Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 6 of 52
Found at i:755871 original size:20 final size:20
Alignment explanation
Indices: 755846--755919 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
755836 ACATCTTTTT
755846 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
755866 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
755887 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
*
755907 CATGTATCAATAC
1 CATGTATCGATAC
755920 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:755883 original size:41 final size:41
Alignment explanation
Indices: 755826--755919 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
755816 CTGCCAAGAA
755826 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
755867 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
755908 ATGTATCAATAC
1 ATGTATCGATAC
755920 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:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:758400 original size:13 final size:13
Alignment explanation
Indices: 758382--758446 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
758372 ATAATCACCC
*
758382 TGTATCGATACAG
1 TGTATCGATACAA
758395 TGTATCGATACAA
1 TGTATCGATACAA
*
758408 TGTATCGATACAG
1 TGTATCGATACAA
758421 TGTATCGATACAA
1 TGTATCGATACAA
758434 TGTATCGATACAA
1 TGTATCGATACAA
758447 AGAAAAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:758411 original size:26 final size:26
Alignment explanation
Indices: 758382--758445 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
758372 ATAATCACCC
758382 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
758408 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
758434 TGTATCGATACA
1 TGTATCGATACA
758446 AAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:758457 original size:20 final size:20
Alignment explanation
Indices: 758432--758510 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
758422 GTATCGATAC
758432 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
758452 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
758477 GATGTATCGATA-AACAGAAA
1 AATGTATCGATACAA-AGAAA
*
758497 CATGTATCGATACA
1 AATGTATCGATACA
758511 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
20 30 0.62
21 1 0.02
24 1 0.02
25 16 0.33
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:762367 original size:21 final size:21
Alignment explanation
Indices: 762338--762382 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
762328 AAGTTTTCAT
*
762338 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
762358 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
762380 TTT
1 TTT
762383 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:764677 original size:21 final size:21
Alignment explanation
Indices: 764651--764726 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
764641 CTGCCAAGAA
764651 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
764672 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
764692 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
764713 ATGTATCGATACAT
1 ATGTATCGATACAT
764727 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:764696 original size:20 final size:20
Alignment explanation
Indices: 764671--764744 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
764661 ACATCTTTTT
764671 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
764691 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
764712 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
764732 CATGTATCGATAC
1 CATGTATCGATAC
764745 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:764708 original size:41 final size:41
Alignment explanation
Indices: 764651--764744 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
764641 CTGCCAAGAA
764651 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
764692 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
764733 ATGTATCGATAC
1 ATGTATCGATAC
764745 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:769075 original size:19 final size:19
Alignment explanation
Indices: 769051--769111 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
769041 TTTTGAATTT
769051 CAAACAATTTGTATCGATA
1 CAAACAATTTGTATCGATA
**
769070 CAAACAGTAAATGTATCGATA
1 CAAACA--ATTTGTATCGATA
* *
769091 CATA-AGTGTTGTATCGATA
1 CAAACAAT-TTGTATCGATA
769110 CA
1 CA
769112 TTGTATCGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 18 0.55
20 1 0.03
21 14 0.42
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (19 bp):
CAAACAATTTGTATCGATA
Found at i:769112 original size:19 final size:18
Alignment explanation
Indices: 769058--769143 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
769048 TTTCAAACAA
*
769058 TTTGTATCGATACAAACAG
1 TTTGTATCGATACATA-AG
*
769077 TAAATGTATCGATACATAAG
1 T--TTGTATCGATACATAAG
769097 TGTTGTATCGATAC---A-
1 T-TTGTATCGATACATAAG
769112 -TTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
769129 TTTTGTATCGATACA
1 -TTTGTATCGATACA
769144 ATGTATCGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
13 12 0.22
16 2 0.04
19 25 0.45
20 3 0.05
21 13 0.24
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:769117 original size:13 final size:13
Alignment explanation
Indices: 769099--769125 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
769089 TACATAAGTG
769099 TTGTATCGATACA
1 TTGTATCGATACA
769112 TTGTATCGATACA
1 TTGTATCGATACA
769125 T
1 T
769126 AAGTTTTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:769122 original size:32 final size:32
Alignment explanation
Indices: 769079--769151 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
769069 ACAAACAGTA
769079 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
* *
769111 ATTGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
769143 AATGTATCG
1 AATGTATCG
769152 CTATGAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:771635 original size:52 final size:52
Alignment explanation
Indices: 771572--771959 Score: 252
Period size: 51 Copynumber: 7.4 Consensus size: 52
771562 TCAATTGTTC
771572 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
* * * * * *
771624 TTAATAGGGGATACTCTAACTCCGATTTTATTTTCAAAAAACACCAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTC--AAAACACCAATTTTCCT
* * * ** **** * * **
771677 ACAATCGAGGATACTCCAACCTCATTATTTCATTGGGGATACTCCAA--CCCCGT
1 ATAATCGGGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAATTTTCC-T
* * * * * * ***
771730 -TACCTCCGAGGGGATACTTCGACCCCAGCTTTATTTTCAAAATATTGA-TTT-CT
1 ATA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
* *
771783 CATAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCC-
1 -ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
* *
771835 ACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
* * ** * * *
771887 TTAATTGGGGATACTCCAACTTCGATTTTATTTCCAAAAACACCAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCT
* *
771939 ACAATCGAGGATACTCCAACC
1 ATAATCGGGGATACTCCAACC
771960 TCGTTATTTC
Statistics
Matches: 248, Mismatches: 71, Indels: 34
0.70 0.20 0.10
Matches are distributed among these distances:
51 79 0.32
52 77 0.31
53 43 0.17
54 27 0.11
55 8 0.03
56 14 0.06
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
Found at i:772078 original size:79 final size:77
Alignment explanation
Indices: 771970--772205 Score: 249
Period size: 79 Copynumber: 3.0 Consensus size: 77
771960 TCGTTATTTC
* ** *
771970 ATCGGGAATACTCCAACCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATA
1 ATCGGGGATACTCCAACCCGTTATTTCCGAGGGGATACTCCAA-CCCGGTTTTATTTCCAAAATA
*
772035 TTGATTTCTCATA
65 TTAATTTCTCATA
* * * *
772048 ATTGGGGATACTCCAATCTCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAAT
1 ATCGGGGATACTCCAA-CCCGTTATTTCCGAGGGGATACTCCAA-CCCGGTTTTATTTCCAAAAT
* * *
772112 CATCAATTTTTCACA
64 -ATTAATTTCTCATA
* * * * *
772127 ATCGGGGATACTCCAGCCCTGTTATTTTCAAGGGGATACTCCAACCCTGTTATTATCTCCAAAAT
1 ATCGGGGATACTCCAACCC-GTTATTTCCGAGGGGATACTCCAACCCGGTT-TTATTTCCAAAAT
772192 ATTAAATTTCTCAT
64 ATT-AATTTCTCAT
772206 CAGGACATAT
Statistics
Matches: 127, Mismatches: 25, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
78 24 0.19
79 92 0.72
80 11 0.09
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (77 bp):
ATCGGGGATACTCCAACCCGTTATTTCCGAGGGGATACTCCAACCCGGTTTTATTTCCAAAATAT
TAATTTCTCATA
Found at i:776966 original size:20 final size:20
Alignment explanation
Indices: 776896--776976 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
776886 TCAAAAACCC
* * *
776896 AGAATGTATCGATACA-ATG
1 AGAATGTATCAATACATTTA
*
776915 AGAAATGTATCGATACAATTGTA
1 AG-AATGTATCAATAC-ATT-TA
* *
776938 AGCATGTATCTATACATTTA
1 AGAATGTATCAATACATTTA
*
776958 ATAATGTATCAATACATTT
1 AGAATGTATCAATACATTT
776977 CCTGAGCAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.04
20 31 0.61
21 4 0.08
22 11 0.22
23 3 0.06
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (20 bp):
AGAATGTATCAATACATTTA
Found at i:780145 original size:85 final size:85
Alignment explanation
Indices: 779671--780477 Score: 457
Period size: 85 Copynumber: 9.5 Consensus size: 85
779661 GTCTCACTCC
* * * * * * *
779671 AGACTTCTTCATCTTTTTATCTGCCTGTCGGCTTAGACCTAGGAGACTCCTATATCCTTTGTCTG
1 AGACTTCTTTATCTTTTTGTCTGCCCGTCAGCTTAGACCTAGGAGACTTCTTTATCTTTTGTCTG
* * *
779736 CCCGTCGGCTTA-AGCCCGGG
66 CCCATCGGCTCAGA-CCCAGG
* * * * * * * *
779756 AGACTTTTTTAT-TTGTTTATTTACCCATCAGCTTAAACCTGGGAGACTTCTTTATAC-TTCGTC
1 AGACTTCTTTATCTT-TTTGTCTGCCCGTCAGCTTAGACCTAGGAGACTTCTTTAT-CTTTTGTC
* ** *
779819 CGCCTGTCGGGTCA-AGCCC-GAG
64 TGCCCATCGGCTCAGA-CCCAG-G
* * * ** * * *
779841 AGACTTCCTCATC-GTTTGTCTGAACGTC-GACTCAGA-CTCAAGAGACTTCTTTATCCTTTGTC
1 AGACTTCTTTATCTTTTTGTCTGCCCGTCAG-CTTAGACCT-AGGAGACTTCTTTATCTTTTGTC
**
779903 TGCCCATCGATTCAGACCC-GAG
64 TGCCCATCGGCTCAGACCCAG-G
* * * * *
779925 AGACTTCTTTATCCTTTT-TCTACCTGTC-GGTTCA-AGCCTAGGAGACTTCTTTATCTTTTTAT
1 AGACTTCTTTATCTTTTTGTCTGCCCGTCAGCTT-AGA-CCTAGGAGACTTCTTTATC-TTTTGT
* * *
779987 CTGCCTATCGGCTCAGACCTAAG
63 CTGCCCATCGGCTCAGACCCAGG
* * * * * * *
780010 AGACTT-TTTATC-CTTTGTCTACCCATCAGCTTAG-GCTCGAGAGACATCTTTATCTTTTATCT
1 AGACTTCTTTATCTTTTTGTCTGCCCGTCAGCTTAGACCTAG-GAGACTTCTTTATCTTTTGTCT
** ** *
780072 GCCTGTCGATTTAGACCCAGG
65 GCCCATCGGCTCAGACCCAGG
* *
780093 AGACTTCTTTATCTTTTTGTTTGCCCGTCAGCTTAGACCTAGGAGACTTCTTTATCCTTTGTCTG
1 AGACTTCTTTATCTTTTTGTCTGCCCGTCAGCTTAGACCTAGGAGACTTCTTTATCTTTTGTCTG
* **
780158 CCCATCAGCTCAGACCTGGG
66 CCCATCGGCTCAGACCCAGG
* * * * * *
780178 AGATTTTTTTATCTTTTTGTCTACCTGTC-GACTCA-AACTCAGGAGACTTCTTTATCTTTTGTC
1 AGACTTCTTTATCTTTTTGTCTGCCCGTCAG-CTTAGACCT-AGGAGACTTCTTTATCTTTTGTC
** * * *
780241 TGCTAATCGGCTTAGGCTCAGG
64 TGCCCATCGGCTCAGACCCAGG
* * * * * * * * * *
780263 ATATTTCTTCATCTTTTTGTTTGCTCGTTAGGTTAGGCCTGGGAGACTTTTTTATCTTTTTGTCT
1 AGACTTCTTTATCTTTTTGTCTGCCCGTCAGCTTAGACCTAGGAGACTTCTTTATC-TTTTGTCT
* ** *
780328 ACCCATCGGCTCAGACTTAAG
65 GCCCATCGGCTCAGACCCAGG
* * *
780349 AGACTTCTTTATC-TTTTGTCTGCCCATCAGCTTAGGCCTAAGAGACTT-TTTCATCTTTTTGTC
1 AGACTTCTTTATCTTTTTGTCTGCCCGTCAGCTTAGACCTAGGAGACTTCTTT-ATC-TTTTGTC
* * * **
780412 TGCCCGTCGGCTTAAACCTGGG
64 TGCCCATCGGCTCAGACCCAGG
* * * * *
780434 AGACTTCTTCATCTCTTTGT-TAGCTCGTCAGCTCAGTCCTAGGA
1 AGACTTCTTTATCTTTTTGTCT-GCCCGTCAGCTTAGACCTAGGA
780478 AACAACCTTT
Statistics
