Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 98 of 126
Found at i:19242236 original size:11 final size:11
Alignment explanation
Indices: 19242220--19242253 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
19242210 TATAAAAACT
19242220 TAAAAAATATA
1 TAAAAAATATA
19242231 TAAAAAATA-A
1 TAAAAAATATA
19242241 T-AAAAATATA
1 TAAAAAATATA
19242251 TAA
1 TAA
19242254 TTCGATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.33
10 4 0.19
11 10 0.48
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAAAATATA
Found at i:19249797 original size:23 final size:21
Alignment explanation
Indices: 19249756--19249813 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 21
19249746 ATAATAATAA
*
19249756 ATATATATTTTTATTAAATTT
1 ATATATATTATTATTAAATTT
19249777 ATATATAATTATTATTAAAATTTT
1 ATATAT-ATTATTATT-AAA-TTT
*
19249801 AAATTATATTATT
1 ATA-TATATTATT
19249814 TTTTATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 6 0.19
22 8 0.26
23 3 0.10
24 11 0.35
25 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATATATTATTATTAAATTT
Found at i:19249808 original size:25 final size:25
Alignment explanation
Indices: 19249780--19249844 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
19249770 TAAATTTATA
19249780 TATAATTATTATTAAAATTTTAAAT
1 TATAATTATTATTAAAATTTTAAAT
* * * *
19249805 TAT-ATTATTTTTTATATTTTTTAAT
1 TATAATTA-TTATTAAAATTTTAAAT
*
19249830 TATATTTA-TATTAAA
1 TATAATTATTATTAAA
19249845 TTATTATATC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
24 9 0.29
25 19 0.61
26 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TATAATTATTATTAAAATTTTAAAT
Found at i:19251149 original size:15 final size:15
Alignment explanation
Indices: 19251129--19251160 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19251119 CATATACTTA
19251129 TAAGTACATATAACT
1 TAAGTACATATAACT
*
19251144 TAAGTACTTATAACT
1 TAAGTACATATAACT
19251159 TA
1 TA
19251161 TAATTACAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (15 bp):
TAAGTACATATAACT
Found at i:19268509 original size:2 final size:2
Alignment explanation
Indices: 19268497--19268536 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
19268487 ATTGACAAAA
19268497 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19268537 CAAAAGCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:19269383 original size:39 final size:39
Alignment explanation
Indices: 19269340--19269419 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
19269330 ATTTAATAAA
19269340 TAGATTTTTTATTAAATAATATAAATTATTATTTTAGAT
1 TAGATTTTTTATTAAATAATATAAATTATTATTTTAGAT
19269379 TAGATTTTTTATTAAATAATATAAATTATTATTTTAGAT
1 TAGATTTTTTATTAAATAATATAAATTATTATTTTAGAT
19269418 TA
1 TA
19269420 ATTAGAATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (39 bp):
TAGATTTTTTATTAAATAATATAAATTATTATTTTAGAT
Found at i:19269501 original size:16 final size:16
Alignment explanation
Indices: 19269471--19269517 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
19269461 ATATATTTAT
**
19269471 AAAAAAAATCTAAATA
1 AAAAAAAATAAAAATA
* *
19269487 TACAAAAATAAAAATA
1 AAAAAAAATAAAAATA
19269503 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
19269518 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAAAAATAAAAATA
Found at i:19277811 original size:26 final size:26
Alignment explanation
Indices: 19277775--19277825 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
19277765 CACAATAATT
*
19277775 ATTGATTTGATTATAATATCTTATCC
1 ATTGATTTGATTATAATATCCTATCC
*
19277801 ATTGATTTGATTATATTATCCTATC
1 ATTGATTTGATTATAATATCCTATC
19277826 TATGAATCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (26 bp):
ATTGATTTGATTATAATATCCTATCC
Found at i:19282428 original size:30 final size:30
Alignment explanation
Indices: 19282378--19282479 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 30
19282368 TCATTCAATG
*
19282378 AATTGAACCCTCAAACATTTATTTTCATCC
1 AATTGAACCCTTAAACATTTATTTTCATCC
* * *
19282408 AATTGAGCCCTTAAATATTTATTTTTATCC
1 AATTGAACCCTTAAACATTTATTTTCATCC
* * *
19282438 AATTGAACCTTTAAACATCTATTTTCACCC
1 AATTGAACCCTTAAACATTTATTTTCATCC
*
19282468 AATTAAACCCTT
1 AATTGAACCCTT
19282480 GATTGGATAG
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (30 bp):
AATTGAACCCTTAAACATTTATTTTCATCC
Found at i:19286411 original size:48 final size:48
Alignment explanation
Indices: 19286355--19286479 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 48
19286345 GCAAGTCAAC
* * * *
19286355 AAAAGGCAGTGCAGTCGACATCTGGTTGGAATAACAAAG-TGACTGAGG
1 AAAAGGCAGTTCAATCGACATCTGGTTGGAATAAAAAAGCT-ACTCAGG
* * *
19286403 AAAGGGCAGTTCAATCGACATCTGGCTGGGATAAAAAAGCTACTCAGG
1 AAAAGGCAGTTCAATCGACATCTGGTTGGAATAAAAAAGCTACTCAGG
* * *
19286451 AAAAGCCAGTTCATTCGACATCCGGTTGG
1 AAAAGGCAGTTCAATCGACATCTGGTTGG
19286480 GTATCTTCAA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 63 0.98
49 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (48 bp):
AAAAGGCAGTTCAATCGACATCTGGTTGGAATAAAAAAGCTACTCAGG
Found at i:19286561 original size:36 final size:36
Alignment explanation
Indices: 19286514--19286592 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
19286504 ACTAAGAATG
* * *
19286514 AGTCACCTATAATTAATAGTTCCTGGGACCAACAGA
1 AGTCACCTATAATGAATAGTTCCTGCGACCAACAAA
* * *
19286550 AGTCACCTATAATGAGTAGTTCTTGCGATCAACAAA
1 AGTCACCTATAATGAATAGTTCCTGCGACCAACAAA
19286586 AGTCACC
1 AGTCACC
19286593 AGAATGTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (36 bp):
AGTCACCTATAATGAATAGTTCCTGCGACCAACAAA
Found at i:19289185 original size:3 final size:3
Alignment explanation
Indices: 19289177--19289202 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19289167 TTTCTTTCGC
19289177 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
19289203 CTGCGAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:19293376 original size:156 final size:156
Alignment explanation
Indices: 19293103--19293418 Score: 452
Period size: 156 Copynumber: 2.0 Consensus size: 156
19293093 ATTGCCCAAA
* * ** ****
19293103 TCTGATTTCTCTTTCAAACAACAATTTGCCTTCGAATCTCAAAAGCCTAGGGATTTTTTATTGTG
1 TCTGATTTCTCTTTCAAACAACAATTTACCTTCGAATCTAAAAAGCCTAAAGATTGAAAATTGTG
* * * *
19293168 AAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACTTCAGCAATGCATGTTTTCTTGAG
66 AAAAGTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACATCAGCAATGCAAGTCTTCTTGAG
* *
19293233 CAGTTGGATATTAACTATTGTCGATC
131 CAGTTGGAAATTAACTATTGTCCATC
*
19293259 TCTGATTTCTCTTTCAAAGAACAATTTACCTTCGAATCTAAAAAGCCTAAAGATTGAAAATTGTG
1 TCTGATTTCTCTTTCAAACAACAATTTACCTTCGAATCTAAAAAGCCTAAAGATTGAAAATTGTG
* * *
19293324 TAAAGTTGCGGTGTTTGTTGGAAGAGGGAGAGAATGTTGACATCAGCAATGCAAGTCTTCTTGAG
66 AAAAGTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACATCAGCAATGCAAGTCTTCTTGAG
* *
19293389 CAGTTGGAAATTAAGTTTTGTCCATC
131 CAGTTGGAAATTAACTATTGTCCATC
19293415 TCTG
1 TCTG
19293419 GTATCTTTAT
Statistics
Matches: 140, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
156 140 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (156 bp):
TCTGATTTCTCTTTCAAACAACAATTTACCTTCGAATCTAAAAAGCCTAAAGATTGAAAATTGTG
AAAAGTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACATCAGCAATGCAAGTCTTCTTGAG
CAGTTGGAAATTAACTATTGTCCATC
Found at i:19297265 original size:36 final size:36
Alignment explanation
Indices: 19297206--19297274 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
19297196 AATGGTAAGT
*
19297206 GGCAGTGCAGCACAGATACTGTTTCTTAACAGAACG
1 GGCAATGCAGCACAGATACTGTTTCTTAACAGAACG
** * *
19297242 GGCAATGCAGCACATTTATTGTTTCTTACCAGA
1 GGCAATGCAGCACAGATACTGTTTCTTAACAGA
19297275 CCAACTGTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (36 bp):
GGCAATGCAGCACAGATACTGTTTCTTAACAGAACG
Found at i:19298020 original size:2 final size:2
Alignment explanation
Indices: 19298013--19298044 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19298003 TCATGTTTTC
19298013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19298045 ATTGAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19298914 original size:30 final size:30
Alignment explanation
Indices: 19298878--19298938 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
