Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 202 of 221
Found at i:59325932 original size:25 final size:23
Alignment explanation
Indices: 59325901--59326158 Score: 158
Period size: 25 Copynumber: 10.1 Consensus size: 23
59325891 ATAACATAAC
59325901 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATA--ATACAT
*
59325926 AACTTACATAACTTACATAATACAA
1 AACTTACATAA--TACATAATACAT
* * *
59325951 AACTTACATAACTTAAATATCTTACAC
1 AACTTACATAA--TACATA--ATACAT
59325978 AACTTACATAACCTACATAATACAT
1 AACTTACATAA--TACATAATACAT
*
59326003 AACTTACATAATACATAATAACTTAC
1 AACTTACATAATACATAAT-AC--AT
* **
59326029 AACTTACATGACATACATTACTTTGAT
1 AACTTACAT-A-ATACA-TA-ATACAT
59326056 AACTTACATAACTTACATAATACAT
1 AACTTACATAA--TACATAATACAT
* *
59326081 AACTTACATAGCTTACTTAATACAT
1 AACTTACATA--ATACATAATACAT
*
59326106 AACTTACATAACT-TATACACGTACAT
1 AACTTACATAA-TACATA-A--TACAT
*
59326132 AACTTACATAATTTACTTAATACAT
1 AACTTACATAA--TACATAATACAT
59326157 AA
1 AA
59326159 ATATATATCA
Statistics
Matches: 188, Mismatches: 24, Indels: 42
0.74 0.09 0.17
Matches are distributed among these distances:
23 10 0.05
24 4 0.02
25 91 0.48
26 29 0.15
27 44 0.23
28 7 0.04
29 2 0.01
30 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (23 bp):
AACTTACATAATACATAATACAT
Found at i:59332069 original size:43 final size:43
Alignment explanation
Indices: 59332008--59332160 Score: 166
Period size: 43 Copynumber: 3.5 Consensus size: 43
59331998 GCGTTTTTTC
* *
59332008 AAAAAATCGCCGCTAAAGGTCATGGTATTTTGC-AGCGTTTGTGG
1 AAAAAA-CGCCGCTAAAGGTCATGGTCTTTAGCGA-CGTTTGTGG
* * * *
59332052 AAAAAACGCCACTAAAGGTCACGGTCTTTAGCGCCGTTT-TTG
1 AAAAAACGCCGCTAAAGGTCATGGTCTTTAGCGACGTTTGTGG
* *
59332094 AGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGATGTTTGTGG
1 A-AAAAACGCCGCTAAAGGTCATGGTCTTTAGCGACGTTTGTGG
* * *
59332138 GAAAAGCGCCGCTAAAAGTCATG
1 AAAAAACGCCGCTAAAGGTCATG
59332161 ACCTTTGGCG
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
42 3 0.03
43 81 0.88
44 8 0.09
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGGTCATGGTCTTTAGCGACGTTTGTGG
Found at i:59333161 original size:22 final size:22
Alignment explanation
Indices: 59333109--59333166 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
59333099 TTCAAATAAT
* *
59333109 AACAAGAAAATAGTAGTAATAT
1 AACAACAAAATAGTAGTAATAC
* *
59333131 AATAGCAAAATAGTAGTGAA-AC
1 AACAACAAAATAGTAGT-AATAC
59333153 AACAACAAAATAGT
1 AACAACAAAATAGT
59333167 TTATTTGGGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.59, C:0.09, G:0.14, T:0.19
Consensus pattern (22 bp):
AACAACAAAATAGTAGTAATAC
Found at i:59334805 original size:25 final size:25
Alignment explanation
Indices: 59334739--59334806 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 25
59334729 TTTCTTTTTG
59334739 TATATTTGATTCTCTA-T-TTTTCA
1 TATATTTGATTCTCTATTATTTTCA
59334762 TATATGTT-ATTCTCT-TTATTTTC-
1 TATAT-TTGATTCTCTATTATTTTCA
*
59334785 TCATATTTGATTATCTATTATT
1 T-ATATTTGATTCTCTATTATT
59334807 ATATTTTCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
23 16 0.42
24 17 0.45
25 5 0.13
ACGTcount: A:0.22, C:0.12, G:0.04, T:0.62
Consensus pattern (25 bp):
TATATTTGATTCTCTATTATTTTCA
Found at i:59348546 original size:16 final size:16
Alignment explanation
Indices: 59348523--59348568 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
59348513 CGTTTAGTTC
59348523 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* **
59348539 GGTGTAATAAAATAGA
1 GCTGTAATGGAATAGA
*
59348555 GCTATAATGGAATA
1 GCTGTAATGGAATA
59348569 AATGAGTAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.26
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:59353935 original size:63 final size:62
Alignment explanation
Indices: 59353808--59353935 Score: 150
Period size: 63 Copynumber: 2.0 Consensus size: 62
59353798 ACAAGCATTC
* * * * * * *
59353808 TGATCGGTAGTGATCTTGCATGTGTTGCGGACTATCGCAGCTCTTTTTGAGTGTCTTGTTATA
1 TGATCGGTAGTGATCCTGCATATATTGCGGACTAACGCAACTCTTTGTGAGTGTCCTG-TATA
*
59353871 TGATCGGTTGTGATCCTGCATATATTGCGGACATAAACGCAACTCTTTGTGAGTGTCCTG-ATA
1 TGATCGGTAGTGATCCTGCATATATTGCGGAC-T-AACGCAACTCTTTGTGAGTGTCCTGTATA
59353934 TG
1 TG
59353936 GCTCGCTTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
63 33 0.60
64 1 0.02
65 21 0.38
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.38
Consensus pattern (62 bp):
TGATCGGTAGTGATCCTGCATATATTGCGGACTAACGCAACTCTTTGTGAGTGTCCTGTATA
Found at i:59355755 original size:26 final size:26
Alignment explanation
Indices: 59355726--59355781 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
59355716 TACTCTTTCA
59355726 AGCCATATAA-CAGGAAGCTCACAAAG
1 AGCCAT-TAATCAGGAAGCTCACAAAG
*
59355752 AGCCATTAATCGGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
59355778 AGCC
1 AGCC
59355782 TATCAAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.12
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAG
Found at i:59357274 original size:24 final size:26
Alignment explanation
Indices: 59357211--59357276 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 26
59357201 ACTTTCATAG
*
59357211 AATATAAAG-TTAAATATATATAAAC
1 AATATAAAGAATAAATATATATAAAC
*
59357236 AA-ATATAGAA-AAA-ATA-ATAATAC
1 AATATAAAGAATAAATATATATAA-AC
59357259 AATATAAAGAATAAATAT
1 AATATAAAGAATAAATAT
59357277 GATAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
22 4 0.12
23 7 0.21
24 15 0.45
25 5 0.15
26 2 0.06
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (26 bp):
AATATAAAGAATAAATATATATAAAC
Found at i:59359072 original size:87 final size:87
Alignment explanation
Indices: 59358926--59359193 Score: 369
Period size: 87 Copynumber: 3.1 Consensus size: 87
59358916 ACTTGTAATC
** * * *
59358926 TTCGATCTGCTTCACTGTCGACGCAAG-AGAGTAAGATCTGCTATCTTTAACTAGCTCCACTGCA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAG-GCAAGATCTGCTATCTTTAACCAGCTCCACTGCA
59358990 ACCGATGGAGGCAAGGCTTTGTT
65 ACCGATGGAGGCAAGGCTTTGTT
*
59359013 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACCGCAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
59359078 CCGATGGAGGCAAGGCTTTATT
66 CCGATGGAGGCAAGGCTTTGTT
* * * * **
59359100 TTCGATCTGTTTTATTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTTCACTATAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* * *
59359164 CCGATGAAGGCAAAGTTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
59359186 TTCGATCT
1 TTCGATCT
59359194 TCACTGATCT
Statistics
Matches: 162, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
86 44 0.27
87 116 0.72
88 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (87 bp):
TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:59360424 original size:7 final size:7
Alignment explanation
Indices: 59360412--59360449 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
59360402 ATTTTTACTC
59360412 TTTCATT
1 TTTCATT
59360419 TTTCATT
1 TTTCATT
59360426 TTTCA-T
1 TTTCATT
*
59360432 TTTCACT
1 TTTCATT
59360439 TTTCATCT
1 TTTCAT-T
59360447 TTT
1 TTT
59360450 TTTTTACATC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 6 0.21
7 18 0.64
8 4 0.14
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTCATT
Found at i:59360826 original size:7 final size:6
Alignment explanation
Indices: 59360800--59360834 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
59360790 TGGCCTCTCC
59360800 TTTTC- TTTTCT TTTTCT TTTTCT TTTTCCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT-CT TTTTC
59360835 ATTCTGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.18
6 17 0.61
7 6 0.21
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:59360913 original size:6 final size:6
Alignment explanation
Indices: 59360887--59360990 Score: 61
Period size: 6 Copynumber: 16.8 Consensus size: 6
59360877 TCTTTTTCTC
* * * *
59360887 ATTTTC ATTTTG ATCTTG ATTTTG ATTTT- -TTCTT- CTTTCTT ATTTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATT-TTG ATTT-TG A-TTTTG
* * * *
59360935 TTTTTG ATTTTG ATTTTTG ATTTTTTC ATTTTC ATTTTG ACTTTG ATTTTG
1 ATTTTG ATTTTG A-TTTTG A--TTTTG ATTTTG ATTTTG ATTTTG ATTTTG
59360986 ATTTT
1 ATTTT
59360991 TCTTTTTCTT
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
4 2 0.03
5 3 0.04
6 59 0.74
7 7 0.09
8 9 0.11
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:59364859 original size:15 final size:15
Alignment explanation
Indices: 59364839--59364868 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
59364829 TTTGAATGAA
59364839 TTGGAAGATAAGGCT
1 TTGGAAGATAAGGCT
59364854 TTGGAAGATAAGGCT
1 TTGGAAGATAAGGCT
59364869 CATTTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (15 bp):
TTGGAAGATAAGGCT
Found at i:59386356 original size:15 final size:15
Alignment explanation
Indices: 59386336--59386368 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
59386326 GATAATGATA
59386336 ATCTCAAGTCTGAGG
1 ATCTCAAGTCTGAGG
59386351 ATCTCAAGTCTGAGG
1 ATCTCAAGTCTGAGG
59386366 ATC
1 ATC
59386369 ATAGACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (15 bp):
ATCTCAAGTCTGAGG
Found at i:59396827 original size:27 final size:27
Alignment explanation
Indices: 59396797--59396849 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
59396787 GAGATGTAGT
59396797 TGTTAAGAAGTATAACTAAACATGCTA
1 TGTTAAGAAGTATAACTAAACATGCTA
59396824 TGTTAAGAAGTATAACTAAACATGCT
1 TGTTAAGAAGTATAACTAAACATGCT
59396850 TTCATGTGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (27 bp):
TGTTAAGAAGTATAACTAAACATGCTA
Found at i:59401497 original size:13 final size:13
Alignment explanation
Indices: 59401479--59401506 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
59401469 AATTTACAAG
59401479 ATTACATAATCAA
