Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 396 of 425
Found at i:121277387 original size:180 final size:174
Alignment explanation
Indices: 121276922--121277831 Score: 779
Period size: 180 Copynumber: 5.2 Consensus size: 174
121276912 TTTATTTCTG
* * * *
121276922 TTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATCTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---ACACGCTGAGGAATTTTCA
* * *
121276987 ATTTATGTATTTTCAA-TTTATGTTTC--AAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCC
63 ATTTATGTTTTTTCAATTTTATTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
** * *
121277049 TCGGGTCGCATGTCGAGGTATTTTCAAAATTTGCTTTTCAAATTCTA
128 TCGACTCACATGTCGAGGTATTTTCAAAATTTGCTTTTCAAATTATA
* * * *
121277096 TTTTCAAAAATCAACTCGTATTACGACAAGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA---CACGCTGAGGAATTTTCA
* ** ** *
121277161 AGTTCCG-TTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
63 ATTTATGTTTTTTCAATTT-TATTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
*** ** *
121277225 CTCGACTCACATG-CTGAGGTATTTTCAGTTTCTATTTTTTTCAATTTATA
127 CTCGACTCACATGTC-GAGGTATTTTCAAAAT-T-TGCTTTTCAAATTATA
*
121277275 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCTGAGGAATTTTCAAT
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGGAATTTTCAAT
* * *
121277340 TTTTGTTTTTTTTAATTTATATTTTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
65 TTATG-TTTTTTCAATTT-TATTTTTC-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
** * * *
121277405 CTC-A-GGACATG-CTAAGGTAATTTC--AA------TTTC----TGT-
127 CTCGACTCACATGTC-GAGGTATTTTCAAAATTTGCTTTTCAAATTATA
* * * *
121277438 TTGTC-AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---ACACGCTGAGGAATTTTCA
* * * *
121277502 ATTTCTGTTCTTTCAATTTATATTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
63 ATTTATGTTTTTTCAATTT-TATTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
** * * * * * *
121277567 CTCGGTTTACATGCCGAGG-ATTTTCAAAATCTGTTTTTGCAAATTCTG
127 CTCGACTCACATGTCGAGGTATTTTCAAAATTTGCTTTT-CAAATTATA
* *
121277615 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C----CTCACACGCTGAGGAATTTT
* * * *
121277680 CAATTTCTGTTCTTTCAATTTATATTTTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGA
61 CAATTTATGTTTTTTCAATTT-TATTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
** * * ** * *
121277745 GCCTCGGGTTACATGACGAGGTATTTTCAAAAGCTACTTTT-AATTTATA
125 GCCTCGACTCACATGTCGAGGTATTTTCAAAATTTGCTTTTCAAATTATA
* * *
121277794 CTTTTCAAAAAACCGACTCATATTGCGAGAGATGAGTT
1 -TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTT
121277832 AAGCTTTAGC
Statistics
Matches: 611, Mismatches: 82, Indels: 79
0.79 0.11 0.10
Matches are distributed among these distances:
161 36 0.06
162 42 0.07
163 23 0.04
164 32 0.05
165 3 0.00
168 4 0.01
171 4 0.01
172 1 0.00
173 7 0.01
174 59 0.10
175 5 0.01
176 3 0.00
177 81 0.13
178 49 0.08
179 35 0.06
180 180 0.29
181 44 0.07
183 3 0.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (174 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGGAATTTTCAATT
TATGTTTTTTCAATTTTATTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
ACTCACATGTCGAGGTATTTTCAAAATTTGCTTTTCAAATTATA
Found at i:121277474 original size:72 final size:72
Alignment explanation
Indices: 121277371--121277510 Score: 219
Period size: 72 Copynumber: 1.9 Consensus size: 72
121277361 TTTTTCAAAA
* *
121277371 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTAAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTAAGGTAATTTAAATTTCT
121277436 GTTTGTC
66 GTTTGTC
* * *
121277443 AAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAA-ATGAGTTGAGCCTCAGGACACGCTAAGGTAATTTAAATTTC
121277507 TGTT
65 TGTT
121277511 CTTTCAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 2 0.03
72 60 0.97
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTAAGGTAATTTAAATTTCT
GTTTGTC
Found at i:121277566 original size:342 final size:338
Alignment explanation
Indices: 121277084--121277749 Score: 917
Period size: 342 Copynumber: 1.9 Consensus size: 338
121277074 AAAATTTGCT
* *
121277084 TTTCAAATTCTATTTTCAAAAATCAACTCGTATTACGACAAGTGAGTTGAGCCTCAGGGCACGCT
1 TTTCAAATTCTATTTTCAAAAATCAACTCATATTACGACAAGTGAGTTGAGCCTCAGGACACGCT
* * *
121277149 GAGGAATTTTCAAGTTCCGTTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAG
66 GAGGAATTTTAAAGTTCCGTTTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTGCGAGAG
* *** * * * *
121277214 GTGAGTTGAGCCTCGACTCACATGCTGAGGTATTTTCAGTTTCTATTTTTTTCAATTTATATTTT
131 GTGAGTTGAGCCTCGACTCACATGCCGAGG-ATTTTCAAAATCT-GTTTTTGCAAATTAT-GTTT
121277279 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-CTCACATGCTGAGGAATTTTCAATTT
193 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGCTCACATGCTGAGGAATTTTCAATTT
* * *
121277342 TTGTTTTTTTTAATTTATATTTTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
258 CTG-TTCTTTCAATTTATATTTTTC-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
121277407 CAGGACATGCTAAGGTAA
321 CAGGACATGCTAAGGTAA
* * *
121277425 TTTCAATTTCTGTTTGTC-AAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCAGGACACG
1 TTTCAAATTCTATTT-TCAAAAATCAACTCATATTACGACAA-GTGAGTTGAGCCTCAGGACACG
* * * * *
121277488 CTGAGGTATTTTAAATTTCTGTTCTTTCAATTTATATTTTTTAAAAAAATCAACTCATATTGCGA
64 CTGAGGAATTTTAAAGTTCCGTT-TTTCAATTTATACTTTTCAAAAAAATCAACTCATATTGCGA
** * *
121277553 GAGGTGAGTTGAGCCTCGGTTTACATGCCGAGGATTTTCAAAATCTGTTTTTGCAAATTCTGTTT
128 GAGGTGAGTTGAGCCTCGACTCACATGCCGAGGATTTTCAAAATCTGTTTTTGCAAATTATGTTT
*
121277618 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTTCAA
193 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC---GCTCACATGCTGAGGAATTTTCAA
* **
121277683 TTTCTGTTCTTTCAATTTATATTTTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCC
255 TTTCTGTTCTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
121277748 TC
320 TC
121277750 GGGTTACATG
Statistics
Matches: 285, Mismatches: 32, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
339 39 0.14
340 14 0.05
341 81 0.28
342 105 0.37
343 19 0.07
344 27 0.09
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (338 bp):
TTTCAAATTCTATTTTCAAAAATCAACTCATATTACGACAAGTGAGTTGAGCCTCAGGACACGCT
GAGGAATTTTAAAGTTCCGTTTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTCGACTCACATGCCGAGGATTTTCAAAATCTGTTTTTGCAAATTATGTTTTCA
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGCTCACATGCTGAGGAATTTTCAATTTCTG
TTCTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGA
CATGCTAAGGTAA
Found at i:121277642 original size:88 final size:88
Alignment explanation
Indices: 121277425--121277831 Score: 407
Period size: 92 Copynumber: 4.5 Consensus size: 88
121277415 GCTAAGGTAA
* * *
121277425 TTTCAATTTCTGTTTGTC-AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGG--ACAC
1 TTTCAATTTATGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTACAT
* *
121277487 GCTGAGGTATTTT-AAATTTCTGTTC
64 GCCGAGGTATTTTCAAA-ATCTGTTC
* *
121277512 TTTCAATTTATATTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTTAC
1 TTTCAA-TT-TATGTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TTAC
121277577 ATGCCGAGG-ATTTTCAAAATCTGTT-
62 ATGCCGAGGTATTTTCAAAATCTGTTC
* * * *
121277602 TTTGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACAT
1 TTT-CAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TTACAT
* **
121277667 GCTGAGGTATTTTCAATTTCTGTTC
64 GCCGAGGTATTTTCAAAATCTGTTC
* *
121277692 TTTCAATTTATATTTTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGTTAC
1 TTTCAATTTAT-GTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTAC
* * *
121277757 ATGACGAGGTATTTTCAAAAGC--TAC
62 ATGCCGAGGTATTTTCAAAATCTGTTC
* * * * *
121277782 TTTTAATTTATACTTTTCAAAAAACCGACTCATATTGCGAGAGATGAGTT
1 TTTCAATTTAT-GTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTT
121277832 AAGCTTTAGC
Statistics
Matches: 270, Mismatches: 35, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
87 6 0.02
88 53 0.20
89 61 0.23
90 66 0.24
91 14 0.05
92 68 0.25
93 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (88 bp):
TTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTACATGC
CGAGGTATTTTCAAAATCTGTTC
Found at i:121277744 original size:92 final size:91
Alignment explanation
Indices: 121277443--121277923 Score: 448
Period size: 89 Copynumber: 5.4 Consensus size: 91
121277433 TCTGTTTGTC
* * *
121277443 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTAAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTTCAATT
*
121277505 TCTGTTCTTTCAATTTATATTTTTTAAA
65 TCTGTTCTTTCAATTTATA-TTTTTCAA
* * * **
121277533 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTTACATGCCGAGG-ATTTTCAAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTT
* * *
121277597 CTGTT-TTTGCAAATTCT-GTTTTC-A
66 CTGTTCTTT-CAATTTATATTTTTCAA
*
121277621 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTT
121277686 CTGTTCTTTCAATTTATATTTTTCAAA
66 CTGTTCTTTCAATTTATATTTTTC-AA
* * * **
121277713 AAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATGAC-GAGGTATTTTCAAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG-CTGAGGTATTTTCAATT
* * * *
121277777 GC--TACTTTTAATTTATACTTTTCAA
65 TCTGTTCTTTCAATTTATATTTTTCAA
* * * * * ** * ***
121277802 AAAACCGACTCATATTGCGAGAGATGAGTTAAGCTTTAGCTCACGTGCTGAACCATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTT
* ***
121277867 CTGTT-TTT-AATGTCCGTTTTT-AA
66 CTGTTCTTTCAATTTATATTTTTCAA
* * * **
121277890 AGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
121277924 TCAAGATCGC
Statistics
Matches: 319, Mismatches: 59, Indels: 28
0.79 0.15 0.07
Matches are distributed among these distances:
88 80 0.25
89 83 0.26
90 68 0.21
91 20 0.06
92 67 0.21
93 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (91 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTT
CTGTTCTTTCAATTTATATTTTTCAA
Found at i:121279761 original size:3 final size:3
Alignment explanation
Indices: 121279755--121279812 Score: 64
Period size: 3 Copynumber: 19.3 Consensus size: 3
121279745 ATACATTTAC
* *
121279755 TAT TAT TAT TAT TAT TAT TAT TAT TAT GAT TA- TAT CTAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* *
121279800 TAG TAT TAG TAT T
1 TAT TAT TAT TAT T
121279813 TATTTTCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:121279837 original size:2 final size:2
Alignment explanation
Indices: 121279825--121279856 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
121279815 TTTTCATTTA
*
121279825 AT AT CT 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
121279857 GTCTACATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:121280580 original size:21 final size:22
Alignment explanation
Indices: 121280556--121280610 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
121280546 CTCATATATC
*
121280556 ATTATATTATTTATTAT-ACCT
1 ATTATTTTATTTATTATCACCT
*
121280577 ATTATTTTCA-TTATTATCACTT
1 ATTATTTT-ATTTATTATCACCT
121280599 ATTATTTTATTT
1 ATTATTTTATTT
121280611 TATTTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTATTTTATTTATTATCACCT
Found at i:121281647 original size:7 final size:6
Alignment explanation
Indices: 121281604--121281666 Score: 65
Period size: 6 Copynumber: 10.2 Consensus size: 6
121281594 CAACCCAATC
* * *
121281604 ATAAAA ATACAA AT-AAT TTAATAA ATAAAA ATAAAAA ACTAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAA-AA ATAAAA AT-AAAA A-TAAAA ATAAAA
121281654 ATAAAA ATAAAA A
1 ATAAAA ATAAAA A
121281667 ATATAATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 2 0.04
6 30 0.64
7 14 0.30
8 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:121281667 original size:20 final size:19
Alignment explanation
Indices: 121281626--121281669 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
121281616 ATAATTTAAT
*
121281626 AAATAAAAATAAAAAACTAA
1 AAATAAAAATAAAAAA-AAA
*
121281646 AAATAAAAATAAAAATAAA
1 AAATAAAAATAAAAAAAAA
121281665 AAATA
1 AAATA
121281670 TAATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (19 bp):
AAATAAAAATAAAAAAAAA
Found at i:121281741 original size:18 final size:18
Alignment explanation
Indices: 121281691--121281742 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
