Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008206.1 Hibiscus syriacus cultivar Beakdansim tig00110828_pilon, whole genome shotgun sequence
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: 1504526
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:358420 original size:149 final size:147
Alignment explanation
Indices: 358238--358591 Score: 588
Period size: 149 Copynumber: 2.4 Consensus size: 147
358228 AAAACGATTT
358238 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAATCTTTGAGTTTGTTCATTTTGAATAAAAAT
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAATCTTTGAGTTTGTTC-TTTTGAATAAAAAT
*
358303 CTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAAATCTTTGAGTC
65 CTTGGAGTTTGTTCCTTTTAAATAAATATCTTTGAGTTGTTTCTTTTG--AAAAATCTTTGAGTC
358368 TATTTATTTT-GAAACAAAG
128 TATTTATTTTGGAAACAAAG
*
358387 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAATCTTTGAGTTTGTTCCTTTGGAATAAAAAT
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAATCTTTGAGTTTGTT-CTTTTGAATAAAAAT
358452 CTTGGAGTTTGTTCCTTTTAAATAAATATCTTTGAGTTGTTTCTTTTGAAAAATCTTTGAGTCTA
65 CTTGGAGTTTGTTCCTTTTAAATAAATATCTTTGAGTTGTTTCTTTTGAAAAATCTTTGAGTCTA
358517 TTTATTTTGGAAACAAAG
130 TTTATTTTGGAAACAAAG
* * *
358535 TTTTGTCTCTCTTGAGACAATTT-T-GTGAAAAAAATCTTTGAGATTGTTTCTTTTGAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTG-AAAAAATCTTTGAGTTTG-TTCTTTTGAA
358592 AAATCTTTGA
Statistics
Matches: 195, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
146 2 0.01
147 50 0.26
148 33 0.17
149 109 0.56
150 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.46
Consensus pattern (147 bp):
TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAATCTTTGAGTTTGTTCTTTTGAATAAAAATC
TTGGAGTTTGTTCCTTTTAAATAAATATCTTTGAGTTGTTTCTTTTGAAAAATCTTTGAGTCTAT
TTATTTTGGAAACAAAG
Found at i:358614 original size:26 final size:26
Alignment explanation
Indices: 358564--358618 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
358554 ATTTTGTGAA
* *
358564 AAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAATCTTTGAGATTATTTATTTTG
358590 AAAAATCTTTGAG-TCTATTTATTTTG
1 AAAAATCTTTGAGAT-TATTTATTTTG
358616 AAA
1 AAA
358619 CAAAGTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (26 bp):
AAAAATCTTTGAGATTATTTATTTTG
Found at i:358638 original size:89 final size:87
Alignment explanation
Indices: 358479--358664 Score: 329
Period size: 89 Copynumber: 2.1 Consensus size: 87
358469 TTAAATAAAT
358479 ATCTTTGAGTTGTTTCTTTTGAAAAATCTTTGAGTCTATTTATTTTGGAAACAAAGTTTTGTCTC
1 ATCTTTGAGTTGTTTCTTTTGAAAAATCTTTGAGTCTATTTATTTTGGAAACAAAGTTTTGTCTC
*
358544 TCTTGAGACAATTTTGTGAAAAAA
66 TCTTGAGACAATTTCGTG--AAAA
358568 ATCTTTGAGATTGTTTCTTTTGAAAAATCTTTGAGTCTATTTATTTT-GAAACAAAGTTTTGTCT
1 ATCTTTGAG-TTGTTTCTTTTGAAAAATCTTTGAGTCTATTTATTTTGGAAACAAAGTTTTGTCT
358632 CTCTTGAGACAATTTCGTGAAAA
65 CTCTTGAGACAATTTCGTGAAAA
358655 ATCTTTGAGT
1 ATCTTTGAGT
358665 CTGAAACAAA
Statistics
Matches: 95, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
86 1 0.01
87 13 0.14
89 44 0.46
90 37 0.39
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (87 bp):
ATCTTTGAGTTGTTTCTTTTGAAAAATCTTTGAGTCTATTTATTTTGGAAACAAAGTTTTGTCTC
TCTTGAGACAATTTCGTGAAAA
Found at i:358692 original size:52 final size:53
Alignment explanation
Indices: 358614--358717 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 53
358604 CTATTTATTT
358614 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
*
358666 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAAATCTTTGAG
358718 ATTGTTTCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 36 0.73
54 13 0.27
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
Found at i:358741 original size:27 final size:27
Alignment explanation
Indices: 358704--358760 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
358694 AATTTTGTGA
*
358704 AAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAATCTTTGAGATTGTTTCTTTGG
*
358731 AAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAAAAATCTTTGAGATTGTTTCTTTGG
358758 AAA
1 AAA
358761 CAAAATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.46
Consensus pattern (27 bp):
AAAAAATCTTTGAGATTGTTTCTTTGG
Found at i:358811 original size:67 final size:65
Alignment explanation
Indices: 358716--358875 Score: 261
Period size: 67 Copynumber: 2.5 Consensus size: 65
358706 AAAATCTTTG
* *
358716 AGATTGTTTCTTTTG--AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTT
1 AGATAGTTTCTTTTGAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCT-TG
358779 A
65 A
358780 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTTG
1 AGATAGTTTCTTTTGAAA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTTG
358845 A
65 A
*
358846 AGATAATTTCTTTTGAAAAAAAATCTTTGA
1 AGATAGTTTCTTTTGAAAAAAAATCTTTGA
358876 ATATGTTCTC
Statistics
Matches: 90, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
64 14 0.16
65 12 0.13
66 20 0.22
67 44 0.49
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (65 bp):
AGATAGTTTCTTTTGAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTTGA
Found at i:358876 original size:30 final size:31
Alignment explanation
Indices: 358705--358876 Score: 97
Period size: 30 Copynumber: 5.4 Consensus size: 31
358695 ATTTTGTGAA
*
358705 AAAAATCTTTG-AGATTGTTTCTTTTG--A-
1 AAAAATCTTTGAAGATAGTTTCTTTTGAAAC
* * *
358732 AAAAATCTTTG-AGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAAGATAGTTTCTTTTGAAAC
* *
358762 AAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGAAAC
1 AAAA----ATCT-T-TGAAGATAGTTTCTTTTGAAAC
* * *
358799 AAAAATCTTTG-AGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAAGATAGTTTCTTTTGAAAC
* *
358829 AAAATTTTGTCTCTTGAAGATAATTTCTTTTGAAA-
1 AAAA----ATCT-TTGAAGATAGTTTCTTTTGAAAC
358864 AAAAATCTTTGAA
1 AAAAATCTTTGAA
358877 TATGTTCTCT
Statistics
Matches: 111, Mismatches: 18, Indels: 29
0.70 0.11 0.18
Matches are distributed among these distances:
27 24 0.22
29 1 0.01
30 29 0.26
31 4 0.04
32 1 0.01
33 3 0.03
34 6 0.05
35 8 0.07
36 15 0.14
37 20 0.18
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (31 bp):
AAAAATCTTTGAAGATAGTTTCTTTTGAAAC
Found at i:359003 original size:66 final size:64
Alignment explanation
Indices: 358882--359014 Score: 198
Period size: 66 Copynumber: 2.0 Consensus size: 64
358872 TTGAATATGT
*
358882 TCTCTTGAGACAGTTTCTCTGAAAAACTAACTTTTGAGTTGTTTCTTTGAAAAACAAATGTT-GT
1 TCTCTTGAGACAGTTTCTATGAAAAACTAACTTTTGAGTTGTTTCTTTG-AAAACAAAT-TTGGT
358946 C
64 C
358947 TCTCTTGAGACAGTTTCTAATGAAAAACTAACTTTTGAGATTGTTTCATTTG-AAACAAATTTGG
1 TCTCTTGAGACAGTTTCT-ATGAAAAACTAACTTTTGAG-TTGTTTC-TTTGAAAACAAATTTGG
359011 TC
63 TC
359013 TC
1 TC
359015 ACTTAAGATT
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
65 20 0.32
66 32 0.51
67 7 0.11
68 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (64 bp):
TCTCTTGAGACAGTTTCTATGAAAAACTAACTTTTGAGTTGTTTCTTTGAAAACAAATTTGGTC
Found at i:359326 original size:15 final size:15
Alignment explanation
Indices: 359303--359361 Score: 100
Period size: 15 Copynumber: 3.9 Consensus size: 15
359293 TTTTGAGTCG
*
359303 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
359318 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
359333 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
359348 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
359362 ATATCATCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.05, T:0.44
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:359769 original size:28 final size:28
Alignment explanation
Indices: 359698--359779 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
359688 TAAAAATATC
* * *
359698 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
359726 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
359754 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
359780 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:359895 original size:43 final size:44
Alignment explanation
Indices: 359798--360040 Score: 139
Period size: 43 Copynumber: 5.7 Consensus size: 44
359788 CTAAAGATGG
* * * **
359798 CCAGCCGTCCTCATCATGTAGGAACCGTGTCAT-CCCCAG---A
1 CCAGACGTCCTCATCACGTAGGAGCCGTGTCATACCATAGATAA
* *
359838 CCAGATC-TCTTCATCACGTATGAGCCGTGTCA-ACCATAGATAA
1 CCAGA-CGTCCTCATCACGTAGGAGCCGTGTCATACCATAGATAA
* * * * **
359881 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGACGTCCTCATCACGTAGGAGCCGTGTCAT-ACC-ATAGATAA
* * * **
359927 CCAGAAC-TCTTCATCACGTATGAGCCGTGTCATTCCCCAG---A
1 CCAG-ACGTCCTCATCACGTAGGAGCCGTGTCATACCATAGATAA
** * * **
359968 CCAGATTTCTTCATCACGTAGGAGCTGTGTCA-ACTGTAGATAA
1 CCAGACGTCCTCATCACGTAGGAGCCGTGTCATACCATAGATAA
* *
360011 CCAGCCGTCCTCATCACGTAGGAACCGTGT
1 CCAGACGTCCTCATCACGTAGGAGCCGTGT
360041 TATCACCTTA
Statistics
Matches: 152, Mismatches: 37, Indels: 25
0.71 0.17 0.12
Matches are distributed among these distances:
40 33 0.22
41 28 0.18
42 1 0.01
43 51 0.34
44 2 0.01
45 5 0.03
46 31 0.20
47 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (44 bp):
CCAGACGTCCTCATCACGTAGGAGCCGTGTCATACCATAGATAA
