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 190 of 208
Found at i:59208812 original size:59 final size:59
Alignment explanation
Indices: 59208715--59208840 Score: 243
Period size: 59 Copynumber: 2.1 Consensus size: 59
59208705 TCTTTTACTT
59208715 ATTATAATAATAACGATGCTAACTAAATTAAGATTCAATCGATCAATTATTTGCAACAAA
1 ATTA-AATAATAACGATGCTAACTAAATTAAGATTCAATCGATCAATTATTTGCAACAAA
59208775 ATTAAATAATAACGATGCTAACTAAATTAAGATTCAATCGATCAATTATTTGCAACAAA
1 ATTAAATAATAACGATGCTAACTAAATTAAGATTCAATCGATCAATTATTTGCAACAAA
59208834 ATTAAAT
1 ATTAAAT
59208841 TTTAATTTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
59 62 0.94
60 4 0.06
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.32
Consensus pattern (59 bp):
ATTAAATAATAACGATGCTAACTAAATTAAGATTCAATCGATCAATTATTTGCAACAAA
Found at i:59210867 original size:27 final size:27
Alignment explanation
Indices: 59210837--59210908 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
59210827 GATTTATAAG
*
59210837 AACAATAAATAATAAAAGTTTCAAATA
1 AACAATAAATAATAAAAGTTTAAAATA
* ** *
59210864 AACAATATATAGGAAAA-CTTAAAATA
1 AACAATAAATAATAAAAGTTTAAAATA
59210890 AA-AA-AAATAATAAAAGTTT
1 AACAATAAATAATAAAAGTTT
59210909 TTAAAATCAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
24 8 0.23
25 4 0.11
26 9 0.26
27 14 0.40
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (27 bp):
AACAATAAATAATAAAAGTTTAAAATA
Found at i:59213121 original size:46 final size:46
Alignment explanation
Indices: 59213068--59213159 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
59213058 ACTGAGGAAG
*
59213068 CCATATGGAAACCTTAAGACTCGGTTCTACAACAATATCTGCATTT
1 CCATATGGAAACCTGAAGACTCGGTTCTACAACAATATCTGCATTT
*
59213114 CCATATGGGAACCTGAAGACTCGGTTCTACAACAATATCTGCATTT
1 CCATATGGAAACCTGAAGACTCGGTTCTACAACAATATCTGCATTT
59213160 TTTTTAGTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (46 bp):
CCATATGGAAACCTGAAGACTCGGTTCTACAACAATATCTGCATTT
Found at i:59216520 original size:34 final size:36
Alignment explanation
Indices: 59216466--59216536 Score: 128
Period size: 34 Copynumber: 2.0 Consensus size: 36
59216456 ATCATTACTC
59216466 AATACATAAATATTTTTTAAATAAATGATATGTCGT
1 AATACATAAATATTTTTTAAATAAATGATATGTCGT
59216502 AATACAT-AAT-TTTTTTAAATAAATGATATGTCGT
1 AATACATAAATATTTTTTAAATAAATGATATGTCGT
59216536 A
1 A
59216537 TTTTGAGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 25 0.71
35 3 0.09
36 7 0.20
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (36 bp):
AATACATAAATATTTTTTAAATAAATGATATGTCGT
Found at i:59218959 original size:158 final size:157
Alignment explanation
Indices: 59218333--59219168 Score: 1112
Period size: 158 Copynumber: 5.4 Consensus size: 157
59218323 ATAAATAGCA
* ** * * * * * *
59218333 AAAATAGTGTATTTACTGAAAGTAATAAAATCTGAAAAAAAAAGAAATATACGAATAAAGGGTCA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATC--CAAAAATAAGAAAAATACGAACAAATGGCCA
* *
59218398 AAATAAGGGTTTTTCACTAAATTTATATAAAAAAACACTAAAATAATACATTTCAAACATTATCT
64 AAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACTAAAATAATACATTTCAAACATTATGT
*
59218463 ACTAAAATAATATAAAATAAAAAAATA-G
129 ACTAAAATAATATAAAATAATAAAATACG
* * * *
59218491 ----TA-TCT-TTTTTTTAAAGTAATAAAATCCGAAAATAAGAAAAATACGAATAAATGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATACGAACAAATGGCCAAA
* *
59218550 ATAAGGGTTTTTTAACTAAATTTATATAAAAAAAACACACTAAATTAATACATTTCAAACTTTAT
66 ATAAGGGTTTTTT-ACTAAATTTATAT--AAAAAA-ACACTAAAATAATACATTTCAAACATTAT
59218615 GTACTAAAATAATATAAAATAATAAAATACG
127 GTACTAAAATAATATAAAATAATAAAATACG
* *
59218646 AAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAAA-AAGAAAAATACGAACAAAGGGCCAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAA-TCCAAAAATAAGAAAAATACGAACAAATGGCCAA
* *
59218710 AATAAGGGGTTTTTTACTAAATTTATATAAAAAGCACAATAAAATAATACATTTCAAACATTATG
65 AATAA-GGGTTTTTTACTAAATTTATATAAAAA-AACACTAAAATAATACATTTCAAACATTATG
*
59218775 TACTAAAATAATATAAAATAACAAAATACG
128 TACTAAAATAATATAAAATAATAAAATACG
*
59218805 AAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATAGGAACAAATGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATACGAACAAATGGCCAAA
59218870 ATAAGGGTTTTTTTTACTAAATTTATATAAAAAAA-ACTAAAATAATACATTTCAAACATTATGT
66 ATAAGGG--TTTTTTACTAAATTTATATAAAAAAACACTAAAATAATACATTTCAAACATTATGT
59218934 ACTAAAATAATATAAAATAATAAAATACG
129 ACTAAAATAATATAAAATAATAAAATACG
*** *
59218963 AAAATAGTATATTTTTTGAAAGTAATAAAATTTTAAAATAAGAAAAATATGAACAAATGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATACGAACAAATGGCCAAA
* * * *
59219028 ATGAGGGTTTTTTACTAAATTTATATAAAAAAAGAC-------A-ACATTTCAAACTTTATGTAA
66 ATAAGGGTTTTTTACTAAATTTATATAAAAAAACACTAAAATAATACATTTCAAACATTATGTAC
59219085 TAAAATAATATAAAATAATAAAATACG
131 TAAAATAATATAAAATAATAAAATACG
* * * * * *
59219112 AAAATAATATATATTTTAAAAGTAATAAAATCCGAAAATAAGAAAAGTACAAACAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATACGAACAAA
59219169 AGGGGTGCCG
Statistics
Matches: 612, Mismatches: 48, Indels: 45
0.87 0.07 0.06
Matches are distributed among these distances:
149 93 0.15
150 40 0.07
151 13 0.02
152 18 0.03
153 8 0.01
154 56 0.09
155 1 0.00
156 26 0.04
157 2 0.00
158 133 0.22
159 122 0.20
160 26 0.04
161 59 0.10
162 15 0.02
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (157 bp):
AAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATACGAACAAATGGCCAAA
ATAAGGGTTTTTTACTAAATTTATATAAAAAAACACTAAAATAATACATTTCAAACATTATGTAC
TAAAATAATATAAAATAATAAAATACG
Found at i:59218981 original size:317 final size:315
Alignment explanation
Indices: 59218333--59219168 Score: 1157
Period size: 317 Copynumber: 2.7 Consensus size: 315
59218323 ATAAATAGCA
* ** * * *
59218333 AAAATAGTGTATTTACTGAAAGTAATAAAA-TCTGAAAAAAAAAGAAATATACGAATAAAGGGTC
1 AAAATAGTATATTTTTTGAAAGTAATAAAATTC-G--AAAAAAAGAAAAATACGAACAAAGGGCC
* * *
59218397 AAAATAAGGGTTTTTCACTAAATTTATATAAAAAAACACTAAAATAATACATTTCAAACATTATC
63 AAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAACAATAAAATAATACATTTCAAACATTATG
* *
59218462 TACTAAAATAATATAAAATAAAAAAATA-G----TATCT-TTTTTTTAAAGTAATAAAATCCGAA
127 TACTAAAATAATATAAAATAAAAAAATACGAAAATATATATTTTTTAAAAGTAATAAAATCCGAA
*
59218521 AATAAGAAAAATACGAATAAATGGCCAAAATAAGGGTTTTTTAACTAAATTTATATAAAAAAAAC
192 AATAAGAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTAACTAAATTTATAT-AAAAAAAC
* *
59218586 ACACTAAATTAATACATTTCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACG
256 ACACTAAAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATACG
59218646 AAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAAAAAGAAAAATACGAACAAAGGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAAAAAGAAAAATACGAACAAAGGGCCAAA
59218711 ATAAGGGGTTTTTTACTAAATTTATATAAAAAGCACAATAAAATAATACATTTCAAACATTATGT
66 ATAA-GGGTTTTTTACTAAATTTATATAAAAA--ACAATAAAATAATACATTTCAAACATTATGT
* * *
59218776 ACTAAAATAATATAAAATAACAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCAAA
128 ACTAAAATAATATAAAATAAAAAAATACGAAAATA-TATATTTTTTAAAAGTAATAAAATCCGAA
* *
59218841 AATAAGAAAAATAGGAACAAATGGCCAAAATAAGGGTTTTTTTTACTAAATTTATAT-AAAAAA-
192 AATAAGAAAAATACGAACAAATGGCCAAAATAAGGG-TTTTTTAACTAAATTTATATAAAAAAAC
59218904 A-ACTAAAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATACG
256 ACACTAAAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATACG
** * * *
59218963 AAAATAGTATATTTTTTGAAAGTAATAAAATTTTAAAATAAGAAAAATATGAACAAATGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAAAAAGAAAAATACGAACAAAGGGCCAAA
* * * * *
59219028 ATGAGGGTTTTTTACTAAATTTATAT---AAA-AA-AAGA-CA-ACATTTCAAACTTTATGTAAT
66 ATAAGGGTTTTTTACTAAATTTATATAAAAAACAATAAAATAATACATTTCAAACATTATGTACT
* *
59219086 AAAATAATATAAAATAATAAAATACGAAAATAATATATATTTTAAAAGTAATAAAATCCGAAAAT
131 AAAATAATATAAAATAAAAAAATACGAAAAT-ATATATTTTTTAAAAGTAATAAAATCCGAAAAT
* *
59219151 AAGAAAAGTACAAACAAA
195 AAGAAAAATACGAACAAA
59219169 AGGGGTGCCG
Statistics
Matches: 475, Mismatches: 35, Indels: 32
0.88 0.06 0.06
Matches are distributed among these distances:
307 93 0.20
308 2 0.00
309 3 0.01
310 2 0.00
311 38 0.08
312 21 0.04
313 85 0.18
314 3 0.01
316 22 0.05
317 119 0.25
318 3 0.01
319 8 0.02
320 57 0.12
321 19 0.04
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (315 bp):
AAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAAAAAGAAAAATACGAACAAAGGGCCAAA
ATAAGGGTTTTTTACTAAATTTATATAAAAAACAATAAAATAATACATTTCAAACATTATGTACT
AAAATAATATAAAATAAAAAAATACGAAAATATATATTTTTTAAAAGTAATAAAATCCGAAAATA
AGAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTAACTAAATTTATATAAAAAAACACACT
AAAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATACG
Found at i:59219117 original size:16 final size:16
Alignment explanation
Indices: 59219096--59219157 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
59219086 AAAATAATAT
59219096 AAAATAATAAAATACG
1 AAAATAATAAAATACG
* ***
59219112 AAAATAATATATATTTT
1 AAAATAATA-AAATACG
*
59219129 AAAAGTAATAAAATCCG
1 AAAA-TAATAAAATACG
*
59219146 AAAATAAGAAAA
1 AAAATAATAAAA
59219158 GTACAAACAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
16 16 0.46
17 14 0.40
18 5 0.14
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAATAATAAAATACG
Found at i:59221153 original size:44 final size:44
Alignment explanation
Indices: 59221103--59221322 Score: 404
Period size: 44 Copynumber: 5.0 Consensus size: 44
59221093 TATTGCACCT
* *
59221103 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTTTAGTGCC
1 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
59221147 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
1 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
59221191 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
1 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
59221235 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
1 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
* *
59221279 ACAATTATTCCACTAACAGAAAAGTGAAAGAAGCTTCTGGTGCC
1 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
59221323 TTGCATTTCT
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 172 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (44 bp):
ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
Found at i:59221717 original size:30 final size:30
Alignment explanation
Indices: 59221683--59221785 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
59221673 TATCGACAGA
*
59221683 CCATGCAGAAGCCGTAGAAGCCCTGACTAT
1 CCATGCAGAAGCCGCAGAAGCCCTGACTAT
* * *
59221713 CCATGTAGAAGCCGCAGAAGCGCTGACTGT
1 CCATGCAGAAGCCGCAGAAGCCCTGACTAT
* *
59221743 CCATGCCGAAGCTGCAGAAGCACC-GACTAT
1 CCATGCAGAAGCCGCAGAAGC-CCTGACTAT
*
59221773 CCATGTAGAAGCC
1 CCATGCAGAAGCC
59221786 TTAAAAGCGC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 59 0.98
31 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.25, T:0.16
Consensus pattern (30 bp):
CCATGCAGAAGCCGCAGAAGCCCTGACTAT
Found at i:59221723 original size:60 final size:60
Alignment explanation
Indices: 59221652--59221785 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 60
59221642 ACGCTCATGG
* *
59221652 TCCATGTAGAAGCCACAAAAGTATC-GACAGACCATGCAGAAGCCGTAGAAGC-CCTGACTA
1 TCCATGTAGAAGCCACAAAAG-AGCTGACAGACCATGCAGAAGCCGCAGAAGCACC-GACTA
* * * * * * *
59221712 TCCATGTAGAAGCCGCAGAAGCGCTGACTGTCCATGCCGAAGCTGCAGAAGCACCGACTA
1 TCCATGTAGAAGCCACAAAAGAGCTGACAGACCATGCAGAAGCCGCAGAAGCACCGACTA
59221772 TCCATGTAGAAGCC
1 TCCATGTAGAAGCC
59221786 TTAAAAGCGC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 1 0.02
60 60 0.95
61 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (60 bp):
TCCATGTAGAAGCCACAAAAGAGCTGACAGACCATGCAGAAGCCGCAGAAGCACCGACTA
