Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 20
Found at i:1396854 original size:13 final size:13
Alignment explanation
Indices: 1396836--1396862 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1396826 ATAATAACCC
1396836 ATGTATCGATACA
1 ATGTATCGATACA
1396849 ATGTATCGATACA
1 ATGTATCGATACA
1396862 A
1 A
1396863 GGAATGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1403085 original size:20 final size:20
Alignment explanation
Indices: 1403043--1403096 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
1403033 ATTACAAGTA
* *
1403043 ATGTTTCGATACAATTCATC
1 ATGTATCGATACAATTCACC
1403063 ATGTATCGATACAATGT-ACC
1 ATGTATCGATACAAT-TCACC
* *
1403083 ATGCATCAATACAA
1 ATGTATCGATACAA
1403097 ATAGTGGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:1404935 original size:19 final size:20
Alignment explanation
Indices: 1404910--1404965 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
1404900 TTGTATTGAT
*
1404910 ACATTGTATCGATACATG-C
1 ACATTGTATCGATACATGAA
* *
1404929 TCATTGTATCGTTACATGAA
1 ACATTGTATCGATACATGAA
*
1404949 AAATTGTATCGATACAT
1 ACATTGTATCGATACAT
1404966 TATGCCCAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (20 bp):
ACATTGTATCGATACATGAA
Found at i:1405414 original size:19 final size:19
Alignment explanation
Indices: 1405367--1405439 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
1405357 ATTTCAATAA
*
1405367 TTTGTATCGATACATTCAGT
1 TTTGTATCGATACA-TAAGT
** *
1405387 AAATGTATCAATACATAAGT
1 -TTTGTATCGATACATAAGT
1405407 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1405426 TTTGTATCGATACA
1 TTTGTATCGATACA
1405440 ATGTATCGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 30 0.67
20 4 0.09
21 11 0.24
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1405489 original size:13 final size:13
Alignment explanation
Indices: 1405471--1405498 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1405461 GCTAAGGAAA
1405471 TGTATCGATACAT
1 TGTATCGATACAT
1405484 TGTATCGATACAT
1 TGTATCGATACAT
1405497 TG
1 TG
1405499 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1407189 original size:52 final size:53
Alignment explanation
Indices: 1407132--1407255 Score: 162
Period size: 52 Copynumber: 2.4 Consensus size: 53
1407122 CAATTGTTCA
* *
1407132 TAATCGGGGATACTCTAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTT
* * * *
1407184 TAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTC-A
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTT
* *
1407236 CAATCGAGGATACTCCAACC
1 TAATCGGGGATACTCCAACC
1407256 TCGTTATTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 47 0.76
53 15 0.24
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (53 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTT
Found at i:1407274 original size:28 final size:29
Alignment explanation
Indices: 1407238--1407314 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 29
1407228 ATTTTTCACA
* * *
1407238 ATCGAGGATACTCCAACCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCTCGTTACCTCC
*
1407266 ATCGGGGATACTCCAACCCCGTTACCTCC
1 ATCGGGGATACTCCAACCTCGTTACCTCC
*
1407295 A-AGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
1407315 GCTTTATTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 39 0.93
29 3 0.07
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCTCGTTACCTCC
Found at i:1411181 original size:49 final size:51
Alignment explanation
Indices: 1411121--1411231 Score: 154
Period size: 50 Copynumber: 2.2 Consensus size: 51
1411111 AAAATAATGT
* * **
1411121 GGTTGGAGTATCCCCGA-GATGAAAAATCGATATTTTGGAAA-AAAAACGG
1 GGTTGGAGTATCCCCGATGATAAAAAATCGATATTTTGAAAATAAAAACAA
* *
1411170 GGTTGGAGTATCCTCGATGGTAAAAAATCGATATTTTGAAAATAAAAACAA
1 GGTTGGAGTATCCCCGATGATAAAAAATCGATATTTTGAAAATAAAAACAA
1411221 GGTTGGAGTAT
1 GGTTGGAGTAT
1411232 ACCTTAGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 16 0.30
50 21 0.39
51 17 0.31
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATGATAAAAAATCGATATTTTGAAAATAAAAACAA
Found at i:1411899 original size:230 final size:230
Alignment explanation
Indices: 1411471--1411930 Score: 688
Period size: 230 Copynumber: 2.0 Consensus size: 230
1411461 ATAAGACACC
* *
1411471 GTTAGAAAGATATTTTGATGTATTTTTATGAAAAAATATTAGAAAATTCATAAAAAAATCGTTTA
1 GTTAGAAAGATATTTTGATATATTTTTAAGAAAAAATATTAGAAAATTCATAAAAAAA-CGTTTA
* *
1411536 ATAGTTTAAAATAATTTTCAAGCTCATGCTTTAGTGTTGGCAGAACAAGGCAAATGAGGTATTTG
65 ATAGTTTAAAATAATTTTCAAGCTCATGCTTTAGTGTTGGCAGAACAAGGCAAAGGAGGTATCTG
* * * * * ** *
1411601 GTATTTTTGATTTCTCAATTAGCTTGAACTCGGGCCATGGACGTTTGAACATCCGTAATTGAGAG
130 GTATTTTCGATCTCTCAATTAGCTTGAACTCAGGCCACGAACGTTCAAACATCCATAATTGAGAG
1411666 GAGGGGGTGACATAGGCATCATGAGTTCATTCCACT
195 GAGGGGGTGACATAGGCATCATGAGTTCATTCCACT
* **
1411702 GTTAGAAAGATATTTTGATATATTTTTAAGGAAAAATATTAGAAAATTGGTCAAAAAAA-GTTTA
1 GTTAGAAAGATATTTTGATATATTTTTAAGAAAAAATATTAGAAAATTCAT-AAAAAAACGTTTA
*
1411766 ATATTTTAAAATAATTTTCAAGCTCATGCTTTAGTGTTGGCAGAACAAGGCAAAGGAGGTATCTG
65 ATAGTTTAAAATAATTTTCAAGCTCATGCTTTAGTGTTGGCAGAACAAGGCAAAGGAGGTATCTG
* * * * *
1411831 GTATTTTCGATCTCTCAATTGGGTTGAACTCAGGCCACGAATGTTCAAACATCTATAATTGGGAG
130 GTATTTTCGATCTCTCAATTAGCTTGAACTCAGGCCACGAACGTTCAAACATCCATAATTGAGAG
* *
1411896 GAGGGGGTGGCATTGGCATCATGAGTTCATTCCAC
195 GAGGGGGTGACATAGGCATCATGAGTTCATTCCAC
1411931 AATCCCAGAG
Statistics
Matches: 205, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
230 152 0.74
231 46 0.22
232 7 0.03
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (230 bp):
GTTAGAAAGATATTTTGATATATTTTTAAGAAAAAATATTAGAAAATTCATAAAAAAACGTTTAA
TAGTTTAAAATAATTTTCAAGCTCATGCTTTAGTGTTGGCAGAACAAGGCAAAGGAGGTATCTGG
TATTTTCGATCTCTCAATTAGCTTGAACTCAGGCCACGAACGTTCAAACATCCATAATTGAGAGG
AGGGGGTGACATAGGCATCATGAGTTCATTCCACT
Found at i:1414265 original size:70 final size:66
Alignment explanation
Indices: 1414173--1414335 Score: 172
Period size: 63 Copynumber: 2.4 Consensus size: 66
1414163 AAAGTACCAC
* *
1414173 CAACTTGTGTGGCCTTTGAAAAAGAAAAAGAAAAAAAGCATCCTGCTCTTTAAGGACGAAAAGAT
1 CAACTTGTGTGG-CTTTTAAAAAG-AAAAG-AAAAAA-CATCCCGCTCTTTAAGGACGAAAAGAT
1414238 GCCAT
62 GCCAT
* * * *
1414243 CAACTTGTGTGAGCTTTTAAAAAG----GTAAAGACATCCCGCTCTTTGAGGACTAAAAGATGCC
1 CAACTTGTGTG-GCTTTTAAAAAGAAAAGAAAAAACATCCCGCTCTTTAAGGACGAAAAGATGCC
1414304 AT
65 AT
*
1414306 CAACTTGTTTGGGCTTTTAAAAAAGAAAAG
1 CAACTTGTGT-GGCTTTT-AAAAAGAAAAG
1414336 GCGTCCTGCT
Statistics
Matches: 79, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
63 44 0.56
64 11 0.14
65 1 0.01
68 1 0.01
70 21 0.27
71 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (66 bp):
CAACTTGTGTGGCTTTTAAAAAGAAAAGAAAAAACATCCCGCTCTTTAAGGACGAAAAGATGCCA
T
Found at i:1414310 original size:63 final size:63
Alignment explanation
Indices: 1414205--1414893 Score: 648
Period size: 63 Copynumber: 11.0 Consensus size: 63
1414195 AGAAAAAGAA
* * * * * *
1414205 AAAAAGCATCCTGCTCTTTAAGGACGAAAAGATGCCATCAACTTGTGTGAGCTTTTAAAAAGG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGG
* * * * * * *
1414268 TAAAGACATCCCGCTCTTTGAGGACTAAAAGATGCCATCAACTTGTTTGGGCTTTTAAAAAAG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGG
* * * ** *
1414331 AAAAGGCGTCCTGCTCTTTGAGGATTAAAAGGTGCTACCAGTTTGTGTGGGCTTTAAAAAAAGAG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-TAAAAAG-G
* * * * * * *
1414396 AAAA-TCATCTTGCTTTTTAAGGACTAAAAGGTACCACCAATTTGTGTGGGC--TTCAAAAGG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGG
* * * * *
1414456 AAAA-GCATTCTACTCTGTGAGGACT-AAATGTGCCACCAACTTGTGCGGGC-TTT-AAAA--
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGG
* * * * * *
1414513 AAAAGACAACCTTCTCTTTGAGGACTAAAAGGTACTACCAGCTTGTGTGGGCTTTTAAAAA-G
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGG
** * * * *
1414575 AAAAGGGTGTCCTACTCTTTAAAGACTAAAAGGTGCCACCAACTTGTATGGGCTTTTAAAAAGG
1 AAAA-GGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGG
* * **
1414639 AAAAGGCATCCTGCTCTTTAAGGACTAAAATGT-CTCACCAGTTTGTGTGGGCTTTTAAAAAGG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGC-CACCAACTTGTGTGGGCTTTTAAAAAGG
* * *
1414702 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTACAACCAATTTGTGTGGGCTTTTAAAAAGG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGG
* * * * * * * * * ** *
1414765 AAAAAGCTTCCTACTTTTTGAGGACTAAAAAGTGCCGCCAGCTTGTATAGGCTTCAAAAGAAAAA
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT--TTA-AAAAG
1414830 G
63 G
* *
1414831 AAAA-GCATCTTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC-TTTAAAAAGG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGG
1414892 AA
1 AA
1414894 GAAAAAAGAG
Statistics
Matches: 508, Mismatches: 103, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
57 4 0.01
58 16 0.03
59 45 0.09
60 24 0.05
61 16 0.03
62 7 0.01
63 292 0.57
64 50 0.10
65 45 0.09
66 9 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (63 bp):
AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGG
Found at i:1414932 original size:30 final size:29
Alignment explanation
Indices: 1414898--1414989 Score: 114
Period size: 29 Copynumber: 3.1 Consensus size: 29
1414888 AAGGAAGAAA
*
1414898 AAAGAGTGCCACTAAGTCGTGGACTTTGAG
1 AAAGA-TGCCACTGAGTCGTGGACTTTGAG
*
1414928 AAAGATACCACTGAGTCGTGGACTTTGAG
1 AAAGATGCCACTGAGTCGTGGACTTTGAG
** *
1414957 ATTGAATGCCACTGGGTCGTGGACTTTG-G
1 AAAG-ATGCCACTGAGTCGTGGACTTTGAG
1414986 AAAG
1 AAAG
1414990 GTTACTTTAC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 27 0.51
30 26 0.49
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (29 bp):
AAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:1417155 original size:20 final size:21
Alignment explanation
Indices: 1417114--1417160 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
1417104 TATTTACAAT
*
1417114 ATGTATCGATACAATTAGTGA
1 ATGTATCGATACAATAAGTGA
1417135 ATGTATCGATAC-ATAAGTGA
1 ATGTATCGATACAATAAGTGA
1417155 ATGTAT
1 ATGTAT
1417161 TAATAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (21 bp):
ATGTATCGATACAATAAGTGA
Found at i:1417257 original size:20 final size:20
Alignment explanation
Indices: 1417234--1417288 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1417224 ATACATAAGT
1417234 AAATGTATCGATACATTTCC
1 AAATGTATCGATACATTTCC
*
1417254 AAATGTATTGATACATTTCC
1 AAATGTATCGATACATTTCC
*
1417274 AAATGTATCAATACA
1 AAATGTATCGATACA
1417289 ATTTACTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (20 bp):
AAATGTATCGATACATTTCC
Found at i:1419799 original size:20 final size:19
Alignment explanation
Indices: 1419774--1419841 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
1419764 ACTAGCATGC
1419774 ATGTATCGATACATCAAAAA
1 ATGTATCGATACATC-AAAA
1419794 ATGTATCGAT--ATGC----
1 ATGTATCGATACAT-CAAAA
1419808 ATGTATCGATACATCGAAAA
1 ATGTATCGATACATC-AAAA
1419828 ATGTATCGATACAT
1 ATGTATCGATACAT
1419842 TTGGGTCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
18 2 0.05
19 1 0.03
20 24 0.60
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACATCAAAA
Found at i:1419808 original size:34 final size:34
Alignment explanation
Indices: 1419770--1419838 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
1419760 TCAAACTAGC
1419770 ATGCATGTATCGATACATCAAAAAATGTATCGAT
1 ATGCATGTATCGATACATCAAAAAATGTATCGAT
*
1419804 ATGCATGTATCGATACATCGAAAAATGTATCGAT
1 ATGCATGTATCGATACATCAAAAAATGTATCGAT
1419838 A
1 A
1419839 CATTTGGGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (34 bp):
ATGCATGTATCGATACATCAAAAAATGTATCGAT
Found at i:1423273 original size:51 final size:51
Alignment explanation
Indices: 1423112--1423282 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
1423102 GAAATAACGA
* * *
1423112 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1423164 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * * *
1423217 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTAGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1423268 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1423283 TCAGAAATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 38 0.40
52 16 0.17
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1423328 original size:27 final size:28
Alignment explanation
Indices: 1423266--1423340 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 28
1423256 AAATAAAGTA
*
1423266 GGGGTTGGAGTATCCCCTCA-GAAATAAC
1 GGGGTTGGAGTATCCCC-GATGAAATAAC
*
1423294 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
1423321 GGGGTTGGAGTGTCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
1423341 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:1425826 original size:13 final size:13
Alignment explanation
Indices: 1425808--1425833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1425798 ACAAAGATCC
1425808 ATGTATCGATACA
1 ATGTATCGATACA
1425821 ATGTATCGATACA
1 ATGTATCGATACA
1425834 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1425829 original size:33 final size:33
Alignment explanation
Indices: 1425787--1425853 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1425777 AAAATTTCCA
***
1425787 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1425820 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1425853 A
1 A
