Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 7 of 131
Found at i:1561900 original size:30 final size:30
Alignment explanation
Indices: 1561864--1561920 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1561854 TTTTAAATAT
* * *
1561864 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATAATTATATAAATATAAATATTTA
*
1561894 AAAATATAATTATATAAATATATATAT
1 AAAATATAATTATATAAATATAAATAT
1561921 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATAATTATATAAATATAAATATTTA
Found at i:1565332 original size:2 final size:2
Alignment explanation
Indices: 1565327--1565353 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1565317 TGTGTGTATA
1565327 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1565354 TATATGCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1572841 original size:2 final size:2
Alignment explanation
Indices: 1572836--1572864 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1572826 TTTTTTTTTA
1572836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1572865 ACCCCTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1573650 original size:4 final size:4
Alignment explanation
Indices: 1573641--1573665 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1573631 CCTGACCAGA
1573641 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
1573666 TATATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1576674 original size:16 final size:17
Alignment explanation
Indices: 1576638--1576676 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
1576628 AGGAAGAAAT
*
1576638 TTATTTTAATTCACCAAA
1 TTATTTAAATTCA-CAAA
1576656 TTATTTAAATTCA-AAA
1 TTATTTAAATTCACAAA
1576672 TTATT
1 TTATT
1576677 AGAAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
18 12 0.60
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATTTAAATTCACAAA
Found at i:1581547 original size:19 final size:22
Alignment explanation
Indices: 1581502--1581550 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
1581492 TTGAATTAAA
1581502 AAAATATTATTTTTTAAAATAT
1 AAAATATTATTTTTTAAAATAT
1581524 AAAATATTA-TTTTT-AAATAT
1 AAAATATTATTTTTTAAAATAT
1581544 -AAATATT
1 AAAATATT
1581551 TAAAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.26
20 6 0.22
21 5 0.19
22 9 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATATTATTTTTTAAAATAT
Found at i:1581572 original size:24 final size:24
Alignment explanation
Indices: 1581540--1581624 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
1581530 TTATTTTTAA
1581540 ATATAAATATTTAAAAATATTATT
1 ATATAAATATTTAAAAATATTATT
* *
1581564 ATATAAATATATATAAATAATTAATT
1 ATATAAATATTTAAAAAT-ATT-ATT
* * * *
1581590 A-ATAATTAATTAAAATTATTTTT
1 ATATAAATATTTAAAAATATTATT
*
1581613 TTATATAATATT
1 ATATA-AATATT
1581625 AAGTCGAGTC
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
23 2 0.04
24 22 0.48
25 18 0.39
26 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATAAATATTTAAAAATATTATT
Found at i:1581595 original size:11 final size:11
Alignment explanation
Indices: 1581579--1581607 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1581569 AATATATATA
1581579 AATAATTAATT
1 AATAATTAATT
1581590 AATAATTAATT
1 AATAATTAATT
1581601 AA-AATTA
1 AATAATTA
1581608 TTTTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATAATTAATT
Found at i:1583439 original size:21 final size:21
Alignment explanation
Indices: 1583414--1583458 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1583404 ATCAAAATAA
* * *
1583414 AATTATTAAAATTTAAATTTT
1 AATTAGTAAAATTAAAAATTT
1583435 AATTAGTAAAATTAAAAATTT
1 AATTAGTAAAATTAAAAATTT
1583456 AAT
1 AAT
1583459 ATTGTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTAGTAAAATTAAAAATTT
Found at i:1585826 original size:47 final size:47
Alignment explanation
Indices: 1585772--1585869 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
1585762 TCAATGGAGA
*
1585772 TAACCAAACCTACAGTAAGGAAACAACTCATTGGAGCACTAAGCCAG
1 TAACCAAACCTACAGCAAGGAAACAACTCATTGGAGCACTAAGCCAG
*
1585819 TAACCAAACCTACAGCAAGGAAACAACTCATTGGAGCACTAAGCCGG
1 TAACCAAACCTACAGCAAGGAAACAACTCATTGGAGCACTAAGCCAG
1585866 TAAC
1 TAAC
1585870 ATCCGGACCC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.42, C:0.27, G:0.17, T:0.14
Consensus pattern (47 bp):
TAACCAAACCTACAGCAAGGAAACAACTCATTGGAGCACTAAGCCAG
Found at i:1591694 original size:50 final size:52
Alignment explanation
Indices: 1591637--1591734 Score: 137
Period size: 50 Copynumber: 1.9 Consensus size: 52
1591627 TTAAAATTTC
* *
1591637 TAAATTTTTCACCATTTGGGCCTATTT-AAATTTTTTTA-ATTTTTTATCTT
1 TAAATTTTTCACCATTTGGGCCAATTTAAAATTTTTTTATAATTTTTATCTT
* * *
1591687 TAAATTTTTTACCATTTTGGTCAATTTAAAATTTTTTTATAATTTTTA
1 TAAATTTTTCACCATTTGGGCCAATTTAAAATTTTTTTATAATTTTTA
1591735 AATTTTCACA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 23 0.56
51 11 0.27
52 7 0.17
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (52 bp):
TAAATTTTTCACCATTTGGGCCAATTTAAAATTTTTTTATAATTTTTATCTT
Found at i:1592670 original size:50 final size:50
Alignment explanation
Indices: 1592602--1592757 Score: 153
Period size: 50 Copynumber: 3.1 Consensus size: 50
1592592 TAAAAAGATT
1592602 TTTTTTAAAT-TTCTAAATTTTTCACCATTTAGGCCTATTTA-AAATTTTTTA
1 TTTTTT-AATCTT-TAAA-TTTTCACCATTTAGGCCTATTTAGAAATTTTTTA
* * * *
1592653 TTTTTTTATCTTTAAATTTTCTACCATTTGGGTCAATTTAGAAA---TTT-
1 TTTTTTAATCTTTAAATTTTC-ACCATTTAGGCCTATTTAGAAATTTTTTA
* * * *
1592700 TTTTTTAATTTTTAAATTTTCACAATTTAGCCCTATTTATAAATTTTTTTA
1 TTTTTTAATCTTTAAATTTTCACCATTTAGGCCTATTTAGAAA-TTTTTTA
1592751 TTTTTTA
1 TTTTTTA
1592758 GAAAGAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
46 16 0.19
47 19 0.22
48 3 0.04
49 5 0.06
50 24 0.28
51 18 0.21
ACGTcount: A:0.28, C:0.10, G:0.04, T:0.58
Consensus pattern (50 bp):
TTTTTTAATCTTTAAATTTTCACCATTTAGGCCTATTTAGAAATTTTTTA
Found at i:1592689 original size:978 final size:981
Alignment explanation
Indices: 1590781--1592753 Score: 3203
Period size: 978 Copynumber: 2.0 Consensus size: 981
1590771 TGAAAAATTT
* *
1590781 AATTTTTTTATTTGAATGGGGATAATAATGGATATTATATTATAGGTATAAAAATAAGAATAAAT
1 AATTTTTTTATTTGAATGAGGAAAATAATGGATATTATATTATAGGTATAAAAATAAGAATAAAT
* *
1590846 ATGATTTTAAATTTTTATTGGGTATAGAAATAGAGACGAGTAATATGACATCCATCCTGTAACCA
66 ATGATTTTAAATTTTTATTGGGTACAAAAATAGAGACGAGTAATATGACATCCATCCTGTAACCA
**
1590911 TACTCTACATTTATATTTATATATTTAGTAAATAGCTTTTTTATTAAATAATATAAATTATTATT
131 TACTCTACATACATATTTATATATTTAGTAAATAGCTTTTTTATTAAATAATATAAATTATTATT
1590976 TTAAATTAATTAAAATTAATGTATTTTTATTGAAAAAAAATATATATTAATATATATTTATAAAA
196 TTAAATTAATTAAAATTAATGTATTTTTATTG-AAAAAAATATATATTAATATATATTTATAAAA
1591041 AATTATCTAAATATAAAAAAATAAAAAAAAAATTTGCTTTTTATATTTTTTAAAAAAACTACCGA
260 AATTATCTAAATATAAAAAAATAAAAAAAAAATTTGCTTTTTATATTTTTTAAAAAAACTACCGA
** * *
1591106 TATAAAAATTATTTATATCCATTAAATATTTATTGTCATAACATATAGATCCTATACCTAGAGTT
325 TATAAAAATTATCCATATCCAATAAATACTTATTGTCATAACATATAGATCCTATACCTAGAGTT
* * *
1591171 AACAAAATGAGTCGCCACAAATCGTTTTTATATAGGTGTGATTAGTCACCTAAATAATTTATCTT
390 AACAAAATGAGTCACCACAAATCGTTTTTATATAGGTGTGATTAGTCACCTAAAGAATCTATCTT
* * * *
1591236 TTTAAGGAACTCTTAAGCTTGACTAAGGATCCTTAAAAAATAAGTTCGGGTCTACAAATCAAAAT
455 TTTAAGGAACTCCTAAGCTAGACTAAGGATCCTTAAAAAATAAGTTCAGGTCTACAAACCAAAAT
* * * * *
1591301 AGGGTTCAGGAGTTCGAATATATATGAGAAATGTTATAATACCCTCACATGCCTATCTAAAAGAT
520 AAGGTTCAGGAGTTAGAATACATATGAGAAATGTTATAACACCCCCACATGCCTATCTAAAAGAT
1591366 AGTACCATTTTATTTTAAATTTATCATAAAGTATTGATTTTAATGGTTTTAATTTTTATGTTGAA
585 AGTACCATTTTATTTTAAATTTATCATAAAGTATTGATTTTAATGGTTTTAATTTTTATGTTGAA
* * * * *
1591431 TATTGGAAATAATTTTTTAAAACTCTCCATCAATTTGGTAGAACTTTTAAAAAAAATATTTCTCA
650 TATTGAAAATAACTTTTTAAAACTCTCCATCAATCTGGTAGAACTCTTAAAAAAAATACTTCTCA
* * *
1591496 CTTCAAGAGTATTCAAGAATCCCATTTGATATCTTGAAGAGGCTCTGTCGTCAGAAAAATATTTA
715 CCTCAAGAGTATTCAAGAATCCCATTTGATATCTTGAAGAGGCTCTATCATCAGAAAAATATTTA
*
1591561 TTTATTATTTTTTGTCAAAAATATATATAATTTTTTTATCATTTGGGCCAAATTAAAAAGATTTT
780 TTTATTATTTTTTGTCAAAAATATATATAATTATTTTATCATTTGGGCCAAATTAAAAAGATTTT
* *
1591626 TTTAAAATTTCTAAATTTTTCACCATTTGGGCCTATTTAAATTTTTTTAATTTTTTATCTTTAAA
845 TTTAAAATTTCTAAATTTTTCACCATTTAGGCCTATTTAAAATTTTTTAATTTTTTATCTTTAAA
* * *
1591691 TTTTTTACCATTTTGGTCAATTTA-AAATTTTTTTATAATTTTTAAATTTTCACAATTTAGGCCT
910 TTTTCTACCATTTGGGTCAATTTAGAAATTTTTTTATAATTTTTAAATTTTCACAATTTAGCCCT
1591755 ATTTATA
975 ATTTATA
* *
1591762 AA-TTTTTTATTTGAATGAGGAAAATAATGGATATTATATTATGGGTATAAAAATAAGAATGAAT
1 AATTTTTTTATTTGAATGAGGAAAATAATGGATATTATATTATAGGTATAAAAATAAGAATAAAT
*
1591826 AT-AGTTTTAAATTTTTATTGGGTACAAAAATAGAGACGAGTAATATGGCATCCATCCTGTAACC
66 ATGA-TTTTAAATTTTTATTGGGTACAAAAATAGAGACGAGTAATATGACATCCATCCTGTAACC
1591890 ATACTCTACATACATATTTATATATTTAGTAAATAGCTTTTTTATTAAATAATATAAATTATTAT
130 ATACTCTACATACATATTTATATATTTAGTAAATAGCTTTTTTATTAAATAATATAAATTATTAT
1591955 TTTAAATTAATTAAAATTAATGTATTTTTATTG-AAAAAATATATATTAATATATATTTATAAAA
195 TTTAAATTAATTAAAATTAATGTATTTTTATTGAAAAAAATATATATTAATATATATTTAT-AAA
1592019 AAATTATCTAAATATAAAAAAATAAAAAATAAAATTTGCTTTTTATATTTTTTAAAAAAACTACC
259 AAATTATCTAAATATAAAAAAATAAAAAA-AAAATTTGCTTTTTATATTTTTTAAAAAAACTACC
*
1592084 GATATAAAAATTA-CCATA-CCAATAAATACTTATTGTCATAACATATAGATCCTATAGCTAGAG
323 GATATAAAAATTATCCATATCCAATAAATACTTATTGTCATAACATATAGATCCTATACCTAGAG
* * * ** *
1592147 TTAACAAAATGAGTCACCACTAATCTTTTTTATCTATTTGTGATTGGTCACCTAAAGAATCTATC
388 TTAACAAAATGAGTCACCACAAATCGTTTTTATATAGGTGTGATTAGTCACCTAAAGAATCTATC
* * **
1592212 TTTTTAAGGAGCTCCTAAGCTAGATTAA-GAGTTTTTAAAAGAATAAGTTCAGGTCTACAAACCA
453 TTTTTAAGGAACTCCTAAGCTAGACTAAGGA-TCCTTAAAA-AATAAGTTCAGGTCTACAAACCA
* * * * *
1592276 AAATAATGTTC-GAGAGTTAGATTACATATGAGAAATGTTATAGCACCCCCATATG-TTCATCTA
516 AAATAAGGTTCAG-GAGTTAGAATACATATGAGAAATGTTATAACACCCCCACATGCCT-ATCTA
* * * * *
1592339 AATGATGGTACGATTTTATTTTAAATTTATC-TTAAGATTTTGATTTTAATGGTTTTAATTTTTA
579 AAAGATAGTACCATTTTATTTTAAATTTATCATAAAG-TATTGATTTTAATGGTTTTAATTTTTA
*
1592403 TGTTGAATATTGAAAATAACTTTTTAAGACTCTCCATCAATCTGGTAGAACTCTT-AAAAAAATA
643 TGTTGAATATTGAAAATAACTTTTTAAAACTCTCCATCAATCTGGTAGAACTCTTAAAAAAAATA
*
1592467 CTTCTCACCTCAAGAGTATTCAAGAATCCTATTTGATATCTTGAAGAGGCTCTATCATCAGAAAA
708 CTTCTCACCTCAAGAGTATTCAAGAATCCCATTTGATATCTTGAAGAGGCTCTATCATCAGAAAA
1592532 ATATTTATTTATTATTTTTTGTCAAAAATATATATAATTATTTTATCATTTGGGCCAAATTAAAA
773 ATATTTATTTATTATTTTTTGTCAAAAATATATATAATTATTTTATCATTTGGGCCAAATTAAAA