19298868 ACTGAAAAGG
19298878 TTTATGAAGAGCCACAAGAGGTTAATTCTT
1 TTTATGAAGAGCCACAAGAGGTTAATTCTT
*
19298908 TTTATGAAGAGCCATAAGAGGTTAATTCTT
1 TTTATGAAGAGCCACAAGAGGTTAATTCTT
19298938 T
1 T
19298939 CTCTGAGACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (30 bp):
TTTATGAAGAGCCACAAGAGGTTAATTCTT
Found at i:19301846 original size:16 final size:16
Alignment explanation
Indices: 19301799--19301848 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
19301789 AGAATATTTT
*
19301799 TATTTTCAT-TTCATA
1 TATTTTTATATTCATA
*
19301814 T-TTTTTATATTAGATA
1 TATTTTTATATT-CATA
*
19301830 TATTTTTGTATTCATA
1 TATTTTTATATTCATA
19301846 TAT
1 TAT
19301849 AATGGGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 6 0.21
15 3 0.11
16 10 0.36
17 9 0.32
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (16 bp):
TATTTTTATATTCATA
Found at i:19303477 original size:12 final size:12
Alignment explanation
Indices: 19303460--19303486 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19303450 TAGGATGACA
19303460 ATAAAAAAAAAT
1 ATAAAAAAAAAT
19303472 ATAAAAAAAAAT
1 ATAAAAAAAAAT
19303484 ATA
1 ATA
19303487 TACACCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
ATAAAAAAAAAT
Found at i:19308805 original size:108 final size:109
Alignment explanation
Indices: 19308670--19308888 Score: 368
Period size: 109 Copynumber: 2.0 Consensus size: 109
19308660 ATTTCTCATA
* * **
19308670 GTTGTAAAGATTTATTTGTTGGTGGATTGTATTTGGAGTA-GCCATTTTGAGTTGGGCTGAACCA
1 GTTGTAAAGATTTATTTATTAGTGGATTGTATTTGGAGTAGGCCATTTTGAGTTGGGCCAAACCA
* *
19308734 AATATATTTGTGTGTTTTTATTCTTGATTTGAGTTTGCTATTTT
66 AATATATTTGTGTGTTCTTATTCTTGATTTGAGCTTGCTATTTT
*
19308778 GTTGTAAAGATTTATTTATTAGTGGATTGTGTTTGGAGTAGGCCATTTTGAGTTGGGCCAAACCA
1 GTTGTAAAGATTTATTTATTAGTGGATTGTATTTGGAGTAGGCCATTTTGAGTTGGGCCAAACCA
19308843 AATATATTTGTGTGTTCTTATTCTTGATTTGAGCTTGCTATTTT
66 AATATATTTGTGTGTTCTTATTCTTGATTTGAGCTTGCTATTTT
19308887 GT
1 GT
19308889 GTGGGTGTTA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 37 0.36
109 66 0.64
ACGTcount: A:0.21, C:0.08, G:0.24, T:0.47
Consensus pattern (109 bp):
GTTGTAAAGATTTATTTATTAGTGGATTGTATTTGGAGTAGGCCATTTTGAGTTGGGCCAAACCA
AATATATTTGTGTGTTCTTATTCTTGATTTGAGCTTGCTATTTT
Found at i:19316231 original size:58 final size:58
Alignment explanation
Indices: 19316170--19316715 Score: 716
Period size: 58 Copynumber: 9.3 Consensus size: 58
19316160 TTTATTTTTT
19316170 TTTTTTTGAAAATTTATTTCTAAGG-AAATTGATACTTTCAACTTTTCCCCAAAAATA
1 TTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
* *
19316227 TTTTTTTTGAAAATTTATTTCCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA
1 -TTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
* * **
19316286 -TTTTTTGGAAATTTGGATTTC-AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACC
1 TTTTTTTGAAAATTT--ATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
* * *
19316344 CTTTTTTG-AAATTTATTTTTAAGGAAAATTGATACTTTCGACTTTTCCCCAAAAATA
1 TTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
* * *
19316401 TTTTTTGGAAATTTTGATTT-TCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA
1 TTTTTTTGAAAATTT-ATTTCT-AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
* * *
19316460 TTTTTTTTTGAAATTTTGTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
1 --TTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
* *
19316520 TTTTTTTG-GAATTTATTT-TAAGGAAAATTGATACTCTCAAC-TTTCCCCTAAAAATA
1 TTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCC-AAAAATA
19316576 TTTTTTTTGAAAATTTTAATTT-TCAA-GAAAATTGATACTTTCAACTTTTCCCCAAAAATA
1 -TTTTTTTGAAAA-TTT-ATTTCT-AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
* *
19316636 TTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA
1 TTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
19316694 TTTTTTTTTGAAAATTTTATTT
1 --TTTTTTTGAAAA-TTTATTT
19316716 TTATTTAAAG
Statistics
Matches: 436, Mismatches: 29, Indels: 43
0.86 0.06 0.08
Matches are distributed among these distances:
55 7 0.02
56 33 0.08
57 73 0.17
58 116 0.27
59 96 0.22
60 80 0.18
61 31 0.07
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
TTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
Found at i:19316428 original size:174 final size:175
Alignment explanation
Indices: 19316070--19316718 Score: 852
Period size: 174 Copynumber: 3.7 Consensus size: 175
19316060 TTTTGTTAAG
* * *
19316070 GGAAAATTGATACTTTCAAC-TTTCCCCAAAAATATTTTCTT-GAAATTTTAATTTCGAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTCAAGGAAAA
*
19316133 TTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTTTTTTTGAAAATTTATTTCTAAGG-AA
66 TTGATACTTTCAACTTTTCCTCAAAAA--TA------TTTTTTTG-AAATTTATTTTTAAGGAAA
* * *
19316197 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCCAA
122 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTATTTTCAA
* *
19316251 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTGGATTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTCAAGGAAAA
***
19316315 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAATTTATTTTTAAGGAAAATTGATACT
66 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTTTAAGGAAAATTGATACT
*
19316380 TTCGACTTTTCCCCAAAAATA-TTTTTTGGAAATTTTGATTTTCAA
131 TTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTT-ATTTTCAA
* * * *
19316425 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTGTTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTTGATTTCAAGGAAA
* *
19316490 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAATTTA-TTTTAAGGAAAATTGATAC
65 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTTTAAGGAAAATTGATAC
* *
19316554 TCTCAAC-TTTCCCCTAAAAATATTTTTTTTGAAAATTTTAATTTTCAA
130 TTTCAACTTTTCCCC-AAAAATA-TTTTTTTGGAAATTTT-ATTTTCAA
19316602 -GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAA-TTT-ATTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTC-AAGGAAA
19316664 ATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTTGAAAATTTTATTTTTA
65 ATTGATACTTTCAACTTTTCCTC-AAAAATA--TTTTTTTG-AAA-TTTATTTTTA
19316719 TTTAAAGAAA
Statistics
Matches: 421, Mismatches: 31, Indels: 34
0.87 0.06 0.07
Matches are distributed among these distances:
173 32 0.08
174 125 0.30
175 42 0.10
176 105 0.25
177 24 0.06
178 4 0.01
179 5 0.01
181 25 0.06
182 59 0.14
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (175 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTCAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTTTAAGGAAAATTGATACT
TTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTATTTTCAA
Found at i:19316450 original size:116 final size:117
Alignment explanation
Indices: 19316070--19316716 Score: 854
Period size: 116 Copynumber: 5.5 Consensus size: 117
19316060 TTTTGTTAAG
* * *
19316070 GGAAAATTGATACTTTCAAC-TTTCCCCAAAAATA-TTTTCTTG-AAATTTTAATTTCGAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTTATTTTCAAGGAAA
* *
19316132 ATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTTTTTTTGAAAATTTATTTCTAA
66 ATTGATACTTTCAACTTTTCCCCAAAAA--TA------TTTTTTTGGAAATTTATTTC-AA
*
19316193 GG-AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA-TTTATTTCCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTTATTTTCAAGGAAA
*
19316256 ATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTGGATTTCAA
66 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT--ATTTCAA
* *** *
19316309 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTTTG-AAA-TTTATTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTTATTTTCAAGGAAA
*
19316371 ATTGATACTTTCGACTTTTCCCCAAAAATA-TTTTTTGGAAATTTTGATTTTCAA
66 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAA-TTT-A-TTTCAA
* * *
19316425 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTG-AAATTTTGTTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAATTTTATTTTCAAGGAA
*
19316489 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGG-AATTTATTTTAA
65 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCAA
*
19316541 GGAAAATTGATACTCTCAAC-TTTCCCCTAAAAATATTTTTTTTGAAAATTTTAATTTTCAA-GA
1 GGAAAATTGATACTTTCAACTTTTCCCC-AAAAATATTTTTTTTGAAAATTTT-ATTTTCAAGGA