1425854 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1425897 original size:19 final size:18
Alignment explanation
Indices: 1425873--1425940 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1425863 CAGTAGCTAA
1425873 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1425892 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1425907 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1425924 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1425941 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1425913 original size:13 final size:13
Alignment explanation
Indices: 1425895--1425919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1425885 ACAATACTTA
1425895 TGTATCGATACAT
1 TGTATCGATACAT
1425908 TGTATCGATACA
1 TGTATCGATACA
1425920 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1425917 original size:32 final size:32
Alignment explanation
Indices: 1425876--1425938 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1425866 TAGCTAATTA
*
1425876 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1425908 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1425939 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1426020 original size:14 final size:13
Alignment explanation
Indices: 1426004--1426029 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1425994 TTTTTTTTTT
1426004 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
1426017 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
1426030 CACTTTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTTTTTCAAA
Found at i:1430795 original size:20 final size:20
Alignment explanation
Indices: 1430770--1430824 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1430760 AATTTCCCAG
1430770 ATGTATCGATACATT-ACTCA
1 ATGTATCGATACATTGACT-A
*
1430790 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGACTA
*
1430810 ATGTATCAATACATT
1 ATGTATCGATACATT
1430825 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGACTA
Found at i:1432382 original size:49 final size:49
Alignment explanation
Indices: 1432310--1432407 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
1432300 GCCTCCGTAC
1432310 AAAGACATTCAAGGGTTTTATTGTAATAGGCTTAATATGTTAATTATCA
1 AAAGACATTCAAGGGTTTTATTGTAATAGGCTTAATATGTTAATTATCA
*
1432359 AAAGACATTCAAGGGTTTTATTGTAATAGGCTTAATATGTTGATTATCA
1 AAAGACATTCAAGGGTTTTATTGTAATAGGCTTAATATGTTAATTATCA
1432408 TTTCATTAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (49 bp):
AAAGACATTCAAGGGTTTTATTGTAATAGGCTTAATATGTTAATTATCA
Found at i:1435291 original size:55 final size:55
Alignment explanation
Indices: 1435207--1435884 Score: 1014
Period size: 55 Copynumber: 12.3 Consensus size: 55
1435197 ATAAATTGTA
* * * * * *
1435207 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1435262 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1435317 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
1435372 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1435427 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1435482 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
1435537 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
1435592 TCCTGTTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1435647 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1435702 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1435757 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1435812 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1435867 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1435885 AAAAAGCGGA
Statistics
Matches: 582, Mismatches: 32, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
54 14 0.02
55 556 0.96
56 12 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:1435414 original size:165 final size:165
Alignment explanation
Indices: 1435207--1435884 Score: 1130
Period size: 165 Copynumber: 4.1 Consensus size: 165
1435197 ATAAATTGTA
* * * * *
1435207 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* *
1435271 TTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGGGGAATG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGAATG
1435336 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1435372 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
1435437 TGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGGGGAATGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGAATGA
1435502 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
1435537 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGTTCGT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * *
1435602 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGAAT-
* *
1435666 GAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
129 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1435702 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
1435767 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AAGTGTCCTGCTCTTTGAGGAATG
1435831 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1435867 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1435885 AAAAAGCGGA
Statistics
Matches: 488, Mismatches: 19, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
164 10 0.02
165 466 0.95
166 12 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGAATGA
AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:1435777 original size:26 final size:26
Alignment explanation
Indices: 1435748--1435837 Score: 83
Period size: 26 Copynumber: 3.3 Consensus size: 26
1435738 GTGTGGGCTT
1435748 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
1435774 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
*
1435801 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
1435829 TGAAAGGTG
1 TGAAAGGTG
1435838 CCACCAACTT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:1436884 original size:14 final size:14
Alignment explanation
Indices: 1436867--1436906 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1436857 TTTTCTCTCT
1436867 TTTTCTTTGTTTTG
1 TTTTCTTTGTTTTG
* *
1436881 TTTTTTTTGTTTTT
1 TTTTCTTTGTTTTG
1436895 TTTTCTTT-TTTT
1 TTTTCTTTGTTTT
1436907 TTGAAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (14 bp):
TTTTCTTTGTTTTG
Found at i:1455456 original size:51 final size:51
Alignment explanation
Indices: 1455296--1455466 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1455286 GAAATAACGA
* * *
1455296 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1455348 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1455401 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1455452 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1455467 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1455512 original size:27 final size:28
Alignment explanation
Indices: 1455449--1455524 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
1455439 AAAATAAAGT
*
1455449 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
1455477 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1455504 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1455525 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1458011 original size:13 final size:13
Alignment explanation
Indices: 1457993--1458018 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1457983 ACAAAGATCC
1457993 ATGTATCGATACA
1 ATGTATCGATACA
1458006 ATGTATCGATACA
1 ATGTATCGATACA
1458019 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1458014 original size:33 final size:33
Alignment explanation
Indices: 1457972--1458038 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1457962 AAAATTTCCA
***
1457972 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1458005 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1458038 A
1 A
1458039 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1458082 original size:19 final size:18
Alignment explanation
Indices: 1458058--1458125 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1458048 CAGTAGCTAA
1458058 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1458077 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1458092 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1458109 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1458126 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1458098 original size:13 final size:13
Alignment explanation
Indices: 1458080--1458104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1458070 ACAATACTTA
1458080 TGTATCGATACAT
1 TGTATCGATACAT
1458093 TGTATCGATACA
1 TGTATCGATACA
1458105 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1458102 original size:32 final size:32
Alignment explanation
Indices: 1458061--1458123 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1458051 TAGCTAATTA
*
1458061 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1458093 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1458124 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1458205 original size:15 final size:14
Alignment explanation
Indices: 1458188--1458215 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1458178 ATTTTTTTTT
1458188 TTTTTTTTTTCAAA
1 TTTTTTTTTTCAAA
1458202 TTTTTTTTTTCAAA
1 TTTTTTTTTTCAAA
1458216 CACTTTATCT
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:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTTTTTTCAAA
Found at i:1462982 original size:20 final size:20
Alignment explanation
Indices: 1462957--1463011 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1462947 AATTTCCCAG
1462957 ATGTATCGATACATT-ACTCA
1 ATGTATCGATACATTGACT-A
*
1462977 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGACTA
*
1462997 ATGTATCAATACATT
1 ATGTATCGATACATT
1463012 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGACTA
Found at i:1464569 original size:49 final size:49
Alignment explanation
Indices: 1464497--1464594 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
1464487 GCCTCCGTAC
1464497 AAAGACATTCAAGGGTTTTATTGTAATAGGCTTAATATGTTAATTATCA
1 AAAGACATTCAAGGGTTTTATTGTAATAGGCTTAATATGTTAATTATCA
*
1464546 AAAGACATTCAAGGGTTTTATTGTAATAGGCTTAATATGTTGATTATCA
1 AAAGACATTCAAGGGTTTTATTGTAATAGGCTTAATATGTTAATTATCA
1464595 TTTCATTAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (49 bp):
AAAGACATTCAAGGGTTTTATTGTAATAGGCTTAATATGTTAATTATCA
Found at i:1469300 original size:33 final size:33
Alignment explanation
Indices: 1469223--1469571 Score: 239
Period size: 32 Copynumber: 10.7 Consensus size: 33
1469213 TTCTCTTTTT
* *
1469223 AGAATCAAACTTGTGTCCTTCTAAACAAGTCAA
1 AGAATCAAACTTGTATCCTTCTAAACAAGTTAA
*
1469256 A-AATCAAACTTGTAT-CTTCTAAAACAAATTAA
1 AGAATCAAACTTGTATCCTTCT-AAACAAGTTAA
* * *
1469288 AGAGTCAAACTTGTATCCTTCTGAATAAGTTAA
1 AGAATCAAACTTGTATCCTTCTAAACAAGTTAA
* *
1469321 AGAATCAAACTTGTATCTTTTTAAACAAGTTAA
1 AGAATCAAACTTGTATCCTTCTAAACAAGTTAA
* * *
1469354 AGAATCAAGCTTGTATCCTTCTGAAC-A-TGACA
1 AGAATCAAACTTGTATCCTTCTAAACAAGTTA-A
* * * ** * * *
1469386 AGAGTTAAACCTACATCCTTCTGAACACG-TCA
1 AGAATCAAACTTGTATCCTTCTAAACAAGTTAA
** * *
1469418 AGTGTCACACTTGTATCATTCTAAACAAGTTAA
1 AGAATCAAACTTGTATCCTTCTAAACAAGTTAA
* * * *
1469451 AGAGTCAAACTTGTATCCTTTTGAACAA--AACA
1 AGAATCAAACTTGTATCCTTCTAAACAAGTTA-A
* * * * *
1469483 AGATTTAAACCTATATCCTTCTAAACAAGAT-A
1 AGAATCAAACTTGTATCCTTCTAAACAAGTTAA
* ** * * *
1469515 AGAGTTGAACATGCATCCTTCTAAATAAGTTAA
1 AGAATCAAACTTGTATCCTTCTAAACAAGTTAA
* *
1469548 A-AAGTCAAACCTGTATCTTTCTAA
1 AGAA-TCAAACTTGTATCCTTCTAA
1469572 TCAAAGCCAA
Statistics
Matches: 242, Mismatches: 62, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
31 8 0.03
32 115 0.48
33 114 0.47
34 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (33 bp):
AGAATCAAACTTGTATCCTTCTAAACAAGTTAA
Found at i:1469339 original size:66 final size:65
Alignment explanation
Indices: 1469223--1469380 Score: 226
Period size: 66 Copynumber: 2.4 Consensus size: 65
1469213 TTCTCTTTTT
* *
1469223 AGAATCAAACTTGTGTCCTTCTAAACAAGTCAAAAATCAAACTTGTATCTTCTAAAACAAATTAA
1 AGAATCAAACTTGTATCCTTCTGAACAAGTCAAAAATCAAACTTGTATCTTCTAAAACAAATTAA
* * * * * *
1469288 AGAGTCAAACTTGTATCCTTCTGAATAAGTTAAAGAATCAAACTTGTATCTTTTTAAACAAGTTA
1 AGAATCAAACTTGTATCCTTCTGAACAAGTCAAA-AATCAAACTTGTATCTTCTAAAACAAATTA
1469353 A
65 A
*
1469354 AGAATCAAGCTTGTATCCTTCTGAACA
1 AGAATCAAACTTGTATCCTTCTGAACA
1469381 TGACAAGAGT
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
65 29 0.36
66 52 0.64
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.32
Consensus pattern (65 bp):
AGAATCAAACTTGTATCCTTCTGAACAAGTCAAAAATCAAACTTGTATCTTCTAAAACAAATTAA
Found at i:1469448 original size:97 final size:97
Alignment explanation
Indices: 1469231--1469509 Score: 276
Period size: 97 Copynumber: 2.9 Consensus size: 97
1469221 TTAGAATCAA
* * * *
1469231 ACTTGTGTCCTTCTAAACAAGTCAAA-AATCAAACTTGTAT-CTTCTAAAACAAATTA-AAGAGT
1 ACTTGTATCATTCTAAACAAGTTAAAGAATCAAACTTGTATCCTTCT-GAACAAA--ACAAGAGT
* * ** * * * * ** *
1469293 CAAACTTGTATCCTTCTGAATAAGTTAAAGAATCAA
63 TAAACCTACATCCTTCTAAACACG-TCAAGTGTCAC
* * * **
1469329 ACTTGTATCTTTTTAAACAAGTTAAAGAATCAAGCTTGTATCCTTCTGAACATGACAAGAGTTAA
1 ACTTGTATCATTCTAAACAAGTTAAAGAATCAAACTTGTATCCTTCTGAACAAAACAAGAGTTAA
*
1469394 ACCTACATCCTTCTGAACACGTCAAGTGTCAC
66 ACCTACATCCTTCTAAACACGTCAAGTGTCAC