* *
1592597 AGATTTTTTTTAAATTTCTAAATTTTTCACCATTTAGGCCTATTTAAAATTTTTTATTTTTTTAT
838 AGATTTTTTTAAAATTTCTAAATTTTTCACCATTTAGGCCTATTTAAAATTTTTTAATTTTTTAT
*
1592662 CTTTAAATTTTCTACCATTTGGGTCAATTTAGAAATTTTTTTTTAATTTTTAAATTTTCACAATT
903 CTTTAAATTTTCTACCATTTGGGTCAATTTAGAAATTTTTTTATAATTTTTAAATTTTCACAATT
1592727 TAGCCCTATTTATA
968 TAGCCCTATTTATA
1592741 AATTTTTTTATTT
1 AATTTTTTTATTT
1592754 TTTAGAAAGA
Statistics
Matches: 917, Mismatches: 65, Indels: 21
0.91 0.06 0.02
Matches are distributed among these distances:
977 2 0.00
978 385 0.42
979 257 0.28
980 271 0.30
981 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (981 bp):
AATTTTTTTATTTGAATGAGGAAAATAATGGATATTATATTATAGGTATAAAAATAAGAATAAAT
ATGATTTTAAATTTTTATTGGGTACAAAAATAGAGACGAGTAATATGACATCCATCCTGTAACCA
TACTCTACATACATATTTATATATTTAGTAAATAGCTTTTTTATTAAATAATATAAATTATTATT
TTAAATTAATTAAAATTAATGTATTTTTATTGAAAAAAATATATATTAATATATATTTATAAAAA
ATTATCTAAATATAAAAAAATAAAAAAAAAATTTGCTTTTTATATTTTTTAAAAAAACTACCGAT
ATAAAAATTATCCATATCCAATAAATACTTATTGTCATAACATATAGATCCTATACCTAGAGTTA
ACAAAATGAGTCACCACAAATCGTTTTTATATAGGTGTGATTAGTCACCTAAAGAATCTATCTTT
TTAAGGAACTCCTAAGCTAGACTAAGGATCCTTAAAAAATAAGTTCAGGTCTACAAACCAAAATA
AGGTTCAGGAGTTAGAATACATATGAGAAATGTTATAACACCCCCACATGCCTATCTAAAAGATA
GTACCATTTTATTTTAAATTTATCATAAAGTATTGATTTTAATGGTTTTAATTTTTATGTTGAAT
ATTGAAAATAACTTTTTAAAACTCTCCATCAATCTGGTAGAACTCTTAAAAAAAATACTTCTCAC
CTCAAGAGTATTCAAGAATCCCATTTGATATCTTGAAGAGGCTCTATCATCAGAAAAATATTTAT
TTATTATTTTTTGTCAAAAATATATATAATTATTTTATCATTTGGGCCAAATTAAAAAGATTTTT
TTAAAATTTCTAAATTTTTCACCATTTAGGCCTATTTAAAATTTTTTAATTTTTTATCTTTAAAT
TTTCTACCATTTGGGTCAATTTAGAAATTTTTTTATAATTTTTAAATTTTCACAATTTAGCCCTA
TTTATA
Found at i:1592870 original size:27 final size:26
Alignment explanation
Indices: 1592832--1592884 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1592822 AAATTTAAAG
* *
1592832 AAAATTTCTCATCTAGAGATTTCTTAA
1 AAAATTTATCAT-TAGAAATTTCTTAA
*
1592859 AAAATTTATCATTTGAAATTTCTTAA
1 AAAATTTATCATTAGAAATTTCTTAA
1592885 GAATCTCATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (26 bp):
AAAATTTATCATTAGAAATTTCTTAA
Found at i:1593067 original size:26 final size:26
Alignment explanation
Indices: 1593036--1593090 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
1593026 CTTACCTAAA
*
1593036 AATTTTATAAAAATTT-ATCATTTGA-
1 AATTTT-TATAAATTTCATCATTTGAT
1593061 AATTTTTATAAATTTCATCATTTGAT
1 AATTTTTATAAATTTCATCATTTGAT
1593087 AATT
1 AATT
1593091 AACATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.30
25 15 0.56
26 4 0.15
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (26 bp):
AATTTTTATAAATTTCATCATTTGAT
Found at i:1593117 original size:186 final size:187
Alignment explanation
Indices: 1592774--1593126 Score: 401
Period size: 186 Copynumber: 1.9 Consensus size: 187
1592764 AAAAATATGA
* * * * *
1592774 TAATTATTTTTATTAAAATTTTATTTAAATTATTCATTCATTTGGGACAAATTTAAAGAAAATTT
1 TAATTATTGTTATTAAAACTTTATCTAAATTATTCACTCATTTGGGACAAATTTAAACAAAATTT
* * *
1592839 CTCATCTAGAGATTTCTTAAAAAATTTATCATTTGAAATTTCTTAAGAATCTCATCTTGGATAAT
66 CTCACCTAAAAATTTCTTAAAAAATTTATCATTTGAAATTTCTTAAGAATCTCATCTTGGATAAT
** * * *
1592904 TGTCAAATATTTTTAACCAAAATTTTTTTTATTATTTTTTTAGATTGAAAATAAATAT
131 TAACAAATATTCTCAAACAAAATTTTTTTTATT-TTTTTTTAGATTGAAAATAAATAT
* * * *
1592962 TAATTATTGTTATTGAAACTTTATCTAAATTATTTACT-ATTTGGGATAAATTTAGACAAAATTT
1 TAATTATTGTTATTAAAACTTTATCTAAATTATTCACTCATTTGGGACAAATTTAAACAAAATTT
* * *
1593026 CTTACCTAAAAA-TT-TTATAAAAATTTATCATTTGAAATTT-TTATA-AATTTCATCATTTGAT
66 CTCACCTAAAAATTTCTTA-AAAAATTTATCATTTGAAATTTCTTA-AGAATCTCATC-TTGGAT
** ****
1593087 AATTAACATTTATTCTCAAATTTTATTTTTTTTATTTTTT
128 AATTAACAAATATTCTCAAACAAAATTTTTTTTATTTTTT
1593127 CTAAATTTAG
Statistics
Matches: 136, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
185 18 0.13
186 55 0.40
187 31 0.23
188 32 0.24
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (187 bp):
TAATTATTGTTATTAAAACTTTATCTAAATTATTCACTCATTTGGGACAAATTTAAACAAAATTT
CTCACCTAAAAATTTCTTAAAAAATTTATCATTTGAAATTTCTTAAGAATCTCATCTTGGATAAT
TAACAAATATTCTCAAACAAAATTTTTTTTATTTTTTTTTAGATTGAAAATAAATAT
Found at i:1594111 original size:10 final size:10
Alignment explanation
Indices: 1594096--1594124 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1594086 CTCTAACAAA
1594096 TTCATTTTTT
1 TTCATTTTTT
1594106 TTCATTTTTT
1 TTCATTTTTT
1594116 TT-ATTTTTT
1 TTCATTTTTT
1594125 ATTTCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (10 bp):
TTCATTTTTT
Found at i:1594128 original size:16 final size:17
Alignment explanation
Indices: 1594102--1594134 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1594092 CAAATTCATT
*
1594102 TTTTTTCATTTTTTTTA
1 TTTTTTCATTTCTTTTA
1594119 TTTTTT-ATTTCTTTTA
1 TTTTTTCATTTCTTTTA
1594135 AAAAAGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCATTTCTTTTA
Found at i:1594196 original size:42 final size:42
Alignment explanation
Indices: 1594130--1594329 Score: 176
Period size: 42 Copynumber: 4.7 Consensus size: 42
1594120 TTTTTATTTC
* *
1594130 TTTTAAAAAAGTAAACAAAACTCCTCTAAACAGAGGCTCAATGAC
1 TTTTAAAAAA-T-AA-AAAGCTCCTCTAAACAGAGGCTCAATGAA
* * * *
1594175 TTTAAGAAAAAT-AAATGCTCCTCTAAATAGAGGCT-TA-GCAA
1 TTTTA-AAAAATAAAAAGCTCCTCTAAACAGAGGCTCAATG-AA
* * *
1594216 TTTTAAAAAAT-AAAAGCCTCTTCTAAGCAGAGTCTCAAT-AA
1 TTTTAAAAAATAAAAAG-CTCCTCTAAACAGAGGCTCAATGAA
* *
1594257 TTTTAAAAAATAAAAAGCTCCTCTAAACAGAGGTTCAATCAA
1 TTTTAAAAAATAAAAAGCTCCTCTAAACAGAGGCTCAATGAA
* * * *
1594299 CTTTGAAAAGTAAAATGCTCCTCTAAACAGA
1 TTTTAAAAAATAAAAAGCTCCTCTAAACAGA
1594330 AGCACTACAA
Statistics
Matches: 127, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
40 11 0.09
41 51 0.40
42 54 0.43
43 1 0.01
45 5 0.04
46 5 0.04
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (42 bp):
TTTTAAAAAATAAAAAGCTCCTCTAAACAGAGGCTCAATGAA
Found at i:1594313 original size:83 final size:83
Alignment explanation
Indices: 1594154--1594329 Score: 189
Period size: 83 Copynumber: 2.1 Consensus size: 83
1594144 ACAAAACTCC
* * * *
1594154 TCTAAACAGAGGCTCAATGACTTTAAGAAAAATAAATGCTCCTCTAAATAGAGGCTTAGCAATTT
1 TCTAAACAGAGGCTCAATAACTTTAAGAAAAATAAAAGCTCCTCTAAACAGAGGCTTAGCAACTT
1594219 TAAAAAATAAAAGCCTCT
66 TAAAAAATAAAAGCCTCT
* * * *
1594237 TCTAAGCAGAGTCTCAATAA-TTTTA-AAAAATAAAAAGCTCCTCTAAACAGAGG-TTCAATCAA
1 TCTAAACAGAGGCTCAATAACTTTAAGAAAAAT-AAAAGCTCCTCTAAACAGAGGCTT--AGCAA
* * *
1594299 CTTTGAAAAGTAAAATG-CTCC
63 CTTTAAAAAATAAAA-GCCTCT
1594320 TCTAAACAGA
1 TCTAAACAGA
1594330 AGCACTACAA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
81 8 0.10
82 23 0.30
83 45 0.58
84 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (83 bp):
TCTAAACAGAGGCTCAATAACTTTAAGAAAAATAAAAGCTCCTCTAAACAGAGGCTTAGCAACTT
TAAAAAATAAAAGCCTCT
Found at i:1594353 original size:41 final size:41
Alignment explanation
Indices: 1594262--1594358 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 41
1594252 AATAATTTTA
* * *
1594262 AAAAATAAAAAGCTCCTCTAAACAGAGGTTCAATCAACTTTG
1 AAAAGTAAAATGCTCCTCTAAACAGAAG-TCAATCAACTTTG
*
1594304 AAAAGTAAAATGCTCCTCTAAACAGAAG-CACTACAACTTTG
1 AAAAGTAAAATGCTCCTCTAAACAGAAGTCAAT-CAACTTTG
1594345 AAAAGTAAAATGCT
1 AAAAGTAAAATGCT
1594359 TATTGACAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 3 0.06
41 22 0.44
42 25 0.50
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (41 bp):
AAAAGTAAAATGCTCCTCTAAACAGAAGTCAATCAACTTTG
Found at i:1594600 original size:21 final size:21
Alignment explanation
Indices: 1594571--1594636 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
1594561 TGTAAATTAC
* *
1594571 AAAACTCTCATTCAATATTTA
1 AAAATTCTCATTCAAAATTTA
* *
1594592 AAGATTCTCATTTAAAATTTA
1 AAAATTCTCATTCAAAATTTA
* *
1594613 AAAATTCACATCCAAAAGTTTA
1 AAAATTCTCATTCAAAA-TTTA
1594635 AA
1 AA
1594637 TCTTGTCATT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 30 0.83
22 6 0.17
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAATTCTCATTCAAAATTTA
Found at i:1594845 original size:66 final size:66
Alignment explanation
Indices: 1594767--1594905 Score: 197
Period size: 66 Copynumber: 2.1 Consensus size: 66
1594757 ATTCAAAAGC
* * * * *
1594767 TCACATTTAATAAAACTTAGAGTTTCACATCTAAAATCTTAAATATTCTCATTTAAGTTCGAGGG
1 TCACATTCAATAAAACTTAGAGTTTCACATCTAAAATCTCAAAGATTCTCATTTAAGTTCGAAGA
1594832 T
66 T
* * * *
1594833 TCACATTCAATAAAACTTAGAGTTTTACATTTAAAATCTCAAAGATTCTCATTTGAGTTTGAAGA
1 TCACATTCAATAAAACTTAGAGTTTCACATCTAAAATCTCAAAGATTCTCATTTAAGTTCGAAGA
1594898 T
66 T
1594899 TCACATT
1 TCACATT
1594906 TGACAAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (66 bp):
TCACATTCAATAAAACTTAGAGTTTCACATCTAAAATCTCAAAGATTCTCATTTAAGTTCGAAGA
T
Found at i:1595033 original size:25 final size:23
Alignment explanation
Indices: 1595005--1595285 Score: 122
Period size: 21 Copynumber: 12.2 Consensus size: 23
1594995 AAAGGTCCTT
1595005 ATTTGAAAACGTCTTAAAGATTCTC
1 ATTT-AAAAC-TCTTAAAGATTCTC
1595030 ATTTAAAACTC--AAAGATTCTC
1 ATTTAAAACTCTTAAAGATTCTC
* *
1595051 ATTTAAAAATATTTTAAAGATTCTC
1 ATTT-AAAA-CTCTTAAAGATTCTC
* * * *
1595076 ATTTAAGACTC--AATGATTTTT
1 ATTTAAAACTCTTAAAGATTCTC
* * *
1595097 ATTTGAAAACATCTTAAAAATTTTT
1 ATTT-AAAAC-TCTTAAAGATTCTC
* * * *
1595122 ATTTAAGACTC--AAATAATGTC
1 ATTTAAAACTCTTAAAGATTCTC
* *
1595143 --TTAAAGATTTTCATTGAAGATTCTC
1 ATTTAAA-A--CTC-TTAAAGATTCTC
* *
1595168 ATTTGAAAACGTTTTAAAAATTCTC
1 ATTT-AAAAC-TCTTAAAGATTCTC
* *
1595193 ATTTAAGA--CATAAAGATTCTC
1 ATTTAAAACTCTTAAAGATTCTC
* * *
1595214 ATTTAAGA-T-TCAAAAATTCTC
1 ATTTAAAACTCTTAAAGATTCTC
*
1595235 ATTTGAAAACGTCTTAAGGATTCTC
1 ATTT-AAAAC-TCTTAAAGATTCTC
*
1595260 ATTTAAGACTC--AAAGATTCTC
1 ATTTAAAACTCTTAAAGATTCTC
1595281 ATTTA
1 ATTTA
1595286 GGGATTCAGA
Statistics
Matches: 194, Mismatches: 39, Indels: 50
0.69 0.14 0.18
Matches are distributed among these distances:
19 4 0.02
20 1 0.01
21 76 0.39
22 13 0.07
23 10 0.05
24 20 0.10
25 63 0.32
26 1 0.01
27 3 0.02
28 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (23 bp):
ATTTAAAACTCTTAAAGATTCTC
Found at i:1595068 original size:46 final size:46
Alignment explanation
Indices: 1595005--1595285 Score: 214
Period size: 46 Copynumber: 6.1 Consensus size: 46
1594995 AAAGGTCCTT
* * *
1595005 ATTTGAAAACGTCTTAAAGATTCTCATTTAAAACTCAAAGATTCTC
1 ATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTC
* * * * *