Found at i:59221799 original size:30 final size:30
Alignment explanation
Indices: 59221683--59221799 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 30
59221673 TATCGACAGA
*
59221683 CCATGCAGAAGCCGTAGAAGC-CCTGACTAT
1 CCATGCAGAAGCCGCAGAAGCGCC-GACTAT
* * *
59221713 CCATGTAGAAGCCGCAGAAGCGCTGACTGT
1 CCATGCAGAAGCCGCAGAAGCGCCGACTAT
* * *
59221743 CCATGCCGAAGCTGCAGAAGCACCGACTAT
1 CCATGCAGAAGCCGCAGAAGCGCCGACTAT
* ** *
59221773 CCATGTAGAAGCCTTAAAAGCGCCGAC
1 CCATGCAGAAGCCGCAGAAGCGCCGAC
59221800 AATTGAGGAA
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
30 68 0.99
31 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (30 bp):
CCATGCAGAAGCCGCAGAAGCGCCGACTAT
Found at i:59222373 original size:30 final size:30
Alignment explanation
Indices: 59222339--59222486 Score: 125
Period size: 30 Copynumber: 4.9 Consensus size: 30
59222329 TCCTCAATTA
* * *
59222339 TCGGCGCTTCTGCGGCTTCGGCATGGATAG
1 TCGGCGCTTCTGCGACTTCTGCATGGACAG
* *
59222369 TCGGCGCTTCTGCAACTTTTGCATGGACAG
1 TCGGCGCTTCTGCGACTTCTGCATGGACAG
* * * *
59222399 TCAGCACTTCTGCGTCTTTTGCATGGACAG
1 TCGGCGCTTCTGCGACTTCTGCATGGACAG
* * * * *
59222429 TCGACTCTTTTGCGACTTCTGCATGGTCCG
1 TCGGCGCTTCTGCGACTTCTGCATGGACAG
* * * * *
59222459 ACGGTGCTACTGTGGCTTCTGCATGGAC
1 TCGGCGCTTCTGCGACTTCTGCATGGAC
59222487 CGTGGACATT
Statistics
Matches: 92, Mismatches: 26, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 92 1.00
ACGTcount: A:0.14, C:0.27, G:0.28, T:0.31
Consensus pattern (30 bp):
TCGGCGCTTCTGCGACTTCTGCATGGACAG
Found at i:59225313 original size:17 final size:18
Alignment explanation
Indices: 59225287--59225325 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
59225277 TTAAAATTCA
59225287 AAAAATAT-AAAATTATTT
1 AAAAATATAAAAATTA-TT
59225305 AAAAA-ATAAAAATTATT
1 AAAAATATAAAAATTATT
59225322 AAAA
1 AAAA
59225326 TTATTTAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATATAAAAATTATT
Found at i:59225316 original size:18 final size:18
Alignment explanation
Indices: 59225286--59225325 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
59225276 TTTAAAATTC
59225286 AAAAAATATAAAATTATTT
1 AAAAAATATAAAATTA-TT
59225305 AAAAAATA-AAAATTATT
1 AAAAAATATAAAATTATT
59225322 AAAA
1 AAAA
59225326 TTATTTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 7 0.33
19 8 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAAATATAAAATTATT
Found at i:59225348 original size:27 final size:26
Alignment explanation
Indices: 59225287--59225352 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
59225277 TTAAAATTCA
59225287 AAAAATA-TAAAATTATTTAAAAAAT
1 AAAAATATTAAAATTATTTAAAAAAT
**
59225312 AAAAATTATTAAAATTATTTAAAGCAT
1 AAAAA-TATTAAAATTATTTAAAAAAT
59225339 ACAAAATATTAAAA
1 A-AAAATATTAAAA
59225353 AATATATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 5 0.14
26 2 0.06
27 25 0.69
28 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (26 bp):
AAAAATATTAAAATTATTTAAAAAAT
Found at i:59227360 original size:16 final size:18
Alignment explanation
Indices: 59227331--59227365 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
59227321 AAACAAATTT
59227331 TTAAAATATATATTTTTA
1 TTAAAATATATATTTTTA
59227349 TTAAAAT-T-TATTTTTA
1 TTAAAATATATATTTTTA
59227365 T
1 T
59227366 AATATATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAAATATATATTTTTA
Found at i:59228592 original size:3 final size:3
Alignment explanation
Indices: 59228584--59228696 Score: 165
Period size: 3 Copynumber: 36.7 Consensus size: 3
59228574 TAAGTGGGTA
* *
59228584 AAT AAT AAT AAG AA- AAGT AAT AAT AAT AAAT GCAAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT --AAT AAT AAT AAT AAT
59228632 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59228680 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
59228697 ACGGGGTTAG
Statistics
Matches: 102, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.02
3 92 0.90
4 5 0.05
5 3 0.03
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:59230499 original size:82 final size:82
Alignment explanation
Indices: 59230362--59231404 Score: 1723
Period size: 82 Copynumber: 12.7 Consensus size: 82
59230352 TCCACTACCA
* * *
59230362 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTGATTT
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
59230427 TGTCTACTCCGCTACTG
66 TGTCTACTCCGCTACTG
* *
59230444 CTTAGGGAGATAAGACTTGATGCGATTTGCTCCACTACTGCTTAGAGAGATAAGATCTGTGGTTC
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
59230509 TGTCTACTCCGCTACTG
66 TGTCTACTCCGCTACTG
59230526 CTTAGGGAGATAAGA-TCTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
1 CTTAGGGAGATAAGACT-TGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
*
59230590 CTGTCTGCTCCGCTACTG
65 CTGTCTACTCCGCTACTG
* *
59230608 CTTTGGGAGATAAGAC-TGATGCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
* *
59230672 TGTCTGCTCCGCTACTA
66 TGTCTACTCCGCTACTG
* *
59230689 CTTTGGGAGATAAGACTTGATGCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
*
59230754 TGTCTGCTCCGCTACTG
66 TGTCTACTCCGCTACTG
*
59230771 CTTTGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
**
59230836 TGTCTGTTCCGCTACTG
66 TGTCTACTCCGCTACTG
* *
59230853 CTTTGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAGTTC
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
*
59230918 TGTCTACTCCACTACTG
66 TGTCTACTCCGCTACTG
* * *
59230935 CTTAGGGAGATAAGACTTGATGCGATATGCTCCACTACTGCTTAGAGAGATAAGATCTGTAGTTC
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
* *
59231000 TGTCTACTCCACTACTA
66 TGTCTACTCCGCTACTG
59231017 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
* * * *
59231082 TATCTGCTCCACTACTA
66 TGTCTACTCCGCTACTG
*
59231099 CTTAGGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
*
59231164 TGTCTACTCCACTACTG
66 TGTCTACTCCGCTACTG
59231181 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
*
59231246 TGTCTACTCCACTACTG
66 TGTCTACTCCGCTACTG
*
59231263 CTTAGGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT-
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
*
59231327 TCGTCTGCTCCGCTACTG
66 T-GTCTACTCCGCTACTG
* * *
59231345 CTTAGGGAGATAAGACTTGATGTGATCTGCTCCATTACTACTTAGGGAGATAAGATCTGT
1 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
59231405 AATCTTCAAT
Statistics
Matches: 916, Mismatches: 41, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
81 81 0.09
82 835 0.91
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (82 bp):
CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC
TGTCTACTCCGCTACTG
Found at i:59231673 original size:130 final size:131
Alignment explanation
Indices: 59231371--59231678 Score: 492
Period size: 132 Copynumber: 2.4 Consensus size: 131
59231361 TTGATGTGAT
* * *
59231371 CTGCTCCATTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGCTGCCCAGGG
** * * *
59231436 AGATAGAACTACTGGCTTCAATGTACTCCATTGTAATCTCAGGGAGGTAAAATCCGCCATCTTTG
66 AGATAGAACTACCAGCTTCAATGTACTCAACTGTAA-CTCAGGGAGGTAAAATCCGCCATCTTCG
59231501 AC
130 AC
* * *
59231503 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAGTCTTCGATCTATTCCACTGTTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGCTGCCCAGGG
59231568 AGATAGAACTACCAGCTTCAATGTACTCAACTGTAA-TCAGGGAGGTAAAATCCGCCATCTTCGA
66 AGATAGAACTACCAGCTTCAATGTACTCAACTGTAACTCAGGGAGGTAAAATCCGCCATCTTCGA
59231632 C
131 C
*
59231633 CTGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCGATCT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCT
59231679 GCTTCGCCGT
Statistics
Matches: 163, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
130 72 0.44
132 91 0.56
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGCTGCCCAGGG
AGATAGAACTACCAGCTTCAATGTACTCAACTGTAACTCAGGGAGGTAAAATCCGCCATCTTCGA
C
Found at i:59231709 original size:45 final size:44
Alignment explanation
Indices: 59231658--59231985 Score: 260
Period size: 45 Copynumber: 7.3 Consensus size: 44
59231648 TTAGGAAGAT
59231658 AAGATCTGTAATCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGC
1 AAGATCTGT-ATCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGC
* * * * *
59231703 AAGATCTGATATCTT-TAGTCTGCTCCGCTGTCAGTGCAGGAAAGC
1 AAGATCTG-TATCTTCGA-TCTGCTTCGCCGTCAGTACAGGAAGGC
* * * *
59231748 AAGA-CTAGTTTCTTCGATCTGCTTTGCCGTCGGTACAGAAAGGC
1 AAGATCT-GTATCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGC
* * * * **
59231792 AAGATCTGCTATCTT-TAGTTTGCTCCGCTGTCAGTGTAGGAAGGC
1 AAGATCTG-TATCTTCGA-TCTGCTTCGCCGTCAGTACAGGAAGGC
59231837 AAGA-CTAGCT-TCTTCGATCTGCTTCGCCGTC-GATACAGGAAGGC
1 AAGATCT-G-TATCTTCGATCTGCTTCGCCGTCAG-TACAGGAAGGC
* * * * * * *
59231881 AAGATCTACTATCTT-TAGTCTGCTCCACTGTCTGTGCAGGAAGGC
1 AAGATCT-GTATCTTCGA-TCTGCTTCGCCGTCAGTACAGGAAGGC
*
59231926 AAGA-CTGGCT-TCTTCGATCTGCTTCGCCGTTAGTACAGGAAGGC
1 AAGATCT-G-TATCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGC
59231970 AAGATCTGCTATCTTC
1 AAGATCTG-TATCTTC
59231986 AACCAGCTCT
Statistics
Matches: 220, Mismatches: 45, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.00
44 100 0.45
45 117 0.53
46 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (44 bp):
AAGATCTGTATCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGC
Found at i:59231777 original size:89 final size:89
Alignment explanation
Indices: 59231669--59231984 Score: 483
Period size: 89 Copynumber: 3.6 Consensus size: 89
59231659 AGATCTGTAA
59231669 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGATATCTTTAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGATATCTTTAGTCTGCTCCGCTGT
* *
59231734 CAGTGCAGGAAAGCAAGACTAGTT
66 CAGTGCAGGAAGGCAAGACTAGCT
* * * * *
59231758 TCTTCGATCTGCTTTGCCGTCGGTACAGAAAGGCAAGATCTGCTATCTTTAGTTTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGATATCTTTAGTCTGCTCCGCTGT
*
59231823 CAGTGTAGGAAGGCAAGACTAGCT
66 CAGTGCAGGAAGGCAAGACTAGCT
*
59231847 TCTTCGATCTGCTTCGCCGTC-GATACAGGAAGGCAAGATCT-ACTATCTTTAGTCTGCTCCACT
1 TCTTCGATCTGCTTCGCCGTCAG-TACAGGAAGGCAAGATCTGA-TATCTTTAGTCTGCTCCGCT
* *
59231910 GTCTGTGCAGGAAGGCAAGACTGGCT
64 GTCAGTGCAGGAAGGCAAGACTAGCT
* *
59231936 TCTTCGATCTGCTTCGCCGTTAGTACAGGAAGGCAAGATCTGCTATCTT
1 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGATATCTT
59231985 CAACCAGCTC
Statistics
Matches: 205, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
88 1 0.00
89 203 0.99
90 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGATATCTTTAGTCTGCTCCGCTGT
CAGTGCAGGAAGGCAAGACTAGCT
Found at i:59232054 original size:86 final size:86
Alignment explanation
Indices: 59231936--59232407 Score: 746
Period size: 86 Copynumber: 5.5 Consensus size: 86
59231926 AAGACTGGCT
* * * * * *
59231936 TCTTCGATCTGCTTCGCCGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
* *
59232001 AAACAAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
* *
59232022 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCCGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
59232087 AACCGAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
*
59232108 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
*
59232173 AACCGAGAGAGGTAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
* ** * *
59232194 TCTTCGATCTGCTTCACTGTCAATGCATAAAGACAAGATCTGTTGTATTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
*
59232259 AATCGAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
** *
59232280 TCTTCGATCTGCTTCATTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
59232345 AACCGAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
*
59232366 TCTTCGATCTGTTTCGCTGTCAATGCAGGAAGGCAAGATCTG
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG
59232408 GTAATTTCTT
Statistics