121281681 AAATAATTTG
* *
121281691 GTTAATTCGGGTAATTCA
1 GTTAATTCAGATAATTCA
*
121281709 ATTAATT-AGAATAATTCA
1 GTTAATTCAG-ATAATTCA
*
121281727 GTTAATTCAGTTAATT
1 GTTAATTCAGATAATT
121281743 TTATACTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.04
18 24 0.89
19 2 0.07
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (18 bp):
GTTAATTCAGATAATTCA
Found at i:121289009 original size:6 final size:6
Alignment explanation
Indices: 121288998--121289023 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
121288988 TGTGTACCAC
121288998 TACTGT TACTGT TACTGT TACTGT TA
1 TACTGT TACTGT TACTGT TACTGT TA
121289024 TCATTACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:121291638 original size:2 final size:2
Alignment explanation
Indices: 121291631--121291661 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
121291621 GATTAAAAAC
*
121291631 AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
121291662 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121294261 original size:177 final size:177
Alignment explanation
Indices: 121293637--121294450 Score: 825
Period size: 177 Copynumber: 4.6 Consensus size: 177
121293627 TTTGATTCTT
* * * * *
121293637 TTGCTATCTCAAAAAGATAAGGCTAGTGGC-AAAATCTGCTCCATTGCCGATACATGGAGATAAG
1 TTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
* * * * * * *
121293701 TTTCGCCATCTTCAATTTGCT-TCGCTACACCTTCAGGGAGATAAGATCTTCCATCTGCAGTCTA
66 ATTCGCCATCTTCGATCTGCTCT-GCTGCAACTTCAGGGAGATAAGATCTTCCATCTTCAGTCTG
121293765 CTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTC
130 CTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTC
* * **
121293813 TTGCTACCTCAGAGAGATGAGGCTGGTGGCTTAAATCTGTTCCATTGCATATACATGGAGATAAG
1 TTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
* * * * * *
121293878 ATTCACTATCTTTGATCTG-T-T-C--C-AC-T-AGGGAAATAAGATATTCAAT-TCTCAGTCTG
66 ATTCGCCATCTTCGATCTGCTCTGCTGCAACTTCAGGGAGATAAGATCTTCCATCT-TCAGTCTG
* ** * *
121293934 -TTTCCTTGCTACCTCAGGAAGATAAGACTTGTATC-TCGAACCCATTC-CAC
130 CTTT-CTTGCTACCTCAGAAAGATAAGACTCAT-TCTTC-AA-CC-TGCTCTC
* * * * ** *
121293984 -TGCAACTTCAGGGAGATAAGGCTCGG-GGCTTAAATCTTCTCCATTATCGATACATAGAGATAA
1 TTGCTACCTCAGAGAGATAAGGCT-GGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAA
** * * * *
121294047 GATTCATC-TCTTTTGATCTGCTCCGCTGCACCTTCAGGAAGATAAGATCTTCCATCTTCAGTCT
65 GATTCGCCATC-TTCGATCTGCTCTGCTGCAACTTCAGGGAGATAAGATCTTCCATCTTCAGTCT
* *
121294111 GCTTTCTTGCTACCTCAAAAAGATAAGACTCATTCTTCCACCTGCTCTC
129 GCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTC
* * * * * *
121294160 TTGCTATCTCAGAGAGATTAGGCTGGTGGTTTAAATCTGCTCCTTTGCTGATACATAGAGATAAG
1 TTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
* *
121294225 ATTCGCCATCTTCGATCTGCTCTGCTGCAACTTCAGGGAGATAAGATCTTCCATCTTCAATATGC
66 ATTCGCCATCTTCGATCTGCTCTGCTGCAACTTCAGGGAGATAAGATCTTCCATCTTCAGTCTGC
* * * * * ** *
121294290 TTCCTTGCTGCCTTAGGAAGATAAGACTCAATCTTCCGCCTACTCTC
131 TTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTC
** *
121294337 TTGCTACCTCAGAGAGATAAGGCTAATGGTTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
1 TTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
* * * * * *
121294402 ACTCGCCATCTTCGATCTACTCCGTTGCAACTTCGGGGAGATAATATCT
66 ATTCGCCATCTTCGATCTGCTCTGCTGCAACTTCAGGGAGATAAGATCT
121294451 GACTTCACCC
Statistics
Matches: 522, Mismatches: 92, Indels: 47
0.79 0.14 0.07
Matches are distributed among these distances:
168 4 0.01
169 52 0.10
170 69 0.13
171 8 0.02
172 3 0.01
173 1 0.00
174 1 0.00
175 3 0.01
176 34 0.07
177 291 0.56
178 52 0.10
179 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (177 bp):
TTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
ATTCGCCATCTTCGATCTGCTCTGCTGCAACTTCAGGGAGATAAGATCTTCCATCTTCAGTCTGC
TTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTC
Found at i:121298449 original size:14 final size:13
Alignment explanation
Indices: 121298429--121298467 Score: 69
Period size: 13 Copynumber: 2.9 Consensus size: 13
121298419 TAACCCAACC
121298429 CAAAAAAAAAAAT
1 CAAAAAAAAAAAT
121298442 CAAAAAAAAAAAT
1 CAAAAAAAAAAAT
121298455 CAAAAAAGAAAAA
1 CAAAAAA-AAAAA
121298468 CCTAATCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 20 0.80
14 5 0.20
ACGTcount: A:0.85, C:0.08, G:0.03, T:0.05
Consensus pattern (13 bp):
CAAAAAAAAAAAT
Found at i:121298686 original size:27 final size:29
Alignment explanation
Indices: 121298656--121298732 Score: 104
Period size: 27 Copynumber: 2.7 Consensus size: 29
121298646 GAGAGAAGAA
121298656 TTTTTTTGAGATTCAAGAAGAGA-TT-TT
1 TTTTTTTGAGATTCAAGAAGAGATTTCTT
* *
121298683 TTTTTTTGAGATTCAAGAGGGGATTTTTCTT
1 TTTTTTTGAGATTCAAGAAGAGA--TTTCTT
121298714 TTTTTTTGAGATTCAAGAA
1 TTTTTTTGAGATTCAAGAA
121298733 CAAAAAATCA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 21 0.49
30 2 0.05
31 20 0.47
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.49
Consensus pattern (29 bp):
TTTTTTTGAGATTCAAGAAGAGATTTCTT
Found at i:121299197 original size:3 final size:3
Alignment explanation
Indices: 121299189--121299234 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
121299179 TGCATTTTAA
* *
121299189 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT ATAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
121299235 GTACATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:121299322 original size:3 final size:3
Alignment explanation
Indices: 121299314--121299343 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
121299304 TGTATTTCTA
121299314 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
121299344 ATGGTAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:121299469 original size:16 final size:15
Alignment explanation
Indices: 121299438--121299480 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
121299428 CCTTCATTCC
*
121299438 ATTATTATTATTACT
1 ATTATTATTTTTACT
121299453 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
121299469 ATCATTATTTTT
1 ATTATTATTTTT
121299481 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:121299605 original size:16 final size:16
Alignment explanation
Indices: 121299584--121299615 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
121299574 CTATTGTTAC
121299584 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
121299600 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
121299616 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:121299623 original size:3 final size:3
Alignment explanation
Indices: 121299615--121299742 Score: 77
Period size: 3 Copynumber: 42.7 Consensus size: 3
121299605 TTCTCATCAC
* * *
121299615 TAT TAT TAT AAT T-T ATAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
121299660 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
*
121299705 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
121299743 GCACTACTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 20
0.73 0.13 0.15
Matches are distributed among these distances:
2 8 0.08
3 80 0.82
4 10 0.10
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:121299863 original size:22 final size:22
Alignment explanation
Indices: 121299833--121299893 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
121299823 TTATTATATC
*
121299833 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
121299855 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
121299877 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
121299894 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:121313790 original size:69 final size:70
Alignment explanation
Indices: 121313615--121313984 Score: 256
Period size: 71 Copynumber: 5.5 Consensus size: 70
121313605 CTTTTCAAGG
* * *
121313615 AAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
121313680 GTTTT
66 GTTTT
* * ** * *
121313685 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
121313750 TGTTTT
65 TGTTTT
** *** * *
121313756 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-A---T----T-TTTGT-GTTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
**
121313808 AATTT
66 GTTTT
* * ** * *
121313813 C-----AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAA--TTT
*
121313873 GTGTTTT
64 ATGTTTT
** * * ** * *
121313880 AATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
121313945 GTTTT
66 GTTTT
** *
121313950 -AAATTGACTCATATTGCGAGAGGTAAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
121313985 TTTAATTTTT
Statistics
Matches: 236, Mismatches: 43, Indels: 42
0.74 0.13 0.13
Matches are distributed among these distances:
53 28 0.12
55 1 0.00
57 4 0.02
58 5 0.02
59 4 0.02
60 1 0.00
62 1 0.00
63 3 0.01
64 1 0.00
66 3 0.01
67 5 0.02
69 59 0.25
70 9 0.04
71 61 0.26
72 51 0.22
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
GTTTT
Found at i:121313911 original size:72 final size:71
Alignment explanation
Indices: 121313790--121313984 Score: 295
Period size: 72 Copynumber: 2.8 Consensus size: 71
121313780 GAGTTAAGCC
121313790 TTTTAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
121313855 GAGGTA
66 GAGGTA
*
121313861 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
1 TTTT-AATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
121313926 TGAGGTA
65 TGAGGTA
* * * * * * *
121313933 TTTTTA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTAAGTTAAGCCT
1 TTTTAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
121313985 TTTAATTTTT
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
69 26 0.23
70 13 0.11
71 5 0.04
72 70 0.61
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.39
Consensus pattern (71 bp):
TTTTAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTA
Found at i:121313947 original size:194 final size:194
Alignment explanation
Indices: 121313615--121314132 Score: 833
Period size: 194 Copynumber: 2.7 Consensus size: 194
121313605 CTTTTCAAGG
* * ** * * *
121313615 AAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
* **
121313680 GT-TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT
66 GTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT
*
121313744 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTGTTTT-
131 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTAAGTTAAGCCTTTTAATTTTTGT-TTTTC
**
121313808 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
121313873 GTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT
66 GTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT
121313938 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTAAGTTAAGCCTTTTAATTTTTGTTTTTC
131 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTAAGTTAAGCCTTTTAATTTTTGTTTTTC
**
121314002 AAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
* * * * *
121314067 GTGTTTTAATTTCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGGGCACGATGAGGTATCTTT
66 GTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT
121314132 A
131 A
121314133 ATTTCTGCTT
Statistics
Matches: 301, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
193 62 0.21
194 239 0.79
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (194 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
GTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT
AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTAAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:121314029 original size:122 final size:126
Alignment explanation
Indices: 121313861--121314110 Score: 339
Period size: 122 Copynumber: 2.0 Consensus size: 126
121313851 CGCTGAGGTA
**
121313861 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTGTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
* *
121313926 TGAGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTAAGTTAAGCC
66 TGAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTAAGTTAAGCC
** *
121313984 TTTT-AATTTTTGT-TTTTCAAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTCAATTTTTGTGTTTT-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACG
* * * * * *
121314047 CTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGTGAGAGGTGAGTTGAGCC
65 CTGAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTAAGTTAAGCC
121314109 TT
1 TT
121314111 GGGGCACGAT
