignment explanation
Indices: 37694916--37694976 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 9
37694906 TAATTTTCTC
37694916 ATAAAAATAT
1 ATAAAAAT-T
*
37694926 TTAAAAATAT
1 ATAAAAAT-T
37694936 ATAAAAAATT
1 AT-AAAAATT
*
37694946 ATTAAAATT
1 ATAAAAATT
37694955 ATAAAAACTT
1 ATAAAAA-TT
*
37694965 ATAAATATT
1 ATAAAAATT
37694974 ATA
1 ATA
37694977 TATAAATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
9 17 0.39
10 21 0.48
11 6 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (9 bp):
ATAAAAATT
Found at i:37696451 original size:22 final size:23
Alignment explanation
Indices: 37696400--37696472 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 23
37696390 TAATTAAAAT
* *
37696400 TAAAATTAAAATTATTTTTTTAA
1 TAAAATTAAAATTATATTGTTAA
*
37696423 TAAAATTAAAATTA-ATTGTTAG
1 TAAAATTAAAATTATATTGTTAA
37696445 TAAAATTATCAAATTATTAATTGTTAA
1 TAAAATTA--AAATTA-T-ATTGTTAA
37696472 T
1 T
37696473 TGTATTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 13 0.32
23 14 0.34
24 6 0.15
27 8 0.20
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAAATTAAAATTATATTGTTAA
Found at i:37696537 original size:9 final size:9
Alignment explanation
Indices: 37696525--37696577 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
37696515 ATTATCAAAT
37696525 TATTAATTG
1 TATTAATTG
37696534 TATTAATTG
1 TATTAATTG
37696543 TATTAATTG
1 TATTAATTG
37696552 --TTAATTG
1 TATTAATTG
*
37696559 AATTAATTG
1 TATTAATTG
37696568 TATTAATTG
1 TATTAATTG
37696577 T
1 T
37696578 TGTAACAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
7 7 0.17
9 34 0.83
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (9 bp):
TATTAATTG
Found at i:37696555 original size:16 final size:16
Alignment explanation
Indices: 37696525--37696568 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
37696515 ATTATCAAAT
37696525 TATTAATTGTATTAATTG
1 TATTAATTG--TTAATTG
37696543 TATTAATTGTTAATTG
1 TATTAATTGTTAATTG
*
37696559 AATTAATTGT
1 TATTAATTGT
37696569 ATTAATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.64
18 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (16 bp):
TATTAATTGTTAATTG
Found at i:37696576 original size:25 final size:25
Alignment explanation
Indices: 37696522--37696578 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
37696512 AAAATTATCA
* *
37696522 AATTATTAATTGTATTAATTGTATT
1 AATTGTTAATTGAATTAATTGTATT
37696547 AATTGTTAATTGAATTAATTGTATT
1 AATTGTTAATTGAATTAATTGTATT
37696572 AATTGTT
1 AATTGTT
37696579 GTAACAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (25 bp):
AATTGTTAATTGAATTAATTGTATT
Found at i:37696674 original size:68 final size:68
Alignment explanation
Indices: 37696565--37696700 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
37696555 ATTGAATTAA
*
37696565 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAATAAACTTGATGTTTTATTATT
1 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTATT
37696630 ATT
66 ATT
37696633 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTATT
1 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTATT
37696698 ATT
66 ATT
37696701 ATTTTGTAAC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (68 bp):
TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTATT
ATT
Found at i:37696964 original size:54 final size:54
Alignment explanation
Indices: 37696901--37697050 Score: 160
Period size: 65 Copynumber: 2.6 Consensus size: 54
37696891 AATAAAAAAA
37696901 AAACTTAAAATAAAAAACTATTATAATTTAAAAATAAGGAAATGAAAGTAAATG
1 AAACTTAAAATAAAAAACTATTATAATTTAAAAATAAGGAAATGAAAGTAAATG
***
37696955 AAACTTAAAATAAAAAACTATTAGTTGGATAAATTAGTTGGCCAATAAGGAAATGAAAGTAAATG
1 AAACTTAAAATAAAAAAC---TA-TT--AT-AA-T--TT-AAAAATAAGGAAATGAAAGTAAATG
37697020 AAACTT-AAATAAAAAACTATTAT-ATTTAAAA
1 AAACTTAAAATAAAAAACTATTATAATTTAAAA
37697051 TATATATTTA
Statistics
Matches: 79, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
52 1 0.01
53 2 0.03
54 18 0.23
55 1 0.01
56 1 0.01
57 2 0.03
58 4 0.05
60 4 0.05
61 4 0.05
62 1 0.01
64 13 0.16
65 28 0.35
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (54 bp):
AAACTTAAAATAAAAAACTATTATAATTTAAAAATAAGGAAATGAAAGTAAATG
Found at i:37705576 original size:27 final size:25
Alignment explanation
Indices: 37705527--37705583 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 25
37705517 TTTTAAGCAA
37705527 TTTAATTTTTTTTCTTTTATATTCT
1 TTTAATTTTTTTTCTTTTATATTCT
* *
37705552 TTTAATTTTCCTTTTTTTTTCTATTCT
1 TTTAATTTT--TTTTCTTTTATATTCT
37705579 TTTAA
1 TTTAA
37705584 GCTTCTCCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 9 0.32
27 19 0.68
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTAATTTTTTTTCTTTTATATTCT
Found at i:37706315 original size:25 final size:26
Alignment explanation
Indices: 37706265--37706316 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
37706255 AGAAATAAAT
*
37706265 TTAAATAATATTAAATTTTATGATAA
1 TTAAATAATATTAAATTTTATAATAA
* *
37706291 TTAAATCATA-TATATTTTATAATAA
1 TTAAATAATATTAAATTTTATAATAA
37706316 T
1 T
37706317 ACTATTTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TTAAATAATATTAAATTTTATAATAA
Found at i:37711024 original size:23 final size:23
Alignment explanation
Indices: 37710967--37711027 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
37710957 TAAATTACAG
37710967 TTACTTAAGTGTTCTAAATAGAT
1 TTACTTAAGTGTTCTAAATAGAT
* *
37710990 TTAATTCA-TGTT-TATAATATGA-
1 TTACTTAAGTGTTCTA-AATA-GAT
37711012 TTACTTAAGTGTTCTA
1 TTACTTAAGTGTTCTA
37711028 GATTTAAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 2 0.07
22 14 0.47
23 12 0.40
24 2 0.07
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (23 bp):
TTACTTAAGTGTTCTAAATAGAT
Found at i:37711395 original size:21 final size:20
Alignment explanation