Matches: 549, Mismatches: 144, Indels: 57
0.73 0.19 0.08
Matches are distributed among these distances:
83 41 0.07
84 123 0.22
85 324 0.59
86 61 0.11
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (85 bp):
AGACTTCTTTATCTTTTTGTCTGCCCGTCAGCTTAGACCTAGGAGACTTCTTTATCTTTTGTCTG
CCCATCGGCTCAGACCCAGG
Found at i:780261 original size:42 final size:43
Alignment explanation
Indices: 779671--780453 Score: 392
Period size: 42 Copynumber: 18.5 Consensus size: 43
779661 GTCTCACTCC
* * **
779671 AGACTTCTTCATCTTTTTATCTGCCTGTCGGCTTAGACCTAGG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCTAGG
* * * * **
779714 AGACTCCTATATC-CTTTGTCTGCCCGTCGGCTTA-AGCCCGGG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGA-CCTAGG
* * * * * * *
779756 AGACTTTTTTAT-TTGTTTATTTACCCATCAGCTTAAACCTGGG
1 AGACTTCTTTATCTT-TTTGTCTGCCCATCGGCTTAGACCTAGG
* * ** * * * *
779799 AGACTTCTTTATAC--TTCGTCCGCCTGTCGGGTCAAGCCCGA-G
1 AGACTTCTTTAT-CTTTTTGTCTGCCCATCGGCT-TAGACCTAGG
* * * ** * * * *
779841 AGACTTCCTCATC-GTTTGTCTGAACGTCGACTCAGA-CTCAAG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCT-AGG
* * *
779883 AGACTTCTTTATC-CTTTGTCTGCCCATC-GATTCAGACC-CGAG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTT-AGACCTAG-G
* * **
779925 AGACTTCTTTATCCTTTT-TCTACCTGTCGG-TTCA-AGCCTAGG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTT-AGA-CCTAGG
* * * *
779967 AGACTTCTTTATCTTTTTATCTGCCTATCGGCTCAGACCTAAG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCTAGG
* * * * *
780010 AGACTT-TTTATC-CTTTGTCTACCCATCAGCTTAG-GCTCGAG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCTAG-G
* * ** ** *
780051 AGACATCTTTATC-TTTTATCTGCCTGTCGATTTAGACCCAGG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCTAGG
* * *
780093 AGACTTCTTTATCTTTTTGTTTGCCCGTCAGCTTAGACCTAGG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCTAGG
* * * *
780136 AGACTTCTTTATC-CTTTGTCTGCCCATCAGCTCAGACCTGGG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCTAGG
* * * ** * * *
780178 AGATTTTTTTATCTTTTTGTCTACCTGTCGACTCA-AACTCAGG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCT-AGG
** *
780221 AGACTTCTTTATC-TTTTGTCTGCTAATCGGCTTAG-GCTCAGG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCT-AGG
* * * * ** * * *
780263 ATATTTCTTCATCTTTTTGTTTGCTCGTTAGG-TTAGGCCTGGG
1 AGACTTCTTTATCTTTTTGTCTGC-CCATCGGCTTAGACCTAGG
* * * * *
780306 AGACTTTTTTATCTTTTTGTCTACCCATCGGCTCAGACTTAAG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCTAGG
* * *
780349 AGACTTCTTTATC-TTTTGTCTGCCCATCAGCTTAGGCCTAAG
1 AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCTAGG
* * *
780391 AGACTT-TTTCATCTTTTTGTCTGCCCGTCGGCTTAAACCTGGG
1 AGACTTCTTT-ATCTTTTTGTCTGCCCATCGGCTTAGACCTAGG
* *
780434 AGACTTCTTCATCTCTTTGT
1 AGACTTCTTTATCTTTTTGT
780454 TAGCTCGTCA
Statistics
Matches: 549, Mismatches: 157, Indels: 68
0.71 0.20 0.09
Matches are distributed among these distances:
40 3 0.01
41 32 0.06
42 278 0.51
43 226 0.41
44 10 0.02
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (43 bp):
AGACTTCTTTATCTTTTTGTCTGCCCATCGGCTTAGACCTAGG
Found at i:780432 original size:128 final size:128
Alignment explanation
Indices: 779966--780453 Score: 400
Period size: 128 Copynumber: 3.8 Consensus size: 128
779956 TCAAGCCTAG
* * * * * *
779966 GAGACTTCTTTATCTTTTTATCTGCCTATCGGCTCAGACCTAAGAGACTTTTT-ATC-CTTTGTC
1 GAGACTTCTTTATC-TTTTGTCTGCCCATCAGCTTAGGCCTAAGAGACTTTTTCATCTTTTTGTC
* * * * * * * * * ** * * * * *
780029 TACCCATCAGCTTAG-GCTCGAGAGACATCTTTATC-TTTTATCTGCCTGTCGATTTAGACCCAG
65 TGCCCGTCGGCTTAGACCT-GGGAGACTTTTTTATCTTTTTGTCTACCCATCGACTCAAACTCAA
* * * * *
780092 GAGACTTCTTTATCTTTTTGTTTGCCCGTCAGCTTAGACCTAGGAGACTTCTTT-ATC-CTTTGT
1 GAGACTTCTTTATC-TTTTGTCTGCCCATCAGCTTAGGCCTAAGAGACTT-TTTCATCTTTTTGT
* * * * ** *
780155 CTGCCCATCAGCTCAGACCTGGGAGATTTTTTTATCTTTTTGTCTACCTGTCGACTCAAACTCAG
64 CTGCCCGTCGGCTTAGACCTGGGAGACTTTTTTATCTTTTTGTCTACCCATCGACTCAAACTCAA
** * * *
780220 GAGACTTCTTTATCTTTTGTCTGCTAATCGGCTTAGG-CTCAG-GATATTTCTTCATCTTTTTGT
1 GAGACTTCTTTATCTTTTGTCTGCCCATCAGCTTAGGCCTAAGAGA-CTTT-TTCATCTTTTTGT
* * * * * * *
780283 TTGCTCGTTAGG-TTAGGCCTGGGAGACTTTTTTATCTTTTTGTCTACCCATCGGCTCAGACTTA
64 CTGCCCG-TCGGCTTAGACCTGGGAGACTTTTTTATCTTTTTGTCTACCCATCGACTCAAACTCA
780347 A
128 A
780348 GAGACTTCTTTATCTTTTGTCTGCCCATCAGCTTAGGCCTAAGAGACTTTTTCATCTTTTTGTCT
1 GAGACTTCTTTATCTTTTGTCTGCCCATCAGCTTAGGCCTAAGAGACTTTTTCATCTTTTTGTCT
* * * *
780413 GCCCGTCGGCTTAAACCTGGGAGACTTCTTCATCTCTTTGT
66 GCCCGTCGGCTTAGACCTGGGAGACTTTTTTATCTTTTTGT
780454 TAGCTCGTCA
Statistics
Matches: 294, Mismatches: 57, Indels: 20
0.79 0.15 0.05
Matches are distributed among these distances:
125 3 0.01
126 50 0.17
127 61 0.21
128 169 0.57
129 9 0.03
130 2 0.01
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (128 bp):
GAGACTTCTTTATCTTTTGTCTGCCCATCAGCTTAGGCCTAAGAGACTTTTTCATCTTTTTGTCT
GCCCGTCGGCTTAGACCTGGGAGACTTTTTTATCTTTTTGTCTACCCATCGACTCAAACTCAA
Found at i:781738 original size:168 final size:163
Alignment explanation
Indices: 781537--781968 Score: 440
Period size: 167 Copynumber: 2.6 Consensus size: 163
781527 AAAATTCTTT
* ** * * *
781537 AAATATTATCATTTAACTCCCATCAAATCAGTTTTGAAAAAATTCATTTATTTCTTAAGTTATT-
1 AAATATTATTATTTAACTCATATTAAATCAGTTTTG-AAAAATTAATTTATTTCATAAGTT-TTA
* ** * *
781601 AATTTTCTTTTGAAATTCTTCATGTTTTCAAATTACTAAATTTTCTTTTCCGTAAATTTTTTTAG
64 AATTTT-TTTTGAAATT-TTCATGTTTTCAAAATAAGAAATTTTCTATTCCGTAAA-TATTTTAG
* *
781666 AGAGGATTTTTCTT-GGTTTTTAAATTTTTAAAAGTCATA
126 AGAGGATTTTT-TTCAG-TTTTAAATTTTTAAAAGTAATA
* *
781705 AAATATTATTATTTAACTCATATTAAATCAGTTTTTAAAAATTTATTCATATTT-ATAAGTTTTT
1 AAATATTATTATTTAACTCATATTAAATCAGTTTTGAAAAATTAATT--TATTTCATAAG-TTTT
* * * * * *
781769 GAATTTTTTCCTTGAAATTTCCCT-ATTTCTAAAATAAGAAGTTTTCTATTCCGTAAATATTTTC
63 AAATTTTTT--TTGAAATTTTCATGTTTTC-AAAATAAGAAATTTTCTATTCCGTAAATATTTTA
* * *
781833 GGGAGGATTTTTTTCAGTTTTAAATTTTTAAAATTAATC
125 GAGAGGATTTTTTTCAGTTTTAAATTTTTAAAAGTAATA
* * * *
781872 AAATATTATTATTTGATTCATATTAAATCAGTTTTGAGAAATTAATTTATTTTCATGAGTTTTAA
1 AAATATTATTATTTAACTCATATTAAATCAGTTTTGAAAAATTAATTTA-TTTCATAAGTTTTAA
*
781937 ATTTTTCTTTGAAATTTTCATGTTTCCAAAAT
65 ATTTTT-TTTGAAATTTTCATGTTTTCAAAAT
781969 TTTTGAAAAA
Statistics
Matches: 219, Mismatches: 33, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
165 18 0.08
166 17 0.08
167 78 0.36
168 60 0.27
169 38 0.17
170 8 0.04
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.50
Consensus pattern (163 bp):
AAATATTATTATTTAACTCATATTAAATCAGTTTTGAAAAATTAATTTATTTCATAAGTTTTAAA
TTTTTTTTGAAATTTTCATGTTTTCAAAATAAGAAATTTTCTATTCCGTAAATATTTTAGAGAGG
ATTTTTTTCAGTTTTAAATTTTTAAAAGTAATA
Found at i:783655 original size:162 final size:164
Alignment explanation
Indices: 783319--783926 Score: 734
Period size: 162 Copynumber: 3.7 Consensus size: 164
783309 TAAAGATATT
* * * *
783319 TAAATATTAACCATTTTTCTTAATCTTTTATATTCCTATGGGGATCTCTAGGGATATAAAAGATT
1 TAAATATTAATCACTTTT-TTAATCTTTTATATTCCTATGGGGATCTATAGGGGTATAAAAGATT
* * *
783384 TTCAAAACTTTTTATATCTTTTCTG-GTTTCTATTAAGGTACGAAATGATATTTTTCAAAAATAA
65 TTAAAAACTTTTCATATCTTTT-TGAGTTTCTATTAAGGTACGAAATGATATTTTTC-GAAATAA
*
783448 AACAAATTAAATTAAATTAACACTTTCGTAATTGAAA
128 AACAAATTAAATTAAATTAACACTTTCATAATTGAAA
* * *
783485 TAAATATTAATCA-TTTTTTAATCTTTTATATTCTTATGGGGGTCTGTAGGGGTATAAAAGA-TT
1 TAAATATTAATCACTTTTTTAATCTTTTATATTCCTATGGGGATCTATAGGGGTATAAAAGATTT
* * *
783548 TCAAAACTTTTCATATCTTTTTGAGTTTCTATTAAGGTGCGAAATGGTATTTTTCGAAATAAAAC
66 TAAAAACTTTTCATATCTTTTTGAGTTTCTATTAAGGTACGAAATGATATTTTTCGAAATAAAAC
783613 AAATTAAATTAAATTAACACTTTCATAATTGAAA
131 AAATTAAATTAAATTAACACTTTCATAATTGAAA
* * * *
783647 TAAATATTAATCA-TTTCTTAATC-TTTATATTCCTATAGGGATCCATAAGGGTATAAAAGATTT
1 TAAATATTAATCACTTTTTTAATCTTTTATATTCCTATGGGGATCTATAGGGGTATAAAAGATTT
* ** * * *
783710 TAAAAATTTTTTGTATC-TTTTCAGGTTTCTATTAAGGTACGAAATGGTATTTTTTGAAATAAAA
66 TAAAAACTTTTCATATCTTTTTGA-GTTTCTATTAAGGTACGAAATGATATTTTTCGAAATAAAA
* *
783774 CAAATTAAAATAAATTAACACTTTCATAA-TCAAGA
130 CAAATTAAATTAAATTAACACTTTCATAATTGAA-A
* * * * * * * *
783809 CAAACT-CTAATCACCTTTTTAATCTTCTATATTCTTATGGAGGTTC-ATAGGGGTATAAAGGGT
1 TAAA-TATTAATCACTTTTTTAATCTTTTATATTCCTATGG-GGATCTATAGGGGTATAAAAGAT
* *
783872 TTTAAAAACTTTTCATAT-TTTTTCGGATTTTC-ATTAAGGTACAAAATGATATTTT
64 TTTAAAAACTTTTCATATCTTTTT--GAGTTTCTATTAAGGTACGAAATGATATTTT
783927 CGAGAAAAAG
Statistics
Matches: 387, Mismatches: 44, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
161 39 0.10
162 157 0.41
163 60 0.16
164 106 0.27
165 12 0.03
166 13 0.03
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.42
Consensus pattern (164 bp):
TAAATATTAATCACTTTTTTAATCTTTTATATTCCTATGGGGATCTATAGGGGTATAAAAGATTT
TAAAAACTTTTCATATCTTTTTGAGTTTCTATTAAGGTACGAAATGATATTTTTCGAAATAAAAC
AAATTAAATTAAATTAACACTTTCATAATTGAAA
Found at i:785779 original size:13 final size:13
Alignment explanation
Indices: 785761--785785 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
785751 TACAGTGGTC
785761 ATGTATCGATACA
1 ATGTATCGATACA
785774 ATGTATCGATAC
1 ATGTATCGATAC
785786 TGTGCATTAT
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):
ATGTATCGATACA
Found at i:787281 original size:92 final size:91
Alignment explanation
Indices: 787176--787361 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 91
787166 GTAACGGGCC
* *
787176 TCAGCCATGCATAAAAATTGATTAAAACCCATAAAGCTACCTGAGTAAAAAGATCAGAAATAAAA
1 TCAGCCATGCATAAAAATTGATTAAAACCCATAAAGCTACCTGAGTAAAAAAATAAGAAATAAAA
787241 AGAATTAATTGTGTAACTATAACCTA
66 AGAATTAATTGTGTAACTATAACCTA
* * *
787267 TCAGCCCATGCATAAAAATTGATTAAAACCCATAGAGCTACTTGAGTAAAAAAATAAGTAATAAA
1 TCAG-CCATGCATAAAAATTGATTAAAACCCATAAAGCTACCTGAGTAAAAAAATAAGAAATAAA
787332 AAGAATTAATTGTGTAACTATAACCTA
65 AAGAATTAATTGTGTAACTATAACCTA
787359 TCA
1 TCA
787362 TCTTGTCTTG
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 4 0.04
92 85 0.96
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (91 bp):
TCAGCCATGCATAAAAATTGATTAAAACCCATAAAGCTACCTGAGTAAAAAAATAAGAAATAAAA
AGAATTAATTGTGTAACTATAACCTA
Found at i:788869 original size:16 final size:16
Alignment explanation
Indices: 788847--788890 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
788837 TTTTAAACAT
*
788847 ACTTTTTCCAACTCAA
1 ACTTTTTCCAACCCAA
* *
788863 GCTTTTTCTAACCCAA
1 ACTTTTTCCAACCCAA
*
788879 ACTTTTTTCAAC
1 ACTTTTTCCAAC
788891 AGTAATGCTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.27, C:0.30, G:0.02, T:0.41
Consensus pattern (16 bp):
ACTTTTTCCAACCCAA
Found at i:792349 original size:30 final size:29
Alignment explanation
Indices: 792315--792371 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
792305 TATATATTTA
792315 TATTTTAATAAT-ATATAATATAATATTACT
1 TATTTTAATAATAAT-TAATA-AATATTACT
792345 TATTTTAATAATAATTAATAAATATTA
1 TATTTTAATAATAATTAATAAATATTA
792372 ATATAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 7 0.27
30 17 0.65
31 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
TATTTTAATAATAATTAATAAATATTACT
Found at i:792597 original size:15 final size:14
Alignment explanation
Indices: 792566--792612 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
792556 TTTTAGCATT
792566 AAATATT-ATCATTA
1 AAATATTAAT-ATTA
*
792580 AAATATTACTATTTA
1 AAATATTAATA-TTA
792595 AAATATTAATATTA
1 AAATATTAATATTA
792609 AAAT
1 AAAT