* * *
1469426 ACTTGTATCATTCTAAACAAGTTAAAGAGTCAAACTTGTATCCTTTTGAACAAAACAAGATTTAA
1 ACTTGTATCATTCTAAACAAGTTAAAGAATCAAACTTGTATCCTTCTGAACAAAACAAGAGTTAA
*
1469491 ACCTATATCCTTCTAAACA
66 ACCTACATCCTTCTAAACA
1469510 AGATAAGAGT
Statistics
Matches: 150, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
97 82 0.55
98 46 0.31
99 17 0.11
100 5 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (97 bp):
ACTTGTATCATTCTAAACAAGTTAAAGAATCAAACTTGTATCCTTCTGAACAAAACAAGAGTTAA
ACCTACATCCTTCTAAACACGTCAAGTGTCAC
Found at i:1469537 original size:97 final size:97
Alignment explanation
Indices: 1469241--1469569 Score: 263
Period size: 97 Copynumber: 3.4 Consensus size: 97
1469231 ACTTGTGTCC
* * * * * **
1469241 TTCTAAACAAGTCAAA-AATCAAACTTGTAT-CTTCTAAAACAAATTA-AAGAGTCAAACTTGTA
1 TTCTAAACAAGTTAAAGAGTCAAACTTGTATCCTTCT-GAACAAA--ACAAGAGTTAAACCTACA
* * ** * * * *
1469303 TCCTTCTGAATAAGTTAAAGAATCAAACTTGTATCT
63 TCCTTCTAAACAAG-TAAAGTGTCACACATGCATCA
* * * **
1469339 TTTTAAACAAGTTAAAGAATCAAGCTTGTATCCTTCTGAACATGACAAGAGTTAAACCTACATCC
1 TTCTAAACAAGTTAAAGAGTCAAACTTGTATCCTTCTGAACAAAACAAGAGTTAAACCTACATCC
* * * * *
1469404 TTCTGAACACGTCAAGTGTCACACTTGTATCA
66 TTCTAAACAAGTAAAGTGTCACACATGCATCA
* * *
1469436 TTCTAAACAAGTTAAAGAGTCAAACTTGTATCCTTTTGAACAAAACAAGATTTAAACCTATATCC
1 TTCTAAACAAGTTAAAGAGTCAAACTTGTATCCTTCTGAACAAAACAAGAGTTAAACCTACATCC
* *
1469501 TTCTAAACAAGATAAGAGT-TGA-ACATGCATCC
66 TTCTAAACAAG-TAA-AGTGTCACACATGCATCA
* * * *
1469533 TTCTAAATAAGTTAAAAAGTCAAACCTGTATCTTTCT
1 TTCTAAACAAGTTAAAGAGTCAAACTTGTATCCTTCT
1469570 AATCAAAGCC
Statistics
Matches: 189, Mismatches: 37, Indels: 11
0.80 0.16 0.05
Matches are distributed among these distances:
97 122 0.65
98 42 0.22
99 20 0.11
100 5 0.03
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (97 bp):
TTCTAAACAAGTTAAAGAGTCAAACTTGTATCCTTCTGAACAAAACAAGAGTTAAACCTACATCC
TTCTAAACAAGTAAAGTGTCACACATGCATCA
Found at i:1469563 original size:130 final size:130
Alignment explanation
Indices: 1469271--1469609 Score: 324
Period size: 130 Copynumber: 2.6 Consensus size: 130
1469261 AAACTTGTAT
* * * * *
1469271 CTTCTAAAACAAATTAAAGAGTCAAACTTGTATCCTTCTGAATAAGTTAAAGAATCAAACTTGTA
1 CTTCT-AAACAAGTTAAAGAGTCAAACTTGTATCATTCTAAACAAGTTAAAGAGTCAAACTTGTA
* * * * * * * * *
1469336 TCTTTTTAAACAAGTTAAAGAATCAAGCTTGTATCCTTCTGAACATGACAAGAGTTAAACCTACA
65 TCCTTTTGAACAAG-AAAAGAATCAAACCTATATCCTTCTAAACAAGACAAGAGTTAAACATACA
1469401 TC
129 TC
* * * * *
1469403 CTTCTGAACACG-TCAAGTGTCACACTTGTATCATTCTAAACAAGTTAAAGAGTCAAACTTGTAT
1 CTTCTAAACAAGTTAAAGAGTCAAACTTGTATCATTCTAAACAAGTTAAAGAGTCAAACTTGTAT
* * * * *
1469467 CCTTTTGAACAA-AACAAGATTTAAACCTATATCCTTCTAAACAAGATAAGAGTTGAACATGCAT
66 CCTTTTGAACAAGAA-AAGAATCAAACCTATATCCTTCTAAACAAGACAAGAGTTAAACATACAT
1469531 C
130 C
* * * * * ** **
1469532 CTTCTAAATAAGTTAAAAAGTCAAACCTGTATCTTTCTAATCAAAGCCAAA-AGTTGAACTTGTA
1 CTTCTAAACAAGTTAAAGAGTCAAACTTGTATCATTCTAAAC-AAGTTAAAGAGTCAAACTTGTA
1469596 TCCTTTTGAACAAG
65 TCCTTTTGAACAAG
1469610 TTAAAAAGCC
Statistics
Matches: 165, Mismatches: 38, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
128 1 0.01
129 48 0.29
130 101 0.61
131 10 0.06
132 5 0.03
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (130 bp):
CTTCTAAACAAGTTAAAGAGTCAAACTTGTATCATTCTAAACAAGTTAAAGAGTCAAACTTGTAT
CCTTTTGAACAAGAAAAGAATCAAACCTATATCCTTCTAAACAAGACAAGAGTTAAACATACATC
Found at i:1469674 original size:65 final size:65
Alignment explanation
Indices: 1469541--1469675 Score: 177
Period size: 65 Copynumber: 2.1 Consensus size: 65
1469531 CCTTCTAAAT
* * *
1469541 AAGTTAAAAAGTCAAACCTGTATCTTTCTAATCAAAGCCAAAAGTTGAACTTGTATCCTTTTGAA
1 AAGTTAAAAAGCCAAACCTGTATCTTTCTAAT-AAAGACAAAAGTTGAACTTATATCCTTTTGAA
1469606 C
65 C
*
1469607 AAGTTAAAAAGCCAAACCTAG-ATCTTTCTAA-ATAGGACAAAAGTTGAACTTA-ATTCCTTTTG
1 AAGTTAAAAAGCCAAACCT-GTATCTTTCTAATA-AAGACAAAAGTTGAACTTATA-TCCTTTTG
1469669 AAC
63 AAC
1469672 AAGT
1 AAGT
1469676 CAGACCTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
64 2 0.03
65 31 0.50
66 28 0.45
67 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (65 bp):
AAGTTAAAAAGCCAAACCTGTATCTTTCTAATAAAGACAAAAGTTGAACTTATATCCTTTTGAAC
Found at i:1471476 original size:27 final size:27
Alignment explanation
Indices: 1471446--1471499 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1471436 CCTTTGCACA
*
1471446 TCATAATGAATCGAAAATCAATGCCCT
1 TCATAATAAATCGAAAATCAATGCCCT
* *
1471473 TCATAATAAATTGAAAATTAATGCCCT
1 TCATAATAAATCGAAAATCAATGCCCT
1471500 AACATAGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
TCATAATAAATCGAAAATCAATGCCCT
Found at i:1479526 original size:12 final size:12
Alignment explanation
Indices: 1479509--1479533 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1479499 TAAGTTGGTC
1479509 TCATTTATGATT
1 TCATTTATGATT
1479521 TCATTTATGATT
1 TCATTTATGATT
1479533 T
1 T
1479534 TTAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TCATTTATGATT
Found at i:1481024 original size:25 final size:25
Alignment explanation
Indices: 1480986--1481033 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1480976 TCATCCTATA
* *
1480986 AGGTATTTGCATTTGTATCATTTGT
1 AGGTATTAGAATTTGTATCATTTGT
*
1481011 AGGTATTAGAATTTGTGTCATTT
1 AGGTATTAGAATTTGTATCATTT
1481034 CATGAAGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.50
Consensus pattern (25 bp):
AGGTATTAGAATTTGTATCATTTGT
Found at i:1482460 original size:38 final size:38
Alignment explanation
Indices: 1482404--1482487 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
1482394 GCTTCTCCGT
*
1482404 AGAA-ATTTCAATGTGGATAT-TTTTAAAACCTCTTTCA
1 AGAATATTTCAATGAGGATATATTTTAAAACC-CTTTCA
* *
1482441 AGAATATTTCAGTGAGGATATATTTTAAAATCCTTTCA
1 AGAATATTTCAATGAGGATATATTTTAAAACCCTTTCA
*
1482479 AGGATATTT
1 AGAATATTT
1482488 TATTTCAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
37 4 0.10
38 28 0.68
39 9 0.22
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (38 bp):
AGAATATTTCAATGAGGATATATTTTAAAACCCTTTCA
Found at i:1482533 original size:38 final size:36
Alignment explanation
Indices: 1482489--1482585 Score: 88
Period size: 36 Copynumber: 2.6 Consensus size: 36
1482479 AGGATATTTT
1482489 ATTTCAATGTGGATATTTTCAATGACTCTCTT-AAGGAC
1 ATTTCAATGTGGATATTTTCAA--ACTCTCTTGAAGG-C
** * * * *
1482527 ATTTCAACATAGATATTTCCAAAGTCTTTTGAAGGC
1 ATTTCAATGTGGATATTTTCAAACTCTCTTGAAGGC
* *
1482563 TTTTTAATGTGGATATTTTCAAA
1 ATTTCAATGTGGATATTTTCAAA
1482586 GGCCTTTCAT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
36 24 0.52
37 4 0.09
38 18 0.39
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (36 bp):
ATTTCAATGTGGATATTTTCAAACTCTCTTGAAGGC
Found at i:1482683 original size:24 final size:24
Alignment explanation
Indices: 1482651--1482731 Score: 99
Period size: 24 Copynumber: 3.3 Consensus size: 24
1482641 CACTCTCAAG
1482651 ATTTCAAAGGTCTTTCTTGGTGAC
1 ATTTCAAAGGTCTTTCTTGGTGAC
* * *
1482675 ATTTCAAAGGTCATGCTTGGTAAC
1 ATTTCAAAGGTCTTTCTTGGTGAC
* * *
1482699 ATTTCAAAGGCCTCTCTTGATGAC
1 ATTTCAAAGGTCTTTCTTGGTGAC
1482723 ATTTTCAAA
1 A-TTTCAAA
1482732 ACCTCTAATG
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 40 0.85
25 7 0.15
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (24 bp):
ATTTCAAAGGTCTTTCTTGGTGAC
Found at i:1483736 original size:29 final size:29
Alignment explanation
Indices: 1483690--1483749 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
1483680 ATTGAACAAA
*
1483690 TAGTGGGATAACTAAATT-GTTAGGATAAC
1 TAGTGGGATAAATAAATTAG-TAGGATAAC
*
1483719 TAGTGGGATAAGAT-AATTAGTGGGATAAC
1 TAGTGGGATAA-ATAAATTAGTAGGATAAC
1483748 TA
1 TA
1483750 AATTGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (29 bp):
TAGTGGGATAAATAAATTAGTAGGATAAC
Found at i:1483753 original size:17 final size:17
Alignment explanation
Indices: 1483713--1483746 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1483703 AAATTGTTAG
*
1483713 GATAACTAGTGGGATAA
1 GATAATTAGTGGGATAA
1483730 GATAATTAGTGGGATAA
1 GATAATTAGTGGGATAA
1483747 CTAAATTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.26
Consensus pattern (17 bp):
GATAATTAGTGGGATAA
Found at i:1484804 original size:13 final size:13
Alignment explanation
Indices: 1484786--1484812 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1484776 ACATATTGCT
1484786 TTGTATCAATACA
1 TTGTATCAATACA
1484799 TTGTATCAATACA
1 TTGTATCAATACA
1484812 T
1 T
1484813 GTTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:1484842 original size:20 final size:20
Alignment explanation
Indices: 1484817--1484855 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1484807 ATACATGTTT
* *
1484817 ATTGTATTGATATATGAAAA
1 ATTGTATCGATACATGAAAA
1484837 ATTGTATCGATACATGAAA
1 ATTGTATCGATACATGAAA
1484856 TTGACAATAG
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:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGAAAA
Found at i:1486461 original size:3 final size:3
Alignment explanation
Indices: 1486453--1486483 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1486443 ATCAAAGATA
1486453 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1486484 AGTTGACTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:1491136 original size:21 final size:21
Alignment explanation
Indices: 1491112--1491153 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1491102 AACTCTAGGT
1491112 TTTCAATCTCAAATTTCATCA
1 TTTCAATCTCAAATTTCATCA
** *
1491133 TTTCTTTTTCAAATTTCATCA
1 TTTCAATCTCAAATTTCATCA
1491154 AATTTACATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTCAATCTCAAATTTCATCA
Found at i:1493438 original size:20 final size:21
Alignment explanation
Indices: 1493404--1493442 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1493394 AGGTCAAAAC
*
1493404 CCTAGGAAGTGTCGATACAAG
1 CCTAGGAAGTATCGATACAAG
1493425 CCTA-GAAGTATCGATACA
1 CCTAGGAAGTATCGATACA
1493443 TATTGCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (21 bp):
CCTAGGAAGTATCGATACAAG
Found at i:1495588 original size:155 final size:152
Alignment explanation
Indices: 1495288--1496096 Score: 600
Period size: 155 Copynumber: 5.3 Consensus size: 152
1495278 TTGGTATAAG
** ** * *
1495288 AGTGACAACCTAAGACTCGAACCTAAAAAATTTATGAAAATACCTTTAAGGGTATACCTTTGACA
1 AGTGACAACCTAAGACTCGATTCTAAAAAA-TTATGAAAATACCCCTAAGAG-ATACCTTCGACA
* * * ** * * * * *
1495353 T-GAAAATATCCTAGTAATCTTAAAGGACTTAAAAAGATTATAGGTGAGATAAACTTATCCTAAA
64 TAG-AAGTACCCGA-TACCCTTAAAGGACTTAAAAAGTTTAAAAG-G-GATGAACCTATCCTAAA
* *
1495417 TACCCACTTTTC-GCATAAAAGTAGACCT
125 TACCCAC-CTTCGGCATAAAAGCAGACCT
* * * * *
1495445 AATGACAACCT-AGAACTCGATTTTGAAAAATTATGAAAATACCCCTAAGGGATACCTTCGACGT
1 AGTGACAACCTAAG-ACTCGATTCTAAAAAATTATGAAAATACCCCTAAGAGATACCTTCGACAT
* * * * *
1495509 -GAAAGTATCTGATGCCCTTAAAGAACTTAAAAAGAACTTTAAAAGGGATGAACATATCCTAAAT
65 AG-AAGTACCCGATACCCTTAAAGGACTTAAAAAG---TTTAAAAGGGATGAACCTATCCTAAAT
* *
1495573 ATCCACCTTCGGCATAAAAGCGGACCT
126 ACCCACCTTCGGCATAAAAGCAGACCT
* * * * ** * * * *
1495600 AGTGACGACCTAAGAGTTGGTTCTAAAAAATTACAAAAATGCCCTTAAGAGATACTTTTGACATA
1 AGTGACAACCTAAGACTCGATTCTAAAAAATTATGAAAATACCCCTAAGAGATACCTTCGACATA
** * * * * * *
1495665 GAAGTACTTGGTA-CCTCTAAAGGACTCGAAAAGGGTTATAGACGGGATGAACCTATCATAAATA
66 GAAGTACCCGATACCCT-TAAAGGACT-TAAAA-AGTT-TAAAAGGGATGAACCTATCCTAAATA
* ***
1495729 CCCACATTCAATATAAAAGCAGACCT
127 CCCACCTTCGGCATAAAAGCAGACCT
* * * * *
1495755 AGTGACAACCT-AGAACTCGGTTCTAGAAAATTATGAAAATACTCCTAGGGGATACCTTCGACAT
1 AGTGACAACCTAAG-ACTCGATTCTAAAAAATTATGAAAATACCCCTAAGAGATACCTTCGACAT
* * * *
1495819 AGAAGTACCCGATATCCTTAAAGGACTTAAAAAG-GTAAAA-GGATGAACCTATCCTAAATGCAC
65 AGAAGTACCCGATACCCTTAAAGGACTTAAAAAGTTTAAAAGGGATGAACCTATCCTAAATACCC
* * *
1495882 ACCTTTGGCATAGAAGC-GAACCC
130 ACCTTCGGCATAAAAGCAG-ACCT
* * *
1495905 AGTGACAACCTAAGACTC-AGTTTTAAAAAATTACT-AAAATGCCCCTAAGAGATACCTTTGACA
1 AGTGACAACCTAAGACTCGA-TTCTAAAAAATTA-TGAAAATACCCCTAAGAGATACCTTCGACA
* * * * * * *
1495968 TAGAAATACCCGATACCCCTAAAGGACTTAAAAAGAGTTAAAA-AGATTGAATCTATCCTATATG
64 TAGAAGTACCCGATACCCTTAAAGGACTTAAAAAG-TTTAAAAGGGA-TGAACCTATCCTAAATA
** * * *
1496032 TACACCTTTGGCATAGAAGC-GATCT
127 CCCACCTTCGGCATAAAAGCAGACCT
* *
1496057 GGGGACAACCTAAGACTCGATTCTAAAAAATTATGAAAAT
1 AGTGACAACCTAAGACTCGATTCTAAAAAATTATGAAAAT
1496097 TTCCTTAGGT
Statistics
Matches: 521, Mismatches: 109, Indels: 49
0.77 0.16 0.07
Matches are distributed among these distances:
149 1 0.00
150 115 0.22
151 7 0.01
152 42 0.08
153 37 0.07
154 32 0.06
155 227 0.44
156 32 0.06
157 28 0.05
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (152 bp):
AGTGACAACCTAAGACTCGATTCTAAAAAATTATGAAAATACCCCTAAGAGATACCTTCGACATA
GAAGTACCCGATACCCTTAAAGGACTTAAAAAGTTTAAAAGGGATGAACCTATCCTAAATACCCA
CCTTCGGCATAAAAGCAGACCT
Found at i:1497044 original size:660 final size:661
Alignment explanation
Indices: 1495769--1497076 Score: 2449
Period size: 660 Copynumber: 2.0 Consensus size: 661
1495759 ACAACCTAGA
* * * * *
1495769 ACTCGGTTCTAGAAAATTATGAAAATACTCCTAGGGGATACCTTCGACATAGAAGTACCCGATAT
1 ACTCGATTCTAAAAAATTATGAAAATACTCCTAAGGGATACCTTAGACATAGAAGTACCCGATAC
* * * *
1495834 CCTTAAAGGACTTAAAAAGGTAAAAGGATGAACCTATCCTAAATGCACACCTTTGGCATAGAAGC
66 CCTTAAAGGACTTAAAAAAGTAAAAGGATGAACCTATCCTAAATGCACACCTTCGACACAGAAGC
1495899 GAACCCAGTGACAACCTAAGACTCAGTTTTAAAAAATTACTAAAATGCCCCTAAGAGATACCTTT