Indices: 37711371--37711409 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37711361 TTCTTTTATT
37711371 TATTTATAATTTGTTTATTAC
1 TATTTAT-ATTTGTTTATTAC
*
37711392 TATTTATGTTTGTTTATT
1 TATTTATATTTGTTTATT
37711410 TATTTCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (20 bp):
TATTTATATTTGTTTATTAC
Found at i:37716760 original size:101 final size:100
Alignment explanation
Indices: 37716585--37716824 Score: 347
Period size: 101 Copynumber: 2.4 Consensus size: 100
37716575 TGAATTGATG
*
37716585 GATAAGACCATAACTGGGTTATGGCAATATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACT-GGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
*
37716650 ATATATAAGACCATGGCTGGGCTATGAAATTCTAAT
65 ATATATAAGACCATAGCTGGGCTATGAAATTCTAAT
*
37716686 GATAAGACCATAACTAGGTTATGGCACTAT-AGACGTAAGACCATGTTTGGACCATGGCAGTGTT
1 GATAAGACCATAACT-GGTTATGGCACTATGA-ACGTAAGACCATGGTTGGACCATGGCAGTGTT
* ** *
37716750 TATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
64 TATATATAAGACCATAGCTGGGCTATGAAATTCTAAT
* * *
37716787 AATAAGACCATAACTGAGTTATGGCACTACGAATGTAA
1 GATAAGACCATAACTG-GTTATGGCACTATGAACGTAA
37716825 AGGATGAATT
Statistics
Matches: 125, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
100 2 0.02
101 122 0.98
102 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (100 bp):
GATAAGACCATAACTGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
TATATAAGACCATAGCTGGGCTATGAAATTCTAAT
Found at i:37716778 original size:35 final size:35
Alignment explanation
Indices: 37716619--37716779 Score: 91
Period size: 35 Copynumber: 4.7 Consensus size: 35
37716609 CAATATGAAC
* * * *
37716619 GTAAGACCATGGTTGGACCATGGCAGTGTTTATAT
1 GTAAGACCATAGCTGGGCTATGGCAGTGTTTATAT
* * * * *
37716654 ATAAGACCATGGCTGGGCTAT-GAAAT-TCTA-AT
1 GTAAGACCATAGCTGGGCTATGGCAGTGTTTATAT
* * * * * * *
37716686 GATAAGACCATAACTAGGTTATGGCA--CTATAGAC
1 G-TAAGACCATAGCTGGGCTATGGCAGTGTTTATAT
* * *
37716720 GTAAGACCAT-GTTTGGACCATGGCAGTGTTTATAT
1 GTAAGACCATAG-CTGGGCTATGGCAGTGTTTATAT
37716755 GTAAGACCATAGCTGGGCTATGGCA
1 GTAAGACCATAGCTGGGCTATGGCA
37716780 TTCTGATAAT
Statistics
Matches: 90, Mismatches: 28, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
32 2 0.02
33 39 0.43
34 7 0.08
35 41 0.46
36 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (35 bp):
GTAAGACCATAGCTGGGCTATGGCAGTGTTTATAT
Found at i:37717272 original size:154 final size:154
Alignment explanation
Indices: 37716992--37717457 Score: 869
Period size: 154 Copynumber: 3.0 Consensus size: 154
37716982 AAATAACATG
37716992 AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGT
1 AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGT
*
37717057 ATATATATCAATATCTTGATATGTTGATACATGGAAATCATGTAAGTTGTGATGAGTAATAAACT
66 ATATATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
37717122 CAAGTGTGATATGTTGATAAAATA
131 CAAGTGTGATATGTTGATAAAATA
* *
37717146 AGTTGTTTTTGGATGATATATGTATAAGAAGAAACAATAAGAGAATGATATGTGTCATGATATGC
1 AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGT
37717211 ATATATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
66 ATATATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
37717276 CAAGTGTGATATGTTGATAAAATA
131 CAAGTGTGATATGTTGATAAAATA
* *
37717300 AATTGTTTTTGGATGATATATGTATATGAAGAAACAGTAAGAGAATGATATGTGTCATGATATGT
1 AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGT
*
37717365 ATGTATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
66 ATATATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
*
37717430 CAAGTGTGATATGTTAATAAAATA
131 CAAGTGTGATATGTTGATAAAATA
37717454 AGTT
1 AGTT
37717458 TATCAATGTT
Statistics
Matches: 302, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 302 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.36
Consensus pattern (154 bp):
AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGT
ATATATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
CAAGTGTGATATGTTGATAAAATA
Found at i:37719657 original size:20 final size:20
Alignment explanation
Indices: 37719632--37719671 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37719622 TCTTGACAAC
37719632 TATTTA-TCAAGATTCATTTT
1 TATTTATTC-AGATTCATTTT
*
37719652 TATTTATTCGGATTCATTTT
1 TATTTATTCAGATTCATTTT
37719672 GTATGCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.57
Consensus pattern (20 bp):
TATTTATTCAGATTCATTTT
Found at i:37719732 original size:16 final size:18
Alignment explanation
Indices: 37719695--37719739 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
37719685 AATTATTTAA
*
37719695 AAAAAGATTTTATTTTTG
1 AAAAATATTTTATTTTTG
37719713 AAAAATATTTT-TTTTT-
1 AAAAATATTTTATTTTTG
*
37719729 AAAAATCTTTT
1 AAAAATATTTT
37719740 GAATCTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
17 5 0.20
18 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
AAAAATATTTTATTTTTG
Found at i:37725871 original size:30 final size:30
Alignment explanation
Indices: 37725800--37725872 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
37725790 GGGAATGTAA
*
37725800 TGCTCACACAAGCTGACAATATTTCAGAGT
1 TGCTCACACAAGCTGACAATATTTCAGAAT
* *
37725830 TGCTC-CACAAGCTGAC-ATTTTTACGGAAT
1 TGCTCACACAAGCTGACAATATTT-CAGAAT
37725859 TGCTCACACAAGCT
1 TGCTCACACAAGCT
37725873 AACGTCTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.13
29 20 0.53
30 13 0.34
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (30 bp):
TGCTCACACAAGCTGACAATATTTCAGAAT
Found at i:37739208 original size:21 final size:21
Alignment explanation
Indices: 37739182--37739238 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
37739172 TAACAGGTAA
37739182 AAATCATGCTTATCGA-ATAAC
1 AAATCATGCTTATC-ACATAAC
* *
37739203 AAATCATACTTATCACATTAC
1 AAATCATGCTTATCACATAAC
*
37739224 AGATCATGCTTATCA
1 AAATCATGCTTATCA