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
121 4 0.04
122 61 0.55
123 5 0.05
124 13 0.12
125 27 0.25
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (126 bp):
TTTTCAATTTTTGTGTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
TGAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTAAGTTAAGCC
Found at i:121314105 original size:72 final size:71
Alignment explanation
Indices: 121313984--121314147 Score: 231
Period size: 72 Copynumber: 2.3 Consensus size: 71
121313974 AAGTTAAGCC
* *
121313984 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCACGAT
121314049 GAGGTA
66 GAGGTA
** *
121314055 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGGGCACG
1 TTTT-AATTTTTGT-TTTTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCACG
121314119 ATGAGGTA
64 ATGAGGTA
* *
121314127 TCTTTAATTTCTGCTTTTCAA
1 T-TTTAATTTTTGTTTTTCAA
121314148 TTCATGCTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
71 8 0.10
72 67 0.82
73 7 0.09
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (71 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCACGAT
GAGGTA
Found at i:121314287 original size:161 final size:157
Alignment explanation
Indices: 121313983--121314503 Score: 569
Period size: 161 Copynumber: 3.3 Consensus size: 157
121313973 TAAGTTAAGC
* ** * *
121313983 CTTTT-AATTTTTGTTTTTC---AAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTCGGGGC
1 CTTTTCAATTTATGTTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * * * * *
121314044 ACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGTGAGAGGTGAGTTGAGCC
66 ACGATGAGGTAATTTCAA--TTTATGTTTCAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
121314109 TTGGGGCACGATGAGGTATCTTTAATTTCTG
128 TCGAGGCACGCTGAGGTAT-TTTAATTTCTG
* * * *
121314140 CTTTTCAATTCATGCTTCTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 CTTTTCAATTTATGTTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * * *
121314205 ACGTTGACGTAATTTCAATTTATGTTCCAGAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTC
66 ACGATGAGGTAATTTCAATTTATGTTTCA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
121314270 GACTCGCATGCTGAGGTATTCTCAATTT-T-
130 GA--GGCACGCTGAGGTATT-TTAATTTCTG
121314299 CGTTTT-AATTTATGTTTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 C-TTTTCAATTTATGTTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* *
121314362 CACGATGAGGTAATTTCAATTTCTGTTTGTCAAAACTCAACTCATATTGCGAGAGATGAGTTGAG
65 CACGATGAGGTAATTTCAATTTATG-TT-TC-AAA-TCAACTCATATTGCGAGAGGTGAGTTGAG
121314427 CCTC-AGGACACGCTGAGGTATTTTCAATTTCTG
126 CCTCGAGG-CACGCTGAGGTATTTT-AATTTCTG
* *
121314460 -TTTTCAGTTTATGTTTTTC-AGAAAATCAACTCATATTACGAGAG
1 CTTTTCAATTTATGTTTTTCAAGAAAATCAACTCATATTGCGAGAG
121314504 TTTATGAGTC
Statistics
Matches: 306, Mismatches: 39, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
157 5 0.02
158 74 0.24
159 78 0.25
160 47 0.15
161 102 0.33
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (157 bp):
CTTTTCAATTTATGTTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGATGAGGTAATTTCAATTTATGTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
AGGCACGCTGAGGTATTTTAATTTCTG
Found at i:121314422 original size:73 final size:74
Alignment explanation
Indices: 121314305--121314462 Score: 255
Period size: 73 Copynumber: 2.1 Consensus size: 74
121314295 TTTTCGTTTT
* * *
121314305 AATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGA
1 AATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGATGA
121314370 GGTAATTTC
66 GGTAATTTC
* *
121314379 AATTTCTGTTTGTC-AAAACTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGA
1 AATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGATGA
*
121314443 GGTATTTTC
66 GGTAATTTC
121314452 AATTTCTGTTT
1 AATTTCTGTTT
121314463 TCAGTTTATG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 66 0.85
74 12 0.15
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (74 bp):
AATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGATGA
GGTAATTTC
Found at i:121315110 original size:24 final size:23
Alignment explanation
Indices: 121315056--121315110 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
121315046 CTAAACCTAC
* * *
121315056 CCACCCAACTAACAGCCCAAATT
1 CCACCTAACAAACAGCCCAAATG
*
121315079 CTAGCCTAACAAACAGACCCAAATG
1 CCA-CCTAACAAACAG-CCCAAATG
121315104 CCACCTA
1 CCACCTA
121315111 TCATCAAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 14 0.56
25 9 0.36
ACGTcount: A:0.40, C:0.40, G:0.07, T:0.13
Consensus pattern (23 bp):
CCACCTAACAAACAGCCCAAATG
Found at i:121316215 original size:23 final size:25
Alignment explanation
Indices: 121316185--121316231 Score: 71
Period size: 23 Copynumber: 1.9 Consensus size: 25
121316175 TTTTTACATA
121316185 TTATTAATAT-T-ATTATTTTTATT
1 TTATTAATATATAATTATTTTTATT
121316208 TTATTAATATACTAATTATTTTTA
1 TTATTAATATA-TAATTATTTTTA
121316232 AGGTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
25 1 0.05
26 10 0.48
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTAATATATAATTATTTTTATT
Found at i:121316582 original size:48 final size:45
Alignment explanation
Indices: 121316517--121316637 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 45
121316507 TTTTTAATAT
121316517 TATATTTC-ACATA-TATTATTATATATATTT-TAATATTATTAGTTA
1 TATATTTCTA-ATACTATTATTATATATATTTCTAATATTA-TA-TTA
* *
121316562 TATTTTTCTTTTATACTATTA-TATATATATTTCTAATATTATATTA
1 TATATTTC--TAATACTATTATTATATATATTTCTAATATTATATTA
121316608 TATATTTCTAATACTATTATATATATATAT
1 TATATTTCTAATACTATTAT-TATATATAT
121316638 ATGTGTGTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
44 10 0.15
45 7 0.11
46 19 0.29
47 16 0.25
48 13 0.20
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (45 bp):
TATATTTCTAATACTATTATTATATATATTTCTAATATTATATTA
Found at i:121316625 original size:19 final size:20
Alignment explanation
Indices: 121316517--121316631 Score: 72
Period size: 21 Copynumber: 5.2 Consensus size: 20
121316507 TTTTTAATAT
121316517 TATATTTC-ACATATATTATTA
1 TATATTTCTA-ATATA-TATTA
*
121316538 TATATATTTTAATATTATTAGTTA
1 TATAT-TTCTAATA-TA-TA-TTA
* *
121316562 TATTTTTCTTTTATACTATTATATA
1 TATATTTC--TAATA-TA-TAT-TA
121316587 TATATTTCTAATATTATATTA
1 TATATTTCTAATA-TATATTA
*
121316608 TATATTTCTAATA-CTATTA
1 TATATTTCTAATATATATTA
121316627 TATAT
1 TATAT
121316632 ATATATATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 16
0.76 0.09 0.16
Matches are distributed among these distances:
19 10 0.13
21 20 0.26
22 8 0.10
23 14 0.18
24 8 0.10
25 18 0.23
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (20 bp):
TATATTTCTAATATATATTA
Found at i:121316638 original size:27 final size:22
Alignment explanation
Indices: 121316529--121316635 Score: 96
Period size: 21 Copynumber: 4.8 Consensus size: 22
121316519 TATTTCACAT
121316529 ATATTAT-TATATATATTT-TA
1 ATATTATATATATATATTTCTA
* *
121316549 ATATTAT-TAGTTATATTTTTCTTTT
1 ATATTATATA--TATATATTTC--TA
*
121316574 ATACTATTATATATATATTTCTA
1 ATATTA-TATATATATATTTCTA
121316597 ATATTATAT-TATATATTTCTA
1 ATATTATATATATATATTTCTA
*
121316618 ATACTATTATATATATAT
1 ATATTA-TATATATATAT
121316636 ATATGTGTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
20 9 0.13
21 17 0.24
22 14 0.20
23 13 0.18
25 15 0.21
26 1 0.01
27 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (22 bp):
ATATTATATATATATATTTCTA
Found at i:121317803 original size:17 final size:18
Alignment explanation
Indices: 121317762--121317806 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
121317752 AAATCTGACT
121317762 ATTCAATCAAACTAATCA
1 ATTCAATCAAACTAATCA
** *
121317780 AACCAAT-AACCTAATCA
1 ATTCAATCAAACTAATCA
121317797 ATTCAATCAA
1 ATTCAATCAA
121317807 TAAATTTATT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (18 bp):
ATTCAATCAAACTAATCA
Found at i:121319388 original size:29 final size:29
Alignment explanation
Indices: 121319324--121319390 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
121319314 ATTTGGCCTT
* * * *
121319324 ATTTGATTCTTTTTAATATTACATAGATTA
1 ATTTGA-TCTATTTAATAATACAGAGACTA
* *
121319354 AATTGATCTATTTAATAATAGAGAGACTA
1 ATTTGATCTATTTAATAATACAGAGACTA
121319383 ATTTGATC
1 ATTTGATC
121319391 AGATCCTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.45
Consensus pattern (29 bp):
ATTTGATCTATTTAATAATACAGAGACTA
Found at i:121323631 original size:109 final size:108
Alignment explanation
Indices: 121323440--121323659 Score: 314
Period size: 109 Copynumber: 2.0 Consensus size: 108
121323430 AAAACCTCTT
* * **
121323440 GAAGGATCCATGAACGGGAGTGAAGATCTCAAGAGCAGCATATCAATGAGAATTGGAGATCGGTT
1 GAAGGATCCATGAACGGGAGTGAAGAGCTCAAGAGCAGCAGATCAATGAGAACCGGAGATCGGTT
* * * * *
121323505 CAAAGCATCGAAGCAGCTTCACTGATCGATACGATGAGTGAGA
66 CAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
* * * *
121323548 GAAGGATCCATTAACGGGATTGAAGAGCTCGAGAGCAGCAGATCGATTGAGAACCGGAGATCGGT
1 GAAGGATCCATGAACGGGAGTGAAGAGCTCAAGAGCAGCAGATC-AATGAGAACCGGAGATCGGT
121323613 TCAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
65 TCAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
121323657 GAA
1 GAA
121323660 CCATGAATAC
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
108 39 0.40
109 59 0.60
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (108 bp):
GAAGGATCCATGAACGGGAGTGAAGAGCTCAAGAGCAGCAGATCAATGAGAACCGGAGATCGGTT
CAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
Found at i:121325725 original size:28 final size:28
Alignment explanation
Indices: 121325693--121325749 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
121325683 TCTCTTGTTA
121325693 AAAATTTCAT-CAATTTCTACTGTCAGAC
1 AAAATTTCATAC-ATTTCTACTGTCAGAC
121325721 AAAATTTCATACATTTCTACTGTCAGAC
1 AAAATTTCATACATTTCTACTGTCAGAC
121325749 A
1 A
121325750 CTGATCCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (28 bp):
AAAATTTCATACATTTCTACTGTCAGAC
Found at i:121330608 original size:17 final size:16
Alignment explanation
Indices: 121330560--121330617 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
121330550 GTGTAGGTTC
121330560 TTAATTTAAAGGTTTAAT
1 TTAA-TTAAA-GTTTAAT
* * *
121330578 TTGATTGAATTTTAGAT
1 TTAATTAAAGTTTA-AT
121330595 TTAATTAAAGTTTAAT
1 TTAATTAAAGTTTAAT
*
121330611 ATAATTA
1 TTAATTA
121330618 TTGAATACGG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
16 12 0.38
17 17 0.53
18 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (16 bp):
TTAATTAAAGTTTAAT
Found at i:121330743 original size:19 final size:19
Alignment explanation
Indices: 121330721--121330760 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
121330711 AAAAATAAAA
* *
121330721 TATTGAATCTAGTTGATCG
1 TATTGAATCTAATTGACCG
121330740 TATTGAATCTAATTGACCG
1 TATTGAATCTAATTGACCG
121330759 TA
1 TA
121330761 ATAATATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (19 bp):
TATTGAATCTAATTGACCG
Found at i:121331983 original size:14 final size:15
Alignment explanation
Indices: 121331964--121331993 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
121331954 TTTTTTCTTA
121331964 TTTATTTATT-TTAT
1 TTTATTTATTATTAT
121331978 TTTATTTATTATTAT
1 TTTATTTATTATTAT
121331993 T
1 T
121331994 AACTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTATTATTAT
Found at i:121332060 original size:22 final size:22
Alignment explanation
Indices: 121332001--121332072 Score: 92
Period size: 22 Copynumber: 3.1 Consensus size: 22
121331991 ATTAACTTTA
121332001 AAAATTTTGAAATATATA-TTTG
1 AAAATTTT-AAATATATATTTTG
*
121332023 AAATATTTTATTAATATATATTTTT
1 AAA-ATTTTA--AATATATATTTTG
121332048 AAAATTTTAAATATATATTTTG
1 AAAATTTTAAATATATATTTTG
121332070 AAA
1 AAA
121332073 TTACTATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
22 19 0.43
23 5 0.11
24 14 0.32
25 6 0.14
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
AAAATTTTAAATATATATTTTG
Found at i:121332619 original size:13 final size:13
Alignment explanation
Indices: 121332585--121332665 Score: 61
Period size: 13 Copynumber: 6.6 Consensus size: 13
121332575 AATATTTAAA
121332585 ATTTAAAATAGTA-
1 ATTTAAAATA-TAT
121332598 ATTTCAAAATATAT
1 ATTT-AAAATATAT
121332612 ATTT-AAA-AT-T
1 ATTTAAAATATAT
*
121332622 -TTAAAAATATAT
1 ATTTAAAATATAT
121332634 A-TTAATAA-A-AT