1 ATTACATAATCAA
59401492 ATTACATAATCAA
1 ATTACATAATCAA
59401505 AT
1 AT
59401507 CCAATCTAAT
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:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTACATAATCAA
Found at i:59401922 original size:18 final size:19
Alignment explanation
Indices: 59401899--59401935 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
59401889 ATTTGATTAA
59401899 AAATACTTT-TAATTTTTG
1 AAATACTTTCTAATTTTTG
59401917 AAATACTTTGCTAATTTTT
1 AAATACTTT-CTAATTTTT
59401936 ATTTTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.54
Consensus pattern (19 bp):
AAATACTTTCTAATTTTTG
Found at i:59402124 original size:21 final size:19
Alignment explanation
Indices: 59402081--59402133 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
59402071 AAAAAAGTAA
**
59402081 TTTTATAATTTTTATGGGTTT
1 TTTTATAATTTTTAT-GG-AC
59402102 TTTTATAATTTTTGA-GGAC
1 TTTTATAATTTTT-ATGGAC
59402121 TTTTATAATTTTT
1 TTTTATAATTTTT
59402134 TTATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.45
20 2 0.07
21 13 0.45
22 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTATGGAC
Found at i:59402215 original size:34 final size:36
Alignment explanation
Indices: 59402171--59402241 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
59402161 ACATGACTTT
*
59402171 TTTTATAACTA-CCAAATCCATAATATATAACAACA
1 TTTTATAACTATCAAAATCCATAATATATAACAACA
* *
59402206 TTTT-TAACTATCAAAATCTATAATATATAATAACA
1 TTTTATAACTATCAAAATCCATAATATATAACAACA
59402241 T
1 T
59402242 ATCTATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 6 0.19
35 26 0.81
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (36 bp):
TTTTATAACTATCAAAATCCATAATATATAACAACA
Found at i:59405635 original size:20 final size:20
Alignment explanation
Indices: 59405601--59405642 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
59405591 AACTATTTAA
** *
59405601 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
59405621 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
59405641 AT
1 AT
59405643 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:59406639 original size:3 final size:3
Alignment explanation
Indices: 59406631--59406659 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
59406621 ATCACATGTT
59406631 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
59406660 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:59406738 original size:73 final size:73
Alignment explanation
Indices: 59406660--59406845 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
59406650 TATTATTATT
*
59406660 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59406725 ATTTTAAG
66 ATTTTAAG
59406733 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59406798 ATTTTAAG
66 ATTTTAAG
59406806 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
59406846 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:59410346 original size:33 final size:33
Alignment explanation
Indices: 59410309--59410374 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
59410299 TGTTGGAGAA
59410309 AAACTATCGAGCCAAGGTGATTTTGAGAAGGTT
1 AAACTATCGAGCCAAGGTGATTTTGAGAAGGTT
59410342 AAACTATCGAGCCAAGGTGATTTTGAGAAGGTT
1 AAACTATCGAGCCAAGGTGATTTTGAGAAGGTT
59410375 TGTGAAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (33 bp):
AAACTATCGAGCCAAGGTGATTTTGAGAAGGTT
Found at i:59411238 original size:73 final size:73
Alignment explanation
Indices: 59411119--59411304 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
59411109 TATTATTATT
*
59411119 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59411184 ATTTTAAG
66 ATTTTAAG
59411192 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59411257 ATTTTAAG
66 ATTTTAAG
59411265 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
59411305 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:59415244 original size:18 final size:19
Alignment explanation
Indices: 59415221--59415257 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
59415211 ATTTGATTAA
59415221 AAATACTTT-TAATTTTTG
1 AAATACTTTCTAATTTTTG
59415239 AAATACTTTGCTAATTTTT
1 AAATACTTT-CTAATTTTT
59415258 ATTTTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.54
Consensus pattern (19 bp):
AAATACTTTCTAATTTTTG
Found at i:59415446 original size:21 final size:19
Alignment explanation
Indices: 59415403--59415455 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
59415393 AAAAAAATAA
*
59415403 TTTTATAATTTTTATGGATTT
1 TTTTATAATTTTTATGGA--C
59415424 TTTTATAATTTTTGA-GGAC
1 TTTTATAATTTTT-ATGGAC
59415443 TTTTATAATTTTT
1 TTTTATAATTTTT
59415456 TTTATTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.43
21 16 0.53
22 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTATGGAC
Found at i:59415568 original size:26 final size:27
Alignment explanation
Indices: 59415539--59415595 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
59415529 TTTTAACGGG
*
59415539 TATCAAAATTTATAATATATAACAAC-
1 TATCAAAATCTATAATATATAACAACA
*
59415565 TATCAAAATCTATAATATATAATAACA
1 TATCAAAATCTATAATATATAACAACA
59415592 TATC
1 TATC
59415596 TATTTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
TATCAAAATCTATAATATATAACAACA
Found at i:59415715 original size:18 final size:17
Alignment explanation
Indices: 59415682--59415715 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59415672 TTTTTACTAA
*
59415682 TTTTTATATTTTAAATT
1 TTTTTATATTTAAAATT
59415699 TTTTTATAATTTAAAAT
1 TTTTTAT-ATTTAAAAT
59415716 AATTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTATATTTAAAATT
Found at i:59416580 original size:22 final size:22
Alignment explanation
Indices: 59416529--59416580 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
59416519 TTTTATAGTT
*
59416529 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
59416552 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
59416574 ATAATAA
1 ATAATAA
59416581 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:59417217 original size:29 final size:29
Alignment explanation
Indices: 59417175--59417328 Score: 263
Period size: 29 Copynumber: 5.3 Consensus size: 29
59417165 TCGAATAAAC
*
59417175 AAAATACAATACATATATTTTTTATTTTT
1 AAAATACACTACATATATTTTTTATTTTT
*
59417204 AAAATACACTACATATTTTTTTTATTTTT
1 AAAATACACTACATATATTTTTTATTTTT
*
59417233 AAAATACACTACAAATATTTTTTATTTTT
1 AAAATACACTACATATATTTTTTATTTTT
59417262 AAAATACACTACATATATTTCTTTATTTTT
1 AAAATACACTACATATATTT-TTTATTTTT
*
59417292 AAAATACATTACATATATTTTTTATTTTT
1 AAAATACACTACATATATTTTTTATTTTT
59417321 AAAATACA
1 AAAATACA
59417329 AAAATACAAT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
29 90 0.76
30 28 0.24
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (29 bp):
AAAATACACTACATATATTTTTTATTTTT
Found at i:59417265 original size:58 final size:59
Alignment explanation
Indices: 59417175--59417328 Score: 265
Period size: 59 Copynumber: 2.6 Consensus size: 59
59417165 TCGAATAAAC
*
59417175 AAAATACAATACATATATTTTTTATTTTTAAAATACACTACATAT-TTTTTTTATTTTT
1 AAAATACAATACATATATTTTTTATTTTTAAAATACACTACATATATTTCTTTATTTTT
* *
59417233 AAAATACACTACAAATATTTTTTATTTTTAAAATACACTACATATATTTCTTTATTTTT
1 AAAATACAATACATATATTTTTTATTTTTAAAATACACTACATATATTTCTTTATTTTT
*
59417292 AAAATACATTACATATATTTTTTATTTTTAAAATACA
1 AAAATACAATACATATATTTTTTATTTTTAAAATACA
59417329 AAAATACAAT
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
58 43 0.48
59 47 0.52
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (59 bp):
AAAATACAATACATATATTTTTTATTTTTAAAATACACTACATATATTTCTTTATTTTT
Found at i:59417457 original size:12 final size:12
Alignment explanation
Indices: 59417440--59417475 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
59417430 TCTTCCACCG
59417440 TGCCCTCCTCCC
1 TGCCCTCCTCCC
59417452 TGCCCTCCTCCC
1 TGCCCTCCTCCC
59417464 TGCCCTCCTCCC
1 TGCCCTCCTCCC
59417476 ATTTCCCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.08, T:0.25
Consensus pattern (12 bp):
TGCCCTCCTCCC
Found at i:59417525 original size:30 final size:31
Alignment explanation
Indices: 59417491--59417563 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 31
59417481 CCATTCCCAT
*
59417491 TCCCATTTCCCCTCTTCCACCG-TGCCCTCC
1 TCCCATTTCCCCTCTTCCACCGATCCCCTCC
* *
59417521 TCCCATTTCCCCTCTTCCATCGATTCCCCTCT
1 TCCCATTTCCCCTCTTCCACCGA-TCCCCTCC
59417553 TCCCATTTCCC
1 TCCCATTTCCC
59417564 ATTCCCATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 21 0.55
32 17 0.45
ACGTcount: A:0.08, C:0.53, G:0.04, T:0.34
Consensus pattern (31 bp):
TCCCATTTCCCCTCTTCCACCGATCCCCTCC
Found at i:59419083 original size:31 final size:31
Alignment explanation
Indices: 59419048--59419112 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
59419038 AGCAATTAAT
* *
59419048 ACATGTAAATTGCCATGTGACATCCAAATCA
1 ACATGTAAATTGCCATGTAAAATCCAAATCA
59419079 ACATGTAAATTGCCATGTAAAATCCAAATCA
1 ACATGTAAATTGCCATGTAAAATCCAAATCA
59419110 ACA
1 ACA
59419113 AGTTAGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.25
Consensus pattern (31 bp):
ACATGTAAATTGCCATGTAAAATCCAAATCA
Found at i:59420260 original size:33 final size:33
Alignment explanation
Indices: 59420218--59420290 Score: 146
Period size: 33 Copynumber: 2.2 Consensus size: 33
59420208 AGCAATTATC
59420218 CAACATTCAGACAGCATTTAATTAACATTTGGA
1 CAACATTCAGACAGCATTTAATTAACATTTGGA
59420251 CAACATTCAGACAGCATTTAATTAACATTTGGA
1 CAACATTCAGACAGCATTTAATTAACATTTGGA
59420284 CAACATT
1 CAACATT
59420291 TAACCAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (33 bp):
CAACATTCAGACAGCATTTAATTAACATTTGGA
Found at i:59420277 original size:22 final size:22
Alignment explanation
Indices: 59420251--59420368 Score: 137