Found at i:359943 original size:46 final size:46
Alignment explanation
Indices: 359891--360077 Score: 142
Period size: 46 Copynumber: 4.2 Consensus size: 46
359881 CCAGCCGTCC
359891 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* * * * **
359937 TCATCACGTATGAGCCGTGTCATTC-CC--CAGA---CCAGATTTCT
1 TCATCACGTAGGAACCGTGTTA-TCACCTTTAGATGGCCAGAACTCT
* * * * ** * *
359978 TCATCACGTAGG-AGC-TG-TGTCAACTGTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC-TCT
*
360021 TCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCT
1 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCT
360068 TCATCACGTA
1 TCATCACGTA
360078 TGAGCAGTGT
Statistics
Matches: 103, Mismatches: 25, Indels: 25
0.67 0.16 0.16
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 2 0.02
40 4 0.04
41 19 0.18
43 18 0.17
44 5 0.05
45 2 0.02
46 33 0.32
47 16 0.16
48 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (46 bp):
TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:359956 original size:89 final size:83
Alignment explanation
Indices: 359798--359958 Score: 232
Period size: 83 Copynumber: 1.9 Consensus size: 83
359788 CTAAAGATGG
* *
359798 CCAGCCGTCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAGC
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAGC
359863 CGTGTCAACCATAGATAA
66 CGTGTCAACCATAGATAA
* *
359881 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGAACTCTTCATCACGT
359946 ATGAGCCGTGTCA
60 ATGAGCCGTGTCA
359959 TTCCCCAGAC
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
83 32 0.47
84 2 0.03
86 3 0.04
89 31 0.46
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (83 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAGC
CGTGTCAACCATAGATAA
Found at i:360024 original size:130 final size:130
Alignment explanation
Indices: 359808--360129 Score: 484
Period size: 130 Copynumber: 2.5 Consensus size: 130
359798 CCAGCCGTCC
* * * * *
359808 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATTTCTTCATCACGTAGGAGCCGTGTCAACC
*
359873 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCT
66 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCT
*
359937 TCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATTTCTTCATCACGTAGGAGCTGTGTCAAC
1 TCATCACGTATGAGCCGTGTCA-TCCCCAGACCAGATTTCTTCATCACGTAGGAGCCGTGTCAAC
**
360002 TGTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTC
65 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTC
360067 T
130 T
* * ** * * *
360068 TCATCACGTATGAGCAGTGTCAACCCTTGACCAGATTTCCTCATCACGTAGGAACCATGTCA
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATTTCTTCATCACGTAGGAGCCGTGTCA
360130 CCCTTAGACG
Statistics
Matches: 174, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
129 19 0.11
130 126 0.72
131 29 0.17
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (130 bp):
TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATTTCTTCATCACGTAGGAGCCGTGTCAACC
ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCT
Found at i:360342 original size:3 final size:3
Alignment explanation
Indices: 360334--360386 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
360324 TTATATATAT
360334 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
360381 ATA TTA
1 TTA TTA
360387 CATTTTACAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:360890 original size:12 final size:12
Alignment explanation
Indices: 360873--360902 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
360863 AGGGAGAGGA
*
360873 AAAAAAAACCAG
1 AAAAAAAACAAG
360885 AAAAAAAACAAG
1 AAAAAAAACAAG
360897 AAAAAA
1 AAAAAA
360903 GAGAACTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAG
Found at i:371638 original size:198 final size:198
Alignment explanation
Indices: 371300--371695 Score: 648
Period size: 198 Copynumber: 2.0 Consensus size: 198
371290 ATTGAAAGCC
*
371300 TTAAAAAGTAATCTCTAACTGTTGACTTAATAACAATCGGGTCTTGAACAACATTGACGTTGATA
1 TTAAAAAGTAATCTCTAACTGTTGACTTAATAACAATCAGGTCTTGAACAACATTGACGTTGATA
* * *
371365 TGTAAAGCATTCAAGGCATTCATGTTCCTCCAAAATGTAGCACAGGTATGAAAATATCTAGTATT
66 TGTAAAGCATTCAAGGCATTCATGTTCATCCAAAATGAAGCACAAGTATGAAAATATCTAGTATT
* *
371430 TCTGTCACCATCTTCAACCCACTTCGATCTAGAATTCTGAAACCAAATCTGCTTCTCAATCTTCA
131 TCTATCACCATCTTCAACCCACTTCGATCTAGAATTCTGAAACCAAATCTGCTCCTCAATCTTCA
371495 ACA
196 ACA
* * *
371498 TTAAAAAGTGATCTCTGACTGTTGACTTAATAACAATCAGGTCTTGAACAACATTGCCGTTGATA
1 TTAAAAAGTAATCTCTAACTGTTGACTTAATAACAATCAGGTCTTGAACAACATTGACGTTGATA
* *
371563 TGTAAAGCATTCAAGGCATTCCTGTTCATCCAAAATGAAGCATAAGTATGAAAATATCTAGTATT
66 TGTAAAGCATTCAAGGCATTCATGTTCATCCAAAATGAAGCACAAGTATGAAAATATCTAGTATT
* * * * *
371628 TCTATCACCATCTTCAACCCACTTTGATCTAGAATTCTGGAACCAATTTTTCTCCTCAATCTTCA
131 TCTATCACCATCTTCAACCCACTTCGATCTAGAATTCTGAAACCAAATCTGCTCCTCAATCTTCA
371693 ACA
196 ACA
371696 GCCTCCACAA
Statistics
Matches: 182, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
198 182 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (198 bp):
TTAAAAAGTAATCTCTAACTGTTGACTTAATAACAATCAGGTCTTGAACAACATTGACGTTGATA
TGTAAAGCATTCAAGGCATTCATGTTCATCCAAAATGAAGCACAAGTATGAAAATATCTAGTATT
TCTATCACCATCTTCAACCCACTTCGATCTAGAATTCTGAAACCAAATCTGCTCCTCAATCTTCA
ACA
Found at i:372091 original size:20 final size:20
Alignment explanation
Indices: 372054--372093 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
372044 AGCAACAGAA
**
372054 TAAAACTGATTTTATCTAAT
1 TAAAACTGATCCTATCTAAT
*
372074 TAAAACTGATCCTGTCTAAT
1 TAAAACTGATCCTATCTAAT
372094 AACTAACAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (20 bp):
TAAAACTGATCCTATCTAAT
Found at i:372124 original size:52 final size:52
Alignment explanation
Indices: 372047--372161 Score: 187
Period size: 52 Copynumber: 2.2 Consensus size: 52
372037 TAAAATTAGC
* *
372047 AACAGAAT-AAAACTGATTTTATCTAATTAAAACTGATCCTGTCTAATAACT
1 AACAGAATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATAACT
* *
372098 AACAGAATAAAAATTGATTCTATCTAATTAAAATTGATCCTATCTAATAACT
1 AACAGAATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATAACT
372150 AACAGAATAAAA
1 AACAGAATAAAA
372162 TATCTAGTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 8 0.14
52 51 0.86
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (52 bp):
AACAGAATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATAACT
Found at i:372132 original size:20 final size:20
Alignment explanation
Indices: 372107--372145 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
372097 TAACAGAATA
*
372107 AAAATTGATTCTATCTAATT
1 AAAATTGATCCTATCTAATT
372127 AAAATTGATCCTATCTAAT
1 AAAATTGATCCTATCTAAT
372146 AACTAACAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAATTGATCCTATCTAATT
Found at i:376814 original size:20 final size:20
Alignment explanation
Indices: 376789--376827 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
376779 TAACAGAATA
* *
376789 AAAACTGATTCTATTTAATT
1 AAAACTGATCCTATCTAATT
376809 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
376828 AACTAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:376843 original size:52 final size:52
Alignment explanation
Indices: 376737--376835 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
376727 GCAAAAGCAT
*
376737 AAAATTGATTCTATCTAATTAAAACGGATCCTATCTAATAACTAACAGAATA
1 AAAACTGATTCTATCTAATTAAAACGGATCCTATCTAATAACTAACAGAATA
* *
376789 AAAACTGATTCTATTTAATTAAAACTGATCCTATCTAATAACTAACA
1 AAAACTGATTCTATCTAATTAAAACGGATCCTATCTAATAACTAACA
376836 TATTAAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (52 bp):
AAAACTGATTCTATCTAATTAAAACGGATCCTATCTAATAACTAACAGAATA
Found at i:380625 original size:12 final size:11
Alignment explanation
Indices: 380609--380688 Score: 51
Period size: 11 Copynumber: 7.2 Consensus size: 11
380599 ATTAAGGGTA
380609 ATAATAAAAAT
1 ATAATAAAAAT
380620 AGTAATAAAAA-
1 A-TAATAAAAAT
380631 AT-ATAAAAAT
1 ATAATAAAAAT
**
380641 AT-ATGATTAAT
1 ATAAT-AAAAAT
380652 AATAATAATAAAT
1 -ATAATAA-AAAT
380665 AATAAT-AAAAT
1 -ATAATAAAAAT
* *
380676 CTAATTAAAAT
1 ATAATAAAAAT
380687 AT
1 AT
380689 TAAAATTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
9 7 0.12
10 9 0.16
11 16 0.29
12 13 0.23
13 11 0.20
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:380680 original size:13 final size:13
Alignment explanation
Indices: 380607--380672 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 13
380597 ATATTAAGGG
380607 TAATAATAAA-AA
1 TAATAATAAATAA
* *
380619 TAGTAATAAAAAA
1 TAATAATAAATAA
380632 T-ATAA-AAAT-A
1 TAATAATAAATAA
* *
380642 T-ATGATTAATAA
1 TAATAATAAATAA
380654 TAATAATAAATAA
1 TAATAATAAATAA
380667 TAATAA
1 TAATAA
380673 AATCTAATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.12
11 6 0.14
12 14 0.33
13 18 0.42
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
TAATAATAAATAA
Found at i:380687 original size:19 final size:18
Alignment explanation
Indices: 380665--380703 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
380655 AATAATAAAT
380665 AATAATAAAATCTAATTAA
1 AATAATAAAAT-TAATTAA
* *
380684 AATATTAAAATTATTTAA