1 ATTTAA-AATATAT
*
121332645 ATTTTAAATATAT
1 ATTTAAAATATAT
121332658 ATTTAAAA
1 ATTTAAAA
121332666 ATTTTTAAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
9 2 0.04
10 4 0.07
11 9 0.17
12 12 0.22
13 17 0.31
14 10 0.19
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (13 bp):
ATTTAAAATATAT
Found at i:121332631 original size:22 final size:21
Alignment explanation
Indices: 121332597--121332670 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 21
121332587 TTAAAATAGT
*
121332597 AATTTCAAAATATATATTTAA
1 AATTTTAAAATATATATTTAA
121332618 AATTTTAAAAATATATATTAATAA
1 AATTTT-AAAATATATATT--TAA
*
121332642 AATATTTTAAATATATATTTAAA
1 AAT-TTTAAAATATATATTT-AA
121332665 AATTTT
1 AATTTT
121332671 TAAAGTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
21 5 0.11
22 16 0.35
23 5 0.11
24 17 0.37
25 3 0.07
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTTTAAAATATATATTTAA
Found at i:121332671 original size:22 final size:22
Alignment explanation
Indices: 121332604--121332674 Score: 90
Period size: 22 Copynumber: 3.1 Consensus size: 22
121332594 AGTAATTTCA
*
121332604 AAATATATATTT-AAAATTTTAA
1 AAATATATATTTAAAAATTTT-T
*
121332626 AAATATATATTAATAAAATATTTT
1 AAATATATATTTA-AAAAT-TTTT
121332650 AAATATATATTTAAAAATTTTT
1 AAATATATATTTAAAAATTTTT
121332672 AAA
1 AAA
121332675 GTTAATAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
22 18 0.42
23 5 0.12
24 17 0.40
25 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATATATATTTAAAAATTTTT
Found at i:121332733 original size:9 final size:10
Alignment explanation
Indices: 121332706--121332744 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
121332696 AAAATAAAAG
*
121332706 AAAAAAAGACA
1 AAAAAAAG-TA
121332717 AAAGAAAAGTA
1 AAA-AAAAGTA
121332728 AAAAAAAGTA
1 AAAAAAAGTA
121332738 AAAAAAA
1 AAAAAAA
121332745 AAACAAGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 14 0.54
11 7 0.27
12 5 0.19
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (10 bp):
AAAAAAAGTA
Found at i:121336479 original size:26 final size:24
Alignment explanation
Indices: 121336443--121336524 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 24
121336433 TTTTTCAACC
*
121336443 TAAATTGTTTTGTATATTAATTATTT
1 TAAATTGTTTT-TATAAT-ATTATTT
* *
121336469 TAAATTG-TTTTATACTATTCACTT
1 TAAATTGTTTTTATAATATT-ATTT
121336493 TAAATTGCTTTTTATAATATCTATTT
1 TAAATTG-TTTTTATAATAT-TATTT
121336519 TAAATT
1 TAAATT
121336525 TATTTTTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
23 3 0.06
24 15 0.31
25 3 0.06
26 26 0.54
27 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (24 bp):
TAAATTGTTTTTATAATATTATTT
Found at i:121338465 original size:14 final size:16
Alignment explanation
Indices: 121338413--121338467 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 16
121338403 ACCAAATTGT
*
121338413 ATTTTTTATTTAATTA
1 ATTTTTTATATAATTA
*
121338429 GATGATTTTTATATAATTT
1 -AT--TTTTTATATAATTA
121338448 ATTTTTTAT-TAA-TA
1 ATTTTTTATATAATTA
121338462 ATTTTT
1 ATTTTT
121338468 ATTTTAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 7 0.21
15 3 0.09
16 7 0.21
17 2 0.06
18 2 0.06
19 12 0.36
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
ATTTTTTATATAATTA
Found at i:121339881 original size:19 final size:19
Alignment explanation
Indices: 121339857--121339899 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
121339847 AGTACGTCAA
121339857 TTTTAAAACAAAATGAGAG
1 TTTTAAAACAAAATGAGAG
*
121339876 TTTTAAAACAAAATGAGGG
1 TTTTAAAACAAAATGAGAG
121339895 TTTTA
1 TTTTA
121339900 GGTAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.33
Consensus pattern (19 bp):
TTTTAAAACAAAATGAGAG
Found at i:121340114 original size:13 final size:13
Alignment explanation
Indices: 121340082--121340115 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
121340072 AACATTTTTT
121340082 TAATTTTAATTAA
1 TAATTTTAATTAA
**
121340095 TGTTTTTAATTAA
1 TAATTTTAATTAA
121340108 TAATTTTA
1 TAATTTTA
121340116 TTTTTGTAAG
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TAATTTTAATTAA
Found at i:121340287 original size:19 final size:19
Alignment explanation
Indices: 121340263--121340306 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
121340253 CTCCTTTATT
121340263 TATATAAATA-ATTAATAAA
1 TATATAAATATA-TAATAAA
121340282 TATATAAATATATAATAAA
1 TATATAAATATATAATAAA
*
121340301 AATATA
1 TATATA
121340307 TTGTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TATATAAATATATAATAAA
Found at i:121340342 original size:98 final size:98
Alignment explanation
Indices: 121340141--121340341 Score: 280
Period size: 98 Copynumber: 2.0 Consensus size: 98
121340131 TTAATTCATC
** * *
121340141 TTTTTAATTAATAACTTTTTTATTTATATAAATAAAGTAATAAATATGTATTATATAATAAAAAC
1 TTTTTAATTAATAACTCCTTTATTTATATAAATAAAGTAATAAATATATAATATATAATAAAAAC
121340206 ATATATTTTATATATATCATTATGTTAAAAATA
66 ATATATTTTATATATATCATTATGTTAAAAATA
*
121340239 TTTTTAATTAATAACTCCTTTATTTATATAAAT-AATTAATAAATATATAAATATATAATAAAAA
1 TTTTTAATTAATAACTCCTTTATTTATATAAATAAAGTAATAAATATAT-AATATATAATAAAAA
* * * *
121340303 TATATTGTTTTATACT-TATGATTATGTTAAATATA
65 CATA-TATTTTATA-TATATCATTATGTTAAAAATA
121340338 TTTT
1 TTTT
121340342 ATTTTTAAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
97 13 0.14
98 48 0.53
99 29 0.32
100 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (98 bp):
TTTTTAATTAATAACTCCTTTATTTATATAAATAAAGTAATAAATATATAATATATAATAAAAAC
ATATATTTTATATATATCATTATGTTAAAAATA
Found at i:121340486 original size:14 final size:14
Alignment explanation
Indices: 121340467--121340494 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
121340457 ATATAAATAT
121340467 TATATATCAAAAAA
1 TATATATCAAAAAA
121340481 TATATATCAAAAAA
1 TATATATCAAAAAA
121340495 GTTAATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
TATATATCAAAAAA
Found at i:121340737 original size:13 final size:13
Alignment explanation
Indices: 121340719--121340746 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
121340709 AAAATATATT
121340719 TATTAATTAAAAA
1 TATTAATTAAAAA
121340732 TATTAATTAAAAA
1 TATTAATTAAAAA
121340745 TA
1 TA
121340747 AAAAAGAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:121350887 original size:18 final size:18
Alignment explanation
Indices: 121350857--121350925 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
121350847 GATCCGATTG
*
121350857 AAAA-ACGAGAATTTTTT
1 AAAACACGAAAATTTTTT
*
121350874 AAAACACGAAAA-TTTTG
1 AAAACACGAAAATTTTTT
* ***
121350891 AAAACATGATTTTTTTTT
1 AAAACACGAAAATTTTTT
121350909 AAAACACGAAAAATTTT
1 AAAACACG-AAAATTTT
121350926 GGAAACGCGA
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
17 16 0.42
18 17 0.45
19 5 0.13
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (18 bp):
AAAACACGAAAATTTTTT
Found at i:121350889 original size:17 final size:17
Alignment explanation
Indices: 121350869--121350925 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
121350859 AAACGAGAAT
121350869 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* * ***
121350886 TTTTGAAAACATGATTTT
1 TTTTTAAAACACGA-AAA
121350904 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
121350921 ATTTT
1 TTTTT
121350926 GGAAACGCGA
Statistics
Matches: 28, Mismatches: 11, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:121351508 original size:18 final size:17
Alignment explanation
Indices: 121351482--121351535 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
121351472 AATAAGCATA
121351482 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
121351501 ATAAAAATAATACTATAT
1 ATAAAAAT-ATAATATAT
*
121351519 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
121351535 A
1 A
121351536 CGTACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 15 0.48
19 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Found at i:121351624 original size:3 final size:3
Alignment explanation
Indices: 121351616--121351652 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
121351606 AGATAGTGAA
* *
121351616 AAT AAT AAT AAT AAC AAT AAC AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
121351653 TGTGAAGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:121351743 original size:26 final size:26
Alignment explanation
Indices: 121351714--121351781 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
121351704 ATAAAGGGAT
*
121351714 ATAAATAAATGGTAAAACAAAGTAA-A-
1 ATAAATAAAT-GTAAAA-AAAGGAATAG
**
121351740 ATAAATGTATGTAAAAAAAGGAATAG
1 ATAAATAAATGTAAAAAAAGGAATAG
*
121351766 ATAAATAAATATAAAA
1 ATAAATAAATGTAAAA
121351782 GAAATATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 7 0.21
26 21 0.62
ACGTcount: A:0.65, C:0.01, G:0.12, T:0.22
Consensus pattern (26 bp):
ATAAATAAATGTAAAAAAAGGAATAG
Found at i:121352333 original size:13 final size:14
Alignment explanation
Indices: 121352315--121352344 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
121352305 TTCATCTTTG
121352315 TTATTTTTTATT-T
1 TTATTTTTTATTAT
121352328 TTATTTTTTATTAT
1 TTATTTTTTATTAT
121352342 TTA
1 TTA
121352345 CTTCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTTTTATTAT
Found at i:121365349 original size:31 final size:31
Alignment explanation
Indices: 121365314--121365372 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
121365304 TAATAAATAA
* *
121365314 AATAAACTATAT-TTAAAATAATTAATTTTTT
1 AATAAAATATATATAAAAATAA-TAATTTTTT
121365345 AATAAAATATATATAAAAATAATAATTT
1 AATAAAATATATATAAAAATAATAATTT
121365373 AAAATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (31 bp):
AATAAAATATATATAAAAATAATAATTTTTT
Found at i:121365447 original size:14 final size:14
Alignment explanation
Indices: 121365430--121365468 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
121365420 TAATATGATA
121365430 AGTATAATAAAAAT
1 AGTATAATAAAAAT
121365444 AGTATAATAAAAAT
1 AGTATAATAAAAAT
*
121365458 AGCATAATAAA
1 AGTATAATAAA
121365469 TAGTAGGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (14 bp):
AGTATAATAAAAAT
Found at i:121366882 original size:44 final size:44
Alignment explanation
Indices: 121366818--121367086 Score: 188
Period size: 44 Copynumber: 6.0 Consensus size: 44
121366808 TAAGATCTGG
*
121366818 TATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
1 TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
* * *
121366862 TATGTTTAACCTGCTTCACTCCTACTCAGTGAAGATAAGG-TCA
1 TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
* * * * * * * *
121366905 -ATGGTTGGAATCTGCTCCATTGCAGATACA-TGGAGATAAGATTCGTTGAA
1 TAT-GTT-TAACCTGCTCCACTCCTGCT-CAGTGAAGATAAG----GCTG-A
* * * * * * *
121366955 AACG--TGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGC
1 TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGA
* * * *
121366998 TATGCTTAGCCTGCTCCACCCCTGCTCAGTGAAGATAAGGCTAA
1 TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
* * *
121367042 CATGTTTAACCTGCTTCACTCCTGCTCAGTGAAGATAAGGTTGA
1 TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
121367086 T
1 T
121367087 GGTTGGAATC
Statistics
Matches: 167, Mismatches: 45, Indels: 26
0.70 0.19 0.11
Matches are distributed among these distances:
42 2 0.01
43 7 0.04
44 99 0.59
45 30 0.18
46 2 0.01
47 22 0.13
48 1 0.01
49 1 0.01
50 2 0.01
51 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
TATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
Found at i:121367078 original size:136 final size:135
Alignment explanation
Indices: 121366828--121367080 Score: 296
Period size: 136 Copynumber: 1.9 Consensus size: 135
121366818 TATGTTTAGC
* * *
121366828 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATATGTTTAACCTGCTTCACTCCTACTCAGTG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATATGCTTAACCTGCTCCACCCCTACTCAGTG
* * * * *
121366893 AAGATAAGGTCAATGGTTGGAATCTGCTCCATTGCAGATACATGGAGATAAGATTCGTTGAAAAC
66 AAGATAAGGTAAATGGTTGGAACCTGCTCCACTCCAGATACATGAAGATAAGATTCGTTGAAAAC
121366958 GTGAT
131 GTGAT
* * * * *
121366963 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGCTATGCTTAGCCTGCTCCACCCCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGATATGCTTAACCTGCTCCACCCCTACTCAGT
* * * *
121367028 GAAGATAAGGCTAACAT-GTT-TAACCTGCTTCACTCCTGCT-CAGTGAAGATAAG