Period size: 22 Copynumber: 5.4 Consensus size: 22
59420241 AACATTTGGA
**
59420251 CAACATTCAGACAGCATTTAAT
1 CAACATTTGGACAGCATTTAAT
* * *
59420273 TAACATTTGGACAACATTTAAC
1 CAACATTTGGACAGCATTTAAT
* * *
59420295 CAACAATTGGACAGCAATCAAT
1 CAACATTTGGACAGCATTTAAT
59420317 CAACATTTGGACAGCATTTAAT
1 CAACATTTGGACAGCATTTAAT
* * *
59420339 CAACAATTGGACAACATTAAAT
1 CAACATTTGGACAGCATTTAAT
59420361 CAACATTT
1 CAACATTT
59420369 AATCAACATT
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 78 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.27
Consensus pattern (22 bp):
CAACATTTGGACAGCATTTAAT
Found at i:59420324 original size:55 final size:54
Alignment explanation
Indices: 59420227--59420423 Score: 182
Period size: 55 Copynumber: 3.8 Consensus size: 54
59420217 CCAACATTCA
* * * * *
59420227 GACAGCATTTAATTAACATTTGGACAACATTCAGA-CAGCATTTAATTAACATTTG
1 GACAGCATTTAATCAACAATTGGACAGCATT-AAATCAACATTTAA-TAACATTTG
* * *
59420282 GACAACATTTAACCAACAATTGGACAGC----AATC-A-A--T--CAACATTTG
1 GACAGCATTTAATCAACAATTGGACAGCATTAAATCAACATTTAATAACATTTG
*
59420326 GACAGCATTTAATCAACAATTGGACAACATTAAATCAACATTTAATCAACATTTG
1 GACAGCATTTAATCAACAATTGGACAGCATTAAATCAACATTTAAT-AACATTTG
* * *
59420381 GACAGCATTCAATCAATATTTGGACAGCATTAAATCAACATTT
1 GACAGCATTTAATCAACAATTGGACAGCATTAAATCAACATTT
59420424 GGACAACATT
Statistics
Matches: 114, Mismatches: 16, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
44 33 0.29
47 1 0.01
48 4 0.04
49 2 0.02
50 2 0.02
51 1 0.01
52 1 0.01
55 70 0.61
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (54 bp):
GACAGCATTTAATCAACAATTGGACAGCATTAAATCAACATTTAATAACATTTG
Found at i:59420354 original size:33 final size:33
Alignment explanation
Indices: 59420317--59420389 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
59420307 AGCAATCAAT
* *
59420317 CAACATTTGGACAGCATTTAATCAACAATTGGA
1 CAACATTTAGACAGCATTTAATCAACATTTGGA
* *
59420350 CAACA-TTAAATCAACATTTAATCAACATTTGGA
1 CAACATTTAGA-CAGCATTTAATCAACATTTGGA
*
59420383 CAGCATT
1 CAACATT
59420390 CAATCAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 3 0.09
33 29 0.88
34 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (33 bp):
CAACATTTAGACAGCATTTAATCAACATTTGGA
Found at i:59420355 original size:77 final size:78
Alignment explanation
Indices: 59420284--59420433 Score: 239
Period size: 77 Copynumber: 1.9 Consensus size: 78
59420274 AACATTTGGA
*
59420284 CAACATTTAACCAACAATTGGACAGCAATCAATCAACATTTGGACAGCATTTAATCAACAATTGG
1 CAACATTTAACCAACAATTGGACAGCAATCAATCAACATTTGGACAGCATTAAATCAACAATTGG
59420349 ACAACA-TTAAAT
66 ACAACATTTAAAT
* * * * *
59420361 CAACATTTAATCAACATTTGGACAGCATTCAATCAATATTTGGACAGCATTAAATCAACATTTGG
1 CAACATTTAACCAACAATTGGACAGCAATCAATCAACATTTGGACAGCATTAAATCAACAATTGG
59420426 ACAACATT
66 ACAACATT
59420434 CAATTAAGCC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
77 65 0.98
78 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (78 bp):
CAACATTTAACCAACAATTGGACAGCAATCAATCAACATTTGGACAGCATTAAATCAACAATTGG
ACAACATTTAAAT
Found at i:59420379 original size:11 final size:11
Alignment explanation
Indices: 59420331--59420379 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
59420321 ATTTGGACAG
59420331 CATTTAATCAA
1 CATTTAATCAA
**
59420342 CAATTGGA-CAA
1 C-ATTTAATCAA
*
59420353 CATTAAATCAA
1 CATTTAATCAA
59420364 CATTTAATCAA
1 CATTTAATCAA
59420375 CATTT
1 CATTT
59420380 GGACAGCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 4 0.13
11 23 0.74
12 4 0.13
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (11 bp):
CATTTAATCAA
Found at i:59420379 original size:44 final size:44
Alignment explanation
Indices: 59420274--59420379 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 44
59420264 GCATTTAATT
* * *
59420274 AACATTTGGACAACATTTAACCAACAATTGGACAGCAATCAATC
1 AACATTTGAACAACATTTAACCAACAATTGGACAACAATAAATC
* * * *
59420318 AACATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATC
1 AACATTTGAACAACATTTAACCAACAATTGGACAACAATAAATC
59420362 AACATTT-AATCAACATTT
1 AACATTTGAA-CAACATTT
59420380 GGACAGCATT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.02
44 53 0.98
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.27
Consensus pattern (44 bp):
AACATTTGAACAACATTTAACCAACAATTGGACAACAATAAATC
Found at i:59420389 original size:22 final size:22
Alignment explanation
Indices: 59420364--59420433 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
59420354 ATTAAATCAA
*
59420364 CATTTAATCAACATTTGGACAG
1 CATTAAATCAACATTTGGACAG
* *
59420386 CATTCAATCAATATTTGGACAG
1 CATTAAATCAACATTTGGACAG
*
59420408 CATTAAATCAACATTTGGACAA
1 CATTAAATCAACATTTGGACAG
59420430 CATT
1 CATT
59420434 CAATTAAGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (22 bp):
CATTAAATCAACATTTGGACAG
Found at i:59420395 original size:33 final size:33
Alignment explanation
Indices: 59420331--59420401 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
59420321 ATTTGGACAG
59420331 CATTTAATCAACAATTGGACAACATTAAATCAA
1 CATTTAATCAACAATTGGACAACATTAAATCAA
* * *
59420364 CATTTAATCAACATTTGGACAGCATTCAATCAA
1 CATTTAATCAACAATTGGACAACATTAAATCAA
*
59420397 TATTT
1 CATTT
59420402 GGACAGCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.32
Consensus pattern (33 bp):
CATTTAATCAACAATTGGACAACATTAAATCAA
Found at i:59420433 original size:55 final size:55
Alignment explanation
Indices: 59420314--59420423 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
59420304 GACAGCAATC
*
59420314 AATCAACATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAACATTT
1 AATCAACATTTGGACAGCATTCAATCAACAATTGGACAACATTAAATCAACATTT
* * *
59420369 AATCAACATTTGGACAGCATTCAATCAATATTTGGACAGCATTAAATCAACATTT
1 AATCAACATTTGGACAGCATTCAATCAACAATTGGACAACATTAAATCAACATTT
59420424 GGACAACATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (55 bp):
AATCAACATTTGGACAGCATTCAATCAACAATTGGACAACATTAAATCAACATTT
Found at i:59424178 original size:15 final size:14
Alignment explanation
Indices: 59424153--59424188 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59424143 AACTCTATTT
*
59424153 TAATTATATTAGGA
1 TAATTATATTAAGA
59424167 TAATTCATATTAAGA
1 TAATT-ATATTAAGA
59424182 TAATTAT
1 TAATTAT
59424189 TAATGATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:59427169 original size:10 final size:9
Alignment explanation
Indices: 59427152--59427188 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
59427142 AACCTAATTT
59427152 TTATTTTTA
1 TTATTTTTA
59427161 TTCATTTTTA
1 TT-ATTTTTA
59427171 TTATTTATTA
1 TTATTT-TTA
59427181 TTATTTTT
1 TTATTTTT
59427189 CTTTACTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTTTTA
Found at i:59427169 original size:16 final size:17
Alignment explanation
Indices: 59427148--59427179 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
59427138 AGGCAACCTA
59427148 ATTTTTATT-TTTATTC
1 ATTTTTATTATTTATTC
59427164 ATTTTTATTATTTATT
1 ATTTTTATTATTTATT
59427180 ATTATTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTTATTATTTATTC
Found at i:59427188 original size:20 final size:20
Alignment explanation
Indices: 59427151--59427207 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
59427141 CAACCTAATT
59427151 TTTATTT-TTATTCATTTTT-
1 TTTATTTATTATT-ATTTTTC
*
59427170 ATTATTTATTATTATTTTTC
1 TTTATTTATTATTATTTTTC
59427190 TTTACTTTATT-TTATTTT
1 TTTA-TTTATTATTATTTT
59427208 ATGATTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 12 0.36
20 15 0.45
21 6 0.18
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTATTTATTATTATTTTTC
Found at i:59428270 original size:16 final size:17
Alignment explanation
Indices: 59428230--59428276 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
59428220 TTCCTAAAGT
* *
59428230 ATAAAAAATATAAATAA
1 ATAATAAATAAAAATAA
*
59428247 ATAATAAATAAAAATCA
1 ATAATAAATAAAAATAA
59428264 A-AATAAATAAAAA
1 ATAATAAATAAAAA
59428277 AAGAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAATAAATAAAAATAA
Found at i:59430849 original size:15 final size:15
Alignment explanation
Indices: 59430829--59430868 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
59430819 AAATTCGCCC
59430829 TGATATGTTCGCCAG
1 TGATATGTTCGCCAG
* *
59430844 TGATATGTTTGCTAG
1 TGATATGTTCGCCAG
*
59430859 TGATGTGTTC
1 TGATATGTTC
59430869 AAGAAGAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.12, G:0.28, T:0.42
Consensus pattern (15 bp):
TGATATGTTCGCCAG
Found at i:59448700 original size:25 final size:26
Alignment explanation
Indices: 59448658--59448706 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
59448648 TAACTATGAG
*
59448658 ACACTTTTTTTTCTTCTCCATTTTGC
1 ACACTTTTTTTTCATCTCCATTTTGC
59448684 ACAC-TTTTTTTCATCTCCATTTT
1 ACACTTTTTTTTCATCTCCATTTT
59448707 ACAGTACGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.14, C:0.27, G:0.02, T:0.57
Consensus pattern (26 bp):
ACACTTTTTTTTCATCTCCATTTTGC
Found at i:59453874 original size:41 final size:41
Alignment explanation
Indices: 59453819--59453923 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 41
59453809 TTAATTTAAA
* * * *
59453819 CAGATTCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATT
*
59453861 CAGATCACCGGCACTTAGCCTGCTAGACTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATT
*
59453902 CAGATCACCAGCACTTAGCCTG
1 CAGATCACCGGCACTTAGCCTG
59453924 TAACAGCCCG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 53 0.93
42 4 0.07
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATT
Found at i:59456481 original size:39 final size:39
Alignment explanation
Indices: 59456402--59456568 Score: 158
Period size: 39 Copynumber: 4.2 Consensus size: 39
59456392 ATTTGCCGGA