792613 TAAAGATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATATTAATATTA
Found at i:792655 original size:8 final size:8
Alignment explanation
Indices: 792638--792669 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
792628 TAATGATAAA
792638 TAAT-TTT
1 TAATATTT
792645 TAATATTT
1 TAATATTT
792653 TAATA-TT
1 TAATATTT
792660 TAATATTT
1 TAATATTT
792668 TA
1 TA
792670 TGTTAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 11 0.48
8 12 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TAATATTT
Found at i:792656 original size:15 final size:15
Alignment explanation
Indices: 792638--792669 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
792628 TAATGATAAA
*
792638 TAATTTTTAATATTT
1 TAATATTTAATATTT
792653 TAATATTTAATATTT
1 TAATATTTAATATTT
792668 TA
1 TA
792670 TGTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATATTTAATATTT
Found at i:792776 original size:20 final size:20
Alignment explanation
Indices: 792709--792763 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
792699 GTAATGTTTG
* *
792709 AATAATAATTTATATTAATATA
1 AATAAT-ATTT-TAATAATAAA
792731 AATAATATTTTAATAATAAA
1 AATAATATTTTAATAATAAA
792751 AATAATATTTTAA
1 AATAATATTTTAA
792764 ATATGAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 21 0.68
21 4 0.13
22 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATAATATTTTAATAATAAA
Found at i:793700 original size:16 final size:16
Alignment explanation
Indices: 793679--793713 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
793669 AAAACTACAT
793679 TAACCTTTACTCGAAA
1 TAACCTTTACTCGAAA
793695 TAACCTTTACTCGAAA
1 TAACCTTTACTCGAAA
793711 TAA
1 TAA
793714 TCCAAAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (16 bp):
TAACCTTTACTCGAAA
Found at i:803125 original size:26 final size:25
Alignment explanation
Indices: 803089--803137 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
803079 GACAAAAAAT
*
803089 AATTATTTAAAATATTAA-ATTAAA
1 AATTATTTAAAAAATTAATATTAAA
803113 AATTATATATAAAAAATTAATATTA
1 AATTAT-T-TAAAAAATTAATATTA
803138 TTTGAAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 1 0.05
26 10 0.48
27 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATTATTTAAAAAATTAATATTAAA
Found at i:808716 original size:133 final size:132
Alignment explanation
Indices: 808411--808791 Score: 386
Period size: 133 Copynumber: 2.9 Consensus size: 132
808401 ATATTTCGCC
* * * * * * *
808411 TAATTGGATGAAGCAAACTCAAAATCAACACCATTGATTTTCCACATAATCCAATGAAGTAGACA
1 TAATTGGATGAAGC-AACTTAAAATTAAC-CTATCGATCTTCCACATAATCAAATGAAGTGGACA
* * * * ** *
808476 ACTAACTCCACTAGTCTTCCATCTAACCGAATAAAGCTAAAAAAAGAAAAACTCCACTGATCTTT
64 ACTGACTCCATTGGTCTTCCATCTAACCGAATGAAGCTAAAAAAAGAAAAACTCCACCAACCTTT
* *
808541 TGCC
129 TACA
** * * * * *
808545 TAATCAGATAAAGCAGAC-TAAAACTGACCTCATGGATCTTCCATATAATCAAATGAAGTGGACA
1 TAATTGGATGAAGCA-ACTTAAAATTAACCT-ATCGATCTTCCACATAATCAAATGAAGTGGACA
* *
808609 ACTGACTCCATTGGTCTTCCATCTAACCGAATGAAGCTAACAAAAGAAAAACTCTACCAACCTTT
64 ACTGACTCCATTGGTCTTCCATCTAACCGAATGAAGCTAAAAAAAGAAAAACTCCACCAACCTTT
*
808674 TATA
129 TACA
* * * *
808678 TAATTGGATGAAGCTAACTTAAAATTAACCTACCGATCTTCTACATAATCAAATGAAGCGAACAA
1 TAATTGGATGAAGC-AACTTAAAATTAACCTATCGATCTTCCACATAATCAAATGAAGTGGACAA
* * * * * *
808743 CTGACTCAATTGGTTTTTCATTTAACCAAATGAAGCTAAGAAAAGAAAA
65 CTGACTCCATTGGTCTTCCATCTAACCGAATGAAGCTAAAAAAAGAAAA
808792 TTTTATTGAC
Statistics
Matches: 201, Mismatches: 42, Indels: 9
0.80 0.17 0.04
Matches are distributed among these distances:
132 1 0.00
133 176 0.88
134 24 0.12
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.25
Consensus pattern (132 bp):
TAATTGGATGAAGCAACTTAAAATTAACCTATCGATCTTCCACATAATCAAATGAAGTGGACAAC
TGACTCCATTGGTCTTCCATCTAACCGAATGAAGCTAAAAAAAGAAAAACTCCACCAACCTTTTA
CA
Found at i:808851 original size:133 final size:133
Alignment explanation
Indices: 808450--808867 Score: 340
Period size: 133 Copynumber: 3.1 Consensus size: 133
808440 ACCATTGATT
* * * * * * * *
808450 TTCCACATAATCCAATGAAG-TAGACAACTAACTCCACTAGTCTTCCATCTAACCGAATAAAGCT
1 TTCCACATAATCAAATGAAGCGA-ACAACTGACTCAATTGGTCTTCCATCTAACCAAATGAAGCT
* * ** * *** * * *
808514 AAAAAAAGAAAAACTCCACTGATCTTTTGCCTAATCAGATAAAGC-AGACT-AAAACTGACCTCA
65 AACAAAAGAAAAACTCTACCAACCTTTTATATAACCGGATAAAGCTA-ACTCAAAACTAACC-CA
**
808577 TGGATC
128 CCGATC
* * * * *
808583 TTCCATATAATCAAATGAAGTGGACAACTGACTCCATTGGTCTTCCATCTAACCGAATGAAGCTA
1 TTCCACATAATCAAATGAAGCGAACAACTGACTCAATTGGTCTTCCATCTAACCAAATGAAGCTA
** * * * *
808648 ACAAAAGAAAAACTCTACCAACCTTTTATATAATTGGATGAAGCTAACTTAAAATTAACCTACCG
66 ACAAAAGAAAAACTCTACCAACCTTTTATATAACCGGATAAAGCTAACTCAAAACTAACCCACCG
808713 ATC
131 ATC
* * * *
808716 TTCTACATAATCAAATGAAGCGAACAACTGACTCAATTGGTTTTTCATTTAACCAAATGAAGCTA
1 TTCCACATAATCAAATGAAGCGAACAACTGACTCAATTGGTCTTCCATCTAACCAAATGAAGCTA
* * * *** * * *
808781 AGAAAAG-AAAATTTTATTGACCTTTTATATAGCCGTATAAAGCTAACTCAAAACTAACTCCAGC
66 ACAAAAGAAAAACTCTACCAACCTTTTATATAACCGGATAAAGCTAACTCAAAACTAAC-CCACC
*
808845 GTTC
130 GATC
* *
808849 TTCCACATAACCAAGTGAA
1 TTCCACATAATCAAATGAA
808868 ATGAACTTAA
Statistics
Matches: 229, Mismatches: 52, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
132 39 0.17
133 181 0.79
134 9 0.04
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.27
Consensus pattern (133 bp):
TTCCACATAATCAAATGAAGCGAACAACTGACTCAATTGGTCTTCCATCTAACCAAATGAAGCTA
ACAAAAGAAAAACTCTACCAACCTTTTATATAACCGGATAAAGCTAACTCAAAACTAACCCACCG
ATC
Found at i:809963 original size:59 final size:58
Alignment explanation
Indices: 809900--810088 Score: 154
Period size: 59 Copynumber: 3.3 Consensus size: 58
809890 AATGAAATCA
*
809900 AGGTTTAAAGAAATAGCCTAGACAAAACCA-TAAACCTAACAACAACTTAGAC-AAAGCTG
1 AGGTTTAAAGAAATA-CCTAGACAAAACCAGT-AACCTAACAACAACCTAGACGAAA-CTG
* * * * * ** * *
809959 AGGTTCAAACAAACTACCTAAACAAAACTAGTAACTTAATGATAACCTAGACGAAATTG
1 AGGTTTAAAGAAA-TACCTAGACAAAACCAGTAACCTAACAACAACCTAGACGAAACTG
* * * * *
810018 AGGTTTAAAGAAATAACCTAGACTAAACCAG---CCTAAAAACAACCTATATGAAATTG
1 AGGTTTAAAGAAAT-ACCTAGACAAAACCAGTAACCTAACAACAACCTAGACGAAACTG
*
810074 AGGTTCAAAGAAATA
1 AGGTTTAAAGAAATA
810089 ACTTGGACGA
Statistics
Matches: 104, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
55 1 0.01
56 32 0.31
58 1 0.01
59 64 0.62
60 6 0.06
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.20
Consensus pattern (58 bp):
AGGTTTAAAGAAATACCTAGACAAAACCAGTAACCTAACAACAACCTAGACGAAACTG
Found at i:809966 original size:119 final size:118
Alignment explanation
Indices: 809808--810047 Score: 281
Period size: 119 Copynumber: 2.0 Consensus size: 118
809798 CTGGACAATG
* * * * *
809808 CCATAAACCCAACAATAGCTTAGATGAAACTGAGGTTCAAA-AGAACTGCTTAAACAAAACCAG-
1 CCATAAACCCAACAACAACTTAGATCAAACTGAGGTTCAAACA-AACTACCTAAACAAAACCAGT
* *
809871 ACGACCTAAAGATAACCT-GAATGAAATCAAGGTTTAAAGAAATAGCCTAGACAAAA
65 A--ACCTAAAGATAACCTAG-ACGAAATCAAGGTTTAAAGAAATAACCTAGACAAAA
* *
809927 CCATAAACCTAACAACAACTTAGA-CAAAGCTGAGGTTCAAACAAACTACCTAAACAAAACTAGT
1 CCATAAACCCAACAACAACTTAGATCAAA-CTGAGGTTCAAACAAACTACCTAAACAAAACCAGT
* * ** *
809991 AACTTAATGATAACCTAGACGAAATTGAGGTTTAAAGAAATAACCTAGACTAAA
65 AACCTAAAGATAACCTAGACGAAATCAAGGTTTAAAGAAATAACCTAGACAAAA
810045 CCA
1 CCA
810048 GCCTAAAAAC
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
118 50 0.49
119 51 0.50
120 2 0.02
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.19
Consensus pattern (118 bp):
CCATAAACCCAACAACAACTTAGATCAAACTGAGGTTCAAACAAACTACCTAAACAAAACCAGTA
ACCTAAAGATAACCTAGACGAAATCAAGGTTTAAAGAAATAACCTAGACAAAA
Found at i:810107 original size:56 final size:56
Alignment explanation
Indices: 810002--810111 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 56
809992 ACTTAATGAT
* *
810002 AACCTAGACGAAATTGAGGTTTAAAGAAATAACCTAGACTAAACCAGCCTAAAAAC
1 AACCTAGACGAAATTGAGGTTCAAAGAAATAACCTAGACGAAACCAGCCTAAAAAC
* * * * **
810058 AACCTATATGAAATTGAGGTTCAAAGAAATAACTTGGACGAAATTAGCCTAAAA
1 AACCTAGACGAAATTGAGGTTCAAAGAAATAACCTAGACGAAACCAGCCTAAAA
810112 CTACTTAGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.21
Consensus pattern (56 bp):
AACCTAGACGAAATTGAGGTTCAAAGAAATAACCTAGACGAAACCAGCCTAAAAAC
Found at i:814059 original size:33 final size:33
Alignment explanation
Indices: 814022--814088 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
814012 TTCAATGATT
814022 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
814055 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
814088 T
1 T
814089 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:814060 original size:13 final size:13
Alignment explanation
Indices: 814042--814066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
814032 CATAAAATGT
814042 TGTATCGATACAA
1 TGTATCGATACAA
814055 TGTATCGATACA
1 TGTATCGATACA
814067 TATTTTTTTG
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:814147 original size:13 final size:13
Alignment explanation
Indices: 814129--814153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
814119 ATTACTCAAA
814129 TGTATCGATACAT
1 TGTATCGATACAT
814142 TGTATCGATACA
1 TGTATCGATACA
814154 CTGATCTTTG
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:814222 original size:52 final size:52
Alignment explanation
Indices: 814162--814281 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
814152 CACTGATCTT
* *
814162 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
814214 TGTGTCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
814266 TGTATCGATACATGCA
1 TGTATCGATACATGCA
814282 AACAACTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:818686 original size:20 final size:21
Alignment explanation
Indices: 818661--818714 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
818651 CATTTAAGGC
818661 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTAT
* *
818681 ATGTATTGATACATTTACTAT
1 ATGTATCGATACATTCACTAT
* *
818702 TTATATCGATACA
1 ATGTATCGATACA
818715 AATTGTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:828046 original size:20 final size:19
Alignment explanation
Indices: 828023--828075 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
828013 CATTTCAGGC
*
828023 ATGTATCGATACATTCACTT
1 ATGTATCGATACATT-ACCT
*
828043 ATGTACCGATACATTACCT
1 ATGTATCGATACATTACCT
*
828062 ATTGTATCAATACA
1 A-TGTATCGATACA
828076 AATTGTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (19 bp):
ATGTATCGATACATTACCT
Found at i:831603 original size:16 final size:17
Alignment explanation
Indices: 831566--831601 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
831556 AATCTTGTAC
831566 AAATTTTTGTAACACTT
1 AAATTTTTGTAACACTT
831583 AAATTTTTGTAACACTT
1 AAATTTTTGTAACACTT
831600 AA
1 AA
831602 TTGACCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (17 bp):
AAATTTTTGTAACACTT
Found at i:841712 original size:14 final size:14
Alignment explanation
Indices: 841695--841770 Score: 79
Period size: 14 Copynumber: 5.5 Consensus size: 14
841685 TTTTTTATTA
841695 AATAAAATTTAATT
1 AATAAAATTTAATT
841709 AATAAAATTT-ATT
1 AATAAAATTTAATT
* *
841722 AAAAAATATTTAATA
1 AATAAA-ATTTAATT
841737 AAT-AAATTTAAATT
1 AATAAAATTT-AATT
841751 --TAAAATTTAATT
1 AATAAAATTTAATT
841763 ATATAAAA
1 A-ATAAAA
841771 AATTATATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
12 5 0.10
13 18 0.35
14 19 0.37
15 9 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAAAATTTAATT
Found at i:841723 original size:17 final size:17
Alignment explanation
Indices: 841679--841723 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
841669 TTTACTATTT
*
841679 ATAAAATTTTTTATTAA
1 ATAAAATTTTTAATTAA
841696 ATAAAA--TTTAATT-A
1 ATAAAATTTTTAATTAA
841710 ATAAAATTTATTAA
1 ATAAAATTT-TTAA
841724 AAAATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 7 0.29
15 6 0.25
16 1 0.04
17 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAAAATTTTTAATTAA
Found at i:841724 original size:28 final size:28
Alignment explanation
Indices: 841688--841770 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
841678 TATAAAATTT
841688 TTTATTAAATAAAATTTAATTAATAAAA
1 TTTATTAAATAAAATTTAATTAATAAAA
*
841716 TTTATTAAA-AAATATTTAATAAAT-AAA
1 TTTATTAAATAAA-ATTTAATTAATAAAA
*
841743 TTTA--AATTTAAAATTTAATTATATAAAA
1 TTTATTAA-ATAAAATTTAATTA-ATAAAA
841771 AATTATATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
25 2 0.04
26 8 0.17
27 15 0.32
28 22 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTATTAAATAAAATTTAATTAATAAAA
Found at i:841781 original size:27 final size:26
Alignment explanation
Indices: 841691--841783 Score: 73
Period size: 30 Copynumber: 3.5 Consensus size: 26
841681 AAAATTTTTT
*
841691 ATTAAATAAAATTTAATTAAT-AAAA
1 ATTATATAAAATTTAATTAATAAAAA
* ** *
841716 TTTAT-TAAAAAATATTTAATAAATAA
1 ATTATATAAAATTTAATTAATAAA-AA
*
841742 ATTTAAATTTAAAATTTAATTATATAAAAA
1 A-TT--ATATAAAATTTAATTA-ATAAAAA
841772 ATTATATAAAAT
1 ATTATATAAAAT
841784 ATAAAATAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
24 12 0.24
25 5 0.10
26 2 0.04
27 10 0.20
29 4 0.08
30 13 0.25
31 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATTATATAAAATTTAATTAATAAAAA
Found at i:841794 original size:11 final size:12
Alignment explanation
Indices: 841781--841841 Score: 67
Period size: 11 Copynumber: 5.4 Consensus size: 12
841771 AATTATATAA
841781 AATATAAAATA-
1 AATATAAAATAT
*
841792 AAT-TAAGATAT
1 AATATAAAATAT
841803 AATA-AAAATAT
1 AATATAAAATAT
* *
841814 AATTTAAAAAAT
1 AATATAAAATAT
841826 AAT-TAAAATAT
1 AATATAAAATAT
841837 AATAT
1 AATAT
841842 GACACAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
10 6 0.15
11 25 0.61
12 10 0.24
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (12 bp):
AATATAAAATAT
Found at i:841875 original size:27 final size:26
Alignment explanation
Indices: 841820--841895 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
841810 ATATAATTTA
*
841820 AAAAATAAT-TAAAATATAATATGACAC
1 AAAAATAATAT-AAATAT-ATATAACAC
*
841847 AAAAATAATATAAATATATAGTAATAC
1 AAAAATAATATAAATATATA-TAACAC
* *
841874 AAGAAT-ATATAAATTTATATAA
1 AAAAATAATATAAATATATATAA
841896 AACGAATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 3 0.07
26 15 0.35
27 24 0.56
28 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (26 bp):
AAAAATAATATAAATATATATAACAC
Found at i:842832 original size:19 final size:18
Alignment explanation
Indices: 842808--842878 Score: 76
Period size: 17 Copynumber: 4.0 Consensus size: 18
842798 TAATAAGATT
842808 ATATAATATAAAAATTATA
1 ATATAATATAAAAA-TATA
*
842827 ATATAATAT-AAAATATG
1 ATATAATATAAAAATATA
*
842844 ATATAATACGAAAAA-ATA
1 ATATAATA-TAAAAATATA
*
842862 ATATAA-ATATAAATATA
1 ATATAATATAAAAATATA
842879 CAAACTTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
16 4 0.09
17 15 0.34
18 12 0.27
19 13 0.30
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (18 bp):
ATATAATATAAAAATATA
Found at i:846887 original size:37 final size:37
Alignment explanation
Indices: 846846--846920 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
846836 AATGTCCCCT
846846 AGATGCTCATTGAAGATAGATTTGCAGAAGGCATTCG
1 AGATGCTCATTGAAGATAGATTTGCAGAAGGCATTCG
846883 AGATGCTCATTGAAGATAGATTTGCAGAAGGCATTCG
1 AGATGCTCATTGAAGATAGATTTGCAGAAGGCATTCG
846920 A
1 A
846921 TAATCTCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (37 bp):
AGATGCTCATTGAAGATAGATTTGCAGAAGGCATTCG
Found at i:848581 original size:152 final size:153
Alignment explanation
Indices: 848303--848597 Score: 556
Period size: 152 Copynumber: 1.9 Consensus size: 153
848293 CGCTTAAGAT
*
848303 TCATTATTCTTCTGAGTGGCATGAAATGCTTATATCTACGTAATATGAAGAGAACGAAACAACAG
1 TCATTATTCTTCTGAGTGGCATGAAATGCCTATATCTACGTAATATGAAGAGAACGAAACAACAG
848368 GCATTTCAGGCAAGTGGAGAGCATGGTGCACGATCTAATTGGAAGAATCAAAGAGTTGATAAGGC
66 GCATTTCAGGCAAGTGGAGAGCATGGTGCACGATCTAATTGGAAGAATCAAAGAGTTGATAAGGC
848433 TTAAATCGATAAGTACTAGAGTG
131 TTAAATCGATAAGTACTAGAGTG
* *
848456 TCATTATTCTTCTGAGTGGCATGAAATGCCTATATTTACGTAATATGGAGAGAACGAAACAACA-
1 TCATTATTCTTCTGAGTGGCATGAAATGCCTATATCTACGTAATATGAAGAGAACGAAACAACAG
848520 GCATTTCAGGCAAGTGGAGAGCATGGTGCACGATCTAATTGGAAGAATCAAAGAGTTGATAAGGC
66 GCATTTCAGGCAAGTGGAGAGCATGGTGCACGATCTAATTGGAAGAATCAAAGAGTTGATAAGGC
848585 TTAAATCGATAAG
131 TTAAATCGATAAG
848598 GCTCAAAGAG
Statistics
Matches: 139, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
152 78 0.56
153 61 0.44
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (153 bp):
TCATTATTCTTCTGAGTGGCATGAAATGCCTATATCTACGTAATATGAAGAGAACGAAACAACAG
GCATTTCAGGCAAGTGGAGAGCATGGTGCACGATCTAATTGGAAGAATCAAAGAGTTGATAAGGC
TTAAATCGATAAGTACTAGAGTG
Found at i:850533 original size:16 final size:15
Alignment explanation
Indices: 850494--850537 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
850484 ACTGATAAAA
850494 ATTAATTATTGTTATT
1 ATTAATTATT-TTATT
* *
850510 TTTTATTATTTTAATT
1 ATTAATTATTTT-ATT
850526 ATTAATTATTTT
1 ATTAATTATTTT
850538 TATAAGTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
ATTAATTATTTTATT
Found at i:857708 original size:13 final size:13
Alignment explanation
Indices: 857690--857714 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
857680 CATTATGCTT
857690 TGTATCGATACAA
1 TGTATCGATACAA
857703 TGTATCGATACA
1 TGTATCGATACA
857715 TGTTTATTGT
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:862226 original size:20 final size:20
Alignment explanation
Indices: 862150--862223 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
862140 GTAAAAAGAC
862150 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
862170 AGAATGTATCAATACATTCA
1 AGAATGTATCGATACATTGA
* *
862190 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
862210 AGAATGTATCGATA
1 AGAATGTATCGATA
862224 TATCTGGGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:867545 original size:155 final size:154
Alignment explanation
Indices: 867072--867735 Score: 556
Period size: 155 Copynumber: 4.3 Consensus size: 154
867062 TAAATTCAAG
* * * * * *
867072 AAAAATTATGAAAATGCCCCTAGGGATACCTTCAACGTAGAAGTGCCTGATACGCCTAAAGGACT
1 AAAAATTATAAAAATG-CCCTAGAGATACCTTCGACGTAAAAGTACCTGATACTCCTAAAGGACT
* * * *
867137 TAAAAAAGGATTTTAAA-AGGGATGAACCTATCCTAAATATCTACCTTCGGCATAAAAGCAGACA
65 TAAAAAAGGATTATAAATAGGG-TGAACCTATCCTAAATACCCATCTTCGGCATAAAAGCAGACA
* *
867201 TGGTGACAACTTCGGACTCGATTCTA
129 TGGTGACACCTTAGGACTCGATTCTA
* * * * *
867227 AAAAATTATAAAAATGCCCTAAAAGATACTTTTGACCTAAAAGTACCTGATACTCCTAAAAGGGC
1 AAAAATTATAAAAATGCCCT-AGAGATACCTTCGACGTAAAAGTACCTGATACTCCT-AAAGGAC
* * * * * * *
867292 TTTCAAAAGGGATTTTAACTAGGGT-AATCCTACCCTGAATATCCATCTTCGGCATAAAAGCAGA
64 -TTAAAAAAGGATTATAAATAGGGTGAA-CCTATCCTAAATACCCATCTTCGGCATAAAAGCAGA
* * * * * *
867356 CTTGGTGATTACC-TAAGAGTTGGTTCTA
127 CATGGTGA-CACCTTAGGACTCGATTCTA
* * * * *
867384 AGAAATTATAAAAATGCCGCTAGGGGATACCTTCGATGTAAAAGTACCTGATTCTCGTAAAGGAC
1 AAAAATTATAAAAATGCC-CTA-GAGATACCTTCGACGTAAAAGTACCTGATACTCCTAAAGGAC
* * * * *
867449 TT-AAAAAGGATTATAAATAGGGTGAACCTATCCTAAATACCCATATTCGACACAAAAACAGACC
64 TTAAAAAAGGATTATAAATAGGGTGAACCTATCCTAAATACCCATCTTCGGCATAAAAGCAGACA
* * *
867513 CGGTGGCACCTTAGGACTCGATTTTA
129 TGGTGACACCTTAGGACTCGATTCTA
* * * ** **
867539 AAAAATTACAAAAATGCCTCTAGAGATATCTTTGATATAAAAGTATTTGATAC-CTCTAAAGGAC
1 AAAAATTATAAAAATGCC-CTAGAGATACCTTCGACGTAAAAGTACCTGATACTC-CTAAAGGAC
* * * *
867603 TT-AAAAAGTATTATAAATAGGGTGAACCTATCCTAAATACCCA-CATTTGGCATGAAAATGAAC
64 TTAAAAAAGGATTATAAATAGGGTGAACCTATCCTAAATACCCATC-TTCGGCAT-AAAA-GCAG
* * *
867666 CCAGTGGT-A-A-CTTAAGACTTGATTCTA
126 ACA-TGGTGACACCTTAGGACTCGATTCTA
* * * *
867693 AAAAATTACAAAAATACCCTTAAGAGATAACTTCGACATAAAA
1 AAAAATTATAAAAATGCCC-T-AGAGATACCTTCGACGTAAAA
867736 ATATCCGATA
Statistics
Matches: 407, Mismatches: 85, Indels: 34
0.77 0.16 0.06
Matches are distributed among these distances:
153 2 0.00
154 118 0.29
155 146 0.36
156 14 0.03
157 92 0.23
158 35 0.09
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (154 bp):
AAAAATTATAAAAATGCCCTAGAGATACCTTCGACGTAAAAGTACCTGATACTCCTAAAGGACTT
AAAAAAGGATTATAAATAGGGTGAACCTATCCTAAATACCCATCTTCGGCATAAAAGCAGACATG
GTGACACCTTAGGACTCGATTCTA
Found at i:870113 original size:166 final size:166
Alignment explanation
Indices: 869896--870294 Score: 436
Period size: 166 Copynumber: 2.4 Consensus size: 166
869886 AAACTCATAG
* * * *
869896 AAATGAATTAATTTTTTAAAACTGATTTACTATGAATCAAATGAAAATATTTGATGAGTTTTAAA
1 AAATGAATGAATTTTGT-AAACTGATTTAATATGAATCAAATGATAATATTTGATGA-TTTTAAA
* * * *
869961 AA-TCAACAACCAAGAGAAATCC-CCTTGAAAATATTTA-GAGAGTGGAAAACTCCGTATTTT-A
64 AATTCAA-AACCAAGAAAAATCCTCC-TAAAAACATTTACG-GAGTAGAAAACTCCGT-TTTTCA
* * * **
870022 -AAA-ATAAGGAAATTTCAAGG-AAAAAATTGAAATATTTATGA
125 GAAACAGAA--AAATTTCAAGGAAAAAAATTCAAAAACCTATGA
* *
870063 AAAT-AAGTGAATTTTGTAAACTGATTTAATATGAATCAAATGATAATATTTTATGAATTTAAAA
1 AAATGAA-TGAATTTTGTAAACTGATTTAATATGAATCAAATGATAATATTTGATGATTTTAAAA
* *
870127 ATTTAAAACTAAGAAAAATCCTCCTAAAAACATTTACGGAGTAGAAAACTCCGTTTTTCAGAAAC
65 ATTCAAAACCAAGAAAAATCCTCCTAAAAACATTTACGGAGTAGAAAACTCCGTTTTTCAGAAAC
* *
870192 AGAAAAATTTCAAGGAAAAAAATTCAAAAACCTGTGC
130 AGAAAAATTTCAAGGAAAAAAATTCAAAAACCTATGA
* * * *
870229 AAATGAATGAATTTTTGAAAAATGATTTAATATAAATTAAATGATAATATTTGATGAATTTTAAA
1 AAATGAATGAA-TTTTGTAAACTGATTTAATATGAATCAAATGATAATATTTGATG-ATTTTAAA
870294 A
64 A
870295 TTTTAAACTC
Statistics
Matches: 196, Mismatches: 25, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
164 4 0.02
165 58 0.30
166 70 0.36
167 56 0.29
168 8 0.04
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.32
Consensus pattern (166 bp):
AAATGAATGAATTTTGTAAACTGATTTAATATGAATCAAATGATAATATTTGATGATTTTAAAAA
TTCAAAACCAAGAAAAATCCTCCTAAAAACATTTACGGAGTAGAAAACTCCGTTTTTCAGAAACA
GAAAAATTTCAAGGAAAAAAATTCAAAAACCTATGA
Found at i:870297 original size:167 final size:165
Alignment explanation
Indices: 869811--870358 Score: 465
Period size: 165 Copynumber: 3.3 Consensus size: 165
869801 TAGGCTAAAG
* * ** * **
869811 AAAATCTCTCC-AAAAATATTTACAGAGTAGAAAACTCAATTTTTTGAAAAA-AAGGGCATTTCA
1 AAAATC-CTCCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTT-AAAAAGAA-GAAATTTCA
* * * * *
869874 AAG-AAAAA-TCTAAAA-CTCAT-AGAAATGAATTAATTTTTTAAAACTGATTTACTATGAATCA
63 AGGAAAAAATTCAAAAACCT-ATGA-AAATGAATGAATTTTTGAAAACTGATTTAATATGAATCA
* * * * *
869935 AATGAAAATATTTGATGAGTTTTAAAAATCAACAACCAAGA
126 AATGATAATATTTGATGAATTTTAAAATTTAA-AACTAAGA
* * * * *
869976 GAAATCC-CCTTGAAAATATTTA-GAGAGTGGAAAACTCCGTATTTTAAAAATAAGGAAATTTCA
1 AAAATCCTCC-TAAAAAAATTTACG-GAGTAGAAAACTCCGTATTTTAAAAAGAA-GAAATTTCA
* * ** *
870039 AGGAAAAAATTGAAATATTTATGAAAAT-AAGTGAA-TTTTGTAAACTGATTTAATATGAATCAA
63 AGGAAAAAATTCAAAAACCTATGAAAATGAA-TGAATTTTTGAAAACTGATTTAATATGAATCAA
* *
870102 ATGATAATATTTTATGAATTTAAAAATTTAAAACTAAGA