37739239 TATTTCAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (21 bp):
AAATCATGCTTATCACATAAC
Found at i:37739247 original size:21 final size:21
Alignment explanation
Indices: 37739205--37739252 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
37739195 CGAATAACAA
37739205 ATCATACTTATCACATTACAG
1 ATCATACTTATCACATTACAG
* * *
37739226 ATCATGCTTATCATATTTCAG
1 ATCATACTTATCACATTACAG
*
37739247 AACATA
1 ATCATA
37739253 GTGAGCATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (21 bp):
ATCATACTTATCACATTACAG
Found at i:37739470 original size:31 final size:32
Alignment explanation
Indices: 37739427--37739503 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
37739417 CCCACACGAT
* * * *
37739427 CGTGTGGACCACACAGCCTACTTGG-CCAG-C
1 CGTGTGGCCCACACAACCCAATTGGCCCAGAC
37739457 CTGTGTGGCCCACACAACCCAATTGGCCCAGAC
1 C-GTGTGGCCCACACAACCCAATTGGCCCAGAC
*
37739490 CGTGTGGCTCACAC
1 CGTGTGGCCCACAC
37739504 GATGTAGCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
30 1 0.03
31 20 0.51
32 16 0.41
33 2 0.05
ACGTcount: A:0.21, C:0.38, G:0.25, T:0.17
Consensus pattern (32 bp):
CGTGTGGCCCACACAACCCAATTGGCCCAGAC
Found at i:37750608 original size:27 final size:26
Alignment explanation
Indices: 37750578--37750826 Score: 234
Period size: 27 Copynumber: 9.4 Consensus size: 26
37750568 GGTATAAAAG
37750578 TCATTTTACCCTATGGTGGTATTTCGA
1 TCATTTTACCCTATGG-GGTATTTCGA
* * *
37750605 TCATTTTACCCAATGGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
* **
37750632 TCATTTTACTCTATGGGGGTATTTTAA
1 TCATTTTACCCTAT-GGGGTATTTCGA
* * *
37750659 TCATTTTACTCTATGGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
** *
37750686 TCATTTTACATTATAAGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGA
* *
37750713 TTATTTTACCCTAT-GAG-ATTTCGA
1 TCATTTTACCCTATGGGGTATTTCGA
* * *
37750737 TCATTTTACCCTCTAGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
* *
37750764 TCATTTTACCCTATGAGCGTATTT-TA
1 TCATTTTACCCTATG-GGGTATTTCGA
37750790 GTCATTTTACCCTATGGGGTATTTCGA
1 -TCATTTTACCCTATGGGGTATTTCGA
37750817 TCATTTTACC
1 TCATTTTACC
37750827 TTATCTATAG
Statistics
Matches: 185, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
24 19 0.10
25 2 0.01
26 20 0.11
27 142 0.77
28 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.45
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTCGA
Found at i:37750624 original size:54 final size:53
Alignment explanation
Indices: 37750576--37750826 Score: 267
Period size: 54 Copynumber: 4.7 Consensus size: 53
37750566 GGGGTATAAA
*
37750576 AGTCATTTTACCCTATGGTGGTATTTCGATCATTTTACCCAATGGGGGTATTTT
1 AGTCATTTTACCCTATGG-GGTATTTCGATCATTTTACCCTATGGGGGTATTTT
* * ** *
37750630 GGTCATTTTACTCTATGGGGGTATTTTAATCATTTTACTCTATGGGGGTATTTT
1 AGTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTT
* ** * * *
37750684 GGTCATTTTACATTATAAGGGTATTTCGATTATTTTACCCTAT--GAG-A-TTT
1 AGTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTT
* * * * * *
37750734 CGATCATTTTACCCTCTAGGGGTATTTTGGTCATTTTACCCTATGAGCGTATTTT
1 AG-TCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTT
37750789 AGTCATTTTACCCTATGGGGTATTTCGATCATTTTACC
1 AGTCATTTTACCCTATGGGGTATTTCGATCATTTTACC
37750827 TTATCTATAG
Statistics
Matches: 163, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
50 4 0.02
51 35 0.21
52 2 0.01
53 22 0.13
54 94 0.58
55 6 0.04
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.45
Consensus pattern (53 bp):
AGTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTT
Found at i:37750756 original size:132 final size:134
Alignment explanation
Indices: 37750580--37750830 Score: 364
Period size: 132 Copynumber: 1.9 Consensus size: 134
37750570 TATAAAAGTC
* * *
37750580 ATTTTACCCTATGGTGGTATTTCGATCATTTTACCCAATGGGGGTATTTTGGTCATTTTACTCTA
1 ATTTTACCCTATGGTAGTATTTCGATCATTTTACCCAATAGGGGTATTTTGGTCATTTTACCCTA
* * * * *
37750645 TGGGGGTATTTTAATCATTTTACTCTATGGGGGTATTTTGGTCATTTTACATTATAAGGGTATTT
66 TGAGCGTATTTTAATCATTTTACCCTAT-GGGGTATTTCGATCATTTTACATTATAAGGGTATTT
37750710 CGATT
130 CGATT
**
37750715 ATTTTACCCTAT-G-AG-ATTTCGATCATTTTACCCTCTAGGGGTATTTTGGTCATTTTACCCTA
1 ATTTTACCCTATGGTAGTATTTCGATCATTTTACCCAATAGGGGTATTTTGGTCATTTTACCCTA
* *
37750777 TGAGCGTATTTTAGTCATTTTACCCTATGGGGTATTTCGATCATTTTACCTTAT
66 TGAGCGTATTTTAATCATTTTACCCTATGGGGTATTTCGATCATTTTACATTAT
37750831 CTATAGTAGT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
131 23 0.22
132 67 0.64
133 1 0.01
134 1 0.01
135 12 0.12
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (134 bp):
ATTTTACCCTATGGTAGTATTTCGATCATTTTACCCAATAGGGGTATTTTGGTCATTTTACCCTA
TGAGCGTATTTTAATCATTTTACCCTATGGGGTATTTCGATCATTTTACATTATAAGGGTATTTC
GATT
Found at i:37750770 original size:78 final size:80
Alignment explanation
Indices: 37750578--37750826 Score: 238
Period size: 78 Copynumber: 3.1 Consensus size: 80
37750568 GGTATAAAAG
* * * * ** *
37750578 TCATTTTACCCTAT-GGTGGTATTTCGATCATTTTACCCAATGGGGGTATTTTG-GTCATTTTAC
1 TCATTTTACCCTATAGG-GGTATTTTGGTCATTTTACACTATAAGCGTA-TTTGAGTCATTTTAC
* * **
37750641 TCTATGGGGGTATTTTAA
64 CCTAT-GGAGTATTTCGA
* * * * *
37750659 TCATTTTACTCTATGGGGGTATTTTGGTCATTTTACATTATAAGGGTATTTCGA-TTATTTTACC
1 TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACACTATAAGCGTATTT-GAGTCATTTTACC
37750723 CTAT-GAG-ATTTCGA
65 CTATGGAGTATTTCGA
* * * *
37750737 TCATTTTACCCTCTAGGGGTATTTTGGTCATTTTACCCTATGAGCGTATTTTAGTCATTTTACCC
1 TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACACTATAAGCGTATTTGAGTCATTTTACCC
*
37750802 TATGGGGTATTTCGA
66 TATGGAGTATTTCGA
37750817 TCATTTTACC
1 TCATTTTACC
37750827 TTATCTATAG
Statistics
Matches: 139, Mismatches: 23, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
77 1 0.01
78 62 0.45
79 4 0.03
80 20 0.14
81 50 0.36
82 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.45