Matches: 354, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 354 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
AACCGAGAGAGGCAAGGTTTG
Found at i:59233633 original size:5 final size:5
Alignment explanation
Indices: 59233607--59233674 Score: 77
Period size: 5 Copynumber: 13.0 Consensus size: 5
59233597 TTGGCCTCTC
59233607 CTTTAT CTTTT CGTTATT CTTTT CTTTT CTTTT CTTTT -TTTT CATTTT
1 CTTT-T CTTTT C-TT-TT CTTTT CTTTT CTTTT CTTTT CTTTT C-TTTT
59233655 -TTTT CTTTTT CTTTT CTTTT
1 CTTTT C-TTTT CTTTT CTTTT
59233675 TTGGAATATT
Statistics
Matches: 56, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
4 8 0.14
5 28 0.50
6 17 0.30
7 3 0.05
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.78
Consensus pattern (5 bp):
CTTTT
Found at i:59237841 original size:3 final size:3
Alignment explanation
Indices: 59237833--59237929 Score: 72
Period size: 3 Copynumber: 31.7 Consensus size: 3
59237823 TAAGTGGGTA
* * * *
59237833 AAT AAT AAT AAG AA- AAGT AAT AAT AAT AAAT GCAAT AAC AAG AAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT --AAT AAT AAT AAT AAT
* * * *
59237881 AAT AAT GAT AAT AAT AAT AAA AAT AA- AAA AAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59237928 AA
1 AA
59237930 ACGGGGTTAG
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
2 4 0.05
3 65 0.84
4 5 0.06
5 3 0.04
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:59239203 original size:18 final size:18
Alignment explanation
Indices: 59239175--59239215 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
59239165 AATTATATAA
59239175 AAAATTAAAATATGTATC
1 AAAATTAAAATATGTATC
* *
59239193 GAAATTCAAATATGTATC
1 AAAATTAAAATATGTATC
59239211 AAAAT
1 AAAAT
59239216 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (18 bp):
AAAATTAAAATATGTATC
Found at i:59242781 original size:36 final size:37
Alignment explanation
Indices: 59242734--59242820 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
59242724 CCACTATCGT
* *
59242734 GGTGTGTAGGGTGACGAGCCTACTATAGCC-CATTGC
1 GGTGTGTAGGGTGACGAGCCTACCATAGCCAAATTGC
* *
59242770 GGTGTGCAGGGTGGATGAGCCTACCATAGCCAAATTGC
1 GGTGTGTAGGGT-GACGAGCCTACCATAGCCAAATTGC
*
59242808 AGTGTGTAGGGTG
1 GGTGTGTAGGGTG
59242821 GTCGGAGTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
36 11 0.26
37 17 0.40
38 15 0.35
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (37 bp):
GGTGTGTAGGGTGACGAGCCTACCATAGCCAAATTGC
Found at i:59242799 original size:37 final size:38
Alignment explanation
Indices: 59242734--59242821 Score: 117
Period size: 38 Copynumber: 2.4 Consensus size: 38
59242724 CCACTATCGT
* *
59242734 GGTGTGTAGGGT-GACGAGCCTACTATAGCC-CATTGC
1 GGTGTGTAGGGTGGACGAGCCTACCATAGCCAAATTGC
* *
59242770 GGTGTGCAGGGTGGATGAGCCTACCATAGCCAAATTGC
1 GGTGTGTAGGGTGGACGAGCCTACCATAGCCAAATTGC
*
59242808 AGTGTGTAGGGTGG
1 GGTGTGTAGGGTGG
59242822 TCGGAGTAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
36 11 0.25
37 16 0.36
38 17 0.39
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.24
Consensus pattern (38 bp):
GGTGTGTAGGGTGGACGAGCCTACCATAGCCAAATTGC
Found at i:59245257 original size:86 final size:87
Alignment explanation
Indices: 59245108--59245283 Score: 300
Period size: 86 Copynumber: 2.0 Consensus size: 87
59245098 GCTAACATTC
59245108 ATGTTTTACGTGATTGTCCTATTGTGATTAATTGGGACGTGGCAGAGTATTTACCTTGTCAAGTG
1 ATGTTTTACGTGATTGTCCTATTGTG---AATTGGGACGTGGCAGAGTATTTACCTTGTCAAGTG
59245173 GTTCAAGATTTCTTTTCGATACCTT
63 GTTCAAGATTTCTTTTCGATACCTT
*
59245198 ATGTTTTACGTGATTGTCCTATTGTG-GTTGGGACGTGGCAGAGTATTTACCTTGTCAAGTGGTT
1 ATGTTTTACGTGATTGTCCTATTGTGAATTGGGACGTGGCAGAGTATTTACCTTGTCAAGTGGTT
*
59245262 CAAGATTTCTTTTTGATACCTT
66 CAAGATTTCTTTTCGATACCTT
59245284 TGCAAGTCTG
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
86 58 0.69
90 26 0.31
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (87 bp):
ATGTTTTACGTGATTGTCCTATTGTGAATTGGGACGTGGCAGAGTATTTACCTTGTCAAGTGGTT
CAAGATTTCTTTTCGATACCTT
Found at i:59249106 original size:86 final size:86
Alignment explanation
Indices: 59248961--59249132 Score: 317
Period size: 86 Copynumber: 2.0 Consensus size: 86
59248951 GCTAACATTC
*
59248961 ATGTTTTACGTGATTGTCCTATTGTGGTTGGGACGTGGTAGAGTATTTACCTTGTCAAGTGGTTC
1 ATGTTTTACGTGATTGTCCTATTGTGGTTGGGACGTGGCAGAGTATTTACCTTGTCAAGTGGTTC
59249026 AAGACTTCTTTTCGATACCTT
66 AAGACTTCTTTTCGATACCTT
59249047 ATGTTTTACGTGATTGTCCTATTGTGGTTGGGACGTGGCAGAGTATTTACCTTGTCAAGTGGTTC
1 ATGTTTTACGTGATTGTCCTATTGTGGTTGGGACGTGGCAGAGTATTTACCTTGTCAAGTGGTTC
* *
59249112 AAGATTTCTTTTTGATACCTT
66 AAGACTTCTTTTCGATACCTT
59249133 TGCAAGACTG
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (86 bp):
ATGTTTTACGTGATTGTCCTATTGTGGTTGGGACGTGGCAGAGTATTTACCTTGTCAAGTGGTTC
AAGACTTCTTTTCGATACCTT
Found at i:59250172 original size:20 final size:20
Alignment explanation
Indices: 59250149--59250212 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
59250139 TTTGTATTTT
*
59250149 TTTTAATAAAATTTTTATAA
1 TTTTAATATAATTTTTATAA
**
59250169 TTTTTTTATAA-TTTTATGAA
1 TTTTAATATAATTTTTAT-AA
*
59250189 TTTTAA-ATGATTTTTA-AA
1 TTTTAATATAATTTTTATAA
59250207 TTTTAA
1 TTTTAA
59250213 AAGGGCTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 8 0.22
19 9 0.25
20 19 0.53
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTAATATAATTTTTATAA
Found at i:59256632 original size:20 final size:21
Alignment explanation
Indices: 59256609--59256667 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
59256599 TACAAAATCA
59256609 AAACAC-TAAACTCTAAATTC
1 AAACACATAAACTCTAAATTC
*
59256629 AAAC-CATTAA-TACTAAATTC
1 AAACACATAAACT-CTAAATTC
*
59256649 ATACACATAAACTC-AAATT
1 AAACACATAAACTCTAAATT
59256668 TATTGAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 2 0.06
20 23 0.72
21 6 0.19
22 1 0.03
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (21 bp):
AAACACATAAACTCTAAATTC
Found at i:59258425 original size:20 final size:20
Alignment explanation
Indices: 59258389--59258437 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
59258379 AATTCTATCC
*
59258389 TTCTTTTATTTTATATTTACT
1 TTCTTTAATTTTATATTTA-T
59258410 TTCTTTAATTTT-TATTTAT
1 TTCTTTAATTTTATATTTAT
*
59258429 TTTTTTAAT
1 TTCTTTAAT
59258438 CTGACTTAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 9 0.35
20 6 0.23
21 11 0.42
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (20 bp):
TTCTTTAATTTTATATTTAT
Found at i:59261662 original size:104 final size:105
Alignment explanation
Indices: 59261417--59261664 Score: 295
Period size: 105 Copynumber: 2.4 Consensus size: 105
59261407 TTTATATGCC
* * * *
59261417 ACACGGCCTGGACACACATCCATGTCCTTGCCCATGTGGCTCACACGGCCTGGGCACATGCCCAT
1 ACACGGCCTAGACACACACCCGTGTCCTTGCCCATGTGACTCACACGGCCTGGGCACATGCCCAT
* * * * *
59261482 GTCTTCTGCCTGTGTAGTTCTAAAGCATAAAAAGTGATTT
66 GTCTTCGGCCTGTGTAGGTCTAAAGCACAAAAAGAGAGTT
* * * * * *
59261522 ACATGGCTTAGACACACGCCCGTGTCCTTACCCATGTGACTCATACGGCCTGGGTACATGCCCAT
1 ACACGGCCTAGACACACACCCGTGTCCTTGCCCATGTGACTCACACGGCCTGGGCACATGCCCAT
* *
59261587 GTCCTT-GGCC-GTGT-GGTCTTAAGTCACAAACAGAGAGTT
66 GT-CTTCGGCCTGTGTAGGTCTAAAG-CACAAAAAGAGAGTT
*
59261626 ACACGGCCTAGACACACACCCGTATCCTTGCCCATGTGA
1 ACACGGCCTAGACACACACCCGTGTCCTTGCCCATGTGA
59261665 ACCTTACACT
Statistics
Matches: 119, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
103 7 0.06
104 49 0.41
105 60 0.50
106 3 0.03
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (105 bp):
ACACGGCCTAGACACACACCCGTGTCCTTGCCCATGTGACTCACACGGCCTGGGCACATGCCCAT
GTCTTCGGCCTGTGTAGGTCTAAAGCACAAAAAGAGAGTT
Found at i:59262284 original size:2 final size:2
Alignment explanation
Indices: 59262277--59262301 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59262267 TACATAACCT
59262277 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
59262302 CTAATTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59263197 original size:18 final size:19
Alignment explanation
Indices: 59263174--59263217 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
59263164 ACTAAATTTA
*
59263174 TATTTAAATTTATTA-TAG
1 TATTTAAATTTATAATTAG
*
59263192 TATTT-AATTTATAATTAT
1 TATTTAAATTTATAATTAG
59263210 TATTTAAA
1 TATTTAAA
59263218 AAATTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 8 0.36
18 12 0.55
19 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTTAAATTTATAATTAG
Found at i:59277488 original size:367 final size:367
Alignment explanation
Indices: 59276815--59277547 Score: 1304
Period size: 367 Copynumber: 2.0 Consensus size: 367
59276805 CAAAGCACGC
59276815 ATTTTGGCTGACTTGAAGGATCAATAAAACTTTGTTCAATCAAAATGCAATGTGGTTTCATTAAT
1 ATTTTGGCTGACTTGAAGGATCAATAAAACTTTGTTCAATCAAAATGCAATGTGGTTTCATTAAT
* *
59276880 TTCAAATTGCAAGAGGTGTACCTACTAAGGGGGAGTGAACAAATCCAGTGGAGACGAGGTGGGGC
66 TTCAAATCGCAAGAGGTGTACCTACTAAGGGGGAGCGAACAAATCCAGTGGAGACGAGGTGGGGC
*
59276945 CTGTAGCTCAAAGGATTAGAGCATGTGGCTACGAACCACGATGTCGAGGGTTCGAATCCCTCCTC
131 CTGTAGCTCAAAGGATTAAAGCATGTGGCTACGAACCACGATGTCGAGGGTTCGAATCCCTCCTC
*
59277010 GCCCACAACCGGCCCAAAAGGGAAGGACCTTTCCCTCTGGGGGTAGGAAAAGCATGATCAAGATA
196 GCCCACAACCGGCCCAAAAGGGAAGGACCTTTCCCTCTGGGGATAGGAAAAGCATGATCAAGATA
*
59277075 GCGGACCCAAAGCTATGGAACTTGGGTGTGGGTCTTTTGCCGAAATGTAGTGGCCTTTTATTTAT
261 GCGGACCCAAAGCTATGGAACTTGGGTGTGGGTCTTTTGCCGAAATGGAGTGGCCTTTTATTTAT
*
59277140 TATTTGTCGTATATTTAATTTTTTATTTTCTATTTATATATT
326 TATTTGTCGTATATTTAATTTTCTATTTTCTATTTATATATT
* * *
59277182 ATTTTGGCTGATTTGAAGGATCAGTAAAACTTTTTTCAATCAAAATGCAATGTGGTTTCATTAAT
1 ATTTTGGCTGACTTGAAGGATCAATAAAACTTTGTTCAATCAAAATGCAATGTGGTTTCATTAAT
*
59277247 TTCAAATCGCAAGAGGTGTACCTACTAAGGGGGAGCGAACATATCCAGTGGAGACGAGGTGGGGC
66 TTCAAATCGCAAGAGGTGTACCTACTAAGGGGGAGCGAACAAATCCAGTGGAGACGAGGTGGGGC
* * * * *
59277312 CTGTAGTTCAAAGGATTAAAGCATGTGGCTATGAACCATGGTGTCGGGGGTTCGAATCCCTCCTC
131 CTGTAGCTCAAAGGATTAAAGCATGTGGCTACGAACCACGATGTCGAGGGTTCGAATCCCTCCTC
* * *
59277377 GCCCTCAACCGGCCCAAAAGGGAAGGACCTTTCCCTCTGGGGATAGGAAAATCATGATCGAGATA
196 GCCCACAACCGGCCCAAAAGGGAAGGACCTTTCCCTCTGGGGATAGGAAAAGCATGATCAAGATA
59277442 GCGGACCCAAAGCTATGGAACTTGGGTGTGGGTCTTTTGCCGAAATGGAGTGGCCTTTTATTTAT
261 GCGGACCCAAAGCTATGGAACTTGGGTGTGGGTCTTTTGCCGAAATGGAGTGGCCTTTTATTTAT
59277507 TATTTGTCGTATATTTAATTTTCTATTTTCTATTTATATAT
326 TATTTGTCGTATATTTAATTTTCTATTTTCTATTTATATAT
59277548 AGTATTATCG
Statistics
Matches: 348, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
367 348 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (367 bp):
ATTTTGGCTGACTTGAAGGATCAATAAAACTTTGTTCAATCAAAATGCAATGTGGTTTCATTAAT
TTCAAATCGCAAGAGGTGTACCTACTAAGGGGGAGCGAACAAATCCAGTGGAGACGAGGTGGGGC
CTGTAGCTCAAAGGATTAAAGCATGTGGCTACGAACCACGATGTCGAGGGTTCGAATCCCTCCTC
GCCCACAACCGGCCCAAAAGGGAAGGACCTTTCCCTCTGGGGATAGGAAAAGCATGATCAAGATA
GCGGACCCAAAGCTATGGAACTTGGGTGTGGGTCTTTTGCCGAAATGGAGTGGCCTTTTATTTAT
TATTTGTCGTATATTTAATTTTCTATTTTCTATTTATATATT
Found at i:59287876 original size:17 final size:17
Alignment explanation
Indices: 59287856--59287913 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
59287846 TTTAATAAGG
59287856 TTTAATATTTAATTTAA
1 TTTAATATTTAATTTAA
* *
59287873 TTTAATATTTATTTTGA
1 TTTAATATTTAATTTAA
*
59287890 -TAAATA-TT-ATATTAA
1 TTTAATATTTAAT-TTAA
59287905 TTTAATATT
1 TTTAATATT
59287914 ACCGTGATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
14 1 0.03
15 5 0.16
16 10 0.31
17 16 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTAATATTTAATTTAA
Found at i:59296455 original size:27 final size:27
Alignment explanation
Indices: 59296425--59296484 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
59296415 TTAAATTAAT
* *
59296425 ATAAATATAATAATTAGCTAAG-AAAAA