1 AATAATAAAATTAATTAA
380702 AA
1 AA
380704 CATTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAATAAAATTAATTAA
Found at i:380703 original size:18 final size:19
Alignment explanation
Indices: 380665--380708 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
380655 AATAATAAAT
*
380665 AATAATAAAATCTAATTAA
1 AATATTAAAATCTAATTAA
*
380684 AATATTAAAAT-TATTTAA
1 AATATTAAAATCTAATTAA
*
380702 AACATTA
1 AATATTA
380709 TTAAAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATTAAAATCTAATTAA
Found at i:381102 original size:2 final size:2
Alignment explanation
Indices: 381095--381170 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
381085 ATTAAGGGGC
381095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
381137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
381171 TAATGACTAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:381206 original size:12 final size:11
Alignment explanation
Indices: 381185--381226 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
381175 GACTAAAATT
381185 AAATAAAGATA
1 AAATAAAGATA
381196 AAATGAAAGATA
1 AAAT-AAAGATA
381208 ATAATAGAA-ATA
1 A-AATA-AAGATA
381220 AAATAAA
1 AAATAAA
381227 ATTACAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.07
11 8 0.29
12 13 0.46
13 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (11 bp):
AAATAAAGATA
Found at i:381225 original size:5 final size:5
Alignment explanation
Indices: 381178--381258 Score: 54
Period size: 5 Copynumber: 14.6 Consensus size: 5
381168 TATTAATGAC
*
381178 TAAAA TTAAA TAAAGA TAAAA TGAAAGA TAATAA TAGAAA TAAAA TAAAA
1 TAAAA TAAAA TAAA-A TAAAA T-AAA-A TAA-AA TA-AAA TAAAA TAAAA
* * *
381228 TTACAA TTATA TAATAA TCAAAA TAAAA TAA
1 -TAAAA TAAAA TAA-AA T-AAAA TAAAA TAA
381259 TTAAAATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 28 0.47
6 26 0.43
7 6 0.10
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (5 bp):
TAAAA
Found at i:382610 original size:6 final size:6
Alignment explanation
Indices: 382599--382660 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
382589 ATTTATTTGT
* * * *
382599 TAATAA TAATAA TAATAA GTAATAT TAATAA AAATAA AAATAA AAATAAA
1 TAATAA TAATAA TAATAA -TAATAA TAATAA TAATAA TAATAA TAAT-AA
382649 TAAATAA -AATAA
1 T-AATAA TAATAA
382661 AATGGGCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
5 5 0.10
6 32 0.65
7 9 0.18
8 3 0.06
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (6 bp):
TAATAA
Found at i:382627 original size:19 final size:19
Alignment explanation
Indices: 382599--382648 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
382589 ATTTATTTGT
*
382599 TAATAATAATAATAATAAG
1 TAATAATAATAAAAATAAG
*
382618 TAATATTAATAAAAATAA-
1 TAATAATAATAAAAATAAG
* *
382636 AAATAAAAATAAA
1 TAATAATAATAAA
382649 TAAATAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
TAATAATAATAAAAATAAG
Found at i:382663 original size:14 final size:14
Alignment explanation
Indices: 382625--382661 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
382615 AAGTAATATT
382625 AATAAAAAT-AA-A
1 AATAAAAATAAATA
382637 AATAAAAATAAATA
1 AATAAAAATAAATA
382651 AAT-AAAATAAA
1 AATAAAAATAAA
382662 ATGGGCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 10 0.43
14 4 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AATAAAAATAAATA
Found at i:383463 original size:123 final size:122
Alignment explanation
Indices: 383028--383603 Score: 668
Period size: 121 Copynumber: 4.7 Consensus size: 122
383018 GAATTAAGGC
*
383028 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * *
383093 GAACTCTTTCTGGAAATGTTGATGTTGATCTATCTATTCCTGCGATAG--TCAAGCAA
66 GAACTC-TTCTGGAAATGTTGATGTTGATCTATCTCTTTCTGCAATAGAATCAAGCAA
* * * * *
383149 AAGGTTAAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCTTCAGATAAATTCTTCTTC-TTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTC-TCATTA
* ** * * * * *
383213 TGAACTCCTTTTGGAAATGACGATGCTGCTTTATCTCTTTCTGTAATA-AAGTCAAGAAAA
65 TGAACT-CTTCTGGAAATGTTGATGTTGATCTATCTCTTTCTGCAATAGAA-TCAAG-CAA
* * * ** * * * *
383273 AAGGTTAAATATGTTCTTCAGAGTATGAA---CTTCTTCCTCTTCAGACGAGTTCTTCTTATTAC
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
383335 GAACTCTTCCTGGAAATGTTGATGTTGATCTATCTCTTTCTGCAATAGAATCAAGCAA
66 GAACTCTT-CTGGAAATGTTGATGTTGATCTATCTCTTTCTGCAATAGAATCAAGCAA
*
383393 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * **
383458 GAACTCGTTCTGGCAAA-ATTGATATTGATCTATCT-TATTCTGTGATAGAATCGAA-CAA
66 GAACTC-TTCTGG-AAATGTTGATGTTGATCTATCTCT-TTCTGCAATAGAATC-AAGCAA
* * *
383516 AAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTTCCTATTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
383581 GAACTCTACCTGGAAATGTTGAT
66 GAACTCT-TCTGGAAATGTTGAT
383604 CCATAGAGTG
Statistics
Matches: 384, Mismatches: 53, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
120 28 0.07
121 158 0.41
122 10 0.03
123 155 0.40
124 33 0.09
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (122 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTTCTGGAAATGTTGATGTTGATCTATCTCTTTCTGCAATAGAATCAAGCAA
Found at i:384802 original size:18 final size:18
Alignment explanation
Indices: 384779--384813 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
384769 TTTATGTGAA
384779 AAAATAAATTAAATTTCG
1 AAAATAAATTAAATTTCG
*
384797 AAAATAAATTGAATTTC
1 AAAATAAATTAAATTTC
384814 AATAAGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (18 bp):
AAAATAAATTAAATTTCG
Found at i:385206 original size:23 final size:22
Alignment explanation
Indices: 385175--385225 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 22
385165 TTTTCTATTA
385175 TTTT-TTTTTCATTTTCATTTT
1 TTTTCTTTTTCATTTTCATTTT
385196 TCTTTCTTTTTCATTTTCATTTT
1 T-TTTCTTTTTCATTTTCATTTT
385219 TTTTCTT
1 TTTTCTT
385226 CAAGCATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 9 0.32
23 18 0.64
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTCTTTTTCATTTTCATTTT
Found at i:385222 original size:17 final size:17
Alignment explanation
Indices: 385174--385212 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
385164 CTTTTCTATT
*
385174 ATTTTTTTTTCATTTTC
1 ATTTTTCTTTCATTTTC
*
385191 ATTTTTCTTTCTTTTTC
1 ATTTTTCTTTCATTTTC
385208 ATTTT
1 ATTTT
385213 CATTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTCTTTCATTTTC
Found at i:392579 original size:15 final size:15
Alignment explanation
Indices: 392556--392587 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
392546 TAATGTAATG
*
392556 AATGTATGTATGCAA
1 AATGCATGTATGCAA
392571 AATGCATGTATGCAA
1 AATGCATGTATGCAA
392586 AA
1 AA
392588 GATATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGCATGTATGCAA
Found at i:396535 original size:10 final size:10
Alignment explanation
Indices: 396520--396545 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
396510 TTTAATATTA
396520 AAAAATTAAT
1 AAAAATTAAT
396530 AAAAATTAAT
1 AAAAATTAAT
396540 AAAAAT
1 AAAAAT
396546 CTTTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:397062 original size:13 final size:13
Alignment explanation
Indices: 396990--397056 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 13
396980 ATATAAAGGG
396990 TAATAAT-AAAAA
1 TAATAATAAAAAA
*
397002 TAGTAATAAAAATA
1 TAATAATAAAAA-A
* *
397016 TAAAAATATATGATTAA
1 TAATAATA-A--A-AAA
397033 TAATAATAAAAAA
1 TAATAATAAAAAA
397046 TAATAATAAAA
1 TAATAATAAAA
397057 TCTAATTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.14
13 17 0.40
14 8 0.19
15 1 0.02
16 1 0.02
17 9 0.21
18 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
TAATAATAAAAAA
Found at i:397571 original size:17 final size:17
Alignment explanation
Indices: 397549--397606 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
397539 TAAATTATTA
397549 AAAATAATAATAGAAAT
1 AAAATAATAATAGAAAT
* *
397566 AAAATAA-AATTGCAAT
1 AAAATAATAATAGAAAT
* *
397582 TAGATAATAATCA-AAAT
1 AAAATAATAAT-AGAAAT
397599 AAAATAAT
1 AAAATAAT
397607 TAAAATTATA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAATAATAATAGAAAT
Found at i:398445 original size:176 final size:181
Alignment explanation
Indices: 398146--398502 Score: 670
Period size: 176 Copynumber: 2.0 Consensus size: 181
398136 CTAACCTCGC
398146 CGTCGGCCACCGTCACCGGTGGTCGGAAAATATAAAACCCTCTCAAAAGATAGATCAAAATGATC
1 CGTCGGCCACCGTCACCGGTGGTCGGAAAATATAAAACCCTCTCAAAAGATAGATCAAAATGATC
398211 TAAAATCGAATCCAACCCCCTTTTATATAAAACACGTCCTATTTACGTAGATCTACAAAAATACC
66 TAAAATCGAATCCAACCCCCTTTTATATAAAACACGTCCTATTTACGTAGATCTACAAAAATACC
*
398276 TTCAGGTATTTCGAATCTTTGCGTGACGCGTGGATGTTCGTGGTTTCTTCG
131 TTCAGGTATTTCGAATCTTTGCGTGACGCGTGGATGTTCGTGGTGTCTTCG
398327 CGTCGGCCACCGTCACCGGTGGTCGG-AAATATAAAA-CCTCTCAAAAGATAGATC-AAATGATC
1 CGTCGGCCACCGTCACCGGTGGTCGGAAAATATAAAACCCTCTCAAAAGATAGATCAAAATGATC
398389 TAAAATCGAATCCAA-CCCC-TTTATATAAAACACGTCCTATTTACGTAGATCTACAAAAATACC
66 TAAAATCGAATCCAACCCCCTTTTATATAAAACACGTCCTATTTACGTAGATCTACAAAAATACC
398452 TTCAGGTATTTCGAATCTTTGCGTGACGCGTGGATGTTCGTGGTGTCTTCG
131 TTCAGGTATTTCGAATCTTTGCGTGACGCGTGGATGTTCGTGGTGTCTTCG
398503 GTGACCGTGG