1595051 ATTTAAAAATATTTTAAAGATTCTCATTTAAGACTCAATGATTTTT
1 ATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTC
* * * * * * *
1595097 ATTTGAAAACATCTTAAAAATTTTTATTTAAGACTCAAATAATGTC
1 ATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTC
*** * * * *
1595143 --TTAAAGATTTTCATTGAAGATTCTCATTTGAAAACGTTTTAAAAATTCTC
1 ATTTAAA-AACATC-TTAAAGATTCTCATTT-AAGAC---TCAAAGATTCTC
* * *
1595193 ATTT-AAGACA---TAAAGATTCTCATTTAAGATTCAAAAATTCTC
1 ATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTC
* * *
1595235 ATTTGAAAACGTCTTAAGGATTCTCATTTAAGACTCAAAGATTCTC
1 ATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTC
1595281 ATTTA
1 ATTTA
1595286 GGGATTCAGA
Statistics
Matches: 177, Mismatches: 46, Indels: 24
0.72 0.19 0.10
Matches are distributed among these distances:
42 15 0.08
43 4 0.02
44 4 0.02
45 6 0.03
46 132 0.75
47 4 0.02
50 8 0.05
51 2 0.01
52 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (46 bp):
ATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTC
Found at i:1595893 original size:79 final size:79
Alignment explanation
Indices: 1595792--1596027 Score: 337
Period size: 79 Copynumber: 3.0 Consensus size: 79
1595782 ATTCTATCAA
*
1595792 TTGATCCACATTATGTTCATCACTTGATCACCATTCACAGGCTTCTCAGCATTAACCATTCCAAA
1 TTGATCCACATTATGTTCATCACTTGATCACCATTCACAGGCTTCTCAGCATTAACTATTCCAAA
* *
1595857 ATGAATTTCGTTCT
66 ATGAATTTCATCCT
* * * * *
1595871 TTGATCCACATTATGTTCATCACTTGATCACCATTCACAGGCTTTTCAGTAGTAACTATTTCAGA
1 TTGATCCACATTATGTTCATCACTTGATCACCATTCACAGGCTTCTCAGCATTAACTATTCCAAA
1595936 ATGAATTTCATCCT
66 ATGAATTTCATCCT
* * * * * * *
1595950 CTAATCCATATTATGTTCATCACTTGATCACCATTGATAGGTTTCTCAGCATTAGCTATTCCAAA
1 TTGATCCACATTATGTTCATCACTTGATCACCATTCACAGGCTTCTCAGCATTAACTATTCCAAA
1596015 ATGAATTTCATCC
66 ATGAATTTCATCC
1596028 ACTAATTCTG
Statistics
Matches: 137, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 137 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (79 bp):
TTGATCCACATTATGTTCATCACTTGATCACCATTCACAGGCTTCTCAGCATTAACTATTCCAAA
ATGAATTTCATCCT
Found at i:1596657 original size:9 final size:8
Alignment explanation
Indices: 1596637--1596669 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
1596627 TTTCTTTTCT
1596637 TTTTTTTA
1 TTTTTTTA
1596645 TTTTTTTA
1 TTTTTTTA
*
1596653 TTTTTTCA
1 TTTTTTTA
1596661 TTTTTTTA
1 TTTTTTTA
1596669 T
1 T
1596670 CCATAGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTA
Found at i:1600526 original size:53 final size:54
Alignment explanation
Indices: 1600469--1600596 Score: 154
Period size: 53 Copynumber: 2.4 Consensus size: 54
1600459 CAAAAATATA
*
1600469 TCTAATTATTTCATCATTTGGGCTAAATTAGAAATATTTT-TTCTTTTTGAATT
1 TCTAATTATTTCACCATTTGGGCTAAATTAGAAATATTTTCTTCTTTTTGAATT
* * * * *
1600522 TCTAA-AATTTTCACCATTTGGGTTAATTTAGAAATATTTTCTTTTTTTTTAATT
1 TCTAATTA-TTTCACCATTTGGGCTAAATTAGAAATATTTTCTTCTTTTTGAATT
*
1600576 TTTAAATT-TTTCACCATTTGG
1 TCT-AATTATTTCACCATTTGG
1600597 ACCTATTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
52 1 0.02
53 34 0.54
54 26 0.41
55 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.09, T:0.54
Consensus pattern (54 bp):
TCTAATTATTTCACCATTTGGGCTAAATTAGAAATATTTTCTTCTTTTTGAATT
Found at i:1600594 original size:54 final size:53
Alignment explanation
Indices: 1600472--1600596 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 53
1600462 AAATATATCT
*
1600472 AATTATTTCATCATTTGGGCTAAATTAGAAATATTTTTTCTTTTTGAATTTCTA
1 AATT-TTTCACCATTTGGGCTAAATTAGAAATATTTTTTCTTTTTGAATTTCTA
* * * * * *
1600526 AAATTTTCACCATTTGGGTTAATTTAGAAATATTTTCTTTTTTTTTAATTTTTA
1 AATTTTTCACCATTTGGGCTAAATTAGAAATATTTT-TTCTTTTTGAATTTCTA
1600580 AATTTTTCACCATTTGG
1 AATTTTTCACCATTTGG
1600597 ACCTATTTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 29 0.47
54 33 0.53
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.54
Consensus pattern (53 bp):
AATTTTTCACCATTTGGGCTAAATTAGAAATATTTTTTCTTTTTGAATTTCTA
Found at i:1600854 original size:10 final size:10
Alignment explanation
Indices: 1600839--1600865 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1600829 TTACCATTTG
1600839 AAATTTCTAT
1 AAATTTCTAT
1600849 AAATTTCTAT
1 AAATTTCTAT
1600859 AAATTTC
1 AAATTTC
1600866 ATCATTGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATTTCTAT
Found at i:1604112 original size:16 final size:16
Alignment explanation
Indices: 1604091--1604121 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1604081 GCCGTATCCC
*
1604091 TTCTTTTCTTTTCCAT
1 TTCTTTTCCTTTCCAT
1604107 TTCTTTTCCTTTCCA
1 TTCTTTTCCTTTCCA
1604122 CCTCAACCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCTTTTCCTTTCCAT
Found at i:1606552 original size:23 final size:24
Alignment explanation
Indices: 1606508--1606574 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
1606498 AAATATAATA
*
1606508 TAAAAATAATATAATTTAAAATTT
1 TAAAAATAATATAATATAAAATTT
1606532 TAAAAATAAT-T-ATATATAAATTT
1 TAAAAATAATATAATATA-AAATTT
* *
1606555 AATAAAATTAAAATAATATA
1 --TAAAAATAATATAATATA
1606575 TTTTATATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 4 0.11
23 7 0.20
24 10 0.29
25 8 0.23
26 1 0.03
27 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAAAATAATATAATATAAAATTT
Found at i:1621881 original size:7 final size:7
Alignment explanation
Indices: 1621869--1621895 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1621859 TATTGTTGTG
1621869 TATTTTA
1 TATTTTA
1621876 TATTTTA
1 TATTTTA
1621883 TATTTTA
1 TATTTTA
1621890 TATTTT
1 TATTTT
1621896 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TATTTTA
Found at i:1622038 original size:5 final size:5
Alignment explanation
Indices: 1622028--1622130 Score: 57
Period size: 5 Copynumber: 22.2 Consensus size: 5
1622018 TTTGTTATTG
* * *
1622028 ATAAT AT-A- ATAAT ATAA- ATATT ATATT AATAA- ATAA- ATAAT ATATT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT
* *
1622074 AT-AT -TAAT ATAAT AT-AT A-ATTT ATTAAT ATAAT ATTAT -TAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT A-TAAT ATAAT ATAAT ATAAT ATAAT
1622121 A-AAT ATAAT A
1 ATAAT ATAAT A
1622131 ATATTTATAT
Statistics
Matches: 77, Mismatches: 8, Indels: 26
0.69 0.07 0.23
Matches are distributed among these distances:
3 3 0.04
4 26 0.34
5 42 0.55
6 5 0.06
7 1 0.01
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:1622059 original size:20 final size:20
Alignment explanation
Indices: 1622034--1622166 Score: 89
Period size: 19 Copynumber: 6.5 Consensus size: 20
1622024 ATTGATAATA
1622034 TAATAATATAAATATTATAT
1 TAATAATATAAATATTATAT
*
1622054 TAATAA-ATAAATAATATAT
1 TAATAATATAAATATTATAT
*
1622073 TATATTAATATAATATATAAT-T
1 TA-A-TAATATAA-ATATTATAT
*
1622095 TATTAATAT-AATATTATTAAT
1 TAATAATATAAATATTA-T-AT
*
1622116 ATAATAA-ATATAATAATAT-T
1 -TAATAATATA-AATATTATAT
* *
1622136 TATATAATA-AAAAATTATTT
1 TA-ATAATATAAATATTATAT
*
1622156 TATTAATATAA
1 TAATAATATAA
1622167 TAATTGTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
18 5 0.06
19 29 0.33
20 24 0.27
21 7 0.08
22 13 0.15
23 11 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATAATATAAATATTATAT
Found at i:1622164 original size:24 final size:24
Alignment explanation
Indices: 1622102--1622169 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
1622092 ATTTATTAAT
*
1622102 ATAATATTATTAATATAAT-AAAT
1 ATAATATTATTAATATAATAAAAA
* *
1622125 ATAATAATATTTATATAATAAAAA
1 ATAATATTATTAATATAATAAAAA
* *
1622149 ATTATTTTATTAATATAATAA
1 ATAATATTATTAATATAATAA
1622170 TTGTAGCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 17 0.46
24 20 0.54
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATTATTAATATAATAAAAA
Found at i:1622167 original size:61 final size:62
Alignment explanation
Indices: 1622028--1622168 Score: 175
Period size: 61 Copynumber: 2.3 Consensus size: 62
1622018 TTTGTTATTG
* * * *
1622028 ATAATATAATAATATAA-ATATTATATTAATAAATAAATAATATATTATATTAATATAATAT
1 ATAATTTATTAATATAATATATTATATTAATAAATAAATAATATATTATATTAATAAAAAAT
1622089 ATAATTTATTAATATAATATTATTA-ATATAATAAATATAATAATAT-TTATA-TAATAAAAAAT
1 ATAATTTATTAATATAATA-TATTATAT-TAATAAATA-AATAATATATTATATTAATAAAAAAT
*
1622151 -TATTTTATTAATATAATA
1 ATAATTTATTAATATAATA
1622169 ATTGTAGCTT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
61 32 0.45
62 12 0.17
63 19 0.27
64 8 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (62 bp):
ATAATTTATTAATATAATATATTATATTAATAAATAAATAATATATTATATTAATAAAAAAT
Found at i:1632861 original size:91 final size:92
Alignment explanation
Indices: 1632690--1632868 Score: 306
Period size: 91 Copynumber: 2.0 Consensus size: 92
1632680 GTGACGAGGA
* * * * *
1632690 CGTCAGGAGGTTGGGTGTGGGAGAATGTTACGGACCTAAGGGAGAGTCTTGAATCTCACATCGAA
1 CGTCACGAGGTTGGGTGCGGGAGAATGTCACGGACCTAAGAGAGAGTCCTGAATCTCACATCGAA
1632755 CATAATAGGAAGGTCACTAGGGTTCCT
66 CATAATAGGAAGGTCACTAGGGTTCCT
1632782 CGTCACGAGGTTGGGTGCGGGAGAATGTCACGGACCTAAGAG-GAGTCCTGAATCTCACATCGAA
1 CGTCACGAGGTTGGGTGCGGGAGAATGTCACGGACCTAAGAGAGAGTCCTGAATCTCACATCGAA
1632846 CATAATAGGAAGGTCACTAGGGT
66 CATAATAGGAAGGTCACTAGGGT
1632869 GTAAAAGGGT
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 44 0.54
92 38 0.46
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (92 bp):
CGTCACGAGGTTGGGTGCGGGAGAATGTCACGGACCTAAGAGAGAGTCCTGAATCTCACATCGAA
CATAATAGGAAGGTCACTAGGGTTCCT
Found at i:1636142 original size:26 final size:26
Alignment explanation
Indices: 1636113--1636164 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
1636103 TCAACAAATA
*
1636113 ATCACTATAAAATTCAAATTTAAAAC
1 ATCACTATAAAATCCAAATTTAAAAC
1636139 ATCACTATAAAATCCAAATTTAAAAC
1 ATCACTATAAAATCCAAATTTAAAAC
1636165 CTCTTTACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (26 bp):
ATCACTATAAAATCCAAATTTAAAAC
Found at i:1639175 original size:6 final size:6
Alignment explanation
Indices: 1639160--1639201 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
1639150 TTAAAGGATA
1639160 TATATAT TATATT TATATT TATATT TATATT TATATT TATAT
1 TATAT-T TATATT TATATT TATATT TATATT TATATT TATAT
1639202 ATATCTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:1640371 original size:26 final size:25
Alignment explanation
Indices: 1640332--1640398 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
1640322 TGTTAATATT
*
1640332 TATATGTATT-TTATTTATATAGTTA
1 TATATTTATTATTATTTATA-AGTTA
*
1640357 TATATTTATTATTATATTATAATTTA