1 ATAAA-ATAATAATTAACAAAGTAAAAA
*
59296452 ATAAAATAATTATTAACAAAGTAAAAA
1 ATAAAATAATAATTAACAAAGTAAAAA
59296479 ATAAAA
1 ATAAAA
59296485 AAATTAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (27 bp):
ATAAAATAATAATTAACAAAGTAAAAA
Found at i:59296500 original size:24 final size:26
Alignment explanation
Indices: 59296425--59296508 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
59296415 TTAAATTAAT
* *
59296425 ATAAATATAATAATTAGCTAAG-AAAAA
1 ATAAA-ATAAT-ATTAACAAAGTAAAAA
59296452 ATAAAATAATTATTAACAAAGTAAAAA
1 ATAAAATAA-TATTAACAAAGTAAAAA
59296479 ATAAAA-AA-ATTAACTAAA-T--AAA
1 ATAAAATAATATTAAC-AAAGTAAAAA
59296501 ATAAAATA
1 ATAAAATA
59296509 TCTAATTTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
22 9 0.18
23 1 0.02
24 7 0.14
25 3 0.06
26 14 0.27
27 17 0.33
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (26 bp):
ATAAAATAATATTAACAAAGTAAAAA
Found at i:59296569 original size:69 final size:68
Alignment explanation
Indices: 59296481--59296614 Score: 214
Period size: 69 Copynumber: 2.0 Consensus size: 68
59296471 AGTAAAAAAT
* * *
59296481 AAAAAAATTAACTAAATAAAATAAAATATCTAATTTAGTAATTAAGTCTGCCATACAAAATAAGT
1 AAAAAAATTAACTAAATAAAATAAAATAACTAATTTAGTAATTAAGTCTGCAATACAAAAGAAGT
59296546 AAA
66 AAA
* *
59296549 AAAAACAATTAACTAAATAAAATAAAATAACTAATTTAGTAATTAAGTTTGCAATGCAAAAGAAG
1 AAAAA-AATTAACTAAATAAAATAAAATAACTAATTTAGTAATTAAGTCTGCAATACAAAAGAAG
59296614 T
65 T
59296615 CGTAGTGATG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
68 5 0.08
69 55 0.92
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (68 bp):
AAAAAAATTAACTAAATAAAATAAAATAACTAATTTAGTAATTAAGTCTGCAATACAAAAGAAGT
AAA
Found at i:59297553 original size:21 final size:21
Alignment explanation
Indices: 59297529--59297568 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59297519 AATATCTATT
*
59297529 ACTTAAAATAACTAAAAATTA
1 ACTTAAAACAACTAAAAATTA
*
59297550 ACTTAAAACAAGTAAAAAT
1 ACTTAAAACAACTAAAAAT
59297569 AATATAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (21 bp):
ACTTAAAACAACTAAAAATTA
Found at i:59315710 original size:41 final size:40
Alignment explanation
Indices: 59315669--59315809 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
59315659 TAGCGGCGTT
* * * *
59315669 TATGAGAAAAACGCTGCAAAAGGTCTAGCATTAACGACGTT
1 TATGAGAAAAACGCCGCAAAAGGTCAAGCATTAGCGACG-C
* * *
59315710 TATGAGAAAAATGCCGCAAAAGGTCAAGCATTAGTGGCGC
1 TATGAGAAAAACGCCGCAAAAGGTCAAGCATTAGCGACGC
* *
59315750 TATGAGAAAAACACCACAAAAGGTCAAGCATTAGCGACGC
1 TATGAGAAAAACGCCGCAAAAGGTCAAGCATTAGCGACGC
*
59315790 TATGAGAAAAGCGCCGCAAA
1 TATGAGAAAAACGCCGCAAA
59315810 GTATCATTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 52 0.61
41 33 0.39
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.16
Consensus pattern (40 bp):
TATGAGAAAAACGCCGCAAAAGGTCAAGCATTAGCGACGC
Found at i:59315770 original size:40 final size:40
Alignment explanation
Indices: 59315616--59315809 Score: 172
Period size: 41 Copynumber: 4.8 Consensus size: 40
59315606 AAATATTATA
* ** * * *
59315616 CATTAGTGGCGCTAACAGAAAAACGCCATAATAGGTAAAG
1 CATTAGCGGCGCTATGAGAAAAACGCCACAAAAGGTCAAG
** * ** *
59315656 CGGTAGCGGCGTTTATGAGAAAAACGCTGCAAAAGGTCTAG
1 CATTAGCGGCG-CTATGAGAAAAACGCCACAAAAGGTCAAG
* * * * *
59315697 CATTAACGACGTTTATGAGAAAAATGCCGCAAAAGGTCAAG
1 CATTAGCGGCG-CTATGAGAAAAACGCCACAAAAGGTCAAG
* *
59315738 CATTAGTGGCGCTATGAGAAAAACACCACAAAAGGTCAAG
1 CATTAGCGGCGCTATGAGAAAAACGCCACAAAAGGTCAAG
* * *
59315778 CATTAGCGACGCTATGAGAAAAGCGCCGCAAA
1 CATTAGCGGCGCTATGAGAAAAACGCCACAAA
59315810 GTATCATTTT
Statistics
Matches: 122, Mismatches: 31, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
40 60 0.49
41 62 0.51
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (40 bp):
CATTAGCGGCGCTATGAGAAAAACGCCACAAAAGGTCAAG
Found at i:59316229 original size:25 final size:25
Alignment explanation
Indices: 59316199--59316246 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
59316189 TATTAGCTCA
59316199 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
59316224 ATTTTTATTATTTCATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
59316247 AATGTTGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:59319910 original size:72 final size:72
Alignment explanation
Indices: 59319824--59320042 Score: 219
Period size: 72 Copynumber: 3.1 Consensus size: 72
59319814 ATTAATTATC
**
59319824 AAGTAAAACTGTTTATTTAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTT
1 AAGTAAAACTGTTTATTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTT
59319889 TGATATT
66 TGATATT
* * * * * ** *
59319896 AAGTGAAACTGTTTATTTAGTTAT-ACA-TTTTCAGAAGCTTAATTTAGTTTGATTTATTGAA-A
1 AAGTAAAACTGTTTATTTAATTATGA-ATTTTTAAAAAGGTTAATTTAGTTCAATTTATT-AAGT
*
59319958 TTTGATATC
64 TTTGATATT
* * * * * * * *
59319967 AAGTAAAAATGTTTGTTCAATTATGAATTTTTAAAAATGTTAATTTGGATCAACTTATTGAGTTT
1 AAGTAAAACTGTTTATTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTT
*
59320032 TAATATT
66 TGATATT
59320039 AAGT
1 AAGT
59320043 GGAACCATTT
Statistics
Matches: 113, Mismatches: 29, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
71 55 0.49
72 58 0.51
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (72 bp):
AAGTAAAACTGTTTATTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTT
TGATATT
Found at i:59319997 original size:71 final size:71
Alignment explanation
Indices: 59319820--59320012 Score: 194
Period size: 71 Copynumber: 2.7 Consensus size: 71
59319810 TTCGATTAAT
** *
59319820 TATCAAGTAAAACTGTTTATTTAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAA
1 TATCAAGTAAAACTGTTTATTTAATTATG-AATTTTAAAAAGCTTAATTTAGTTCAATTTATTAA
*
59319885 GTTTTGA
65 GATTTGA
* * * * * **
59319892 TATTAAGTGAAACTGTTTATTTAGTTAT-ACATTTTCAGAAGCTTAATTTAGTTTGATTTATTGA
1 TATCAAGTAAAACTGTTTATTTAATTATGA-ATTTTAAAAAGCTTAATTTAGTTCAATTTATT-A
59319956 A-ATTTGA
64 AGATTTGA
* * *
59319963 TATCAAGTAAAAATGTTTGTTCAATTATGAATTTTTAAAAATG-TTAATTT
1 TATCAAGTAAAACTGTTTATTTAATTATGAA-TTTTAAAAA-GCTTAATTT
59320013 GGATCAACTT
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
71 54 0.56
72 42 0.43
73 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (71 bp):
TATCAAGTAAAACTGTTTATTTAATTATGAATTTTAAAAAGCTTAATTTAGTTCAATTTATTAAG
ATTTGA
Found at i:59321113 original size:38 final size:38
Alignment explanation
Indices: 59321023--59321108 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 38
59321013 AACTTTGGAT
*
59321023 CATAATTTACATAA--TACATAAATATATATATCATAC
1 CATAACTTACATAACTTACATAAATATATATATCATAC
*
59321059 CATAACTTACATAACTTACAT-AA-ATATATATCATAT
1 CATAACTTACATAACTTACATAAATATATATATCATAC
*
59321095 CATAACTTATATAA
1 CATAACTTACATAA
59321109 AACTTTGGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
36 38 0.84
37 2 0.04
38 5 0.11
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (38 bp):
CATAACTTACATAACTTACATAAATATATATATCATAC
Found at i:59327275 original size:43 final size:43
Alignment explanation
Indices: 59327209--59327463 Score: 280
Period size: 43 Copynumber: 6.0 Consensus size: 43
59327199 CATTTAACGA
* *
59327209 CGTTTGTGGG-GAAGCGCCGCTAAAGGTCAT-ATCTTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC-TTTAGCGG
* * **
59327251 CATTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGTAG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* * * *
59327294 CGTTTATGGGTAAAGCACCGCTAAAGGTCATGTTCTTTAGAGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* *** * *
59327337 CGTTTGTGGGAAAAGCACCAAAAAAGGTCATATTCTATAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* *
59327380 CGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* * * * *
59327423 CATTTATGGGAAAAGTGCCGCTAAAGTTCATGTTCTATAGC
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
59327464 AGTGTTTTTT
Statistics
Matches: 175, Mismatches: 36, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
42 9 0.05
43 164 0.94
44 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
Found at i:59327321 original size:86 final size:86
Alignment explanation
Indices: 59327209--59327470 Score: 321
Period size: 86 Copynumber: 3.1 Consensus size: 86
59327199 CATTTAACGA
* * *
59327209 CGTTTGTGGGG-AAGCGCCGCTAAAGGTCAT-ATCTTTTAGCGGCATTTGTGGGAAAAGCGCCAC
1 CGTTTATGGGGAAAGCGCCGCTAAAGGTCATGTTC-TTTAGAGGCATTTGTGGGAAAAGCGCCAC
* *
59327272 TAAAGGTCATGTTCTTTAGTAG
65 TAAAGGTCATGTTCTATAGCAG
* * * * **
59327294 CGTTTATGGGTAAAGCACCGCTAAAGGTCATGTTCTTTAGAGGCGTTTGTGGGAAAAGCACCAAA
1 CGTTTATGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGGCATTTGTGGGAAAAGCGCCACT
* *
59327359 AAAGGTCATATTCTATAGCGG
66 AAAGGTCATGTTCTATAGCAG
* * * * *
59327380 CGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCATTTATGGGAAAAGTGCCGCT
1 CGTTTATGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGGCATTTGTGGGAAAAGCGCCACT
*
59327445 AAAGTTCATGTTCTATAGCAG
66 AAAGGTCATGTTCTATAGCAG
*
59327466 TGTTT
1 CGTTT
59327471 TTTTGTGAGA
Statistics
Matches: 147, Mismatches: 28, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
85 9 0.06
86 136 0.93
87 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (86 bp):
CGTTTATGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGGCATTTGTGGGAAAAGCGCCACT
AAAGGTCATGTTCTATAGCAG
Found at i:59327517 original size:45 final size:43
Alignment explanation
Indices: 59327363--59327518 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 43
59327353 ACCAAAAAAG
* * * *
59327363 GTCATATTCTATAGCGGC-GTTTGTGGGGAAAGCGCCGCTAAA
1 GTCATATTCTATAGCGGCATTTTTTGGAGAAAGTGCCGCTAAA
* * * * *
59327405 GGTCATGTTCTTTAGTGGCATTTATGGGA-AAAGTGCCGCTAAA
1 -GTCATATTCTATAGCGGCATTTTTTGGAGAAAGTGCCGCTAAA
* *
59327448 GTTCATGTTCTATAGCAGTG-TTTTTTTGTGAGAAA-TGCCGCTAAA
1 G-TCATATTCTATAGC-G-GCATTTTTTG-GAGAAAGTGCCGCTAAA
59327493 TGTCATATTCTATAGCGGCATTTTTT
1 -GTCATATTCTATAGCGGCATTTTTT
59327519 CACATAAATG
Statistics
Matches: 89, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
42 1 0.01
43 41 0.46
44 17 0.19
45 26 0.29
46 4 0.04
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
GTCATATTCTATAGCGGCATTTTTTGGAGAAAGTGCCGCTAAA
Found at i:59330610 original size:34 final size:34
Alignment explanation
Indices: 59330565--59330668 Score: 129
Period size: 34 Copynumber: 3.1 Consensus size: 34
59330555 ACATATATAA
* * *
59330565 ATATCATATCAACATGTCATATTAT-CATAAACAT
1 ATATCAGATCAAAATGTCATATT-TCCAAAAACAT
*
59330599 ATATTAGATCAAAATGTCATATTTCCAAAAACAT
1 ATATCAGATCAAAATGTCATATTTCCAAAAACAT
* * *
59330633 ATATCATATCAAAATGTCATATTTCCAGAAGCAT
1 ATATCAGATCAAAATGTCATATTTCCAAAAACAT
59330667 AT
1 AT
59330669 GTCAAATTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 1 0.02
34 60 0.98
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (34 bp):
ATATCAGATCAAAATGTCATATTTCCAAAAACAT
Found at i:59330687 original size:34 final size:34
Alignment explanation
Indices: 59330565--59330689 Score: 108
Period size: 34 Copynumber: 3.7 Consensus size: 34
59330555 ACATATATAA
* * * *
59330565 ATATCATATCAACATGTCATATTAT-CATAAACAT
1 ATATCAAATCAAAATATCATATT-TCCAAAAACAT
* * *
59330599 ATATTAGATCAAAATGTCATATTTCCAAAAACAT
1 ATATCAAATCAAAATATCATATTTCCAAAAACAT
* * * *
59330633 ATATCATATCAAAATGTCATATTTCCAGAAGCAT
1 ATATCAAATCAAAATATCATATTTCCAAAAACAT
* * *
59330667 ATGTCAAATTAGAATATCATATT
1 ATATCAAATCAAAATATCATATT
59330690 AGATCAGAAC
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
33 1 0.01
34 76 0.99
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.34
Consensus pattern (34 bp):
ATATCAAATCAAAATATCATATTTCCAAAAACAT
Found at i:59331589 original size:13 final size:13
Alignment explanation