65 GAAGATAAGG-TAA-ATGGTTGGAACCTGCTCCACTCCAGATACA-TGAAGATAAG
121367081 GTTGATGGTT
Statistics
Matches: 97, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
135 30 0.31
136 60 0.62
137 5 0.05
138 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (135 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATATGCTTAACCTGCTCCACCCCTACTCAGTG
AAGATAAGGTAAATGGTTGGAACCTGCTCCACTCCAGATACATGAAGATAAGATTCGTTGAAAAC
GTGAT
Found at i:121367100 original size:44 final size:44
Alignment explanation
Indices: 121366828--121367236 Score: 151
Period size: 44 Copynumber: 9.1 Consensus size: 44
121366818 TATGTTTAGC
* * * * *
121366828 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATATGTT-TAAC
1 CTGCTTCACTCCTGCTCAGTGAAGATAAGGTTGAT-GGTTGGAAT
* **
121366872 CTGCTTCACTCCTACTCAGTGAAGATAAGGTCAATGGTTGGAAT
1 CTGCTTCACTCCTGCTCAGTGAAGATAAGGTTGATGGTTGGAAT
* * * * * * * * ***
121366916 CTGCTCCATTGCAGATACA-TGGAGATAAGATTCGTTGAAAACGTG-AT
1 CTGCTTCACTCCTGCT-CAGTGAAGATAAGGTT-GATG--GTTG-GAAT
* * **
121366963 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGCTATGCTT--AGC
1 CTGCTTCACTCCTGCTCAGTGAAGATAAGGT-TG--ATGGTTGGAAT
* * ** * *
121367008 CTGCTCCACCCCTGCTCAGTGAAGATAAGGCTAACAT-GTT-TAAC
1 CTGCTTCACTCCTGCTCAGTGAAGATAAGG-T-TGATGGTTGGAAT
121367052 CTGCTTCACTCCTGCTCAGTGAAGATAAGGTTGATGGTTGGAAT
1 CTGCTTCACTCCTGCTCAGTGAAGATAAGGTTGATGGTTGGAAT
* * * * * **
121367096 CTGCTTCATTACTGATACA-TGGAGATAAGATTCG-TCGAAAATGTG-AT
1 CTGCTTCACTCCTGCT-CAGTGAAGATAAGGTT-GAT-G--GTTG-GAAT
* * * * * *
121367143 TTGCTCTGC-CT-CTGCTCAGCGAAGATAAGATCTGCTGTGTT-TAAC
1 CTGCT-T-CACTCCTGCTCAGTGAAGATAAGGT-TGATG-GTTGGAAT
*
121367188 CTGCTTCACTCCTGCTCAGTGAAGATAAGGTTAATGGTTGGAAT
1 CTGCTTCACTCCTGCTCAGTGAAGATAAGGTTGATGGTTGGAAT
121367232 CTGCT
1 CTGCT
121367237 CCATTATCGA
Statistics
Matches: 263, Mismatches: 72, Indels: 60
0.67 0.18 0.15
Matches are distributed among these distances:
42 2 0.01
43 13 0.05
44 124 0.47
45 58 0.22
46 6 0.02
47 50 0.19
48 7 0.03
49 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
CTGCTTCACTCCTGCTCAGTGAAGATAAGGTTGATGGTTGGAAT
Found at i:121367115 original size:180 final size:180
Alignment explanation
Indices: 121366795--121367217 Score: 634
Period size: 180 Copynumber: 2.4 Consensus size: 180
121366785 ACTCCACTAT
* * *
121366795 TGCTCATCGATGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
1 TGCTCAGCGAAGATAAGATCTGCTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
* *
121366860 GATATGTTTAACCTGCTTCACTCCTACTCAGTGAAGATAAGGTCAATGGTTGGAATCTGCTCCAT
66 AACATGTTTAACCTGCTTCACTCCTACTCAGTGAAGATAAGGTCAATGGTTGGAATCTGCTCCAT
* *
121366925 TGCAGATACATGGAGATAAGATTCGTTGAAAACGTGATCTGCT-T-CACTCC
131 TACAGATACATGGAGATAAGATTCGTCGAAAACGTGATCTGCTCTGC-CT-C
* * *
121366975 TGCTCAGTGAAGATAAGATCTGCTATGCTTAGCCTGCTCCACCCCTGCTCAGTGAAGATAAGGCT
1 TGCTCAGCGAAGATAAGATCTGCTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
* ** *
121367040 AACATGTTTAACCTGCTTCACTCCTGCTCAGTGAAGATAAGGTTGATGGTTGGAATCTGCTTCAT
66 AACATGTTTAACCTGCTTCACTCCTACTCAGTGAAGATAAGGTCAATGGTTGGAATCTGCTCCAT
* * *
121367105 TACTGATACATGGAGATAAGATTCGTCGAAAATGTGATTTGCTCTGCCTC
131 TACAGATACATGGAGATAAGATTCGTCGAAAACGTGATCTGCTCTGCCTC
* * *
121367155 TGCTCAGCGAAGATAAGATCTGCTGTGTTTAACCTGCTTCACTCCTGCTCAGTGAAGATAAGG
1 TGCTCAGCGAAGATAAGATCTGCTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
121367218 TTAATGGTTG
Statistics
Matches: 218, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
180 214 0.98
181 3 0.01
182 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (180 bp):
TGCTCAGCGAAGATAAGATCTGCTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
AACATGTTTAACCTGCTTCACTCCTACTCAGTGAAGATAAGGTCAATGGTTGGAATCTGCTCCAT
TACAGATACATGGAGATAAGATTCGTCGAAAACGTGATCTGCTCTGCCTC
Found at i:121367348 original size:135 final size:136
Alignment explanation
Indices: 121367044--121367352 Score: 525
Period size: 135 Copynumber: 2.3 Consensus size: 136
121367034 AAGGCTAACA
* *
121367044 TGTTTAACCTGCTTCACTCCTGCTCAGTGAAGATAAGGTTGATGGTTGGAATCTGCTTCATTACT
1 TGTTTAACCTGCTTCACTCCTGCTCAGTGAAGATAAGGTTAATGGTTGGAATCTGCTCCATTACT
* *
121367109 GATACATGGAGATAAGATTCGTCGAAAATGTGATTTGCTCTGCCTCTGCTCAGCGAAGATAAGAT
66 GATACATGGAGATAAGATTCGTCGAAAATGTGATCTGCTCTGCCCCTGCTCAGCGAAGATAAGAT
121367174 CTGCTG
131 CTGCTG
121367180 TGTTTAACCTGCTTCACTCCTGCTCAGTGAAGATAAGGTTAATGGTTGGAATCTGCTCCATTA-T
1 TGTTTAACCTGCTTCACTCCTGCTCAGTGAAGATAAGGTTAATGGTTGGAATCTGCTCCATTACT
*
121367244 CGATATATGGAGATAAGATTCG-CTG-AAATGTGATCTGCTCTGCCCCTGCTCAGCGAAGATAAG
66 -GATACATGGAGATAAGATTCGTC-GAAAATGTGATCTGCTCTGCCCCTGCTCAGCGAAGATAAG
121367307 ATCTGCTG
129 ATCTGCTG
*
121367315 TGTTTAACCTGCTTCACTCCTGCTCAATGAAGATAAGG
1 TGTTTAACCTGCTTCACTCCTGCTCAGTGAAGATAAGG
121367353 CTGATAAACT
Statistics
Matches: 165, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
135 83 0.50
136 82 0.50
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (136 bp):
TGTTTAACCTGCTTCACTCCTGCTCAGTGAAGATAAGGTTAATGGTTGGAATCTGCTCCATTACT
GATACATGGAGATAAGATTCGTCGAAAATGTGATCTGCTCTGCCCCTGCTCAGCGAAGATAAGAT
CTGCTG
Found at i:121379144 original size:14 final size:15
Alignment explanation
Indices: 121379112--121379150 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
121379102 TATGATAAGT
*
121379112 ATAATAAATAATAGT
1 ATAATAAATAATAGC
121379127 ATAATAAA-AATAGC
1 ATAATAAATAATAGC
121379141 ATAATAAATA
1 ATAATAAATA
121379151 GCAGGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (15 bp):
ATAATAAATAATAGC
Found at i:121380734 original size:25 final size:25
Alignment explanation
Indices: 121380701--121380749 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
121380691 CTGAAAGAAT
*
121380701 AAGAAGCTTTTATAGACGAATGTCG
1 AAGAAGCTTCTATAGACGAATGTCG
121380726 AAGAAGCTTCTATAGACGAATGTC
1 AAGAAGCTTCTATAGACGAATGTC
121380750 AGCACAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (25 bp):
AAGAAGCTTCTATAGACGAATGTCG
Found at i:121381663 original size:386 final size:386
Alignment explanation
Indices: 121380950--121381715 Score: 1514
Period size: 386 Copynumber: 2.0 Consensus size: 386
121380940 AATTATGTTT
121380950 TTTAGTTGATTACATGTTCAAATGTTCATAGTTTTTTTCTCTGTGTATTCATCTTGTTTGAATGT
1 TTTAGTTGATTACATGTTCAAATGTTCATAGTTTTTTTCTCTGTGTATTCATCTTGTTTGAATGT
*
121381015 AATTCAATTTGATTGTGTGTTTAAGAGGCAATAAATGAAATTTAGGACAACTGATTTTAGATGGT
66 AATTCAATTTGATTGTGTGTTTAAGAGGCAATAAATGAAATTTAGGACAACTAATTTTAGATGGT
121381080 TGGTTGGACTGCAATAACTGATATGTTCGGTACGACTGCCGGAACAGAAGAGTTACATGCATTTT
131 TGGTTGGACTGCAATAACTGATATGTTCGGTACGACTGCCGGAACAGAAGAGTTACATGCATTTT
121381145 ATCCCATTAGACCTGAATGCATTGCCGATGTTCCTAGCACCCGACTCCGGCTGAGGGTGTGTCCA
196 ATCCCATTAGACCTGAATGCATTGCCGATGTTCCTAGCACCCGACTCCGGCTGAGGGTGTGTCCA
*
121381210 GTTATTTGTATCGAATTCGATTATAGCTTATATTGGTTATGCACTTGCAATTTTGAGTTCGGGCT
261 GTTATTTGTATCGAATTCGATTATAGCTTATATTGGTTATGCACTTGCAATTTTGAGCTCGGGCT
121381275 TCAGATTTGGGGTTTAAGATTTAAGATTCAAGGTTCAAAATTCAGGGTTAAAGGTTCAAAA
326 TCAGATTTGGGGTTTAAGATTTAAGATTCAAGGTTCAAAATTCAGGGTTAAAGGTTCAAAA
121381336 TTTAGTTGATTACATGTTCAAATGTTCATAGTTTTTTTCTCTGTGTATTCATCTTGTTTGAATGT
1 TTTAGTTGATTACATGTTCAAATGTTCATAGTTTTTTTCTCTGTGTATTCATCTTGTTTGAATGT
121381401 AATTCAATTTGATTGTGTGTTTAAGAGGCAATAAATGAAATTTAGGACAACTAATTTTAGATGGT
66 AATTCAATTTGATTGTGTGTTTAAGAGGCAATAAATGAAATTTAGGACAACTAATTTTAGATGGT
121381466 TGGTTGGACTGCAATAACTGATATGTTCGGTACGACTGCCGGAACAGAAGAGTTACATGCATTTT
131 TGGTTGGACTGCAATAACTGATATGTTCGGTACGACTGCCGGAACAGAAGAGTTACATGCATTTT
121381531 ATCCCATTAGACCTGAATGCATTGCCGATGTTCCTAGCACCCGACTCCGGCTGAGGGTGTGTCCA
196 ATCCCATTAGACCTGAATGCATTGCCGATGTTCCTAGCACCCGACTCCGGCTGAGGGTGTGTCCA
121381596 GTTATTTGTATCGAATTCGATTATAGCTTATATTGGTTATGCACTTGCAATTTTGAGCTCGGGCT
261 GTTATTTGTATCGAATTCGATTATAGCTTATATTGGTTATGCACTTGCAATTTTGAGCTCGGGCT
121381661 TCAGATTTGGGGTTTAAGATTTAAGATTCAAGGTTCAAAATTCAGGGTTAAAGGT
326 TCAGATTTGGGGTTTAAGATTTAAGATTCAAGGTTCAAAATTCAGGGTTAAAGGT
121381716 AAAAAAAAAA
Statistics
Matches: 378, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
386 378 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (386 bp):
TTTAGTTGATTACATGTTCAAATGTTCATAGTTTTTTTCTCTGTGTATTCATCTTGTTTGAATGT
AATTCAATTTGATTGTGTGTTTAAGAGGCAATAAATGAAATTTAGGACAACTAATTTTAGATGGT
TGGTTGGACTGCAATAACTGATATGTTCGGTACGACTGCCGGAACAGAAGAGTTACATGCATTTT
ATCCCATTAGACCTGAATGCATTGCCGATGTTCCTAGCACCCGACTCCGGCTGAGGGTGTGTCCA
GTTATTTGTATCGAATTCGATTATAGCTTATATTGGTTATGCACTTGCAATTTTGAGCTCGGGCT
TCAGATTTGGGGTTTAAGATTTAAGATTCAAGGTTCAAAATTCAGGGTTAAAGGTTCAAAA
Found at i:121383294 original size:26 final size:23
Alignment explanation
Indices: 121383249--121383301 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 23
121383239 AAGGCTAGTA
* *
121383249 ATAAAAAAATATAAAACAAATGC
1 ATAAAAAAATAAAAAACAAATAC
121383272 ATAAAGAAAATAAAATAAGCAAATAC
1 ATAAA-AAAATAAAA-AA-CAAATAC
121383298 ATAA
1 ATAA
121383302 GTATAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 2 0.08
26 10 0.40
ACGTcount: A:0.70, C:0.08, G:0.06, T:0.17
Consensus pattern (23 bp):
ATAAAAAAATAAAAAACAAATAC
Found at i:121383397 original size:3 final size:3
Alignment explanation
Indices: 121383376--121383568 Score: 100
Period size: 3 Copynumber: 66.7 Consensus size: 3
121383366 AAAATGATAG
* * * * * *
121383376 TAA TAA TGA TAA TAT TAA TAA TAA TAA TAG TAG TAA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
121383424 T-A TAG TAA TAG TAA TAA -AA AAA T-A TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
121383469 T-A CAA TAG TAA TAA TAA TAA AAA GGT-A TAA TAA T-A TAT TAGA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TA-A TAA
* * * *
121383514 TAA AAA TAA -AA -AA TAA AAA TAA -AA TAA TAA AAA TAG TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
121383558 AAA TGA TAA TA
1 TAA TAA TAA TA
121383569 GTGATGTTAG
Statistics
Matches: 140, Mismatches: 38, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
2 18 0.13
3 119 0.85
4 3 0.02
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:121383447 original size:22 final size:23
Alignment explanation
Indices: 121383378--121383568 Score: 101
Period size: 23 Copynumber: 8.3 Consensus size: 23
121383368 AATGATAGTA
* * *
121383378 ATAATGATAATATTAATAATAAT
1 ATAATAATAATAATAAAAATAAT
* * *
121383401 AATAGTAGTAAAAATAAAAATAAT
1 -ATAATAATAATAATAAAAATAAT
* *
121383425 ATAGTAATAGTAATAAAAA-AAT
1 ATAATAATAATAATAAAAATAAT
**
121383447 ATAATAATAATAATAGTAATAAT
1 ATAATAATAATAATAAAAATAAT
* *
121383470 ACAATAGTAATAATAATAAA-AAGGT
1 ATAATAATAATAATAA-AAATAA--T
*
121383495 ATAATAATATATTAGATAGTAAA-AAT
1 ATAATAATA-A-TA-ATA-AAAATAAT
* *
121383521 A-AAAAATAAAAAT-AAAATAAT
1 ATAATAATAATAATAAAAATAAT
*
121383542 A-AA-AATAGTAATAAAAA-AAT
1 ATAATAATAATAATAAAAATAAT
121383562 GATAATA
1 -ATAATA
121383569 GTGATGTTAG
Statistics
Matches: 129, Mismatches: 25, Indels: 27
0.71 0.14 0.15
Matches are distributed among these distances:
20 13 0.10
21 11 0.09
22 22 0.17
23 36 0.28
24 20 0.16
25 14 0.11
26 3 0.02
27 2 0.02
28 8 0.06
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (23 bp):
ATAATAATAATAATAAAAATAAT
Found at i:121383480 original size:48 final size:51
Alignment explanation
Indices: 121383415--121383521 Score: 141
Period size: 48 Copynumber: 2.2 Consensus size: 51
121383405 GTAGTAAAAA
*
121383415 TAAAAATA-ATATAGTAATAGTAATAAAAAAATATAATAATA-A-TA-ATAG
1 TAAAAATACA-ATAGTAATAATAATAAAAAAATATAATAATATATTAGATAG
* **
121383463 TAATAATACAATAGTAATAATAATAAAAAGGTATAATAATATATTAGATAG
1 TAAAAATACAATAGTAATAATAATAAAAAAATATAATAATATATTAGATAG
121383514 TAAAAATA
1 TAAAAATA
121383522 AAAAATAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
48 35 0.70
49 2 0.04
50 2 0.04
51 11 0.22
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (51 bp):
TAAAAATACAATAGTAATAATAATAAAAAAATATAATAATATATTAGATAG
Found at i:121383568 original size:14 final size:15
Alignment explanation
Indices: 121383372--121383561 Score: 114
Period size: 14 Copynumber: 13.1 Consensus size: 15
121383362 AACCAAAATG
* *
121383372 ATAGTAATAATGATA
1 ATAGTAATAATAAAA
* *
121383387 ATATTAATAATAATA
1 ATAGTAATAATAAAA
*
121383402 ATAGTAGTAA-AAATA
1 ATAGTAATAATAAA-A
* * **
121383417 AAAATAAT-ATAGTA
1 ATAGTAATAATAAAA