19316604 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
64 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTC-AA
*
19316659 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAAATTTTATTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAATTTTATTTT
19316717 TATTTAAAGA
Statistics
Matches: 475, Mismatches: 30, Indels: 43
0.87 0.05 0.08
Matches are distributed among these distances:
115 86 0.18
116 132 0.28
117 50 0.11
118 46 0.10
119 69 0.15
120 8 0.02
122 19 0.04
123 16 0.03
124 46 0.10
125 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTTATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCAA
Found at i:19317175 original size:20 final size:20
Alignment explanation
Indices: 19317147--19317198 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
19317137 CACCGGTGGG
*
19317147 ATTTCGCCGGATTCTGG-AA
1 ATTTCGCCGGAATCTGGAAA
19317166 ATTCTCGCCGGAATCTGGAAA
1 ATT-TCGCCGGAATCTGGAAA
19317187 ATTTCGCCGGAA
1 ATTTCGCCGGAA
19317199 GTTCGCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.10
20 22 0.73
21 5 0.17
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (20 bp):
ATTTCGCCGGAATCTGGAAA
Found at i:19317205 original size:11 final size:11
Alignment explanation
Indices: 19317189--19317228 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
19317179 TCTGGAAAAT
19317189 TTCGCCGGAAG
1 TTCGCCGGAAG
19317200 TTCGCCGGAAG
1 TTCGCCGGAAG
*
19317211 TT-GCCGAAAG
1 TTCGCCGGAAG
*
19317221 ATCGCCGG
1 TTCGCCGG
19317229 TTTCTGGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.20, C:0.28, G:0.35, T:0.17
Consensus pattern (11 bp):
TTCGCCGGAAG
Found at i:19317271 original size:19 final size:20
Alignment explanation
Indices: 19317232--19317272 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19317222 TCGCCGGTTT
*
19317232 CTGGGATTCTTCGCCGGAAA
1 CTGGGATTCTTCGCCGAAAA
*
19317252 CTGGGATTGTT-GCCGAAAA
1 CTGGGATTCTTCGCCGAAAA
19317271 CT
1 CT
19317273 TCAAGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGAAAA
Found at i:19317387 original size:25 final size:25
Alignment explanation
Indices: 19317340--19317393 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
19317330 AATCTGGAAA
*
19317340 TTTCCCAGAAATTTCCAGAAAATTT
1 TTTCCCAAAAATTTCCAGAAAATTT
*
19317365 TTTCGCCAAAAATTTCTAG-AAATTT
1 TTTC-CCAAAAATTTCCAGAAAATTT
19317390 TTTC
1 TTTC
19317394 TCACTCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAATTT
Found at i:19317714 original size:3 final size:3
Alignment explanation
Indices: 19317706--19317739 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
19317696 GATAATTAAA
19317706 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19317740 GATAAACCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:19317859 original size:3 final size:3
Alignment explanation
Indices: 19317851--19317877 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19317841 AAAGATATAC
19317851 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
19317878 GAATACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19318304 original size:22 final size:21
Alignment explanation
Indices: 19318277--19318389 Score: 93
Period size: 22 Copynumber: 5.2 Consensus size: 21
19318267 AGTACTAAGT
* *
19318277 ATAACTTAGTAGTAAATGAATG
1 ATAACTTAATAGTAAAT-AATA
* * *
19318299 ATAACTTAGTAGTCAATAATTG
1 ATAACTTAATAGTAAATAA-TA
*
19318321 ATAACTTAATAGCAAATCAATA
1 ATAACTTAATAGTAAAT-AATA
* *
19318343 ATAACATAATAATAAATACATA
1 ATAACTTAATAGTAAATA-ATA
*
19318365 ATAACTT-ATAGTAAATCAATT
1 ATAACTTAATAGTAAAT-AATA
19318386 ATAA
1 ATAA
19318390 TATGGTTATA
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
21 17 0.22
22 57 0.75
23 2 0.03
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (21 bp):
ATAACTTAATAGTAAATAATA
Found at i:19318483 original size:22 final size:22
Alignment explanation
Indices: 19318453--19318504 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
19318443 AAAATAAGTT
* * * *
19318453 ATAATTTAGTAGTTAATCATTG
1 ATAACTTAGTAATCAATCATTA
*
19318475 ATAACTTAGTAATCAATTATTA
1 ATAACTTAGTAATCAATCATTA
19318497 ATAACTTA
1 ATAACTTA
19318505 ATAGCAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (22 bp):
ATAACTTAGTAATCAATCATTA
Found at i:19318591 original size:22 final size:22
Alignment explanation
Indices: 19318558--19318668 Score: 100
Period size: 22 Copynumber: 5.1 Consensus size: 22
19318548 TAATTAATTG
* *
19318558 TTAAGAGTAAATCATAAATAAT
1 TTAATAGTAAATCATCAATAAT
* *
19318580 TTAGTAGTAAATCATCGATAAT
1 TTAATAGTAAATCATCAATAAT
* * *
19318602 TTAATAGTTAATCAGCAATAAC
1 TTAATAGTAAATCATCAATAAT
* * **
19318624 TTAATAATAAATTATGGATAAT
1 TTAATAGTAAATCATCAATAAT
19318646 TTAATA-TAAATCAGT-AATAAT
1 TTAATAGTAAATCA-TCAATAAT
19318667 TT
1 TT
19318669 GATAATGAAT
Statistics
Matches: 70, Mismatches: 18, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
21 13 0.19
22 57 0.81
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (22 bp):
TTAATAGTAAATCATCAATAAT
Found at i:19318622 original size:44 final size:43
Alignment explanation
Indices: 19318565--19318674 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 43
19318555 TTGTTAAGAG
** * *
19318565 TAAATCATAAATAATTTAGTAGTAAATCATCGATAATTTAATA
1 TAAATCAGCAATAATTTAATAATAAATCATCGATAATTTAATA
* * * *
19318608 GTTAATCAGCAATAACTTAATAATAAATTATGGATAATTTAATA
1 -TAAATCAGCAATAATTTAATAATAAATCATCGATAATTTAATA
* *
19318652 TAAATCAGTAATAATTTGATAAT
1 TAAATCAGCAATAATTTAATAAT
19318675 GAATTATGGC
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
43 19 0.35
44 35 0.65
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (43 bp):
TAAATCAGCAATAATTTAATAATAAATCATCGATAATTTAATA
Found at i:19318814 original size:22 final size:22
Alignment explanation
Indices: 19318789--19318893 Score: 82
Period size: 22 Copynumber: 5.1 Consensus size: 22
19318779 AAAGGAAAAC
19318789 TATTGATAATTTAGTAGTAAAT
1 TATTGATAATTTAGTAGTAAAT
*
19318811 TATTGAT-A---ACT--T-AAT
1 TATTGATAATTTAGTAGTAAAT
*
19318826 TATTGATAATATAGTAGTAAAT
1 TATTGATAATTTAGTAGTAAAT
* * * *
19318848 TACTAATAACTTAGTTGTAAAT
1 TATTGATAATTTAGTAGTAAAT
*
19318870 TGA-TGATAATTTAGTAATAAAT
1 T-ATTGATAATTTAGTAGTAAAT
19318892 TA
1 TA
19318894 ATTAATCATC
Statistics
Matches: 64, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
15 10 0.16
16 2 0.03
18 2 0.03
19 2 0.03
21 3 0.05
22 44 0.69
23 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTGATAATTTAGTAGTAAAT
Found at i:19318830 original size:37 final size:37
Alignment explanation
Indices: 19318789--19318860 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
19318779 AAAGGAAAAC
* * *
19318789 TATTGATAATTTAGTAGTAAATTATTGATAACTTAAT
1 TATTGATAATATAGTAGTAAATTACTAATAACTTAAT
19318826 TATTGATAATATAGTAGTAAATTACTAATAACTTA
1 TATTGATAATATAGTAGTAAATTACTAATAACTTA
19318861 GTTGTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (37 bp):
TATTGATAATATAGTAGTAAATTACTAATAACTTAAT
Found at i:19319112 original size:22 final size:22
Alignment explanation
Indices: 19319035--19319150 Score: 110
Period size: 22 Copynumber: 5.3 Consensus size: 22
19319025 AGTAACTCAT
*
19319035 TTTAAT-GTTAAATCATTTATAA
1 TTTAATAG-TAAATCATTGATAA
* *
19319057 ATTAGTAGTAAATCATAT-ATAA
1 TTTAATAGTAAATCAT-TGATAA
*
19319079 TTTAGTAGTAAATCATTGATAA
1 TTTAATAGTAAATCATTGATAA
* * * *
19319101 CTTAATAATAAATTATTGACAA
1 TTTAATAGTAAATCATTGATAA
* *
19319123 TATAATAGTAAATCAATGATAA
1 TTTAATAGTAAATCATTGATAA
19319145 TTTAAT
1 TTTAAT
19319151 TATCTATCAT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
21 1 0.01
22 73 0.96
23 2 0.03
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (22 bp):
TTTAATAGTAAATCATTGATAA
Found at i:19319506 original size:22 final size:21
Alignment explanation
Indices: 19319437--19319515 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
19319427 AAAAAATAAG
* *
19319437 TGATAATTTAATAGTTAATTAT
1 TGATAACTTAATA-ATAATTAT
* * *
19319459 TGATAACATAGTAATAAATCGA-
1 TGATAACTTAATAAT-AAT-TAT
19319481 TGATAACTTAATAATAAGTTAT
1 TGATAACTTAATAATAA-TTAT
19319503 TGATAACTTAATA
1 TGATAACTTAATA
19319516 GTAAATTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 4 0.09
22 40 0.89