127 ATGATAATATTTGATGAATTTTAAAATTTAAAACTAAGA
*
870141 AAAATCCTCCTAAAAACATTTACGGAGTAGAAAACTCCGT-TTTTCAGAAACAGAA-AAATTTCA
1 AAAATCCTCCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTT-A-AAA-AGAAGAAATTTCA
* * * * *
870204 AGGAAAAAAATTCAAAAACCTGTGCAAATGAATGAATTTTTGAAAAATGATTTAATATAAATTAA
63 AGG-AAAAAATTCAAAAACCTATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAATCAA
* *
870269 ATGATAATATTTGATGAATTTTAAAATTTTAAACTCATG-
127 ATGATAATATTTGATGAATTTTAAAATTTAAAACT-AAGA
* * * * * * *
870308 AAAATCGTCTTGAAAAAAATTTACGAAGAAGAAAACCCCGTAATTTGAAAA
1 AAAATCCTCCT-AAAAAAATTTACGGAGTAGAAAACTCCGTATTTTAAAAA
870359 CAAAAAGAAT
Statistics
Matches: 311, Mismatches: 52, Indels: 39
0.77 0.13 0.10
Matches are distributed among these distances:
163 2 0.01
164 10 0.03
165 94 0.30
166 87 0.28
167 86 0.28
168 29 0.09
169 3 0.01
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (165 bp):
AAAATCCTCCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTTAAAAAGAAGAAATTTCAAGG
AAAAAATTCAAAAACCTATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAATCAAATGA
TAATATTTGATGAATTTTAAAATTTAAAACTAAGA
Found at i:876782 original size:17 final size:17
Alignment explanation
Indices: 876751--876806 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 17
876741 GTCTTGTACA
*
876751 TTAAAATAT-TATTTAT
1 TTAAGATATATATTTAT
876767 TTAAGATATATATTTAAT
1 TTAAGATATATATTT-AT
* *
876785 TTGAG-TAAATATTTAT
1 TTAAGATATATATTTAT
876801 TTAAGA
1 TTAAGA
876807 GAAGAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 14 0.42
17 13 0.39
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (17 bp):
TTAAGATATATATTTAT
Found at i:876866 original size:17 final size:19
Alignment explanation
Indices: 876844--876881 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
876834 AAAGTTTACG
*
876844 AAAAA-TCCTTAC-TGAAA
1 AAAAATTCCATACTTGAAA
876861 AAAAATTCCATACTTGAAA
1 AAAAATTCCATACTTGAAA
876880 AA
1 AA
876882 TTGAAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 6 0.33
19 7 0.39
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAAATTCCATACTTGAAA
Found at i:877847 original size:33 final size:32
Alignment explanation
Indices: 877806--877887 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
877796 TAACTCACTT
* * * *
877806 ACTTGTTTAGAAGGATACAAGTTGGCTCTTTTA
1 ACTTGTTTAGAAGGATAAAAATTGGAT-TCTTA
* * *
877839 ACTTGTTTAAAAGTATAAAAATTTGATTCTTA
1 ACTTGTTTAGAAGGATAAAAATTGGATTCTTA
*
877871 ACTTATTTAGAAGGATA
1 ACTTGTTTAGAAGGATA
877888 TGGGCCAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
32 18 0.46
33 21 0.54
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (32 bp):
ACTTGTTTAGAAGGATAAAAATTGGATTCTTA
Found at i:879965 original size:19 final size:19
Alignment explanation
Indices: 879941--879980 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
879931 TCAACCATTA
879941 AAGATGTTTCCTTCAAGTC
1 AAGATGTTTCCTTCAAGTC
879960 AAGATGTTTCCTTCAAGTC
1 AAGATGTTTCCTTCAAGTC
879979 AA
1 AA
879981 CCGTTAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (19 bp):
AAGATGTTTCCTTCAAGTC
Found at i:884492 original size:13 final size:13
Alignment explanation
Indices: 884474--884500 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
884464 AATTTTTCAG
884474 AATGTATCGATAC
1 AATGTATCGATAC
884487 AATGTATCGATAC
1 AATGTATCGATAC
884500 A
1 A
884501 TGGGTTACTA
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):
AATGTATCGATAC
Found at i:886994 original size:20 final size:19
Alignment explanation
Indices: 886948--887004 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
886938 TTGTATCGAT
* *
886948 ACATTGCATCGATACATGT
1 ACATTGTATCGATACATGC
*
886967 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
886986 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
887005 AAAGTGATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:887249 original size:52 final size:53
Alignment explanation
Indices: 887171--887277 Score: 162
Period size: 52 Copynumber: 2.0 Consensus size: 53
887161 AAGCACCAAT
* * *
887171 CAAGTCAACAACGGTTAGAAATACAATCATTCAACCTCCAACGAGTATGT-AA
1 CAAGTCAACAACGGCTAAAAACACAATCATTCAACCTCCAACGAGTATGTCAA
* *
887223 CAAGTCAACAATGGCTAAAAACACAATCATTCAACCTCCAAGGAGTATGTCAA
1 CAAGTCAACAACGGCTAAAAACACAATCATTCAACCTCCAACGAGTATGTCAA
887276 CA
1 CA
887278 TTCAAGCCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 45 0.92
53 4 0.08
ACGTcount: A:0.43, C:0.24, G:0.13, T:0.20
Consensus pattern (53 bp):
CAAGTCAACAACGGCTAAAAACACAATCATTCAACCTCCAACGAGTATGTCAA
Found at i:897057 original size:17 final size:18
Alignment explanation
Indices: 897025--897075 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
897015 ATGTAATTTT
897025 TAAAATTATAAATAAAAA
1 TAAAATTATAAATAAAAA
*
897043 TAAAA-TATTAATAAAAA
1 TAAAATTATAAATAAAAA
*
897060 TTATAAATAATAAATA
1 -TA-AAATTATAAATA
897076 TAATTTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 11 0.41
18 7 0.26
19 3 0.11
20 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATTATAAATAAAAA
Found at i:897880 original size:2 final size:2
Alignment explanation
Indices: 897875--897920 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
897865 TTTTTTTTAA
897875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
897917 AT AT
1 AT AT
897921 TTGCCTGACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:899959 original size:2 final size:2
Alignment explanation
Indices: 899954--899990 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
899944 TATGTGTGTG
*
899954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
899991 GATTTATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:903162 original size:21 final size:21
Alignment explanation
Indices: 903137--903177 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
903127 TAAAGTAAAA
903137 ATAT-TTAAT-GTATCAATAC
1 ATATATTAATGGTATCAATAC
*
903156 ATATATTATTGGTATCAATAC
1 ATATATTAATGGTATCAATAC
903177 A
1 A
903178 CAAGGTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 4 0.21
21 11 0.58
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (21 bp):
ATATATTAATGGTATCAATAC
Found at i:908219 original size:42 final size:42
Alignment explanation
Indices: 908164--908282 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
908154 TTCTTCTCTC
* *
908164 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
908206 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
908248 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
908283 TTAAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:908223 original size:12 final size:11
Alignment explanation
Indices: 908197--908272 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
908187 TCTATTATCT
*
908197 CTCCTGTCTCTC
1 CTCCTATCTC-C
908209 CTCCTATCATCC
1 CTCCTATC-TCC
908221 CTCCTATCT--
1 CTCCTATCTCC
*
908230 CTACTATCT--
1 CTCCTATCTCC
*
908239 CTCCTGTCTCTC
1 CTCCTATCTC-C
908251 CTCCTATCATCC
1 CTCCTATC-TCC
*
908263 CTCCTCTCTC
1 CTCCTATCTC
908273 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:908224 original size:24 final size:24
Alignment explanation
Indices: 908188--908273 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
908178 CCTCCTCTCT
* *
908188 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
908212 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
908233 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
908254 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
908274 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:908248 original size:18 final size:18
Alignment explanation
Indices: 908179--908249 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
908169 CCTGTCATCC
* *
908179 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
908197 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
908219 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
908239 CTCCTGTCTCT
1 CTCCTGTCTCT
908250 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:909984 original size:13 final size:13
Alignment explanation
Indices: 909966--909990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
909956 ATTTTGCTTA
909966 GTATCGATACATT
1 GTATCGATACATT
909979 GTATCGATACAT
1 GTATCGATACAT
909991 GAAACTAGCA
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:910112 original size:52 final size:52
Alignment explanation
Indices: 910028--910130 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
910018 TTCAAAGTTC
* *
910028 ATCACTATTCATCATTGTTCAGATATCGATACATTATGAATAGTATCGATAT
1 ATCACTATTCATCACTGTTCAGATATCAATACATTATGAATAGTATCGATAT
* * *
910080 ATCACTGTTCATCACTGTTCATG-TATCAATACATTGTGAATAGTATTGATA
1 ATCACTATTCATCACTGTTCA-GATATCAATACATTATGAATAGTATCGATA
910131 CATTGAGTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
52 44 0.98
53 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (52 bp):
ATCACTATTCATCACTGTTCAGATATCAATACATTATGAATAGTATCGATAT
Found at i:914599 original size:20 final size:21
Alignment explanation
Indices: 914565--914605 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
914555 TCAGAATAAA
914565 CTTAACTTAAAAAAATTTAAT
1 CTTAACTTAAAAAAATTTAAT
914586 CTTAACTT-AAAAAATTTAAT
1 CTTAACTTAAAAAAATTTAAT
914606 TCTGTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (21 bp):
CTTAACTTAAAAAAATTTAAT
Found at i:915270 original size:90 final size:89
Alignment explanation
Indices: 915174--915412 Score: 244
Period size: 90 Copynumber: 2.7 Consensus size: 89
915164 CTCTTTGGAG
* * **
915174 GGGATACTCCAACCCCTTCTTTCATAAAAAATCAAACTTTCATTTTATTTTTAAATATTATTGGG
1 GGGATACTCCAACCCCTTC-TTCATAAAAAATCAAACTTTCACTTTATTCTTAAATATTATCAGG
** * ** * *
915239 GAAACTCTGTCCTTACTTTTTCGAA
65 GAAACTCTAACCTCACAATTCCAAA
* ** * * **
915264 GGGATACTCCAATCCCAACATTCATAAAAAAGCAAACTTTCACTTTGTTCTTAAATAAAATCAGG
1 GGGATACTCCAACCCCTTC-TTCATAAAAAATCAAACTTTCACTTTATTCTTAAATATTATCAGG
915329 GAAACTCTAACCTCACAATTCCAAA
65 GAAACTCTAACCTCACAATTCCAAA
* * * * *
915354 GGGATACTCTAGCCCCGTTCTTCGTAAAAAATTAAATTTTCACTTTATTCTTAAATATT
1 GGGATACTCCAACCCC-TTCTTCATAAAAAATCAAACTTTCACTTTATTCTTAAATATT
915413 TACATCTTTG
Statistics
Matches: 117, Mismatches: 31, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
90 116 0.99
91 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (89 bp):
GGGATACTCCAACCCCTTCTTCATAAAAAATCAAACTTTCACTTTATTCTTAAATATTATCAGGG
AAACTCTAACCTCACAATTCCAAA
Found at i:921438 original size:80 final size:79
Alignment explanation
Indices: 921214--921729 Score: 475
Period size: 79 Copynumber: 6.5 Consensus size: 79
921204 TCGATGGTGG
* * * * ** *
921214 AAAATGGATGTTTT-GAAAATAAAA-TCGGGGTTGGAGTATCCTTTCAGAAATAACAAGGTTAGA
1 AAAATCGATGTTTTAG-AAATAAAACT-AGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGA
* *
921277 GTATCTCCGATTATAA
64 GTATCCCCGATTATGA
* * * ** ** * * * *
921293 AAAATTGATGTTTTAGAAATAAAGCCAGGGTTAAAAAATCCCCTCAGAAGTAACGGGGTTAGAGT
1 AAAATCGATGTTTTAGAAATAAAACTAGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGT
*
921358 ATCCCCGATTGTGA
66 ATCCCCGATTATGA
* * *
921372 AAAATCGATGCTTTAGAAATAAAAATCAGGGTTGGAGTATCCCTTCAAAAATAACGGGATTGGAG
1 AAAATCGATGTTTTAGAAATAAAACT-AGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAG
* ** *
921437 TATTCCCGATGGTAA
65 TATCCCCGATTATGA
* * * *
921452 AAAATCGATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGT
1 AAAATCGATGTTTTAGAAATAAAACTAGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGT
* *
921517 ACCCCCGATTGTGA
66 ATCCCCGATTATGA
** * *
921531 AAAATCGATGTTTT-GAAAATAAAACTAGGGTTAAAGTATCTC-TCAGAAATAACGGGGTTGGAG
1 AAAATCGATGTTTTAG-AAATAAAACTAGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAG
* * *
921594 CATCCCCAATTATGG
65 TATCCCCGATTATGA
* * * *
921609 AAACTCGATGTTTT-GAAAATAAAACTAAGGTTGGAATATCCCTTCAAAAATAATGGGGGTTGGA
1 AAAATCGATGTTTTAG-AAATAAAACTAGGGTTGGAGTATCCCTTCAAAAATAA-CGGGGTTGGA
* *
921673 GTATCCTCAATTATGA
64 GTATCCCCGATTATGA
* * * * *
921689 AAAATTGGTGTTTTGGAAATAAAACTGGGGTTAGAGTATCC
1 AAAATCGATGTTTTAGAAATAAAACTAGGGTTGGAGTATCC
921730 TCGATTGTGA
Statistics
Matches: 357, Mismatches: 73, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
78 67 0.19
79 171 0.48
80 118 0.33
81 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (79 bp):
AAAATCGATGTTTTAGAAATAAAACTAGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGT
ATCCCCGATTATGA
Found at i:921453 original size:159 final size:158
Alignment explanation
Indices: 921205--921593 Score: 428
Period size: 159 Copynumber: 2.5 Consensus size: 158
921195 GTACATTCCT
* * * * * *
921205 CGATGGTGGAAAATGGATGTTTTGAAAAT-AAAATCGGGGTTGGAGTATCCTTTCAGAAATAACA
1 CGATTGTGAAAAATCGATGTTTAGAAAATAAAAATCAGGGTTGGAGTATCCCTTCAGAAATAAC-
* * * * * *
921269 AGGTTAGAGTATCTCCGATTATAAAAAATTGATGTTTTAGAAATAAAGCCAGGGTTAAAAAATCC
65 GGGTTGGAGTATCTCCGATGATAAAAAATCGATATTTTAGAAATAAAACCAGGGTTAAAAAATCC
* * *
921334 CCTCAGAAGTAACGGGGTTAGAGTATCCC
130 CCTCAAAAATAACGGGGTTAGAGTACCCC
*
921363 CGATTGTGAAAAATCGATGCTTTAG-AAATAAAAATCAGGGTTGGAGTATCCCTTCAAAAATAAC
1 CGATTGTGAAAAATCGATG-TTTAGAAAATAAAAATCAGGGTTGGAGTATCCCTTCAGAAATAAC
* * ** ** **
921427 GGGATTGGAGTAT-TCCCGATGGTAAAAAATCGATATTTTGGAAATAAAACTGGGGTTGGAGTAT
65 GGG-TTGGAGTATCT-CCGATGATAAAAAATCGATATTTTAGAAATAAAACCAGGGTTAAAAAAT
*
921491 CCCCTCAAAAATAACGGGGTTGGAGTACCCC
128 CCCCTCAAAAATAACGGGGTTAGAGTACCCC
* * ** *
921522 CGATTGTGAAAAATCGATGTTTTGAAAATAAAACT-AGGGTTAAAGTATCTC-TCAGAAATAACG
1 CGATTGTGAAAAATCGATGTTTAGAAAATAAAAATCAGGGTTGGAGTATCCCTTCAGAAATAAC-
921585 GGGTTGGAG
65 GGGTTGGAG
921594 CATCCCCAAT
Statistics
Matches: 194, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
157 16 0.08
158 43 0.22
159 135 0.70
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (158 bp):
CGATTGTGAAAAATCGATGTTTAGAAAATAAAAATCAGGGTTGGAGTATCCCTTCAGAAATAACG
GGTTGGAGTATCTCCGATGATAAAAAATCGATATTTTAGAAATAAAACCAGGGTTAAAAAATCCC
CTCAAAAATAACGGGGTTAGAGTACCCC
Found at i:921730 original size:51 final size:51
Alignment explanation
Indices: 921664--921763 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
921654 AAAAATAATG
* ** *
921664 GGGGTTGGAGTATCCTCAATTATGAAAAATTGGTGTTTTGGAAATAAAACT
1 GGGGTTAGAGTATCCTCAATTATGAAAAATCAGTGTTTTGAAAATAAAACT
* *
921715 GGGGTTAGAGTATCCTCGATTGTGAAAAATCAGTGTTTTGAAAATAAAA
1 GGGGTTAGAGTATCCTCAATTATGAAAAATCAGTGTTTTGAAAATAAAA
921764 TCGAGATTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.32
Consensus pattern (51 bp):
GGGGTTAGAGTATCCTCAATTATGAAAAATCAGTGTTTTGAAAATAAAACT
Found at i:921777 original size:51 final size:51
Alignment explanation
Indices: 921668--921780 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
921658 ATAATGGGGG
** * * *
921668 TTGGAGTATCCTCAATTATGAAAAATTGGTGTTTTGGAAATAAAACTGGGG
1 TTGGAGTATCCTCAATTATGAAAAATCAGTGTTTTGAAAATAAAACTGAGA
* * *
921719 TTAGAGTATCCTCGATTGTGAAAAATCAGTGTTTTGAAAATAAAA-TCGAGA
1 TTGGAGTATCCTCAATTATGAAAAATCAGTGTTTTGAAAATAAAACT-GAGA
921770 TTGGAGTATCC
1 TTGGAGTATCC
921781 CCTCGGTAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 1 0.02
51 51 0.98
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (51 bp):
TTGGAGTATCCTCAATTATGAAAAATCAGTGTTTTGAAAATAAAACTGAGA
Found at i:924289 original size:50 final size:49
Alignment explanation
Indices: 924202--924368 Score: 217
Period size: 50 Copynumber: 3.3 Consensus size: 49
924192 ATAAATTGAG
* * *
924202 AAATATATCGATACATTATGGGTTAAAACCCAGAATGTATTGATACAATAA
1 AAATGTATCGATACA-TCTGGG-TAAAACCCAGAATGTATCGATACAATAA
*
924253 AAATTGTATAGATACATCTGGGTAAAACCCAGAATGTATCGATACAATAAA
1 AAA-TGTATCGATACATCTGGGTAAAACCCAGAATGTATCGATACAAT-AA
* * * *
924304 AAATGTATCGATACATCTAGGTAAAACCCGGAACGTATCGATATAATGAA
1 AAATGTATCGATACATCTGGGTAAAACCCAGAATGTATCGATACAAT-AA
924354 AAATGTATCGATACA
1 AAATGTATCGATACA
924369 AATTGTGAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
50 81 0.78
51 13 0.12
52 10 0.10
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (49 bp):
AAATGTATCGATACATCTGGGTAAAACCCAGAATGTATCGATACAATAA
Found at i:926123 original size:20 final size:18
Alignment explanation
Indices: 926087--926134 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
926077 TGTTAACTTG
*
926087 AATTTTAATTTTTTATTC
1 AATTTTAATTTTGTATTC
*
926105 AATTTTAATATTTGGTATTT
1 AATTTTAAT-TTT-GTATTC
*
926125 AATTATAATT
1 AATTTTAATT
926135 CCTATATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 9 0.36
19 4 0.16
20 12 0.48
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (18 bp):
AATTTTAATTTTGTATTC
Found at i:927197 original size:152 final size:153
Alignment explanation
Indices: 926786--927306 Score: 425
Period size: 152 Copynumber: 3.4 Consensus size: 153
926776 TATCCCTTGG
* * ** * ** * *
926786 GGTATACCTTCGACGTG-AAGTATCCTAATAATCCTAAAGGACATGAAAAT-AT-TGTAAATATA
1 GGTATACCTTTGACGAGAAAGTA-CCTCGTAAGCCTAAAGGACATGAAAATAATATAAAAAGATG
* * * * * * * * * * **
926848 AACCTATCCTAAACGTATACCTTTC-GCATAAAAACGACCCAGTGACTACTTTGGACTCGATTCC
65 AACCTATCCTAAATGTACACC-TCCAACATAAAAGCAACCCGGTGACTACCTAGGACTAGATTTT
**
926912 AAAAAAATTAGTAAAATGCTCCTAA
129 AAAAAAATTACCAAAATGCTCCTAA
* * * * *
926937 GGTATACCTTCGA-TATGAAAGTA-CTCGCTAAGCCTAAAAGACACGAAAATATTATAAAAAGAT
1 GGTATACCTTTGACGA-GAAAGTACCTCG-TAAGCCTAAAGGACATGAAAATAATATAAAAAGAT
* ** ** * *
927000 GCACCTATCCTAAATGTACACCTTTAGTATAAAAGCAACCCGGTGACTACCTATGACTTGATTTT
64 GAACCTATCCTAAATGTACACCTCCAACATAAAAGCAACCCGGTGACTACCTAGGACTAGATTTT
* *
927065 -AGAAAATTACCAAAATTCTCCTAA
129 AAAAAAATTACCAAAATGCTCCTAA
927089 GGTATACCTTTGACGAGAAAGTACCTCGTAA-CCTTAAAGGACATGAAAATAATATAAAAAGATG
1 GGTATACCTTTGACGAGAAAGTACCTCGTAAGCC-TAAAGGACATGAAAATAATATAAAAAGATG
* ** **
927153 AACCTATCTTAAATGT-CTACCTCCAACATAAAAGTGACTTGGTGACTACCTAGGACTAGATTTT
65 AACCTATCCTAAATGTAC-ACCTCCAACATAAAAGCAACCCGGTGACTACCTAGGACTAGATTTT
*
927217 AAAAAAAAATACCAAAATGC-CCTTAA
129 -AAAAAAATTACCAAAATGCTCC-TAA
** * * * * * * *
927243 GGTATATGTTTGACGTGAAAATACCTAGTAATCCTAGAGGACATG-AAATGATATAAAAGGATGA
1 GGTATACCTTTGACGAGAAAGTACCTCGTAAGCCTAAAGGACATGAAAATAATATAAAAAGATGA
927307 CTTTTACCCC
Statistics
Matches: 298, Mismatches: 58, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
150 2 0.01
151 36 0.12
152 127 0.43
153 77 0.26
154 54 0.18
155 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (153 bp):
GGTATACCTTTGACGAGAAAGTACCTCGTAAGCCTAAAGGACATGAAAATAATATAAAAAGATGA
ACCTATCCTAAATGTACACCTCCAACATAAAAGCAACCCGGTGACTACCTAGGACTAGATTTTAA
AAAAATTACCAAAATGCTCCTAA
Found at i:927524 original size:13 final size:13
Alignment explanation
Indices: 927506--927535 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
927496 AAGGAAATTT
927506 TATTATATATATA
1 TATTATATATATA
*
927519 TATTATCTATATA
1 TATTATATATATA
927532 TATT
1 TATT
927536 TTTTAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTATATATATA
Found at i:935137 original size:21 final size:23
Alignment explanation
Indices: 935113--935163 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
935103 TTCTCTCATT
935113 TTCTCTCACTCTTCC-ATC-TT-C
1 TTCTCTC-CTCTTCCTATCATTCC
935134 TTCTCTCCTCTTCCTATCATTCC
1 TTCTCTCCTCTTCCTATCATTCC
935157 TTCTCTC
1 TTCTCTC
935164 TCTATTATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.26
21 10 0.37
22 2 0.07
23 8 0.30
ACGTcount: A:0.08, C:0.43, G:0.00, T:0.49
Consensus pattern (23 bp):
TTCTCTCCTCTTCCTATCATTCC
Found at i:935194 original size:42 final size:42
Alignment explanation
Indices: 935129--935248 Score: 129
Period size: 42 Copynumber: 2.8 Consensus size: 42
935119 CACTCTTCCA
* *
935129 TCTTCT-TCTCTCCTCTTCCTATCATTCCTTCTCTCTCTATTATC
1 TCTTCTATCTCT-C-CTT-CTATCATTCCTTCTATCTCTACTATC
935173 TCTTCTATCTCTCCTTCTATCA-TCCTTTCTATCTCTACTATC
1 TCTTCTATCTCTCCTTCTATCATTCC-TTCTATCTCTACTATC
* * *
935215 TCTCCTATCTC-CCCTCATATCATCCCTTCTATCT
1 TCTTCTATCTCTCCTTC-TATCATTCCTTCTATCT
935249 TTTCTTTGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
41 7 0.10
42 43 0.64
43 5 0.07
44 7 0.10
45 5 0.07
ACGTcount: A:0.12, C:0.39, G:0.00, T:0.48
Consensus pattern (42 bp):
TCTTCTATCTCTCCTTCTATCATTCCTTCTATCTCTACTATC
Found at i:936025 original size:25 final size:25
Alignment explanation
Indices: 935997--936044 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
935987 AAATTCTGGT
935997 TTTTCCTCTCTTTTTGTATTCTTTC
1 TTTTCCTCTCTTTTTGTATTCTTTC
** * *
936022 TTTTTTTTTTTTTTTGTATTCTT
1 TTTTCCTCTCTTTTTGTATTCTT
936045 GAAAACAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (25 bp):
TTTTCCTCTCTTTTTGTATTCTTTC
Found at i:937511 original size:682 final size:682
Alignment explanation
Indices: 936200--937562 Score: 2294
Period size: 682 Copynumber: 2.0 Consensus size: 682
936190 AACCATGATC
* *
936200 CAAGGTTTCCTAAATAATGATCTTGAGATGAATTTCTAACAATAAACAGAATTATTAATGAAAGA
1 CAAGGTTGCCTAAATAATGATCTTGAGATGAATTTCTAACAACAAACAGAATTATTAATGAAAGA
*
936265 ATAGAAATTGAAAGAAGCAGAAAAAATAACAAAATTGGAATAGATTAGACATGAAGAATGGTGCC
66 ATAGAAATTGAAAGAAGCAGAAAAAATAACAAAATTGGAATAGATTAGACATGAAGAATGGCGCC
936330 ACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTAGCCTCATGATAAGAT
131 ACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTAGCCTCATGATAAGAT
* * * *
936395 CTAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTTACACAAAATGTGTTTAATTTGC
196 CCAAAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACAAAATGTGTTTAATCTGC
* * * *
936460 AAATATCAATGTCTATCCCTTTCAAAATCTGTTTATAAGAGTTTATATATGCCCTCATAAGCCAT
261 AAATATCAATGTCTACCCCCTTCAAAATCTATTTACAAGAGTTTATATATGCCCTCATAAGCCAT
* *
936525 AGTTAACACAAACCCTAAGGGGCTTATTGTGCTAACAAGCCCAACTCTTAGTTAAACCTAAATAA
326 AGTTAACACAAACCCTAAGGGGCTTATTATGCTAACAAGCCCAACTCTTAGTTAAACCCAAATAA
936590 CAAGTTTTTTATGCTAAATAAAGCCCAAAGTAAGCCACAACCAGCAGGCCATTTATTACAAAATA
391 CAAGTTTTTTATGCTAAATAAAGCCCAAAGTAAGCCACAACCAGCAGGCCATTTATTACAAAATA
**
936655 ACCCAAGTCCTAATTCAATCCATTGGAGCTTATATCTTCCAAATATATGCAATTAACCAGCTTGG
456 ACCCAAGTCCTAATTCAATCCATTGGAGCCCATATCTTCCAAATATATGCAATTAACCAGCTTGG
936720 GCTCTTCAAACTCCAAATTGCATCTACTTTCAAATAGGGCAACAACCATCTTCTCTAGGTCTTCC
521 GCTCTTCAAACTCCAAATTGCATCTACTTTCAAATAGGGCAACAACCATCTTCTCTAGGTCTTCC
* ** *
936785 TTTATCCTCTTTGCCTTTGCCCTTGTCATTGGTCCTTAAAACCTTTCCAATGCCTTCAGATCGTT
586 TTTATCCTCTTTCCCTTTGCCCGCGTCATTAGTCCTTAAAACCTTTCCAATGCCTTCAGATCGTT
* *
936850 ATTTTCAGTAGACCTTCCTTGGTTCTCATCAA
651 ATCTTCAATAGACCTTCCTTGGTTCTCATCAA
* *
936882 CAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAACAAATAGAATTATTAATGAAAGA
1 CAAGGTTGCCTAAATAATGATCTTGAGATGAATTTCTAACAACAAACAGAATTATTAATGAAAGA
* * * *
936947 ATAGATATTGAAAGAAGCAGAAAAAATAACAAATTTGGAATAGATTAGAGATGAAGGATGGCGCC
66 ATAGAAATTGAAAGAAGCAGAAAAAATAACAAAATTGGAATAGATTAGACATGAAGAATGGCGCC
* * *
937012 ACAATCATAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGAT
131 ACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTAGCCTCATGATAAGAT
937077 CCAAAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACAAAATGTGTTTAATCTGC
196 CCAAAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACAAAATGTGTTTAATCTGC
* *
937142 AAATATCAATGTCTGCCCCCTTCCAAATCTATTTACAAGAGTTTATATATGCCCTCATAAGCCAT
261 AAATATCAATGTCTACCCCCTTCAAAATCTATTTACAAGAGTTTATATATGCCCTCATAAGCCAT
*
937207 AGTTAACACAAACCCTAAGGGGCTTATTATGCTAACAAGTCCAACTCTTAGTTAAACCCAAATAA
326 AGTTAACACAAACCCTAAGGGGCTTATTATGCTAACAAGCCCAACTCTTAGTTAAACCCAAATAA
* *
937272 CAAGTTTTTTATGCTAAATAAAGCCTAAAGTAAGCTACAACCAGCAGGCCATTTATTACAAAATA
391 CAAGTTTTTTATGCTAAATAAAGCCCAAAGTAAGCCACAACCAGCAGGCCATTTATTACAAAATA
* *
937337 ACCCAAGTCCTAATTCAATCCATTGGAGCCCATATCTTCCAAATATATGCAATTGACTAGCTTGG
456 ACCCAAGTCCTAATTCAATCCATTGGAGCCCATATCTTCCAAATATATGCAATTAACCAGCTTGG
* * ** * *
937402 GCTCTTCTAACTCTAAATTGGGTCTACTTTCAAATAGGGCAGCAACCATCTTCTCTAGGTCTTCT
521 GCTCTTCAAACTCCAAATTGCATCTACTTTCAAATAGGGCAACAACCATCTTCTCTAGGTCTTCC
* * *
937467 TTTATCCTCTTTCCCTTTGCCCGCGTCATTAGTCCTTGAAACCTTTCTAATGCCTTCAGGTCGTT
586 TTTATCCTCTTTCCCTTTGCCCGCGTCATTAGTCCTTAAAACCTTTCCAATGCCTTCAGATCGTT
* *
937532 GTCTTCAATGGACCTTCCTTGGTTCTCATCA
651 ATCTTCAATAGACCTTCCTTGGTTCTCATCA
937563 GTATGTGTAT
Statistics
Matches: 633, Mismatches: 48, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
682 633 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (682 bp):
CAAGGTTGCCTAAATAATGATCTTGAGATGAATTTCTAACAACAAACAGAATTATTAATGAAAGA
ATAGAAATTGAAAGAAGCAGAAAAAATAACAAAATTGGAATAGATTAGACATGAAGAATGGCGCC
ACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTAGCCTCATGATAAGAT
CCAAAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACAAAATGTGTTTAATCTGC
AAATATCAATGTCTACCCCCTTCAAAATCTATTTACAAGAGTTTATATATGCCCTCATAAGCCAT
AGTTAACACAAACCCTAAGGGGCTTATTATGCTAACAAGCCCAACTCTTAGTTAAACCCAAATAA
CAAGTTTTTTATGCTAAATAAAGCCCAAAGTAAGCCACAACCAGCAGGCCATTTATTACAAAATA
ACCCAAGTCCTAATTCAATCCATTGGAGCCCATATCTTCCAAATATATGCAATTAACCAGCTTGG
GCTCTTCAAACTCCAAATTGCATCTACTTTCAAATAGGGCAACAACCATCTTCTCTAGGTCTTCC
TTTATCCTCTTTCCCTTTGCCCGCGTCATTAGTCCTTAAAACCTTTCCAATGCCTTCAGATCGTT
ATCTTCAATAGACCTTCCTTGGTTCTCATCAA
Found at i:939429 original size:28 final size:28
Alignment explanation
Indices: 939371--939451 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
939361 ATTAATAAAT
* * *
939371 AAGAAAAATCAAA-GAAGTGAAATCAA-T
1 AAGAAATATCAAAGGAAGAGAAAT-AAGC
* *
939398 AAGAAATATGAAGGGAA-ACGAAATAAGC
1 AAGAAATATCAAAGGAAGA-GAAATAAGC
939426 AAGAAATATCAAAGGAAGAGAAATAA
1 AAGAAATATCAAAGGAAGAGAAATAA
939452 ATGAAGAGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
27 12 0.28
28 30 0.70
29 1 0.02
ACGTcount: A:0.62, C:0.06, G:0.20, T:0.12
Consensus pattern (28 bp):
AAGAAATATCAAAGGAAGAGAAATAAGC
Found at i:950050 original size:12 final size:11
Alignment explanation
Indices: 950028--950103 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
950018 AGAGAAAGAA
*
950028 GAGAGAGGAGG
1 GAGATAGGAGG
950039 GATGATAGGAGG
1 GA-GATAGGAGG
*
950051 AGAGACAGGA--
1 -GAGATAGGAGG
*
950061 GAGATAGTA--
1 GAGATAGGAGG
950070 GAGATAGGAGG
1 GAGATAGGAGG
950081 GATGATAGGAGG
1 GA-GATAGGAGG
*
950093 AGAGACAGGAG
1 -GAGATAGGAG
950104 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:950060 original size:24 final size:24
Alignment explanation
Indices: 950027--950112 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
950017 AAGAGAAAGA
*
950027 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
950051 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
950069 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
950093 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
950113 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:950079 original size:42 final size:42
Alignment explanation
Indices: 950018--950136 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
950008 TAGCCCTCAA
* *
950018 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
950060 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
950102 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
950137 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:955195 original size:12 final size:12
Alignment explanation
Indices: 955178--955206 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
955168 TAACATCATG
955178 TGATTTAGAAGA
1 TGATTTAGAAGA
955190 TGATTTAGAAGA
1 TGATTTAGAAGA
955202 TGATT
1 TGATT
955207 CAGATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (12 bp):
TGATTTAGAAGA
Found at i:956358 original size:28 final size:27
Alignment explanation
Indices: 956284--956365 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 27
956274 GATAAATAAG
* *
956284 AAATATCAAGGAAGTGAAATCAACAAG
1 AAATATCAAGGAAGAGAAATCAACAAC
* *
956311 AAATATGAAAAGAA-ATGAAAT-AAGCAAC
1 AAATAT-CAAGGAAGA-GAAATCAA-CAAC
*
956339 AAATATCAGAGGAAGAGAAATTAACAA
1 AAATATCA-AGGAAGAGAAATCAACAA
956366 AGGGGAATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
27 9 0.21
28 31 0.72
29 3 0.07
ACGTcount: A:0.60, C:0.09, G:0.17, T:0.15
Consensus pattern (27 bp):
AAATATCAAGGAAGAGAAATCAACAAC
Found at i:969393 original size:9 final size:9
Alignment explanation
Indices: 969358--969399 Score: 52
Period size: 8 Copynumber: 4.9 Consensus size: 9
969348 TTGGTGCATA
969358 TATCATTAC
1 TATCATTAC
969367 -ATCATTAC
1 TATCATTAC
*
969375 -ATCATAAC
1 TATCATTAC
*
969383 TATCATGAC
1 TATCATTAC
969392 TATCATTA
1 TATCATTA
969400 TTTTGGGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 15 0.52
9 14 0.48
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (9 bp):
TATCATTAC
Found at i:977803 original size:12 final size:13
Alignment explanation
Indices: 977774--977806 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
977764 AAGTGGAGAG
977774 AAAAAAAGAAAAT
1 AAAAAAAGAAAAT
*
977787 AAAAAGAGAAAAT
1 AAAAAAAGAAAAT
977800 AAAAAAA
1 AAAAAAA
977807 CACTAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAAAGAAAAT
Found at i:979661 original size:20 final size:20
Alignment explanation
Indices: 979636--979689 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
979626 TTTTGAAGCA
* *
979636 ATGTATCGATACAATTTATC
1 ATGTATCGATACAATGTACC
*
979656 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTACC
979676 ATGTATCGATACAA
1 ATGTATCGATACAA
979690 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:979747 original size:20 final size:19
Alignment explanation
Indices: 979722--979770 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
979712 TAGTTTCATA
**
979722 TATCGATACAATTGTGCATG
1 TATCGATACAA-TGAACATG
*
979742 TATCGATATAATGAACATG
1 TATCGATACAATGAACATG
979761 TATCGATACA
1 TATCGATACA
979771 TCTAGATGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:986729 original size:12 final size:11
Alignment explanation
Indices: 986707--986782 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
986697 AGAGAAAGAA
*
986707 GAGAGAGGAGG
1 GAGATAGGAGG
986718 GATGATAGGAGG
1 GA-GATAGGAGG
*
986730 AGAGACAGGA--
1 -GAGATAGGAGG
*
986740 GAGATAGTA--
1 GAGATAGGAGG
986749 GAGATAGGAGG
1 GAGATAGGAGG
986760 GATGATAGGAGG
1 GA-GATAGGAGG
*
986772 AGAGACAGGAG
1 -GAGATAGGAG
986783 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:986739 original size:24 final size:24
Alignment explanation
Indices: 986706--986791 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
986696 AAGAGAAAGA
*
986706 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
986730 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
986748 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
986772 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
986792 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:986758 original size:42 final size:42
Alignment explanation
Indices: 986697--986815 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
986687 TAGCCCTCAA
* *
986697 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
986739 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
986781 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
986816 GAGAGAATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:992228 original size:20 final size:19
Alignment explanation
Indices: 992203--992256 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
992193 CTGCCAGTTT
**
992203 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
992223 CATGTATCGATATAATGAA
1 CATGTATCGATACAATGAA
*
992242 CGTGTATCGATACAA
1 CATGTATCGATACAA
992257 AGTATAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:996800 original size:16 final size:16
Alignment explanation
Indices: 996781--996820 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
996771 AAGAGGGGTC
996781 AAAAAAATAAAAAGAA
1 AAAAAAATAAAAAGAA
*
996797 AAAAAAATCAAAAGAA
1 AAAAAAATAAAAAGAA
996813 ATAAAAAA
1 A-AAAAAA
996821 AGTCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.85, C:0.03, G:0.05, T:0.07
Consensus pattern (16 bp):
AAAAAAATAAAAAGAA
Found at i:996818 original size:19 final size:18
Alignment explanation
Indices: 996781--996833 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 18
996771 AAGAGGGGTC
*
996781 AAAAAAAT-AAAAAGA-A
1 AAAAAAATCAAAAAAATA
996797 AAAAAAATCAAAAGAAATA
1 AAAAAAATCAAAA-AAATA
*
996816 AAAAAAGTCAAAAAAATA
1 AAAAAAATCAAAAAAATA
996834 TATGAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 8 0.25
17 4 0.12
18 7 0.22
19 13 0.41
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (18 bp):
AAAAAAATCAAAAAAATA
Found at i:996820 original size:28 final size:27
Alignment explanation
Indices: 996782--996859 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
996772 AGAGGGGTCA
996782 AAAAAATAAAAAGAAAAAAAAATCAAAAG
1 AAAAAA-AAAAAGAAAAAAAAAT-AAAAG
* ** * *
996811 AAATAAAAAAAGTCAAAAAAATATATG
1 AAAAAAAAAAAGAAAAAAAAATAAAAG
996838 AAAAAAAAATCAAGAAAAAAAA
1 AAAAAAAAA--AAGAAAAAAAA
996860 GAAAATAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 11 0.28
28 14 0.36
29 14 0.36
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.10
Consensus pattern (27 bp):
AAAAAAAAAAAGAAAAAAAAATAAAAG
Found at i:997734 original size:28 final size:28
Alignment explanation
Indices: 997694--997754 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
997684 TTTATGTCAT
* * *
997694 ATCCCCAATGGAGTCTGGATAACCTGCA
1 ATCCCCAATGGAGCCTGGACAACCTACA
*
997722 ATCCCCAATGGAGCCTTGACAACCTACA
1 ATCCCCAATGGAGCCTGGACAACCTACA
997750 ATCCC
1 ATCCC
997755 TAGTGGAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (28 bp):
ATCCCCAATGGAGCCTGGACAACCTACA
Found at i:998107 original size:14 final size:13
Alignment explanation
Indices: 998090--998154 Score: 62
Period size: 14 Copynumber: 4.9 Consensus size: 13
998080 GTCAAAGTGC
*
998090 CATTATCAAGAAA
1 CATTGTCAAGAAA
*
998103 TCATTGTTAAGAAA
1 -CATTGTCAAGAAA
998117 CTATTGTCAAG-AA
1 C-ATTGTCAAGAAA
998130 CATTTGTC-AGAAA
1 CA-TTGTCAAGAAA
*
998143 CTTTGTCAAGAA
1 CATTGTCAAGAA
998155 TTTTGTCAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
12 8 0.19
13 16 0.37
14 19 0.44
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (13 bp):
CATTGTCAAGAAA
Found at i:998138 original size:13 final size:12
Alignment explanation
Indices: 998095--998176 Score: 67
Period size: 12 Copynumber: 6.3 Consensus size: 12
998085 AGTGCCATTA
998095 TCAAGAAATCATTG