121383431 ATAGTAATAA-AAAA
1 ATAGTAATAATAAAA
*
121383445 ATA-TAATAATAATA
1 ATAGTAATAATAAAA
*
121383459 ATAGTAATAAT-ACA
1 ATAGTAATAATAAAA
121383473 ATAGTAATAATAATAA
1 ATAGTAATAATAA-AA
* *
121383489 AAAGGT-ATAAT-AAT
1 ATA-GTAATAATAAAA
* *
121383503 ATATTAGATAGTAAAA
1 ATAGTA-ATAATAAAA
*
121383519 ATA--AAAAATAAAA
1 ATAGTAATAATAAAA
*
121383532 ATA-AAATAATAAAA
1 ATAGTAATAATAAAA
121383546 ATAGTAATAA-AAAA
1 ATAGTAATAATAAAA
121383560 AT
1 AT
121383562 GATAATAGTG
Statistics
Matches: 135, Mismatches: 27, Indels: 27
0.71 0.14 0.14
Matches are distributed among these distances:
13 17 0.13
14 56 0.41
15 47 0.35
16 13 0.10
17 2 0.01
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (15 bp):
ATAGTAATAATAAAA
Found at i:121383570 original size:20 final size:20
Alignment explanation
Indices: 121383515--121383561 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
121383505 ATTAGATAGT
**
121383515 AAAAATAAAAAATAAAAATAA
1 AAAAAT-AAAAATAGTAATAA
*
121383536 AATAATAAAAATAGTAATAA
1 AAAAATAAAAATAGTAATAA
121383556 AAAAAT
1 AAAAAT
121383562 GATAATAGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAATAAAAATAGTAATAA
Found at i:121383599 original size:14 final size:14
Alignment explanation
Indices: 121383580--121383648 Score: 90
Period size: 14 Copynumber: 5.1 Consensus size: 14
121383570 TGATGTTAGT
121383580 AGTAATAGTAATAA
1 AGTAATAGTAATAA
121383594 AGTAATAGTAATAA
1 AGTAATAGTAATAA
121383608 AGTAATAGTAATAA
1 AGTAATAGTAATAA
*
121383622 A--AATAGT-ACAA
1 AGTAATAGTAATAA
*
121383633 TGTTAATAGTAATAA
1 AG-TAATAGTAATAA
121383648 A
1 A
121383649 ATAAAGAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
11 3 0.06
12 6 0.13
14 35 0.74
15 3 0.06
ACGTcount: A:0.57, C:0.01, G:0.13, T:0.29
Consensus pattern (14 bp):
AGTAATAGTAATAA
Found at i:121383711 original size:13 final size:14
Alignment explanation
Indices: 121383673--121383720 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
121383663 AATTGTAATA
* *
121383673 ATAATAATGATGTAA
1 ATAATAAT-ATATAC
121383688 ATAATAATATATAC
1 ATAATAATATATAC
*
121383702 ATAA-AATATATAT
1 ATAATAATATATAC
121383715 ATAATA
1 ATAATA
121383721 TAATGATAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.41
14 9 0.31
15 8 0.28
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (14 bp):
ATAATAATATATAC
Found at i:121383862 original size:18 final size:17
Alignment explanation
Indices: 121383822--121383865 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
121383812 TAATAATGAT
*
121383822 GAAATAATTCAATAATA
1 GAAATAATACAATAATA
* *
121383839 GTAATAATGACAATAGTA
1 GAAATAAT-ACAATAATA
121383857 GAAATAATA
1 GAAATAATA
121383866 ATAGTATTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (17 bp):
GAAATAATACAATAATA
Found at i:121383869 original size:15 final size:15
Alignment explanation
Indices: 121383793--121383871 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
121383783 AAAAATGGTG
*
121383793 GTAATGATAATAATA
1 GTAATAATAATAATA
* *
121383808 ATAATAATAATGAT-
1 GTAATAATAATAATA
*
121383822 GAAATAATTCAATAATA
1 GTAATAA-T-AATAATA
* *
121383839 GTAATAATGACAATA
1 GTAATAATAATAATA
121383854 GTAGA-AATAATAATA
1 GTA-ATAATAATAATA
121383869 GTA
1 GTA
121383872 TTTGAATAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 5 0.10
15 31 0.63
16 7 0.14
17 6 0.12
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.30
Consensus pattern (15 bp):
GTAATAATAATAATA
Found at i:121384573 original size:16 final size:16
Alignment explanation
Indices: 121384554--121384588 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
121384544 TAGGAAAATT
121384554 AAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAGA
* *
121384570 AAAAGAAAAGAAAAGA
1 AAAAAAAAAAAAAAGA
121384586 AAA
1 AAA
121384589 CCTTAGCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGA
Found at i:121386289 original size:38 final size:39
Alignment explanation
Indices: 121386205--121386298 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
121386195 ACCAATATGG
*
121386205 CACCCAGTGCCTCATCGGATAGTTCGAAGTAACAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAACAGTTGA
* * *
121386244 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAACAGTTGA
* *
121386282 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
121386299 AATCTATCCG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 19 0.40
39 25 0.53
40 3 0.06
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAACAGTTGA
Found at i:121388255 original size:24 final size:22
Alignment explanation
Indices: 121388224--121388287 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 22
121388214 TTAGGTAATC
121388224 ATAATAATTTAATATAAAACTAT
1 ATAATAATTTAATATAAAA-TAT
*
121388247 AATAATAATCATTAATAT-ATATAT
1 -ATAATAAT--TTAATATAAAATAT
121388271 ATATATAATTTAATATA
1 ATA-ATAATTTAATATA
121388288 TAAAACCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 7 0.20
23 3 0.09
24 16 0.46
25 2 0.06
26 7 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAATAATTTAATATAAAATAT
Found at i:121394402 original size:38 final size:39
Alignment explanation
Indices: 121394318--121394411 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
121394308 ACCAATATGG
*
121394318 CACCCAGTGCCTCATCGGATAGTTCGAAGTAACAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAACAGTTGA
* * *
121394357 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAACAGTTGA
* *
121394395 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
121394412 AATCTATCCG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 19 0.40
39 25 0.53
40 3 0.06
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAACAGTTGA
Found at i:121398925 original size:40 final size:38
Alignment explanation
Indices: 121398838--121398935 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 38
121398828 GTTTTCCTCA
*
121398838 TTGAAATACCATACCTACATTT-TTCAACTCGGTATGG
1 TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
*
121398875 --GAAATGCCATACCTACATTTCTT-AACTCAGTATGG
1 TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
121398910 ATTTGATAATACCATACCTACATTTC
1 --TTGA-AATACCATACCTACATTTC
121398936 ACACTTTGCC
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
35 30 0.58
36 2 0.04
39 2 0.04
40 18 0.35
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (38 bp):
TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
Found at i:121406349 original size:40 final size:38
Alignment explanation
Indices: 121406262--121406359 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 38
121406252 GTTTTCCTCA
*
121406262 TTGAAATACCATACCTACATTT-TTCAACTCGGTATGG
1 TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
*
121406299 --GAAATGCCATACCTACATTTCTT-AACTCAGTATGG
1 TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
121406334 ATTTGATAATACCATACCTACATTTC
1 --TTGA-AATACCATACCTACATTTC
121406360 ACACTTTGCC
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
35 30 0.58
36 2 0.04
39 2 0.04
40 18 0.35
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (38 bp):
TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
Found at i:121419157 original size:15 final size:14
Alignment explanation
Indices: 121419136--121419174 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
121419126 TAGAAATAAT
121419136 AAAATTAAATCATA
1 AAAATTAAATCATA
* *
121419150 TCAAATTAAAACATA
1 -AAAATTAAATCATA
121419165 AAAATTAAAT
1 AAAATTAAAT
121419175 TTTAAATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATTAAATCATA
Found at i:121419939 original size:19 final size:19
Alignment explanation
Indices: 121419915--121419963 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
121419905 TATTTTGCTA
*
121419915 ATAAAAATTATTAAAAGTC
1 ATAAAAATTATTAAAAATC
121419934 ATAAAAGATTA-TAAAAATC
1 ATAAAA-ATTATTAAAAATC
121419953 ATAAAAATTAT
1 ATAAAAATTAT
121419964 CGAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 4 0.15
19 19 0.70
20 4 0.15
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (19 bp):
ATAAAAATTATTAAAAATC
Found at i:121420015 original size:21 final size:22
Alignment explanation
Indices: 121419991--121420036 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
121419981 AAAATATATG
*
121419991 AAAATTAATAT-AAACTTATAA
1 AAAATTAATATAAAAATTATAA
*
121420012 AAAATTATTATAAAAATTATAA
1 AAAATTAATATAAAAATTATAA
121420034 AAA
1 AAA
121420037 TTTTCAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATTAATATAAAAATTATAA
Found at i:121420031 original size:22 final size:22
Alignment explanation
Indices: 121419991--121420126 Score: 69
Period size: 21 Copynumber: 6.5 Consensus size: 22
121419981 AAAATATATG
* *
121419991 AAAATTAATAT-AAACTTATAA
1 AAAATTATTATAAAAATTATAA
121420012 AAAATTATTATAAAAATTAT-A
1 AAAATTATTATAAAAATTATAA
* *
121420033 AAAATT-TTCA-ATAAATTCTAA
1 AAAATTATT-ATAAAAATTATAA
*
121420054 AAGAA-T-TT-TAAAAATTA-AT
1 AA-AATTATTATAAAAATTATAA
*
121420073 AAAATATATT-TAAAATTTTATAA
1 AAAAT-TATTATAAAA-ATTATAA
* * *
121420096 AAAA-CA-TATTAAAATTCTATA
1 AAAATTATTATAAAAATTATA-A
121420117 AAAATTATTA
1 AAAATTATTA
121420127 ATAGTATAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
18 2 0.02
19 3 0.03
20 21 0.24
21 41 0.47
22 13 0.15
23 7 0.08
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.38
Consensus pattern (22 bp):
AAAATTATTATAAAAATTATAA
Found at i:121420032 original size:9 final size:9
Alignment explanation
Indices: 121419915--121420166 Score: 96
Period size: 9 Copynumber: 25.8 Consensus size: 9
121419905 TATTTTGCTA
121419915 ATAAAAATT
1 ATAAAAATT
* *
121419924 ATTAAAAGTC
1 A-TAAAAATT
121419934 ATAAAAGATT
1 ATAAAA-ATT
*
121419944 ATAAAAATC
1 ATAAAAATT
121419953 ATAAAAATT
1 ATAAAAATT
* *
121419962 ATCGAATATT
1 AT-AAAAATT
121419972 -T-AAAA-T
1 ATAAAAATT
*
121419978 ATTAAAATAT
1 ATAAAAAT-T
*
121419988 ATGAAAATT
1 ATAAAAATT
*
121419997 AATATAAACTT
1 -ATA-AAAATT
121420008 ATAAAAAATTATT
1 AT--AAAA--ATT
121420021 ATAAAAATT
1 ATAAAAATT
121420030 ATAAAAATT
1 ATAAAAATT
*
121420039 TTCAATAAATT
1 AT-AA-AAATT
*
121420050 CTAAAAGAATT
1 AT-AAA-AATT
*
121420061 TTAAAAATT
1 ATAAAAATT
121420070 AATAAAATATAT
1 -ATAAAA-AT-T
* *
121420082 TTAAAATTTT
1 ATAAAA-ATT
*
121420092 ATAAAAAACAT
1 AT-AAAAA-TT
*
121420103 ATTAAAATTCT
1 A-TAAAAAT-T
121420114 ATAAAAATT
1 ATAAAAATT
* * *
121420123 ATTAATAGT
1 ATAAAAATT
*
121420132 ATAAAAATG
1 ATAAAAATT
*
121420141 ATATAAACTT
1 ATA-AAAATT
121420151 ATAAAAATT
1 ATAAAAATT
121420160 ATAAAAA
1 ATAAAAA
121420167 AAATCATAAA
Statistics
Matches: 183, Mismatches: 36, Indels: 48
0.69 0.13 0.18
Matches are distributed among these distances:
6 1 0.01
7 4 0.02
8 4 0.02
9 64 0.35
10 57 0.31
11 46 0.25
12 3 0.02
13 4 0.02
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:121420048 original size:20 final size:18
Alignment explanation
Indices: 121419915--121420166 Score: 71
Period size: 19 Copynumber: 12.9 Consensus size: 18
121419905 TATTTTGCTA
* *
121419915 ATAAAAATTATTAAAAGTC
1 ATAAAAATT-TTAAAAATT
* *
121419934 ATAAAAGATTATAAAAATC
1 ATAAAA-ATTTTAAAAATT
** *
121419953 ATAAAAATTATCGAATATT
1 ATAAAAATT-TTAAAAATT
*
121419972 -T-AAAATATT-AAAATAT
1 ATAAAAATTTTAAAAAT-T
* * *
121419988 ATGAAAATTAATATAAACTT
1 ATAAAAATT-TTA-AAAATT
121420008 ATAAAAAATTATTATAAAAATT
1 AT-AAAAA-T-TT-TAAAAATT
121420030 ATAAAAATTTTCAATAAATT
1 ATAAAAATTTT-AA-AAATT
*
121420050 CTAAAAGAATTTTAAAAATT
1 AT-AAA-AATTTTAAAAATT
*
121420070 AATAAAATATATTTAAAATTTT
1 -ATAAAA-AT-TTTAAAA-ATT
* *
121420092 ATAAAAAACATATTAAAATTCT
1 AT--AAAA-ATTTTAAAAAT-T
* *
121420114 ATAAAAATTATT-AATAGT
1 ATAAAAATT-TTAAAAATT
** *
121420132 ATAAAAATGATATAAACTT
1 ATAAAAATTTTA-AAAATT
*
121420151 ATAAAAATTATAAAAA
1 ATAAAAATTTTAAAAA
121420167 AAATCATAAA
Statistics
Matches: 175, Mismatches: 32, Indels: 53
0.67 0.12 0.20
Matches are distributed among these distances:
15 4 0.02
16 2 0.01
17 7 0.04
18 22 0.13
19 47 0.27
20 29 0.17
21 30 0.17
22 25 0.14
23 9 0.05
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAAAAATTTTAAAAATT
Found at i:121420104 original size:23 final size:22
Alignment explanation
Indices: 121420073--121420120 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
121420063 AAAAATTAAT
* *