Consensus pattern (80 bp):
TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACACTATAAGCGTATTTGAGTCATTTTACCC
TATGGAGTATTTCGA
Found at i:37751481 original size:14 final size:14
Alignment explanation
Indices: 37751462--37751501 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
37751452 TTGATTGCCA
37751462 GTAAAATGTTTTTC
1 GTAAAATGTTTTTC
*
37751476 GTAAAATGATTTCTC
1 GTAAAATG-TTTTTC
37751491 G-AAAATGTTTT
1 GTAAAATGTTTT
37751502 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 3 0.13
14 14 0.61
15 6 0.26
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTTC
Found at i:37753380 original size:16 final size:16
Alignment explanation
Indices: 37753359--37753390 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37753349 AGATTTGTTG
*
37753359 TCGATTTGCAGAATAA
1 TCGATTTGCAAAATAA
37753375 TCGATTTGCAAAATAA
1 TCGATTTGCAAAATAA
37753391 GCACTTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (16 bp):
TCGATTTGCAAAATAA
Found at i:37754024 original size:14 final size:14
Alignment explanation
Indices: 37754005--37754034 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37753995 AGGTGAACTA
37754005 GCAGAGAAGATGAG
1 GCAGAGAAGATGAG
*
37754019 GCAGAGATGATGAG
1 GCAGAGAAGATGAG
37754033 GC
1 GC
37754035 TGCAATCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.43, T:0.10
Consensus pattern (14 bp):
GCAGAGAAGATGAG
Found at i:37755213 original size:82 final size:81
Alignment explanation
Indices: 37755098--37755356 Score: 246
Period size: 82 Copynumber: 3.2 Consensus size: 81
37755088 AGGGGTATAA
* * *
37755098 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAG-GGTATTTCAGTCGTTTT
1 CAGTCATTTTACCCTATGGGAGAATTTCGGTCATTTTACCCTATG-GTGGTATTTCAGTCATTTT
37755162 AACCTATGTGAGTATTC
65 AACCTATGTGAGTATTC
* * *
37755179 CAGTCATTTTATCTTATGAGGAGAATTTCGGTCATTTTACTCTATGGTGGTATTTCAGTCATTTT
1 CAGTCATTTTACCCTATG-GGAGAATTTCGGTCATTTTACCCTATGGTGGTATTTCAGTCATTTT
* **
37755244 ACCCTATAAG-GCTAGTT-
65 AACCTATGTGAG-TA-TTC
** * * *
37755261 CAGTCATTTTACCCTAT-GG-G-ATTTCAATCATTTTATCCTATGGGGGTATTTCGGTCATTTT-
1 CAGTCATTTTACCCTATGGGAGAATTTCGGTCATTTTACCCTATGGTGGTATTTCAGTCATTTTA
* *
37755322 ACCTTAT-TAGGGTATTT
66 ACC-TATGT-GAGTATTC
* *
37755339 CGGTCATTTTACTCTATG
1 CAGTCATTTTACCCTATG
37755357 AGGGCATGTT
Statistics
Matches: 148, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
77 4 0.03
78 56 0.38
79 2 0.01
80 2 0.01
81 18 0.12
82 64 0.43
83 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (81 bp):
CAGTCATTTTACCCTATGGGAGAATTTCGGTCATTTTACCCTATGGTGGTATTTCAGTCATTTTA
ACCTATGTGAGTATTC
Found at i:37755360 original size:27 final size:27
Alignment explanation
Indices: 37755098--37755360 Score: 273
Period size: 27 Copynumber: 9.8 Consensus size: 27
37755088 AGGGGTATAA
*
37755098 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
37755125 CGGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * * * *
37755152 CAGTCGTTTTAACCTATGTGAGTATTC
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
37755179 CAGTCATTTTATCTTATGAGGAGAATTT
1 CAGTCATTTTACCCTATGAGG-GTATTT
* *
37755207 CGGTCATTTTACTCTATG-GTGGTATTT
1 CAGTCATTTTACCCTATGAG-GGTATTT
* * *
37755234 CAGTCATTTTACCCTATAAGGCTAGTT
1 CAGTCATTTTACCCTATGAGGGTATTT
37755261 CAGTCATTTTACCCTAT--GGG-ATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
37755285 CAATCATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
37755312 CGGTCATTTTACCTTATTAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
37755339 CGGTCATTTTACTCTATGAGGG
1 CAGTCATTTTACCCTATGAGGG
37755361 CATGTTGATT
Statistics
Matches: 192, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
24 18 0.09
25 2 0.01
26 3 0.02
27 149 0.78
28 20 0.10
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:37758474 original size:27 final size:27
Alignment explanation
Indices: 37758434--37758528 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 27
37758424 TAAGCCCTTT
37758434 CCTATGAGGGTATTTCGGTTATTTTAC
1 CCTATGAGGGTATTTCGGTTATTTTAC
* * * *
37758461 CTTATGGGGGTATTTCGATTATTTTAT
1 CCTATGAGGGTATTTCGGTTATTTTAC
* * *
37758488 CGTATGAGGTTATTTCGGTCATTTTAC
1 CCTATGAGGGTATTTCGGTTATTTTAC
37758515 CCTATG-GGGTATTT
1 CCTATGAGGGTATTT
37758529 TGATTGTTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
26 7 0.12
27 49 0.88
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (27 bp):
CCTATGAGGGTATTTCGGTTATTTTAC
Found at i:37758521 original size:54 final size:53
Alignment explanation
Indices: 37758436--37758538 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 53
37758426 AGCCCTTTCC
* *
37758436 TATGAGGGTATTTCGGTTATTTTACCTTATGGGGGTATTTCGATTATTTTATCG
1 TATGAGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCGATTATTTTATCG
* * *
37758490 TATGAGGTTATTTCGGTCATTTTACCCTATGGGGTATTTTGATTGTTTT
1 TATGAGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGATTATTTT
37758539 GCCTATTTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 17 0.39
54 27 0.61
ACGTcount: A:0.17, C:0.10, G:0.23, T:0.50
Consensus pattern (53 bp):
TATGAGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGATTATTTTATCG
Found at i:37762239 original size:20 final size:20
Alignment explanation
Indices: 37762164--37762268 Score: 79
Period size: 20 Copynumber: 5.2 Consensus size: 20
37762154 GATGCAAAAA
*
37762164 CAGGGGCACCAAAGTGCAAT
1 CAGGGGCACCATAGTGCAAT
** *
37762184 CAGAAGCACGAGT-GTGCAAT
1 CAGGGGCACCA-TAGTGCAAT
* * * *
37762204 CAGGGGTATCAGAGTGCAGT
1 CAGGGGCACCATAGTGCAAT
*
37762224 CAGGGGCACCATAGTGCATT
1 CAGGGGCACCATAGTGCAAT
* *
37762244 CAAGGGCATGCAT-GTGCAAT
1 CAGGGGCA-CCATAGTGCAAT
37762264 CAGGG
1 CAGGG
37762269 ACACTGAAGT
Statistics
Matches: 63, Mismatches: 19, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
20 60 0.95