* * * * *
59456402 TTACTGATTAGGCAC-TTATGTGCCGACTACTATTACTG
1 TTACTGATTCGACACTTTGTGTGTCGAATACTATTACTG
59456440 TTACTGATTCGACACTTTGTGTGTCGAATACTATTACTG
1 TTACTGATTCGACACTTTGTGTGTCGAATACTATTACTG
*
59456479 TTACTG-TTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATT--CGA-----CACTTTGTGTGTCGAATACTATTACTG
* * * * *
59456524 TTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACCG
1 TTACTGATTCGACACTTTGTGTGTCGAATACTATTACTG
59456563 TTACTG
1 TTACTG
59456569 TTACAGATTC
Statistics
Matches: 109, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
38 15 0.14
39 57 0.52
40 3 0.03
44 2 0.02
45 31 0.28
46 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (39 bp):
TTACTGATTCGACACTTTGTGTGTCGAATACTATTACTG
Found at i:59456501 original size:45 final size:45
Alignment explanation
Indices: 59456429--59456607 Score: 217
Period size: 45 Copynumber: 4.1 Consensus size: 45
59456419 ATGTGCCGAC
* * * *
59456429 TACTATTACTGTTACTGATTCGACACTTTGTGTGTCGAATACTAT
1 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTAT
59456474 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCG---A--A-
1 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTAT
*
59456513 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTAT
* * * * * *
59456558 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTAT
59456603 TACTG
1 TACTG
59456608 CTACCATTAC
Statistics
Matches: 117, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
39 37 0.32
40 1 0.01
42 2 0.02
45 77 0.66
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (45 bp):
TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTAT
Found at i:59456570 original size:84 final size:84
Alignment explanation
Indices: 59456412--59456612 Score: 269
Period size: 84 Copynumber: 2.4 Consensus size: 84
59456402 TTACTGATTA
* * * * * *
59456412 GGCAC-TTATGTGCCGACTACTATTACTGTTACTGATTCGACACTTTGTGTGTCGAATACTATTA
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTCGACACTTTGTGTGTCGAATACTATTA
* *
59456476 CTGTTACTGTTACCGACTC
66 CCGTTACTGTTACAGACTC
* *
59456495 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTA
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTCGACACTTTGTGTGTCGAATACTATTA
*
59456560 CCGTTACTGTTACAGATTC
66 CCGTTACTGTTACAGACTC
* * *
59456579 AGCACTTTGTGTGTTGAATACTGTTACTGCTACC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACC
59456613 ATTACTGATT
Statistics
Matches: 103, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
83 5 0.05
84 98 0.95
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (84 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTCGACACTTTGTGTGTCGAATACTATTA
CCGTTACTGTTACAGACTC
Found at i:59456605 original size:39 final size:39
Alignment explanation
Indices: 59456412--59456612 Score: 179
Period size: 45 Copynumber: 4.9 Consensus size: 39
59456402 TTACTGATTA
* * * * * *
59456412 GGCAC-TTATGTGCCGACTACTATTACTGTTACTGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTC
*
59456450 GACACTTTGTGTGTCGAATACTATTACTGTTACTGTTACCGACTC
1 GGCACTTTGTGTGTCG---A--A-TACTGTTACTGTTACCGACTC
59456495 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTC
* *
59456534 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTTACAGATTC
1 GGCACTTTGTGTGTCGAATAC---T---GTTACTGTTACCGACTC
* * *
59456579 AGCACTTTGTGTGTTGAATACTGTTACTGCTACC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACC
59456613 ATTACTGATT
Statistics
Matches: 136, Mismatches: 14, Indels: 25
0.78 0.08 0.14
Matches are distributed among these distances:
38 4 0.03
39 60 0.44
40 1 0.01
42 4 0.03
45 67 0.49
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (39 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTC
Found at i:59457288 original size:41 final size:41
Alignment explanation
Indices: 59457231--59457321 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 41
59457221 TGTTACATAG
* *
59457231 CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCAGTTAA
1 CCTGCTAGGCTTATAGCCTAATTCAGTTCACCGGCACTTAA
*
59457272 CCTGCTAGGCTTATAGCCTAATTCAGTTCACCGGCACTTAG
1 CCTGCTAGGCTTATAGCCTAATTCAGTTCACCGGCACTTAA
59457313 CCTGCTAGG
1 CCTGCTAGG
59457322 TTTTAAAACC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (41 bp):
CCTGCTAGGCTTATAGCCTAATTCAGTTCACCGGCACTTAA
Found at i:59459150 original size:24 final size:23
Alignment explanation
Indices: 59459101--59459154 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
59459091 GTTTGTCTTT
*
59459101 TAATATATATTAACTTTATAATA
1 TAATATATATTAACTTTATAACA
*
59459124 TAATATATTGTTAACCTTTAT-ACA
1 TAATATA-TATTAA-CTTTATAACA
59459148 TAATATA
1 TAATATA
59459155 AAAACTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 7 0.26
24 14 0.52
25 6 0.22
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (23 bp):
TAATATATATTAACTTTATAACA
Found at i:59464799 original size:40 final size:40
Alignment explanation
Indices: 59464744--59464865 Score: 210
Period size: 40 Copynumber: 3.1 Consensus size: 40
59464734 AAAAGAGTCG
*
59464744 GAGTAGCATAGTAGTTAAATAGTTTCTATGGTTGGAGAAT
1 GAGTAGCATAGTAGTTAAATAGTTTGTATGGTTGGAGAAT
*
59464784 GAGTAGTATAGTAGTTAAATAGTTTGTATGGTTGGAGAAT
1 GAGTAGCATAGTAGTTAAATAGTTTGTATGGTTGGAGAAT
*
59464824 GAGTAGCATAGTGGTTAAATAGTTTGTATGGTTGGAG-AT
1 GAGTAGCATAGTAGTTAAATAGTTTGTATGGTTGGAGAAT
59464863 GAG
1 GAG
59464866 GCAGATATCT
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 5 0.06
40 73 0.94
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.35
Consensus pattern (40 bp):
GAGTAGCATAGTAGTTAAATAGTTTGTATGGTTGGAGAAT
Found at i:59465253 original size:24 final size:24
Alignment explanation
Indices: 59465206--59465253 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
59465196 TTATTTTGAA
**
59465206 AAAAAAAACAAAAATTAGTTGTCG
1 AAAAAAAACAAAAATTAGGAGTCG
*
59465230 AAAAAAAACAAAAATTGGGAGTCG
1 AAAAAAAACAAAAATTAGGAGTCG
59465254 CCACTAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (24 bp):
AAAAAAAACAAAAATTAGGAGTCG
Found at i:59466880 original size:21 final size:21
Alignment explanation
Indices: 59466843--59466897 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
59466833 AATCATATCT
59466843 TCCAAGATTGC--ATATCATA
1 TCCAAGATTGCATATATCATA
59466862 TCCAAGATTGCATATATCATA
1 TCCAAGATTGCATATATCATA
*
59466883 TCTAAGATTGCATAT
1 TCCAAGATTGCATAT
59466898 CCTTGAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
21 22 0.67
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
TCCAAGATTGCATATATCATA
Found at i:59467346 original size:20 final size:19
Alignment explanation
Indices: 59467307--59467346 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
59467297 ATTAAATTTG
**
59467307 TTTAAATAAAAATATTAAA
1 TTTAAATAAAAATAGAAAA
59467326 TTTAAATTAAAAATAGAAAA
1 TTTAAA-TAAAAATAGAAAA
59467346 T
1 T
59467347 CATAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
TTTAAATAAAAATAGAAAA
Found at i:59468950 original size:23 final size:24
Alignment explanation
Indices: 59468913--59468958 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
59468903 TTCAATATTT
*
59468913 AATTTGGTACCTGAGTTT-TTTTC
1 AATTTGATACCTGAGTTTGTTTTC
*
59468936 AATTTGATACTTGAGTTTGTTTT
1 AATTTGATACCTGAGTTTGTTTT
59468959 AACCCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (24 bp):
AATTTGATACCTGAGTTTGTTTTC
Found at i:59475863 original size:12 final size:12
Alignment explanation
Indices: 59475843--59475892 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
59475833 AATTGATGAT
59475843 ACATATATATAA
1 ACATATATATAA
*
59475855 ACATGTATAT-A
1 ACATATATATAA
*
59475866 ACATACATATATAT
1 ACAT--ATATATAA
59475880 ACATATATATAA
1 ACATATATATAA
59475892 A
1 A
59475893 TAAATCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 5 0.16
12 17 0.55
13 5 0.16
14 4 0.13
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (12 bp):
ACATATATATAA
Found at i:59484799 original size:24 final size:24
Alignment explanation
Indices: 59484772--59484820 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
59484762 GAACTGCTCT
59484772 TGAATTTATGGACAAGACTATGTA
1 TGAATTTATGGACAAGACTATGTA
*
59484796 TGAATTTTTGGACAAGACTATGTA
1 TGAATTTATGGACAAGACTATGTA
59484820 T
1 T
59484821 CGTGCTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (24 bp):
TGAATTTATGGACAAGACTATGTA
Found at i:59496034 original size:7 final size:7
Alignment explanation
Indices: 59496022--59496047 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
59496012 TTAAACACAA
59496022 TAATTGG
1 TAATTGG
59496029 TAATTGG
1 TAATTGG
59496036 TAATTGG
1 TAATTGG
59496043 TAATT
1 TAATT
59496048 TTGAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (7 bp):
TAATTGG
Found at i:59499188 original size:15 final size:15
Alignment explanation
Indices: 59499133--59499189 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
59499123 TTTATACTAC
*
59499133 AAAACATTTATTATT
1 AAAATATTTATTATT
* *
59499148 AACATATTTATAATTGT
1 AAAATATTTATTA-T-T
59499165 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
59499182 AAAATATT
1 AAAATATT
59499190 AATATTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:59499376 original size:31 final size:31
Alignment explanation
Indices: 59499341--59499399 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
59499331 ATATGTATGT
59499341 TTAATAATATTAA-AAAATATAATATTTTATA
1 TTAAT-ATATTAATAAAATATAATATTTTATA
* * *
59499372 TTAATATTTTAATAAATTTTAATATTTT
1 TTAATATATTAATAAAATATAATATTTT
59499400 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
TTAATATATTAATAAAATATAATATTTTATA
Found at i:59506332 original size:29 final size:28
Alignment explanation
Indices: 59506295--59506350 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