121420073 AAAATATATTTAAAATTTTATAA
1 AAAACATA-TTAAAATTCTATAA
121420096 AAAACATATTAAAATTCTATAA
1 AAAACATATTAAAATTCTATAA
121420118 AAA
1 AAA
121420121 TTATTAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAACATATTAAAATTCTATAA
Found at i:121420719 original size:27 final size:25
Alignment explanation
Indices: 121420689--121420748 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
121420679 TAATTTAATT
*
121420689 TTTTTAAAATTTATTAGATTTTTTATA
1 TTTTTAAAATTT-TTA-AATTTTTATA
*
121420716 TTTTATAATATTTTTAAATTTTTATA
1 TTTT-TAAAATTTTTAAATTTTTATA
*
121420742 ATTTTAA
1 TTTTTAA
121420749 TAGTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 3 0.10
26 12 0.41
27 7 0.24
28 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTTAAAATTTTTAAATTTTTATA
Found at i:121420728 original size:19 final size:19
Alignment explanation
Indices: 121420684--121420743 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
121420674 GTTTTTAATT
*
121420684 TAAT-TTTTTTAAAATTTA
1 TAATATTTTTTAAATTTTA
* * *
121420702 TTAGATTTTTTATATTTTA
1 TAATATTTTTTAAATTTTA
121420721 TAATA-TTTTTAAATTTTTA
1 TAATATTTTTTAAA-TTTTA
121420740 TAAT
1 TAAT
121420744 TTTAATAGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 9 0.27
19 24 0.73
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TAATATTTTTTAAATTTTA
Found at i:121438129 original size:16 final size:16
Alignment explanation
Indices: 121438108--121438142 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
121438098 ACCCTCACAC
*
121438108 TTTTTGGGCTTATATT
1 TTTTTGAGCTTATATT
*
121438124 TTTTTGAGTTTATATT
1 TTTTTGAGCTTATATT
121438140 TTT
1 TTT
121438143 GTCTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (16 bp):
TTTTTGAGCTTATATT
Found at i:121442687 original size:76 final size:76
Alignment explanation
Indices: 121442584--121442732 Score: 201
Period size: 76 Copynumber: 2.0 Consensus size: 76
121442574 AATATGCCCT
* * * *
121442584 CGGACTTGTACTCCTCAGGCTTTTACAATTTAATCCCTCTAGTTTT-TATTTAAAAAACTTAATC
1 CGGACCTGTACTCCTCAAGCTTGTACAATTTAATCCCTCTACTTTTGT-TTTAAAAAACTTAATC
121442648 CTTTACTTTGAA
65 CTTTACTTTGAA
* * * *
121442660 CGGACCTGTACTCTTTAAGCTTGTACAATTTAATTCCTCTACTTTTGTTTTTAAAAACTTAATCC
1 CGGACCTGTACTCCTCAAGCTTGTACAATTTAATCCCTCTACTTTTGTTTTAAAAAACTTAATCC
*
121442725 TTTGCTTT
66 TTTACTTT
121442733 AATTGTTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 62 0.98
77 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (76 bp):
CGGACCTGTACTCCTCAAGCTTGTACAATTTAATCCCTCTACTTTTGTTTTAAAAAACTTAATCC
TTTACTTTGAA
Found at i:121449045 original size:19 final size:19
Alignment explanation
Indices: 121449023--121449065 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
121449013 TTTTATATTA
*
121449023 TTAAAATATATTATTATCC
1 TTAAAATATATTATTAACC
*
121449042 TTAATATATATTATTAACC
1 TTAAAATATATTATTAACC
121449061 TTAAA
1 TTAAA
121449066 CTTAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAAATATATTATTAACC
Found at i:121456298 original size:31 final size:31
Alignment explanation
Indices: 121456223--121456298 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 31
121456213 ACTATACTTC
* *
121456223 AATTTGAAGAATTTTAATTTTATACTTTTCCA
1 AATTTTAA-AATTTTAATTTTATACTTTTCAA
* *
121456255 AATTGGT-CAATTTTAATTATTATACTTTT-AA
1 AATT-TTAAAATTTTAATT-TTATACTTTTCAA
121456286 AATTTTAAAATTT
1 AATTTTAAAATTT
121456299 CAATCTTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
30 1 0.03
31 20 0.57
32 14 0.40
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (31 bp):
AATTTTAAAATTTTAATTTTATACTTTTCAA
Found at i:121465224 original size:16 final size:16
Alignment explanation
Indices: 121465203--121465234 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
121465193 TGGTTTATAT
121465203 CGGTTTTTAACCATCA
1 CGGTTTTTAACCATCA
121465219 CGGTTTTTAACCATCA
1 CGGTTTTTAACCATCA
121465235 ATTTGACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (16 bp):
CGGTTTTTAACCATCA
Found at i:121469708 original size:22 final size:22
Alignment explanation
Indices: 121469658--121469713 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
121469648 TTATAACAGT
* *
121469658 AAAAATATAATTTTATTTTTTT
1 AAAAATTTAATTTTATTTTTTA
*
121469680 AATAATTTATATTTTA-TTTTTA
1 AAAAATTTA-ATTTTATTTTTTA
*
121469702 AAAAATTAAATT
1 AAAAATTTAATT
121469714 AAATTTTTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 3 0.11
22 19 0.68
23 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AAAAATTTAATTTTATTTTTTA
Found at i:121470713 original size:14 final size:14
Alignment explanation
Indices: 121470676--121470717 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
121470666 AAATAAAAAC
121470676 ATACAAAAATTAAA
1 ATACAAAAATTAAA
* *
121470690 ATGAC-TAAATTATA
1 AT-ACAAAAATTAAA
121470704 ATACAAAAATTAAA
1 ATACAAAAATTAAA
121470718 TCTACAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
13 2 0.09
14 18 0.82
15 2 0.09
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (14 bp):
ATACAAAAATTAAA
Found at i:121478314 original size:16 final size:15
Alignment explanation
Indices: 121478293--121478340 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
121478283 GATGTGAATA
121478293 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
121478309 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
121478324 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
121478340 A
1 A
121478341 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:121478316 original size:24 final size:24
Alignment explanation
Indices: 121478289--121478344 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
121478279 TAATGATGTG
*
121478289 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
121478313 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
121478337 AATAATAA
1 AATAATAA
121478345 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:121478323 original size:8 final size:8
Alignment explanation
Indices: 121478289--121478340 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
121478279 TAATGATGTG
*
121478289 AATAATAA
1 AATATTAA
121478297 AATATATAA
1 AATAT-TAA
121478306 AATA-TAA
1 AATATTAA
121478313 AATATTAA
1 AATATTAA
*
121478321 AATATCAA
1 AATATTAA
*
121478329 AATATTAG
1 AATATTAA
121478337 AATA
1 AATA
121478341 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:121478558 original size:22 final size:24
Alignment explanation
Indices: 121478495--121478559 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
121478485 CGTGATAATA
*
121478495 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
121478520 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
121478543 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
121478560 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:121478584 original size:30 final size:29
Alignment explanation
Indices: 121478548--121478615 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
121478538 TATAGTTAAG
* *
121478548 ATATATACATAAGATAACATGTAAATATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* *
121478578 ATATATAAATAATATAATATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
121478607 ATACATAAA
1 ATATATAAA
121478616 ATAGTATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:121478631 original size:25 final size:26
Alignment explanation
Indices: 121478574--121478634 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
121478564 ACATGTAAAT
*
121478574 ATATATATATAAATAATATAATATTA
1 ATATATATATAAATAAAATAATATTA
* * *
121478600 A-AGATATATACATAAAATAGTA-TA
1 ATATATATATAAATAAAATAATATTA
121478624 ATATATATATA
1 ATATATATATA
121478635 TATACGTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 3 0.10
25 25 0.86
26 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (26 bp):
ATATATATATAAATAAAATAATATTA
Found at i:121478635 original size:29 final size:30
Alignment explanation
Indices: 121478569--121478648 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
121478559 AGATAACATG
* *
121478569 TAAATATATATATAT-AAATAATATAATAT
1 TAAATATATATACATAAAATAGTATAATAT
*
121478598 TAAAGATATATACATAAAATAGTATAATA-
1 TAAATATATATACATAAAATAGTATAATAT
* * *
121478627 TATATATATATACGTAATATAG
1 TAAATATATATACATAAAATAG
121478649 AATTTAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 31 0.72
30 12 0.28
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (30 bp):
TAAATATATATACATAAAATAGTATAATAT
Found at i:121479229 original size:18 final size:18
Alignment explanation
Indices: 121479206--121479265 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
121479196 ACAAGTGGTG
121479206 GTGGAGAAGGTGTGGCTA
1 GTGGAGAAGGTGTGGCTA
** *
121479224 GTGGAGTTGGTGGTGG-TG
1 GTGGAGAAGGT-GTGGCTA
* * *
121479242 GTGGAAAAAGAGTGGCTA
1 GTGGAGAAGGTGTGGCTA
121479260 GTGGAG
1 GTGGAG
121479266 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
17 4 0.13
18 22 0.73
19 4 0.13
ACGTcount: A:0.22, C:0.03, G:0.52, T:0.23
Consensus pattern (18 bp):
GTGGAGAAGGTGTGGCTA
Found at i:121479237 original size:30 final size:30
Alignment explanation
Indices: 121479201--121479350 Score: 194
Period size: 30 Copynumber: 4.8 Consensus size: 30
121479191 TAGTTACAAG
*
121479201 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGA----GT
* *
121479235 GGTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 --TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
121479267 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
121479297 TGGTTGTGGAAAA-GAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
121479326 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
121479351 TGAGAAAAGT
Statistics
Matches: 104, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
29 27 0.26
30 50 0.48
32 2 0.02
36 25 0.24
ACGTcount: A:0.21, C:0.03, G:0.49, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:121479318 original size:59 final size:64
Alignment explanation
Indices: 121479201--121479350 Score: 238
Period size: 59 Copynumber: 2.4 Consensus size: 64
121479191 TAGTTACAAG
*
121479201 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGTGGTGGAAAAAGAGTGGCTAGTGGAG
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTT-GTGGT-GTGGTGGAAAAAGAGTGGCTAGTGGAG
121479266 T
64 T
121479267 TGGTGGTGGAAAAGGTGTGGCTAGTGGAG-T-TGGT-T-GTGG-AAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGTGGTGTGGTGGAAAAAGAGTGGCTAGTGGAGT
121479326 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
121479351 TGAGAAAAGT
Statistics
Matches: 83, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
59 45 0.54
60 4 0.05
61 1 0.01
63 4 0.05
65 1 0.01
66 28 0.34
ACGTcount: A:0.21, C:0.03, G:0.49, T:0.27
Consensus pattern (64 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGTGGTGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:121480158 original size:13 final size:13
Alignment explanation
Indices: 121480115--121480158 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
121480105 ATAAATTGAA
121480115 AAAACAGAAATTG
1 AAAACAGAAATTG
* *
121480128 AAGAGCAGAAATTA
1 AA-AACAGAAATTG
*
121480142 AAAACAGAATTTG
1 AAAACAGAAATTG
121480155 AAAA
1 AAAA
121480159 GACCTCAGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.61, C:0.07, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAACAGAAATTG
Found at i:121480158 original size:14 final size:14
Alignment explanation
Indices: 121480096--121480158 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
121480086 GAGTTGATTT
* *
121480096 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
121480110 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
* *
121480125 TTGAAGAGCAGAAA
1 TTGAAAAACAGAAA
*
121480139 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
121480152 TTGAAAA
1 TTGAAAA
121480159 GACCTCAGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 10 0.25
14 18 0.45
15 12 0.30
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:121480270 original size:75 final size:76
Alignment explanation
Indices: 121480141--121481566 Score: 474
Period size: 75 Copynumber: 18.0 Consensus size: 76
121480131 AGCAGAAATT
* * * * *
121480141 AAAAACAGAATTTGAAAA-GACCTCAGTGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATG-CCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