21 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.33, T:0.16
Consensus pattern (20 bp):
CAGGGGCACCATAGTGCAAT
Found at i:37771417 original size:22 final size:22
Alignment explanation
Indices: 37771374--37771417 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37771364 ATATTTGTTG
*
37771374 CTTTATAAATAAAAATTTTAAA
1 CTTTATAAATAAAAATTATAAA
*
37771396 CTTTATAATTATAAAA-TATAAA
1 CTTTATAAATA-AAAATTATAAA
37771418 ATGATGTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
CTTTATAAATAAAAATTATAAA
Found at i:37771878 original size:3 final size:3
Alignment explanation
Indices: 37771870--37771900 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
37771860 AACATAAAAT
37771870 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37771901 GTATAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:37778069 original size:12 final size:12
Alignment explanation
Indices: 37778052--37778085 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37778042 CTGCCCGCCC
37778052 ATATTAATTTTT
1 ATATTAATTTTT
*
37778064 ATATTATTTTTT
1 ATATTAATTTTT
37778076 ATA-TAATTTT
1 ATATTAATTTT
37778086 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:37778271 original size:30 final size:31
Alignment explanation
Indices: 37778208--37778271 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
37778198 ACTTAACAAG
37778208 CAAATGCCTCTAAAATAACAAAAAAATTTAA
1 CAAATGCCTCTAAAATAACAAAAAAATTTAA
* * * *
37778239 CAAATGTCTTTAAAATAATAACAAAA-TTAA
1 CAAATGCCTCTAAAATAACAAAAAAATTTAA
37778269 CAA
1 CAA
37778272 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAACAAAAAAATTTAA
Found at i:37782384 original size:27 final size:27
Alignment explanation
Indices: 37782340--37782437 Score: 144
Period size: 27 Copynumber: 3.6 Consensus size: 27
37782330 TAGAATGCGA
* *
37782340 CACAAGGGCATTCC-TTTCATAGATTGC
1 CACAAAGGC-TTCCTTTTCATAGATAGC
*
37782367 CACAAAGACTTCCTTTTCATAGATAGC
1 CACAAAGGCTTCCTTTTCATAGATAGC
*
37782394 CACAAAGGCTTCCTTTTCATAGATCGC
1 CACAAAGGCTTCCTTTTCATAGATAGC
37782421 CACAAAGGCTTCCTTTT
1 CACAAAGGCTTCCTTTT
37782438 TCTAGCGTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 4 0.06
27 61 0.94
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (27 bp):
CACAAAGGCTTCCTTTTCATAGATAGC
Found at i:37788007 original size:59 final size:63
Alignment explanation
Indices: 37787944--37788073 Score: 162
Period size: 59 Copynumber: 2.1 Consensus size: 63
37787934 TTGTTGGGTT
*
37787944 TTGAAATTATTATGTCTTGAA-TTTGTTAGATATTG-A-T-T-ATGTTTTAAGCTTGTTAGATA
1 TTGAAATTATTATGT-TTGAAGCTTGTTAGATATTGAATTATCATGTTTTAAGCTTGTTAGATA
* * * *
37788003 TTGAATTTATTATGTTTTAAGCTTGTTGGATATTGAATTTATCATGTTTTAAGCTTGTTGGATA
1 TTGAAATTATTATGTTTGAAGCTTGTTAGATATTGAA-TTATCATGTTTTAAGCTTGTTAGATA
37788067 TTGAAAT
1 TTGAAAT
37788074 GATTGACAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
58 4 0.07
59 26 0.44
60 1 0.02
62 1 0.02
63 1 0.02
64 26 0.44
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.51
Consensus pattern (63 bp):
TTGAAATTATTATGTTTGAAGCTTGTTAGATATTGAATTATCATGTTTTAAGCTTGTTAGATA
Found at i:37788018 original size:32 final size:32
Alignment explanation
Indices: 37787979--37788071 Score: 168
Period size: 32 Copynumber: 2.9 Consensus size: 32
37787969 TTAGATATTG
*
37787979 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
37788011 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
*
37788043 ATCATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTGGATATTGAA
37788072 ATGATTGACA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTGGATATTGAATTT
Found at i:37789454 original size:14 final size:15
Alignment explanation
Indices: 37789435--37789470 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
37789425 CCAGAAAAGT
37789435 AAATCATTTTCCA-A
1 AAATCATTTTCCAGA
37789449 AAATCATTTTCCAGA
1 AAATCATTTTCCAGA
37789464 AAA-CATT
1 AAATCATT
37789471 GTACTAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATCATTTTCCAGA
Found at i:37791319 original size:30 final size:30
Alignment explanation
Indices: 37791264--37791320 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
37791254 TACCAAAACA
**
37791264 GCCACAAAGGCTCACATGTAACAAGTTTCT
1 GCCACAAAGGCTCACACATAACAAGTTTCT
* *
37791294 GCCACAAGGGCTCACACATAGCAAGTT
1 GCCACAAAGGCTCACACATAACAAGTT
37791321 CTCGCCAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
GCCACAAAGGCTCACACATAACAAGTTTCT
Found at i:37796947 original size:37 final size:37
Alignment explanation
Indices: 37796903--37796989 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
37796893 CCAAGAAGAC
37796903 AAAAGATGAAGATGAACAAT-ACTAATAT-TCTGCAAAG
1 AAAAGATGAAGATGAACAATAAC-AAT-TCTCTGCAAAG
* * * *
37796940 AAAAGATGGAGATGAACAGTAACAATTCTTTGTAAAG
1 AAAAGATGAAGATGAACAATAACAATTCTCTGCAAAG
37796977 AAAAGATGAAGAT
1 AAAAGATGAAGAT
37796990 TAGCAGAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
36 1 0.02
37 40 0.93
38 2 0.05
ACGTcount: A:0.51, C:0.08, G:0.20, T:0.22
Consensus pattern (37 bp):
AAAAGATGAAGATGAACAATAACAATTCTCTGCAAAG
Found at i:37797381 original size:23 final size:23
Alignment explanation
Indices: 37797328--37797383 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
37797318 TTTGTTTTCA
37797328 AAAATTTAAA-TTCAAAACAATT
1 AAAATTTAAATTTCAAAACAATT
* *
37797350 CAAATTTAAATTTTCAAAA-ATTT
1 AAAATTTAAA-TTTCAAAACAATT
37797373 AAAATTTAAAT
1 AAAATTTAAAT
37797384 CCATTTGTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 10 0.34
23 12 0.41
24 7 0.24
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATTTAAATTTCAAAACAATT
Found at i:37798563 original size:19 final size:19
Alignment explanation
Indices: 37798520--37798557 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
37798510 AAATTTTAGG
37798520 ACTTCTAGAGCCTTTGTCT
1 ACTTCTAGAGCCTTTGTCT