1 TATATTTATTATTAT-TTATAAGTTA
*
1640383 TTTATTTATTATTATT
1 TATATTTATTATTATT
1640399 ATTTTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 10 0.27
26 22 0.59
27 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (25 bp):
TATATTTATTATTATTTATAAGTTA
Found at i:1640485 original size:33 final size:35
Alignment explanation
Indices: 1640448--1640513 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
1640438 TTATTTTTAA
1640448 TTATCTG-TTA-ATTTTATTTTTATTT-TTTTTCGT
1 TTATCTGATTATATTTT-TTTTTATTTCTTTTTCGT
*
1640481 TTATCTGATTATTATTTTTTTTTCTTTCTTTTT
1 TTATCTGATTA-TATTTTTTTTTATTTCTTTTT
1640514 TTGGGCTGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 7 0.25
34 3 0.11
35 8 0.29
36 10 0.36
ACGTcount: A:0.14, C:0.08, G:0.05, T:0.74
Consensus pattern (35 bp):
TTATCTGATTATATTTTTTTTTATTTCTTTTTCGT
Found at i:1640864 original size:19 final size:19
Alignment explanation
Indices: 1640837--1640874 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1640827 CCAGATTTCG
*
1640837 GTTGAATTTTTTGACGAAA
1 GTTGAATTTTTCGACGAAA
*
1640856 GTTGCATTTTTCGACGAAA
1 GTTGAATTTTTCGACGAAA
1640875 ATTTCCGCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (19 bp):
GTTGAATTTTTCGACGAAA
Found at i:1641364 original size:11 final size:10
Alignment explanation
Indices: 1641348--1641412 Score: 53
Period size: 11 Copynumber: 6.4 Consensus size: 10
1641338 TTAATATTCT
1641348 TTTTATCTTTA
1 TTTT-TCTTTA
*
1641359 TTTTATTTTTA
1 TTTT-TCTTTA
*
1641370 TTTTTGTTTTA
1 TTTTT-CTTTA
*
1641381 CTTTTCTTTA
1 TTTTTCTTTA
1641391 -TTTT-TTTA
1 TTTTTCTTTA
*
1641399 TTTTTATTTA
1 TTTTTCTTTA
1641409 TTTT
1 TTTT
1641413 CACTTTTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
8 4 0.08
9 8 0.17
10 13 0.27
11 23 0.48
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:1641368 original size:6 final size:6
Alignment explanation
Indices: 1641347--1641424 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
1641337 TTTAATATTC
* * * *
1641347 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTATT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA
* *
1641393 TTTTTA TTTTTA --TTTA TTTTCA CTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1641425 GTTTCATTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
4 4 0.07
5 10 0.18
6 40 0.71
7 2 0.04
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:1641369 original size:17 final size:16
Alignment explanation
Indices: 1641347--1641405 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
1641337 TTTAATATTC
*
1641347 TTTTTATCTTTATTTTA
1 TTTTTATATTT-TTTTA
*
1641364 TTTTTATTTTTGTTTTA
1 TTTTTATATTT-TTTTA
*
1641381 CTTTTCTTTATTTTTTTA
1 -TTTT-TATATTTTTTTA
1641399 TTTTTAT
1 TTTTTAT
1641406 TTATTTTCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.06
17 19 0.54
18 9 0.26
19 5 0.14
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTATATTTTTTTA
Found at i:1641408 original size:18 final size:18
Alignment explanation
Indices: 1641359--1641412 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
1641349 TTTATCTTTA
*
1641359 TTTTATTTTTATTT-TTG
1 TTTTATTTTTATTTATTT
* *
1641376 TTTTACTTTTCTTTATTT
1 TTTTATTTTTATTTATTT
1641394 TTTTATTTTTATTTATTT
1 TTTTATTTTTATTTATTT
1641412 T
1 T
1641413 CACTTTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTATTTATTT
Found at i:1641429 original size:16 final size:15
Alignment explanation
Indices: 1641387--1641430 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
1641377 TTTACTTTTC
*
1641387 TTTATTTTTTT-ATT
1 TTTATTTTTTTCACT
1641401 TTTATTTATTTTCACT
1 TTTATTT-TTTTCACT
1641417 TTTATTTTGTTTCA
1 TTTATTTT-TTTCA
1641431 TTATTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 14 0.54
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTCACT
Found at i:1641539 original size:59 final size:58
Alignment explanation
Indices: 1641459--1641910 Score: 588
Period size: 59 Copynumber: 7.7 Consensus size: 58
1641449 ATAAAAATAA
* *
1641459 AAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * *
1641517 AAAAAAGGGT-TTTTTGGGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATCAATTTTC
1 AAAAAA--ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*
1641576 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * * *
1641633 AAAAAAA-AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTC
* * * * *
1641694 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATGAATTTTCCTTAAAAATTAATTTCC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* *
1641752 AAAAAAAAATATTTTTGGGAAAAAGTTGAAAGCATCAA-TTTTCTTTAAAAATAAATTTTC
1 --AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTC
* * *
1641812 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTC
* *
1641871 AAAAATATATTTTTGGAGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1641911 CCATGCACAA
Statistics
Matches: 347, Mismatches: 33, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
56 1 0.00
57 47 0.14
58 63 0.18
59 138 0.40
60 87 0.25
61 10 0.03
62 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
Found at i:1652196 original size:18 final size:19
Alignment explanation
Indices: 1652157--1652208 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
1652147 TATTATGCTT
*
1652157 GAAAAAAT-AAAAAAATGG
1 GAAAAAATAAAAAAAATGA
1652175 GAAAAAATAAAAAAAAT-A
1 GAAAAAATAAAAAAAATGA
1652193 GAAAAAA-AAAAGAAAA
1 GAAAAAATAAAA-AAAA
1652209 AGTGAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 4 0.13
18 19 0.61
19 8 0.26
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (19 bp):
GAAAAAATAAAAAAAATGA
Found at i:1652198 original size:12 final size:11
Alignment explanation
Indices: 1652176--1652209 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1652166 AAAAAATGGG
*
1652176 AAAAAATAAAA
1 AAAAAAGAAAA
*
1652187 AAAATAGAAAA
1 AAAAAAGAAAA
1652198 AAAAAAGAAAA
1 AAAAAAGAAAA
1652209 A
1 A
1652210 GTGAATGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.06, T:0.06
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:1653269 original size:41 final size:41
Alignment explanation
Indices: 1653224--1653478 Score: 343
Period size: 41 Copynumber: 6.1 Consensus size: 41
1653214 ATGATTGTCA
* *
1653224 AGGAGCAATTTATTTTTCAAAGTTC-TGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAG
*
1653265 AGGAGCAATTTACTTTTTC-AAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
1653306 AGAAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
1653347 ATGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* *
1653389 AGGAGTAATTTACTTTTCCAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
1653430 ATGAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
1653473 AGGAGC
1 AGGAGC
1653479 TTTGGTCAAA
Statistics
Matches: 189, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
40 7 0.04
41 109 0.58
42 46 0.24
43 27 0.14
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:1653389 original size:124 final size:125
Alignment explanation
Indices: 1653226--1653471 Score: 365
Period size: 124 Copynumber: 2.0 Consensus size: 125
1653216 GATTGTCAAG
* * *
1653226 GAGCAATTTATTTTTCAAAGTTCTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAGTCGT
1 GAGCAATTTACTTTTCAAAGTTCTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTCGT
*
1653291 GGTGCCTCTATTTAGA-GAAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAAAT
66 GGTGCCTCTATTTAGATG-AGCAATTTATCTTTCTCAAAGTCGTGGAGCCTCTGTTTAAAT
*
1653349 GAGCAATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTCCAAGTC
1 GAGCAATTTACTTTTC-AAAGTTC-TGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTC
* * *
1653413 GTGGTGCCTCTGTTTAGATGAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTA
64 GTGGTGCCTCTATTTAGATGAGCAATTTATCTTTCTCAAAGTCGTGGAGCCTCTGTTTA
1653472 GAGGAGCTTT
Statistics
Matches: 110, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
123 17 0.15
124 67 0.61
125 4 0.04
126 22 0.20
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (125 bp):
GAGCAATTTACTTTTCAAAGTTCTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTCGT
GGTGCCTCTATTTAGATGAGCAATTTATCTTTCTCAAAGTCGTGGAGCCTCTGTTTAAAT
Found at i:1653412 original size:83 final size:82
Alignment explanation
Indices: 1653224--1653478 Score: 352
Period size: 83 Copynumber: 3.1 Consensus size: 82
1653214 ATGATTGTCA
* * *
1653224 AGGAGCAATTTATTTTTCAAAGTTC-TGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTC-AAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGATGAGCAATTTAC-TTTTCAAAG
*
1653287 TCGTGGTGCCTCTATTTAG
64 TCGTGGTGCCTCTGTTTAG
* *
1653306 AGAAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAATGAGCAATTTACTTTTCAAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGATGAGCAATTTACTTTTC-AAAGT
1653371 CGTGGTGCCTCTGTTTAG
65 CGTGGTGCCTCTGTTTAG
* * *
1653389 AGGAGTAATTTACTTTTCCAAGTCGTGGTGCCTCTGTTTAGATGAGCAATTTATGTTTCTCAAAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGATGAGCAATTTA-CTTT-TCAAAG
* *
1653454 TCGTTGAGCCTCTGTTTAG
64 TCGTGGTGCCTCTGTTTAG
1653473 AGGAGC
1 AGGAGC
1653479 TTTGGTCAAA
Statistics
Matches: 154, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
81 7 0.05
82 46 0.30
83 70 0.45
84 29 0.19
85 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.38
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGATGAGCAATTTACTTTTCAAAGTC
GTGGTGCCTCTGTTTAG
Found at i:1653507 original size:10 final size:10
Alignment explanation
Indices: 1653492--1653528 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
1653482 GGTCAAAAAC
1653492 AAAAAAATAA
1 AAAAAAATAA
1653502 AAAAAAATAA
1 AAAAAAATAA
*
1653512 AAAAAACACAA
1 AAAAAA-ATAA
1653523 AAAAAA
1 AAAAAA
1653529 CAAAAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.89, C:0.05, G:0.00, T:0.05
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:1653524 original size:27 final size:27
Alignment explanation
Indices: 1653486--1653541 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
1653476 AGCTTTGGTC
1653486 AAAAACAAAAAAATAAA-AAAAAATAAA
1 AAAAACAAAAAAA-AAACAAAAAATAAA
* *
1653513 AAAAACACAAAAAAAACAAAAAATGAA
1 AAAAACAAAAAAAAAACAAAAAATAAA
1653540 AA
1 AA
1653542 TATTGAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.86, C:0.07, G:0.02, T:0.05
Consensus pattern (27 bp):
AAAAACAAAAAAAAAACAAAAAATAAA
Found at i:1653534 original size:10 final size:10
Alignment explanation