Statistics
Matches: 175, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
176 94 0.54
177 4 0.02
178 23 0.13
179 18 0.10
180 10 0.06
181 26 0.15
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (181 bp):
CGTCGGCCACCGTCACCGGTGGTCGGAAAATATAAAACCCTCTCAAAAGATAGATCAAAATGATC
TAAAATCGAATCCAACCCCCTTTTATATAAAACACGTCCTATTTACGTAGATCTACAAAAATACC
TTCAGGTATTTCGAATCTTTGCGTGACGCGTGGATGTTCGTGGTGTCTTCG
Found at i:399024 original size:3 final size:3
Alignment explanation
Indices: 399009--399041 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
398999 ATTTATTTGT
*
399009 TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
399042 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:402198 original size:20 final size:20
Alignment explanation
Indices: 402175--402213 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
402165 TATTTTATAT
402175 AATATTTGA-AAAATAAAATC
1 AATATTT-ATAAAATAAAATC
402195 AATATTTATAAAATAAAAT
1 AATATTTATAAAATAAAAT
402214 AAAAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
AATATTTATAAAATAAAATC
Found at i:404465 original size:16 final size:16
Alignment explanation
Indices: 404444--404474 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
404434 GCATGACTTG
404444 AAAAAGAAAAAAGAAA
1 AAAAAGAAAAAAGAAA
*
404460 AAAAAGAAATAAGAA
1 AAAAAGAAAAAAGAA
404475 TTGGCAAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAA
Found at i:407372 original size:8 final size:8
Alignment explanation
Indices: 407359--407383 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
407349 ATTTTGAAAA
407359 ATTGTTTT
1 ATTGTTTT
407367 ATTGTTTT
1 ATTGTTTT
407375 ATTGTTTT
1 ATTGTTTT
407383 A
1 A
407384 ACACGTGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (8 bp):
ATTGTTTT
Found at i:408864 original size:2 final size:2
Alignment explanation
Indices: 408857--408892 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
408847 CCTAAATTTA
408857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
408893 GTACTACGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:411230 original size:13 final size:12
Alignment explanation
Indices: 411200--411239 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
411190 TTTATTAAAT
*
411200 TTTAATAATGAA
1 TTTAATAATGTA
411212 TTTAATAATGTA
1 TTTAATAATGTA
*
411224 TTATAATAATTTA
1 TT-TAATAATGTA
411237 TTT
1 TTT
411240 TGATTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (12 bp):
TTTAATAATGTA
Found at i:411468 original size:16 final size:16
Alignment explanation
Indices: 411449--411483 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
411439 ACTTGAATTT
* *
411449 ATTTATTTTAGTGTAA
1 ATTTAATTTAGGGTAA
411465 ATTTAATTTAGGGTAA
1 ATTTAATTTAGGGTAA
411481 ATT
1 ATT
411484 ACGTGTTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
ATTTAATTTAGGGTAA
Found at i:412354 original size:71 final size:71
Alignment explanation
Indices: 412238--412379 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
412228 TACTAAAACG
412238 GACCAAAACTAATAGTTTAGGTACTAAACATGTTAAGTTTTTAACGATGATATACTGAAATGAAA
1 GACCAAAACTAATAGTTTAGGTACTAAACATGTTAAGTTTTTAACGATGATATACTGAAATGAAA
412303 TGAAAA
66 TGAAAA
412309 GACCAAAACTAATAGTTTAGGTACTAAACATGTTAAGTTTTTAACGATGATATACTGAAATGAAA
1 GACCAAAACTAATAGTTTAGGTACTAAACATGTTAAGTTTTTAACGATGATATACTGAAATGAAA
412374 TGAAAA
66 TGAAAA
412380 TTAAACGTTA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (71 bp):
GACCAAAACTAATAGTTTAGGTACTAAACATGTTAAGTTTTTAACGATGATATACTGAAATGAAA
TGAAAA
Found at i:413018 original size:2 final size:2
Alignment explanation
Indices: 413011--413046 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
413001 AATATGAATA
413011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
413047 GCCAACAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:413226 original size:2 final size:2
Alignment explanation
Indices: 413219--413246 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
413209 AAACAACACC
413219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
413247 GAAATCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:414789 original size:15 final size:15
Alignment explanation
Indices: 414769--414798 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
414759 TAATTAAATA
*
414769 AAATTATATATTTTT
1 AAATTAAATATTTTT
414784 AAATTAAATATTTTT
1 AAATTAAATATTTTT
414799 TTATATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATTAAATATTTTT
Found at i:414861 original size:2 final size:2
Alignment explanation
Indices: 414854--414897 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
414844 ATTCAACCCC
414854 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
414896 AT
1 AT
414898 TGATGGGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:415146 original size:23 final size:23
Alignment explanation
Indices: 415120--415171 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
415110 GGGTATTATT
*
415120 GTAATTATTCATAAATATATAAG
1 GTAATTATTCATAAATATAAAAG
*
415143 GTAAATATTCATAAATATAAAAG
1 GTAATTATTCATAAATATAAAAG
415166 GTAATT
1 GTAATT
415172 TTTTTTGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (23 bp):
GTAATTATTCATAAATATAAAAG
Found at i:421472 original size:27 final size:28
Alignment explanation
Indices: 421428--421481 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
421418 CCATTGTTGC
*
421428 TTTCAAGCATTGACTCGAC-ACATAATG
1 TTTCAAACATTGACTCGACGACATAATG
* *
421455 TTTCAAACATTTATTCGACGACATAAT
1 TTTCAAACATTGACTCGACGACATAAT
421482 ATAAATAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (28 bp):
TTTCAAACATTGACTCGACGACATAATG
Found at i:421759 original size:41 final size:42
Alignment explanation
Indices: 421710--421798 Score: 110
Period size: 41 Copynumber: 2.1 Consensus size: 42
421700 TTTGGTCAAC
*
421710 CCGACCCGACCC-AAAAATTTTATATCCTCCACCCAAC-CCAA
1 CCGACCCGACCCGAAAAA-TATATATCCTCCACCCAACTCCAA
* * * *
421751 CCGACCCGACCCGAAAGATATATGTCCTCCACCCGACTCTAA
1 CCGACCCGACCCGAAAAATATATATCCTCCACCCAACTCCAA
421793 CCGACC
1 CCGACC
421799 AAAATTTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 28 0.68
42 13 0.32
ACGTcount: A:0.30, C:0.44, G:0.10, T:0.16
Consensus pattern (42 bp):
CCGACCCGACCCGAAAAATATATATCCTCCACCCAACTCCAA
Found at i:426961 original size:21 final size:21
Alignment explanation
Indices: 426936--426991 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
426926 TTTACACTTG
426936 ATGCATCGATGCACCTTGACT
1 ATGCATCGATGCACCTTGACT
*
426957 ATGCATCGTTGCACCTTGACT
1 ATGCATCGATGCACCTTGACT
*
426978 ATGTATCGATGCAC
1 ATGCATCGATGCAC
426992 ACACGCTCCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (21 bp):
ATGCATCGATGCACCTTGACT
Found at i:427714 original size:32 final size:34
Alignment explanation
Indices: 427668--427732 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
427658 GTTTTTGGTC
*
427668 AACCCGACCC-AAAAA-ATGTATATCTTCCACCA
1 AACCCGACCCAAAAAATATATATATCTTCCACCA
*
427700 AACCCGACCTAAAAAATATATATATCTTCCACC
1 AACCCGACCCAAAAAATATATATATCTTCCACC
427733 CAACTCTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.31
33 5 0.17
34 15 0.52
ACGTcount: A:0.42, C:0.32, G:0.05, T:0.22
Consensus pattern (34 bp):
AACCCGACCCAAAAAATATATATATCTTCCACCA
Found at i:434249 original size:21 final size:21
Alignment explanation
Indices: 434223--434265 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
434213 ACAACCAGAC
434223 ACAGTTAACAACGCTTCGGTA
1 ACAGTTAACAACGCTTCGGTA
434244 ACAGTTAACAACGCTTCGGTA
1 ACAGTTAACAACGCTTCGGTA
434265 A
1 A
434266 TCAACTGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (21 bp):
ACAGTTAACAACGCTTCGGTA
Found at i:434939 original size:81 final size:81
Alignment explanation
Indices: 434804--434965 Score: 306
Period size: 81 Copynumber: 2.0 Consensus size: 81
434794 CTCCCTGCCC
434804 AGAGCTTTTGGGCACATCATTCTCTGTAGAATTTCTACAAGACTTTACAGTATGATTAGTCCTTA
1 AGAGCTTTTGGGCACATCATTCTCTGTAGAATTTCTACAAGACTTTACAGTATGATTAGTCCTTA
*
434869 TCTGCATACTTTGCTT
66 TCTGCATACCTTGCTT
*
434885 AGAGCTTTTGGGCACATCATTCTCTGTAGAATTTCTACAAGATTTTACAGTATGATTAGTCCTTA
1 AGAGCTTTTGGGCACATCATTCTCTGTAGAATTTCTACAAGACTTTACAGTATGATTAGTCCTTA
434950 TCTGCATACCTTGCTT
66 TCTGCATACCTTGCTT
434966 CGCACAATTG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.40
Consensus pattern (81 bp):
AGAGCTTTTGGGCACATCATTCTCTGTAGAATTTCTACAAGACTTTACAGTATGATTAGTCCTTA
TCTGCATACCTTGCTT
Found at i:438683 original size:36 final size:36
Alignment explanation
Indices: 438636--438707 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
438626 TTAAAGTGTT
438636 TGGATAGTAACTATTGTTAATTTTATCTATTAAGAG
1 TGGATAGTAACTATTGTTAATTTTATCTATTAAGAG
438672 TGGATAGTAACTATTGTTAATTTTATCTATTAAGAG
1 TGGATAGTAACTATTGTTAATTTTATCTATTAAGAG
438708 ATAAATGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (36 bp):
TGGATAGTAACTATTGTTAATTTTATCTATTAAGAG
Found at i:444111 original size:17 final size:17
Alignment explanation
Indices: 444089--444127 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
444079 GTGTAAAACT
* *
444089 GTTGACTGTTGACCTGC
1 GTTGACCGTTGACCGGC