23 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (21 bp):
TGATAACTTAATAATAATTAT
Found at i:19319521 original size:44 final size:44
Alignment explanation
Indices: 19319437--19319521 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
19319427 AAAAAATAAG
* * *
19319437 TGATAATTTAATAGTTAATTATTGATAACATAGTAATAAATCGA
1 TGATAACTTAATAGATAATTATTGATAACATAATAATAAATCGA
* *
19319481 TGATAACTTAATA-ATAAGTTATTGATAACTTAATAGTAAAT
1 TGATAACTTAATAGATAA-TTATTGATAACATAATAATAAAT
19319522 TAATTTTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.39
Consensus pattern (44 bp):
TGATAACTTAATAGATAATTATTGATAACATAATAATAAATCGA
Found at i:19319666 original size:22 final size:22
Alignment explanation
Indices: 19319574--19319690 Score: 66
Period size: 22 Copynumber: 5.4 Consensus size: 22
19319564 AATTATAAAC
* *
19319574 AACTTAATA-ATAAATAAATGAC
1 AACTTAATAGTTAAAT-AATGAT
* * *
19319596 AATTTAGTAGTT-AATCATTGA-
1 AACTTAATAGTTAAAT-AATGAT
*
19319617 AACTTAAAAG-TAAATTAAT-AT
1 AACTTAATAGTTAAA-TAATGAT
* *
19319638 AAGTTAATTG-TAAATAATCGAT
1 AACTTAATAGTTAAATAAT-GAT
* *
19319660 AACTTAATAGTTAATTAGTGAT
1 AACTTAATAGTTAAATAATGAT
19319682 AACTTAATA
1 AACTTAATA
19319691 ATAAATCATA
Statistics
Matches: 72, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
20 6 0.08
21 22 0.31
22 37 0.51
23 7 0.10
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (22 bp):
AACTTAATAGTTAAATAATGAT
Found at i:19319813 original size:11 final size:10
Alignment explanation
Indices: 19319797--19319848 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
19319787 AAAATTTACG
19319797 TAATAAATCAA
1 TAATAAAT-AA
19319808 TAATAACATAA
1 TAATAA-ATAA
*
19319819 TAGTAAATACA
1 TAATAAATA-A
19319830 TAATAATATAA
1 TAATAA-ATAA
*
19319841 TAGTAAAT
1 TAATAAAT
19319849 CATTTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 5 0.14
11 25 0.71
12 5 0.14
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (10 bp):
TAATAAATAA
Found at i:19319866 original size:66 final size:66
Alignment explanation
Indices: 19319789--19319929 Score: 167
Period size: 66 Copynumber: 2.1 Consensus size: 66
19319779 AATAATTAAA
* *
19319789 AATTTACGTAATAAATCAATAATAACATAATAGTAAAT-ACATAATAATATAATAGTAAATCATT
1 AATTTA-GTAATAAATCAATAATAACATAATAGTAAATAAC-TAAAAATATAATAGTAAATCACT
*
19319853 TAT
64 AAT
* * ** * * *
19319856 AATTTAGTAATAAATTATTAATAATGTAGTAGTAAATAACTAAAAATATAGTAGTAACTCACTAA
1 AATTTAGTAATAAATCAATAATAACATAATAGTAAATAACTAAAAATATAATAGTAAATCACTAA
19319921 T
66 T
19319922 AATTTAGT
1 AATTTAGT
19319930 TGTAAATAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
66 55 0.87
67 8 0.13
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.35
Consensus pattern (66 bp):
AATTTAGTAATAAATCAATAATAACATAATAGTAAATAACTAAAAATATAATAGTAAATCACTAA
T
Found at i:19319929 original size:22 final size:22
Alignment explanation
Indices: 19319766--19319980 Score: 125
Period size: 22 Copynumber: 9.8 Consensus size: 22
19319756 TACATTTTTG
* *
19319766 ATAATTTTGTAG-AAATAATTA
1 ATAATTTAGTAGTAAATAACTA
* *
19319787 AAAATTTACGTAATAAATCAA-TA
1 ATAATTTA-GTAGTAAAT-AACTA
** *
19319810 ATAACATAATAGTAAAT-ACATA
1 ATAATTTAGTAGTAAATAAC-TA
* * * * *
19319832 ATAATATAATAGTAAATCATTT
1 ATAATTTAGTAGTAAATAACTA
* * *
19319854 ATAATTTAGTAATAAATTATTA
1 ATAATTTAGTAGTAAATAACTA
*
19319876 ATAATGTAGTAGTAAATAACTA
1 ATAATTTAGTAGTAAATAACTA
* * * *
19319898 AAAATATAGTAGTAACTCACTA
1 ATAATTTAGTAGTAAATAACTA
* *
19319920 ATAATTTAGTTGTAAATAACTG
1 ATAATTTAGTAGTAAATAACTA
* *
19319942 ATAATTTAACTA-TAAATTAA-TG
1 ATAATTT-AGTAGTAAA-TAACTA
*
19319964 ATAATTTAGTAATAAAT
1 ATAATTTAGTAGTAAAT
19319981 TAGGTAATCA
Statistics
Matches: 152, Mismatches: 33, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.01
21 10 0.07
22 122 0.80
23 17 0.11
24 2 0.01
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATAACTA
Found at i:19319935 original size:110 final size:111
Alignment explanation
Indices: 19319731--19319982 Score: 278
Period size: 110 Copynumber: 2.3 Consensus size: 111
19319721 TGATAATTGG
* * * * * * * *
19319731 TAGTAAATCATAGATAATTTAGTAATACATTTTTGATAATTTTGTAGAAATAATTAAAAATTTAC
1 TAGTAAATCATTGATAATTTAGTAATAAATTATTAATAATGTAGTAGAAATAACTAAAAATATAC
19319796 GTAATAAATCAATAATAACATAATAGTAAAT-ACATAATAATATAA-
66 GTAATAAATCAATAATAACATAATAGTAAATAAC-TAATAATATAAC
*
19319841 TAGTAAATCATTTATAATTTAGTAATAAATTATTAATAATGTAGTAGTAAATAACTAAAAATATA
1 TAGTAAATCATTGATAATTTAGTAATAAATTATTAATAATGTAGTAG-AAATAACTAAAAATATA
* * * ** * * * *
19319906 -GTAGTAACTCACTAATAATTTAGTTGTAAATAACTGATAATTTAAC
65 CGTAATAAATCAATAATAACATAATAGTAAATAACTAATAATATAAC
* *
19319952 TA-TAAATTAATGATAATTTAGTAATAAATTA
1 TAGTAAATCATTGATAATTTAGTAATAAATTA
19319983 GGTAATCATT
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
110 99 0.84
111 19 0.16
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (111 bp):
TAGTAAATCATTGATAATTTAGTAATAAATTATTAATAATGTAGTAGAAATAACTAAAAATATAC
GTAATAAATCAATAATAACATAATAGTAAATAACTAATAATATAAC
Found at i:19319946 original size:66 final size:66
Alignment explanation
Indices: 19319789--19319946 Score: 158
Period size: 66 Copynumber: 2.4 Consensus size: 66
19319779 AATAATTAAA
** * * *
19319789 AATTTACGTAATAAATCAA-TAATAACATAATAGTAAATACATAATAATATAATAGTAAATCATT
1 AATTTA-GTAATAAAT-AACTAATAATGTAGTAGTAAATACATAAAAATATAATAGTAAATCACT
*
19319853 TAT
64 AAT
* * * *
19319856 AATTTAGTAATAAATTATTAATAATGTAGTAGTAAATA-ACTAAAAATATAGTAGTAACTCACTA
1 AATTTAGTAATAAATAACTAATAATGTAGTAGTAAATACA-TAAAAATATAATAGTAAATCACTA
19319920 AT
65 AT
** *
19319922 AATTTAGTTGTAAATAACTGATAAT
1 AATTTAGTAATAAATAACTAATAAT
19319947 TTAACTATAA
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
65 2 0.03
66 67 0.89
67 6 0.08
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (66 bp):
AATTTAGTAATAAATAACTAATAATGTAGTAGTAAATACATAAAAATATAATAGTAAATCACTAA
T
Found at i:19319981 original size:22 final size:22
Alignment explanation
Indices: 19319744--19320086 Score: 109
Period size: 22 Copynumber: 15.8 Consensus size: 22
19319734 TAAATCATAG
* ** *
19319744 ATAATTTAGTAATACATTTTTG
1 ATAATTTAGTAATAAATTAATA
* *
19319766 ATAATTTTGT-AGAAA-TAATTA
1 ATAATTTAGTAATAAATTAA-TA
* *
19319787 AAAATTTACGTAATAAATCAATA
1 ATAATTTA-GTAATAAATTAATA
** * *
19319810 ATAACATAATAGTAAA-TACATA
1 ATAATTTAGTAATAAATTA-ATA
* * * * * *
19319832 ATAATATAATAGTAAATCATTT
1 ATAATTTAGTAATAAATTAATA
*
19319854 ATAATTTAGTAATAAATTATTA
1 ATAATTTAGTAATAAATTAATA
* *
19319876 ATAATGTAGTAGTAAA-TAACTA
1 ATAATTTAGTAATAAATTAA-TA
* * * * * *
19319898 AAAATATAGTAGTAACTCACTA
1 ATAATTTAGTAATAAATTAATA
** *
19319920 ATAATTTAGTTGTAAA-TAACTG
1 ATAATTTAGTAATAAATTAA-TA
* *
19319942 ATAATTTAACT-ATAAATTAATG
1 ATAATTT-AGTAATAAATTAATA
*
19319964 ATAATTTAGTAATAAATTAGGTA
1 ATAATTTAGTAATAAATTA-ATA
* * *
19319987 ATCA--T--TAATAACTTTATA
1 ATAATTTAGTAATAAATTAATA
* * *
19320005 ATAAATTAATAATAAATTAATT
1 ATAATTTAGTAATAAATTAATA
*
19320027 ATAATTTA-TAATAAA-TCATCA
1 ATAATTTAGTAATAAATTAAT-A
* * *
19320048 GTAATTTAATAATAAA-TCATCA
1 ATAATTTAGTAATAAATTAAT-A
* *
19320070 CTAATTTAGTAGTAAAT
1 ATAATTTAGTAATAAAT
19320087 CATTTATAAA
Statistics
Matches: 241, Mismatches: 60, Indels: 39
0.71 0.18 0.11
Matches are distributed among these distances:
18 5 0.02
19 8 0.03
20 5 0.02
21 31 0.13
22 168 0.70
23 22 0.09
24 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (22 bp):
ATAATTTAGTAATAAATTAATA
Found at i:19320006 original size:11 final size:11
Alignment explanation
Indices: 19319992--19320064 Score: 60
Period size: 11 Copynumber: 6.7 Consensus size: 11
19319982 AGGTAATCAT
* *
19319992 TAATAACTTTA
1 TAATAAATTAA
19320003 TAATAAATTAA
1 TAATAAATTAA
19320014 TAATAAATTAA
1 TAATAAATTAA
* *
19320025 TTAT-AATTTA
1 TAATAAATTAA
*
19320035 TAATAAA-TCA
1 TAATAAATTAA
* *
19320045 TCAGTAATTTAA
1 T-AATAAATTAA
19320057 TAATAAAT
1 TAATAAAT
19320065 CATCACTAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
10 11 0.23
11 34 0.71
12 3 0.06
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:19320861 original size:24 final size:21
Alignment explanation
Indices: 19320821--19320882 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 21
19320811 CGATAAGTCG
* *