Indices: 1653492--1653535 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
1653482 GGTCAAAAAC
*
1653492 AAAAAAATAA
1 AAAAAAACAA
*
1653502 AAAAAAA-TA
1 AAAAAAACAA
1653511 AAAAAAACACA
1 AAAAAAACA-A
1653522 AAAAAAACAA
1 AAAAAAACAA
1653532 AAAA
1 AAAA
1653536 TGAAAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.27
10 12 0.40
11 10 0.33
ACGTcount: A:0.89, C:0.07, G:0.00, T:0.05
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:1653748 original size:12 final size:12
Alignment explanation
Indices: 1653733--1653895 Score: 52
Period size: 12 Copynumber: 12.7 Consensus size: 12
1653723 GTATTTTAGG
1653733 TATTTTATTATT
1 TATTTTATTATT
1653745 TA-TTTATTATT
1 TATTTTATTATT
1653756 ACTATGTATTAATATATGT
1 --TAT-T-TT-AT-TAT-T
1653775 ATATCTTTATTTATT
1 -TAT-TTTA-TTATT
1653790 TA-TTTATTTATT
1 TATTTTA-TTATT
*
1653802 TATTTT-TTGTT
1 TATTTTATTATT
* *
1653813 AATATTTA-TATG
1 TAT-TTTATTATT
*
1653825 TATTTTATT-TA
1 TATTTTATTATT
*
1653836 TATAGTTATTTATT
1 TAT-TTTA-TTATT
1653850 TATTATTA-TATT
1 TATT-TTATTATT
*
1653862 ATAATTTATT-TAT
1 -TATTTTATTAT-T
1653875 TATTATTATTATT
1 TATT-TTATTATT
*
1653888 TTTTTTAT
1 TATTTTAT
1653896 CTTGTAATAT
Statistics
Matches: 115, Mismatches: 14, Indels: 44
0.66 0.08 0.25
Matches are distributed among these distances:
11 23 0.20
12 40 0.35
13 21 0.18
14 10 0.09
15 2 0.02
16 6 0.05
17 5 0.04
18 7 0.06
19 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (12 bp):
TATTTTATTATT
Found at i:1653749 original size:4 final size:4
Alignment explanation
Indices: 1653736--1653875 Score: 81
Period size: 4 Copynumber: 33.5 Consensus size: 4
1653726 TTTTAGGTAT
* * * * * *
1653736 TTTA -TTA TTTA TTTA -TTA TTACTA TGTA TTAA TATA TGTA TATC TTTA
1 TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA
*
1653784 TTTA TTTA TTTA TTTA TTTA TTT- TTTG TTAATA TTTA TATGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA T-T-TA -TTTA
* *
1653832 TTTA TATA GTTA TTTA TTTA -TTA TTATA TTATAA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA TT
1653876 ATTATTATTA
Statistics
Matches: 108, Mismatches: 15, Indels: 26
0.72 0.10 0.17
Matches are distributed among these distances:
3 12 0.11
4 73 0.68
5 10 0.09
6 12 0.11
7 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:1653800 original size:60 final size:58
Alignment explanation
Indices: 1653736--1653889 Score: 152
Period size: 60 Copynumber: 2.5 Consensus size: 58
1653726 TTTTAGGTAT
**
1653736 TTTATTATTTATTTATTATTACTATGTATTAATATATGTATATCTTTATTTATTTATTTATTTA
1 TTTATTATTTATTTATTATTA-TATGTATT--T-TATGTATATAGTTATTTATTTA-TTA-TTA
* *
1653800 TTTATT-TTT-TGTTAATATTTATATGTATTTTATTTATATAGTTATTTATTTATTATTA
1 TTTATTATTTAT-TTATTA-TTATATGTATTTTATGTATATAGTTATTTATTTATTATTA
*
1653858 TATTATAATTTATTTATTATTATTAT-TATTTT
1 T-TTATTATTTATTTATTATTA-TATGTATTTT
1653890 TTTTATCTTG
Statistics
Matches: 78, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
58 4 0.05
59 16 0.21
60 30 0.38
61 2 0.03
62 1 0.01
63 16 0.21
64 9 0.12
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (58 bp):
TTTATTATTTATTTATTATTATATGTATTTTATGTATATAGTTATTTATTTATTATTA
Found at i:1653868 original size:22 final size:23
Alignment explanation
Indices: 1653843--1653886 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
1653833 TTATATAGTT
1653843 ATTTATTTATTATTA-TATTATA
1 ATTTATTTATTATTATTATTATA
1653865 ATTTATTTATTATTATTATTAT
1 ATTTATTTATTATTATTATTAT
1653887 TTTTTTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTATTTATTATTATTATTATA
Found at i:1653877 original size:25 final size:27
Alignment explanation
Indices: 1653815--1653888 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
1653805 TTTTTGTTAA
*
1653815 TATTTA-TATGTATTTTATTTATATAGT
1 TATTTATTAT-TATTATATTTATATAGT
*
1653842 TATTTATTTATTATTATA-TTATA-ATT
1 TATTTA-TTATTATTATATTTATATAGT
1653868 TATTTATTATTATTATTATTT
1 TATTTATTATTATTA-TATTT
1653889 TTTTTATCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 9 0.22
26 10 0.24
27 13 0.32
28 6 0.15
29 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (27 bp):
TATTTATTATTATTATATTTATATAGT
Found at i:1653895 original size:25 final size:26
Alignment explanation
Indices: 1653740--1653883 Score: 55
Period size: 22 Copynumber: 5.7 Consensus size: 26
1653730 AGGTATTTTA
1653740 TTATTTATTTATTATTACTATGTATTAAT
1 TTATTTATTTATTATTA-TAT-TA-TAAT
* *
1653769 ATATGTATATCT-TTATT-TATT-T-AT
1 TTAT-T-TATTTATTATTATATTATAAT
* *
1653793 TTATTTATTTATT-TTTTGTTA-ATAT
1 TTATTTATTTATTATTATATTATA-AT
*
1653818 TTATATGTA-TT-TTATT-TATATAGTTAT
1 TTAT-T-TATTTATTATTATAT-TA-TAAT
1653845 TTATTTA-TTA---TTATATTATAAT
1 TTATTTATTTATTATTATATTATAAT
1653867 TTATTTA-TTATTATTAT
1 TTATTTATTTATTATTAT
1653884 TATTTTTTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 40
0.65 0.06 0.29
Matches are distributed among these distances:
22 19 0.21
23 10 0.11
24 8 0.09
25 19 0.21
26 8 0.09
27 9 0.10
28 3 0.03
29 3 0.03
30 6 0.07
31 4 0.04
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (26 bp):
TTATTTATTTATTATTATATTATAAT
Found at i:1653986 original size:33 final size:34
Alignment explanation
Indices: 1653935--1653999 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
1653925 TTATTTTTAA
* *
1653935 TTATCTGTTAATTTTTATTTTTATTTT-TTTCAT
1 TTATCTGTTAATTATTATTATTATTTTCTTTCAT
1653968 TTATCTGATT-ATTATTATTATTATTTTCTTTC
1 TTATCTG-TTAATTATTATTATTATTTTCTTTC
1654000 TTTTTTTGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 22 0.79
34 6 0.21
ACGTcount: A:0.20, C:0.08, G:0.03, T:0.69
Consensus pattern (34 bp):
TTATCTGTTAATTATTATTATTATTTTCTTTCAT
Found at i:1654413 original size:11 final size:11
Alignment explanation
Indices: 1654397--1654426 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1654387 AGAAACTGGT
1654397 GAACTTCCGAC
1 GAACTTCCGAC
*
1654408 GAACTTCCGAT
1 GAACTTCCGAC
1654419 GAACTTCC
1 GAACTTCC
1654427 AGCGAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (11 bp):
GAACTTCCGAC
Found at i:1654886 original size:11 final size:10
Alignment explanation
Indices: 1654870--1654945 Score: 50
Period size: 11 Copynumber: 7.4 Consensus size: 10
1654860 TTAATATTCT
1654870 TTTTATCTTTA
1 TTTT-TCTTTA
*
1654881 TTTTATTTTTA
1 TTTT-TCTTTA
*
1654892 TTTTTGTTTTA
1 TTTTT-CTTTA
*
1654903 CTTTTCTTTA
1 TTTTTCTTTA
1654913 --TTT-TTTA
1 TTTTTCTTTA
*
1654920 TTTTTATTTA
1 TTTTTCTTTA
1654930 TTTTTACTTTTA
1 TTTTT-C-TTTA
1654942 TTTT
1 TTTT
1654946 GTTTCATTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
7 4 0.07
8 3 0.05
9 3 0.05
10 14 0.25
11 23 0.42
12 8 0.15
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:1654891 original size:17 final size:17
Alignment explanation
Indices: 1654869--1654926 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
1654859 TTTAATATTC
1654869 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
1654886 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
*
1654903 -CTTT-TCTTTATTTTTTA
1 TTTTTATCTTTA--TTTTA
1654920 TTTTTAT
1 TTTTTAT
1654927 TTATTTTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 4 0.13
16 3 0.10
17 20 0.65
18 3 0.10
19 1 0.03
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:1654929 original size:17 final size:17
Alignment explanation
Indices: 1654881--1654944 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
1654871 TTTATCTTTA
*
1654881 TTTTATTTTTATTT-TT
1 TTTTACTTTTATTTATT
*
1654897 GTTTTACTTTTCTTTATT
1 -TTTTACTTTTATTTATT
*
1654915 TTTTATTTTTATTTA-T
1 TTTTACTTTTATTTATT
1654931 TTTTACTTTTATTT
1 TTTTACTTTTATTT
1654945 TGTTTCATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
16 14 0.34
17 25 0.61
18 2 0.05
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTACTTTTATTTATT
Found at i:1654940 original size:7 final size:6
Alignment explanation
Indices: 1654869--1654945 Score: 65
Period size: 6 Copynumber: 13.7 Consensus size: 6
1654859 TTTAATATTC
* * * * *
1654869 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTAT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
1654914 TTTTTA TTTTTA --TTTA TTTTTA CTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1654946 GTTTCATTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
4 4 0.07
5 12 0.21
6 40 0.71
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:1655060 original size:59 final size:58
Alignment explanation
Indices: 1654979--1655430 Score: 585
Period size: 59 Copynumber: 7.7 Consensus size: 58
1654969 AATAAAAATA
* * *
1654979 AAAAAAATATTTTT-GAGAAAAAGTTGAAAATATAAATTTTTTTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * * *
1655037 AAAAAAGGGT-TTTTTGGAGAAAAGTTTAAAGTATCAATTTTCCTTAAAAATCAA-TTTC
1 AAAAAA--ATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* *
1655095 CAAAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
1 AAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*** *
1655153 AAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTTC
1 AAAAAAATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTC
*
1655213 AAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCGATTTTTCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*
1655270 AAAAAAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTA
1 --AAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * * *
1655330 AAAAAAATATTTTTGGAGAAAAGTTGAAATTATCAATTTTCCTTGAAAATAAAAGTTTC
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTC
1655389 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTC
1655431 CTACACAAGA
Statistics
Matches: 346, Mismatches: 32, Indels: 31
0.85 0.08 0.08
Matches are distributed among these distances:
56 2 0.01
57 45 0.13
58 108 0.31
59 133 0.38
60 57 0.16
61 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (58 bp):
AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
Found at i:1655101 original size:117 final size:117
Alignment explanation
Indices: 1654979--1655430 Score: 596
Period size: 117 Copynumber: 3.9 Consensus size: 117
1654969 AATAAAAATA
* * *
1654979 AAAAAAATATTTTTGAGAAAAAGTTGAAAATATAAATTTTTTTTAAAAATAAATTTTCAAAAAAG
1 AAAAAAATATTTTTG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAG
* * *
1655044 GGT-TTTTTGGAGAAAAGTTTAAAGTATCAATTTTCCTTAAAAATCAA-TTTC
65 GATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATCAATTTTC
* *
1655095 CAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAAAG
1 AAAAAAATATTTTT-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAG
* *
1655160 G--GTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTTC
65 GATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATC-AA-TTTTC
* * **
1655213 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCGATTTTTCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAAATATTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
* *
1655278 ATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTA
66 ATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATCAATTTTC
* * * *
1655330 AAAAAAATATTTTTGGAGAAAAGTTGAAATTATCAATTTTCCTTGAAAATAAAAGTTTCAAAAAA
1 AAAAAAATATTTTTGGA-AAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCAAAAAA
1655395 --ATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTC
64 GGATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTC
1655431 CTACACAAGA
Statistics
Matches: 299, Mismatches: 24, Indels: 25
0.86 0.07 0.07
Matches are distributed among these distances:
114 2 0.01
115 36 0.12
116 61 0.20
117 101 0.34
118 49 0.16
119 49 0.16
120 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (117 bp):
AAAAAAATATTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
ATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATCAATTTTC
Found at i:1656007 original size:21 final size:22
Alignment explanation
Indices: 1655975--1656030 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
1655965 AAAATTATGT
1655975 TTTTACTTTATTTATCTATATA
1 TTTTACTTTATTTATCTATATA
* * *
1655997 TTTTA-TTTATTTATTTATCTT
1 TTTTACTTTATTTATCTATATA
*
1656018 TTTTATTTTATTT
1 TTTTACTTTATTT
1656031 TAATTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTACTTTATTTATCTATATA
Found at i:1656013 original size:25 final size:25
Alignment explanation
Indices: 1655976--1656093 Score: 98
Period size: 25 Copynumber: 4.6 Consensus size: 25
1655966 AAATTATGTT
*
1655976 TTTACTTTATTTATCTATATATTTTA
1 TTTA-TTTATTTATCTTTATATTTTA
*
1656002 TTTATTTATTTATCTTTTTTATTTTA
1 TTTATTTATTTATC-TTTATATTTTA
* *
1656028 TTTTAATTATTTAT-TTTATCTTGCTTA
1 -TTTATTTATTTATCTTTATATT--TTA
* *
1656055 TTTA-TTGTTTATCTTTA-ATTGTA
1 TTTATTTATTTATCTTTATATTTTA
*
1656078 TTTTTTATATTTATCT
1 TTTATT-TATTTATCT
1656094 AATTTTTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
23 5 0.07
24 1 0.01
25 33 0.44
26 21 0.28
27 15 0.20
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (25 bp):
TTTATTTATTTATCTTTATATTTTA
Found at i:1656022 original size:17 final size:18
Alignment explanation
Indices: 1655976--1656091 Score: 70
Period size: 17 Copynumber: 6.6 Consensus size: 18
1655966 AAATTATGTT
*
1655976 TTTA-CTTTATTTATCTA
1 TTTATCTTTATTTATTTA
*
1655993 TATAT-TTTATTTATTTA
1 TTTATCTTTATTTATTTA
1656010 TTTATCTTT-TTTA--T-
1 TTTATCTTTATTTATTTA
*
1656024 TTTAT-TTTAATTATTTA
1 TTTATCTTTATTTATTTA
*
1656041 TTTTATCTTGCTTATTTA-TTG
1 -TTTATC-T--TTATTTATTTA
1656062 TTTATCTTTAATTGTATTT-
1 TTTATCTTT-ATT-TATTTA
*
1656081 TTTATATTTAT
1 TTTATCTTTAT
1656092 CTAATTTTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 27
0.70 0.06 0.24
Matches are distributed among these distances:
13 3 0.04
14 8 0.10
15 1 0.01
16 1 0.01
17 24 0.31
18 13 0.17
19 11 0.14
20 9 0.12
21 2 0.03
22 6 0.08
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTATCTTTATTTATTTA
Found at i:1656040 original size:13 final size:13
Alignment explanation
Indices: 1655975--1656046 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
1655965 AAAATTATGT
1655975 TTTTACTTTATTTA
1 TTTTA-TTTATTTA
* *
1655989 -TCTATATATTT-
1 TTTTATTTATTTA
1656000 TATTTATTTATTTA
1 T-TTTATTTATTTA
1656014 TCTTT-TTTATTTTA
1 T-TTTATTTA-TTTA
*
1656028 TTTTAATTATTTA
1 TTTTATTTATTTA
1656041 TTTTAT
1 TTTTAT
1656047 CTTGCTTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
12 6 0.13
13 28 0.61
14 12 0.26
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:1656040 original size:18 final size:18
Alignment explanation
Indices: 1656019--1656074 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
1656009 ATTTATCTTT
1656019 TTTATTTTATTTTAATTA
1 TTTATTTTATTTTAATTA
* **
1656037 TTTATTTTATCTTGCTTA
1 TTTATTTTATTTTAATTA
1656055 TTTATTGTTTATCTTTAATT
1 TTTA-T-TTTAT-TTTAATT
1656075 GTATTTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 19 0.66
19 1 0.03
20 5 0.17
21 4 0.14
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTATTTTATTTTAATTA
Found at i:1656060 original size:4 final size:4
Alignment explanation
Indices: 1655976--1656043 Score: 55
Period size: 4 Copynumber: 15.8 Consensus size: 4
1655966 AAATTATGTT
* * *
1655976 TTTA CTTTA TTTA TCTA TATA TTTTA TTTA TTTA TTTA TCTTT TTTA TTTTA
1 TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA T-TTA TTTA -TTTA
*
1656028 TTTTA ATTA TTTA TTT
1 -TTTA TTTA TTTA TTT
1656044 TATCTTGCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
4 34 0.64
5 19 0.36
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:1656060 original size:31 final size:31
Alignment explanation
Indices: 1655995--1656057 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
1655985 TTTATCTATA
* **
1655995 TATTTTATTTATTTATTTATCTTTTTTATTT
1 TATTTTAATTATTTATTTATCTTGCTTATTT
1656026 TATTTTAATTATTTATTTTATCTTGCTTATTT
1 TATTTTAATTATTTA-TTTATCTTGCTTATTT
1656058 ATTGTTTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.73
Consensus pattern (31 bp):
TATTTTAATTATTTATTTATCTTGCTTATTT
Found at i:1657300 original size:48 final size:46
Alignment explanation
Indices: 1657226--1657330 Score: 147
Period size: 48 Copynumber: 2.2 Consensus size: 46
1657216 TAAAAAAAAT
1657226 AAAAAAAATTTTAAATAGACCAAAATGGTGAAAAATATAGAAATAA
1 AAAAAAAATTTTAAATAGACCAAAATGGTGAAAAATATAGAAATAA
* * *
1657272 AAAAGAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATGAA
1 AAAA-AAAATTT-TAAATAGACCAAAATGGTGAAAAATATAGAAAT-AA
1657321 AAATAAAAAT
1 AAA-AAAAAT
1657331 AAAAATAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
46 4 0.08
47 7 0.13
48 30 0.58
49 10 0.19
50 1 0.02
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (46 bp):
AAAAAAAATTTTAAATAGACCAAAATGGTGAAAAATATAGAAATAA
Found at i:1663101 original size:108 final size:109
Alignment explanation
Indices: 1662906--1663335 Score: 550
Period size: 108 Copynumber: 4.0 Consensus size: 109
1662896 TGTTAAAGAT
* * *
1662906 AATGAAAAGCTTTGAAATTTTGGAT-TGAACTCCTAAATTTTTTAAATGAGAACCTTTGAATTTA
1 AATGAGAAGCTTTGAACTTTTGGATGTGAACTCCTAAATTTTTTGAATGAGAACCTTTGAATTTA
* *
1662970 GATATA-AAACTCTAAAATCTATCGAATAG-GAATATTTGAATTTG
66 GATA-AGAAACTCTAAAATCTATCGAAT-GTGAATATTTGAACTCG
* * *
1663014 AATTAGAAGCTTTGAACTTGTGGATGTGAACTCC-AAATTTTTTGAATGAGAACCTTTAAATTTA
1 AATGAGAAGCTTTGAACTTTTGGATGTGAACTCCTAAATTTTTTGAATGAGAACCTTTGAATTTA
* * *
1663078 GATAAGAAATTCTAAAATCTATCGAATGTAAATCTTTGAACTCG
66 GATAAGAAACTCTAAAATCTATCGAATGTGAATATTTGAACTCG
* * *
1663122 AATGAGAAGTTTTGAACTTTTAGATGTGAAC-CCCAAATTTTTT-AATGAGAACCTTTGAATTTA
1 AATGAGAAGCTTTGAACTTTTGGATGTGAACTCCTAAATTTTTTGAATGAGAACCTTTGAATTTA
* * * * *
1663185 GATGAGAAACTTTAAAATCTATCAAATATGAATCTTTGAACTCG
66 GATAAGAAACTCTAAAATCTATCGAATGTGAATATTTGAACTCG
* *
1663229 AATGAAAAGCTTTGAACTTTTGTATGTGAAC-CCTAAATATTTTTGAATGAGAACCTTTGAATTT
1 AATGAGAAGCTTTGAACTTTTGGATGTGAACTCCTAAAT-TTTTTGAATGAGAACCTTTGAATTT
** * * *
1663293 AGATGTGAAACTCTAAAATTTATTGAATGTGAATATTTAAACT
65 AGATAAGAAACTCTAAAATCTATCGAATGTGAATATTTGAACT
1663336 TTAGTGAGAA
Statistics
Matches: 281, Mismatches: 35, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
107 94 0.33
108 125 0.44
109 62 0.22
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (109 bp):
AATGAGAAGCTTTGAACTTTTGGATGTGAACTCCTAAATTTTTTGAATGAGAACCTTTGAATTTA
GATAAGAAACTCTAAAATCTATCGAATGTGAATATTTGAACTCG
Found at i:1664266 original size:13 final size:14
Alignment explanation
Indices: 1664248--1664285 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
1664238 TATTTATCTA
1664248 TATATTTATT-TTT
1 TATATTTATTATTT
*
1664261 TATATTTTTTATTT
1 TATATTTATTATTT
1664275 TAT-TTTATTAT
1 TATATTTATTAT
1664286 GTATTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TATATTTATTATTT
Found at i:1664311 original size:21 final size:20
Alignment explanation
Indices: 1664279--1664317 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1664269 TTATTTTATT
1664279 TTATTATGTATTTTATCTTGC
1 TTATTATGTA-TTTATCTTGC
1664300 TTATT-TGTTATTTATCTT
1 TTATTATG-TATTTATCTT
1664318 TAATTGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (20 bp):
TTATTATGTATTTATCTTGC
Found at i:1666143 original size:15 final size:17
Alignment explanation
Indices: 1666116--1666150 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1666106 ATATATGTTA
1666116 TAATATACTTTC-ATCC
1 TAATATACTTTCAATCC
1666132 TAATAT-CTTTCAATCC
1 TAATATACTTTCAATCC
1666148 TAA
1 TAA
1666151 AATTATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATATACTTTCAATCC
Found at i:1676567 original size:30 final size:31
Alignment explanation
Indices: 1676533--1676593 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
1676523 AGAAATCTAT
1676533 TAAATTCATA-ATAAAAGA-AAAAATAAAAAA
1 TAAATT-ATATATAAAAGATAAAAATAAAAAA
*
1676563 TAAATTATATATAAAATATTAAAAATAAAAA
1 TAAATTATATATAAAAGA-TAAAAATAAAAA
1676594 TTTATTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 13 0.48
32 11 0.41
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (31 bp):
TAAATTATATATAAAAGATAAAAATAAAAAA
Found at i:1676658 original size:16 final size:15
Alignment explanation
Indices: 1676632--1676665 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1676622 TTAATTCCAA
*
1676632 AATATAAATAATTGT
1 AATATAAATAATTAT
1676647 AATATAAAATAATTAT
1 AATAT-AAATAATTAT
1676663 AAT
1 AAT
1676666 TTTAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
AATATAAATAATTAT
Found at i:1676664 original size:22 final size:22
Alignment explanation
Indices: 1676639--1676680 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1676629 CAAAATATAA
* *
1676639 ATAATTGTAATATAAAATAATT
1 ATAATTGTAAGAAAAAATAATT
*
1676661 ATAATTTTAAGAAAAAATAA
1 ATAATTGTAAGAAAAAATAA
1676681 AATTTTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (22 bp):
ATAATTGTAAGAAAAAATAATT
Found at i:1685535 original size:24 final size:24
Alignment explanation
Indices: 1685501--1685555 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