444106 GTTGACCGTTGACCGGC
1 GTTGACCGTTGACCGGC
444123 GTTGA
1 GTTGA
444128 ACGACCGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.23, G:0.33, T:0.31
Consensus pattern (17 bp):
GTTGACCGTTGACCGGC
Found at i:444282 original size:17 final size:17
Alignment explanation
Indices: 444260--444302 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
444250 GACTTTGACT
*
444260 GAAAAGTCGAAATTTTC
1 GAAAAGTCAAAATTTTC
* *
444277 GAAAAGTTAAAATTTTT
1 GAAAAGTCAAAATTTTC
444294 GAAAAGTCA
1 GAAAAGTCA
444303 TATTTTATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (17 bp):
GAAAAGTCAAAATTTTC
Found at i:448034 original size:30 final size:31
Alignment explanation
Indices: 447993--448074 Score: 103
Period size: 34 Copynumber: 2.5 Consensus size: 31
447983 AAAAGAAATT
**
447993 TAAACTTTGAGTTATTAAAATA-TTATTAAAA
1 TAAA-TTTGAGTTATTAAAATATTTAAAAAAA
448024 TAAATTTGAGTTATTAATAAAATATTTAAAAAAA
1 TAAATTTGAGTTA-T--TAAAATATTTAAAAAAA
448058 TAAATTTGAGTTATTAA
1 TAAATTTGAGTTATTAA
448075 TAGATGCCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
30 9 0.20
31 8 0.18
33 8 0.18
34 20 0.44
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (31 bp):
TAAATTTGAGTTATTAAAATATTTAAAAAAA
Found at i:448830 original size:19 final size:19
Alignment explanation
Indices: 448794--448836 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
448784 TAAAAAACAT
** *
448794 AATATAATATTTTTATTTC
1 AATATAATATACTAATTTC
*
448813 AATATAATATACTAATTTT
1 AATATAATATACTAATTTC
448832 AATAT
1 AATAT
448837 TTTTATTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATAATATACTAATTTC
Found at i:449624 original size:44 final size:44
Alignment explanation
Indices: 449536--449666 Score: 158
Period size: 44 Copynumber: 3.0 Consensus size: 44
449526 TGTACACCCA
* * * *
449536 GTAAGGACTTACCCTGAGCATAAAGCCGAGGAGCCTTCAGAAATG
1 GTAAGGTCTTACCCT-TGCACAAAGCAGAGGAGCCTTCAGAAATG
* *
449581 GTAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTTCATAAATG
1 GTAAGGTCTTACCCTTGCACAAAGCAGAGGAGCCTTCAGAAATG
*
449625 GTAAGGTGTTACCC-TGACACACAA-CAGAGGAGCCTTCAGAAA
1 GTAAGGTCTTACCCTTG-CACA-AAGCAGAGGAGCCTTCAGAAA
449667 CTTCCTCCAA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
43 2 0.03
44 58 0.77
45 15 0.20
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (44 bp):
GTAAGGTCTTACCCTTGCACAAAGCAGAGGAGCCTTCAGAAATG
Found at i:456637 original size:45 final size:45
Alignment explanation
Indices: 456606--456704 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 45
456596 TCGGTCTAAC
*
456606 TCTTCATCTTCATATTCCATGCGGTCAAGTTCATCTCCATCTCCA
1 TCTTCATCTTCATATTCCATGCGGTCAAGTTCATCTCCATCTACA
*
456651 TCTTCATCTTCATATTCCATGCGGTCAAGTTCATCTCCATCTCCA
1 TCTTCATCTTCATATTCCATGCGGTCAAGTTCATCTCCATCTACA
*
456696 TCTCCATCT
1 TCTTCATCT
456705 CCATCTCCAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.19, C:0.34, G:0.08, T:0.38
Consensus pattern (45 bp):
TCTTCATCTTCATATTCCATGCGGTCAAGTTCATCTCCATCTACA
Found at i:456684 original size:21 final size:21
Alignment explanation
Indices: 456614--456684 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
456604 ACTCTTCATC
456614 TTCATATTCCATGCGGTCAAG
1 TTCATATTCCATGCGGTCAAG
* **
456635 TTCATCTCCATCTCCAT-C-TTCATC
1 TTCA--T--AT-TCCATGCGGTCAAG
456659 TTCATATTCCATGCGGTCAAG
1 TTCATATTCCATGCGGTCAAG
456680 TTCAT
1 TTCAT
456685 CTCCATCTCC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
19 5 0.14
20 3 0.08
21 12 0.32
22 1 0.03
23 1 0.03
24 7 0.19
25 3 0.08
26 5 0.14
ACGTcount: A:0.21, C:0.30, G:0.11, T:0.38
Consensus pattern (21 bp):
TTCATATTCCATGCGGTCAAG
Found at i:456693 original size:6 final size:6
Alignment explanation
Indices: 456682--456962 Score: 517
Period size: 6 Copynumber: 46.8 Consensus size: 6
456672 CGGTCAAGTT
* *
456682 CATCTC CATCTC CATCTC CATCTC CATCTC CATCCC CATCTC CAGCTC
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
* *
456730 CATCTC CATCTC CATCTC CATCCC CATCTC CAGCTC CATCTC CATCTC
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
*
456778 CAGCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
456826 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
456874 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
456922 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCT
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCT
456963 TCATATTCCA
Statistics
Matches: 265, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 265 1.00
ACGTcount: A:0.17, C:0.51, G:0.01, T:0.32
Consensus pattern (6 bp):
CATCTC
Found at i:457660 original size:19 final size:19
Alignment explanation
Indices: 457636--457676 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
457626 TTACAGTAAC
*
457636 AATTAAATAACCATAGGCT
1 AATTAAACAACCATAGGCT
457655 AATTAAACAACCATAGGCT
1 AATTAAACAACCATAGGCT
457674 AAT
1 AAT
457677 GTTAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (19 bp):
AATTAAACAACCATAGGCT
Found at i:457774 original size:14 final size:14
Alignment explanation
Indices: 457757--457786 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
457747 ATTTTAATCA
457757 AAAAGTTTTGTAGT
1 AAAAGTTTTGTAGT
457771 AAAAGTTTTGTAGT
1 AAAAGTTTTGTAGT
457785 AA
1 AA
457787 CCTTTAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (14 bp):
AAAAGTTTTGTAGT
Found at i:458225 original size:12 final size:12
Alignment explanation
Indices: 458210--458242 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
458200 TAAACTCAAC
*
458210 TAGAAGCTTGTT
1 TAGAAGCTCGTT
458222 TAGAAGCTCGTT
1 TAGAAGCTCGTT
458234 TAGAAGCTC
1 TAGAAGCTC
458243 AACTAAGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (12 bp):
TAGAAGCTCGTT
Found at i:459536 original size:60 final size:59
Alignment explanation
Indices: 459431--459744 Score: 362
Period size: 60 Copynumber: 5.2 Consensus size: 59
459421 AAAAAAGGGT
* * * * *
459431 AAAG-TACACAAATGGTCCCTTAACTATAAGGTATTACTTTTTTGAGTCACTCGACTACTG
1 AAAGTTACA-AAATGGT-CCTCAACTATAAGGTATTGCTTTGTTGAGTCCCTCGACTATTG
* **
459491 AAAGATACAAAATGGTCTCTCAACTATAACATATTGCTTTGTTGAGTCCCTCGACTATTG
1 AAAGTTACAAAATGGTC-CTCAACTATAAGGTATTGCTTTGTTGAGTCCCTCGACTATTG
* * * *
459551 AAAGTTACAAAATGGTCCCTCGACTATAGGGCATTGCTTTGTTGAGTCCCTCAACTATTG
1 AAAGTTACAAAATGGT-CCTCAACTATAAGGTATTGCTTTGTTGAGTCCCTCGACTATTG
* * * *
459611 CAAGTTACTAAATGGTCCTTCGACTATAAGGTATTGCTTTGTTGAGTCCCTCGACTATTA
1 AAAGTTACAAAATGGTCC-TCAACTATAAGGTATTGCTTTGTTGAGTCCCTCGACTATTG
* * * * *
459671 AAAGTTACAAAATGGTCCCCTTACTAT-AGGATGTTGCTTTGTTGAGTCCTTCAACTATTG
1 AAAGTTACAAAATGGTCCTC-AACTATAAGG-TATTGCTTTGTTGAGTCCCTCGACTATTG
459731 AAAGTTACAAAATG
1 AAAGTTACAAAATG
459745 ATACCTGACT
Statistics
Matches: 220, Mismatches: 28, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
59 7 0.03
60 208 0.95
61 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (59 bp):
AAAGTTACAAAATGGTCCTCAACTATAAGGTATTGCTTTGTTGAGTCCCTCGACTATTG
Found at i:459646 original size:120 final size:120
Alignment explanation
Indices: 459431--459744 Score: 400
Period size: 120 Copynumber: 2.6 Consensus size: 120
459421 AAAAAAGGGT
* * * * * * *
459431 AAAG-TACACAAATGGTCCCTTAACTATAAGGTATTACTTTTTTGAGTCACTCGACTACTGAAAG
1 AAAGTTACA-AAATGGTCCCTCAACTATAGGGTATTGCTTTGTTGAGTCCCTCAACTATTGAAAG
* *
459495 ATACAAAATGGTCTCTCAACTATAACATATTGCTTTGTTGAGTCCCTCGACTATTG
65 TTACAAAATGGTCTCTCAACTATAACATATTGCTTTGTTGAGTCCCTCGACTATTA
* * *
459551 AAAGTTACAAAATGGTCCCTCGACTATAGGGCATTGCTTTGTTGAGTCCCTCAACTATTGCAAGT
1 AAAGTTACAAAATGGTCCCTCAACTATAGGGTATTGCTTTGTTGAGTCCCTCAACTATTGAAAGT
* * **
459616 TACTAAATGGTC-CTTCGACTATAAGGTATTGCTTTGTTGAGTCCCTCGACTATTA
66 TACAAAATGGTCTC-TCAACTATAACATATTGCTTTGTTGAGTCCCTCGACTATTA
* * * *
459671 AAAGTTACAAAATGGTCCC-CTTACTATAGGATGTTGCTTTGTTGAGTCCTTCAACTATTGAAAG
1 AAAGTTACAAAATGGTCCCTC-AACTATAGGGTATTGCTTTGTTGAGTCCCTCAACTATTGAAAG
459735 TTACAAAATG
65 TTACAAAATG
459745 ATACCTGACT
Statistics
Matches: 168, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
119 2 0.01
120 162 0.96
121 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (120 bp):
AAAGTTACAAAATGGTCCCTCAACTATAGGGTATTGCTTTGTTGAGTCCCTCAACTATTGAAAGT
TACAAAATGGTCTCTCAACTATAACATATTGCTTTGTTGAGTCCCTCGACTATTA
Found at i:460343 original size:32 final size:32
Alignment explanation
Indices: 460307--460367 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
460297 ATGATATATG
460307 TATATAAGTAATGATGTGACACATACCACACA
1 TATATAAGTAATGATGTGACACATACCACACA
*
460339 TATATAAGTGATGATGTGACACATACCAC
1 TATATAAGTAATGATGTGACACATACCAC
460368 GAGCACATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (32 bp):
TATATAAGTAATGATGTGACACATACCACACA
Found at i:460378 original size:32 final size:32
Alignment explanation
Indices: 460310--460400 Score: 107
Period size: 32 Copynumber: 2.8 Consensus size: 32
460300 ATATATGTAT
*
460310 ATAAGTAATGATGTGACACATACCAC-ACATAT
1 ATAAGTAATGATGTGACACATACCACGACA-AC
*
460342 ATAAGTGATGATGTGACACATACCACGAGC-AC
1 ATAAGTAATGATGTGACACATACCACGA-CAAC
*
460374 ATAAGTAATGATGT-ATCATATACCACG
1 ATAAGTAATGATGTGA-CACATACCACG