131 GAACCCAGTGACAACCTAAGACTCAGTTTTAAAAAATTACTAAAATGCCCCTAAGAGATACCTTT
1495964 GACATAGAAATACCCGATACCCCTAAAGGACTTAAAAAGAGTTAAAAAGATTGAATCTATCCTAT
196 GACATAGAAATACCCGATACCCCTAAAGGACTTAAAAAGAGTTAAAAAGATTGAATCTATCCTAT
1496029 ATGTACACCTTTGGCATAGAAGCGATCTGGGGACAACCTAAGACTCGATTCTAAAAAATTATGAA
261 ATGTACACCTTTGGCATAGAAGCGATCTGGGGACAACCTAAGACTCGATTCTAAAAAATTATGAA
1496094 AATTTCCTTAGGTTTTCAAAATTATATTTTGTACCCTTTTTGATAACCAGAAGAATACGAAAAGT
326 AATTTCCTTAGGTTTTCAAAATTATATTTTGTACCCTTTTTGATAACCAGAAGAATACGAAAAGT
1496159 TTTAAAAATTTCTAGACCACTACAGAAGGCTATAAGAATAATAGAAAGCCTTAAAACCGACAAAA
391 TTTAAAAATTTCTAGACCACTACAGAAGGCTATAAGAATAATAGAAAGCCTTAAAACCGACAAAA
1496224 ATGATGGTCTTACCTCTGAAAACTAAGATTTGCTATGTAATTCCTAAAGTTTTCAAAATTTTCAT
456 ATGATGGTCTTACCTCTGAAAACTAAGATTTGCTATGTAATTCCTAAAGTTTTCAAAATTTTCAT
1496289 TTTAGTCCTTATGTGATTAAATACAAAATTAAACATCAAATATATTATAGCTAACATCAAAACCA
521 TTTAGTCCTTATGTGATTAAATACAAAATTAAACATCAAATATATTATAGCTAACATCAAAACCA
* *
1496354 CATCCAAAATCCATAAGCAAGATTTGGCCACCTTTTTTTGGCCTTAGGATAACTTTCTCAATTCT
586 CATCCAAAATCCATAAGCAAGATCTGGCCACCTTTTTTTGGCCTTAGGACAACTTTCTCAATTCT
1496419 TCGGTAATGAC
651 TCGGTAATGAC
*
1496430 ACTCGATTCTAAAAAATTATGAAAATGC-CCGTAAGGGATACCTTAGACATAGAAGTACCCGATA
1 ACTCGATTCTAAAAAATTATGAAAATACTCC-TAAGGGATACCTTAGACATAGAAGTACCCGATA
*
1496494 CCCTTAAAGGACTTAAAAAAGTAAAAGGATGAACCTATCGTAAATGCACACCTTCGACACAGAAG
65 CCCTTAAAGGACTTAAAAAAGTAAAAGGATGAACCTATCCTAAATGCACACCTTCGACACAGAAG
1496559 CGAACCCAGTGACAACCTAAGACTCAGTTTTAAAAAATTACTAAAATGCCCCTAAGAGATACCTT
130 CGAACCCAGTGACAACCTAAGACTCAGTTTTAAAAAATTACTAAAATGCCCCTAAGAGATACCTT
1496624 TGACATAGAAATACCCGATACCCCTAAAGGACTTAAAAAGAGTTAAAAAGATTGAATCTATCCTA
195 TGACATAGAAATACCCGATACCCCTAAAGGACTTAAAAAGAGTTAAAAAGATTGAATCTATCCTA
1496689 TATGTACACCTTTGGCATAGAAGCGATCTGGGGACAACCTAAGACTCGATTCT-AAAAATTATGA
260 TATGTACACCTTTGGCATAGAAGCGATCTGGGGACAACCTAAGACTCGATTCTAAAAAATTATGA
1496753 AAATTTCCTTAGGTTTTCAAAATTATATTTTGTACCCTTTTTGATAACCAGAAGAATACGAAAAG
325 AAATTTCCTTAGGTTTTCAAAATTATATTTTGTACCCTTTTTGATAACCAGAAGAATACGAAAAG
*
1496818 TTTTAAAAATTTCTAGACCACTACAGAAGGCTATAAGAATAATAGAAAGCCTTAAAACCGACTAA
390 TTTTAAAAATTTCTAGACCACTACAGAAGGCTATAAGAATAATAGAAAGCCTTAAAACCGACAAA
1496883 AATGATGGTCTTACCTCTGAAAACTAAGATTTGCTATGTAATTCCTAAAGTTTTCAAAATTTTCA
455 AATGATGGTCTTACCTCTGAAAACTAAGATTTGCTATGTAATTCCTAAAGTTTTCAAAATTTTCA
*
1496948 TTTTAGTCCTTATGTGATTAAATACAAAATTAAACATCAAATATATTATAGTTAACATCAAAACC
520 TTTTAGTCCTTATGTGATTAAATACAAAATTAAACATCAAATATATTATAGCTAACATCAAAACC
*
1497013 ACATCCAAAATCCATAAGCAAGATCTGGCCACCTTTTTTTGGCTTTAGGACAACTTTCTCAATT
585 ACATCCAAAATCCATAAGCAAGATCTGGCCACCTTTTTTTGGCCTTAGGACAACTTTCTCAATT
1497077 GTTTACGAAT
Statistics
Matches: 630, Mismatches: 16, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
660 332 0.53
661 298 0.47
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (661 bp):
ACTCGATTCTAAAAAATTATGAAAATACTCCTAAGGGATACCTTAGACATAGAAGTACCCGATAC
CCTTAAAGGACTTAAAAAAGTAAAAGGATGAACCTATCCTAAATGCACACCTTCGACACAGAAGC
GAACCCAGTGACAACCTAAGACTCAGTTTTAAAAAATTACTAAAATGCCCCTAAGAGATACCTTT
GACATAGAAATACCCGATACCCCTAAAGGACTTAAAAAGAGTTAAAAAGATTGAATCTATCCTAT
ATGTACACCTTTGGCATAGAAGCGATCTGGGGACAACCTAAGACTCGATTCTAAAAAATTATGAA
AATTTCCTTAGGTTTTCAAAATTATATTTTGTACCCTTTTTGATAACCAGAAGAATACGAAAAGT
TTTAAAAATTTCTAGACCACTACAGAAGGCTATAAGAATAATAGAAAGCCTTAAAACCGACAAAA
ATGATGGTCTTACCTCTGAAAACTAAGATTTGCTATGTAATTCCTAAAGTTTTCAAAATTTTCAT
TTTAGTCCTTATGTGATTAAATACAAAATTAAACATCAAATATATTATAGCTAACATCAAAACCA
CATCCAAAATCCATAAGCAAGATCTGGCCACCTTTTTTTGGCCTTAGGACAACTTTCTCAATTCT
TCGGTAATGAC
Found at i:1498469 original size:14 final size:15
Alignment explanation
Indices: 1498427--1498469 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
1498417 TAACAATTAA
1498427 TAAAAATAATTAAATTG
1 TAAAAATAA--AAATTG
*
1498444 TAAAAATTAAAATT-
1 TAAAAATAAAAATTG
1498458 TAAAAATAAAAA
1 TAAAAATAAAAA
1498470 AATTTATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.46
15 5 0.21
17 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
TAAAAATAAAAATTG
Found at i:1502406 original size:8 final size:8
Alignment explanation
Indices: 1502393--1502417 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1502383 TTATTATTAT
1502393 TTATAAAA
1 TTATAAAA
1502401 TTATAAAA
1 TTATAAAA
1502409 TTATAAAA
1 TTATAAAA
1502417 T
1 T
1502418 AAGCATTGCG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTATAAAA
Found at i:1502650 original size:14 final size:14
Alignment explanation
Indices: 1502633--1502667 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1502623 TAATTAATTA
*
1502633 ATATAATAATTTTT
1 ATATAATAATATTT
1502647 ATATAATAATATTT
1 ATATAATAATATTT
*
1502661 AAATAAT
1 ATATAAT
1502668 TTAAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATAATAATATTT
Found at i:1502685 original size:22 final size:21
Alignment explanation
Indices: 1502657--1502697 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1502647 ATATAATAAT
1502657 ATTTAAATAATTTAAAATTTAA
1 ATTTAAAT-ATTTAAAATTTAA
*
1502679 ATTTAAATATTTATAATTT
1 ATTTAAATATTTAAAATTT
1502698 TTTATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTAAATATTTAAAATTTAA
Found at i:1509208 original size:5 final size:5
Alignment explanation
Indices: 1509200--1509226 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1509190 TTGCAGAAGC
1509200 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
1509227 TACTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:1509719 original size:29 final size:30
Alignment explanation
Indices: 1509679--1509738 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 30
1509669 CTATAGTCGC
1509679 TTTTTTTATTC-AATTTTAATAATTCCTTT
1 TTTTTTTATTCAAATTTTAATAATTCCTTT
* *
1509708 TTTTTTTGTTCATAAATTTTAATTATTCCTT
1 TTTTTTTATTC--AAATTTTAATAATTCCTT
1509739 GGGGGAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 10 0.38
32 16 0.62
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTTTTTATTCAAATTTTAATAATTCCTTT
Found at i:1512201 original size:21 final size:20
Alignment explanation
Indices: 1512175--1512217 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
1512165 TAATTTCCTT
1512175 TATAAAAATATATATGAATTG
1 TATAAAAATATATATG-ATTG
* *
1512196 TATAAAAATTTATTTGATTG
1 TATAAAAATATATATGATTG
1512216 TA
1 TA
1512218 ATATAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (20 bp):
TATAAAAATATATATGATTG
Found at i:1520619 original size:88 final size:88
Alignment explanation
Indices: 1520470--1520651 Score: 253
Period size: 88 Copynumber: 2.1 Consensus size: 88
1520460 ATGGAGAGGA
**
1520470 TGGAGTATCCCCTCAGAGTAACGGAGATAGAGTTTTTCCAAGGATAAAATTGTAGAAAGAAAAAT
1 TGGAGTATCCCCTCAGAGTAACGGAGATAGAGTTTCCCCAAGGATAAAATTGTAGAAAGAAAAAT
**
1520535 TTGAAATTTTGTTAGAACGGGGT
66 TTGAAATTTTGTTAGAACAAGGT
*
1520558 TGGAGTATCCCCTTAGAGTAGTA-GGA-ATAGAGTTTCCCCAAGGATAAAATTGTATG-AAGAAA
1 TGGAGTATCCCCTCAGAGTA--ACGGAGATAGAGTTTCCCCAAGGATAAAATTGTA-GAAAGAAA
* *
1520620 AATTTTAATTTTTGTTAGAACAAGGT
63 AATTTGAAATTTTGTTAGAACAAGGT
1520646 TGGAGT
1 TGGAGT
1520652 GACCTTTCGG
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
88 79 0.94
89 4 0.05
90 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (88 bp):
TGGAGTATCCCCTCAGAGTAACGGAGATAGAGTTTCCCCAAGGATAAAATTGTAGAAAGAAAAAT
TTGAAATTTTGTTAGAACAAGGT
Found at i:1520676 original size:88 final size:87
Alignment explanation
Indices: 1520495--1520687 Score: 237
Period size: 88 Copynumber: 2.2 Consensus size: 87
1520485 GAGTAACGGA
** **
1520495 GATAGAGTTTTTCCAAGGATAAAATTGTAGAAAGAAAAATTTGAAATTTTGTTAGAACGGGGTTG
1 GATAGAGTTTCCCCAAGGATAAAATTGTAGAAAGAAAAATTTGAAATTTTGTTAGAACAAGGTTG
* *
1520560 GAGTATCCCCTTAGAGTAGTAGG
66 GAGTA-CCCCTTAGAGGAATAGG
* * *
1520583 AATAGAGTTTCCCCAAGGATAAAATTGTATG-AAGAAAAATTTTAATTTTTGTTAGAACAAGGTT
1 GATAGAGTTTCCCCAAGGATAAAATTGTA-GAAAGAAAAATTTGAAATTTTGTTAGAACAAGGTT
* *
1520647 GGAGTGA-CCTTTCGGAGGAATAGG
65 GGAGT-ACCCCTT-AGAGGAATAGG
1520671 GATAGAGTTTCCCCAAG
1 GATAGAGTTTCCCCAAG
1520688 ATTGAAAATT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
87 4 0.04
88 84 0.93
89 2 0.02
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (87 bp):
GATAGAGTTTCCCCAAGGATAAAATTGTAGAAAGAAAAATTTGAAATTTTGTTAGAACAAGGTTG
GAGTACCCCTTAGAGGAATAGG
Found at i:1523375 original size:13 final size:13
Alignment explanation
Indices: 1523357--1523381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1523347 ATATTGCACA
1523357 GTATCGATACATT
1 GTATCGATACATT
1523370 GTATCGATACAT
1 GTATCGATACAT
1523382 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1523499 original size:13 final size:13
Alignment explanation
Indices: 1523481--1523506 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1523471 TACACACAAG
1523481 ATGTATCGATACA
1 ATGTATCGATACA
1523494 ATGTATCGATACA
1 ATGTATCGATACA
1523507 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1523523 original size:33 final size:32
Alignment explanation
Indices: 1523463--1523526 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1523453 CTTAACTGTT
*
1523463 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
1523495 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
1523527 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:1529680 original size:13 final size:13
Alignment explanation
Indices: 1529659--1529695 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1529649 ATCATTCTCA
* *
1529659 GTATTGATACATT
1 GTATCGATACAGT
1529672 GTATCGATACAGT
1 GTATCGATACAGT
1529685 GTATCGATACA
1 GTATCGATACA
1529696 AAGGGTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (13 bp):
GTATCGATACAGT
Found at i:1532209 original size:13 final size:13
Alignment explanation
Indices: 1532191--1532216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1532181 TACACATAAG
1532191 ATGTATCGATACA
1 ATGTATCGATACA
1532204 ATGTATCGATACA
1 ATGTATCGATACA
1532217 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1532233 original size:33 final size:32
Alignment explanation
Indices: 1532173--1532236 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
1532163 CTTAACTGTT
* *
1532173 TGTATCGATACACATAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
1532205 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
1532237 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:1533180 original size:35 final size:35
Alignment explanation
Indices: 1533114--1533180 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
1533104 ACATTTTTGA
* *
1533114 ATGTATCGATATAAGGTCCCAACGGTCAAAAAGAG
1 ATGTATCGATATAAGGTCCCAACGATAAAAAAGAG
1533149 ATGTATCGATATAAGGTCCCAACGATAAAAAA
1 ATGTATCGATATAAGGTCCCAACGATAAAAAA
1533181 TTTTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.21
Consensus pattern (35 bp):
ATGTATCGATATAAGGTCCCAACGATAAAAAAGAG
Found at i:1537543 original size:52 final size:52
Alignment explanation
Indices: 1537473--1537593 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1537463 GAAAATTTAT
*
1537473 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1537525 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1537577 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1537594 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1537606 original size:52 final size:51
Alignment explanation
Indices: 1537473--1537613 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1537463 GAAAATTTAT
1537473 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1537525 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1537577 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1537614 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1537620 original size:13 final size:13
Alignment explanation
Indices: 1537602--1537626 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1537592 CAAAGATCAG
1537602 TGTATCGATACAA
1 TGTATCGATACAA
1537615 TGTATCGATACA
1 TGTATCGATACA
1537627 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1537711 original size:13 final size:13
Alignment explanation
Indices: 1537693--1537717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1537683 CAAAAAAATA
1537693 TGTATCGATACAT
1 TGTATCGATACAT
1537706 TGTATCGATACA
1 TGTATCGATACA
1537718 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1537713 original size:33 final size:33
Alignment explanation
Indices: 1537671--1537736 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1537661 AGTAGCTTAA
1537671 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1537704 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1537737 CAATCGTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1541611 original size:105 final size:104
Alignment explanation
Indices: 1541439--1541755 Score: 311
Period size: 107 Copynumber: 3.0 Consensus size: 104
1541429 AGAACTAAGG
* * * ** *
1541439 AAAATAAGTAGGTGA--ATACCATGCTCTTTGAAGACTGAGGTATGTAGGTGCCACCAACTTGTG
1 AAAATAAGTAGCTGAGCAT-CC-TGCTCTTTGAGGACTGAGGTAGGTAGGTGCCACCAGTTTGTA
*
1541502 TGGGCTTTGAGATAGGTAAGTCATGCTCTTTGAAGACTAAAA
64 TGGGCTTTGAGATAGGTAAG-CATGCTCTTTGAGGACTAAAA
* * * * * **
1541544 AAACTAAGTAGCTGATCATCTTGCTCTTTGAGGACTAAGGTAGGTAAGTATCACCAGTTTGTATG
1 AAAATAAGTAGCTGAGCATCCTGCTCTTTGAGGACTGAGGTAGGTAGGTGCCACCAGTTTGTATG
1541609 GGCTTTGATG-TAGGTAAGCATCCAGCTCTTTGAGGACTAAAA