37798539 ACTTCTAGAGCCTTTGTCT
1 ACTTCTAGAGCCTTTGTCT
37798558 CTTTCTTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (19 bp):
ACTTCTAGAGCCTTTGTCT
Found at i:37801360 original size:18 final size:18
Alignment explanation
Indices: 37801339--37801400 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
37801329 AGTAAATTTT
37801339 AAAATTTTAGAAAAT-TAA
1 AAAATTTT-GAAAATATAA
* *
37801357 AAAAATTTCAAAATATAA
1 AAAATTTTGAAAATATAA
*
37801375 AAATATATTGAAAATATAA
1 AAA-ATTTTGAAAATATAA
*
37801394 AATATTT
1 AAAATTT
37801401 AATCTTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
17 5 0.14
18 16 0.46
19 14 0.40
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAATTTTGAAAATATAA
Found at i:37801377 original size:19 final size:19
Alignment explanation
Indices: 37801349--37801395 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
37801339 AAAATTTTAG
37801349 AAAAT-TAAAAAAAT-TTC
1 AAAATATAAAAAAATATTC
* *
37801366 AAAATATAAAAATATATTG
1 AAAATATAAAAAAATATTC
37801385 AAAATATAAAA
1 AAAATATAAAA
37801396 TATTTAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 5 0.19
18 8 0.31
19 13 0.50
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAATATAAAAAAATATTC
Found at i:37801569 original size:23 final size:23
Alignment explanation
Indices: 37801501--37801570 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
37801491 AAATTTCATA
*
37801501 TTTTTA-ATAATT-TTAAATG-AT
1 TTTTTACA-AATTATTAAATGTTT
* ** *
37801522 TTTTTACAATTTTATTTTATATTT
1 TTTTTACAA-ATTATTAAATGTTT
37801546 TTTTTACAAATTATTAAATGTTT
1 TTTTTACAAATTATTAAATGTTT
37801569 TT
1 TT
37801571 CTATATTTAT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
21 7 0.19
22 3 0.08
23 16 0.44
24 10 0.28
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (23 bp):
TTTTTACAAATTATTAAATGTTT
Found at i:37801767 original size:17 final size:17
Alignment explanation
Indices: 37801735--37801778 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
37801725 TTTCTGAATT
*
37801735 TTTATATATTTATTTTA
1 TTTATATATATATTTTA
*
37801752 TTTATTTATATATTTT-
1 TTTATATATATATTTTA
*
37801768 TGTATATATAT
1 TTTATATATAT
37801779 TTAATAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTATATATATATTTTA
Found at i:37802520 original size:20 final size:20
Alignment explanation
Indices: 37802495--37802534 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37802485 CGTAAAATAA
*
37802495 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
37802515 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
37802535 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:37802524 original size:34 final size:35
Alignment explanation
Indices: 37802480--37802546 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
37802470 CAGTAAAATG
*
37802480 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
* *
37802514 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
37802547 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:37806878 original size:18 final size:18
Alignment explanation
Indices: 37806837--37806881 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
37806827 AAAATAAAAA
37806837 GTTTTGAAATTGAATAAC
1 GTTTTGAAATTGAATAAC
* *
37806855 GATTTGTAAA-TGAATAAT
1 GTTTTG-AAATTGAATAAC
37806873 GTTTTGAAA
1 GTTTTGAAA
37806882 ACGAACGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (18 bp):
GTTTTGAAATTGAATAAC
Found at i:37807349 original size:15 final size:16
Alignment explanation
Indices: 37807324--37807353 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37807314 CATTTGAAAG
37807324 AATATATAATTAATTA
1 AATATATAATTAATTA
37807340 AATA-ATAATTAATT
1 AATATATAATTAATT
37807354 TTCATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATAATTAATTA
Found at i:37808420 original size:28 final size:29
Alignment explanation
Indices: 37808386--37808440 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
37808376 GCCCAATATG
*
37808386 CAATTATATACA-TAAACTTTAATTTTGT
1 CAATTATATACACAAAACTTTAATTTTGT
37808414 CAATTATATACACAAAACTTTAATTTT
1 CAATTATATACACAAAACTTTAATTTT
37808441 AATTCAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (29 bp):
CAATTATATACACAAAACTTTAATTTTGT
Found at i:37831629 original size:27 final size:27
Alignment explanation
Indices: 37831599--37831776 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
37831589 ATATCGAGTC
* *
37831599 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
37831626 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
37831653 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
37831681 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
37831708 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
37831735 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
37831762 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37831777 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37831738 original size:82 final size:81
Alignment explanation
Indices: 37831620--37831775 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37831610 TGCTATATAA
*
37831620 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37831685 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
37831702 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37831766 CACTTAGTGC
65 CACTTAGTGC
37831776 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:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37835451 original size:19 final size:20
Alignment explanation
Indices: 37835405--37835457 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
37835395 TGTTACGGCA
37835405 AAAACTTATAAAATATTATTT
1 AAAA-TTATAAAATATTATTT
***
37835426 TTTATTATAAAATA-TATTT
1 AAAATTATAAAATATTATTT
37835445 AAAATTATAAAAT
1 AAAATTATAAAAT
37835458 TAATTTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 15 0.58