460401 TGTTCAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
31 1 0.02
32 49 0.94
33 1 0.02
34 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (32 bp):
ATAAGTAATGATGTGACACATACCACGACAAC
Found at i:460777 original size:14 final size:14
Alignment explanation
Indices: 460758--460785 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
460748 TCTCCATCAA
460758 ATGTTAACAATAAG
1 ATGTTAACAATAAG
460772 ATGTTAACAATAAG
1 ATGTTAACAATAAG
460786 TGGTCTGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
ATGTTAACAATAAG
Found at i:462298 original size:26 final size:26
Alignment explanation
Indices: 462262--462311 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
462252 TTGTTTAACT
* *
462262 AACAATTAATTAGTTTAGTAAAATGA
1 AACAATAAATTAGTTAAGTAAAATGA
*
462288 AACAATAAATTTGTTAAGTAAAAT
1 AACAATAAATTAGTTAAGTAAAAT
462312 CATGTGTTTG
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:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (26 bp):
AACAATAAATTAGTTAAGTAAAATGA
Found at i:463719 original size:21 final size:21
Alignment explanation
Indices: 463693--463732 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
463683 GTTGATTGTT
* *
463693 ACGGTGTTGATGTGACAGTTC
1 ACGGTGCTGATATGACAGTTC
463714 ACGGTGCTGATATGACAGT
1 ACGGTGCTGATATGACAGT
463733 ATAGGGTGGT
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:0.23, C:0.15, G:0.33, T:0.30
Consensus pattern (21 bp):
ACGGTGCTGATATGACAGTTC
Found at i:465485 original size:2 final size:2
Alignment explanation
Indices: 465478--465503 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
465468 TGAAAGAATA
465478 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
465504 TATGGTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:465694 original size:2 final size:2
Alignment explanation
Indices: 465687--465726 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
465677 AAATTTTCTT
465687 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
465727 GATAATTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:466834 original size:45 final size:45
Alignment explanation
Indices: 466785--466888 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
466775 ATTTAAGCAT
* * *
466785 TAATTATCCGTTAATAATATC-AATAGGTTGGTGGTTGGTGGTTAA
1 TAATTATCCATTAATAA-ATCGAATAAGTTAGTGGTTGGTGGTTAA
* * * *
466830 TAATTATCCTTTAATAACTCGAGTAAGTTAGTGGTTGGTGGTTAT
1 TAATTATCCATTAATAAATCGAATAAGTTAGTGGTTGGTGGTTAA
466875 TAATTATCCATTAA
1 TAATTATCCATTAA
466889 CATCCCGGGT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 2 0.04
45 49 0.96
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (45 bp):
TAATTATCCATTAATAAATCGAATAAGTTAGTGGTTGGTGGTTAA
Found at i:466909 original size:45 final size:45
Alignment explanation
Indices: 466808--466911 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
466798 ATAATATCAA
* * *
466808 TAGGTTGGTGGTTGGTGGTTAATAATTATCCTTTAATAACTCGAG
1 TAGGTTGGTGGTTGGTGGTTAATAATTATCCATTAACAACCCGAG
* * * * *
466853 TAAGTTAGTGGTTGGTGGTTATTAATTATCCATTAACATCCCGGG
1 TAGGTTGGTGGTTGGTGGTTAATAATTATCCATTAACAACCCGAG
466898 TAGGTTGGTGGTTG
1 TAGGTTGGTGGTTG
466912 CAGAGGAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (45 bp):
TAGGTTGGTGGTTGGTGGTTAATAATTATCCATTAACAACCCGAG
Found at i:467104 original size:26 final size:28
Alignment explanation
Indices: 467058--467118 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 28
467048 ACATATTTAC
*
467058 ATTTATTATTTATAATTTTAT-AA-ATA
1 ATTTATTATTTATAATATTATGAATATA
* *
467084 ATTTATT-TTTATTATAATTATGAATGTA
1 ATTTATTATTTATAAT-ATTATGAATATA
467112 ATTTATT
1 ATTTATT
467119 CTGAATATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 7 0.24
26 11 0.38
27 2 0.07
28 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (28 bp):
ATTTATTATTTATAATATTATGAATATA
Found at i:470266 original size:15 final size:15
Alignment explanation
Indices: 470243--470273 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
470233 TAGAATATTT
470243 AAAACAAAGTAAAAA
1 AAAACAAAGTAAAAA
*
470258 AAAATAAAGTAAAAA
1 AAAACAAAGTAAAAA
470273 A
1 A
470274 TGAAAACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.81, C:0.03, G:0.06, T:0.10
Consensus pattern (15 bp):
AAAACAAAGTAAAAA
Found at i:470798 original size:11 final size:11
Alignment explanation
Indices: 470782--470977 Score: 56
Period size: 11 Copynumber: 16.9 Consensus size: 11
470772 ATATTATTTA
470782 TTAATAATGAT
1 TTAATAATGAT
470793 TTAATACTAATGAT
1 TT-A-A-TAATGAT
*
470807 TTAATAAT-AA
1 TTAATAATGAT
470817 TT--TAATGAT
1 TTAATAATGAT
*
470826 TTGATACTAATAAT
1 TT-A-A-TAATGAT
470840 TTAATAATGATT
1 TTAATAATGA-T
*
470852 ACTACTAATAATGAAA
1 --T--TAATAATG-AT
470868 TT-ATAAT-ATT
1 TTAATAATGA-T
470878 TACTAATAATGAT
1 T--TAATAATGAT
470891 TTAATAATGA-
1 TTAATAATGAT
*
470901 TT-ACAA--AT
1 TTAATAATGAT
470909 TTAATAAT-AT
1 TTAATAATGAT
*
470919 TTAATGAT--T
1 TTAATAATGAT
*
470928 TGATAATAAAGAT
1 T--TAATAATGAT
470941 TACTAATAATGAT
1 T--TAATAATGAT
470954 TTGAAAATAATGAT
1 TT---AATAATGAT
470968 TTAATAATGA
1 TTAATAATGA
470978 ACACTACTAA
Statistics
Matches: 141, Mismatches: 14, Indels: 60
0.66 0.07 0.28
Matches are distributed among these distances:
7 1 0.01
8 6 0.04
9 12 0.09
10 15 0.11
11 39 0.28
12 6 0.04
13 22 0.16
14 31 0.22
16 8 0.06
17 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (11 bp):
TTAATAATGAT
Found at i:470803 original size:14 final size:14
Alignment explanation
Indices: 470777--470975 Score: 79
Period size: 14 Copynumber: 13.7 Consensus size: 14
470767 TAATGATATT
*
470777 ATTTATTAATAATG
1 ATTTAATAATAATG
*
470791 ATTTAATACTAATG
1 ATTTAATAATAATG
470805 ATTTAATAATAATTTAATG
1 A-TT--TAATAA--TAATG
* * *
470824 ATTTGATACTAATA
1 ATTTAATAATAATG
* *
470838 ATTTAATAATGATT
1 ATTTAATAATAATG
* *
470852 A-CTACTAATAATG
1 ATTTAATAATAATG
*
470865 A---AATTATAAT-
1 ATTTAATAATAATG
*
470875 ATTTACTAATAATG
1 ATTTAATAATAATG
**
470889 ATTTAATAATGATTACAA
1 ATTTAATAAT-A--A-TG
470907 ATTTAATAATATTTAATG
1 ATTTAAT-A-A--TAATG
* *
470925 ATTTGATAATAAAG
1 ATTTAATAATAATG
*
470939 A-TTACTAATAATG
1 ATTTAATAATAATG
470952 ATTTGAA-AATAATG
1 ATTT-AATAATAATG
470966 ATTTAATAAT
1 ATTTAATAAT
470976 GAACACTACT
Statistics
Matches: 136, Mismatches: 29, Indels: 40
0.66 0.14 0.20
Matches are distributed among these distances:
10 1 0.01
11 7 0.05
13 28 0.21
14 58 0.43
15 4 0.03
16 5 0.04
17 7 0.05
18 15 0.11
19 8 0.06
20 1 0.01
21 1 0.01
22 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.43
Consensus pattern (14 bp):
ATTTAATAATAATG
Found at i:470804 original size:33 final size:32
Alignment explanation
Indices: 470758--470852 Score: 102
Period size: 33 Copynumber: 2.9 Consensus size: 32
470748 AAAAAACTCA
* * *
470758 ATTTAATAGTAATGATATTATTTATTAA-TAATG
1 ATTTAATACTAATGAT-TTA-ATAATAATTAATG
470791 ATTTAATACTAATGATTTAATAATAATTTAATG
1 ATTTAATACTAATGATTTAATAATAA-TTAATG
* * *
470824 ATTTGATACTAATAATTTAATAATGATTA
1 ATTTAATACTAATGATTTAATAATAATTA
470853 CTACTAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
31 5 0.09
32 6 0.11
33 43 0.80
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (32 bp):
ATTTAATACTAATGATTTAATAATAATTAATG
Found at i:470824 original size:19 final size:22
Alignment explanation
Indices: 470800--470844 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
470790 GATTTAATAC
470800 TAATGATTT-A-A-TAATAATT
1 TAATGATTTGATACTAATAATT
470819 TAATGATTTGATACTAATAATT
1 TAATGATTTGATACTAATAATT
470841 TAAT
1 TAAT
470845 AATGATTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.39
20 1 0.04
21 1 0.04
22 12 0.52
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (22 bp):
TAATGATTTGATACTAATAATT
Found at i:470862 original size:24 final size:24
Alignment explanation
Indices: 470830--470904 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
470820 AATGATTTGA
470830 TACTAATAATTTAATAATGATTAC
1 TACTAATAATTTAATAATGATTAC
470854 TACTAATAATGAAATT-ATAAT-ATTTAC
1 TACTAATAAT----TTAATAATGA-TTAC
* *
470881 TAATAATGATTTAATAATGATTAC
1 TACTAATAATTTAATAATGATTAC
470905 AAATTTAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
23 2 0.05
24 19 0.45
25 1 0.02
26 1 0.02
27 17 0.40
28 2 0.05
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (24 bp):
TACTAATAATTTAATAATGATTAC
Found at i:470928 original size:18 final size:17
Alignment explanation
Indices: 470884--470935 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
470874 TATTTACTAA
470884 TAATGATTTAATAATGAT
1 TAATGATTTAATAAT-AT
*
470902 TACA-AATTTAATAATATT
1 TA-ATGATTTAATAATA-T
*
470920 TAATGATTTGATAATA
1 TAATGATTTAATAATA
470936 AAGATTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.07
18 25 0.89
19 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (17 bp):
TAATGATTTAATAATAT
Found at i:470955 original size:27 final size:25
Alignment explanation
Indices: 470920--470977 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 25
470910 TAATAATATT
*
470920 TAATGATTTGATAATAAAGATTACTAA
1 TAATGATTTGAAAATAAAGATT--TAA
*
470947 TAATGATTTGAAAATAATGATTTAA
1 TAATGATTTGAAAATAAAGATTTAA