66 GGCTTTGA-GATAGGTAAGCAT---GCTCTTTGAGGACTAAAA
* * * * * * *
1541651 AAAATTAGTGGGTGAGCATCCTACTTTTTAAGGACTGAGGTAGGTAGGTGCCACTAGCTTATGTA
1 AAAATAAGTAGCTGAGCATCCTGCTCTTTGAGGACTGAGGTAGGTAGGTGCCACCAG-TT-TGTA
*
1541716 --GGCTTTGAGATAGGTAAGCATCCTGCTTTGAGGACTAAAA
64 TGGGCTTTGAGATAGGTAAGCATGCT-CTTTGAGGACTAAAA
1541756 TGGATAGGTG
Statistics
Matches: 174, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
104 5 0.03
105 79 0.45
106 3 0.02
107 81 0.47
108 2 0.01
109 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (104 bp):
AAAATAAGTAGCTGAGCATCCTGCTCTTTGAGGACTGAGGTAGGTAGGTGCCACCAGTTTGTATG
GGCTTTGAGATAGGTAAGCATGCTCTTTGAGGACTAAAA
Found at i:1542007 original size:69 final size:70
Alignment explanation
Indices: 1541925--1542059 Score: 168
Period size: 69 Copynumber: 1.9 Consensus size: 70
1541915 TCCTGCTATG
* ** * *
1541925 CTCTTTGAAGATTGAAAAAAATAA-ATGATACCACCAGCTTTTGTGGGCTTTGAA-GAAAAAAAT
1 CTCTTTGAAGATTGAAAAAAATAAGA-GATACCACCAACTTAAGTGGACTTTGAACCAAAAAAAT
1541988 GTTTTA
65 GTTTTA
* *
1541994 CTCTTT-AAGGATTGGAAAAGATAAGAGATACCACCAACTTAAGTGGACTTTGAACCAAAAAAAT
1 CTCTTTGAA-GATTGAAAAAAATAAGAGATACCACCAACTTAAGTGGACTTTGAACCAAAAAAAT
1542058 GT
65 GT
1542060 CCTACATTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
68 2 0.04
69 43 0.77
70 11 0.20
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (70 bp):
CTCTTTGAAGATTGAAAAAAATAAGAGATACCACCAACTTAAGTGGACTTTGAACCAAAAAAATG
TTTTA
Found at i:1542081 original size:69 final size:69
Alignment explanation
Indices: 1541951--1542084 Score: 153
Period size: 70 Copynumber: 1.9 Consensus size: 69
1541941 AAAAATAAAT
* ** * * ** *
1541951 GATACCACCAGCTTTTGTGGGCTTTGAAGAAAAAAATGTTTTACTCTTTAAGGATTGGAAAAGAT
1 GATACCACCAACTTAAGTGGACTTTGAACAAAAAAATGTCCTACTCTTTAAGGACTGGAAAAGAT
1542016 AAGA
66 AAGA
* *
1542020 GATACCACCAACTTAAGTGGACTTTGAACCAAAAAAATGTCCTACAT-TTTGAGGACTGAAAAAG
1 GATACCACCAACTTAAGTGGACTTTGAA-CAAAAAAATGTCCTAC-TCTTTAAGGACTGGAAAAG
1542084 A
64 A
1542085 GATACATGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
69 24 0.45
70 28 0.53
71 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (69 bp):
GATACCACCAACTTAAGTGGACTTTGAACAAAAAAATGTCCTACTCTTTAAGGACTGGAAAAGAT
AAGA
Found at i:1542388 original size:148 final size:149
Alignment explanation
Indices: 1542194--1542532 Score: 408
Period size: 148 Copynumber: 2.3 Consensus size: 149
1542184 GGGCGTTGAA
* *
1542194 GAAAAAAATAAATGATGCCACCTGCTTGTATGGACTTTGAAGAAAAAGAAAATGCGTCTTGCTCT
1 GAAAAAAATAAATGATGCCACCTGCTTGTATGGACTTTGAAGAAAAAGAAAAAGCGTCCTGCTCT
** * *
1542259 TTAAGAACTGCAAAAGATAAATAATGCCATCATCTTATGTGGGCTCT-AAAGAAAAAGAAAAGGC
66 TTAAGAACTAAAAAAGATAAATAATGCCATCAACTTATGTGGGCTCTGAAAAAAAAAGAAAAGGC
1542323 ATCCCACTTTTTGAGGATG
131 ATCCCACTTTTTGAGGATG
* * * * *
1542342 GAAAAAGATAAATGATGCTA-CTAGCTTGTGTAGG-CTTTGATGAAAAAGAAAAAGGGTCCTGCT
1 GAAAAAAATAAATGATGCCACCT-GCTTGTAT-GGACTTTGAAGAAAAAGAAAAAGCGTCCTGCT
* * * *
1542405 CTTTAAGGACTAAAAAAGATAAATGATGCCATCAACTTATGTGGGCTTTGAAAAAAAAAGAAAAA
64 CTTTAAGAACTAAAAAAGATAAATAATGCCATCAACTTATGTGGGCTCTGAAAAAAAAAGAAAAG
* * *
1542470 ACAT-CTATTTTTTGAGGACT-
129 GCATCCCACTTTTTGAGGA-TG
* *
1542490 ---AAAAA-AAATGATGCCACCAGCTTGTTTGGACTTTGAAGAAAAA
1 GAAAAAAATAAATGATGCCACCTGCTTGTATGGACTTTGAAGAAAAA
1542533 AAGGCATTCT
Statistics
Matches: 162, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
143 2 0.01
144 29 0.18
145 5 0.03
147 2 0.01
148 105 0.65
149 19 0.12
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (149 bp):
GAAAAAAATAAATGATGCCACCTGCTTGTATGGACTTTGAAGAAAAAGAAAAAGCGTCCTGCTCT
TTAAGAACTAAAAAAGATAAATAATGCCATCAACTTATGTGGGCTCTGAAAAAAAAAGAAAAGGC
ATCCCACTTTTTGAGGATG
Found at i:1542580 original size:71 final size:74
Alignment explanation
Indices: 1542202--1542719 Score: 272
Period size: 74 Copynumber: 7.1 Consensus size: 74
1542192 AAGAAAAAAA
* * * * * * * *
1542202 TAAATGATGCCACCTGCTTGTAT-GGACTTTGAAGAAAAAGAAAATGCGTCTTGCTCTTTAAGAA
1 TAAATGATACCACCAGCTTGTATGGGA-TTTGAAGAAAAAGAAGAGGCATCCTACTCTTTGAGAA
* *
1542266 CTGCAAAAGA
65 CTGAAAAAGT
* * * * * * * * * * * * *
1542276 TAAATAATGCCATCATCTTATGTGGGCTCTAAAGAAAAAGAAAAGGCATCCCACTTTTTGAGGA-
1 TAAATGATACCACCAGCTTGTATGGGATTTGAAGAAAAAGAAGAGGCATCCTACTCTTTGAGAAC
*
1542340 TGGAAAAAGA
66 T-GAAAAAGT
* * * * * * * * * * * *
1542350 TAAATGATGCTACTAGCTTGTGTAGGCTTTGATGAAAAAGAAAAAGG-GTCCTGCTCTTTAAGGA
1 TAAATGATACCACCAGCTTGTATGGGATTTGAAGAAAAAG-AAGAGGCATCCTACTCTTTGAGAA
* *
1542414 CTAAAAAAGA
65 CTGAAAAAGT
* * * * * * * * ** * * *
1542424 TAAATGATGCCATCAACTTATGTGGGCTTTGAAAAAAAAAGAAAAAACAT-CTATTTTTTGAGGA
1 TAAATGATACCACCAGCTTGTATGGGATTTG-AAGAAAAAGAAGAGGCATCCTACTCTTTGAGAA
1542488 CT-AAAAA--
65 CTGAAAAAGT
* * *
1542495 -AAATGATGCCACCAGCTTGT-TTGGACTTTGAAG-AAAA-AA-AGGCATTCTACTCTTTGAGAA
1 TAAATGATACCACCAGCTTGTATGGGA-TTTGAAGAAAAAGAAGAGGCATCCTACTCTTTGAGAA
1542555 CT-AAAAGAGT
65 CTGAAAA-AGT
* *
1542565 TAAATGATACTACCAGCTTGTATGGGATTTGAAGAAAAAGAAGAGGCATCCTACTCTTTGAGGAC
1 TAAATGATACCACCAGCTTGTATGGGATTTGAAGAAAAAGAAGAGGCATCCTACTCTTTGAGAAC
1542630 TGAAAAAGT
66 TGAAAAAGT
* * * * * * * * *
1542639 TAAATGATGCCACCAACTTGTGTGGG-TTTTAAAAAAAATAAGAGGCTTCCTACACTTTGAGGAC
1 TAAATGATACCACCAGCTTGTATGGGATTTGAAGAAAAAGAAGAGGCATCCTACTCTTTGAGAAC
* *
1542703 TAAAAAAGA
66 TGAAAAAGT
*
1542712 TATATGAT
1 TAAATGAT
1542720 GTCGGGTTCT
Statistics
Matches: 350, Mismatches: 77, Indels: 35
0.76 0.17 0.08
Matches are distributed among these distances:
66 4 0.01
67 19 0.05
68 5 0.01
69 5 0.01
70 21 0.06
71 25 0.07
72 8 0.02
73 55 0.16
74 187 0.53
75 21 0.06
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (74 bp):
TAAATGATACCACCAGCTTGTATGGGATTTGAAGAAAAAGAAGAGGCATCCTACTCTTTGAGAAC
TGAAAAAGT
Found at i:1542905 original size:74 final size:74
Alignment explanation
Indices: 1542746--1546865 Score: 1216
Period size: 74 Copynumber: 55.7 Consensus size: 74
1542736 TTGAGGATTG
* *
1542746 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAG--AAA-AAAAGGCGTCCTACCTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
* *
1542808 TGAGGACTG
66 TAAGGACTA
* * * *
1542817 AAAAAGATAAATGATGTTACCAGTTTGTGTGGGCTTTAAAGAAAAAGAAAAGGTATCCCA-CTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
1542881 TTAAGGACTA
65 TTAAGGACTA
* * * * * ** *
1542891 AAAAAGATACATGATGTCACTAGCTTGTATGGGCTTTGAAGAAAAAGAAGAGACATCTAACTTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
*
1542956 TGAGGACTGA
66 TAAGGACT-A
* * * * * * * *
1542966 AAAAA-ATAAATAATGCCACTAGCTTATGTAGGATTTGAATGTGTGGGTTTTGAAGAAAAAGAAA
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAA------------GAAAAAGA---AA
* * ** * * * *
1543030 AAGCGTCATA-TTTTTGAGGATTG
51 AGGCATCCCACCTTTTAAGGACTA
* * * * * **
1543053 AAAAAGATAAATAATGCCACTAGCTTGTTTGGG-TTTGAAGAAAAA-AAAGAGGCGTCATA-CTC
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAA-AGGCATCCCACCT-
* *
1543115 TTTGAGGACTG
64 TTTAAGGACTA
* * * * **
1543126 AAAAAGTTAAATGATGCCACAAGCTTGTGTAGGG-TTT--A-AAAAA-AAGAGGCATCTTA-CTC
1 AAAAAGATAAATGATGTCACCAGCTTGTGT-GGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-
* *
1543185 TTTGAGGACTG
64 TTTAAGGACTA
* * ** * * * *
1543196 AAAAAGATATATGATGCCACCAG-TCTGTGTAAGCTTTGAAGAAAAA-AAGAGACGTCCTACTCT
1 AAAAAGATAAATGATGTCACCAGCT-TGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCAC-CT
* *
1543259 TTGAA-GACTC
64 TTTAAGGACTA
* * * * *
1543269 AAAAAGATAAATGATGTTACCAGCTTGTGTGAGCTTTGAAGAAAAAGAAAAAGTATCCTA-CTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
* *
1543333 TTGAGGAAC-G
65 TTAAGG-ACTA
* * * * * * * *
1543343 GAAAA-ATACATGATGTCACCAGCTTATGTGGGCTTTAAAGAAAAAGAAGAGACATCCTACTTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
1543407 TAAGGACTTA
66 TAAGGAC-TA
* * * **** **
1543417 AAAAA-ATAAATAATGCCACCAGCTTGTGTAGGCTTTGAATGGGTGGGTTTTGGAGAAAAAGAAA
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAA-------G--AAAAAG-AAAAGGCA
*** *** **
1543481 AGGCATCCTATTTTTTGAGGA
56 TCCCA-CCT-TTTAAGGACTA
*** ** * * *** ** * *
1543502 TTGAA-A-AAGAT-AAATAATGCCACCAACT-T--G-TTTGGGTTTGAAGGAAAAAAAAAGGCAT
1 AAAAAGATAA-ATGATGTCA--CCAGCTTGTGTGGGCTTT--G-AAGAA-AAAG--AAAAGGCAT
*** * * *
1543560 CTTGCTTTTTAAGCACTG
57 CCCACCTTTTAAGGACTA
* * * * **
1543578 AAAAAG-TAAATGATGCCACCAACTTGTGTGGACTTTGAAGAAAAAGAAAA-GTATCCTGCTCTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCAC-CTT
*
1543641 TGAA-GACTA
65 TTAAGGACTA
* * **** * **
1543650 AAAAAGATAAAT-ATTGCCACCAGCTTGTGTAGGCTTTGAAGAAAAAGAAAATTTGT-TCTGCTC
1 AAAAAGATAAATGA-TGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-
* *
1543713 TTT-AGAAACTG
64 TTTAAG-GACTA
* * *
1543724 AAAAAGATAAATGATAGATGATGCCACTAGCTTATGTGGGCTTTGAAGAAAAAGAAAAGACAT-C
1 AAAAAGAT-AA--AT-GATG-T--CACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCC
*** *
1543788 TTGCTCTTTGAGGACT-
59 CACCT-TTTAAGGACTA
** * * * ***
1543804 GGAATGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAATAAAAGGCAT-CTTTCTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
* *
1543868 TTGAGTACT-
65 TTAAGGACTA
** * * * * *
1543877 TCAAAGATAAATGATGCCACCAGCTTGTGTGAGCTTTGAAGAAAAAGAAAAGGCGTCCTA-CTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
1543941 TAGAGGACTA
66 TA-AGGACTA
* * * * ** **** *
1543951 AAAAAGATAAATGATGCCACCAGTTTATGTGGGTTTTGAAGAAAAAGAAAAGGTGTTATGCTTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
**
1544016 TGTGGACTGA
66 TAAGGACT-A
* * * * ***
1544026 AAAAA-ATAAATGATGCCACTAG-TTTTGTTGGCTTTGAAGAAAAAGAAAAGGCATCATGCTCTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCAC-CTT
* *
1544089 TGAAGG-CTG
65 TTAAGGACTA
* * * * * ** * *****
1544098 AAAAAGATAAATGATGCCACTAGTTTTTGTTGAATTT--A-AAAAA-AAAAGGCGTTTTTGCTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
* * *
1544159 TTGAGGATTG
65 TTAAGGACTA
* * ** ** * * * **
1544169 ACAAAGATAAATGATGCCATTAGCAAGTTTAGGCCTTGAAGAAAAAGCAAAAGTG--T-CCTGCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAG-AAAAG-GCATCCCACCT
*
1544231 CTTTGAGGACT-
64 -TTTAAGGACTA
* * * * * * *
1544242 GAAAAGATAAATTATGCCACCAACTTGTATGGGCTTTGAAGAGAAAGAAAAGGCAT--CATGCTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCA-CCTT
* * *
1544305 TGT--GAATTG
65 T-TAAGGACTA
* * * *** *
1544314 AAAAAGATAATTGATGCCACCAGCTTGTGTGGGCTTTAAAGAAAAAGAAAAGGCAT-CTTGCTCA
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
**
1544378 TTAAGGACCG
65 TTAAGGACTA
* * * ** *
1544388 AAAAAGATAAATGATGCCACTAG-TTGTGTAAGG-TTTGAAGAAAAA-AAAAGGCATCTTACTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGT-GGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTT
* * *
1544450 TTGAGGATTG
65 TTAAGGACTA
* * * * * *** *
1544460 AAAAAGATAAATAATGCCACCAGCTTGTGTGGACTTTGAAAAAAAAAGAAAAGGTATCTTTCTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTG-AAGAAAAAGAAAAGGCATCCCACCTT
* *
1544525 TTGAGGACTG
65 TTAAGGACTA
** * ** * *** *
1544535 AAAAAGATAAATGATG-CAATTA-ATTGTGTGGGCTTCAAAGAAAAAGAAAA-GCTTTCTTGCTT
1 AAAAAGATAAATGATGTC-ACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGC-ATCCCACCT
* *
1544597 TTTGAGGACTG
64 TTTAAGGACTA
*
1544608 AAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCAT----CC-TT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
* *
1544668 TGAGGACTG
66 TAAGGACTA
* * ** * * * ** **
1544677 GAAAAGATAAAT-ATGCCAAAAGCTTGTGTGGG-TTTTAGAGAAAAAGAAGAGGCGTCTTAGTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGA-AGAAAAAGAAAAGGCATCCCACCTT
* *
1544740 TTGATGACTA
65 TTAAGGACTA
* * *
1544750 AAAAAGATAAATGATGCCACCAGCTTGTGTAGGCTTTGAAG-AAAA-AAAAGTG--TCCTA-CTC
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAG-GCATCCCACCT-
* *
1544810 TTTGAGGACTG
64 TTTAAGGACTA
* * * * *
1544821 AAAAAGATAAATGATGTTACTAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAAGTATCCTA-CTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
*
1544885 TTGAGGACTA
65 TTAAGGACTA
* * * * * * ** *
1544895 AAAAAGATACATGATGTCACCAGTTTGTGTGGGGTTTGAAGAAAAAGAAGAGACGTCATACTTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
*
1544960 TGAGGACTA
66 TAAGGACTA
* * * *
1544969 AAAAAAATAAATAATG-CTACCAGCTTGTGTAGGCTTTGAATGTGTGGATTTTGAAGAAAAAGAA
1 AAAAAGATAAATGATGTC-ACCAGCTTGTGTGGGCTTTGAA------GA-----AA-AAGA---A
* * ** * * *
1545033 AAGGCGTCCTATTTTTTGAGGATTG
50 AAGGCATCCCACCTTTTAAGGACTA
* * * * * * **
1545058 AAAAAGATAAATAATG-CTACTAGCTTGTTTAGG-TTTGAAGGAAAA-AAAAGACATCTTA-CTC
1 AAAAAGATAAATGATGTC-ACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-
* * *
1545119 TTTGAGAACTG
64 TTTAAGGACTA
* * * * *
1545130 AAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAATAAAAAAAAAAGGCATCCTA-CTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
* * * *
1545194 TTGATGATTG
65 TTAAGGACTA
* * * * * ** **
1545204 AAAAATATAAATGTTGCCACTAGCTTGTGTTGGG-TTTGAAGAAAAAGAAGAGGTGT-CCTGCTC
1 AAAAAGATAAATGATGTCACCAGCTTGTG-TGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-
*
1545267 TTTAGGGACTGAAA
64 TTTAAGGACT---A
* * * ** *
1545281 AAGGTAAATGATAAATGATGCCACTAGCTTATGTGGGCTTT-AGAGAAAAAGAAAAGATATCCTA
1 AA---AAA-GATAAATGATGTCACCAGCTTGTGTGGGCTTTGA-AGAAAAAGAAAAGGCATCCCA
*
1545345 -CTCTTTGAGGACT-
61 CCT-TTTAAGGACTA
* * ***
1545358 GAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCAT-CTTGCTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
*
1545422 TTAAGTACT-
65 TTAAGGACTA