19320821 AATTTAATTTAATTTTTTAAA
1 AATTTAATTAAAATTTTTAAA
19320842 TAATATATAATTAAAATTTTTAAA
1 -AAT-T-TAATTAAAATTTTTAAA
19320866 AATTTAATTCAAAATTT
1 AATTTAATT-AAAATTT
19320883 AAATTGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 5 0.14
22 11 0.31
23 4 0.11
24 15 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTAATTAAAATTTTTAAA
Found at i:19320941 original size:33 final size:34
Alignment explanation
Indices: 19320890--19320965 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 34
19320880 TTTAAATTGA
*
19320890 ATTTTAATAATTTGATTT-AATTTGGTTTA-TTATT
1 ATTTTAATAATTTAATTTAAATTT--TTTATTTATT
19320924 -TTTTAA-AATTTAAATTTAAATTTTTTATTTATT
1 ATTTTAATAATTT-AATTTAAATTTTTTATTTATT
19320957 ATTTTAATA
1 ATTTTAATA
19320966 TAATTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
32 9 0.25
33 15 0.42
34 11 0.31
35 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (34 bp):
ATTTTAATAATTTAATTTAAATTTTTTATTTATT
Found at i:19321671 original size:15 final size:17
Alignment explanation
Indices: 19321644--19321681 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
19321634 TTAATAAAAG
19321644 TTTTATGTAAAA-TAAA
1 TTTTATGTAAAATTAAA
19321660 TTTTAT-TAAAATTAAA
1 TTTTATGTAAAATTAAA
*
19321676 ATTTAT
1 TTTTAT
19321682 ATTTAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTATGTAAAATTAAA
Found at i:19321828 original size:2 final size:2
Alignment explanation
Indices: 19321821--19321859 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
19321811 TTCCACATCC
19321821 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19321860 TTAGTTTAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19328084 original size:6 final size:6
Alignment explanation
Indices: 19328073--19328097 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19328063 TAATTAAGAG
19328073 TAAATT TAAATT TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
19328098 TATTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:19328236 original size:10 final size:10
Alignment explanation
Indices: 19328208--19328241 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
19328198 ATAATAATAT
19328208 TAAATTTAAA
1 TAAATTTAAA
19328218 TAAATATTTAAA
1 T-AA-ATTTAAA
19328230 TAAATTTAAA
1 TAAATTTAAA
19328240 TA
1 TA
19328242 TTATAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.45
11 4 0.18
12 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:19331053 original size:18 final size:18
Alignment explanation
Indices: 19331030--19331072 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19331020 AAAAAACAAC
19331030 AAAAAAA-CAATAAAAATG
1 AAAAAAATCAA-AAAAATG
**
19331048 AAAAAAATGGAAAAAATG
1 AAAAAAATCAAAAAAATG
19331066 AAAAAAA
1 AAAAAAA
19331073 ATAAGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAAAAATCAAAAAAATG
Found at i:19331074 original size:10 final size:9
Alignment explanation
Indices: 19331041--19331072 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
19331031 AAAAAACAAT
19331041 AAAAATGAA
1 AAAAATGAA
*
19331050 AAAAATGGA
1 AAAAATGAA
19331059 AAAAATGAA
1 AAAAATGAA
19331068 AAAAA
1 AAAAA
19331073 ATAAGAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (9 bp):
AAAAATGAA
Found at i:19332200 original size:38 final size:37
Alignment explanation
Indices: 19332157--19332268 Score: 104
Period size: 38 Copynumber: 3.0 Consensus size: 37
19332147 TCTTTGGCTC
19332157 GCGATTTAATCTCGATCATTTCATTATTTCTCTGACTT
1 GCGATTTAATCTCGATCATTTCATTA-TTCTCTGACTT
* * * * * * *
19332195 GCGATTCAGTCTCAATCA--TCCTTAATCTTTGACTC
1 GCGATTTAATCTCGATCATTTCATTATTCTCTGACTT
*
19332230 GCGATTTAATCT-GTGTCATTTCATTAATTCTCTGACTT
1 GCGATTTAATCTCG-ATCATTTCATT-ATTCTCTGACTT
19332268 G
1 G
19332269 TGGTTCATTC
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
35 21 0.38
36 5 0.09
37 4 0.07
38 25 0.45
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.44
Consensus pattern (37 bp):
GCGATTTAATCTCGATCATTTCATTATTCTCTGACTT
Found at i:19332236 original size:73 final size:73
Alignment explanation
Indices: 19332118--19333111 Score: 1148
Period size: 73 Copynumber: 13.8 Consensus size: 73
19332108 ATAGTTCTTC
* * * * *
19332118 GACTTGCGGTTCAATCTCAGTCATC-TTAATCTTTGGCTCGCGATTTAATCTCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
19332182 ATTTCTCT
66 ATTTCTCT
* * * * * * * * *
19332190 GACTTGCGATTCAGTCTCAATCATCCTTAATCTTTGACTCGCGATTTAAT-CTGTGTCATTTCAT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCG-ATCATTTCAT
*
19332254 TAATTCTCT
65 TATTTCTCT
* * * ** *
19332263 GACTTGTGGTTCATTCCCAATTGTCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCA-TT--TT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
19332325 A-TTCTCT
66 ATTTCTCT
* *
19332332 GACTTGCGGTTCAATCCTAGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
19332397 AATTTC-CT
66 -ATTTCTCT
* * ** * *
19332405 GACTTACGGTTCAGTTTCAGTCATCTTT-ATCTTTTGGCTCATGGTTTAATCCCGATCATTTCAT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATC-TTTGACTCGTGGTTTAATCCCGATCATTTCAT
19332469 TAATTTC-CT
65 T-ATTTCTCT
* * * * * * *
19332478 GACTTGCGATTCAGTCCCAGTCATCTTT-ATCTTTTGGCTCGTGGTTTAATCCGGGTTATTTAAT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATC-TTTGACTCGTGGTTTAATCCCGATCATTTCAT
19332542 TATTTCTCT
65 TATTTCTCT
* * *
19332551 GACTTGCAGTTCAATCTCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCTC-AGTCATTTCAT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA-TCATTTCAT
19332615 TATTTCTCT
65 TATTTCTCT
* * *
19332624 GACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCTCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
19332689 AATTTC-CT
66 -ATTTCTCT
* * *
19332697 GACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
*
19332762 AATTCTCT
66 ATTTCTCT
* * * * *
19332770 GACTTGTGGTTCATTCCCAATCGTCTTTAATCTTTGACTCGTGGTTTAATCCCGATTATTTC---
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
19332832 A-TTCTCT
66 ATTTCTCT
* * * *
19332839 GACTTGCAGTTTAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGGTCATTTC---
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
19332901 A-TTCTCT
66 ATTTCTCT
*
19332908 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCTCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
19332973 AATTTC-CT
66 -ATTTCTCT
* * * * *
19332981 GACTTACGGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATT
1 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
* *
19333046 AATTCCCT
66 ATTTCTCT
* * * * *
19333054 CGACTTACGGTTCAGTCCCAGTCATCGTTAATATTTGATTCGTGGTTTAATCCCGATC
1 -GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
19333112 TTCTTATTCT
Statistics
Matches: 804, Mismatches: 96, Indels: 42
0.85 0.10 0.04
Matches are distributed among these distances:
69 179 0.22
70 6 0.01
72 43 0.05
73 508 0.63
74 68 0.08
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (73 bp):
GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
ATTTCTCT
Found at i:19332383 original size:35 final size:35
Alignment explanation
Indices: 19332286--19333031 Score: 370
Period size: 35 Copynumber: 20.8 Consensus size: 35
19332276 TTCCCAATTG
*
19332286 TCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAGTCA
* * * * * *
19332321 T-TTTATTCTCTGACTTGCGGTTCAATCCTAGTCA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAGTCA
*
19332355 TCTTTAATCTTTGACTCGTGATTTAATCCC-GATCA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAG-TCA
* *** * * **
19332390 TTTCATTAAT-TTCCTGACTTACGGTTCAGTTTCAGTCA
1 --TCTTTAATCTT--TGACTCGTGGTTTAATCCCAGTCA
* *
19332428 TCTTT-ATCTTTTGGCTCATGGTTTAATCCC-GATCA
1 TCTTTAATC-TTTGACTCGTGGTTTAATCCCAG-TCA
* * * * * *
19332463 TTTCATTAAT-TTCCTGACTTGCGATTCAGTCCCAGTCA
1 --TCTTTAATCTT--TGACTCGTGGTTTAATCCCAGTCA
* ** *
19332501 TCTTT-ATCTTTTGGCTCGTGGTTTAATCCGGGTTA
1 TCTTTAATC-TTTGACTCGTGGTTTAATCCCAGTCA
* * * * ** * *
19332536 TTTAATTATTTCTCTGACTTGCAGTTCAATCTCAGTCA
1 TCT--TTA-ATCTTTGACTCGTGGTTTAATCCCAGTCA
*
19332574 TCTTTAATCTTTGACTCGTGGTTTAATCTCAGTCA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAGTCA
* * * *** *
19332609 TTTCATTATTTCTCTGACTTACGGTTCAATCCCAGTCA
1 --TCTTTA-ATCTTTGACTCGTGGTTTAATCCCAGTCA
* *