59506285 ATAATAATAT
* * *
59506295 TAAATTATTGAATATTATATTTAAAATTC
1 TAAAATATTGAAT-GTATAATTAAAATTC
*
59506324 TAAAATATTTAATGTATAATTAAAATT
1 TAAAATATTGAATGTATAATTAAAATT
59506351 ACAAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (28 bp):
TAAAATATTGAATGTATAATTAAAATTC
Found at i:59506778 original size:7 final size:8
Alignment explanation
Indices: 59506759--59506792 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
59506749 TAGAACTTAG
*
59506759 TTTTTATA
1 TTTTTAAA
59506767 TTTTTAAA
1 TTTTTAAA
59506775 TTTTTAAA
1 TTTTTAAA
*
59506783 TTTTAAAA
1 TTTTTAAA
59506791 TT
1 TT
59506793 CAGGTCCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTTAAA
Found at i:59531438 original size:17 final size:18
Alignment explanation
Indices: 59531411--59531448 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
59531401 CACACAAGTG
* *
59531411 TTTTGTTTTTTTTTCTTC
1 TTTTGTTTTTTCTACTTC
59531429 TTTT-TTTTTTCTACTTC
1 TTTTGTTTTTTCTACTTC
59531446 TTT
1 TTT
59531449 AAAAGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTGTTTTTTCTACTTC
Found at i:59531600 original size:13 final size:13
Alignment explanation
Indices: 59531582--59531617 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
59531572 AGAGTTCAAT
59531582 AGAAACTGAAAAC
1 AGAAACTGAAAAC
*
59531595 AGAAACCGAAAAC
1 AGAAACTGAAAAC
*
59531608 AAAAACTGAA
1 AGAAACTGAA
59531618 GAAAAAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.64, C:0.17, G:0.14, T:0.06
Consensus pattern (13 bp):
AGAAACTGAAAAC
Found at i:59532749 original size:31 final size:31
Alignment explanation
Indices: 59532705--59532768 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
59532695 TTCTAACATA
*
59532705 TTTAAAATTTTAAAATATAATTTTTATAATT
1 TTTAAAATTTTAAAATATAATTGTTATAATT
* *
59532736 TTTATAAA-TTTAAAATTTAATTGTTATACTT
1 TTTA-AAATTTTAAAATATAATTGTTATAATT
59532767 TT
1 TT
59532769 ATTTTTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
TTTAAAATTTTAAAATATAATTGTTATAATT
Found at i:59538303 original size:19 final size:18
Alignment explanation
Indices: 59538279--59538322 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
59538269 TATTATAGGA
59538279 TTAAATTTAAAATAAAATT
1 TTAAATTTAAAATAAAA-T
* *
59538298 TTAAATTTTAAATTAAAT
1 TTAAATTTAAAATAAAAT
59538316 TTAAATT
1 TTAAATT
59538323 GATAGTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAATTTAAAATAAAAT
Found at i:59541827 original size:60 final size:59
Alignment explanation
Indices: 59541751--59541865 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 59
59541741 TGAATACTTA
* * * * *
59541751 GGTGATTATTTTGTAACTTTTTATAGTTTGATGATTAAAAAAGAAATTTACTAATAATTG
1 GGTGATCATTTTGTAACTTTTCATAGTTGGATGACT-AAAAAGAAATTCACTAATAATTG
*
59541811 GGTGATCATTTTGTAACTTTTCATAGTTGGGTGACTAAAAAGAAATTCACTAATA
1 GGTGATCATTTTGTAACTTTTCATAGTTGGATGACTAAAAAGAAATTCACTAATA
59541866 GTGGGGTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
59 18 0.37
60 31 0.63
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.41
Consensus pattern (59 bp):
GGTGATCATTTTGTAACTTTTCATAGTTGGATGACTAAAAAGAAATTCACTAATAATTG
Found at i:59543194 original size:23 final size:23
Alignment explanation
Indices: 59543164--59543216 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
59543154 AGAGCACATG
*
59543164 ACTGTAATATCCCGAAAATTACT
1 ACTGTAATACCCCGAAAATTACT
59543187 ACTGTAATACCCCGAAAATTACT
1 ACTGTAATACCCCGAAAATTACT
*
59543210 ACAGTAA
1 ACTGTAA
59543217 GAAAGTAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (23 bp):
ACTGTAATACCCCGAAAATTACT
Found at i:59548075 original size:29 final size:28
Alignment explanation
Indices: 59548043--59548103 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
59548033 AAAAGCCGTT
59548043 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** * *
59548072 TTTTTTGATTATTTACCGGAATGGTCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
59548100 TTTT
1 TTTT
59548104 CCGAGAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:59548400 original size:51 final size:51
Alignment explanation
Indices: 59548340--59548454 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 51
59548330 TCCTCTCTAA
59548340 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
* *
59548391 TCCTCTCAATTTCCTTTCAAAATTCTCTCAAATCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
59548442 TCCCCTCAATTTC
1 TCCTCTCAATTTC
59548455 ATTTTTTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.43
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:59548402 original size:22 final size:22
Alignment explanation
Indices: 59548377--59548458 Score: 56
Period size: 22 Copynumber: 3.4 Consensus size: 22
59548367 TCAAACCCAT
59548377 ATTTAATTTCAATTTCCTCTCA
1 ATTTAATTTCAATTTCCTCTCA
** *
59548399 ATTTCCTTTCAAAATTCTCTCAAATCCA
1 ATTTAATTTC-AATTTC-CTC---T-CA
*
59548427 TATTTAATTTCAATTTCCCCTCA
1 -ATTTAATTTCAATTTCCTCTCA
*
59548450 ATTTCATTT
1 ATTTAATTT
59548459 TTTAAAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
22 16 0.36
23 7 0.16
24 4 0.09
27 3 0.07
28 7 0.16
29 8 0.18
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTAATTTCAATTTCCTCTCA
Found at i:59548484 original size:12 final size:11
Alignment explanation
Indices: 59548456--59548516 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
59548446 CTCAATTTCA
59548456 TTTTTTAAAAT
1 TTTTTTAAAAT
**
59548467 AATTTTAAAAT
1 TTTTTTAAAAT
* *
59548478 TTTTTTTATAT
1 TTTTTTAAAAT
*
59548489 TTTTTAAAAAT
1 TTTTTTAAAAT
**
59548500 AATTTT-AAAT
1 TTTTTTAAAAT
59548510 TTTTTTA
1 TTTTTTA
59548517 TATTTTCATC
Statistics
Matches: 35, Mismatches: 14, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
10 8 0.23
11 27 0.77
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:59548492 original size:32 final size:31
Alignment explanation
Indices: 59548455--59548522 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
59548445 CCTCAATTTC
59548455 ATTTTTT-AAAATAATTTTAAAATTTTTTTTAT
1 ATTTTTTAAAAATAATTTT-AAA-TTTTTTTAT
59548487 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
59548518 ATTTT
1 ATTTT
59548523 CATCAATGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
31 14 0.40
32 10 0.29
33 11 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTTAAAAATAATTTTAAATTTTTTTAT
Found at i:59549428 original size:7 final size:7
Alignment explanation
Indices: 59549416--59549440 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
59549406 AGTCGATTGA
59549416 TATTTAG
1 TATTTAG
59549423 TATTTAG
1 TATTTAG
59549430 TATTTAG
1 TATTTAG
59549437 TATT
1 TATT
59549441 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:59550118 original size:18 final size:18
Alignment explanation
Indices: 59550092--59550126 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59550082 AGGTGTGTTT
* *
59550092 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
59550110 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
59550127 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:59550559 original size:25 final size:25
Alignment explanation
Indices: 59550530--59550715 Score: 85
Period size: 25 Copynumber: 7.7 Consensus size: 25
59550520 TTTAAATTTA
59550530 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
** *
59550555 TTATTTGATGTAATACGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
59550581 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
59550600 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
* ** *
59550626 TTATTTGATATAATAGGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
59550652 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
*
59550671 ATTATTTGATATAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
59550697 TCTATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
59550716 ATCCTAATTT
Statistics
Matches: 116, Mismatches: 24, Indels: 41
0.64 0.13 0.23
Matches are distributed among these distances:
19 2 0.02
20 10 0.09
21 13 0.11
23 4 0.03
24 6 0.05
25 41 0.35
26 40 0.34
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:59550616 original size:71 final size:71
Alignment explanation
Indices: 59550528--59550712 Score: 334
Period size: 71 Copynumber: 2.6 Consensus size: 71
59550518 TATTTAAATT
59550528 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
59550593 TTTTGA
66 TTTTGA
* *
59550599 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
59550664 TTTTGA
66 TTTTGA
*
59550670 TATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAATA
1 TATTATTTGATGTAATAAAATAGAAGTT-TATTTGATGTAATA
59550713 AAAATCCTAA
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
71 96 0.88
72 13 0.12
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
TTTTGA
Found at i:59550734 original size:18 final size:18
Alignment explanation
Indices: 59550711--59550763 Score: 52
Period size: 23 Copynumber: 2.7 Consensus size: 18
59550701 TTTGATGTAA
59550711 TAAAAATCCTAATTTAAT
1 TAAAAATCCTAATTTAAT
59550729 TAAAAACCCTAACCTAATTTAAT
1 TAAAAA---T--CCTAATTTAAT
*
59550752 TAAAAACCCTAA
1 TAAAAATCCTAA
59550764 CCCTAACCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
18 11 0.38
21 1 0.03
23 17 0.59
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAATCCTAATTTAAT
Found at i:59550766 original size:29 final size:29
Alignment explanation
Indices: 59550733--59551134 Score: 608
Period size: 29 Copynumber: 13.6 Consensus size: 29
59550723 TTTAATTAAA
59550733 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
59550762 AACCCTAACCTAATTTAATTAAACACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
59550791 AACCCTGACCTAATTTAATTAAACACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