Indices: 59331571--59331599 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
59331561 AATGAATTAA
59331571 TAAAATTTTAAAT
1 TAAAATTTTAAAT
59331584 TAAAATTTTAAAT
1 TAAAATTTTAAAT
59331597 TAA
1 TAA
59331600 TGAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAAATTTTAAAT
Found at i:59336689 original size:34 final size:35
Alignment explanation
Indices: 59336651--59336717 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
59336641 CAGTAAAATA
59336651 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
59336685 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
59336718 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:59338421 original size:10 final size:10
Alignment explanation
Indices: 59338408--59338456 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
59338398 TAAATTTTTT
59338408 AAAATTATAA
1 AAAATTATAA
59338418 AAAATTATAA
1 AAAATTATAA
* *
59338428 AAACTATTTTTA
1 AAA--ATTATAA
59338440 AAAATTA-AA
1 AAAATTATAA
59338449 AAAATTAT
1 AAAATTAT
59338457 TATTTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 8 0.25
10 16 0.50
12 8 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTATAA
Found at i:59340808 original size:15 final size:15
Alignment explanation
Indices: 59340748--59340808 Score: 68
Period size: 15 Copynumber: 4.1 Consensus size: 15
59340738 TGTTTGATCA
59340748 ATTGAAAAATTAAGT
1 ATTGAAAAATTAAGT
* *
59340763 ACTAAAAAATTAAGT
1 ATTGAAAAATTAAGT
* * *
59340778 GTTGAAAGATTGAGT
1 ATTGAAAAATTAAGT
*
59340793 ATTGAAATATTAAGT
1 ATTGAAAAATTAAGT
59340808 A
1 A
59340809 CAAAATTTAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (15 bp):
ATTGAAAAATTAAGT
Found at i:59342176 original size:28 final size:29
Alignment explanation
Indices: 59342114--59342176 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
59342104 TAGCAAATGT
*
59342114 CTATTTTCATAATTAATATGTTTTTCATA
1 CTATTTTCATAATGAATATGTTTTTCATA
*
59342143 CCATTTTCATAATGAATTAT-TTTTT-ATA
1 CTATTTTCATAATGAA-TATGTTTTTCATA
*
59342171 TTATTT
1 CTATTT
59342177 GGGTAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 7 0.24
29 19 0.66
30 3 0.10
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (29 bp):
CTATTTTCATAATGAATATGTTTTTCATA
Found at i:59342404 original size:15 final size:15
Alignment explanation
Indices: 59342386--59342436 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
59342376 TCAACAAAAA
59342386 AAGTTGTTAAATATT
1 AAGTTGTTAAATATT
*
59342401 AAGTTGTTAGATATT
1 AAGTTGTTAAATATT
* **
59342416 AATTTGGAAAATATT
1 AAGTTGTTAAATATT
59342431 AAGTTG
1 AAGTTG
59342437 ATTTTATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (15 bp):
AAGTTGTTAAATATT
Found at i:59342653 original size:40 final size:40
Alignment explanation
Indices: 59342609--59342692 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
59342599 CATTATCAAA
59342609 CAAAATAATTATATTCAATATTTAATTTTTATTAACATGT
1 CAAAATAATTATATTCAATATTTAATTTTTATTAACATGT
* *
59342649 CAAAATAATTATATTCAGTGTTTAATTTTTATTAACATGT
1 CAAAATAATTATATTCAATATTTAATTTTTATTAACATGT
59342689 CAAA
1 CAAA
59342693 CAATTTTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (40 bp):
CAAAATAATTATATTCAATATTTAATTTTTATTAACATGT
Found at i:59344522 original size:3 final size:3
Alignment explanation
Indices: 59344514--59344540 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
59344504 TAAGGTTCAG
59344514 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
59344541 TTGAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:59350121 original size:6 final size:6
Alignment explanation
Indices: 59350110--59350144 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
59350100 ATCCCAGAAT
59350110 CCATAG CCATAG CCATAG CCATAG CCATAG CCATA
1 CCATAG CCATAG CCATAG CCATAG CCATAG CCATA
59350145 ATAGTGTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.17
Consensus pattern (6 bp):
CCATAG
Found at i:59351960 original size:31 final size:31
Alignment explanation
Indices: 59351902--59351963 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
59351892 AATTATCAAC
* *
59351902 TAGTAACTTGAATAATAACTTTTAAATAGTT
1 TAGTAACTTAAATAATAAATTTTAAATAGTT
*
59351933 TAGTGACTTAAATAA-AAATTTTCAAATAGTT
1 TAGTAACTTAAATAATAAATTTT-AAATAGTT
59351964 CAATAATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (31 bp):
TAGTAACTTAAATAATAAATTTTAAATAGTT
Found at i:59352865 original size:43 final size:43
Alignment explanation
Indices: 59352725--59352867 Score: 182
Period size: 43 Copynumber: 3.3 Consensus size: 43
59352715 TTATGTGAAA
* *
59352725 AAACGCCGCTATAA-AACATGACCTTTAGTGGCGC-TTTCCAAAC
1 AAACGCCGCTA-AAGAACATGACCTTTAGTGGCGCTTTTCC-CAT
* * * *
59352768 AAACGCCACTATAGAACATGACCTTTAGTAGCGCTTTTTCCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCAT
* *
59352811 AAACGCCGCTAAAGAATATGACCTTTAGCGGCGCTTTTCCCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCAT
59352854 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
59352868 GTCATGTTCT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 81 0.94
44 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCAT
Found at i:59353426 original size:19 final size:19
Alignment explanation
Indices: 59353352--59353423 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
59353342 AATCTTTAAG
59353352 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59353371 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
59353390 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
59353411 GATATGCAATCTT
1 GATATGCAATCTT
59353424 GGAAGATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:59362293 original size:15 final size:16
Alignment explanation
Indices: 59362273--59362302 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59362263 ACCTTAATTT
59362273 TTTAAAAA-AAAAAAC
1 TTTAAAAATAAAAAAC
59362288 TTTAAAAATAAAAAA
1 TTTAAAAATAAAAAA
59362303 TAAATCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
TTTAAAAATAAAAAAC
Found at i:59364963 original size:2 final size:2
Alignment explanation
Indices: 59364958--59364992 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
59364948 ATATATTTGA
* *
59364958 GT GT GT GT GT GT GT GT GT GT GT AT GT AT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
59364993 ATCTCATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.06, C:0.00, G:0.46, T:0.49
Consensus pattern (2 bp):
GT
Found at i:59368427 original size:85 final size:85
Alignment explanation
Indices: 59368275--59368438 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 85
59368265 GACTCTCCAC
* * *
59368275 ATACTTGTGTTGTTGCAGGTAAGTCACAGAATTATCTGAAATTGGATCTTGAACTTATCTTTGAC
1 ATACTTGTGTTATTGCAGGTAAGTCACAGAATCATCCGAAATTGGATCTTGAACTTATCTTTGAC
59368340 ATTGTATTACCTATGGTAAA
66 ATTGTATTACCTATGGTAAA
* * * * * *
59368360 ATACTTGTGTTATTGTAGGTATGTCACA-AGATCATCCGAAATTGGATTTTGATCTTATTTTTTA
1 ATACTTGTGTTATTGCAGGTAAGTCACAGA-ATCATCCGAAATTGGATCTTGAACTTATCTTTGA
* *
59368424 CATTGTCTTATCTAT
65 CATTGTATTACCTAT
59368439 AGTGAAAGTG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
84 1 0.01
85 66 0.99
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (85 bp):
ATACTTGTGTTATTGCAGGTAAGTCACAGAATCATCCGAAATTGGATCTTGAACTTATCTTTGAC
ATTGTATTACCTATGGTAAA
Found at i:59375113 original size:3 final size:3
Alignment explanation
Indices: 59375107--59375142 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
59375097 GTTCAGATTG
59375107 TAT TAT TAT TAT TAT TAT TAT TAT T-T TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
59375143 GGGTTTGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:59380409 original size:149 final size:151
Alignment explanation
Indices: 59380025--59380445 Score: 591
Period size: 149 Copynumber: 2.9 Consensus size: 151
59380015 AACATGTTTA
* *
59380025 TATTTCAGCCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTAAAAAATATACTATTTTC-
1 TATTTCAGCCCTTTGTTCGTA-TTTTTTCCCAGATTTTATTACTTTAAAAAATATACTATTTTCT
* * *
59380089 -----TA--ATTTT--ATTATTTTAGTAAATTATGCTTGAAATGTATTAATTTA--CTGTTTTTT
65 AATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTTTTTT
59380143 AAATAAATTTTAAAAAAAACCCT
130 AAATAAA-TTTAAAAAAAACCCT
* * *
59380166 TATTTCATCCCTTTGTTCGTATTTTTTCCCCGAATTTTATTACTTTTAAAAAATATACTATTTTA
1 TATTTCAGCCCTTTGTTCGTATTTTTTCCCAG-ATTTTATTAC-TTTAAAAAATATACTATTTTC
*
59380231 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
64 TAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTTTTT
*
59380296 TAAATAAA-TT-AAAAAAATCCT
129 TAAATAAATTTAAAAAAAACCCT
** *
59380317 TATTTTGGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTAAAAAATATAATATTTTCTA
1 TATTTCAGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTAAAAAATATACTATTTTCTA
59380382 ATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTTTTTT
66 ATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTTTTTT
59380446 TATTGAAAGT
Statistics
Matches: 250, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
140 9 0.04
141 30 0.12
142 20 0.08
148 2 0.01
149 84 0.34
150 15 0.06
151 38 0.15
152 37 0.15
154 15 0.06
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (151 bp):
TATTTCAGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTAAAAAATATACTATTTTCTA
ATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTTTTTTA
AATAAATTTAAAAAAAACCCT
Found at i:59380622 original size:152 final size:152
Alignment explanation
Indices: 59380451--59381532 Score: 1453
Period size: 152 Copynumber: 7.2 Consensus size: 152
59380441 TTTTTTATTG
*
59380451 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAATTTAT
1 AAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAATTTAT
59380516 TTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
66 TTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
*
59380581 TTAGAAAATATTATATTTTTTA
131 TTAGAAAATAGTATATTTTTTA
*
59380603 AAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAAGGTTTTTTTAAATTTAT
1 AAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAATTTAT
* *
59380668 TTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
66 TTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* *
59380733 TTAGAAAATATTATATTTTTATTG
131 TTAGAAAATAGTATA-TTTT-TTA
* *
59380757 AAAGTAATAAAATCTAGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTTAAAAATT
1 AAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAAGA-TTTTTTT--AAATT
* * *
59380822 TATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATTAGA
63 TATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
59380887 AAATTAGAAAATATTATATTTTTTA
128 AAATTAGAAAATAGTATATTTTTTA
* * * * *
59380912 AAAGTAATAAAATCCGAGAAAAAAATACGAACAAAGGGCCGAAATAATGGTTTTTTTTAATTTAT
1 AAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAATTTAT
* *
59380977 TT-AAAAA-ACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
66 TTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* *
59381040 TTAGAAAATAATATATTTTTATTG
131 TTAGAAAATAGTATA-TTTT-TTA
* *
59381064 AAAGTAATAAAATCTGGG-AAAAAATACGAACAAAGGACCGAAATAAGGATTTTTTTAAATTTAT
1 AAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAATTTAT
* *
59381128 TTAAAAAACACACTAAATGAATGCATTT----CA-AATGTATTAAAATAATG--------TAAAA
66 TTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* *
59381180 TTAGAAAATAGCAT-TTTTTTT
131 TTAGAAAATAGTATATTTTTTA
** * *
59381201 AAAGTAATAAAAT-TCAGAGAAAAAATACGAACAAAGGGCCAAAAT-AAG-GTTTTTT-AATTTA
1 AAAGTAATAAAATCTGGGA-AAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAATTTA
* * * * *
59381262 TTTAAAAAACACAGTAAATTAATACATTTCAAGCATAATATACTAAAATAATGTAAAATAAAAAA
65 TTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* *
59381327 ATTATAAAATAGTATATTTTTTTT