* * * * * * * * *
1545431 AAAAAGATAAATAAGGCCACCAGCTAGCGTGGGCTTTGAAGAAAAA-AAAATGACGTTCTA-CTC
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAA-GGCATCCCACCT-
* *
1545494 TTTGAGGACTG
64 TTTAAGGACTA
* * * * * * ***
1545505 AAAAAGATAAATGATGCCACCAGTTTGTGTGGG-TTTTAAAAAAAAGAAAAGACGTCTTGCCTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
*
1545569 TGAGGACTGA
66 TAAGGACT-A
* * * * * * * * * *
1545579 AAAAA-ATAAATGATGCCACCAG-TTTTGTAGTCCTTGAAGAAAAAAAAGAAGTCAT-GC-TCTC
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAA-AAGGCATCCCACCTT
*
1545640 TGAA-GACTA
65 TTAAGGACTA
** * * * **
1545649 AAAAAGATAAATGATACCATCAGCTTGTGTCGGCTTTGATA-AAAAGGAAAAGGCATCTTA-CTC
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGA-AGAAAAAGAAAAGGCATCCCACCT-
* * *
1545712 TTTGAGGATTG
64 TTTAAGGACTA
* * * * * ** *
1545723 AAAGAGATAAATGATG-CTACCAGCTGGTTTAGGGC-TTGAAGAAAGAGAAAAAGTC-TCCTGCT
1 AAAAAGATAAATGATGTC-ACCAGCTTGTGT-GGGCTTTGAAGAAAAAG-AAAAGGCATCCCACC
* *
1545785 TTTTGATGACT-
63 TTTTAAGGACTA
* * * * ** *
1545796 AAAAAGATAAATTATGCCACCAGCTTGTGTGGGCTTTGAAGGAAAAGTAAAGGCATCCTGCTTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
* * *
1545861 TGAGGATTG
66 TAAGGACTA
* * * * * * * *
1545870 AAAAAGATAATTGATGCCACCAGCTTTTTTGGGCTTTGAAGAAAAAGGAAAGGCGTCCTA-CTCA
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
* *
1545934 TTAAGGGCTG
65 TTAAGGACTA
* * ** *
1545944 AAAAAGATAAATGATG-CACC-GGTTGTGTAGGCTTTGAAGAAAAAGAAAAGGCATCCTGCTTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
*
1546007 TGAGGACTA
66 TAAGGACTA
* * * * * * *** *
1546016 AAAAAGATAAATGATG-CTAGCAACTTATGCGAGCTTTGAAGAAAAAGAAGAGGCATTTTACTTT
1 AAAAAGATAAATGATGTC-ACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTT
* *
1546080 TTGAGGACTT
65 TTAAGGACTA
* * * * * * *** *
1546090 AAAAAGATAAATGGTGTGACCA-ATTGTGTGGGCTTTGATG-AAAA-AAAA-CCTTCTTGCTTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
*
1546151 TGAA-GACTG
66 T-AAGGACTA
** ** ** * *
1546160 AAAAAGATAAATGATACCACCAGCTTGTGTGACCTTCAAAGAAAAAG-AAAGGTATCCC-GCTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
* * *
1546223 TTGAGAACTG
65 TTAAGGACTA
* * * * * * * **
1546233 GAAAAGATAAAT-ATGCCA-AATACTTGTGTGGGCTTTGAAGAAAAAGAAGAGGCGTCCTATTTT
1 AAAAAGATAAATGATGTCACCA-GCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTT
* *
1546296 TTGACGACTA
65 TTAAGGACTA
* * ** * * *
1546306 AAAAGGATAAATGATGCCACCAGCTTGTGTTAGCTTT-AA-AGAAA-AAAATG--TCCTA-CTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
* * *
1546365 TTGAGGATTG
65 TTAAGGACTA
* * ***
1546375 AAAAAGATAAATGATGCCACCAGCTTGTTTGGGCTTTGAAGAAAAAGAAAAGGCAT-CTTGCTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
*
1546439 TTGAGGACTA
65 TTAAGGACTA
* * * ***
1546449 AAAAAGATAAATGATGCCGCCAGCTCT-TGTTGGCTTTGAA-AAAAA-AAAAGGCAT-CTTGCTC
1 AAAAAGATAAATGATGTCACCAGCT-TGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-
* *
1546510 TTTGAGGACTG
64 TTTAAGGACTA
* * * * * * **
1546521 AAAAAGATAAATGATGCCACTAGCCTGTGTGGGTTTTGATGAAAAAGAAAAGACAT-CCTGCTAT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
*
1546585 TTGAGGACTA
65 TTAAGGACTA
* * ** ** ** *
1546595 AAAAAGATAAATGATGCCACTAGCTTGTG-CCGCTTTGAAGAAAAA-AAAAGGTGTCTTACTTTT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
* * * *
1546658 TGAGAATTG
66 TAAGGACTA
* ** * ** * * * ** ***
1546667 AAAAAGACAAATGATCCCACCAACCGGTTTAGCCTTTGAAGAAAAAGAAAAGGTGT-CTTGCTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
* *
1546731 TTGAGAACTA
65 TTAAGGACTA
** * * * * * ***
1546741 AAAAAGATAAATGATACCACTAGCTTGTATGAGCTTTAAAGAAAAAGAAAAGGCGT-CTTGCTCT
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCT-T
*
1546805 TTAAGGA-TT
65 TTAAGGACTA
* * * * *
1546814 GAAAAGATAAATGATGCCACCAACTTGTGTGGGTTTTAAAGAAAAA-AAAAGG
1 AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGG
1546866 TACCCTGCTC
Statistics
Matches: 3139, Mismatches: 686, Indels: 447
0.73 0.16 0.10
Matches are distributed among these distances:
67 4 0.00
68 34 0.01
69 72 0.02
70 106 0.03
71 186 0.06
72 443 0.14
73 890 0.28
74 978 0.31
75 100 0.03
76 23 0.01
77 19 0.01
78 10 0.00
79 6 0.00
80 15 0.00
81 93 0.03
82 7 0.00
83 3 0.00
84 12 0.00
85 11 0.00
86 19 0.01
87 11 0.00
88 41 0.01
89 56 0.02
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (74 bp):
AAAAAGATAAATGATGTCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCCCACCTTT
TAAGGACTA
Found at i:1543128 original size:73 final size:72
Alignment explanation
Indices: 1543005--1546888 Score: 2604
Period size: 73 Copynumber: 52.7 Consensus size: 72
1542995 AGGATTTGAA
* * * * * * *
1543005 TGTGTGGGTTTTGAAGAAAAAGAAAAAGCGTCAT-ATTTTTGAGGATTGAAAAAGATAAATAATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1543069 CCACTAGCT
64 CCACCAGCT
* * * * *
1543078 TGTTTGGGTTTGAAGAAAAAAAAGAGGCGTCATACTCTTTGAGGACTGAAAAAGTTAAATGATGC
1 TGTGTGGGTTTGAAGAAAAAAAA-AGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGC
*
1543143 CACAAGCT
65 CACCAGCT
* * * *
1543151 TGTGTAGGGTTT--A-AAAAAAAGAGGCATCTTACTCTTTGAGGACTGAAAAAGATATATGATGC
1 TGTGT-GGGTTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGC
1543213 CACCAG-T
65 CACCAGCT
* * * * * * * *
1543220 CTGTGTAAGCTTTGAAGAAAAAAAGAGACGTCCTACTCTTTGAAGACTCAAAAAGATAAATGATG
1 -TGTGT-GGGTTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
**
1543285 TTACCAGCT
64 CCACCAGCT
* * * * * *
1543294 TGTGTGAGCTTTGAAGAAAAAGAAAAAGTATCCTACTCTTTGAGGAAC-GGAAAA-ATACATGAT
1 TGTGTG-GGTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGG-ACTGAAAAAGATAAATGAT
*
1543357 GTCACCAGCT
63 GCCACCAGCT
* * * * * * * * * *
1543367 TATGTGGGCTTTAAAGAAAAAGAAGAGACATCCTACTTTTTAAGGACTTAAAAAAATAAATAATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
1543432 CCACCAGCT
64 CCACCAGCT
* * * ** * *
1543441 TGTGTAGGCTTTGAATGGGTGGGTTTTGGAGAAAAAGAAAAGGCATCCTATTTTTTGAGGATTGA
1 TGTGT-GGGTTTGAA------------GAAAAAAAA----AGGCATCCTGCTCTTTGAGGACTGA
* *
1543506 AAAAGATAAATAATGCCACCAACT
49 AAAAGATAAATGATGCCACCAGCT
* * * * *
1543530 TGTTTGGGTTTGAAGGAAAAAAAAAGGCATCTTGCTTTTTAAGCACTGAAAAAG-TAAATGATGC
1 TGTGTGGGTTTGAA-GAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGC
*
1543594 CACCAACT
65 CACCAGCT
* * * *
1543602 TGTGTGGACTTTGAAGAAAAAGAAAA-GTATCCTGCTCTTTGAAGACTAAAAAAGATAAAT-ATT
1 TGTGTGG-GTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGA-T
1543665 GCCACCAGCT
63 GCCACCAGCT
* **** * *
1543675 TGTGTAGGCTTTGAAGAAAAAGAAAATTTGTTCTGCTCTTT-AGAAACTGAAAAAGATAAATGAT
1 TGTGT-GGGTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAG-GACTGAAAAAG----AT-A-
*
1543739 AGATGATGCCACTAGCT
57 A-ATGATGCCACCAGCT
* * * * *
1543756 TATGTGGGCTTTGAAGAAAAAGAAAAGACATCTTGCTCTTTGAGGACTG-GAATGATAAATGATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
1543820 CCACCAGCT
64 CCACCAGCT
* * * **
1543829 TGTGTGGGCTTTGAAGAAAAATAAAAGGCATCTTTCTCTTTGAGTACT-TCAAAGATAAATGATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
1543893 CCACCAGCT
64 CCACCAGCT
* * * * *
1543902 TGTGTGAGCTTTGAAGAAAAAGAAAAGGCGTCCTACTCTTAGAGGACTAAAAAAGATAAATGATG
1 TGTGTG-GGTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1543967 CCACCAGTT
64 CCACCAGCT
* ** ** * * *
1543976 TATGTGGGTTTTGAAGAAAAAGAAAAGGTGTTATGCTTTTTGTGGACTGAAAAAAATAAATGATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1544041 CCACTAG-T
64 CCACCAGCT
* * *
1544049 TTTGTTGGCTTTGAAGAAAAAGAAAAGGCATCATGCTCTTTGAAGG-CTGAAAAAGATAAATGAT
1 TGTG-TGGGTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTG-AGGACTGAAAAAGATAAATGAT
* *
1544113 GCCACTAGTT
63 GCCACCAGCT
* ** * ** * *
1544123 TTTGTTGAATTT--A-AAAAAAAAAGGCGTTTTTGCTCTTTGAGGATTGACAAAGATAAATGATG
1 TGTG-TGGGTTTGAAGAAAAAAAAAGGC-ATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
** *
1544185 CCATTAGCA
64 CCACCAGCT
* * ** *
1544194 AGTTTAGGCCTTGAAGAAAAAGCAAAAGTG--TCCTGCTCTTTGAGGACTG-AAAAGATAAATTA
1 TGTGT-GGGTTTGAAGAAAAA--AAAAG-GCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGA
*
1544256 TGCCACCAACT
62 TGCCACCAGCT
* * * * *
1544267 TGTATGGGCTTTGAAGAGAAAGAAAAGGCATCATGCT-TTGTGA--ATTGAAAAAGATAATTGAT
1 TGTGTGGG-TTTGAAGA-AAAAAAAAGGCATCCTGCTCTT-TGAGGACTGAAAAAGATAAATGAT
1544329 GCCACCAGCT
63 GCCACCAGCT
* * * * *
1544339 TGTGTGGGCTTTAAAGAAAAAGAAAAGGCATCTTGCTCATTAAGGACCGAAAAAGATAAATGATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1544404 CCACTAG-T
64 CCACCAGCT
* * * * * *
1544412 TGTGTAAGGTTTGAAGAAAAAAAAAGGCATCTTACTTTTTGAGGATTGAAAAAGATAAATAATGC
1 TGTGT-GGGTTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGC
1544477 CACCAGCT
65 CACCAGCT
* * * * * *
1544485 TGTGTGGACTTTGAAAAAAAAAGAAAAGGTATCTTTCTTTTTGAGGACTGAAAAAGATAAATGAT
1 TGTGTGG-GTTTG-AAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGAT
* ** *
1544550 GCAATTA-AT
63 GCCACCAGCT
** * * *
1544559 TGTGTGGGCTTCAAAGAAAAAGAAAA-GCTTTCTTGCTTTTTGAGGACTGAAAAAGATAAATGAT
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGC-ATCCTGCTCTTTGAGGACTGAAAAAGATAAATGAT
1544623 GCCACCAGCT
63 GCCACCAGCT
*
1544633 TGTGTGGGCTTTGAAGAAAAAGAAAAGGCA---T-C-CTTTGAGGACTGGAAAAGATAAAT-ATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
**
1544692 CCAAAAGCT
64 CCACCAGCT
* * * * * * *
1544701 TGTGTGGGTTTTAGAGAAAAAGAAGAGGCGTCTTAG-TTTTTGATGACTAAAAAAGATAAATGAT
1 TGTGTGGGTTTGA-AGAAAAA-AAAAGGCATCCT-GCTCTTTGAGGACTGAAAAAGATAAATGAT
1544765 GCCACCAGCT
63 GCCACCAGCT
* *
1544775 TGTGTAGGCTTTGAAG-AAAAAAAAGTG--TCCTACTCTTTGAGGACTGAAAAAGATAAATGATG
1 TGTGT-GGGTTTGAAGAAAAAAAAAG-GCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
** *
1544837 TTACTAGCT
64 CCACCAGCT
* * * * *
1544846 TGTGTGGGCTTTGAAGAAAAAGAAAAAGTATCCTACTCTTTGAGGACTAAAAAAGATACATGATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
* *
1544911 TCACCAGTT
64 CCACCAGCT
* * * * * * * * *
1544920 TGTGTGGGGTTTGAAGAAAAAGAAGAGACGTCATACTTTTTGAGGACTAAAAAAAATAAATAATG
1 TGTGT-GGGTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1544985 CTACCAGCT
64 CCACCAGCT
* * ** * *
1544994 TGTGTAGGCTTTGAATGTGTGGATTTTGAAGAAAAAGAAAAGGCGTCCTATTTTTTGAGGATTGA
1 TGTGT-GGGTTTGAA------GA-----AA-AAAA----AAGGCATCCTGCTCTTTGAGGACTGA
* * *
1545059 AAAAGATAAATAATGCTACTAGCT
49 AAAAGATAAATGATGCCACCAGCT
* * * * * * *
1545083 TGTTTAGGTTTGAAGGAAAAAAAAGACATCTTACTCTTTGAGAACTGAAAAAGATAAATGATGCC
1 TGTGTGGGTTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCC
*
1545148 ACCAACT
66 ACCAGCT
* * * * * *
1545155 TGTGTGGGCTTTGAATAAAAAAAAAAGGCATCCTACTCTTTGATGATTGAAAAATATAAATGTTG
1 TGTGTGGG-TTTGAA-GAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1545220 CCACTAGCT
64 CCACCAGCT
* **
1545229 TGTGTTGGGTTTGAAGAAAAAGAAGAGGTGTCCTGCTCTTT-AGGGACTGAAAAAGGTAAATGAT
1 TGTG-TGGGTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGA-GGACTG---AA---AAA-GAT
*
1545293 AAATGATGCCACTAGCT
56 AAATGATGCCACCAGCT
* ** *
1545310 TATGTGGGCTTT-AGAGAAAAAGAAAAGATATCCTACTCTTTGAGGACTG-AAAAGATAAATGAT
1 TGTGTGGG-TTTGA-AGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGAT
1545373 GCCACCAGCT
63 GCCACCAGCT
* * * * *
1545383 TGTGTGGGCTTTGAAGAAAAAGAAAAGGCATCTTGCTCTTTAAGTACT-AAAAAGATAAATAAGG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
1545447 CCACCAGCT
64 CCACCAGCT
* * * * * *
1545456 AGCGTGGGCTTTGAAGAAAAAAAAATGACGTTCTACTCTTTGAGGACTGAAAAAGATAAATGATG
1 TGTGTGGG-TTTGAAGAAAAAAAAA-GGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1545521 CCACCAGTT
64 CCACCAGCT
* * * * * *
1545530 TGTGTGGGTTTTAAAAAAAAGAAAAGACGTCTTGC-CTTTTGAGGACTGAAAAAAATAAATGATG
1 TGTGTGGGTTTGAAGAAAAA-AAAAGGCATCCTGCTC-TTTGAGGACTGAAAAAGATAAATGATG
1545594 CCACCAG-T
64 CCACCAGCT
* * * * * * *
1545602 TTTGT-AGTCCTTGAAG-AAAAAAAA-GAAGTCATGCTCTCTGAAGACTAAAAAAGATAAATGAT
1 TGTGTGGGT--TTGAAGAAAAAAAAAGGCA-TCCTGCTCTTTGAGGACTGAAAAAGATAAATGAT
* *
1545664 ACCATCAGCT
63 GCCACCAGCT
* * * * * *
1545674 TGTGTCGGCTTTGATA-AAAAGGAAAAGGCATCTTACTCTTTGAGGATTGAAAGAGATAAATGAT
1 TGTGT-GGGTTTGA-AGAAAA-AAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGAT
*
1545738 GCTACCAGCT
63 GCCACCAGCT
* * * * * * *
1545748 GGTTTAGGGCTTGAAGAAAGAGAAAAAGTC-TCCTGCTTTTTGATGACT-AAAAAGATAAATTAT
1 TGTGT-GGGTTTGAAGAAA-A-AAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGAT
1545811 GCCACCAGCT
63 GCCACCAGCT
** * * *
1545821 TGTGTGGGCTTTGAAGGAAAAGTAAAGGCATCCTGCTTTTTGAGGATTGAAAAAGATAATTGATG
1 TGTGTGGG-TTTGAA-GAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
1545886 CCACCAGCT
64 CCACCAGCT
* * * * * * * *
1545895 TTTTTGGGCTTTGAAGAAAAAGGAAAGGCGTCCTACTCATTAAGGGCTGAAAAAGATAAATGATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1545960 -CACC-GGT
64 CCACCAGCT
* * *
1545967 TGTGTAGGCTTTGAAGAAAAAGAAAAGGCATCCTGCTTTTTGAGGACTAAAAAAGATAAATGATG
1 TGTGT-GGGTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
* * *
1546032 CTAGCAACT
64 CCACCAGCT
* * * * ** * * * *
1546041 TATGCGAGCTTTGAAGAAAAAGAAGAGGCATTTTACTTTTTGAGGACTTAAAAAGATAAATGGTG
1 TGTGTG-GGTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
** *
1546106 TGACCA-AT
64 CCACCAGCT
* * * * * * *
1546114 TGTGTGGGCTTTGATG-AAAAAAAA-CCTTCTTGCTTTTTGAAGACTGAAAAAGATAAATGATAC
1 TGTGTGGG-TTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGC
1546177 CACCAGCT
65 CACCAGCT
** ** * * * * *
1546185 TGTGTGACCTTCAAAGAAAAAGAAAGGTATCCCGCTCTTTGAGAACTGGAAAAGATAAAT-ATGC
1 TGTGTG-GGTTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGC
* *
1546249 CA-AATACT
65 CACCA-GCT
* * ** * *
1546257 TGTGTGGGCTTTGAAGAAAAAGAAGAGGCGTCCTATTTTTTGACGACT-AAAAAGGATAAATGAT
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAA-GATAAATGAT
1546321 GCCACCAGCT
63 GCCACCAGCT
* * * * * *
1546331 TGTGTTAGCTTT-AA-AGAAAAAAATG--TCCTACTCTTTGAGGATTGAAAAAGATAAATGATGC
1 TGTG-TGGGTTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGC
1546392 CACCAGCT
65 CACCAGCT
* * *
1546400 TGTTTGGGCTTTGAAGAAAAAGAAAAGGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1546465 CCGCCAGCT
64 CCACCAGCT
* *
1546474 CT-TGTTGGCTTTGAA-AAAAAAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATG
1 -TGTG-TGGGTTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
* *
1546537 CCACTAGCC
64 CCACCAGCT
* * * *
1546546 TGTGTGGGTTTTGATGAAAAAGAAAAGACATCCTGCTATTTGAGGACTAAAAAAGATAAATGATG
1 TGTGTGGG-TTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1546611 CCACTAGCT
64 CCACCAGCT
** * ** * * * * * * *
1546620 TGTGCCGCTTTGAAGAAAAAAAAAGGTGTCTTACTTTTTGAGAATTGAAAAAGACAAATGATCCC
1 TGTGTGGGTTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCC
* *
1546685 ACCAACC
66 ACCAGCT
* * ** ** * * * *
1546692 GGTTTAGCCTTTGAAGAAAAAGAAAAGGTGTCTTGCTCTTTGAGAACTAAAAAAGATAAATGATA
1 TGTGT-GGGTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1546757 CCACTAGCT
64 CCACCAGCT
* * * * * * *
1546766 TGTATGAGCTTTAAAGAAAAAGAAAAGGCGTCTTGCTCTTTAAGGATTG-AAAAGATAAATGATG
1 TGTGTG-GGTTTGAAGAAAAA-AAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATG
*
1546830 CCACCAACT
64 CCACCAGCT
* * * *
1546839 TGTGTGGGTTTTAAAGAAAAAAAAAGGTACCCTGCTCTTTGAAGACTGAA
1 TGTGTGGG-TTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAA
1546889 GTGGATAATG
Statistics
Matches: 3045, Mismatches: 577, Indels: 378
0.76 0.14 0.09
Matches are distributed among these distances:
67 4 0.00
68 34 0.01
69 63 0.02
70 107 0.04
71 174 0.06
72 485 0.16
73 940 0.31
74 893 0.29
75 79 0.03
76 11 0.00
77 13 0.00
78 2 0.00
79 1 0.00
80 16 0.01
81 99 0.03
82 5 0.00
85 6 0.00
86 6 0.00
88 15 0.00
89 92 0.03
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (72 bp):
TGTGTGGGTTTGAAGAAAAAAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCC
ACCAGCT
Found at i:1545071 original size:89 final size:88
Alignment explanation
Indices: 1544920--1545096 Score: 246
Period size: 89 Copynumber: 2.0 Consensus size: 88
1544910 GTCACCAGTT
* *
1544920 TGTGTGGGGTTTGAAGAAAAAGAAGAGACGTCATACTTTTTGAGGACTAAAAAAAATAAATAATG
1 TGTGTGGAGTTTGAAGAAAAAGAAAAGACGTCATACTTTTTGAGGACTAAAAAAAATAAATAATG
1544985 CTACCAGCTTGTGTAGGCTTTGAA
66 CTACCAGCTTGTGTAGG-TTTGAA
* * * * * * *
1545009 TGTGTGGATTTTGAAGAAAAAGAAAAGGCGTCCTATTTTTTGAGGATTGAAAAAGATAAATAATG
1 TGTGTGGAGTTTGAAGAAAAAGAAAAGACGTCATACTTTTTGAGGACTAAAAAAAATAAATAATG
* *
1545074 CTACTAGCTTGTTTAGGTTTGAA
66 CTACCAGCTTGTGTAGGTTTGAA
1545097 GGAAAAAAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 6 0.08
89 71 0.92
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.31
Consensus pattern (88 bp):
TGTGTGGAGTTTGAAGAAAAAGAAAAGACGTCATACTTTTTGAGGACTAAAAAAAATAAATAATG
CTACCAGCTTGTGTAGGTTTGAA
Found at i:1546317 original size:216 final size:216
Alignment explanation
Indices: 1544715--1546885 Score: 890
Period size: 220 Copynumber: 9.8 Consensus size: 216
1544705 TGGGTTTTAG
* * * * * *
1544715 AGAAAAAGAAGAGGCGTCTTAGTTTTTGATGACTAAAAAAGATAAATGATGCCACCAGCTTGTGT
1 AGAAAAAGAAGAGGCATCCTACTTTTTGACGACTTAAAAAGATAAATGATGCCACCAGATTGTGT
* * ** *
1544780 -AGGCTTTGAAGAAAAAAAAGTGTCCTACTCTTTGAGGACTGAAAAAGATAAATGATGTTACTAG
66 GA-GCTTTAAAG-AAAAAAA-TGTCCTACTCTTTGAAGACTGAAAAAGATAAATGAT-CCACCAG
* * * * *
1544844 CTTGTGTGGGCTTTGAAGAAAAAGAAAAAGTATCCTACTCTTTGAGGACTAAAAAAGATACATGA
127 CTTGTGTGAGCTTTGAAGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGATAAATGA
* ** ** * * * *
1544909 TGTCACCAGTTTGTGTGGGGTTTGA
192 TGCCAGAAACTTATGCGAGCTTTGA
* * * * * * * * *
1544934 AGAAAAAGAAGAGACGTCATACTTTTTGAGGACTAAAAAAAATAAATAATGCTACCAGCTTGTGT
1 AGAAAAAGAAGAGGCATCCTACTTTTTGACGACTTAAAAAGATAAATGATGCCACCAGATTGTGT
* * * * *
1544999 -AGGCTTTGAATGTGTGGATTTTGAAGAAAAAGAAAAGGCGTCCTATTTTTTGAGGATTGAAAAA
66 GA-GC------T-T-T--A-----AAG--AAA-AAAA--TGTCCTACTCTTTGAAGACTGAAAAA
* * * * * * * * * *
1545063 GATAAATAATGCTACTAGCTTGT-TTAGGTTTGAAGGAAAA-AAAAGACATCTTACTCTTTGAGA
110 GATAAATGAT-CCACCAGCTTGTGTGAGCTTTGAAGAAAAAGAAAAGGCATCCTGCTCTTTGAGG
* ** * * *
1545126 ACTGAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGA
174 ACTAAAAAAGATAAATGATGCCAGAAACTTATGCGAGCTTTGA
* * * * * * * * *
1545169 ATAAAAAAAAAAGGCATCCTACTCTTTGATGA-TTGAAAAATATAAATGTTGCCACTAGCTTGTG
1 AGAAAAAGAAGAGGCATCCTACTTTTTGACGACTT-AAAAAGATAAATGATGCCACCAGATTGTG
* * * *
1545233 TTG-GGTTTGAAGAAAAAGAAGAGGTGTCCTGCTCTTT-AGGGACTGAAAAAGGTAAATGATAAA
65 -TGAGCTTTAAAG-AAAA-AA-A--TGTCCTACTCTTTGA-AGACTG---AA---AAA-GATAAA
* * * ** * *
1545296 TGATGCCACTAGCTTATGTGGGCTTT-AGAGAAAAAGAAAAGATATCCTACTCTTTGAGGACT-G
116 TGAT-CCACCAGCTTGTGTGAGCTTTGA-AGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAA
** * * * *
1545359 AAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGA
179 AAAAGATAAATGATGCCAGAAACTTATGCGAGCTTTGA
* * * * * * * * * *
1545397 AGAAAAAGAAAAGGCATCTTGCTCTTT-AAGTAC-TAAAAAGATAAATAAGGCCACCAGCTAGCG
1 AGAAAAAGAAGAGGCATCCTACTTTTTGACG-ACTTAAAAAGATAAATGATGCCACCAGATTGTG
* * * *
1545460 TGGGCTTTGAAGAAAAAAAAATGACGTTCTACTCTTTGAGGACTGAAAAAGATAAATGATGCCAC
65 TGAGCTTT-AA-AGAAAAAAAT---GTCCTACTCTTTGAAGACTGAAAAAGATAAATGAT-CCAC
* * * * * * *
1545525 CAGTTTGTGTG-GGTTTTAAAAAAAAGAAAAGACGTCTTGC-CTTTTGAGGACTGAAAAAA-ATA
124 CAGCTTGTGTGAGCTTTGAAGAAAAAGAAAAGGCATCCTGCTC-TTTGAGGACT-AAAAAAGATA
** * * * *
1545587 AATGATGCCA-CCAGTTTTG-TAGTCCTTGA
187 AATGATGCCAGAAACTTATGCGAG-CTTTGA
* * * * * * * * *
1545616 AGAAAAAAAAGAAGTCATGCT-C--TCTGAAGACTAAAAAAGATAAATGATACCATCAGCTTGTG
1 AGAAAAAGAAG-AGGCATCCTACTTTTTGACGACTTAAAAAGATAAATGATGCCACCAGATTGTG
* * * * * *
1545678 TCG-GCTTTGATAA-AAAGGAAAAGGCATCTTACTCTTTGAGGATTGAAAGAGATAAATGATGCT
65 T-GAGCTTT-A-AAGAAA--AAAATG--TCCTACTCTTTGAAGACTGAAAAAGATAAATGAT-CC
* * * * * * *
1545741 ACCAGCTGGTTTAGGGC-TTGAAGAAAGAGAAAAAGTC-TCCTGCTTTTTGATGACT-AAAAAGA
122 ACCAGCTTGTGT-GAGCTTTGAAGAAAAAG-AAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGA
* ** * * * *
1545803 TAAATTATGCCACCAGCTTGTGTGGGCTTTGA
185 TAAATGATGCCAGAAACTTATGCGAGCTTTGA
* * * * * *
1545835 AGGAAAAGTAA-AGGCATCCTGCTTTTTGAGGA-TTGAAAAAGATAATTGATGCCACCAGCTTTT
1 AGAAAAAG-AAGAGGCATCCTACTTTTTGACGACTT-AAAAAGATAAATGATGCCACCAGATTGT
* * * * * * *
1545898 TTGGGCTTTGAAGAAAAAGGAAAGGCGTCCTACTCATT-AAGGGCTGAAAAAGATAAATGATGCA
64 GTGAGCTTTAAAG-AAAA--AAA--TGTCCTACTCTTTGAA-GACTGAAAAAGATAAATGATCCA
* *
1545962 CC-GGTTGTGT-AGGCTTTGAAGAAAAAGAAAAGGCATCCTGCTTTTTGAGGACTAAAAAAGATA
123 CCAGCTTGTGTGA-GCTTTGAAGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGATA
* *
1546025 AATGATGCTAGCAACTTATGCGAGCTTTGA
187 AATGATGCCAGAAACTTATGCGAGCTTTGA
** * * **
1546055 AGAAAAAGAAGAGGCATTTTACTTTTTGAGGACTTAAAAAGATAAATGGTGTGACCA-ATTGTGT
1 AGAAAAAGAAGAGGCATCCTACTTTTTGACGACTTAAAAAGATAAATGATGCCACCAGATTGTGT
* * * * * *
1546119 GGGCTTTGATGAAAAAAAACCT-TCTTGCTTTTTGAAGACTGAAAAAGATAAATGATACCACCAG
66 GAGCTTTAAAG-AAAAAAA--TGTCCTACTCTTTGAAGACTGAAAAAGATAAATGAT-CCACCAG
* ** * * * **
1546183 CTTGTGTGACCTTCAAAGAAAAAG-AAAGGTATCCCGCTCTTTGAGAACTGGAAAAGATAAAT-A
127 CTTGTGTGAGCTTTGAAGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGATAAATGA
* * *
1546246 TGCCA-AATACTTGTGTGGGCTTTGA
192 TGCCAGAA-ACTTATGCGAGCTTTGA
* * *
1546271 AGAAAAAGAAGAGGCGTCCTATTTTTTGACGAC-TAAAAAGGATAAATGATGCCACCAGCTTGTG
1 AGAAAAAGAAGAGGCATCCTACTTTTTGACGACTTAAAAA-GATAAATGATGCCACCAGATTGTG
* * *
1546335 TTAGCTTTAAAGAAAAAAATGTCCTACTCTTTGAGGATTGAAAAAGATAAATGATGCCACCAGCT
65 TGAGCTTTAAAGAAAAAAATGTCCTACTCTTTGAAGACTGAAAAAGATAAATGAT-CCACCAGCT
* * *
1546400 TGTTTGGGCTTTGAAGAAAAAGAAAAGGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATG
129 TGTGTGAGCTTTGAAGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGATAAATGATG
* * *
1546465 CC-GCCAGCTCT-TGTTG-GCTTTGA
194 CCAG-AAACT-TATG-CGAGCTTTGA
* * * * * * * **
1546488 A-AAAAA-AAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACTAGCCTGTGT
1 AGAAAAAGAAGAGGCATCCTACTTTTTGACGACTTAAAAAGATAAATGATGCCACCAGATTGTGT
* * * ** * * * * *
1546551 GGGTTTTGATGAAAAAGAAAAGACATCCTGCTATTTGAGGACTAAAAAAGATAAATGATGCCACT
66 GAGCTTT-A--AAGAA-AAAA-ATGTCCTACTCTTTGAAGACTGAAAAAGATAAATGAT-CCACC
** ** * * * * * * *
1546616 AGCTTGTG-CCGCTTTGAAGAAAAA-AAAAGGTGTCTTACTTTTTGAGAATTGAAAAAGACAAAT
125 AGCTTGTGTGAGCTTTGAAGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGATAAAT
* ** *** **
1546679 GATCCCACCAACCGGT-TTAGCCTTTGA
190 GATGCCAGAAACTTATGCGAG-CTTTGA
* ** * * * * * * * *
1546706 AGAAAAAGAAAAGGTGTCTTGCTCTTTGA-GAACTAAAAAAGATAAATGATACCACTAGCTTGTA
1 AGAAAAAGAAGAGGCATCCTACTTTTTGACG-ACTTAAAAAGATAAATGATGCCACCAGATTGTG
* * * *
1546770 TGAGCTTTAAAGAAAAAGAAAAGGCGTCTTGCTCTTT-AAGGATTG-AAAAGATAAATGATGCCA
65 TGAGCTTTAAAG--AAA-AAAA--TGTCCTACTCTTTGAA-GACTGAAAAAGATAAATGAT-CCA
* * * * * * *
1546833 CCAACTTGTGTGGGTTTTAAAGAAAAA-AAAAGGTACCCTGCTCTTTGAAGACT
123 CCAGCTTGTGTGAGCTTTGAAGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACT
1546886 GAAGTGGATA
Statistics
Matches: 1530, Mismatches: 305, Indels: 233
0.74 0.15 0.11
Matches are distributed among these distances:
214 1 0.00
215 107 0.07
216 139 0.09
217 86 0.06
218 182 0.12
219 282 0.18
220 294 0.19
221 77 0.05
223 3 0.00
224 3 0.00
225 1 0.00
226 7 0.00
227 69 0.05
228 80 0.05
229 25 0.02
234 4 0.00
235 108 0.07
236 18 0.01
237 44 0.03
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (216 bp):
AGAAAAAGAAGAGGCATCCTACTTTTTGACGACTTAAAAAGATAAATGATGCCACCAGATTGTGT
GAGCTTTAAAGAAAAAAATGTCCTACTCTTTGAAGACTGAAAAAGATAAATGATCCACCAGCTTG
TGTGAGCTTTGAAGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGATAAATGATGCC
AGAAACTTATGCGAGCTTTGA
Found at i:1549582 original size:13 final size:13
Alignment explanation
Indices: 1549564--1549589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1549554 TACACCAAGT
1549564 ATGTATCGATACA
1 ATGTATCGATACA
1549577 ATGTATCGATACA
1 ATGTATCGATACA
1549590 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1554054 original size:13 final size:13
Alignment explanation
Indices: 1554036--1554061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1554026 CAATTTTTTG
1554036 TGTATCGATACAT
1 TGTATCGATACAT
1554049 TGTATCGATACAT
1 TGTATCGATACAT
1554062 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1554126 original size:21 final size:21
Alignment explanation
Indices: 1554100--1554175 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1554090 CTGCCAAGAA
*
1554100 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1554121 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1554141 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1554162 ATGTATCGATACAT
1 ATGTATCGATACAT
1554176 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1554146 original size:20 final size:20
Alignment explanation
Indices: 1554121--1554193 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1554111 CATCTTTTTT
1554121 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1554141 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1554162 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1554182 ATGTATCGATAC
1 ATGTATCGATAC
1554194 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1554157 original size:41 final size:41
Alignment explanation
Indices: 1554100--1554193 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1554090 CTGCCAAGAA
*
1554100 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1554141 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1554182 ATGTATCGATAC
1 ATGTATCGATAC
1554194 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1554850 original size:31 final size:31
Alignment explanation
Indices: 1554812--1554874 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
1554802 CCCCTGTTTA
1554812 AAAAAAAATCTCCCCCTTAATCAAGTAATTC
1 AAAAAAAATCTCCCCCTTAATCAAGTAATTC
1554843 AAAAAAAATCTCCCCCTTAATCAAGTAATTC
1 AAAAAAAATCTCCCCCTTAATCAAGTAATTC
1554874 A
1 A
1554875 TATCAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.25, G:0.03, T:0.25
Consensus pattern (31 bp):
AAAAAAAATCTCCCCCTTAATCAAGTAATTC
Found at i:1556687 original size:13 final size:13
Alignment explanation
Indices: 1556669--1556707 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1556659 ATAATCACCC
*
1556669 TGTATCGATACAG
1 TGTATCGATACAA
1556682 TGTATCGATACAA
1 TGTATCGATACAA
1556695 TGTATCGATACAA
1 TGTATCGATACAA
1556708 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1556718 original size:20 final size:20
Alignment explanation
Indices: 1556693--1556771 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1556683 GTATCGATAC
1556693 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
1556713 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
1556738 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
1556757 ACATGTATCGATACA
1 A-ATGTATCGATACA
1556772 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:1562888 original size:13 final size:13
Alignment explanation