20 10 0.38
21 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATTATAAAATATTATTT
Found at i:37835620 original size:5 final size:5
Alignment explanation
Indices: 37835610--37835638 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
37835600 AAATTTTCAT
37835610 AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATA
37835639 TTCTTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:37837856 original size:26 final size:25
Alignment explanation
Indices: 37837809--37837860 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
37837799 ATTAAAATGT
*
37837809 AATAAACATGACATATTAAAGACAC
1 AATAAACAAGACATATTAAAGACAC
* *
37837834 AATAAACTAAGACATGTTTAAGACAC
1 AATAAAC-AAGACATATTAAAGACAC
37837860 A
1 A
37837861 TTTAGAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (25 bp):
AATAAACAAGACATATTAAAGACAC
Found at i:37841468 original size:30 final size:30
Alignment explanation
Indices: 37841434--37841730 Score: 360
Period size: 30 Copynumber: 9.9 Consensus size: 30
37841424 TGTAAATGGT
* *
37841434 TATACATTGTCGAATTGATTTGTATGTAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
37841464 TATACATTGCCAAATTGATTTATATATATA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
37841494 TGTACATTGCCGAATTGATTCGTATTTAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
37841524 TATACATTGCCGAATTGATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
37841554 TATACATTGCCGAATTGATTTGTATATGGT
1 TATACATTGCCGAATTGATTTGTATATAGA
* ** *
37841584 TATACATTGTCGAATTGATTTGTACGTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
37841614 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * * * *
37841644 TGTACATTACCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
37841674 TATACATTACCAAATTGATTTGTATATAGG
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
37841704 TGTACATTGCTGAATTGATTTGTATAT
1 TATACATTGCCGAATTGATTTGTATAT
37841731 GTATATATAT
Statistics
Matches: 228, Mismatches: 39, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 228 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATAGA
Found at i:37848163 original size:30 final size:30
Alignment explanation
Indices: 37848119--37848429 Score: 363
Period size: 30 Copynumber: 10.4 Consensus size: 30
37848109 ATTCAAAGGC
*
37848119 ATATGGTTATACATTGCCGAATTGATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* *
37848149 ATGTGGATAAACATTGCCGAATTGATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* * *
37848179 ATATAGATGTACATTGCCGAATTGATTCGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* * * *
37848209 ATTTGGATATACATTGTCAAATTTATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* * **
37848239 ATTTGGATATACATCGCTTAATTGATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* **
37848269 ATATGGTTATACATTGCCGAATTGATTCAT
1 ATATGGATATACATTGCCGAATTGATTTGT
37848299 ATATGGATATACATTGCCGAATTGATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* * * *
37848329 ATATAGATGTACATTGTCGAATTGATTCGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* * *
37848359 ATTTGGATATACATTTCCAAATTGATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* *
37848389 ATATAGG-TGTGCATTGCCGAATTGATTTGT
1 ATAT-GGATATACATTGCCGAATTGATTTGT
*
37848419 ATATGTATATA
1 ATATGGATATA
37848430 TATGTATTGC
Statistics
Matches: 230, Mismatches: 49, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
29 1 0.00
30 227 0.99
31 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (30 bp):
ATATGGATATACATTGCCGAATTGATTTGT
Found at i:37852750 original size:26 final size:28
Alignment explanation
Indices: 37852721--37852786 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
37852711 AAATTTGATT
37852721 TTTTTCTCTCTTTTCGT-TTCACT-TTA
1 TTTTTCTCTCTTTTCGTCTTCACTCTTA
* * *
37852747 TTTTTCATTCTTTTTTCTTCTTCACTCTTT
1 TTTTTC--TCTCTTTTCGTCTTCACTCTTA
37852777 TTTTTCTCTC
1 TTTTTCTCTC
37852787 GATTTCTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 6 0.19
28 12 0.38
29 6 0.19
30 8 0.25
ACGTcount: A:0.06, C:0.24, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTTTCTCTCTTTTCGTCTTCACTCTTA
Found at i:37852770 original size:17 final size:16
Alignment explanation
Indices: 37852750--37852783 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
37852740 CACTTTATTT
*
37852750 TTCATTCTTTTTTCTTC
1 TTCACTCTTTTTT-TTC
37852767 TTCACTCTTTTTTTTC
1 TTCACTCTTTTTTTTC
37852783 T
1 T
37852784 CTCGATTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCACTCTTTTTTTTC
Found at i:37855154 original size:36 final size:37
Alignment explanation
Indices: 37855104--37855190 Score: 158
Period size: 36 Copynumber: 2.4 Consensus size: 37
37855094 TTCTTTTTTC
37855104 TTTTTTTTCTTTTCATGGACATGCTTTTACTTTTAGTG
1 TTTTTTTTC-TTTCATGGACATGCTTTTACTTTTAGTG
37855142 -TTTTTTTCTTTCATGGACATGCTTTTACTTTTAGTG
1 TTTTTTTTCTTTCATGGACATGCTTTTACTTTTAGTG
37855178 TTTTTTTTCTTTC
1 TTTTTTTTCTTTC
37855191 TTCCATAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 28 0.58
37 20 0.42
ACGTcount: A:0.11, C:0.14, G:0.11, T:0.63
Consensus pattern (37 bp):
TTTTTTTTCTTTCATGGACATGCTTTTACTTTTAGTG
Found at i:37855321 original size:105 final size:107
Alignment explanation
Indices: 37855202--37855399 Score: 278
Period size: 105 Copynumber: 1.9 Consensus size: 107
37855192 TCCATAGAAC
* *
37855202 CCTCTCAAATTTTCTCTCATTTGT-TTACCATCCAATCACCATCAAA-AT-TTC-TTCTTTCTTC
1 CCTCTCAAATTTTCTCTCATTT-TCCTACCATCCAATCACCACCAAATATCTTCTTTCTTTCTTC
37855263 TATCAAATTATACACTAAATCTTTCTTCTTTCTTTCGTCAAAAA
65 TATCAAATTATACACT-AATCTTTCTTCTTTCTTTCGTCAAAAA
* * *
37855307 CCTCTTAAATTTTCTCTCATTTTCCTGCCATCCAATCACCACCAAATTTTCTTCTTTCTTTCTTC
1 CCTCTCAAATTTTCTCTCATTTTCCTACCATCCAATCACCACCAAA-TATCTTCTTTCTTTCTTC
* *
37855372 TGTCAAATTATACACTTATCTTTCTTCT
65 TATCAAATTATACACTAATCTTTCTTCT