121480205 GTTGA-TTTTTG
65 GTTGATTTTTTG
* * *
121480216 AAAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCTGAGGCTCAACTCATCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATGCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
121480281 TTGATTCTTTTG
66 TTGATT-TTTTG
* ** * ** * *
121480293 AAAAGCAGAAATTGAAAATAG-CTCAGCACGTGAGCAAAGGTTCAACTCACCTCTCACAATATGA
1 AAAAACAGAAATTGAAAAT-GCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
121480357 GTTGATTCTTTTG
65 GTTGATT-TTTTG
** ** * **
121480370 AAAAGTAGAAATTGAAAATAG-CTCAGCACGTGAGCAAAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAAT-GCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
121480434 GTTGATTTTTTTG
65 GTTGA-TTTTTTG
** * ** * * *
121480447 --AAACTTAACTTGAAAA-G---CAGATTTTGAAAATACCTCGATATGTGACTGAAGGTTCAACT
1 AAAAACAGAAATTGAAAATGCCTCAGCGTGTG-----ACCT-G--A-G-G-CTCAA--CTC-AC-
*
121480506 CACCTCTCGCAATATGAGTTGA-TTTTTG
51 C-T--CTCGCAATATGAGTTGATTTTTTG
* * * * ** * *
121480534 AAAAACAGAAATTAAAAGACT-CACTCAACTCTCGCAGAAATTAAAAAGCTCAACTCACCTCTCG
1 AAAAACAGAAATTGAAA-A-TGC-CTCAGC-GT-G-TG-ACCT--GAGGCTCAACTCACCTCTCG
*
121480598 CAATATGAGTTAAATTTTTTTG
57 CAATATGAGTT-GA-TTTTTTG
* * ** * *
121480620 AAGAAAAAAAAATTGAAAATAG-CTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATAT
1 AA-AAACAGAAATTGAAAAT-GCCTCAGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATAT
121480683 GAGTTGA-TTTTTG
63 GAGTTGATTTTTTG
* ** ** **** *
121480696 -AAAACAG-AATCTGAAAAACAGATTTTGAAAAT-ACCTCGACATGTGACCCGAAGCTCAACTCA
1 AAAAACAGAAAT-TG-AAAA-TGCCTCAGCGTGTGACCT-G--A-G-G-CTC-AA-CTC-A--C-
*
121480758 CATCTCGCAATGTGAGTTGATTTTTTTG
51 C-TCTCGCAATATGAGTTGA-TTTTTTG
* * * * * * * *
121480786 AAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTGAACTCACCTCTCACAATATG
1 AAAAACAGAAATTG--AAAATGCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
121480851 AGTTGATTTTTTTG
64 AGTTGA-TTTTTTG
* * *
121480865 AAAGACAGAAATTGAAAATAG-CTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTGAAAAT-GCCTCAGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATG
121480928 AGTTGATTTTTTTTTTTTG
64 AGTTGA------TTTTTTG
** * ** *** * * * * * *
121480947 AAAGGCAGAAATTGAAAA--ACGAAAATTGAAAAT-ACCTCAGCGTGTGACCTGAGGCTCAACTC
1 AAAAACAGAAATTGAAAATGCCTCAGCGTG----TGACCTGAG-G-CTCAACTCA--C-C-TCTC
* * * * *
121481009 GC-CTCTCACAATACGAGTTGATTTTTTG
56 GCAATAT--GAGT-TGA-TT--TTTT--G
* * *
121481037 -ACAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATGCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
121481099 TTGATTTTTTTG
66 TTGA-TTTTTTG
* * * ** *
121481111 AAAAACAGAAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCTCACAATATGAG
1 AAAAACAGAAATTGAAAATGCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
121481174 TTGA-ATTTTG
66 TTGATTTTTTG
* * * *
121481184 -AAAACAGAAATTGAAATTACCTCAGCGTGT--CTTGAGGCTCAACTCACCTTTCGCAATATGAG
1 AAAAACAGAAATTGAAAATGCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
121481246 TTGATTTTTTTG
66 TTGA-TTTTTTG
* *
121481258 AAAAACAGAAATTTAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATGCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
121481321 TTGATTTTTTT
66 TTGATTTTTTG
** * ** * * ** * * *
121481332 ACGAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAG-CATGTGAGC-CGAGGCTCAACTCA
1 AAAAACAGAAATTGAA-AA-TG--CCT---CAG-CGTGTGACCTGAG-GCTC-A---AC---TCA
*
121481395 CCTCTCGCAATATGAGTT-A-ATTTTG
50 CCTCTCGCAATATGAGTTGATTTTTTG
* * * *
121481420 ACAAACAGAAATTGAAATTACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATGCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
121481483 TTGA-TTTTTG
66 TTGATTTTTTG
* * * * *
121481493 AAAAACAGAAATTTAAAAATACCTCAGCGTGT--CCTGGGGCTTAACTCACCTTTCGCAATATGA
1 AAAAACAGAAA-TTGAAAATGCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
121481556 GTTGATTTTTT
65 GTTGATTTTTT
121481567 TGATTTTTTT
Statistics
Matches: 1024, Mismatches: 206, Indels: 242
0.70 0.14 0.16
Matches are distributed among these distances:
71 5 0.00
72 81 0.08
73 25 0.02
74 83 0.08
75 207 0.20
76 18 0.02
77 186 0.18
78 14 0.01
79 72 0.07
80 13 0.01
81 12 0.01
82 37 0.04
83 28 0.03
84 18 0.02
85 16 0.02
86 20 0.02
87 25 0.02
88 45 0.04
89 48 0.05
90 35 0.03
91 18 0.02
92 11 0.01
93 1 0.00
94 2 0.00
95 2 0.00
96 1 0.00
98 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (76 bp):
AAAAACAGAAATTGAAAATGCCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTG
Found at i:121480309 original size:77 final size:77
Alignment explanation
Indices: 121480181--121480449 Score: 400
Period size: 77 Copynumber: 3.5 Consensus size: 77
121480171 TGGCCCGAGA
*
121480181 CTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAAGCAGAAATTGAAAA-CGCCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAG-CTCAGC
** **
121480243 GTGTGACCTGAGG
65 ACGTGACCAAAGG
*
121480256 CTCAACTCATCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
*
121480321 CGTGAGCAAAGG
66 CGTGACCAAAGG
* * *
121480333 TTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAATAGCTCAGCA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
*
121480398 CGTGAGCAAAGG
66 CGTGACCAAAGG
*
121480410 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAA
121480450 CTTAACTTGA
Statistics
Matches: 177, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
75 28 0.16
76 1 0.01
77 147 0.83
78 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (77 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
CGTGACCAAAGG
Found at i:121480585 original size:29 final size:30
Alignment explanation
Indices: 121480539--121480599 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
121480529 TTTTGAAAAA
121480539 CAGAAATTAAAAGACTC-ACTCAACTCTCG
1 CAGAAATTAAAAGACTCAACTCAACTCTCG
*
121480568 CAGAAATTAAAA-AGCTCAACTCACCTCTCG
1 CAGAAATTAAAAGA-CTCAACTCAACTCTCG
121480598 CA
1 CA
121480600 ATATGAGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 1 0.03
29 15 0.52
30 13 0.45
ACGTcount: A:0.41, C:0.30, G:0.10, T:0.20
Consensus pattern (30 bp):
CAGAAATTAAAAGACTCAACTCAACTCTCG
Found at i:121480691 original size:251 final size:245
Alignment explanation
Indices: 121480244--121481192 Score: 894
Period size: 244 Copynumber: 3.9 Consensus size: 245
121480234 CGCCTCAGCG
* * *
121480244 TGTGACCTGAGGCTCAACTCATC-TCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTG-
1 TGTGACCCGAAGCTCAACTCA-CATCTCGCAATATGAGTTGATT-TTTTGAAAAACAGAAATTGA
* * * *
121480307 -AAAATAGCTCAGCACGTGAG--C-AAAGGTTCAACTCACCTCTCACAATATGAGTTGATTCTTT
64 AAAAATACCTCA-CTC-TGAGATCTAAA-GCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
** *
121480368 TGAAAAGTAGAAATTGAAAATAGCTCAGCACGTGAGCAAAGGCTCAACTCACCTCTCGCAATATG
126 TGAAAAAAAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
** * *
121480433 AGTTGATTTTTTTG-AAACTTAA-CTTGAAAAGCAGATTTTGAAAATACCTCGATA
191 AGTTGATTTTTTTGAAAACAGAATC-TGAAAAACAGATTTTGAAAATACCTCGACA
* * *
121480487 TGTGA-CTGAAGGTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AA
1 TGTGACCCGAA-GCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAA
* * *
121480549 AAGACT-CACTCAACTCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTAAA
65 AA-AATAC-CTC-ACTCT-G-AG--ATCT--AAAGCTCAACTCACCTCTCACAATATGAGTT-GA
* *
121480612 TTTTTTTGAAGAAAAAAAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCG
120 TTTTTTTGAA-AAAAAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCG
121480677 CAATATGAGTTGA--TTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACA
184 CAATATGAGTTGATTTTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACA
* * *
121480737 TGTGACCCGAAGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAA
1 TGTGACCCGAAGCTCAACTCACATCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAA
* * * * *
121480802 AAAATACCTCAGTGTGTGATCTGAAGCTGAACTCACCTCTCACAATATGAGTTGATTTTTTTGAA
65 AAAATACCTCACTCTGAGATCTAAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAA
* * *
121480867 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
130 AAAAAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
* ** *
121480932 GATTTTTTTTTTTTGAAAGGCAGAAAT-TGAAAAAC-GAAAATTGAAAATACCTC-AGCG
195 GA-----TTTTTTTGAAA-ACAG-AATCTGAAAAACAG-ATTTTGAAAATACCTCGA-CA
* * * * * * *
121480989 TGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTG-ACAACAGAAATTG--A
1 TGTGACCCGAAGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAA
* * * * * *
121481051 AATTACCTCA-GC-GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
66 AAATACCTCACTCTGAGAT-CTAAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAA
* * * ** ** *
121481113 AAACAGAAATTGAAAATACCTCAGCA--TG-TCTTGAGGCTCAACTCATTTCTCACAATATGAGT
130 AAAAAGAAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGT
*
121481175 TGA--ATTTTGAAAACAGAA
194 TGATTTTTTTGAAAACAGAA
121481193 ATTGAAATTA
Statistics
Matches: 598, Mismatches: 69, Indels: 86
0.79 0.09 0.11
Matches are distributed among these distances:
235 2 0.00
236 3 0.01
237 8 0.01
241 17 0.03
242 9 0.02
243 41 0.07
244 96 0.16
245 12 0.02
246 96 0.16
247 2 0.00
248 11 0.02
249 33 0.06
250 90 0.15
251 88 0.15
252 82 0.14
253 8 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (245 bp):
TGTGACCCGAAGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAA
AAATACCTCACTCTGAGATCTAAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAA
AAAAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACA
Found at i:121481016 original size:173 final size:169
Alignment explanation
Indices: 121480802--121481256 Score: 488
Period size: 147 Copynumber: 2.8 Consensus size: 169
121480792 ATAAATTGAA
* * * *
121480802 AAAATACCTCAGTGTGTGATCTGAAGCTGAACTCACCTCTCACAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGA-TTTTTTGAA
*
121480867 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGT
65 A-ACAGAAATTGAAAATACCTCA--GCGTG-GCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
121480931 TGATTTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
126 TGATTTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
* * *
121480975 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTGACA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTGAAA
* * *
121481040 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
66 ACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
121481103 ---TTTTTTT--------G-AA---AAACA-GAA-ATTG
131 TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
* * * ** * *
121481125 AAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCTCACAATATGAGTTGA-ATTTTGAAA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTGAAA
* * * * *
121481187 ACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATT
66 ACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
121481252 TTTTT
131 TTTTT
121481257 GAAAAACAGA
Statistics
Matches: 254, Mismatches: 22, Indels: 33
0.82 0.07 0.11
Matches are distributed among these distances:
147 68 0.27
148 31 0.12
150 20 0.08
151 3 0.01
152 6 0.02
155 2 0.01
156 1 0.00
164 7 0.03
168 2 0.01
169 37 0.15
171 19 0.07
172 9 0.04
173 49 0.19
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (169 bp):
AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTGAAA
ACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
Found at i:121481045 original size:89 final size:90
Alignment explanation
Indices: 121480873--121481052 Score: 213
Period size: 96 Copynumber: 1.9 Consensus size: 90
121480863 TGAAAGACAG
* * *
121480873 AAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATACGAGTTGA----
121480938 TTTTTTTTGAAAGGCAGAAATTGAAAAACGA
62 -TTTTTTTGAAA-GCAGAAATTGAAAAACGA
* * *
121480969 AAATTGAAAATACCTCAGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGA-TT
1 AAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATACGAGTTGATTT
121481032 TTTTGACAA-CAGAAATTGAAA
65 TTTTGA-AAGCAGAAATTGAAA
121481053 TTACCTCAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
89 12 0.16
90 8 0.11
91 2 0.03
95 2 0.03
96 52 0.68
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (90 bp):
AAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATACGAGTTGATTTT
TTTGAAAGCAGAAATTGAAAAACGA
Done.