Indices: 1562870--1562895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1562860 CAATTTTTTG
1562870 TGTATCGATACAT
1 TGTATCGATACAT
1562883 TGTATCGATACAT
1 TGTATCGATACAT
1562896 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1562960 original size:21 final size:21
Alignment explanation
Indices: 1562934--1563009 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1562924 CTGCCAAGAA
*
1562934 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1562955 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1562975 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1562996 ATGTATCGATACAT
1 ATGTATCGATACAT
1563010 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1562980 original size:20 final size:20
Alignment explanation
Indices: 1562955--1563027 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1562945 CATCTTTTTT
1562955 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1562975 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1562996 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1563016 ATGTATCGATAC
1 ATGTATCGATAC
1563028 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1562991 original size:41 final size:41
Alignment explanation
Indices: 1562934--1563027 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1562924 CTGCCAAGAA
*
1562934 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1562975 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1563016 ATGTATCGATAC
1 ATGTATCGATAC
1563028 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1564867 original size:97 final size:93
Alignment explanation
Indices: 1564671--1564887 Score: 240
Period size: 97 Copynumber: 2.3 Consensus size: 93
1564661 TTGAAAAATG
* * * *
1564671 GGGGTTGGAGTATCCCCT-TGAAGGAATAGGGTTGAAATATCCCCGATAATGATAATAATAAAAT
1 GGGGTTGGAGTATCCCCTCGGAA-GAATAAGGTTGAAATATCCCCGATAATGACAATAAAAAAAT
* *
1564735 AACATTTAAATCTCGATGAGTTTAAAAAT
65 AACATTTAAATCTCAATGAGTTTAAAAAC
* * * *
1564764 AGGGTTGGAGTATCTCCTCGGAAGAATAAGGTTGAAGTATCCCCGATGATGACAATTTAAGCAAA
1 GGGGTTGGAGTATCCCCTCGGAAGAATAAGGTTGAAATATCCCCGATAATGACAA--TAA--AAA
*
1564829 AATAATATTTAAATC-CTAATGAGTTTAAAAAC
62 AATAACATTTAAATCTC-AATGAGTTTAAAAAC
* * *
1564861 GGGGTTGGAATAACCCCTCGAAAGAAT
1 GGGGTTGGAGTATCCCCTCGGAAGAAT
1564888 GGGGTAGGAG
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
93 44 0.43
94 3 0.03
95 3 0.03
96 1 0.01
97 51 0.50
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (93 bp):
GGGGTTGGAGTATCCCCTCGGAAGAATAAGGTTGAAATATCCCCGATAATGACAATAAAAAAATA
ACATTTAAATCTCAATGAGTTTAAAAAC
Found at i:1566597 original size:52 final size:52
Alignment explanation
Indices: 1566518--1566643 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 52
1566508 AATTGCGTGC
* * *
1566518 ATGTATCGATAC-ATTAAAGAATGTATCGATAAATTTAGATAAAAAACTCAAA
1 ATGTATCGATACAATGAAA-AATATATCGATAAATTTAGATAAAAAACCCAAA
** * * ** *
1566570 ATGTATCGATACAATGAAAAATATATCGATACGTTTGGGTTGAAGACCCAAA
1 ATGTATCGATACAATGAAAAATATATCGATAAATTTAGATAAAAAACCCAAA
*
1566622 ATGTATCGATACAACGAAAAAT
1 ATGTATCGATACAATGAAAAAT
1566644 GTATTAATAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
52 57 0.92
53 5 0.08
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATATATCGATAAATTTAGATAAAAAACCCAAA
Found at i:1576421 original size:13 final size:13
Alignment explanation
Indices: 1576403--1576428 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1576393 CAATTTTTTG
1576403 TGTATCGATACAT
1 TGTATCGATACAT
1576416 TGTATCGATACAT
1 TGTATCGATACAT
1576429 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1577261 original size:107 final size:107
Alignment explanation
Indices: 1577075--1577298 Score: 439
Period size: 107 Copynumber: 2.1 Consensus size: 107
1577065 AATTTAACGA
*
1577075 ATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCGTTTATT
1 ATTTGCACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCGTTTATT
1577140 AATAAATCTCCCCCTTAATCAAGTAATTCATATCAAAAATTT
66 AATAAATCTCCCCCTTAATCAAGTAATTCATATCAAAAATTT
1577182 ATTTGCACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCGTTTATT
1 ATTTGCACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCGTTTATT
1577247 AATAAATCTCCCCCTTAATCAAGTAATTCATATCAAAAATTT
66 AATAAATCTCCCCCTTAATCAAGTAATTCATATCAAAAATTT
1577289 ATTTGCACAT
1 ATTTGCACAT
1577299 ATCTATTTTC
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 116 1.00
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (107 bp):
ATTTGCACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCGTTTATT
AATAAATCTCCCCCTTAATCAAGTAATTCATATCAAAAATTT
Found at i:1579094 original size:13 final size:13
Alignment explanation
Indices: 1579076--1579114 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1579066 ATAATCACCC
*
1579076 TGTATCGATACAG
1 TGTATCGATACAA
1579089 TGTATCGATACAA
1 TGTATCGATACAA
1579102 TGTATCGATACAA
1 TGTATCGATACAA
1579115 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1579125 original size:20 final size:20
Alignment explanation
Indices: 1579100--1579178 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1579090 GTATCGATAC
1579100 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1579120 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
1579145 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1579165 CATGTATCGATACA
1 AATGTATCGATACA
1579179 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1581204 original size:15 final size:15
Alignment explanation
Indices: 1581184--1581214 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1581174 ATTTTGTTTG
1581184 GAGCTTCTTCATTTT
1 GAGCTTCTTCATTTT
1581199 GAGCTTCTTCATTTT
1 GAGCTTCTTCATTTT
1581214 G
1 G
1581215 GACATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (15 bp):
GAGCTTCTTCATTTT
Found at i:1583046 original size:21 final size:21
Alignment explanation
Indices: 1583017--1583061 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1583007 AAGTTTTCAT
*
1583017 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1583037 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1583059 TTT
1 TTT
1583062 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1585297 original size:13 final size:13
Alignment explanation
Indices: 1585279--1585304 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1585269 CAATTTTTTG
1585279 TGTATCGATACAT
1 TGTATCGATACAT
1585292 TGTATCGATACAT
1 TGTATCGATACAT
1585305 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1588291 original size:20 final size:20
Alignment explanation
Indices: 1588266--1588370 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
1588256 TTTTTACAAT
1588266 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
1588286 TTGTATCGATACATTCTAGGTTTTACCCA
1 TTGTATCGATACA-T-T--G--TT---CA
* * *
1588315 GATGTATTGATACATTGCTCA
1 -TTGTATCGATACATTGTTCA
1588336 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
1588356 TTGTATCGATACATT
1 TTGTATCGATACATT
1588371 CTGGGTTTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
20 45 0.65
21 3 0.04
22 1 0.01
24 2 0.03
26 3 0.04
28 1 0.01
29 3 0.04
30 11 0.16
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:1588418 original size:69 final size:70
Alignment explanation
Indices: 1588267--1588419 Score: 245
Period size: 69 Copynumber: 2.2 Consensus size: 70
1588257 TTTTACAATT
* *
1588267 TGTATCGATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCCAGATGTATTGATACATTG
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTAGGGTTTACCCAGATGTATCGATACATTG
*
1588332 CTCAT
66 CTCAA
*
1588337 TGTATCGATACATTGTTCATTGTATCGATACATTCT-GGGTTTACCCAGATGTATCGATACATTT
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTAGGGTTTACCCAGATGTATCGATACATTG
* *
1588401 TTTAA
66 CTCAA
1588406 TGTATCGATACATT
1 TGTATCGATACATT
1588420 CAGGCATTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
69 41 0.53
70 36 0.47
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (70 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTCTAGGGTTTACCCAGATGTATCGATACATTG
CTCAA
Found at i:1590863 original size:79 final size:81
Alignment explanation
Indices: 1590773--1590981 Score: 212
Period size: 79 Copynumber: 2.6 Consensus size: 81
1590763 TCATTCATGT
* * *
1590773 TTTTATTTTCAAAACACCAATTTTTTACAATCGGGGATATTCCAACCCCGTTATTT--TTGAAGG
1 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATATTCCAACCCCGTTATTTCCTAG-AGG
*
1590836 -GATACTCTAACCCCGG
65 AGATACTCCAACCCCGG
* * * ** * *
1590852 TTTTATTTTCAAAAAACTAAATTTTCATAATCAAGGATACTT-CAACCCTGTTATTTCCTAGGGG
1 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATA-TTCCAACCCCGTTATTTCCTAGAGG
*
1590916 AGATACTCCAACCTCGG
65 AGATACTCCAACCCCGG
* * *
1590933 TTTTA-TTTCTAAAACATCAATTTTCCATAATCGGGGATTACTCCAACCC
1 TTTTATTTTC-AAAACACCAATTTTTCATAATCGGGGA-TATTCCAACCC
1590982 TGGTTTTATT
Statistics
Matches: 103, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
79 45 0.44
80 8 0.08
81 42 0.41
82 8 0.08
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (81 bp):
TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATATTCCAACCCCGTTATTTCCTAGAGGA
GATACTCCAACCCCGG
Found at i:1591102 original size:51 final size:51
Alignment explanation
Indices: 1591046--1591164 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
1591036 TATTTCCAAG
* *
1591046 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATCA
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCA
* * * *
1591097 GGGATACTCTAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCA
1591148 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
1591165 TTATTTCATC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCA
Found at i:1591179 original size:130 final size:129
Alignment explanation
Indices: 1590833--1591189 Score: 439
Period size: 130 Copynumber: 2.7 Consensus size: 129
1590823 TTATTTTTGA
* * * * * *
1590833 AGGGATACTCTAACCCCGGTTTTATTTTCAAAA-AACTAAATTTTCATAATCAAGGATACTTCAA
1 AGGGATACTCTAA-CCCGGTTTTATTTCCAAAACATC-AATTTTTCACAATCGAGGATACTCCAA
* * * *
1590897 CCCTGTTATTTCCTAGGGGAGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTCCATA
64 CCCCGTTATTTCATA-GGG-GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACA
1590962 ATC
127 ATC
* * * * ** *
1590965 GGGGATTACTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTCCACCGTCGAGGATACTCTAA
1 AGGGA-TACTCTAACCC-GGTTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCCAA
1591030 CCCCGTTATTTCCA-AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAA
64 CCCCGTTATTT-CATAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAA
1591094 TC
128 TC
* *
1591096 AGGGATACTCTAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
1 AGGGATACTCTAAC-CCGGTTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
* *
1591161 CCCGTTATTTCATCGGGGATACTCTAACC
65 CCCGTTATTTCATAGGGGATACTCCAACC
1591190 TTGTTATTTC
Statistics
Matches: 191, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
129 2 0.01
130 73 0.38
131 52 0.27
132 10 0.05
133 51 0.27
134 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (129 bp):
AGGGATACTCTAACCCGGTTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCCAACC
CCGTTATTTCATAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATC
Found at i:1591180 original size:28 final size:28
Alignment explanation
Indices: 1591144--1591199 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
1591134 ATTTTTCACA
1591144 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
* **
1591172 ATCGGGGATACTCTAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
1591200 TGTTGTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:1593288 original size:12 final size:13
Alignment explanation
Indices: 1593267--1593307 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
1593257 TTTTGAGATG
1593267 TTTG-TTTATTTA
1 TTTGTTTTATTTA
1593279 TTT-TTTTATTTA
1 TTTGTTTTATTTA
*
1593291 TTTGTTTTGTTT-
1 TTTGTTTTATTTA
1593303 TTTGT
1 TTTGT
1593308 ACAATCACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 19 0.73
13 7 0.27
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (13 bp):
TTTGTTTTATTTA
Found at i:1600381 original size:157 final size:157
Alignment explanation
Indices: 1600095--1600412 Score: 600
Period size: 157 Copynumber: 2.0 Consensus size: 157
1600085 ACATTTTCAG
* *
1600095 GTATCCCGATGAAGATAACATGAATGTTCATATTGAGACTTTAGAAATTAACTTCGAGCAATTGA
1 GTATCCCAATGAAGATAACATGAATGTTCATACTGAGACTTTAGAAATTAACTTCGAGCAATTGA
*
1600160 TCTGTACTGGTGAGTTTGAATCGGATGAGGATTTTGAACAGAACCTCGTACCCGAGGACCTTTTG
66 TCTGTACTGGTGAGTTTGAATCGGATGAGGATTTTGAACAGAACCTCATACCCGAGGACCTTTTG
*
1600225 AGACTAATCGAGAAAGAAGAAAAACAA
131 AGACTAATCGAGAAAGAAAAAAAACAA
1600252 GTATCCCAATGAAGATAACATGAATGTTCATACTGAGACTTTAGAAATTAACTTCGAGCAATTGA
1 GTATCCCAATGAAGATAACATGAATGTTCATACTGAGACTTTAGAAATTAACTTCGAGCAATTGA
1600317 TCTGTACTGGTGAGTTTGAATCGGATGAGGATTTTGAACAGAACCTCATACCCGAGGACCTTTTG
66 TCTGTACTGGTGAGTTTGAATCGGATGAGGATTTTGAACAGAACCTCATACCCGAGGACCTTTTG
1600382 AGACTAATCGAGAAAGAAAAAAAACAA
131 AGACTAATCGAGAAAGAAAAAAAACAA
1600409 GTAT
1 GTAT
1600413 TACCTCATGA
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (157 bp):
GTATCCCAATGAAGATAACATGAATGTTCATACTGAGACTTTAGAAATTAACTTCGAGCAATTGA
TCTGTACTGGTGAGTTTGAATCGGATGAGGATTTTGAACAGAACCTCATACCCGAGGACCTTTTG
AGACTAATCGAGAAAGAAAAAAAACAA
Done.