37855400 GTCAAAAACT
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
104 1 0.01
105 40 0.49
107 1 0.01
108 14 0.17
109 25 0.31
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.45
Consensus pattern (107 bp):
CCTCTCAAATTTTCTCTCATTTTCCTACCATCCAATCACCACCAAATATCTTCTTTCTTTCTTCT
ATCAAATTATACACTAATCTTTCTTCTTTCTTTCGTCAAAAA
Found at i:37861923 original size:35 final size:35
Alignment explanation
Indices: 37861884--37861959 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
37861874 AAAAATTACT
*
37861884 TTTTAATAT-GAATGCCACATCAGCAATTAATTAAC
1 TTTTAATATCG-ATCCCACATCAGCAATTAATTAAC
* ** *
37861919 TTTTAATGTCGATCCCATGTCAGCAATTAATTAAT
1 TTTTAATATCGATCCCACATCAGCAATTAATTAAC
37861954 TTTTAA
1 TTTTAA
37861960 AATATAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (35 bp):
TTTTAATATCGATCCCACATCAGCAATTAATTAAC
Found at i:37867263 original size:3 final size:3
Alignment explanation
Indices: 37867257--37867292 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
37867247 TATGATGACT
*
37867257 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TGTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
37867293 TGTGTTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37872594 original size:23 final size:23
Alignment explanation
Indices: 37872545--37872595 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
37872535 AACATTAATA
37872545 AACTTATTTTATTAACATATCAC
1 AACTTATTTTATTAACATATCAC
37872568 -ACTTGATTTTATT-AC-TCATCAC
1 AACTT-ATTTTATTAACAT-ATCAC
37872590 AACTTA
1 AACTTA
37872596 CATAATTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 1 0.04
22 12 0.48
23 12 0.48
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (23 bp):
AACTTATTTTATTAACATATCAC
Found at i:37873029 original size:101 final size:101
Alignment explanation
Indices: 37872828--37873063 Score: 330
Period size: 101 Copynumber: 2.3 Consensus size: 101
37872818 AATTCATCCT
* * * *
37872828 TTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGAT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTGATCATCAAAATGCCATAGCCCAGCTATGAT
**
37872893 CTTACATATAAACACTGTCCTGGTCCAAATGTGGTC
66 CTTACATATAAACACTGTCCTGGTCCAAACATGGTC
* * *
37872929 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTGATCATCAAAATGTCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTGATCATCAAAATGCCATAGCCCAGCTATGAT
* * * *
37872994 CTTACATATAAATATTG-CCATGGTTCAACCATGGTC
66 CTTACATATAAACACTGTCC-TGGTCCAAACATGGTC
*
37873030 TTACGTTAATAGTGCCATAACCCAGTTATGGTCT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCT
37873064 TATCCGTCAA
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
100 2 0.02
101 117 0.98
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTGATCATCAAAATGCCATAGCCCAGCTATGAT
CTTACATATAAACACTGTCCTGGTCCAAACATGGTC
Found at i:37873061 original size:33 final size:33
Alignment explanation
Indices: 37872828--37873065 Score: 88
Period size: 33 Copynumber: 7.1 Consensus size: 33
37872818 AATTCATCCT
** *
37872828 TTACATTCGTAGTGCCATAACCCAGTTATGGTC
1 TTACATTAATAGTGCCATAACCCAGCTATGGTC
* * *
37872861 TTATCATCAGA-A-TGCCATAGCCCAGCTATGATC
1 TTA-CATTA-ATAGTGCCATAACCCAGCTATGGTC
* * *** ** *
37872894 TTACATATAAACACTGTCC-TGGTCCAAATGTGGTC
1 TTACAT-T-AATAGTG-CCATAACCCAGCTATGGTC
* * * *
37872929 TTACGTTCATAGTGTCATAACCCAGTTATGGTC
1 TTACATTAATAGTGCCATAACCCAGCTATGGTC
* * * * *
37872962 TGATCATCAA-AATGTCATAGCCCAGCTATGGTC
1 TTA-CATTAATAGTGCCATAACCCAGCTATGGTC
* **** * *
37872995 TTACATATAAATATTGCCATGGTTCAACCATGGTC
1 TTACAT-T-AATAGTGCCATAACCCAGCTATGGTC
* *
37873030 TTACGTTAATAGTGCCATAACCCAGTTATGGTC
1 TTACATTAATAGTGCCATAACCCAGCTATGGTC
37873063 TTA
1 TTA
37873066 TCCGTCAATT
Statistics
Matches: 144, Mismatches: 49, Indels: 24
0.66 0.23 0.11
Matches are distributed among these distances:
32 7 0.05
33 84 0.58
34 13 0.09
35 38 0.26
36 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (33 bp):
TTACATTAATAGTGCCATAACCCAGCTATGGTC
Found at i:37874537 original size:18 final size:17
Alignment explanation
Indices: 37874509--37874551 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
37874499 TTCCATTTTA
* * *
37874509 TTTTCTTTATTTCTTAT
1 TTTTATTTATTTATGAT
37874526 TTCTTATTTATTTATGAT
1 TT-TTATTTATTTATGAT
37874544 TTTTATTT
1 TTTTATTT
37874552 GGACAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTATTTATTTATGAT
Found at i:37875967 original size:13 final size:13
Alignment explanation
Indices: 37875949--37875974 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37875939 ATTGTCGTGG
37875949 AAATGTTAAGTTT
1 AAATGTTAAGTTT
37875962 AAATGTTAAGTTT
1 AAATGTTAAGTTT
37875975 TAACACTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
AAATGTTAAGTTT
Found at i:37879584 original size:45 final size:45
Alignment explanation
Indices: 37879522--37879613 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
37879512 TTATTTTTAC
*
37879522 ACATGTCAAACACTTAAATGTATGTGATTTAAACTCTTTTATTCT
1 ACATATCAAACACTTAAATGTATGTGATTTAAACTCTTTTATTCT
*
37879567 ACATATCAAGCACTTAAATGTATGTGATTTAAACTCTTTTATTCT
1 ACATATCAAACACTTAAATGTATGTGATTTAAACTCTTTTATTCT
37879612 AC
1 AC
37879614 TGATATTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (45 bp):
ACATATCAAACACTTAAATGTATGTGATTTAAACTCTTTTATTCT
Found at i:37889758 original size:42 final size:42
Alignment explanation
Indices: 37889683--37889764 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
37889673 TAAGGGCAAG
**
37889683 CTAAAATAAGTTTGGATTAGTCATTTATTAATATAATTAAAC
1 CTAAAATAAGTTTGGATTAGTCATTTACAAATATAATTAAAC
* *
37889725 CTAAAATGAGTTT-GAGTTAGTCATTTACAAATATAGTTAA
1 CTAAAATAAGTTTGGA-TTAGTCATTTACAAATATAATTAA
37889765 GACTTGAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (42 bp):
CTAAAATAAGTTTGGATTAGTCATTTACAAATATAATTAAAC
Done.