130 ATTAGAAAATAGTATA-TTTTTTA
* * **
59381351 AAAGTAATAAAAT-TCGGGAAAAAAATACGAACGAATGGCCGAAAT-AAGGGTTTTTT-AATTTA
1 AAAGTAATAAAATCT-GGGAAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAATTTA
** *
59381413 AATAAAAAACACACTAAATGAATACATTTCAAACATAATCTACTAAAATAATGTAAAATAATAAA
65 TTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
59381478 ATTAGAAAATAGTAT-TTTTTT-
130 ATTAGAAAATAGTATATTTTTTA
**
59381499 AAAGTAATAAAATC-AAGAAAAAAATACGAACAAA
1 AAAGTAATAAAATCTGGGAAAAAAATACGAACAAA
59381533 AAGCTGAAAT
Statistics
Matches: 831, Mismatches: 70, Indels: 63
0.86 0.07 0.07
Matches are distributed among these distances:
135 32 0.04
136 8 0.01
137 17 0.02
138 28 0.03
139 2 0.00
140 32 0.04
147 17 0.02
148 45 0.05
149 8 0.01
150 112 0.13
151 140 0.17
152 173 0.21
153 20 0.02
154 56 0.07
155 54 0.06
156 4 0.00
157 83 0.10
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (152 bp):
AAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAATTTAT
TTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
TTAGAAAATAGTATATTTTTTA
Found at i:59381457 original size:151 final size:147
Alignment explanation
Indices: 59381176--59381532 Score: 529
Period size: 151 Copynumber: 2.4 Consensus size: 147
59381166 AAAATAATGT
*
59381176 AAAATTAGAAAATAGCATTTTTTTTAAAGTAATAAAATTCAGAGAAAAAATACGAACAAAGGGCC
1 AAAATTAGAAAATAGTATTTTTTTTAAAGTAATAAAATTCAGA-AAAAAATACGAACAAAGGGCC
** * * *
59381241 AAAATAAGGTTTTTTAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAGCATAATATACT
65 AAAATAAGGTTTTTTAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATATACT
59381306 AAAATAATGTAAAATAAA
130 AAAATAATGTAAAATAAA
* * * *
59381324 AAAATTATAAAATAGTATATTTTTTTTAAAGTAATAAAATTCGGGAAAAAAATACGAACGAATGG
1 AAAATTAGAAAATAG--TATTTTTTTTAAAGTAATAAAATTC-AGAAAAAAATACGAACAAAGGG
* *
59381389 CCGAAATAAGGGTTTTTTAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATCT
63 CCAAAATAA-GGTTTTTTAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATAT
*
59381454 ACTAAAATAATGTAAAATAAT
127 ACTAAAATAATGTAAAATAAA
59381475 AAAATTAGAAAATAGTA-TTTTTTTAAAGTAATAAAA-TCAAGAAAAAAATACGAACAAA
1 AAAATTAGAAAATAGTATTTTTTTTAAAGTAATAAAATTC-AGAAAAAAATACGAACAAA
59381533 AAGCTGAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
147 19 0.10
148 33 0.18
149 2 0.01
150 49 0.26
151 85 0.45
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (147 bp):
AAAATTAGAAAATAGTATTTTTTTTAAAGTAATAAAATTCAGAAAAAAATACGAACAAAGGGCCA
AAATAAGGTTTTTTAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATATACTA
AAATAATGTAAAATAAA
Found at i:59382090 original size:19 final size:19
Alignment explanation
Indices: 59382068--59382121 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
59382058 ATTACAAAAT
*
59382068 AATTCAAAATAATTT-TTAA
1 AATTCAAAAT-ATTTATAAA
*
59382087 AATTAAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
*
59382106 AATTCTAAA-ATTTATA
1 AATTCAAAATATTTATA
59382122 TATATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:59382100 original size:18 final size:19
Alignment explanation
Indices: 59382068--59382106 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
59382058 ATTACAAAAT
* *
59382068 AATTCAAAATAATTTTTAA
1 AATTAAAAATAATTTATAA
59382087 AATTAAAAAT-ATTTATAA
1 AATTAAAAATAATTTATAA
59382105 AA
1 AA
59382107 ATTCTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAAAATAATTTATAA
Found at i:59382109 original size:28 final size:28
Alignment explanation
Indices: 59382055--59382137 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
59382045 TCTCTCAACA
* *
59382055 AAAATTACAAAATAATTCA-AAATAATTTTT
1 AAAATTA-AAAAT-ATTTATAAA-AATTTCT
59382085 AAAATTAAAAATATTTATAAAAA-TTCT
1 AAAATTAAAAATATTTATAAAAATTTCT
* * *
59382112 AAAATTTATATATATTTTTAAAAATT
1 AAAA-TTAAAAATATTTATAAAAATT
59382138 ATAAAAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 7 0.16
28 22 0.49
29 9 0.20
30 7 0.16
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAATTAAAAATATTTATAAAAATTTCT
Found at i:59390522 original size:32 final size:32
Alignment explanation
Indices: 59390448--59390522 Score: 75
Period size: 32 Copynumber: 2.3 Consensus size: 32
59390438 TTTGTTACAT
59390448 GCTCGAGCTTTATCAAGCTCAAATTTTCTCAG
1 GCTCGAGCTTTATCAAGCTCAAATTTTCTCAG
* * *
59390480 GATC-AGGCTTT-TCCTAGCTCGAATTTTCTC-G
1 GCTCGA-GCTTTAT-CAAGCTCAAATTTTCTCAG
59390511 AGCTCGAGCTTT
1 -GCTCGAGCTTT
59390523 CTTGAACTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
31 3 0.09
32 31 0.89
33 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (32 bp):
GCTCGAGCTTTATCAAGCTCAAATTTTCTCAG
Found at i:59403258 original size:23 final size:23
Alignment explanation
Indices: 59403230--59403275 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
59403220 TATATGAAAT
* *
59403230 ATAAATTTTAAATATTTTTAAAA
1 ATAAATATTAAATATTTATAAAA
*
59403253 ATAAATATTAATTATTTATAAAA
1 ATAAATATTAAATATTTATAAAA
59403276 TTTAATTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAATATTAAATATTTATAAAA
Found at i:59411527 original size:22 final size:22
Alignment explanation
Indices: 59411502--59411547 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
59411492 ATAAATTTAT
59411502 TAAATATTAAAATAAAATAA-AA
1 TAAATATTAAAA-AAAATAATAA
*
59411524 TAAATATTTAAAAAAATAATAA
1 TAAATATTAAAAAAAATAATAA
59411546 TA
1 TA
59411548 TAGGTGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAATATTAAAAAAAATAATAA
Found at i:59414593 original size:88 final size:87
Alignment explanation
Indices: 59414471--59414639 Score: 259
Period size: 88 Copynumber: 1.9 Consensus size: 87
59414461 GTTCCCATTT
* * * *
59414471 TTATATAAGCAAAATTATAGCTACCCATTATTATTGGGGTCTAATTTGATAAATAGCAGTTCATG
1 TTATACAAACAAAATTATAGCTACCCATTATTATTGGGGGCTAATTTGACAAATAGCAGTT-ATG
59414536 T-TTTTTCAGAAAAAAAACTGTAC
65 TCTTTTTC-GAAAAAAAACTGTAC
* *
59414559 TTATACAAACAAAATTATAGCTACCCATTATTATTGGGGGCTAATTTGACAAATAGCCGTTATTT
1 TTATACAAACAAAATTATAGCTACCCATTATTATTGGGGGCTAATTTGACAAATAGCAGTTATGT
59414624 CTTTTTCGAAAAAAAA
66 CTTTTTCGAAAAAAAA
59414640 TCTTTGCTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
87 12 0.16
88 62 0.84
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.36
Consensus pattern (87 bp):
TTATACAAACAAAATTATAGCTACCCATTATTATTGGGGGCTAATTTGACAAATAGCAGTTATGT
CTTTTTCGAAAAAAAACTGTAC
Found at i:59416386 original size:18 final size:17
Alignment explanation
Indices: 59416363--59416399 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
59416353 AATATGTACG
*
59416363 TAATAATATTTTTACATA
1 TAATAATATTCTT-CATA
59416381 TAATAATATTCTTCATA
1 TAATAATATTCTTCATA
59416398 TA
1 TA
59416400 CATATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATAATATTCTTCATA
Found at i:59424477 original size:30 final size:30
Alignment explanation
Indices: 59424443--59424505 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
59424433 ACTTATTTTA
59424443 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
59424473 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
59424503 TTG
1 TTG
59424506 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:59433605 original size:11 final size:11
Alignment explanation
Indices: 59433589--59433629 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
59433579 AAATAACCTA
59433589 AATTATAATAT
1 AATTATAATAT
59433600 AATTATAATAT
1 AATTATAATAT
* *
59433611 -ATAAAAAT-T
1 AATTATAATAT
59433620 AATTATAATA
1 AATTATAATA
59433630 AGTTTGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 1 0.04
10 12 0.50
11 11 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATTATAATAT
Found at i:59442679 original size:16 final size:18
Alignment explanation
Indices: 59442660--59442694 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59442650 TTTCTTTATG
59442660 TAAA-ATATC-TGTACTA
1 TAAAGATATCTTGTACTA
59442676 TAAAGATATCTTGTACTA
1 TAAAGATATCTTGTACTA
59442694 T
1 T
59442695 TTTCTTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 8 0.47
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (18 bp):
TAAAGATATCTTGTACTA
Found at i:59442698 original size:45 final size:45
Alignment explanation
Indices: 59442630--59442723 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
59442620 TTTGCTTTCA
* *
59442630 ATAAAGATATCTTGTACTGTTTTCTTTATGTAAAATATCTGTACT
1 ATAAAGATATCTTGTACTATTTTCTTTATGAAAAATATCTGTACT
59442675 ATAAAGATATCTTGTACTATTTTCTTTATGAAAAATATCTGTACT
1 ATAAAGATATCTTGTACTATTTTCTTTATGAAAAATATCTGTACT
59442720 ATAA
1 ATAA
59442724 GTTTGTCTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.45
Consensus pattern (45 bp):
ATAAAGATATCTTGTACTATTTTCTTTATGAAAAATATCTGTACT
Found at i:59444830 original size:19 final size:19
Alignment explanation
Indices: 59444806--59444842 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
59444796 GATAAAATTA
59444806 TTTAAA-ATTTTCATAAAAT
1 TTTAAAGATTTTCA-AAAAT
59444825 TTTAAAGATTTTCAAAAA
1 TTTAAAGATTTTCAAAAA
59444843 AAAAAACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (19 bp):
TTTAAAGATTTTCAAAAAT
Found at i:59444843 original size:20 final size:19
Alignment explanation
Indices: 59444806--59444843 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
59444796 GATAAAATTA
*
59444806 TTTAAAATTTTCATAAAAT
1 TTTAAAATTTTCAAAAAAT
59444825 TTTAAAGATTTTCAAAAAA
1 TTTAAA-ATTTTCAAAAAA
59444844 AAAAACTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TTTAAAATTTTCAAAAAAT
Found at i:59446145 original size:33 final size:33
Alignment explanation
Indices: 59446108--59446171 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
59446098 ACCACACCAT
*
59446108 ACTCCACTGTCCATCTAAACCCACCCTTAGTCC
1 ACTCCACTGCCCATCTAAACCCACCCTTAGTCC
59446141 ACTCCACTGCCCATCTAAACCCACCCTTAGT
1 ACTCCACTGCCCATCTAAACCCACCCTTAGT
59446172 GAGAGTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.45, G:0.06, T:0.23
Consensus pattern (33 bp):
ACTCCACTGCCCATCTAAACCCACCCTTAGTCC
Found at i:59450115 original size:3 final size:3
Alignment explanation
Indices: 59450092--59450139 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
59450082 TTTAGCAATT
* *
59450092 TTA TT- TTA TTG TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
59450139 T
1 T
59450140 ATCATTGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:59450463 original size:17 final size:17
Alignment explanation
Indices: 59450424--59450463 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
59450414 ACATGCACAT
*
59450424 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
59450441 TATATATTTATATAATA
1 TTTATATGTATATAATA
59450458 TTTATA
1 TTTATA
59450464 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:59462029 original size:3 final size:3
Alignment explanation
Indices: 59462021--59462070 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
59462011 TTAGTCCTAC
* * * *
59462021 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAC TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59462069 TA
1 TA
59462071 CCTATTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:59474898 original size:46 final size:46
Alignment explanation
Indices: 59474831--59475086 Score: 167
Period size: 46 Copynumber: 5.8 Consensus size: 46
59474821 GTTTATTATA
*
59474831 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATTT
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTT
** * ** * *
59474877 CAGGTCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAG-CTAGT
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAT-TT
* * *** *
59474923 -A-ATCCTATCTCCCTGAGATTACAGTGGAGC-GAATTAA-AA-TA
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTT
* * ** * * *