59550820 AACCCTAATCTAATTTAATTAAAAATCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
59550849 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
59550878 AACCCTAACCTAACCTAATTTAATTAAAAACCCT
1 AA--C---CCTAACCTAATTTAATTAAAAACCCT
* *
59550912 AA-CCTAACCTGATTTAATTAAACACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
59550940 AACCCTAACCTAATTTGATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
59550969 AACCCTAACCTAATTTAATTTAATTAAAAACCCT
1 AACCCTAACC-----TAATTTAATTAAAAACCCT
59551003 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
59551032 AACTCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
59551061 AACCCTAACCTAATTTAATTAAAAACTCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
59551090 AACCCTAACTTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
59551119 AACCCTAACCTAATTT
1 AACCCTAACCTAATTT
59551135 TACATAATTT
Statistics
Matches: 342, Mismatches: 20, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
28 26 0.08
29 259 0.76
31 1 0.00
34 56 0.16
ACGTcount: A:0.43, C:0.27, G:0.01, T:0.29
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:59550793 original size:23 final size:23
Alignment explanation
Indices: 59550718--59550834 Score: 99
Period size: 29 Copynumber: 4.5 Consensus size: 23
59550708 TAATAAAAAT
*
59550718 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAACACCCTAA
59550741 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATT--AAA--C--ACCCTAA
59550770 CCTAATTTAATTAAACACCCTAACCCTGA
1 CCTAATTTAATTAAACACCCT-A-----A
59550799 CCTAATTTAATTAAACACCCTAA
1 CCTAATTTAATTAAACACCCTAA
*
59550822 CCCTAATCTAATT
1 -CCTAATTTAATT
59550835 TAATTAAAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 25
0.75 0.02 0.24
Matches are distributed among these distances:
23 18 0.23
24 12 0.15
25 4 0.05
27 3 0.04
28 1 0.01
29 41 0.52
ACGTcount: A:0.42, C:0.27, G:0.01, T:0.30
Consensus pattern (23 bp):
CCTAATTTAATTAAACACCCTAA
Found at i:59550881 original size:23 final size:23
Alignment explanation
Indices: 59550718--59550765 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
59550708 TAATAAAAAT
59550718 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
59550741 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
59550764 CC
1 CC
59550766 CTAACCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (23 bp):
CCTAATTTAATTAAAAACCCTAA
Found at i:59550913 original size:23 final size:23
Alignment explanation
Indices: 59550886--59550972 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
59550876 CTAACCCTAA
59550886 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
59550909 CCTAACCTAACCTGATTTAATTAAACACCCTAAC
1 CCTAACCT-A----ATTTAATT-AA-A----AAC
*
59550943 CCTAACCTAATTTGATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
59550966 CCTAACC
1 CCTAACC
59550973 CTAACCTAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 22
0.69 0.01 0.29
Matches are distributed among these distances:
23 18 0.35
24 1 0.02
27 1 0.02
28 10 0.19
29 9 0.17
30 1 0.02
33 1 0.02
34 11 0.21
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.28
Consensus pattern (23 bp):
CCTAACCTAATTTAATTAAAAAC
Found at i:59551198 original size:10 final size:10
Alignment explanation
Indices: 59551183--59551207 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59551173 TTTGGACTTA
59551183 ATAATTTTAC
1 ATAATTTTAC
59551193 ATAATTTTAC
1 ATAATTTTAC
59551203 ATAAT
1 ATAAT
59551208 GTTAGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:59554527 original size:124 final size:124
Alignment explanation
Indices: 59554305--59554653 Score: 626
Period size: 124 Copynumber: 2.8 Consensus size: 124
59554295 CAAACTTGCT
*
59554305 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTTACAATTTCTTCTCAAATAGCATGCTGGTA
1 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTTACAATTTCTTCTCAAATAGCATCCTGGTA
59554370 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCA
* * *
59554429 ATTGTAGCAAAATCGCATCCACGAGGGCACGATTTTACAATTTCTTCTCAAATAGCATCCTGGTA
1 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTTACAATTTCTTCTCAAATAGCATCCTGGTA
*
59554494 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCT
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCA
* *
59554553 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCTTGGTA
1 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTTACAATTTCTTCTCAAATAGCATCCTGGTA
59554618 GAAGCGATTTTATACTATTTGCTCAGAAAACGTCAA
66 GAAGCGATTTTATACTATTTGCTCAG-AAACGTCAA
59554654 CTCGAAATAA
Statistics
Matches: 214, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
124 205 0.96
125 9 0.04
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (124 bp):
ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTTACAATTTCTTCTCAAATAGCATCCTGGTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCA
Found at i:59559792 original size:183 final size:183
Alignment explanation
Indices: 59559478--59560024 Score: 923
Period size: 183 Copynumber: 3.0 Consensus size: 183
59559468 CTTTAATGGT
* * * * *
59559478 ACAAATGCCGGTAATGAGACGGTTCACGATGATGAGATCTTCGAAGGGAAAGACATAGATACTGA
1 ACAAA-GCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGA
*
59559543 TGTTATAACAGAAGCAGATGTGGGGTTGAATAAATCTTCTACATTCGATGAAGGTACCAAAGCTT
65 TGTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACCAAAGCTT
* *
59559608 GGAAGGAGTCTTCGACTGCTGAACCGGTAGAGTTAAATAATAATTCAACAGCGG
130 GGAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGCGG
59559662 ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
1 ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
* *
59559727 GTTATAACAGAAGCAGATGTGGGCTTCAATAAATCTTCTACATTCGATGAAGGTACTAAAGCTTG
66 GTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACCAAAGCTTG
*
59559792 GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGTGG
131 GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGCGG
*
59559845 ACAACGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
1 ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
* * **
59559910 ATTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCAATGAAGGTACCAAAGCTCC
66 GTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACCAAAGCTTG
* *
59559975 GAAGGAGTCTTCAACTGCTGAACTGGTAGAGTTAAATAAGAATTCGACAG
131 GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAG
59560025 TGAATAATGC
Statistics
Matches: 343, Mismatches: 20, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
183 338 0.99
184 5 0.01
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (183 bp):
ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
GTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACCAAAGCTTG
GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGCGG
Found at i:59564613 original size:22 final size:22
Alignment explanation
Indices: 59564555--59564613 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
59564545 TTTTCTTATT
*
59564555 TTTTTTCACTATT-TTGCTATCA
1 TTTTTT-ATTATTGTTGCTATCA
59564577 TTTTATTATTA-TGTTGCTA-CTA
1 TTTT-TTATTATTGTTGCTATC-A
59564599 TTTTTTATTATTGTT
1 TTTTTTATTATTGTT
59564614 TAGATATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 8 0.25
22 22 0.69
23 2 0.06
ACGTcount: A:0.19, C:0.10, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTTTTATTATTGTTGCTATCA
Found at i:59565131 original size:21 final size:21
Alignment explanation
Indices: 59565105--59565160 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
59565095 AATAGCGGTG
*
59565105 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
59565126 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
*
59565147 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
59565161 AACAGTAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.36, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:59565294 original size:19 final size:18
Alignment explanation
Indices: 59565270--59565325 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
59565260 TAGAAATTTT
59565270 TAAAATTATTTAACAATTA
1 TAAAATTA-TTAACAATTA
*
59565289 TAAAATTAATAA-ATGATTA
1 TAAAATTATTAACA--ATTA
59565308 -AAAATTATT-ACAATTA
1 TAAAATTATTAACAATTA
59565324 TA
1 TA
59565326 TTTATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 12 0.39
19 12 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAATTATTAACAATTA
Found at i:59573969 original size:42 final size:43
Alignment explanation
Indices: 59573920--59574003 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
59573910 ATCCATTAAT
59573920 TAAAATGA-TATG-GTTTTTTTAGTATTATGTGAAAATAGTAAC
1 TAAAATGACT-TGCGTTTTTTTAGTATTATGTGAAAATAGTAAC
*
59573962 TAAAATGACTTGCTTTTTTTTAGTATTATGTGAAAATAGTAA
1 TAAAATGACTTGCGTTTTTTTAGTATTATGTGAAAATAGTAA
59574004 ACCGACATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
42 10 0.26
43 29 0.74
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (43 bp):
TAAAATGACTTGCGTTTTTTTAGTATTATGTGAAAATAGTAAC
Found at i:59577054 original size:21 final size:22
Alignment explanation
Indices: 59577015--59577057 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
59577005 AAAGATGTAA
59577015 TCATTAACTCCCAAAAAATTAT
1 TCATTAACTCCCAAAAAATTAT
*
59577037 TCATTAAC-CCCCAAAAATTAT
1 TCATTAACTCCCAAAAAATTAT
59577058 CTTTATGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (22 bp):
TCATTAACTCCCAAAAAATTAT
Found at i:59580655 original size:21 final size:22
Alignment explanation
Indices: 59580623--59580665 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
59580613 TTATATTATG
59580623 TTAATCCTTAATTAT-TTAAGT
1 TTAATCCTTAATTATGTTAAGT
59580644 TTAATCAC-TAATTATGTTAAGT
1 TTAATC-CTTAATTATGTTAAGT