19332647 TCTTTAATCTTTGACTCATGGTTTAATCTC-GATCA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAG-TCA
* * * *
19332682 TTTCATTAAT-TTCCTGACTTGCGGTTTAGTCCCAGTCA
1 --TCTTTAATCTT--TGACTCGTGGTTTAATCCCAGTCA
*
19332720 TCTTTAATCTTTGACTCGCGGTTTAATCCC-GATCA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAG-TCA
* * * * * * *
19332755 TTTCATTAATTCTCTGACTTGTGGTTCATTCCCAATCG
1 --TCTTTAA-TCTTTGACTCGTGGTTTAATCCCAGTCA
*
19332793 TCTTTAATCTTTGACTCGTGGTTTAATCCC-GATTA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAG-TCA
* * * * **
19332828 T-TTCATTCTCTGACTTGCAGTTTAATCCCAGTCA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAGTCA
**
19332862 TCTTTAATCTTTGACTCGTGGTTTAATCCTGGTCA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAGTCA
* * * * * *
19332897 T-TTCATTCTCTGACTTGCGGTTCAATCCCAGTCA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAGTCA
*
19332931 TCTTTAATCTTTGACTCGTGGTTTAATCTC-GATCA
1 TCTTTAATCTTTGACTCGTGGTTTAATCCCAG-TCA
* *** *
19332966 TTTCATTAAT-TTCCTGACTTACGGTTTAGTCCCAGTCA
1 --TCTTTAATCTT--TGACTCGTGGTTTAATCCCAGTCA
*
19333004 TCTTTAATCTTTGGCTCGTGGTTTAATC
1 TCTTTAATCTTTGACTCGTGGTTTAATC
19333032 TCGATCATTT
Statistics
Matches: 513, Mismatches: 150, Indels: 96
0.68 0.20 0.13
Matches are distributed among these distances:
34 83 0.16
35 209 0.41
36 44 0.09
37 46 0.09
38 125 0.24
39 6 0.01
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (35 bp):
TCTTTAATCTTTGACTCGTGGTTTAATCCCAGTCA
Found at i:19332993 original size:38 final size:38
Alignment explanation
Indices: 19332950--19333065 Score: 98
Period size: 35 Copynumber: 3.1 Consensus size: 38
19332940 TTTGACTCGT
19332950 GGTTTAATCTCGATCATTTCATTAATTTCCTGACTTAC
1 GGTTTAATCTCGATCATTTCATTAATTTCCTGACTTAC
* * * * ***
19332988 GGTTTAGTC-CCAGTCA--TCTTTAATCTT--TGGCTCGT
1 GGTTTAATCTCGA-TCATTTCATTAAT-TTCCTGACTTAC
*
19333023 GGTTTAATCTCGATCATTTCATTAATTCCCTCGACTTAC
1 GGTTTAATCTCGATCATTTCATTAATTTCCT-GACTTAC
19333062 GGTT
1 GGTT
19333066 CAGTCCCAGT
Statistics
Matches: 55, Mismatches: 15, Indels: 15
0.65 0.18 0.18
Matches are distributed among these distances:
35 15 0.27
36 10 0.18
37 11 0.20
38 12 0.22
39 7 0.13
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (38 bp):
GGTTTAATCTCGATCATTTCATTAATTTCCTGACTTAC
Found at i:19333562 original size:12 final size:11
Alignment explanation
Indices: 19333540--19333611 Score: 60
Period size: 12 Copynumber: 6.3 Consensus size: 11
19333530 ACAAAATACG
19333540 AAATACAAAAA
1 AAATACAAAAA
19333551 AAATACCAAAAA
1 AAATA-CAAAAA
*
19333563 TAATACAAAATA
1 AAATACAAAA-A
19333575 CAAA-ACAAAAA
1 -AAATACAAAAA
19333586 TACAA-A-ATAAAA
1 -A-AATACA-AAAA
19333598 AAATACAAAAA
1 AAATACAAAAA
19333609 AAA
1 AAA
19333612 GAATAGAAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
10 2 0.04
11 22 0.43
12 25 0.49
13 2 0.04
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (11 bp):
AAATACAAAAA
Found at i:19333563 original size:20 final size:18
Alignment explanation
Indices: 19333505--19333611 Score: 58
Period size: 18 Copynumber: 5.8 Consensus size: 18
19333495 GTCCCAAAAT
*
19333505 AAAATAAAATAAAA-ACA
1 AAAATAAAAAAAAATACA
* ** *
19333522 ATAATATTACAAAATAC-
1 AAAATAAAAAAAAATACA
*
19333539 GAAATACAAAAAAAATACCA
1 AAAATA-AAAAAAAATA-CA
* *
19333559 AAAATAATACAAAATACA
1 AAAATAAAAAAAAATACA
*
19333577 AAACA-AAAATACAAAATAAA
1 AAA-ATAAAA-A-AAAATACA
19333597 AAAATACAAAAAAAA
1 AAAATA-AAAAAAAA
19333612 GAATAGAAGA
Statistics
Matches: 66, Mismatches: 15, Indels: 16
0.68 0.15 0.16
Matches are distributed among these distances:
17 14 0.21
18 17 0.26
19 15 0.23
20 17 0.26
21 3 0.05
ACGTcount: A:0.75, C:0.10, G:0.01, T:0.14
Consensus pattern (18 bp):
AAAATAAAAAAAAATACA
Found at i:19333574 original size:30 final size:28
Alignment explanation
Indices: 19333534--19333611 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 28
19333524 AATATTACAA
*
19333534 AATACGAAATACAAAAAAAATACCAAAAAT
1 AATACAAAATACAAAAAAAATA-C-AAAAT
19333564 AATACAAAATACAAAACAAAAATACAAAAT
1 AATACAAAATAC-AAA-AAAAATACAAAAT
19333594 AA-A-AAAATACAAAAAAAA
1 AATACAAAATACAAAAAAAA
19333612 GAATAGAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
26 5 0.11
27 3 0.07
28 7 0.16
29 1 0.02
30 18 0.40
31 4 0.09
32 7 0.16
ACGTcount: A:0.76, C:0.12, G:0.01, T:0.12
Consensus pattern (28 bp):
AATACAAAATACAAAAAAAATACAAAAT
Found at i:19333576 original size:7 final size:7
Alignment explanation
Indices: 19333529--19333607 Score: 62
Period size: 7 Copynumber: 12.0 Consensus size: 7
19333519 ACAATAATAT
19333529 TACAAAA
1 TACAAAA
*
19333536 TACGAAA
1 TACAAAA
19333543 TAC-AAA
1 TACAAAA
19333549 -A-AAAA
1 TACAAAA
*
19333554 TACCAAA
1 TACAAAA
*
19333561 -A-ATAA
1 TACAAAA
19333566 TACAAAA
1 TACAAAA
19333573 TACAAAA
1 TACAAAA
*
19333580 CA-AAAA
1 TACAAAA
19333586 TACAAAA
1 TACAAAA
*
19333593 TAAAAAAA
1 T-ACAAAA
19333601 TACAAAA
1 TACAAAA
19333608 AAAAGAATAG
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
5 6 0.11
6 11 0.20
7 33 0.59
8 6 0.11
ACGTcount: A:0.73, C:0.13, G:0.01, T:0.13
Consensus pattern (7 bp):
TACAAAA
Found at i:19333624 original size:29 final size:28
Alignment explanation
Indices: 19333546--19333629 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 28
19333536 TACGAAATAC
19333546 AAAAAAAATACCAAAAATAATACAAAATACAA
1 AAAAAAAATA-C-AAAATAA-A-AAAATACAA
*
19333578 AACAAAAATACAAAATAAAAAAATACAA
1 AAAAAAAATACAAAATAAAAAAATACAA
* *
19333606 AAAAAAGAATAGAAGATAAAAAAA
1 AAAAAA-AATACAAAATAAAAAAA
19333630 ATCAAGGATG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 14 0.30
29 16 0.34
30 7 0.15
31 1 0.02
32 9 0.19
ACGTcount: A:0.77, C:0.08, G:0.04, T:0.11
Consensus pattern (28 bp):
AAAAAAAATACAAAATAAAAAAATACAA
Found at i:19338005 original size:7 final size:7
Alignment explanation
Indices: 19337990--19338027 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
19337980 ATTTATTTTC
*
19337990 AAAACAA
1 AAAATAA
19337997 AAAATAA
1 AAAATAA
19338004 AAAAT-A
1 AAAATAA
*
19338010 AAAAGAA
1 AAAATAA
19338017 AAAATAA
1 AAAATAA
19338024 AAAA
1 AAAA
19338028 ATATTGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.08
Consensus pattern (7 bp):
AAAATAA
Found at i:19338012 original size:13 final size:13
Alignment explanation
Indices: 19337996--19338026 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19337986 TTTCAAAACA
*
19337996 AAAAATAAAAAAT
1 AAAAAGAAAAAAT
19338009 AAAAAGAAAAAAT
1 AAAAAGAAAAAAT
19338022 AAAAA
1 AAAAA
19338027 AATATTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (13 bp):
AAAAAGAAAAAAT
Found at i:19338018 original size:20 final size:20
Alignment explanation
Indices: 19337990--19338027 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19337980 ATTTATTTTC
19337990 AAAACAAAAAATAAAAAATA
1 AAAACAAAAAATAAAAAATA
*
19338010 AAAAGAAAAAATAAAAAA
1 AAAACAAAAAATAAAAAA
19338028 ATATTGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.08
Consensus pattern (20 bp):
AAAACAAAAAATAAAAAATA
Found at i:19340044 original size:63 final size:63
Alignment explanation
Indices: 19339924--19340044 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
19339914 CCCAACAAGC
* * * * *
19339924 ACAAGATCCATTACCACAGCAGTTCACCTATCTTGTAAGGTACACATATACTGGAATGTCAGT
1 ACAAGATCCACTACCACAGCAGTTCACCTATCCTATAAGGTACACATACACTAGAATGTCAGT
* * * *
19339987 ACAAGGTCCACTACCACAGCAGTTCACTTATCCTATAGGGTACACATACCCTAGAATG
1 ACAAGATCCACTACCACAGCAGTTCACCTATCCTATAAGGTACACATACACTAGAATG
19340045 CCATCAGCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (63 bp):
ACAAGATCCACTACCACAGCAGTTCACCTATCCTATAAGGTACACATACACTAGAATGTCAGT
Found at i:19342138 original size:21 final size:21
Alignment explanation
Indices: 19342100--19342144 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19342090 AAAGAGTCTT
* * * *
19342100 AAACATAGAAAGACAAAAGTA
1 AAACAAAGAAAAAAAAAAGAA
19342121 AAACAAAGAAAAAAAAAAGAA
1 AAACAAAGAAAAAAAAAAGAA
19342142 AAA
1 AAA
19342145 AATGAATGCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.78, C:0.07, G:0.11, T:0.04
Consensus pattern (21 bp):
AAACAAAGAAAAAAAAAAGAA
Found at i:19342565 original size:35 final size:35
Alignment explanation