1685491 AAATTTTTAT
* *
1685501 TAAATTATTTAATCATAATTATAA
1 TAAATTTTTTAATCACAATTATAA
*
1685525 TAAATTTTTTAATTACAATTATAA
1 TAAATTTTTTAATCACAATTATAA
1685549 TAAATTT
1 TAAATTT
1685556 CATCGTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TAAATTTTTTAATCACAATTATAA
Found at i:1691623 original size:14 final size:14
Alignment explanation
Indices: 1691615--1691654 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
1691605 AATATTATTT
1691615 TTTAAATATAAATA
1 TTTAAATATAAATA
1691629 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
*
1691645 TATAAATATA
1 TTTAAATATA
1691655 TAAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:1691627 original size:20 final size:21
Alignment explanation
Indices: 1691582--1691630 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1691572 TAAAATTAAC
*
1691582 AAAATTTTATTTTTAAAATAT
1 AAAATATTATTTTTAAAATAT
*
1691603 AAAATATTATTTTTTAAATAT
1 AAAATATTATTTTTAAAATAT
1691624 -AAATATT
1 AAAATATT
1691631 TAAATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAAATATTATTTTTAAAATAT
Found at i:1691636 original size:8 final size:8
Alignment explanation
Indices: 1691620--1691660 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
1691610 TATTTTTTAA
1691620 ATATAAAT
1 ATATAAAT
*
1691628 ATTTAAAT
1 ATATAAAT
*
1691636 ATATAATT
1 ATATAAAT
1691644 ATATAAAT
1 ATATAAAT
1691652 ATATAAAT
1 ATATAAAT
1691660 A
1 A
1691661 AAAAATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAAAT
Found at i:1691667 original size:24 final size:24
Alignment explanation
Indices: 1691620--1691668 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1691610 TATTTTTTAA
* * *
1691620 ATATAAATATTTAAATATATAATT
1 ATATAAATATATAAATAAAAAATT
1691644 ATATAAATATATAAATAAAAAATT
1 ATATAAATATATAAATAAAAAATT
1691668 A
1 A
1691669 ATTTAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAATATATAAATAAAAAATT
Found at i:1693926 original size:1 final size:1
Alignment explanation
Indices: 1693920--1693944 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1693910 CTTCTTTTGT
1693920 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
1693945 CCAAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1705657 original size:2 final size:2
Alignment explanation
Indices: 1705650--1705678 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1705640 GCAGCAGCTC
1705650 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1705679 CAAGTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1713805 original size:2 final size:2
Alignment explanation
Indices: 1713746--1713785 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1713736 GCTTATTAGA
* *
1713746 AT AT AT AT AT AT AT GT AT AT AT CT 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
1713786 GATCAATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1713942 original size:2 final size:2
Alignment explanation
Indices: 1713930--1713965 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
1713920 TCTGTAAACA
1713930 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1713966 CTATTGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1721878 original size:17 final size:16
Alignment explanation
Indices: 1721846--1721880 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1721836 TTATATTTAT
1721846 ATAAAAAAATAATTAA
1 ATAAAAAAATAATTAA
*
1721862 ATAAATAAATCAATTAA
1 ATAAAAAAAT-AATTAA
1721879 AT
1 AT
1721881 TTACACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAAAAAATAATTAA
Found at i:1729568 original size:23 final size:23
Alignment explanation
Indices: 1729538--1729583 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1729528 AACGAGTCAG
1729538 GCCGGTGTTTGATCTTTTCTTTC
1 GCCGGTGTTTGATCTTTTCTTTC
1729561 GCCGGTGTTTGATCTTTTCTTTC
1 GCCGGTGTTTGATCTTTTCTTTC
1729584 AGTTCATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.04, C:0.22, G:0.22, T:0.52
Consensus pattern (23 bp):
GCCGGTGTTTGATCTTTTCTTTC
Found at i:1732544 original size:16 final size:16
Alignment explanation
Indices: 1732497--1732544 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
1732487 AATACCAGTG
*
1732497 GCCAGAAACATAAACG
1 GCCAGAAACATAAACT
1732513 GCCAGAAACATAAACT
1 GCCAGAAACATAAACT
1732529 GCCAGAAACATAAACT
1 GCCAGAAACATAAACT
1732545 AGTAAGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.50, C:0.25, G:0.15, T:0.10
Consensus pattern (16 bp):
GCCAGAAACATAAACT
Found at i:1733393 original size:29 final size:29
Alignment explanation
Indices: 1733343--1733399 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1733333 CTGACAAAAC
*
1733343 ACTCACAATCATGCCATCATAA-ATTCAT
1 ACTCACAATCATGCCAACATAACATTCAT
* *
1733371 ACTCAGCAATCATGCTAAGATAACATTCA
1 ACTCA-CAATCATGCCAACATAACATTCA
1733400 AGATGAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 14 0.58
30 5 0.21
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.26
Consensus pattern (29 bp):
ACTCACAATCATGCCAACATAACATTCAT
Found at i:1744736 original size:23 final size:22
Alignment explanation
Indices: 1744682--1744724 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1744672 TGTTGAAGTT
* * *
1744682 ATTATAAAATATAATAATTTTA
1 ATTATTAATTATAAAAATTTTA
1744704 ATTATTAATTATAAAAATTTT
1 ATTATTAATTATAAAAATTTT
1744725 TATTTTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTATTAATTATAAAAATTTTA
Found at i:1750058 original size:329 final size:329
Alignment explanation
Indices: 1749460--1750118 Score: 1318
Period size: 329 Copynumber: 2.0 Consensus size: 329
1749450 GATAGTCAAG
1749460 AGACAAATGGATACAAAATAACAGACATATAGAGAAAACAAAAAGGGATGATTGCATGAATGTTT
1 AGACAAATGGATACAAAATAACAGACATATAGAGAAAACAAAAAGGGATGATTGCATGAATGTTT
1749525 TGATATGAACAACTCTGGTCTATGTCATTGGTTATTCTTCGAACAAATAACTACAAGTGCTTATC
66 TGATATGAACAACTCTGGTCTATGTCATTGGTTATTCTTCGAACAAATAACTACAAGTGCTTATC
1749590 TTAATTCAGAGATTAGGTTTTTGAGAAAACTCAAAGAAATATCAGTTCAGACATTTTATAGAGGT
131 TTAATTCAGAGATTAGGTTTTTGAGAAAACTCAAAGAAATATCAGTTCAGACATTTTATAGAGGT
1749655 CATAAAGAAGGGATACTATACCCTTATTATGGAATAAAGATACAAAGGAAGACAAAAGCACTAAT
196 CATAAAGAAGGGATACTATACCCTTATTATGGAATAAAGATACAAAGGAAGACAAAAGCACTAAT
1749720 TTTCTTTTCTTAAGACAAATGCTGATCCAAGAATAAAACTGAGTGAAGACGAGCCAGAATGTGAC
261 TTTCTTTTCTTAAGACAAATGCTGATCCAAGAATAAAACTGAGTGAAGACGAGCCAGAATGTGAC
1749785 ATAT
326 ATAT
1749789 AGACAAATGGATACAAAATAACAGACATATAGAGAAAACAAAAAGGGATGATTGCATGAATGTTT
1 AGACAAATGGATACAAAATAACAGACATATAGAGAAAACAAAAAGGGATGATTGCATGAATGTTT
1749854 TGATATGAACAACTCTGGTCTATGTCATTGGTTATTCTTCGAACAAATAACTACAAGTGCTTATC
66 TGATATGAACAACTCTGGTCTATGTCATTGGTTATTCTTCGAACAAATAACTACAAGTGCTTATC
1749919 TTAATTCAGAGATTAGGTTTTTGAGAAAACTCAAAGAAATATCAGTTCAGACATTTTATAGAGGT
131 TTAATTCAGAGATTAGGTTTTTGAGAAAACTCAAAGAAATATCAGTTCAGACATTTTATAGAGGT
1749984 CATAAAGAAGGGATACTATACCCTTATTATGGAATAAAGATACAAAGGAAGACAAAAGCACTAAT
196 CATAAAGAAGGGATACTATACCCTTATTATGGAATAAAGATACAAAGGAAGACAAAAGCACTAAT
1750049 TTTCTTTTCTTAAGACAAATGCTGATCCAAGAATAAAACTGAGTGAAGACGAGCCAGAATGTGAC
261 TTTCTTTTCTTAAGACAAATGCTGATCCAAGAATAAAACTGAGTGAAGACGAGCCAGAATGTGAC
1750114 ATAT
326 ATAT
1750118 A
1 A
1750119 AAAATAATGG
Statistics
Matches: 330, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
329 330 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (329 bp):
AGACAAATGGATACAAAATAACAGACATATAGAGAAAACAAAAAGGGATGATTGCATGAATGTTT
TGATATGAACAACTCTGGTCTATGTCATTGGTTATTCTTCGAACAAATAACTACAAGTGCTTATC
TTAATTCAGAGATTAGGTTTTTGAGAAAACTCAAAGAAATATCAGTTCAGACATTTTATAGAGGT
CATAAAGAAGGGATACTATACCCTTATTATGGAATAAAGATACAAAGGAAGACAAAAGCACTAAT
TTTCTTTTCTTAAGACAAATGCTGATCCAAGAATAAAACTGAGTGAAGACGAGCCAGAATGTGAC
ATAT
Found at i:1755697 original size:36 final size:36
Alignment explanation
Indices: 1755624--1755712 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 36
1755614 CAGTAGAAAA
* *
1755624 CCTGGAGGCATGCCTGGTGGGTTTCCGGGTGGAATG
1 CCTGGAGGAATGCCTGGTGGGTTTCCGGGTAGAATG
* *
1755660 CCTGGAGGAATGCCTGGT-GGTTTCCCTGGTAGCATG
1 CCTGGAGGAATGCCTGGTGGGTTT-CCGGGTAGAATG
* * *
1755696 CCGGGTGGGATGCCTGG
1 CCTGGAGGAATGCCTGG
1755713 AAATGTTGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 5 0.11
36 40 0.89
ACGTcount: A:0.11, C:0.21, G:0.43, T:0.25
Consensus pattern (36 bp):
CCTGGAGGAATGCCTGGTGGGTTTCCGGGTAGAATG
Found at i:1755711 original size:24 final size:24
Alignment explanation
Indices: 1755648--1755713 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
1755638 TGGTGGGTTT
1755648 CCGGGTGGAATGCCTGGAGGAATG
1 CCGGGTGGAATGCCTGGAGGAATG
* ** * *
1755672 CCTGGTGGTTTCCCTGGTA-GCATG
1 CCGGGTGGAATGCCTGG-AGGAATG
*
1755696 CCGGGTGGGATGCCTGGA
1 CCGGGTGGAATGCCTGGA
1755714 AATGTTGATT
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
23 1 0.03
24 30 0.94
25 1 0.03
ACGTcount: A:0.14, C:0.21, G:0.42, T:0.23
Consensus pattern (24 bp):
CCGGGTGGAATGCCTGGAGGAATG
Found at i:1756099 original size:26 final size:25
Alignment explanation
Indices: 1756046--1756099 Score: 65
Period size: 28 Copynumber: 2.1 Consensus size: 25
1756036 CTTTACTATG
1756046 TTTTATTTTTTTCCTCTCCTAGTCAT
1 TTTTATTTTTTTCCTCTCCTAG-CAT
*
1756072 TTTTATTTTTCTTTTCTCTCCTAG-AT
1 TTTTA-TTTT-TTTCCTCTCCTAGCAT
1756098 TT
1 TT
1756100 GCAATTTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 9 0.36
27 4 0.16
28 12 0.48
ACGTcount: A:0.11, C:0.20, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTATTTTTTTCCTCTCCTAGCAT
Found at i:1759849 original size:8 final size:9
Alignment explanation
Indices: 1759836--1759860 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1759826 ATTTTATTTA
1759836 TTTTTTTCT
1 TTTTTTTCT
1759845 TTTTTTTCT
1 TTTTTTTCT
1759854 TTTTTTT
1 TTTTTTT
1759861 TCTTCTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:1759849 original size:10 final size:10
Alignment explanation
Indices: 1759836--1759864 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1759826 ATTTTATTTA
1759836 TTTTTTTC-T
1 TTTTTTTCTT
1759845 TTTTTTTCTT
1 TTTTTTTCTT
1759855 TTTTTTTCTT
1 TTTTTTTCTT
1759865 CTTTCTGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:1760446 original size:21 final size:21
Alignment explanation
Indices: 1760408--1760447 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1760398 TGTGTGTCTG
* *
1760408 AGAAGAAAAGAGAGAAAAAAA
1 AGAAGAAAACAGAAAAAAAAA
*
1760429 AGAAGAAAACTGAAAAAAA
1 AGAAGAAAACAGAAAAAAA
1760448 TAGCTGATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.20, T:0.03