59580666 AAATGCCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
TTAATCCTTAATTATGTTAAGT
Found at i:59585789 original size:13 final size:13
Alignment explanation
Indices: 59585755--59585800 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
59585745 AAATATGAGA
59585755 ATTATTAATATTT
1 ATTATTAATATTT
*
59585768 ATT-TATAATAGTT
1 ATTAT-TAATATTT
59585781 ATTATTAATATTT
1 ATTATTAATATTT
59585794 AATTATT
1 -ATTATT
59585801 TTTAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 1 0.04
13 20 0.71
14 7 0.25
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
ATTATTAATATTT
Found at i:59587330 original size:3 final size:3
Alignment explanation
Indices: 59587322--59587380 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
59587312 ATGAATTAAG
*
59587322 TAT TAT TA- TAT TAT TAT TAT GTAT TGT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
59587367 TAT TCA- TAT TAT TA
1 TAT T-AT TAT TAT TA
59587381 ATTAATACAA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
2 3 0.06
3 43 0.86
4 4 0.08
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:59587427 original size:16 final size:16
Alignment explanation
Indices: 59587406--59587438 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59587396 AAATAAAGTA
*
59587406 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
59587422 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
59587438 A
1 A
59587439 GAGACCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:59598867 original size:21 final size:21
Alignment explanation
Indices: 59598842--59598895 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
59598832 CCATTGTTTC
*
59598842 TAATCTCACTGCTACAGT-AT
1 TAATCTCACCGCTACAGTAAT
59598862 TCAATCTCACCGCTACAGTAAT
1 T-AATCTCACCGCTACAGTAAT
59598884 TAATCTCACCGC
1 TAATCTCACCGC
59598896 CACCGCTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.87
22 3 0.10
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (21 bp):
TAATCTCACCGCTACAGTAAT
Found at i:59632490 original size:30 final size:31
Alignment explanation
Indices: 59632440--59632503 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
59632430 ATTTCTTATG
* *
59632440 CCAATATTTCGATACTCATATCTTTGACTTT
1 CCAATATTTCGATACCCATATATTTGACTTT
59632471 CCAATATTT-GATACCCATATATTTGACTTT
1 CCAATATTTCGATACCCATATATTTGACTTT
59632501 CCA
1 CCA
59632504 TAATATGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.42
Consensus pattern (31 bp):
CCAATATTTCGATACCCATATATTTGACTTT
Found at i:59632700 original size:13 final size:13
Alignment explanation
Indices: 59632682--59632706 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59632672 TCCCCTTATC
59632682 AAGTTCTAACAAT
1 AAGTTCTAACAAT
59632695 AAGTTCTAACAA
1 AAGTTCTAACAA
59632707 CACTTGGTCA
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:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (13 bp):
AAGTTCTAACAAT
Found at i:59637130 original size:30 final size:31
Alignment explanation
Indices: 59637087--59637153 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
59637077 TTTCTTATGC
*
59637087 CAATATTTCGATACCCATATCTTTGACTTTT
1 CAATAATTCGATACCCATATCTTTGACTTTT
*
59637118 CAATAATT-GATACCTATATCTTTGACTTTT
1 CAATAATTCGATACCCATATCTTTGACTTTT
59637148 C-ATAAT
1 CAATAAT
59637154 ATAGATGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 5 0.15
30 22 0.65
31 7 0.21
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (31 bp):
CAATAATTCGATACCCATATCTTTGACTTTT
Found at i:59640107 original size:70 final size:68
Alignment explanation
Indices: 59640008--59640317 Score: 342
Period size: 69 Copynumber: 4.5 Consensus size: 68
59639998 AAGCATTTGA
* * *
59640008 AAAAGTAAAAGAATACATAAATATATAAATTGATAAAACAAATATAAATAATATTGAATTTAAAT
1 AAAAGTAAAAGAACA-ATAAATAAATAAATAGATAAAACAAATATAAATAATATT-AATTTAAAT
*
59640073 GTTTT
64 ATTTT
* * * * * **
59640078 AAAAGTAAAAGAACAAATAAGTGAATAAATAGATGAAACAAATATAAACAATATTAAATGTAAGC
1 AAAAGTAAAAGAAC-AATAAATAAATAAATAGATAAAACAAATATAAATAATATT-AATTTAAAT
*
59640143 ATTTA
64 ATTTT
* *
59640148 AAAAGTAAAAG---AAT-AATAAATAAATAGATAAAATAAATATACATAATATTCAATTTAAATA
1 AAAAGTAAAAGAACAATAAATAAATAAATAGATAAAACAAATATAAATAATATT-AATTTAAATA
59640209 TTTT
65 TTTT
* *
59640213 AAAAGTAAAAGAACGATAAATAAATAAATTGATAAAACAAATATAAATAATATTACATTTAAATA
1 AAAAGTAAAAGAACAATAAATAAATAAATAGATAAAACAAATATAAATAATATTA-ATTTAAATA
59640278 -TTT
65 TTTT
* * * *
59640281 AAAAGATAAAAGAATAATGAACAAATAAATAAATAAA
1 AAAAG-TAAAAGAACAATAAATAAATAAATAGATAAA
59640318 TATAATAGAT
Statistics
Matches: 199, Mismatches: 34, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
65 51 0.26
66 3 0.02
68 11 0.06
69 67 0.34
70 66 0.33
71 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (68 bp):
AAAAGTAAAAGAACAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAATTTAAATAT
TTT
Found at i:59640263 original size:69 final size:67
Alignment explanation
Indices: 59640008--59640415 Score: 333
Period size: 69 Copynumber: 6.1 Consensus size: 67
59639998 AAGCATTTGA
* *
59640008 AAAAGTAAAAGAATACATAAATATATAAATTGATAAAACAAATATAAATAATATTGAATTTAAAT
1 AAAAGTAAAAG-A-ACATAAATAAATAAATAGATAAAACAAATATAAATAATATT-AATTTAAAT
*
59640073 GTTTT
63 ATTTT
* * * * * **
59640078 AAAAGTAAAAGAACAAATAAGTGAATAAATAGATGAAACAAATATAAACAATATTAAATGTAAGC
1 AAAAGTAAAAGAAC--ATAAATAAATAAATAGATAAAACAAATATAAATAATATT-AATTTAAAT
*
59640143 ATTTA
63 ATTTT
* *
59640148 AAAAGTAAAAG-A-AT-AATAAATAAATAGATAAAATAAATATACATAATATTCAATTTAAATAT
1 AAAAGTAAAAGAACATAAATAAATAAATAGATAAAACAAATATAAATAATATT-AATTTAAATAT
59640210 TTT
65 TTT
*
59640213 AAAAGTAAAAGAACGATAAATAAATAAATTGATAAAACAAATATAAATAATATTACATTTAAATA
1 AAAAGTAAAAGAAC-ATAAATAAATAAATAGATAAAACAAATATAAATAATATTA-ATTTAAATA
59640278 -TTT
64 TTTT
* * * * * *
59640281 AAAAGATAAAAGAATAATGAACAAATAAATAAATAAATATAATAGATACGAATAATATTAAATTT
1 AAAAG-TAAAAGAA-CATAAATAAATAAATAGATAAA-ACAA-ATATA--AATAATATT-AATTT
**
59640346 AGGTA-TTT
59 AAATATTTT
* *
59640354 -AAA--AAAAG-A-AT-GATAAAT--AT--ATAAAACAAATATAAATAATATTAACTTTAGATAT
1 AAAAGTAAAAGAACATAAATAAATAAATAGATAAAACAAATATAAATAATATTAA-TTTAAATAT
*
59640409 TTA
65 TTT
59640412 AAAA
1 AAAA
59640416 ATGAAGAATA
Statistics
Matches: 280, Mismatches: 41, Indels: 45
0.77 0.11 0.12
Matches are distributed among these distances:
56 2 0.01
57 16 0.06
58 2 0.01
59 7 0.03
60 3 0.01
61 5 0.02
63 2 0.01
65 56 0.20
66 5 0.02
68 14 0.05
69 74 0.26
70 67 0.24
71 4 0.01
72 3 0.01
73 19 0.07
74 1 0.00
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (67 bp):
AAAAGTAAAAGAACATAAATAAATAAATAGATAAAACAAATATAAATAATATTAATTTAAATATT
TT
Found at i:59640307 original size:134 final size:135
Alignment explanation
Indices: 59640001--59640322 Score: 389
Period size: 134 Copynumber: 2.4 Consensus size: 135
59639991 TATATTGAAG
* * * *
59640001 CATTTGAAAAAGTAAAAGAATACATAAATATATAAATTGATAAAACAAATATAAATAATATTGAA
1 CATTT-AAAAAGTAAAAGAATA-AT--A-A-ACAAATAGATAAAATAAATATAAATAATATTCAA
* * * *
59640066 TTTAAATGTTTTAAAAGTAAAAGAACAAATAAGTGAATAAATAGATGAAACAAATATAAACAATA
60 TTTAAATATTTTAAAAGTAAAAGAACAAATAAATAAATAAATAGATAAAACAAATATAAACAATA
*
59640131 TTAAATGTAAG
125 TTAAATGTAAA
* *
59640142 CATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAATAAATATACATAATATTCAATTTAAA
1 CATTTAAAAAGTAAAAGAATAATAAACAAATAGATAAAATAAATATAAATAATATTCAATTTAAA
* * * *
59640207 TATTTTAAAAGTAAAAGAAC-GATAAATAAATAAATTGATAAAACAAATATAAATAATATTACAT
66 TATTTTAAAAGTAAAAGAACAAATAAATAAATAAATAGATAAAACAAATATAAACAATATTAAAT
*
59640271 TTAAA
131 GTAAA
* * *
59640276 TATTT-AAAAGATAAAAGAATAATGAACAAATAAAT-AAATAAATATAA
1 CATTTAAAAAG-TAAAAGAATAATAAACAAATAGATAAAATAAATATAA
59640323 TAGATACGAA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
133 16 0.10
134 65 0.40
135 55 0.34
136 1 0.01
137 1 0.01
139 2 0.01
140 16 0.10
141 5 0.03
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.28
Consensus pattern (135 bp):
CATTTAAAAAGTAAAAGAATAATAAACAAATAGATAAAATAAATATAAATAATATTCAATTTAAA
TATTTTAAAAGTAAAAGAACAAATAAATAAATAAATAGATAAAACAAATATAAACAATATTAAAT
GTAAA
Found at i:59640370 original size:134 final size:130
Alignment explanation
Indices: 59640002--59640433 Score: 355
Period size: 134 Copynumber: 3.2 Consensus size: 130
59639992 ATATTGAAGC
* * * * *
59640002 ATTTGAAAAAGTAAAAGAATACATAAATATATAAATTGATAAAACAAATATAAATAATATTGAAT
1 ATTT-AAAAA-TAAAAGAATA-ATAAATAAAT-AA---ATAAAATAAAGATACATAATATTAAAT
* * * * * *
59640067 TTAAATGTTTTAAAAGTAAAAGAACAAATAAGTGAATAAATAGATGAAACAAATATAAACAATAT
59 TTAAATATTTTAAAAG-AAAAGAAC--ATAAATAAATAAATTGATAAAACAAATATAAATAATAT
* **
59640132 TAAATGTAAGC
121 T-AATTTAAAT
* * *
59640143 ATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAATAAATATACATAATATTCAATTTAAAT
1 ATTTAAAAA-TAAAAGAATAATAAATAAATAAATAAAATAAAGATACATAATATTAAATTTAAAT
59640208 ATTTTAAAAGTAAAAGAACGATAAATAAATAAATTGATAAAACAAATATAAATAATATTACATTT
65 ATTTTAAAAG-AAAAGAAC-ATAAATAAATAAATTGATAAAACAAATATAAATAATATTA-ATTT
59640273 AAAT
127 AAAT
59640277 ATTTAAAAGATAAAAGAATAATGAACAAATAAATAAATAAATATAATAGATACGAATAATATTAA
1 ATTTAAAA-ATAAAAGAATAAT----AAATAAATAAATAAA-ATAA-AGATAC--ATAATATTAA
** *
59640342 ATTTAGGTA-TTT-AAA-AAAAG-A-AT-GATAAAT--A-T-ATAAAACAAATATAAATAATATT
57 ATTTAAATATTTTAAAAGAAAAGAACATAAATAAATAAATTGATAAAACAAATATAAATAATATT
*
59640397 AACTTTAGAT
122 AA-TTTAAAT
*
59640407 ATTTAAAAA-ATGAAGAATAATAAATAA
1 ATTTAAAAATA-AAAGAATAATAAATAA
59640434 GTTAATATAT
Statistics
Matches: 256, Mismatches: 23, Indels: 40
0.80 0.07 0.13
Matches are distributed among these distances:
125 6 0.02
128 1 0.00
129 11 0.04
130 38 0.15
131 1 0.00
132 1 0.00
133 1 0.00
134 65 0.25
135 51 0.20
137 1 0.00
138 20 0.08
139 13 0.05
140 24 0.09
141 7 0.03
142 16 0.06