Indices: 19342481--19342547 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
19342471 ATCACTAATG
* *
19342481 AATAGAA--AAAAAATGAAAAAAAATGAAAGAAAA
1 AATAGAAGGAAAAAATAAAAAAAAAAGAAAGAAAA
19342514 AATAGAAGGAAAAAATAAAAAAAAAAGAAA-AAAA
1 AATAGAAGGAAAAAATAAAAAAAAAAGAAAGAAAA
19342548 TGAAAGAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 7 0.23
34 4 0.13
35 19 0.63
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (35 bp):
AATAGAAGGAAAAAATAAAAAAAAAAGAAAGAAAA
Found at i:19343985 original size:21 final size:21
Alignment explanation
Indices: 19343906--19343978 Score: 110
Period size: 21 Copynumber: 3.4 Consensus size: 21
19343896 TTGTGAATCC
*
19343906 TCAAATGAGAATTTTTGAATT
1 TCAAATGAGAATCTTTGAATT
*
19343927 TCAAATAAGAATCTTTGAATT
1 TCAAATGAGAATCTTTGAATT
*
19343948 TCAAATGAGAATCTTTGAGTTT
1 TCAAATGAGAATCTTTGA-ATT
19343970 TCAAATGAG
1 TCAAATGAG
19343979 CATTTTGGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
21 36 0.77
22 11 0.23
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (21 bp):
TCAAATGAGAATCTTTGAATT
Found at i:19344013 original size:28 final size:28
Alignment explanation
Indices: 19343960--19344013 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
19343950 AAATGAGAAT
*
19343960 CTTTGAGTTTTCAAATGAGCATTTTGGG
1 CTTTGAGTTTTCAAATGAGAATTTTGGG
19343988 CTTTGAGTTTT-AAATGAGAATCTTTG
1 CTTTGAGTTTTCAAATGAGAAT-TTTG
19344014 AGGTATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.44
Consensus pattern (28 bp):
CTTTGAGTTTTCAAATGAGAATTTTGGG
Found at i:19344022 original size:28 final size:28
Alignment explanation
Indices: 19343963--19344022 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
19343953 TGAGAATCTT
* *
19343963 TGAGTTTTCAAATGAGCATTTTGGGCTT
1 TGAGTTTTCAAATGAGAATTTTGGGCTA
19343991 TGAGTTTT-AAATGAGAATCTTTGAGG-TA
1 TGAGTTTTCAAATGAGAAT-TTTG-GGCTA
19344019 TGAG
1 TGAG
19344023 ACCCTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 9 0.32
28 17 0.61
29 2 0.07
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (28 bp):
TGAGTTTTCAAATGAGAATTTTGGGCTA
Found at i:19344474 original size:40 final size:40
Alignment explanation
Indices: 19344425--19344514 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
19344415 GAACATTTTA
* * *
19344425 TTTCAAAAGTCGTTGAGCCTCTGTTTAAAGGAGCATTTATT
1 TTTC-AAAGTCGTGGAGCCTCTGTTTAAAGGAGAAATTATT
* *
19344466 TTTCAAAGTTGTGGTGCCTCTGTTTAAAGGAGAAATTATT
1 TTTCAAAGTCGTGGAGCCTCTGTTTAAAGGAGAAATTATT
19344506 TTTCAAAGT
1 TTTCAAAGT
19344515 TGTGTGCCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (40 bp):
TTTCAAAGTCGTGGAGCCTCTGTTTAAAGGAGAAATTATT
Found at i:19344515 original size:40 final size:40
Alignment explanation
Indices: 19344441--19344661 Score: 170
Period size: 40 Copynumber: 5.4 Consensus size: 40
19344431 AAGTCGTTGA
* *
19344441 GCCTCTGTTTAAAGGAGCATTTATTTTTCAAAGTTGTGGT
1 GCCTCTGTTTAAAGGAGAAATTATTTTTCAAAGTTGTGGT
19344481 GCCTCTGTTTAAAGGAGAAATTATTTTTCAAAGTTGT-GT
1 GCCTCTGTTTAAAGGAGAAATTATTTTTCAAAGTTGTGGT
* *
19344520 GCCTTTGTTTAGAATTGTTTAAAGGAGTAATT-TATTTTCAAAGTTGTGGT
1 GCC------T----CTGTTTAAAGGAGAAATTAT-TTTTCAAAGTTGTGGT
* *
19344570 GCCTTTGTTT-----AG-AATTATTTTTCAAAGTTGTAGT
1 GCCTCTGTTTAAAGGAGAAATTATTTTTCAAAGTTGTGGT
* * * *
19344604 GTCTCTGTTTAGAGGAGCAATTTATTTTTTAAAGTTGTGGT
1 GCCTCTGTTTAAAGGAG-AAATTATTTTTCAAAGTTGTGGT
* *
19344645 GCCTCTATTTATAGGAG
1 GCCTCTGTTTAAAGGAG
19344662 CTTTGTTTAC
Statistics
Matches: 148, Mismatches: 13, Indels: 39
0.74 0.06 0.19
Matches are distributed among these distances:
34 27 0.18
35 3 0.02
39 7 0.05
40 41 0.28
41 33 0.22
44 1 0.01
45 1 0.01
48 1 0.01
49 29 0.20
50 5 0.03
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (40 bp):
GCCTCTGTTTAAAGGAGAAATTATTTTTCAAAGTTGTGGT
Found at i:19344558 original size:49 final size:50
Alignment explanation
Indices: 19344486--19344585 Score: 168
Period size: 49 Copynumber: 2.0 Consensus size: 50
19344476 GTGGTGCCTC
19344486 TGTTTAAAGGAGAAATTATTTTTCAAAGTTGT-GTGCCTTTGTTTAGAAT
1 TGTTTAAAGGAGAAATTATTTTTCAAAGTTGTGGTGCCTTTGTTTAGAAT
*
19344535 TGTTTAAAGGAGTAATT-TATTTTCAAAGTTGTGGTGCCTTTGTTTAGAAT
1 TGTTTAAAGGAGAAATTAT-TTTTCAAAGTTGTGGTGCCTTTGTTTAGAAT
19344585 T
1 T
19344586 ATTTTTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
48 1 0.02
49 29 0.60
50 18 0.38
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (50 bp):
TGTTTAAAGGAGAAATTATTTTTCAAAGTTGTGGTGCCTTTGTTTAGAAT
Found at i:19344641 original size:41 final size:41
Alignment explanation
Indices: 19344584--19344662 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
19344574 TTGTTTAGAA
* *
19344584 TTATTTTTCAAAGTTGTAGTGTCTCTGTTTAGAGGAGCAAT
1 TTATTTTTCAAAGTTGTAGTGCCTCTATTTAGAGGAGCAAT
* * *
19344625 TTATTTTTTAAAGTTGTGGTGCCTCTATTTATAGGAGC
1 TTATTTTTCAAAGTTGTAGTGCCTCTATTTAGAGGAGC
19344663 TTTGTTTACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.10, G:0.22, T:0.46
Consensus pattern (41 bp):
TTATTTTTCAAAGTTGTAGTGCCTCTATTTAGAGGAGCAAT
Found at i:19344940 original size:24 final size:23
Alignment explanation
Indices: 19344863--19344940 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
19344853 TATTTCATAT
**
19344863 TTATTTTTGTTTTATT-TTATTA
1 TTATTTTAATTTTATTATTATTA
*
19344885 TCATTTTGAATTTTA-TATTGATTA
1 TTATTTT-AATTTTATTATT-ATTA
*
19344909 TT-TATTTATTTATTATTATTATTA
1 TTAT-TTTAATT-TTATTATTATTA
19344933 TTATTTTA
1 TTATTTTA
19344941 GGAGATAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
22 7 0.16
23 11 0.25
24 21 0.48
25 5 0.11
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.69
Consensus pattern (23 bp):
TTATTTTAATTTTATTATTATTA
Found at i:19345972 original size:25 final size:26
Alignment explanation
Indices: 19345939--19345988 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
19345929 TGATGGAATT
19345939 TATAGAAATTTCAAATG-GTAAATTTC
1 TATAGAAATTTCAAATGAG-AAATTTC
*
19345965 TATA-AAATTTCTAATGAGAAATTT
1 TATAGAAATTTCAAATGAGAAATTT
19345989 TGCCTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (26 bp):
TATAGAAATTTCAAATGAGAAATTTC
Found at i:19349588 original size:194 final size:192
Alignment explanation
Indices: 19349346--19349705 Score: 455
Period size: 194 Copynumber: 1.9 Consensus size: 192
19349336 TCAACTAAAA
19349346 TTTTTATTTGGAAAATAATACAATTACTTTTATTGAAATTTCATCTAAATTATTTCAACATTT-A
1 TTTTTATTTGGAAAATAATACAATTACTTTTATTGAAATTTCATCTAAATTATTTCAACATTTGA
* * * * * **
19349410 GGATAAATTTAGA-AAAATTTCTCACCTAAAGATTTTTTTAGGAATTCACTGTTTGAAATTTCTA
66 -GATAAATTTAGACAAAACTCCTCACCT-AAGAATTTTATAGAAATTCACCATTTGAAATTT-TA
* *
19349474 AGAATCTCAT-ACTTTGATAATT-TGTATTTAATTC-CAAAATTTTATATTTTATATTTTATTAT
128 AAAATCTCATCA-TTGGATAATTAT-TATTT-ATTCTCAAAATTTTATATTTTATATTTTATTAT
19349536 TAT
190 TAT
* * * *
19349539 TTTTTGTTT-GAAAATAAATATTAATTA-TTGTTATTGAAATTTTATCTAAATTATTTGAACATT
1 TTTTTATTTGGAAAAT-AATA-CAATTACTT-TTATTGAAATTTCATCTAAATTATTTCAACATT
* *
19349602 TGAGATAAATTTAGACAAAACTCCTCACCTAGGAATTTTATAGAAATTTACCATTTGAAATTTTA
63 TGAGATAAATTTAGACAAAACTCCTCACCTAAGAATTTTATAGAAATTCACCATTTGAAATTTTA
19349667 AAAATCTCATCATTGGATAATTATTATTTATTCTCAAAA
128 AAAATCTCATCATTGGATAATTATTATTTATTCTCAAAA
19349706 AAATATTTAT
Statistics
Matches: 144, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
192 10 0.07
193 44 0.31
194 77 0.53
195 13 0.09
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (192 bp):
TTTTTATTTGGAAAATAATACAATTACTTTTATTGAAATTTCATCTAAATTATTTCAACATTTGA
GATAAATTTAGACAAAACTCCTCACCTAAGAATTTTATAGAAATTCACCATTTGAAATTTTAAAA
ATCTCATCATTGGATAATTATTATTTATTCTCAAAATTTTATATTTTATATTTTATTATTAT
Found at i:19350691 original size:4 final size:4
Alignment explanation
Indices: 19350672--19350750 Score: 56
Period size: 4 Copynumber: 19.8 Consensus size: 4
19350662 AACATAATCA
* * *
19350672 AAAT AAAA ATAAT AAAT AAAT AAAT AAAC AAAT -AAT AAAT TAA- AAAT
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
19350719 GAA- AAAC AAAT AAAA AAAT AAAAT AACAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT AAA
19350751 ATAACATACT
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
3 7 0.12
4 40 0.69
5 11 0.19
ACGTcount: A:0.76, C:0.04, G:0.01, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:19356318 original size:20 final size:18