Consensus pattern (21 bp):
AGAAGAAAACAGAAAAAAAAA
Found at i:1760757 original size:21 final size:22
Alignment explanation
Indices: 1760706--1760768 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
1760696 TTCAAGTAAA
*
1760706 AAAATTTT-TTTTGAATT-TTTT
1 AAAATTTTATTTT-TATTATTTT
*
1760727 AAAATATTATTTTTATTATTTT
1 AAAATTTTATTTTTATTATTTT
* *
1760749 -AAATTTTATTATTAATATTT
1 AAAATTTTATTTTTATTATTT
1760769 ATGCATATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 27 0.77
22 8 0.23
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
AAAATTTTATTTTTATTATTTT
Found at i:1760899 original size:10 final size:10
Alignment explanation
Indices: 1760884--1760917 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1760874 TTTATTAAAT
1760884 AAAAATAATA
1 AAAAATAATA
1760894 AAAAATTAATA
1 AAAAA-TAATA
*
1760905 AAAAATAAGA
1 AAAAATAATA
1760915 AAA
1 AAA
1760918 GGAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAAATAATA
Found at i:1761090 original size:22 final size:23
Alignment explanation
Indices: 1761048--1761091 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
1761038 TTTTCAATAC
*
1761048 AATAAAAATTTTATTTAATAAAAT
1 AATAAAAA-TTTAATTAATAAAAT
1761072 AATAAAAA-TTAATTAATAAA
1 AATAAAAATTTAATTAATAAA
1761092 TTAAGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
24 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AATAAAAATTTAATTAATAAAAT
Found at i:1761316 original size:205 final size:197
Alignment explanation
Indices: 1760890--1761318 Score: 420
Period size: 202 Copynumber: 2.1 Consensus size: 197
1760880 AAATAAAAAT
* * * *
1760890 AATAAAAAATTAATAAAAAATAAGAAAAGGAAAATTTTTACCCAACGATGCGATTTAAAGGTACT
1 AATAAAAAATTAAT-AAAAATAAGAAAAAGAAAATTTTTAACCAACGATGAGATTTAAAAGTACT
* * * * *
1760955 TCGAGTAGTGATACTTACGAAATCTCTAGGTGAGAAAATTTTTTTTTTAAATAATGCCAGTGTAT
65 TCGAGTAGTGATACTTACAAAATCCCTAGGTGAGAAAA--TTTTTTTAAAATAATACCAGTATAT
** * * *
1761020 TTGAGTATTTATAAAAAGTTTTCAATACAATAAAAATTTTATTTAATAAAATAATAAAAATTAAT
128 TAAAATATTTATAAAAAGTTTTCAATACAATAAAAATTTTATTTAATAAAATAATAAAAATAAAA
1761085 TAATA
193 TAATA
* *
1761090 AATTAAGAATAAAATAATAAAAATAAGAAAAAAGAAAA-TTTTAACCAATGATGAGATTCTAAAA
1 AA-T-A-AA-AAATTAATAAAAATAAG-AAAAAGAAAATTTTTAACCAACGATGAGATT-TAAAA
* * *
1761154 GTA-TTCTGAGTAGTGATGCTTTACAAAATCCCTAGGTGAGAAGA-TTTTTTAAAATATTACCAG
60 GTACTTC-GAGTAGTGATAC-TTACAAAATCCCTAGGTGAGAAAATTTTTTTAAAATAATACCAG
* * **
1761217 TATATTAAAATATTTATAGAAAA-TCTTT-AATATAATAAAAATTTCTTTTTCTTCAAAATTTAA
123 TATATTAAAATATTTATA-AAAAGT-TTTCAATACAATAAAAATTT-TATTTAAT-AAAA--T-A
1761280 ATTAAAAATAAAAT-ATCA
181 A-TAAAAATAAAATAAT-A
1761298 AATAAAACAATTAATAAAAAT
1 AATAAAA-AATTAATAAAAAT
1761319 TTCTAAAAAA
Statistics
Matches: 187, Mismatches: 24, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
200 2 0.01
201 1 0.01
202 47 0.25
203 43 0.23
204 39 0.21
205 35 0.19
206 2 0.01
207 5 0.03
208 13 0.07
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (197 bp):
AATAAAAAATTAATAAAAATAAGAAAAAGAAAATTTTTAACCAACGATGAGATTTAAAAGTACTT
CGAGTAGTGATACTTACAAAATCCCTAGGTGAGAAAATTTTTTTAAAATAATACCAGTATATTAA
AATATTTATAAAAAGTTTTCAATACAATAAAAATTTTATTTAATAAAATAATAAAAATAAAATAA
TA
Found at i:1773321 original size:47 final size:48
Alignment explanation
Indices: 1773212--1773661 Score: 471
Period size: 48 Copynumber: 9.6 Consensus size: 48
1773202 TTGAGAACAT
* * * * *
1773212 ATAATTTTTTAAAATTATTGAGCCTCTGCTGAGAGAAACTTTTTTAAG
1 ATAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCAAG
* * * *
1773260 ATGAAA-TTTTAAAGTTATTGAGTCTCTACTAAGAGAAGCTTTTTCAAG
1 AT-AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCAAG
* * * *
1773308 ATTAA-TTTTAAAGTTGTTGAGTCTCTGCTGATATG-AGCTTTTTTAAG
1 ATAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAAGCTTTTTCAAG
* * * *
1773355 ATGAATTTTTAAAGTTGTTGAGCCTCTACT-AGAGGAGCATTTTC-A-
1 ATAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCAAG
* * * * *
1773400 A-AAATTTTTAAAGTTGTGGAGTCTCTGCTTAGATAAACTTTTTCAAG
1 ATAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCAAG
* * *
1773447 ATGAAA-TTTTAAAATTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAG
1 AT-AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCAAG
* *
1773495 ATAAATTTTTAAAGTTGTTAAGCCTCTGTTGAGATG-AGCATTTTT--A-
1 ATAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAAGC-TTTTTCAAG
*
1773541 A-AAATTTTTAAAATTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCAAG
1 ATAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCAAG
*
1773588 ATAAATTTTTAAAGTTGTTGAG-CTCTACTGAGATG-AGCTTTTTCAAG
1 ATAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAAGCTTTTTCAAG
*
1773635 ATGAATTTTTAAAGTTGTTGAGCCTCT
1 ATAAATTTTTAAAGTTGTTGAGCCTCT
1773662 AATTAGATGA
Statistics
Matches: 338, Mismatches: 45, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
44 30 0.09
45 43 0.13
46 5 0.01
47 99 0.29
48 150 0.44
49 11 0.03
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (48 bp):
ATAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCAAG
Found at i:1773670 original size:140 final size:139
Alignment explanation
Indices: 1773266--1773681 Score: 566
Period size: 140 Copynumber: 3.0 Consensus size: 139
1773256 TAAGATGAAA
* * * *
1773266 TTTTAAAGTTATTGAGTCTCTACTAAGAGAAGCTTTTTCAAGATTAATTTTAAAGTTGTTGAGTC
1 TTTTAAAGTTGTTGAGTCTCTGCTAAGAGAAGCTTTTTCAAGATAAATTTTAAAGTTGTTGAGCC
* * * *
1773331 TCTGCTGATATGAGCTTTTTTAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTAGAGGAGCATT
66 TCTGCTGAGATGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTATTAGATGAGCATT
*
1773396 TTCAAAAAT
131 TTTAAAAAT
* * * * * *
1773405 TTTTAAAGTTGTGGAGTCTCTGCTTAGATAAACTTTTTCAAGATGAAATTTTAAAATTATTGAGC
1 TTTTAAAGTTGTTGAGTCTCTGCTAAGAGAAGCTTTTTCAAGAT-AAATTTTAAAGTTGTTGAGC
* * * *
1773470 CTCTGCTGAGAGGAGCTTTTTCAAGATAAATTTTTAAAGTTGTTAAGCCTCTGTTGAGATGAGCA
65 CTCTGCTGAGATGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTATT-AGATGAGCA
1773535 TTTTTAAAAAT
129 TTTTTAAAAAT
* * *
1773546 TTTTAAAATTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCAAGATAAATTTTTAAAGTTGTTGAG-
1 TTTTAAAGTTGTTGAGTCTCTGCTAAGAGAAGCTTTTTCAAGATAAA-TTTTAAAGTTGTTGAGC
*
1773610 CTCTACTGAGATGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTAATTAGATGAGC-
65 CTCTGCTGAGATGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTCT-ATTAGATGAGCA
*
1773674 TTTCTAAA
129 TTTTTAAA
1773682 TTAAAAAAAA
Statistics
Matches: 240, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
139 45 0.19
140 123 0.51
141 72 0.30
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (139 bp):
TTTTAAAGTTGTTGAGTCTCTGCTAAGAGAAGCTTTTTCAAGATAAATTTTAAAGTTGTTGAGCC
TCTGCTGAGATGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTATTAGATGAGCATT
TTTAAAAAT
Found at i:1782769 original size:40 final size:40
Alignment explanation
Indices: 1782708--1782789 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
1782698 AACTTAGAAG
* * *
1782708 ATAAGTAGAATTAGTAGGTTATTAATTATGAATTTAATCA
1 ATAAGTAGAATTAGCAAGTTATTAATTATGAATTAAATCA
*
1782748 ATAAGTTGAATTAGCAAGTTATTAATTATGAATTAAATCA
1 ATAAGTAGAATTAGCAAGTTATTAATTATGAATTAAATCA
1782788 AT
1 AT
1782790 GTGACGGAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (40 bp):
ATAAGTAGAATTAGCAAGTTATTAATTATGAATTAAATCA
Found at i:1790672 original size:21 final size:21
Alignment explanation
Indices: 1790631--1790672 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
1790621 TAGAAATTTA
*
1790631 ATTTTTAAATTTATTCGATATC
1 ATTTTTAAATTAATTC-ATATC
1790653 ATTTTTAAAATTAATT-ATAT
1 ATTTTT-AAATTAATTCATAT
1790673 GAATCAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTTTAAATTAATTCATATC
Found at i:1797515 original size:26 final size:24
Alignment explanation
Indices: 1797478--1797532 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
1797468 GTGTTAATTG
*
1797478 TTTTA-AAGTTTTAGTTATTTGAGT
1 TTTTATAAGTTTTAGTTATTTG-GA
*
1797502 TTTTATAAGGTTTTGGTTATTTGGA
1 TTTTATAA-GTTTTAGTTATTTGGA
1797527 TTTTAT
1 TTTTAT
1797533 TTTAGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 5 0.19
25 9 0.33
26 13 0.48
ACGTcount: A:0.22, C:0.00, G:0.18, T:0.60
Consensus pattern (24 bp):
TTTTATAAGTTTTAGTTATTTGGA
Found at i:1800132 original size:20 final size:20
Alignment explanation
Indices: 1800099--1800143 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1800089 AAAGAAGACA
*
1800099 AATG-ATTGATTAATTACCT
1 AATGCATTGACTAATTACCT
1800118 AATGCATTGACTAATTACCT
1 AATGCATTGACTAATTACCT
1800138 AATGCA
1 AATGCA
1800144 CTTCCTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (20 bp):
AATGCATTGACTAATTACCT
Found at i:1803140 original size:29 final size:29
Alignment explanation
Indices: 1803052--1803144 Score: 75
Period size: 32 Copynumber: 3.1 Consensus size: 29
1803042 TGATACGATG
* *
1803052 ATAT-AATATTAATAAAATATAAAAAATTAAA
1 ATATAAAT-TTAATAAATTA-AAAAAATT-AT
*
1803083 ATATATAATTT--TAAATTTTAATAATAATTAT
1 ATATA-AATTTAATAAA--TTAA-AAAAATTAT
1803114 ATATAAATTTAATAAATTAAAAAAATTAT
1 ATATAAATTTAATAAATTAAAAAAATTAT
1803143 AT
1 AT
1803145 TTTTATATCG
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
29 10 0.20
30 13 0.25
31 11 0.22
32 14 0.27
33 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
ATATAAATTTAATAAATTAAAAAAATTAT
Found at i:1813707 original size:4 final size:4
Alignment explanation
Indices: 1813700--1813739 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
1813690 ATATATAATT
* *
1813700 TTTA TTTA TTTA ATTA TTTA TTTA TTTA TATA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1813740 ATTTTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:1813747 original size:16 final size:16
Alignment explanation
Indices: 1813680--1813754 Score: 62
Period size: 12 Copynumber: 5.2 Consensus size: 16
1813670 GATAAATCCG
1813680 ATTTAATTTTATA--T
1 ATTTAATTTTATATTT
1813694 A--TAATTTT-TATTT
1 ATTTAATTTTATATTT
1813707 ATTTAA---T-TATTT
1 ATTTAATTTTATATTT
1813719 ATTT-ATTTATATATTT
1 ATTTAATTT-TATATTT
1813735 ATTTAATTTTATATTAT
1 ATTTAATTTTATATT-T
1813752 ATT
1 ATT
1813755 AAAAATAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 19
0.72 0.00 0.28
Matches are distributed among these distances:
11 3 0.06
12 17 0.34
13 2 0.04
14 1 0.02
15 4 0.08
16 15 0.30
17 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTAATTTTATATTT
Done.