59474964 AAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC---GCA--T
1 CAGG-TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAGAATTT
* * *
59475006 CAGGTCTTATCACCCTGAGGTTACAGTGGAGTAGACCGAAGAATTT
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTT
* *
59475052 CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGA
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGA
59475087 TTGAAGCCAG
Statistics
Matches: 157, Mismatches: 39, Indels: 28
0.70 0.17 0.12
Matches are distributed among these distances:
41 26 0.17
42 4 0.03
43 7 0.04
44 47 0.30
45 4 0.03
46 69 0.44
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (46 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTT
Found at i:59475120 original size:44 final size:44
Alignment explanation
Indices: 59475055--59475201 Score: 213
Period size: 44 Copynumber: 3.3 Consensus size: 44
59475045 AGAATTTCAG
* * ** *
59475055 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
*
59475099 ATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
*
59475143 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
* *
59475187 ATCCTATCTCTCTGA
1 ATCTTATCTCCCTGA
59475202 AGTTGCAATT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 93 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
Found at i:59475149 original size:175 final size:174
Alignment explanation
Indices: 59474831--59475175 Score: 462
Period size: 175 Copynumber: 2.0 Consensus size: 174
59474821 GTTTATTATA
* *
59474831 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGGTCTTATCTCCCTGAG
1 CAGGTCTTATCACCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
* * * *
59474896 ATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAA
66 ATTACAACGGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCGAATTAAA
* *
59474961 ATAAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCAT
131 AT-AAGAATCTTATCTCCCTGAGA-TTACAGCAGAGTAGATCGCAT
* * *
59475006 CAGGTCTTATCACCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCACCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
* ** * *
59475071 GTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCGGAGC-AGATTGA
66 ATTACAACGGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCGA-ATT-A
* *
59475135 AGAT-AGTAATCTTATCTCCCTGAGATTACAGCGGAGTAGAT
129 AAATAAG-AATCTTATCTCCCTGAGATTACAGCAGAGTAGAT
59475176 TGAAGATAGT
Statistics
Matches: 148, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
174 3 0.02
175 140 0.95
176 5 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (174 bp):
CAGGTCTTATCACCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAACGGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCGAATTAAA
ATAAGAATCTTATCTCCCTGAGATTACAGCAGAGTAGATCGCAT
Found at i:59475235 original size:88 final size:88
Alignment explanation
Indices: 59474881--59475263 Score: 237
Period size: 88 Copynumber: 4.4 Consensus size: 88
59474871 GAATTTCAGG
* * *
59474881 TCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAG-CTAGTAATCCTATCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGAC-AGAAATCCTATCTCTCTGAGATTAC
** **
59474945 AGTGGAGC-GAATT-AAAATAAAGGA
65 AACGGAGCAG-ATTGAAAAT-ACTGA
* * * * * * * * * *
59474969 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCAG--GTCTTATCACCCTGAGGTTAC
1 TCTTATCTCCCTGAGA-TTACAGCGGAGTAGATTGAAGACAGAAATCCTATCTCTCTGAGATTAC
** * ** * *
59475030 AGTGGAGTAGACCGAAGAATTTCAGA
65 AACGGAGCAGATTGAA-AA-TACTGA
* * * * *
59475056 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGACAGAAATCCTATCTCTCTGAGATTACA
* * * *
59475121 GCGGAGCAGATTGAAGATAGTAA
66 ACGGAGCAGATTGAAAATACTGA
* * *
59475144 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTAATCCTATCTCTCTGA-AGTTGC
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGACAGAAATCCTATCTCTCTGAGA-TTAC
** *
59475208 AATTGAGCGGATT-AAAATCACTGA
65 AACGGAGCAGATTGAAAAT-ACTGA
* * *
59475232 TCTTATCTCTCTGA-ATTTGCAGCAGAGTAGAT
1 TCTTATCTCCCTGAGA-TTACAGCGGAGTAGAT
59475264 CGCATCTAGT
Statistics
Matches: 228, Mismatches: 54, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
85 25 0.11
86 3 0.01
87 41 0.18
88 129 0.57
89 1 0.00
90 29 0.13
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (88 bp):
TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGACAGAAATCCTATCTCTCTGAGATTACA
ACGGAGCAGATTGAAAATACTGA
Found at i:59475657 original size:15 final size:15
Alignment explanation
Indices: 59475632--59475664 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
59475622 GGCCCAATTA
59475632 CAACACCCAATA-CC
1 CAACACCCAATAGCC
59475646 CAACAGCCCAATAGCC
1 CAACA-CCCAATAGCC
59475662 CAA
1 CAA
59475665 AATCATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.42, C:0.45, G:0.06, T:0.06
Consensus pattern (15 bp):
CAACACCCAATAGCC
Found at i:59477167 original size:17 final size:17
Alignment explanation
Indices: 59477128--59477167 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
59477118 ACATGCACAT
*
59477128 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
59477145 TATATATTTATATAATA
1 TTTATATGTATATAATA
59477162 TTTATA
1 TTTATA
59477168 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:59484671 original size:15 final size:15
Alignment explanation
Indices: 59484625--59484692 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
59484615 ACCGAATGGT
* *
59484625 ACAGAGCAAAGCAGA
1 ACAGAGCAGAGCAAA
* * *
59484640 ACTGAACAGAACAAA
1 ACAGAGCAGAGCAAA
*
59484655 ACAGAGTAGAGCAAA
1 ACAGAGCAGAGCAAA
* *
59484670 ACAGAACAGAGCAGA
1 ACAGAGCAGAGCAAA
59484685 ACAGAGCA
1 ACAGAGCA
59484693 TGTATGTTTA
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.54, C:0.19, G:0.24, T:0.03
Consensus pattern (15 bp):
ACAGAGCAGAGCAAA
Found at i:59485477 original size:42 final size:42
Alignment explanation
Indices: 59485430--59485512 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
59485420 GACCTAGACA
* *
59485430 CACGCCCATGTCCTTGCCCGTATGGCTCACACGGGCTAGGCG
1 CACGCCCATATCCTTGCCCGTATGGCTCACACGGCCTAGGCG
* *
59485472 CACGCCCATATCCTTGTCCGTGTGGCTCACACGGCCTAGGC
1 CACGCCCATATCCTTGCCCGTATGGCTCACACGGCCTAGGC
59485513 ACACACACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.14, C:0.39, G:0.27, T:0.20
Consensus pattern (42 bp):
CACGCCCATATCCTTGCCCGTATGGCTCACACGGCCTAGGCG
Found at i:59485670 original size:104 final size:106
Alignment explanation
Indices: 59485477--59485705 Score: 306
Period size: 104 Copynumber: 2.2 Consensus size: 106
59485467 AGGCGCACGC
* *
59485477 CCATATCCTTGTCCGTGTGGCTCACACGGCCTAGGCACACACACTCATGCCTCTAGCCATGTAGT
1 CCATGTCCTTGCCCGTGTGGCTCACACGGCCTAGGCACACACACTCATGCCTCTAGCCATGTAGT
*
59485542 CCTAAATCATAAACAGTGAGTTACATAGCCTGGACACA-AGT
66 CCTAAATCATAAACAGTGAGTTACACAGCCTGGACACACA-T
* * ** *
59485583 CCATGTCCTTGCCCGTGTGGCTCACACGGCCT-GAGCACACGC-C-CATGTCC-CTGGCTGTGTG
1 CCATGTCCTTGCCCGTGTGGCTCACACGGCCTAG-GCACACACACTCATG-CCTCTAGCCATGTA
*
59485644 GTCCTAAATCATAAACAGTGAGTTACACGGCCTGGACACACAT
64 GTCCTAAATCATAAACAGTGAGTTACACAGCCTGGACACACAT
*
59485687 CCATGTCCTTGCCTGTGTG
1 CCATGTCCTTGCCCGTGTG
59485706 AACCCTACAC
Statistics
Matches: 110, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
104 68 0.62
105 5 0.05
106 37 0.34
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (106 bp):
CCATGTCCTTGCCCGTGTGGCTCACACGGCCTAGGCACACACACTCATGCCTCTAGCCATGTAGT
CCTAAATCATAAACAGTGAGTTACACAGCCTGGACACACAT
Found at i:59487682 original size:45 final size:45
Alignment explanation
Indices: 59487610--59487711 Score: 107
Period size: 45 Copynumber: 2.3 Consensus size: 45
59487600 TAAAAGATGT
* *
59487610 TATGACATCATGATAAGGATAAGTAAGACAATAGCAGAAAGATAC
1 TATGACATCATGATAAGAATAAGTAAGACAATAGCAGAAAGACAC
* * * ** *
59487655 TATGACATCATGATATA-AATGATTAAGACCATAGTTGAAAGACGC
1 TATGACATCATGATA-AGAATAAGTAAGACAATAGCAGAAAGACAC
*
59487700 TATGGCATCATG
1 TATGACATCATG
59487712 GTAAATAGGA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 46 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.25
Consensus pattern (45 bp):
TATGACATCATGATAAGAATAAGTAAGACAATAGCAGAAAGACAC
Found at i:59487900 original size:27 final size:27
Alignment explanation
Indices: 59487833--59487917 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
59487823 ACATCATAGT
* *
59487833 TAGTTTGACAGGACATTAAAAATGGGA
1 TAGTTCGACAGGACATTAAAAATAGGA
* ** ** *
59487860 GAGACCGATGGGACATTAAAGATAGGA
1 TAGTTCGACAGGACATTAAAAATAGGA
* *
59487887 TAGTTCGACAGGACATTAAATACAGGA
1 TAGTTCGACAGGACATTAAAAATAGGA
59487914 TAGT
1 TAGT
59487918 CTGCCAGGAC
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (27 bp):
TAGTTCGACAGGACATTAAAAATAGGA
Found at i:59489485 original size:18 final size:18
Alignment explanation
Indices: 59489462--59489500 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
59489452 ATGATGGAAG
59489462 CAACGAATGAATGAGTAA
1 CAACGAATGAATGAGTAA
*
59489480 CAACGAATGAATGGGTAA
1 CAACGAATGAATGAGTAA
59489498 CAA
1 CAA
59489501 AGAACACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.13, G:0.23, T:0.15
Consensus pattern (18 bp):
CAACGAATGAATGAGTAA
Found at i:59492368 original size:38 final size:38
Alignment explanation
Indices: 59492310--59492383 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
59492300 GTTTAACCTT
*
59492310 ACAATCTCCCTTAAGATTTCTACCCAAAATCTTAAGATC
1 ACAATCTCCCTTAAGATTTCTACCC-AAACCTTAAGATC
*
59492349 ACAA-CTCCCTTAAGGTTTCTACCCAAACCTTAAGA
1 ACAATCTCCCTTAAGATTTCTACCCAAACCTTAAGA
59492384 CTCAACCCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 10 0.30
38 19 0.58
39 4 0.12
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (38 bp):
ACAATCTCCCTTAAGATTTCTACCCAAACCTTAAGATC
Found at i:59493013 original size:20 final size:19
Alignment explanation
Indices: 59492988--59493048 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
59492978 TTGACTTGTT
59492988 TTAAAACAGTTTTAACTTGA
1 TTAAAACA-TTTTAACTTGA
**
59493008 TTAAAA-ATGTTTAACTCAA
1 TTAAAACAT-TTTAACTTGA
* *
59493027 TTGAAACTTTTTTAACTTGA
1 TTAAAAC-ATTTTAACTTGA
59493047 TT
1 TT
59493049 TTATCATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 14 0.44
20 16 0.50
21 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (19 bp):
TTAAAACATTTTAACTTGA
Found at i:59493774 original size:123 final size:123
Alignment explanation
Indices: 59493442--59493817 Score: 608
Period size: 124 Copynumber: 3.0 Consensus size: 123
59493432 TTAGGGTTTT
* * *
59493442 TAGATCCTGGAAGAAATAATTTTGAGTTGACGTTTTTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGATCATGGAAGAAATAATTTT--TTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
59493507 AGGATACTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
64 AGGATACTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAG
* *
59493567 TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
1 TAGATCATGGAAGAAAT-AATTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCA
* * * *
59493632 GGATGCTATTTGAGAAGAATTTGTAAAATCGTGCCCTCGTGCACACGCTTTTGCTGCAG
65 GGATACTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAG
*
59493691 TCGATCATGGAAGAAATAATTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAG
1 TAGATCATGGAAGAAATAATTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAG
59493756 GATACTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAG
66 GATACTATTTGAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACACGCTTTTGCTACAG
59493815 TAG
1 TAG
59493818 CATGTTTGGG
Statistics
Matches: 230, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
123 69 0.30
124 140 0.61
125 15 0.07
126 6 0.03
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (123 bp):
TAGATCATGGAAGAAATAATTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAG
GATACTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAG
Found at i:59496973 original size:23 final size:22
Alignment explanation
Indices: 59496958--59497466 Score: 474
Period size: 23 Copynumber: 23.0 Consensus size: 22
59496948 TTAACTTAGT
* *
59496958 TTAGGGTTTTTAA-TTAACTTAGT
1 TTAGGGTTTTTAAGTTAA--TGGG
59496981 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
*
59497002 TTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAA-TGGG
**
59497025 TTAGGAATTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
59497046 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
*
59497067 TTTAGGGTTTTTAAGTTAA-GTGT
1 -TTAGGGTTTTTAAGTTAATG-GG
* *
59497090 TTAGGGTTTCTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAA-TGGG
59497113 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
*
59497134 TTAGAGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
* *
59497155 TTTACGGTTTTTAAGTTAA-GGT
1 -TTAGGGTTTTTAAGTTAATGGG
*
59497177 TTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAA-TGGG
59497200 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
* *
59497221 TTTAGGGTTTTTAATTTAATTAGG
1 -TTAGGGTTTTTAAGTTAA-TGGG
* *
59497245 TTAGGGTTTTTAAGTTAACGGT
1 TTAGGGTTTTTAAGTTAATGGG
*
59497267 TTAGGGTTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTT-AA-TGGG
* * *
59497290 TTAGGGTTTTTAATTTAATTAGA
1 TTAGGGTTTTTAAGTTAA-TGGG
* *
59497313 TTAGGGTTTTTAA-TTAGGTAGG
1 TTAGGGTTTTTAAGTTA-ATGGG
*
59497335 TTAAGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
* *
59497356 TTAGGATTTTTAAGTTAA-GAGT
1 TTAGGGTTTTTAAGTTAATG-GG
** * *
59497378 TTATAGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAA-TGGG
59497401 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
*
59497422 TTAGGGTTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTT-AA-TGGG
59497445 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGG
59497466 T
1 T
59497467 ATTAATGGTT
Statistics
Matches: 415, Mismatches: 46, Indels: 52
0.81 0.09 0.10
Matches are distributed among these distances:
20 2 0.00
21 125 0.30
22 120 0.29
23 157 0.38
24 11 0.03
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.46
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAATGGG
Found at i:59497143 original size:66 final size:65
Alignment explanation
Indices: 59496958--59497466 Score: 532
Period size: 66 Copynumber: 7.7 Consensus size: 65
59496948 TTAACTTAGT
*
59496958 TTAGGGTTTTTAA-TTAACTTAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
1 TTAGGGTTTTTAAGTTAA--TAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-G
59497022 GGG
63 GGG
** * *
59497025 TTAGGAATTTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGTG
1 TTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG
*
59497089 T
65 G
* ** *
59497090 TTAGGGTTTCTAAGTTAAGGGGGTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
*
59497155 T
65 G
*
59497156 TTACGGTTTTTAAGTT-A-AGGTTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTAAG
1 TTAGGGTTTTTAAGTTAATAGG-TTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAG
*
59497219 GGT
63 GGG
* *
59497222 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAACGGTTTAGGGTTTTTAA-TTAAAT
1 TTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAAGTT-AA-
**
59497286 TAGG
62 GGGG
* * * *
59497290 TTAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAA-TTAGGTAGGTTAAGGTTTTTAAGTTAA-
1 TTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAAG--GGTTAGGGTTTTTAAGTTAAG
59497353 GGG
63 GGG
* * * ** * *
59497356 TTAGGATTTTTAAGTTAAGAGTTTATAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-G
1 TTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAGG
59497420 GG
64 GG
59497422 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTT-AA-TAGGTTAGGGTTTTTAAGTTAAGGGT
59497467 ATTAATGGTT
Statistics
Matches: 379, Mismatches: 43, Indels: 42
0.82 0.09 0.09
Matches are distributed among these distances:
63 2 0.01
64 18 0.05
65 58 0.15
66 150 0.40
67 73 0.19
68 73 0.19
69 5 0.01
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.46
Consensus pattern (65 bp):
TTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGG
Found at i:59497225 original size:45 final size:44
Alignment explanation
Indices: 59496981--59497465 Score: 529
Period size: 44 Copynumber: 11.0 Consensus size: 44
59496971 TTAACTTAGT
59496981 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
** *
59497025 TTAGGAATTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGGT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
* *
59497068 TTAGGGTTTTTAAGTTAAGTGTTTAGGGTTTCTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGGG
* *
59497113 TTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAA-GGGT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
* *
59497156 TTACGGTTTTTAAGTTAAGGTTTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
* ***
59497200 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGGG
* ***
59497245 TTAGGGTTTTTAAGTTAACGGTTTAGGGTTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAAGTT-AAGGGGG
* * * *
59497290 TTAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAA-TT-AGGTAGG
1 TTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAGG-GGG
* * * *
59497335 TTAAGGTTTTTAAGTTAAGGGTTAGGATTTTTAAGTTAA-GAGT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
** * *
59497378 TTATAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAGGGGG
*
59497422 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAAGTTAAGGG
59497466 TATTAATGGT
Statistics
Matches: 382, Mismatches: 44, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
43 91 0.24
44 137 0.36
45 135 0.35
46 19 0.05
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.45
Consensus pattern (44 bp):
TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGG
Found at i:59497511 original size:9 final size:9
Alignment explanation
Indices: 59497493--59497539 Score: 87
Period size: 9 Copynumber: 5.3 Consensus size: 9
59497483 ATTCTCAAAT
59497493 AATA-TCAA
1 AATATTCAA
59497501 AATATTCAA
1 AATATTCAA
59497510 AATATTCAA
1 AATATTCAA
59497519 AATATTCAA
1 AATATTCAA
59497528 AATATTCAA
1 AATATTCAA
59497537 AAT
1 AAT
59497540 TTTCTATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 4 0.11
9 34 0.89
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
AATATTCAA
Found at i:59497569 original size:25 final size:25
Alignment explanation
Indices: 59497541--59497588 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
59497531 ATTCAAAATT
*
59497541 TTCTATTTTATTACATTAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
59497566 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
59497589 TATCAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:59498040 original size:18 final size:18
Alignment explanation
Indices: 59498017--59498056 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
59498007 GGCTCGAAAA
*
59498017 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
59498035 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
59498053 AGGA
1 AGGA
59498057 AACGCACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:59498931 original size:20 final size:20
Alignment explanation
Indices: 59498894--59498931 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59498884 TTTATTTTTA
*
59498894 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
59498914 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
59498932 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:59499930 original size:11 final size:11
Alignment explanation
Indices: 59499916--59499951 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
59499906 GAATTTTGGA
59499916 AGGAAATTGAG
1 AGGAAATTGAG
*
59499927 AGGAACTTGAG
1 AGGAAATTGAG
59499938 AGGAAATATGAG
1 AGGAAAT-TGAG
59499950 AG
1 AG
59499952 AGGATTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.44, C:0.03, G:0.36, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:59503126 original size:22 final size:24
Alignment explanation
Indices: 59503076--59503126 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
59503066 TTGCAATGCT
59503076 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
59503101 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
59503122 TTTAT
1 TTTAT
59503127 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:59509578 original size:26 final size:26
Alignment explanation
Indices: 59509529--59509578 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
59509519 CTTTATATTG
*
59509529 TTTTTTAAAAAATTGATAGTTAAACT
1 TTTTTTAAAAAATTGATAGCTAAACT
* *
59509555 TTTTTTAAAAATTTGGTAGCTAAA
1 TTTTTTAAAAAATTGATAGCTAAA
59509579 TTTGTCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (26 bp):
TTTTTTAAAAAATTGATAGCTAAACT
Found at i:59512941 original size:18 final size:18
Alignment explanation
Indices: 59512918--59512953 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
59512908 ACCAACATTC
59512918 GTTACACACCACAGTAAG
1 GTTACACACCACAGTAAG
59512936 GTTACACACCACAGTAAG
1 GTTACACACCACAGTAAG
59512954 AGTTCTCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.17
Consensus pattern (18 bp):
GTTACACACCACAGTAAG
Found at i:59515048 original size:56 final size:56
Alignment explanation
Indices: 59514962--59515074 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
59514952 CCATTTTTAT
* * *
59514962 TGTTAAAAACTAGTCCCTTATGTCAGCATGAGATACATGTGACACGTCAAGTGTAA
1 TGTTAAAAACTAATCCCTTATGTCAACATGAGATACATGTGACACGCCAAGTGTAA
*
59515018 TGTTAAAAACTAATCCCTTATGTCAACATGAGATACATGTGACACGCCATGTGTAA
1 TGTTAAAAACTAATCCCTTATGTCAACATGAGATACATGTGACACGCCAAGTGTAA
59515074 T
1 T
59515075 TGATTCGTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (56 bp):
TGTTAAAAACTAATCCCTTATGTCAACATGAGATACATGTGACACGCCAAGTGTAA
Found at i:59515154 original size:29 final size:29
Alignment explanation
Indices: 59515121--59515179 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
59515111 ATTGAATCGA
*
59515121 AAGAAATTTTTAATAAAAAAGACCAACTT
1 AAGAAATTTTTAACAAAAAAGACCAACTT
* *
59515150 AAGAAGTTTTTAACAAAAAAGACTAACTT
1 AAGAAATTTTTAACAAAAAAGACCAACTT
59515179 A
1 A
59515180 CTTTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.27
Consensus pattern (29 bp):
AAGAAATTTTTAACAAAAAAGACCAACTT
Found at i:59516911 original size:18 final size:18
Alignment explanation
Indices: 59516888--59516923 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
59516878 TCCAGAGTAA
59516888 GAGAAACTGACTCTAGGT
1 GAGAAACTGACTCTAGGT
* *
59516906 GAGAAATTGGCTCTAGGT
1 GAGAAACTGACTCTAGGT
59516924 TGATTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.25
Consensus pattern (18 bp):
GAGAAACTGACTCTAGGT
Found at i:59517336 original size:22 final size:23
Alignment explanation
Indices: 59517311--59517358 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
59517301 CCATAAGAAA
*
59517311 CAAAGAAACTCATAATAA-A-CTT
1 CAAAGAAA-TCAAAATAAGATCTT
59517333 CAAAGAAATCAAAATAAGATCTT
1 CAAAGAAATCAAAATAAGATCTT
59517356 CAA
1 CAA
59517359 TCTTGATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 9 0.39
23 6 0.26
ACGTcount: A:0.56, C:0.17, G:0.06, T:0.21
Consensus pattern (23 bp):
CAAAGAAATCAAAATAAGATCTT
Found at i:59520242 original size:5 final size:5
Alignment explanation
Indices: 59520232--59520274 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
59520222 TTAAAAATCT
59520232 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
59520275 TTAATTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Done.