470972 TAATGA
1 TAATGA
470978 ACACTACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 9 0.31
27 20 0.69
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (25 bp):
TAATGATTTGAAAATAAAGATTTAA
Found at i:471400 original size:24 final size:24
Alignment explanation
Indices: 471369--471417 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
471359 GATTTGATAC
471369 TAATGATTTAATAATGATTACTAA
1 TAATGATTTAATAATGATTACTAA
*
471393 TAATGATTTAATAATGATTATTAA
1 TAATGATTTAATAATGATTACTAA
471417 T
1 T
471418 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (24 bp):
TAATGATTTAATAATGATTACTAA
Found at i:471446 original size:14 final size:14
Alignment explanation
Indices: 471429--471469 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
471419 TAAAAATATT
471429 TAATGATTTGATAC
1 TAATGATTTGATAC
471443 TAATGATTTGATAC
1 TAATGATTTGATAC
471457 TAATGATTTGATA
1 TAATGATTTGATA
471470 TGATTACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (14 bp):
TAATGATTTGATAC
Found at i:471766 original size:24 final size:24
Alignment explanation
Indices: 471734--471837 Score: 81
Period size: 24 Copynumber: 4.3 Consensus size: 24
471724 AGGGACATCC
*
471734 ATGATTTAGTAATGATTATTAATA
1 ATGATTTAGTAATGATTACTAATA
* * *
471758 ATGATTTAGT-ATTAATA-T-TTA
1 ATGATTTAGTAATGATTACTAATA
*
471779 ATGAGTTGATACTAATGATTACTAATA
1 ATGA-TT--TAGTAATGATTACTAATA
* *
471806 ATGAAATTA-TAATAATTACTAATA
1 ATG-ATTTAGTAATGATTACTAATA
471830 ATGATTTA
1 ATGATTTA
471838 ATATTTAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
21 6 0.10
22 3 0.05
23 9 0.14
24 30 0.48
25 7 0.11
26 1 0.02
27 6 0.10
28 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (24 bp):
ATGATTTAGTAATGATTACTAATA
Found at i:474592 original size:24 final size:26
Alignment explanation
Indices: 474524--474592 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 26
474514 CACATTTCCC
* * *
474524 TTGTTACT-CATTTTATTTAATTGTT
1 TTGTTATTACATTTTATGTAATAGTT
**
474549 TTGTTATTATTTTTTATGTAATAGTT
1 TTGTTATTACATTTTATGTAATAGTT
474575 TT-TT-TTACATTTTATGTA
1 TTGTTATTACATTTTATGTA
474593 TTTTCTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 12 0.33
25 9 0.25
26 15 0.42
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.65
Consensus pattern (26 bp):
TTGTTATTACATTTTATGTAATAGTT
Found at i:474889 original size:4 final size:4
Alignment explanation
Indices: 474880--474955 Score: 63
Period size: 4 Copynumber: 19.0 Consensus size: 4
474870 TTTTATGGAC
474880 TTTA TTTA TTTA -TT- TTTA TGTCT- TTTA TTTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA T-T-TA TTTA -TTTA TTTA TTTA TTTA TTTA
*
474928 TTTCA TTTC TTTA -TT- TTTA TTTAA TTTA
1 TTT-A TTTA TTTA TTTA TTTA TTT-A TTTA
474956 CTTGTTATCG
Statistics
Matches: 60, Mismatches: 2, Indels: 20
0.73 0.02 0.24
Matches are distributed among these distances:
3 9 0.15
4 36 0.60
5 14 0.23
6 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:474896 original size:23 final size:23
Alignment explanation
Indices: 474856--474918 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
474846 TAGTATTTTA
**
474856 TTTATTTCATTTGCTTTTATGGAC-
1 TTTATTT-ATTTATTTTTAT-GACT
*
474880 TTTATTTATTTATTTTTATGTCT
1 TTTATTTATTTATTTTTATGACT
474903 TTTATTTTATTTATTT
1 TTTA-TTTATTTATTT
474919 ATTTATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.06
23 14 0.41
24 18 0.53
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.70
Consensus pattern (23 bp):
TTTATTTATTTATTTTTATGACT
Found at i:474905 original size:32 final size:31
Alignment explanation
Indices: 474852--474930 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
474842 TTTCTAGTAT
474852 TTTATTTATTTCATTTGCTTTTA-TGGACTTTA
1 TTTATTTATTT-ATTTGCTTTTATTGGA-TTTA
**
474884 TTTATTTATTT-TTATGTCTTTTATTTTATTTA
1 TTTATTTATTTATT-TG-CTTTTATTGGATTTA
474916 TTTATTTATTTATTT
1 TTTATTTATTTATTT
474931 CATTTCTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 2 0.05
31 2 0.05
32 33 0.80
33 4 0.10
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (31 bp):
TTTATTTATTTATTTGCTTTTATTGGATTTA
Found at i:474915 original size:9 final size:9
Alignment explanation
Indices: 474849--474955 Score: 60
Period size: 9 Copynumber: 11.8 Consensus size: 9
474839 TATTTTCTAG
474849 TATTTTATT
1 TATTTTATT
*
474858 TATTTCATT
1 TATTTTATT
* *
474867 TGCTTTTATG
1 T-ATTTTATT
* *
474877 GACTTTATT
1 TATTTTATT
*
474886 TATTTATTTT
1 TATTT-TATT
*
474896 TATGTCT-TT
1 TAT-TTTATT
474905 TATTTTATT
1 TATTTTATT
474914 TA-TTTATT
1 TATTTTATT
474922 TA-TTTATT
1 TATTTTATT
*
474930 TCA-TTTCTT
1 T-ATTTTATT
474939 TATTTTTATT
1 TA-TTTTATT
*
474949 TAATTTA
1 TATTTTA
474956 CTTGTTATCG
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
8 18 0.24
9 37 0.49
10 19 0.25
11 1 0.01
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.70
Consensus pattern (9 bp):
TATTTTATT
Found at i:474920 original size:36 final size:36
Alignment explanation
Indices: 474880--474955 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 36
474870 TTTTATGGAC
*
474880 TTTATTTATTTATTTTTATGTCTTT-TATTTTATTT-A
1 TTTATTTATTTA-TTTCATGTCTTTAT-TTTTATTTAA
*
474916 TTTATTTATTTATTTCATTTCTTTATTTTTATTTAA
1 TTTATTTATTTATTTCATGTCTTTATTTTTATTTAA
474952 TTTA
1 TTTA
474956 CTTGTTATCG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
35 18 0.50
36 18 0.50
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (36 bp):
TTTATTTATTTATTTCATGTCTTTATTTTTATTTAA
Found at i:478280 original size:69 final size:69
Alignment explanation
Indices: 478161--478298 Score: 197
Period size: 69 Copynumber: 2.0 Consensus size: 69
478151 GATTTAAACT
* *
478161 ATGAGATTGATCAAGCACAATCATTTCCGAATCATTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAACA
478226 TCAA
66 TCAA
* * * * *
478230 ATGAGATTGATCAAGCACAATCATTTCTGAATTACTGCATCAC-TCTACTCGAAGATCATGGAAC
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTC-ACTCGAAGATCATAGAAC
478294 ATCAA
65 ATCAA
478299 GAGAGAGACA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 2 0.03
69 59 0.97
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAACA
TCAA
Found at i:479291 original size:31 final size:31
Alignment explanation
Indices: 479223--479310 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 31
479213 AGGAACAATG
* * *
479223 AGGGCATCTTTGAAGATTTAACATCAAATGTT
1 AGGGCATATTTG-AGATTCAACATCAAATATT
* * *
479255 AGGGCATTTTTGAGATTCAACGTCGAATATT
1 AGGGCATATTTGAGATTCAACATCAAATATT
* *
479286 GGGGCATATTTGGGAATTCAACATC
1 AGGGCATATTTGAG-ATTCAACATC
479311 CTGATGCAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 26 0.57
32 20 0.43
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (31 bp):
AGGGCATATTTGAGATTCAACATCAAATATT
Found at i:480136 original size:106 final size:106
Alignment explanation
Indices: 479951--480225 Score: 410
Period size: 106 Copynumber: 2.6 Consensus size: 106
479941 GACAAAGGGG
* * * * *
479951 TTTCCCATTTTCAGAGCTAATTTCAACTTCACAGCGAAAGATATTGGAATCGAGACAACACAAGT
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAATACAAGT
*
480016 TCAACTTCACAGCGAAGGAACGGCTGGTTGTCAATAAACAA
66 TCAACTTCACAGCGAAGGAACGACTGGTTGTCAATAAACAA
* *
480057 TTTCCCAGTTTCAAAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAATACAAGT
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAATACAAGT
*
480122 TCAACTTCACAGCGAAGGGACGACTGGTTGTCAATAAACAA
66 TCAACTTCACAGCGAAGGAACGACTGGTTGTCAATAAACAA
* * *
480163 TTTCCCAGTTCCAGAGTCAATTTCAACTTCAC-GACGGAGGATATTGGACTC-AGAACAATACAA
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTCGAG-ACAATACAA
480226 CTTACTTGGA
Statistics
Matches: 153, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
105 3 0.02
106 150 0.98
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (106 bp):
TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAATACAAGT
TCAACTTCACAGCGAAGGAACGACTGGTTGTCAATAAACAA
Found at i:480567 original size:87 final size:87
Alignment explanation
Indices: 480473--480722 Score: 401
Period size: 87 Copynumber: 2.9 Consensus size: 87
480463 CAGTTTCTCT
**
480473 TGAAACATAAACATTGAAAACATTTCAATTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCT
1 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCT
480538 TGAAACAAAATTTTGTCTCCCA
66 TGAAACAAAATTTTGTCTCCCA
* *
480560 TGAAACATAAACATTGAAAATATTTCCCTTGAAATGAATTTTATCTCGATTGATATAGTTTCCCT
1 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCT
* *
480625 TGAAAAAAAATTTTGTCTCCCT
66 TGAAACAAAATTTTGTCTCCCA
* * * * *
480647 TGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTTGCTTGGGGTAGTTTCCCT
1 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCT
480712 TGAAACAAAAT
66 TGAAACAAAAT
480723 CGTCTCCCTT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 149 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (87 bp):
TGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCT
TGAAACAAAATTTTGTCTCCCA
Found at i:480870 original size:21 final size:20
Alignment explanation
Indices: 480849--480907 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 20
480839 TTTTGGAAGT