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (130 bp):
ATTTAAAAATAAAAGAATAATAAATAAATAAATAAAATAAAGATACATAATATTAAATTTAAATA
TTTTAAAAGAAAAGAACATAAATAAATAAATTGATAAAACAAATATAAATAATATTAATTTAAAT
Found at i:59640444 original size:57 final size:58
Alignment explanation
Indices: 59640305--59640450 Score: 163
Period size: 57 Copynumber: 2.5 Consensus size: 58
59640295 TAATGAACAA
* *
59640305 ATAAATAAATAAATATAATAGATACGAATAATATTAAATTTAGGTATTTAAAAAAAGAATG
1 ATAAATAAATAAAT-TAATATATA--AATAATATTAAATTTAGATATTTAAAAAAAGAATG
* ** * *
59640366 ATAAATATATAAAACAA-ATATAAATAATATTAACTTTAGATATTTAAAAAATGAA-G
1 ATAAATAAATAAATTAATATATAAATAATATTAAATTTAGATATTTAAAAAAAGAATG
*
59640422 A-ATAATAAATAAGTTAATATATAAATAAT
1 ATA-AATAAATAAATTAATATATAAATAAT
59640451 GAAATTAATC
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
55 1 0.01
56 12 0.17
57 41 0.57
59 4 0.06
60 2 0.03
61 12 0.17
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (58 bp):
ATAAATAAATAAATTAATATATAAATAATATTAAATTTAGATATTTAAAAAAAGAATG
Found at i:59642243 original size:45 final size:45
Alignment explanation
Indices: 59642189--59642288 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
59642179 TAATCTGTTT
* * *
59642189 CACTACAACTCTAGAAAAATAAGATTTGTTATCTTCAATCTACTA
1 CACTACAACTCCAGAAAAATAAGATTCGCTATCTTCAATCTACTA
* * * * *
59642234 CACTGCAACTCCATAGAAATAAGATTCGCTATCTTCAATCTGCTC
1 CACTACAACTCCAGAAAAATAAGATTCGCTATCTTCAATCTACTA
*
59642279 CTCTACAACT
1 CACTACAACT
59642289 TTAGGGAGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (45 bp):
CACTACAACTCCAGAAAAATAAGATTCGCTATCTTCAATCTACTA
Found at i:59642325 original size:51 final size:51
Alignment explanation
Indices: 59642270--59642598 Score: 270
Period size: 51 Copynumber: 6.7 Consensus size: 51
59642260 CGCTATCTTC
* * * * * * *
59642270 AATCTGCTCCTCTACAACTTTAGGGAGATAAAATTTTTAACTTGTAGCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
*
59642321 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAA----TA--TTC
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
* * * * *
59642366 AATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTATAACTTGCAGCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
* * * *
59642417 AATCTATTCCACTGCAACTTGAGGGAAATAAGATTTAAAACTTATAGCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
* * * ** * *
59642468 AATCTGTTCCACTACAACTTCAAGAAAATAAGA--T-TCGC-TATA--TTC
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
* * * * *
59642513 AAACTGCTCCAATGCAACTTTA-GGAAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTTATAACTTGTAGCTTT
** *
59642564 AATCTGTTCCACTATAACTTCAGAGAAATAAGATT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
59642599 CACATCTTCA
Statistics
Matches: 215, Mismatches: 49, Indels: 28
0.74 0.17 0.10
Matches are distributed among these distances:
44 3 0.01
45 63 0.29
47 7 0.03
48 3 0.01
49 5 0.02
51 131 0.61
52 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (51 bp):
AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
Found at i:59642334 original size:96 final size:96
Alignment explanation
Indices: 59642225--59642451 Score: 258
Period size: 96 Copynumber: 2.4 Consensus size: 96
59642215 TGTTATCTTC
* * * * * *
59642225 AATCTACTACACTGCAACTCCATAGAAATAAGATTCGCT-ATCTTCAATCTGCTCCTCTACAACT
1 AATCTATTCCACTGCAACTCCAGAGAAATAAGATT-GATAATATTCAATCTGCTCCACTACAACT
* * *
59642289 TTAGGGAGATAAAATTTTTAACTTGTAGCTTT
65 TCAGGGAGATAAAATTTATAACTTGCAGCTTT
* * * * * **
59642321 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAATATTCAATTTGCTCCACTGTAACTT
1 AATCTATTCCACTGCAACTCCAGAGAAATAAGATTGATAATATTCAATCTGCTCCACTACAACTT
*
59642386 CAGGGAGATAAGATTTATAACTTGCAGCTTT
66 CAGGGAGATAAAATTTATAACTTGCAGCTTT
** *
59642417 AATCTATTCCACTGCAACTTGAGGGAAATAAGATT
1 AATCTATTCCACTGCAACTCCAGAGAAATAAGATT
59642452 TAAAACTTAT
Statistics
Matches: 111, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 110 0.99
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (96 bp):
AATCTATTCCACTGCAACTCCAGAGAAATAAGATTGATAATATTCAATCTGCTCCACTACAACTT
CAGGGAGATAAAATTTATAACTTGCAGCTTT
Found at i:59642452 original size:96 final size:96
Alignment explanation
Indices: 59642267--59642453 Score: 284
Period size: 96 Copynumber: 1.9 Consensus size: 96
59642257 ATTCGCTATC
* * * * *
59642267 TTCAATCTGCTCCTCTACAACTTTAGGGAGATAAAATTTTTAACTTGTAGCTTTAATCTGTTCCA
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAAATTTATAACTTGCAGCTTTAATCTATTCCA
59642332 CTGCAACTTCAGGGAAATAAGATTTATAATA
66 CTGCAACTTCAGGGAAATAAGATTTATAATA
* ** *
59642363 TTCAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTATAACTTGCAGCTTTAATCTATTCCA
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAAATTTATAACTTGCAGCTTTAATCTATTCCA
*
59642428 CTGCAACTTGAGGGAAATAAGATTTA
66 CTGCAACTTCAGGGAAATAAGATTTA
59642454 AAACTTATAG
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 81 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (96 bp):
TTCAATCTGCTCCACTACAACTTCAGGGAGATAAAATTTATAACTTGCAGCTTTAATCTATTCCA
CTGCAACTTCAGGGAAATAAGATTTATAATA
Found at i:59642474 original size:147 final size:144
Alignment explanation
Indices: 59642281--59642649 Score: 406
Period size: 147 Copynumber: 2.6 Consensus size: 144
59642271 ATCTGCTCCT
* * * *
59642281 CTACAACTTTAGGGAGATAAAATTTTTAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGG
1 CTACAACTTCAGGGAAATAAGA--TTTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGG
** * * *
59642346 AAATAAGATTTATAATATTCAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTATAACTTGC
64 AAATAAGATTTAT-ATATTCAAACTGCTCCAATGCAACTTCAGGAAGATAAGATTTATAACTTGC
59642411 AGCTTTAATCTATTCCA
128 AGCTTTAATCTATTCCA
* * * * *
59642428 CTGCAACTTGAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTCCACTACAACTTCAAGA
1 CTACAACTTCAGGGAAATAAGATTT--AACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGG
** * * *
59642493 AAATAAGATTCGCTATATTCAAACTGCTCCAATGCAACTTTAGGAAGATAAGATTTGTAACTTGT
64 AAATAAGATT-TATATATTCAAACTGCTCCAATGCAACTTCAGGAAGATAAGATTTATAACTTGC
*
59642558 AGCTTTAATCTGTTCCA
128 AGCTTTAATCTATTCCA
* * * * * *
59642575 CTATAACTTCAGAGAAATAAGA-TTCAC--AT--CTTCAATCTGCTCCACTGCAACTTCAGGGAG
1 CTACAACTTCAGGGAAATAAGATTTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAA
*
59642635 ATAAGATTTGTATAT
66 ATAAGATTTATATAT
59642650 GTTATCTTTT
Statistics
Matches: 187, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
139 5 0.03
140 33 0.18
142 2 0.01
144 2 0.01
145 3 0.02
146 2 0.01
147 139 0.74
148 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (144 bp):
CTACAACTTCAGGGAAATAAGATTTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAA
ATAAGATTTATATATTCAAACTGCTCCAATGCAACTTCAGGAAGATAAGATTTATAACTTGCAGC
TTTAATCTATTCCA
Found at i:59642529 original size:96 final size:95
Alignment explanation
Indices: 59642424--59642643 Score: 300
Period size: 96 Copynumber: 2.3 Consensus size: 95
59642414 TTTAATCTAT
*
59642424 TCCACTGCAACTTGAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTCCACTACAACTTC
1 TCCACTGCAACTTCAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTCCACTACAACTTC
*
59642489 A-AGAAAATAAGATTCGCTATATTCAAACTGC
66 AGAG-AAATAAGATTCAC-ATATTCAAACTGC
* * ** * *
59642520 TCCAATGCAACTTTA-GGAAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTATAACTT
1 TCCACTGCAACTTCAGGGAA-ATAAGATTTAAAACTTATAGCTTTAATCTGTTCCACTACAACTT
* *
59642584 CAGAGAAATAAGATTCACATCTTCAATCTGC
65 CAGAGAAATAAGATTCACATATTCAAACTGC
*
59642615 TCCACTGCAACTTCAGGGAGATAAGATTT
1 TCCACTGCAACTTCAGGGAAATAAGATTT
59642644 GTATATGTTA
Statistics
Matches: 109, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
95 37 0.34
96 70 0.64
97 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (95 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTCCACTACAACTTC
AGAGAAATAAGATTCACATATTCAAACTGC
Found at i:59644698 original size:19 final size:19
Alignment explanation
Indices: 59644674--59644746 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
59644664 AATTTTTGAG
59644674 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59644693 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
59644712 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59644731 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
59644747 AGATGTGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:59645412 original size:20 final size:20
Alignment explanation
Indices: 59645384--59645429 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
59645374 ATATGTACGT
*
59645384 ATATATTATACTTTCTATAC
1 ATATATTATAATTTCTATAC
* *
59645404 ATATTTTATAATTTCTATAT
1 ATATATTATAATTTCTATAC
59645424 ATATAT
1 ATATAT
59645430 AATCATTATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATTATAATTTCTATAC
Found at i:59645427 original size:52 final size:49
Alignment explanation
Indices: 59645367--59645527 Score: 161
Period size: 52 Copynumber: 3.2 Consensus size: 49
59645357 TTTATTACCT
59645367 TATATATATATGTACGTATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATATATATGTA--TATATATTATACTTTCTAT-CATATTTTATAATTTC
* * * *
59645419 TATATATATA--TA-AT-CATTAT-CTTTATGATCTATATATTTATTAACTTA
1 TATATATATATGTATATATATTATACTTTCT-ATC-ATAT-TTTA-TAATTTC
*
59645467 TATATATGTATGTATATATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATATATATGTATATATATTATACTTTCTAT-CATATTTTATAATTTC
*
59645517 TATATGTATAT
1 TATATATATAT
59645528 TTTTCTTTAT
Statistics
Matches: 88, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
45 6 0.07
46 11 0.12
47 6 0.07
48 14 0.16
50 18 0.20
51 6 0.07
52 21 0.24
53 6 0.07
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (49 bp):
TATATATATATGTATATATATTATACTTTCTATCATATTTTATAATTTC
Done.