1 TCAAGAAAT--TTG
*
998109 TTAAGAAACTATTG
1 TCAAGAAA-T-TTG
998123 TCAAGAACATTTG
1 TCAAGAA-ATTTG
998136 TC-AGAAACTTTG
1 TCAAGAAA-TTTG
*
998148 TCAAGAATTTTG
1 TCAAGAAATTTG
*
998160 TCAAGAACTTATG
1 TCAAGAAATT-TG
998173 TCAA
1 TCAA
998177 AACCCTTTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
11 1 0.02
12 23 0.39
13 15 0.25
14 18 0.31
15 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (12 bp):
TCAAGAAATTTG
Found at i:998147 original size:12 final size:12
Alignment explanation
Indices: 998115--998176 Score: 72
Period size: 12 Copynumber: 4.9 Consensus size: 12
998105 ATTGTTAAGA
998115 AACTATTGTCAAG
1 AACT-TTGTCAAG
998128 AACATTTGTC-AG
1 AAC-TTTGTCAAG
998140 AAACTTTGTCAAG
1 -AACTTTGTCAAG
*
998153 AATTTTGTCAAG
1 AACTTTGTCAAG
998165 AACTTATGTCAA
1 AACTT-TGTCAA
998177 AACCCTTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
12 23 0.53
13 19 0.44
14 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (12 bp):
AACTTTGTCAAG
Found at i:1005477 original size:82 final size:80
Alignment explanation
Indices: 1005338--1005492 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 80
1005328 CTAAACAAGA
* *
1005338 ACAATCCTATCCAATAAGGAAAAGTCTATTCCTTATCCTAATATGATTAGGACTTATCTAAACAA
1 ACAATCCTATCCAATAAGGAAAAGTCTATTCCTTATCCTAATATGATTAGAAATTATCTAAACAA
*
1005403 CTTAAAATCCTAAAC
66 ATTAAAATCCTAAAC
*
1005418 ACAATCCTAAT-CAATAAGGATAAAGTCTAACTT-CTTATCAC-AATCTGATTAGAAATTATCTA
1 ACAATCCT-ATCCAATAAGGA-AAAGTCT-A-TTCCTTATC-CTAATATGATTAGAAATTATCTA
1005480 AACAAATTAAAAT
61 AACAAATTAAAAT
1005493 TGAAAGGTCA
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
80 17 0.26
81 9 0.14
82 37 0.56
83 3 0.05
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (80 bp):
ACAATCCTATCCAATAAGGAAAAGTCTATTCCTTATCCTAATATGATTAGAAATTATCTAAACAA
ATTAAAATCCTAAAC
Found at i:1065937 original size:18 final size:18
Alignment explanation
Indices: 1065907--1065953 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1065897 CATTTTTTCT
1065907 CTCCTC-CTCCTATCATCC
1 CTCCTCTCT-CTATCATCC
* *
1065925 CTCCTCTCTCTATTATCT
1 CTCCTCTCTCTATCATCC
*
1065943 CTCCTATCTCT
1 CTCCTCTCTCT
1065954 CGTTCTGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.11, C:0.47, G:0.00, T:0.43
Consensus pattern (18 bp):
CTCCTCTCTCTATCATCC
Found at i:1065950 original size:9 final size:9
Alignment explanation
Indices: 1065938--1066019 Score: 50
Period size: 9 Copynumber: 9.8 Consensus size: 9
1065928 CTCTCTCTAT
1065938 TATCTCTCC
1 TATCTCTCC
*
1065947 TATCTCTCG
1 TATCTCTCC
*
1065956 T-TCTGT-C
1 TATCTCTCC
* *
1065963 -ATCTGTTC
1 TATCTCTCC
**
1065971 TATCTCTAT
1 TATCTCTCC
1065980 TATCTCTCC
1 TATCTCTCC
1065989 TATCTCTCC
1 TATCTCTCC
*
1065998 T-TCTAT-C
1 TATCTCTCC
*
1066005 -ATCCCTCC
1 TATCTCTCC
1066013 TATCTCT
1 TATCTCT
1066020 TCTTTCTCTT
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
7 9 0.16
8 10 0.18
9 36 0.65
ACGTcount: A:0.12, C:0.37, G:0.04, T:0.48
Consensus pattern (9 bp):
TATCTCTCC
Found at i:1066028 original size:42 final size:42
Alignment explanation
Indices: 1065910--1066019 Score: 157
Period size: 42 Copynumber: 2.6 Consensus size: 42
1065900 TTTTTCTCTC
* *
1065910 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTTCTATCATCCCTCCTATCTCTATTATCTCTCCTATCT
* * ** *
1065952 CTCGTTCTGTCATCTGTTCTATCTCTATTATCTCTCCTATCT
1 CTCCTTCTATCATCCCTCCTATCTCTATTATCTCTCCTATCT
1065994 CTCCTTCTATCATCCCTCCTATCTCT
1 CTCCTTCTATCATCCCTCCTATCTCT
1066020 TCTTTCTCTT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.12, C:0.40, G:0.03, T:0.45
Consensus pattern (42 bp):
CTCCTTCTATCATCCCTCCTATCTCTATTATCTCTCCTATCT
Found at i:1073002 original size:158 final size:157
Alignment explanation
Indices: 1072834--1073126 Score: 356
Period size: 157 Copynumber: 1.9 Consensus size: 157
1072824 CCAAAGCTTT
* * *
1072834 AATACCTTGTATCCAAATAAGAG-GAACATGTGTTCGTTG-CTCAATCACAAAAAGACCAGAATT
1 AATACCTTGTATCCAAA-AAGAGAGAACATGTGTTCGTAGCCT-AATCACAAAAACAACAG-ATT
* * * *
1072897 ATTACGAGAATTCATGTATGTCTCATTTGGTAGACGAACTTTGATTCTAAGGGAAATGGCGAAAA
63 ATTACGAGAATGCATGTATATCTCATTTGATAGACGAACTTTGATTCTAAGGAAAATGGCGAAAA
1072962 GAAAAGCTTTTCCAATGATACCAATGCATC
128 GAAAAGCTTTTCCAATGATACCAATGCATC
* * * * * * *
1072992 AATATCTTGTATCCAAACAGGGAGAACATGTTTTTGTAGCCTAATCACAAAAACAATAGTTTATT
1 AATACCTTGTATCCAAAAAGAGAGAACATGTGTTCGTAGCCTAATCACAAAAACAACAGATTATT
* * * * * * *
1073057 ACTAGAATGCATGTTTATCTCATTTGATAGATGAATTTTGATTCTATGTAAAATGGTGAAAAGAA
66 ACGAGAATGCATGTATATCTCATTTGATAGACGAACTTTGATTCTAAGGAAAATGGCGAAAAGAA
1073122 AAGCT
131 AAGCT
1073127 CTTCTTGGGA
Statistics
Matches: 112, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
157 67 0.60
158 43 0.38
159 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (157 bp):
AATACCTTGTATCCAAAAAGAGAGAACATGTGTTCGTAGCCTAATCACAAAAACAACAGATTATT
ACGAGAATGCATGTATATCTCATTTGATAGACGAACTTTGATTCTAAGGAAAATGGCGAAAAGAA
AAGCTTTTCCAATGATACCAATGCATC
Found at i:1073201 original size:157 final size:157
Alignment explanation
Indices: 1072842--1073192 Score: 339
Period size: 157 Copynumber: 2.2 Consensus size: 157
1072832 TTAATACCTT
* * * * * * ** *
1072842 GTATCCAAATAA-GAGGAACATGTGTTCGTTGCTCAATCACAAAAAGACCAGAATTATTACGAGA
1 GTATCCAAACAAGGA-GAACATGTTTTGGTAGCCCAATCACAAAAACAATAG-TTTATTACGAGA
* * * * *
1072906 ATTCATGTATGTCTCATTTGGTAGACGAACTTTGATTCTAAGGGAAATGGCGAAAAGAAAAGCTT
64 ATGCATGTATATCTCATTTGATAGACGAACTTTGATTCTAAGGAAAATGGCGAAAAGAAAAGCTC
* * **
1072971 TTCCAATGATACCAATGCATCAATATCTT
129 TTCCAAGGAAACCAATGCATCAATATCAA
* * * *
1073000 GTATCCAAACAGGGAGAACATGTTTTTGTAGCCTAATCACAAAAACAATAGTTTATTACTAGAAT
1 GTATCCAAACAAGGAGAACATGTTTTGGTAGCCCAATCACAAAAACAATAGTTTATTACGAGAAT
* * * * * *
1073065 GCATGTTTATCTCATTTGATAGATGAATTTTGATTCTATGTAAAATGGTGAAAAGAAAAGCTCTT
66 GCATGTATATCTCATTTGATAGACGAACTTTGATTCTAAGGAAAATGGCGAAAAGAAAAGCTCTT
***
1073130 CTTGGGAAACCAA-GCATCAATATCAA
131 CCAAGGAAACCAATGCATCAATATCAA
* * **
1073156 GTATCCTAACAAGGATAATGTGTTTATGGT-GCCCAAT
1 GTATCCAAACAAGGAGAACATGTTT-TGGTAGCCCAAT
1073193 TATGAAAAAA
Statistics
Matches: 154, Mismatches: 37, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
156 37 0.24
157 77 0.50
158 38 0.25
159 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (157 bp):
GTATCCAAACAAGGAGAACATGTTTTGGTAGCCCAATCACAAAAACAATAGTTTATTACGAGAAT
GCATGTATATCTCATTTGATAGACGAACTTTGATTCTAAGGAAAATGGCGAAAAGAAAAGCTCTT
CCAAGGAAACCAATGCATCAATATCAA
Found at i:1073560 original size:20 final size:20
Alignment explanation
Indices: 1073523--1073560 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1073513 TGGAGATTAT
*
1073523 TACTAGAATCCATGTTTGTC
1 TACTAGAATCCATATTTGTC
*
1073543 TACTAGAATCTATATTTG
1 TACTAGAATCCATATTTG
1073561 CCTCATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
TACTAGAATCCATATTTGTC
Found at i:1074631 original size:159 final size:159
Alignment explanation
Indices: 1074347--1075062 Score: 462
Period size: 159 Copynumber: 4.5 Consensus size: 159
1074337 TACACATTCA
* * *
1074347 TCTCATTTAAGGGATGAATTTTTATTCTAAGGAAAATGTTGGAAAAAAAAGCTTTTCTTGCAAAA
1 TCTCATTTAAGGGATGAACTTTGATTCTAAGGAAAATGGTGGAAAAAAAAGCTTTTCTTGCAAAA
* * ** * *
1074412 CCAAAGCATTAATATCATGTATCCAAATGAGAAAAATGTGCTTTTGCTGCCTAACCATGAATAGA
66 CCAAAGCATCAATATCATGTATCCAAATAAGAAAAATGCACTTTTGCTGCCCAACCATGAAAAGA
* *
1074477 CTAGAGATTACTACAAGAATCCATGTTTG
131 CTAGAGATTACTACAAGAAACCATATTTG
* * * * *
1074506 TCTTATTTAAGGGATGAACTTTGATTCTAAGGAATATGGTGGAAAAAGATGGTTTTCTTGCAAAA
1 TCTCATTTAAGGGATGAACTTTGATTCTAAGGAAAATGGTGGAAAAAAAAGCTTTTCTTGCAAAA
* * * * *** * ** **
1074571 GCAAAGTATCAATATCGTGTATCCTAATAAGGGGAATGCATTTTTTTTGCCCAATTATGAAAAGA
66 CCAAAGCATCAATATCATGTATCCAAATAAGAAAAATGCACTTTTGCTGCCCAACCATGAAAAGA
* **
1074636 CTAGAGATTATTATGAGAAACCATATTTG
131 CTAGAGATTACTACAAGAAACCATATTTG
* * * * * * * * **
1074665 TCTCATTTGAGGCATGAA-TTT-ACATCTTAGAAAAATAGT-GAAAACAAAATCATTTCTTGGGA
1 TCTCATTTAAGGGATGAACTTTGA-TTCTAAGGAAAATGGTGGAAAA-AAAAGCTTTTCTTGCAA
** * * * * * * *
1074727 AATTAAAGCATCATTATCATGTATCCCAATGACAAGAA--CACTTTTGCAGTGCCAAATCTAT-A
64 AACCAAAGCATCAATATCATGTATCCAAATAAGAAAAATGCACTTTTGC--TGCCCAA-CCATGA
* * * * *
1074789 AAAGAATGGAGATTATTACAAGAATCCATCTTTG
126 AAAGACTAGAGATTACTACAAGAAACCATATTTG
* * * ** * * **
1074823 CCTCATTTAAGGGATTAACTATGATTCTAAGGAAAATAATGGAAAGAAAAGCCTTTTTTTGTGAA
1 TCTCATTTAAGGGATGAACTTTGATTCTAAGGAAAATGGTGGAAAAAAAAG-CTTTTCTTGCAAA
* * * ** * * * *
1074888 ACCAAAGTATCAATA-C-TGTTTATCCCAATTAGGAAAACAT--TTTTTTGTTGCCAAATCTTGA
65 ACCAAAGCATCAATATCATG--TAT-CCAAATAAGAAAA-ATGCACTTTTGCTGCCCAACCATGA
* ** * * * * *
1074949 AAAGAATTCAGATTATTACATGAATCCATGTTTC
126 AAAGACTAGAGATTACTACAAGAAACCATATTTG
* * * * * **
1074983 TCTCATTTAAGCGATGAACTTTGATTATAAGGAAAATGGTAGAAAGAAAAGCTTTTTTTGTGAAA
1 TCTCATTTAAGGGATGAACTTTGATTCTAAGGAAAATGGTGGAAAAAAAAGCTTTTCTTGCAAAA
* *
1075048 CTAAAACATCAATAT
66 CCAAAGCATCAATAT
1075063 TGTATATCCT
Statistics
Matches: 428, Mismatches: 113, Indels: 31
0.75 0.20 0.05
Matches are distributed among these distances:
156 6 0.01
157 6 0.01
158 103 0.24
159 191 0.45
160 109 0.25
161 7 0.02
162 6 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (159 bp):
TCTCATTTAAGGGATGAACTTTGATTCTAAGGAAAATGGTGGAAAAAAAAGCTTTTCTTGCAAAA
CCAAAGCATCAATATCATGTATCCAAATAAGAAAAATGCACTTTTGCTGCCCAACCATGAAAAGA
CTAGAGATTACTACAAGAAACCATATTTG
Found at i:1074954 original size:160 final size:157
Alignment explanation
Indices: 1074776--1075146 Score: 444
Period size: 160 Copynumber: 2.4 Consensus size: 157
1074766 ACTTTTGCAG
* * *
1074776 TGCCAAATCTAT-AAAAGAATGGAGATTATTACAAGAATCCATCTTTGCCTCATTTAAGGGATTA
1 TGCCAAATCT-TGAAAAGAATGGAGATTATTACAAGAATCCATGTTTGCCTCATTTAAGCGATGA
* * **
1074840 ACTATGATTCTAAGGAAAATAATGGAAAGAAAAGCCTTTTTTTGTGAAACCAAAGTATCAATACT
65 ACTATGATTATAAGGAAAATAATAGAAAGAAAAG-CTTTTTTTGTGAAACCAAAACATCAATACT
* *
1074905 GTTTATCCCAATTAGGAAAACATTTTTTTGT
129 GTATATCCCAATT-GGAAAACATGTTTTT-T
** *
1074936 TGCCAAATCTTGAAAAGAATTCAGATTATTACATGAATCCATGTTT-CTCTCATTTAAGCGATGA
1 TGCCAAATCTTGAAAAGAATGGAGATTATTACAAGAATCCATGTTTGC-CTCATTTAAGCGATGA
* ** * *
1075000 ACTTTGATTATAAGGAAAATGGTAGAAAGAAAAGCTTTTTTTGTGAAACTAAAACATCAATATTG
65 ACTATGATTATAAGGAAAATAATAGAAAGAAAAGCTTTTTTTGTGAAACCAAAACATCAATACTG
* *
1075065 TATATCCTAATTGGAGAACATGTTTTTT
130 TATATCCCAATTGGAAAACATGTTTTTT
* * * * *
1075093 AGCCTAATCATGAAAA-AATGGAGATT-TATATAAGAATCCATGTTTGTCTCATTT
1 TGCCAAATCTTGAAAAGAATGGAGATTAT-TACAAGAATCCATGTTTGCCTCATTT
1075147 GAGAGACAAA
Statistics
Matches: 180, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
155 1 0.01
156 30 0.17
157 14 0.08
158 13 0.07
159 39 0.22
160 83 0.46
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (157 bp):
TGCCAAATCTTGAAAAGAATGGAGATTATTACAAGAATCCATGTTTGCCTCATTTAAGCGATGAA
CTATGATTATAAGGAAAATAATAGAAAGAAAAGCTTTTTTTGTGAAACCAAAACATCAATACTGT
ATATCCCAATTGGAAAACATGTTTTTT
Found at i:1085728 original size:42 final size:42
Alignment explanation
Indices: 1085673--1085752 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
1085663 TTCTTCTCTC
* * *
1085673 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1085715 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCT
1085753 CCTATCATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.10, C:0.46, G:0.03, T:0.41
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
Done.