480849 TTTTGTCTCTCTTGAGACAG
1 TTTTGTCTCTCTTGAGACAG
*
480869 ---T-T-TCTCTTGAAACAAG
1 TTTTGTCTCTCTTGAGAC-AG
480885 TTTTGTCTCTCTTGAGACAG
1 TTTTGTCTCTCTTGAGACAG
480905 TTT
1 TTT
480908 CCCTTGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
15 10 0.32
16 3 0.10
17 1 0.03
19 1 0.03
20 6 0.19
21 10 0.32
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (20 bp):
TTTTGTCTCTCTTGAGACAG
Found at i:480896 original size:36 final size:36
Alignment explanation
Indices: 480808--480917 Score: 136
Period size: 36 Copynumber: 3.1 Consensus size: 36
480798 GTTCTACGTT
* * * *
480808 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTG
1 AAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
480844 ---GAAGTTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAG-TTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
480878 AAACAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
480914 AAAC
1 AAAC
480918 TTCAACCTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
33 2 0.03
34 26 0.41
36 32 0.51
37 3 0.05
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (36 bp):
AAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:482187 original size:2 final size:2
Alignment explanation
Indices: 482182--482296 Score: 93
Period size: 2 Copynumber: 61.0 Consensus size: 2
482172 TTTACTTTAG
* * *
482182 TA TA TA TA TA TA TA TA TA TT TA GA T- TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
482223 TA TA TA TG T- TA -A T- TT TCA T- TA TA TG T- TT TA T- TA -A TT
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
482259 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
482297 CACTATTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
1 8 0.09
2 83 0.90
3 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:482496 original size:4 final size:4
Alignment explanation
Indices: 482487--482541 Score: 62
Period size: 4 Copynumber: 13.8 Consensus size: 4
482477 TTTTATGGAC
482487 TTTA TTTA TTTA -TT- TTTA TGTCT- TTTA TTTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA T-T-TA TTTA -TTTA TTTA TTTA TTTA TTTA
482535 TTTA TTT
1 TTTA TTT
482542 CGTTTCTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
3 5 0.11
4 33 0.73
5 6 0.13
6 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:482503 original size:23 final size:23
Alignment explanation
Indices: 482463--482525 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
482453 TAGTATTTTA
**
482463 TTTATTTCATTTGCTTTTATGGAC-
1 TTTATTT-ATTTATTTTTAT-GACT
*
482487 TTTATTTATTTATTTTTATGTCT
1 TTTATTTATTTATTTTTATGACT
482510 TTTATTTTATTTATTT
1 TTTA-TTTATTTATTT
482526 ATTTATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.06
23 14 0.41
24 18 0.53
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.70
Consensus pattern (23 bp):
TTTATTTATTTATTTTTATGACT
Found at i:482512 original size:32 final size:31
Alignment explanation
Indices: 482459--482537 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
482449 TTTCTAGTAT
482459 TTTATTTATTTCATTTGCTTTTA-TGGACTTTA
1 TTTATTTATTT-ATTTGCTTTTATTGGA-TTTA
**
482491 TTTATTTATTT-TTATGTCTTTTATTTTATTTA
1 TTTATTTATTTATT-TG-CTTTTATTGGATTTA
482523 TTTATTTATTTATTT
1 TTTATTTATTTATTT
482538 ATTTCGTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 2 0.05
31 2 0.05
32 33 0.80
33 4 0.10
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (31 bp):
TTTATTTATTTATTTGCTTTTATTGGATTTA
Found at i:482578 original size:33 final size:31
Alignment explanation
Indices: 482523--482592 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
482513 ATTTTATTTA
* **
482523 TTTATTTATTTATTTATTTCGTTTCTTTATT
1 TTTATTTATTTACTTATTTCGTTAATTTATT
*
482554 TTTATTTAATTTACTTGTTATCGTTAATTTATT
1 TTTATTT-ATTTACTTATT-TCGTTAATTTATT
*
482587 ATTATT
1 TTTATT
482593 CTTTCCTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 7 0.22
32 9 0.28
33 16 0.50
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (31 bp):
TTTATTTATTTACTTATTTCGTTAATTTATT
Found at i:483599 original size:30 final size:31
Alignment explanation
Indices: 483535--483599 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
483525 TAAAAGTCAC
* * ** *
483535 AAATCGATCTCTAATGTTATCGTTTGTTATA
1 AAATCGATCACTAACGTTATCGTTTACTACA
483566 AAAT-GATCACTAACGTTATCGTTTACTACA
1 AAATCGATCACTAACGTTATCGTTTACTACA
483596 AAAT
1 AAAT
483600 TGTCACTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (31 bp):
AAATCGATCACTAACGTTATCGTTTACTACA
Found at i:488451 original size:24 final size:24
Alignment explanation
Indices: 488401--488462 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
488391 TTCTGTTATA
*
488401 ATACTTGACTTGGATTCTAAACGG
1 ATACTTGACCTGGATTCTAAACGG
* * * *
488425 ATACTTGACCTGGATTTTGATCTG
1 ATACTTGACCTGGATTCTAAACGG
488449 ATACTTGACCTGGA
1 ATACTTGACCTGGA
488463 CTATGTTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTAAACGG
Found at i:490842 original size:183 final size:183
Alignment explanation
Indices: 490534--490901 Score: 736
Period size: 183 Copynumber: 2.0 Consensus size: 183
490524 GAGGAATTAT
490534 TGGAAGATGATTTCAAGATTGAGGGCGTTCAAATGGAATTTAAATGGTCGATCAGTATGGCACGG
1 TGGAAGATGATTTCAAGATTGAGGGCGTTCAAATGGAATTTAAATGGTCGATCAGTATGGCACGG
490599 AAAACGAGGTAATACATTACTACCTTTTCATGTTTTATGGAACATATTGGTATTGGTAAATGCAT
66 AAAACGAGGTAATACATTACTACCTTTTCATGTTTTATGGAACATATTGGTATTGGTAAATGCAT
490664 GAATGAATATGTTTGGTCTCATTTGGGTATTTAATTAATTCATACACTCGATA
131 GAATGAATATGTTTGGTCTCATTTGGGTATTTAATTAATTCATACACTCGATA
490717 TGGAAGATGATTTCAAGATTGAGGGCGTTCAAATGGAATTTAAATGGTCGATCAGTATGGCACGG
1 TGGAAGATGATTTCAAGATTGAGGGCGTTCAAATGGAATTTAAATGGTCGATCAGTATGGCACGG
490782 AAAACGAGGTAATACATTACTACCTTTTCATGTTTTATGGAACATATTGGTATTGGTAAATGCAT
66 AAAACGAGGTAATACATTACTACCTTTTCATGTTTTATGGAACATATTGGTATTGGTAAATGCAT
490847 GAATGAATATGTTTGGTCTCATTTGGGTATTTAATTAATTCATACACTCGATA
131 GAATGAATATGTTTGGTCTCATTTGGGTATTTAATTAATTCATACACTCGATA
490900 TG
1 TG
490902 AATGCGGTAA
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 185 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (183 bp):
TGGAAGATGATTTCAAGATTGAGGGCGTTCAAATGGAATTTAAATGGTCGATCAGTATGGCACGG
AAAACGAGGTAATACATTACTACCTTTTCATGTTTTATGGAACATATTGGTATTGGTAAATGCAT
GAATGAATATGTTTGGTCTCATTTGGGTATTTAATTAATTCATACACTCGATA
Found at i:492837 original size:24 final size:24
Alignment explanation
Indices: 492776--492842 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
492766 TTCTATTATA
*
492776 ATACCTTACTTGGATTATGAACGG
1 ATACTTTACTTGGATTATGAACGG
* * * * *
492800 ATACTTGACCTGGATTTTGATCTG
1 ATACTTTACTTGGATTATGAACGG
*
492824 ATACTTTACTTGGACTATG
1 ATACTTTACTTGGATTATG
492843 TTTTGATTTT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (24 bp):
ATACTTTACTTGGATTATGAACGG
Found at i:501008 original size:60 final size:60
Alignment explanation
Indices: 500904--501069 Score: 208
Period size: 60 Copynumber: 2.8 Consensus size: 60
500894 TTACATATTT
* * * *
500904 GGATGAAATTGGAATGTTTAACAAGTTTGAGGACTAATTTAGAATGA-ATTTCATAGTTTGG
1 GGATGAAATTGAAATGTTTAA-AAGTTTAAGGACTAATTTAGAATGATA-ATCATAGTTTAG
* *
500965 GGATGAAATTGAAATGTTTAAAAGTTTAATGACTAATTTAGAATGATAATCATATTTTAG
1 GGATGAAATTGAAATGTTTAAAAGTTTAAGGACTAATTTAGAATGATAATCATAGTTTAG
* * * * *
501025 GGATGAAATTGTAATATTTAAACGTTTAAGGACCAATTTAAAATG
1 GGATGAAATTGAAATGTTTAAAAGTTTAAGGACTAATTTAGAATG
501070 GGAGTAATAC
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
60 71 0.77
61 21 0.23
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (60 bp):
GGATGAAATTGAAATGTTTAAAAGTTTAAGGACTAATTTAGAATGATAATCATAGTTTAG
Found at i:501229 original size:59 final size:58
Alignment explanation
Indices: 501143--501273 Score: 133
Period size: 59 Copynumber: 2.2 Consensus size: 58
501133 TTTATAAGAT
* **
501143 AAAG-TACACAAATGATCCCCTAACTATATGGTGATT-TTTATTGAGTCCTTC-GAATATTA
1 AAAGTTACA-AAATAATCCCCTAACTATA-GGACATTCTTTATTGAGTCC--CGGAATATTA
* * * *
501202 AAAGTTACAAAATAATCCTCTGACTATAGGACATTGCTTTGTTGAGTCCCGGACTATTA
1 AAAGTTACAAAATAATCCCCTAACTATAGGACATT-CTTTATTGAGTCCCGGAATATTA
501261 AAAGTTACAAAAT
1 AAAGTTACAAAAT
501274 GGTCACCCGA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
58 6 0.10
59 40 0.66
60 15 0.25
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (58 bp):
AAAGTTACAAAATAATCCCCTAACTATAGGACATTCTTTATTGAGTCCCGGAATATTA
Found at i:511272 original size:21 final size:23
Alignment explanation
Indices: 511248--511289 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
511238 TTCATTATAA
511248 ATTAATA-TTTTT-AATTAATTT
1 ATTAATATTTTTTGAATTAATTT
*
511269 ATTATTATTTTTTGAATTAAT
1 ATTAATATTTTTTGAATTAAT
511290 CACGGGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTAATATTTTTTGAATTAATTT
Found at i:511542 original size:16 final size:16
Alignment explanation
Indices: 511521--511555 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
511511 TAAAACTTAT
*
511521 AAAAAATATATTTTAAA
1 AAAAAAT-TATATTAAA
511538 AAAAAATTATATTAAA
1 AAAAAATTATATTAAA
511554 AA
1 AA
511556 TTTTAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAAATTATATTAAA
Done.