Alignment explanation
Indices: 19356293--19356330 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
19356283 TTTTGCATGA
19356293 ATTTGCATGACTAATATTAT
1 ATTTGCATGA-TAAT-TTAT
19356313 ATTTGCATGATAATTTAT
1 ATTTGCATGATAATTTAT
19356331 GCTCCTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (18 bp):
ATTTGCATGATAATTTAT
Found at i:19356421 original size:24 final size:25
Alignment explanation
Indices: 19356388--19356496 Score: 104
Period size: 24 Copynumber: 4.6 Consensus size: 25
19356378 TTATTAACAT
19356388 ATTTGCATGATTATTAATATATTT-
1 ATTTGCATGATTATTAATATATTTA
** * *
19356412 ATTTATATGATTA-T-ATTTAATTTG
1 ATTTGCATGATTATTAATAT-ATTTA
* *
19356436 A-TTGCATGGTTGTTAATATATTTA
1 ATTTGCATGATTATTAATATATTTA
*
19356460 A-TTGCTTGATTATTAATATATTT-
1 ATTTGCATGATTATTAATATATTTA
19356483 ATTTGCATGATTAT
1 ATTTGCATGATTAT
19356497 ATATTTAATT
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
22 3 0.04
23 13 0.19
24 48 0.72
25 3 0.04
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (25 bp):
ATTTGCATGATTATTAATATATTTA
Found at i:19356423 original size:45 final size:46
Alignment explanation
Indices: 19356355--19356459 Score: 106
Period size: 45 Copynumber: 2.3 Consensus size: 46
19356345 TGTTTGCATG
* * *
19356355 ATTAATATATTTCTTTGGGTGATT-TATTAACATAT-TTGCATGATT
1 ATTAATATATTTATTTAGATGATTATATTAA-ATATATTGCATGATT
* * * *
19356400 ATTAATATATTTATTTATATGATTATATTTAATTTGATTGCATGGTT
1 ATTAATATATTTATTTAGATGATTATATTAAATAT-ATTGCATGATT
*
19356447 GTTAATATATTTA
1 ATTAATATATTTA
19356460 ATTGCTTGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
45 23 0.47
46 5 0.10
47 21 0.43
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.53
Consensus pattern (46 bp):
ATTAATATATTTATTTAGATGATTATATTAAATATATTGCATGATT
Found at i:19356516 original size:20 final size:20
Alignment explanation
Indices: 19356451--19356507 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 20
19356441 ATGGTTGTTA
*
19356451 ATATATTTAATTGCTTGATTATT
1 ATATATTTAATTGC---ATGATT
*
19356474 AATATATTTATTTGCATGATT
1 -ATATATTTAATTGCATGATT
19356495 ATATATTTAATTG
1 ATATATTTAATTG
19356508 TATGTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.40
21 5 0.17
24 13 0.43
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (20 bp):
ATATATTTAATTGCATGATT
Found at i:19356516 original size:32 final size:31
Alignment explanation
Indices: 19356480--19356629 Score: 141
Period size: 30 Copynumber: 4.9 Consensus size: 31
19356470 TATTAATATA
19356480 TTTATTTGCATGATTATATATTTAATTGTATG
1 TTTATTTGCATGATTATATATTTAATTGTA-G
* *
19356512 TTTATTAGCATGATTATATATTTAATTG-AA
1 TTTATTTGCATGATTATATATTTAATTGTAG
* * * *
19356542 TAT-TTTGCATGGTTTATATATTATTATT-TAC
1 TTTATTTGCAT-GATTATATATT-TAATTGTAG
* * *
19356573 ATGA-TTGCATGATTATATATTTAATTGCATG
1 TTTATTTGCATGATTATATATTTAATTGTA-G
19356604 TTTATTTGCATGA-T-TATATTTAATTG
1 TTTATTTGCATGATTATATATTTAATTG
19356630 CATAATTACT
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
29 10 0.11
30 35 0.37
31 15 0.16
32 35 0.37
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (31 bp):
TTTATTTGCATGATTATATATTTAATTGTAG
Found at i:19362699 original size:24 final size:23
Alignment explanation
Indices: 19362672--19362721 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 23
19362662 AAAGTTGTGC
19362672 AAAAAAAAGCA-AAAAAGTAAAACA
1 AAAAAAAAG-AGAAAAAG-AAAACA
19362696 AAAAAAAAGAGAAAAAGAAAACA
1 AAAAAAAAGAGAAAAAGAAAACA
19362719 AAA
1 AAA
19362722 TGAAGACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.82, C:0.06, G:0.10, T:0.02
Consensus pattern (23 bp):
AAAAAAAAGAGAAAAAGAAAACA
Found at i:19364613 original size:42 final size:41
Alignment explanation
Indices: 19364554--19364755 Score: 169
Period size: 42 Copynumber: 4.8 Consensus size: 41
19364544 AAAAGGGGAA
* *
19364554 AGCATTTTTTTTTTCAAAAGTTTCATAACCTTAATTGTAAGGG
1 AGCATTTTTATTTTCAAAAGTTTCA-AACCTCAATTGT-AGGG
* *
19364597 AGCA-TTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGG
1 AGCATTTTTATTTTCAAAAGTTTCAAA-CCTCAATTGT-AGGG
* *
19364639 AACATTTTTTTTTTC-AAAGTTTCAAAACCTCAATTGTAGAGG
1 AGCATTTTTATTTTCAAAAGTTTC-AAACCTCAATTGTAG-GG
* * * *
19364681 AGTA-TTTTATTTTCAAAAGTCTCAAAGCCTCAGTTGTGGGGG
1 AGCATTTTTATTTTCAAAAGTTTCAAA-CCTCAATTGT-AGGG
* *
19364723 AGCATTTCTT-TTTTAAAAAAAGCTTCAAACCTC
1 AGCATTT-TTATTTT--CAAAAGTTTCAAACCTC
19364756 TGAGGAGGAA
Statistics
Matches: 129, Mismatches: 19, Indels: 21
0.76 0.11 0.12
Matches are distributed among these distances:
41 15 0.12
42 75 0.58
43 23 0.18
44 6 0.05
45 10 0.08
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (41 bp):
AGCATTTTTATTTTCAAAAGTTTCAAACCTCAATTGTAGGG
Found at i:19364674 original size:84 final size:85
Alignment explanation
Indices: 19364556--19364741 Score: 286
Period size: 84 Copynumber: 2.2 Consensus size: 85
19364546 AAGGGGAAAG
* * *
19364556 CATTTTTTTTTTCAAAAGTTTCATAACCTTAATTGTA-AGGGAGCATTTTATTTTCAAAAGTTTC
1 CATTTTTTTTTTCAAAAGTTTCAAAACCTCAATTGTAGA-GGAGCATTTTATTTTCAAAAGTCTC
19364620 AAAGCCTCAGTTGTGGGGGAA
65 AAAGCCTCAGTTGTGGGGGAA
*
19364641 CATTTTTTTTTTC-AAAGTTTCAAAACCTCAATTGTAGAGGAGTATTTTATTTTCAAAAGTCTCA
1 CATTTTTTTTTTCAAAAGTTTCAAAACCTCAATTGTAGAGGAGCATTTTATTTTCAAAAGTCTCA
*
19364705 AAGCCTCAGTTGTGGGGGAG
66 AAGCCTCAGTTGTGGGGGAA
* *
19364725 CATTTCTTTTTTAAAAA
1 CATTTTTTTTTTCAAAA
19364742 AAGCTTCAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
84 75 0.82
85 17 0.18
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (85 bp):
CATTTTTTTTTTCAAAAGTTTCAAAACCTCAATTGTAGAGGAGCATTTTATTTTCAAAAGTCTCA
AAGCCTCAGTTGTGGGGGAA
Found at i:19365651 original size:27 final size:30
Alignment explanation
Indices: 19365621--19365675 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19365611 TTTTTATTTA
*
19365621 TTGCATG-GT-AT-TTATTTTTGCATGAAT
1 TTGCATGAGTAATATTATATTTGCATGAAT
19365648 TTGCATGAGTAATATTATATTTGCATGA
1 TTGCATGAGTAATATTATATTTGCATGA
19365676 TAATTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 7 0.29
28 2 0.08
29 2 0.08
30 13 0.54
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.47
Consensus pattern (30 bp):
TTGCATGAGTAATATTATATTTGCATGAAT
Found at i:19365671 original size:20 final size:18
Alignment explanation
Indices: 19365646--19365683 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
19365636 TTTTGCATGA
19365646 ATTTGCATGAGTAATATTAT
1 ATTTGCATGA-TAAT-TTAT
19365666 ATTTGCATGATAATTTAT
1 ATTTGCATGATAATTTAT
19365684 TTGCCTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (18 bp):
ATTTGCATGATAATTTAT
Found at i:19365800 original size:47 final size:45
Alignment explanation
Indices: 19365708--19365835 Score: 127
Period size: 47 Copynumber: 2.8 Consensus size: 45
19365698 TGTTTACATG
* * *
19365708 ATTAATATATTTATTTGTGTGATTTATTAATATATTTGTATGATT
1 ATTAATATATTTATTTGAGTCATTTATTAATATATTTGCATGATT
** *
19365753 ATTCGTATATTTATTTGAGTCATTATATTTAATTTGA-TTGCATGATT
1 ATTAATATATTTATTTGAGTCATT-TA-TTAATAT-ATTTGCATGATT
* *
19365800 ATTAATATATTTAATTG-CTCGA-TTATTAATATATTT
1 ATTAATATATTTATTTGAGTC-ATTTATTAATATATTT
19365836 ATTTGCACGA
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 8 0.12
45 22 0.33
46 5 0.07
47 30 0.45
48 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (45 bp):
ATTAATATATTTATTTGAGTCATTTATTAATATATTTGCATGATT
Found at i:19365816 original size:24 final size:24
Alignment explanation
Indices: 19365784--19365849 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
19365774 ATTATATTTA
*
19365784 ATTTGATTGCATGATTATTAATAT
1 ATTTAATTGCATGATTATTAATAT
19365808 ATTTAATTGC-TCGATTATTAATAT
1 ATTTAATTGCAT-GATTATTAATAT
* *
19365832 ATTTATTTGCACGATTAT
1 ATTTAATTGCATGATTAT
19365850 ACATTTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 1 0.03
24 36 0.97
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (24 bp):
ATTTAATTGCATGATTATTAATAT
Found at i:19365961 original size:20 final size:19
Alignment explanation
Indices: 19365938--19366000 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
19365928 ATATGCATGA
19365938 ATGGTTGTTAATATATTTGC
1 ATGGTT-TTAATATATTTGC
*
19365958 ATGGTATTTTATAT-TATTGC
1 ATGGT-TTTAATATAT-TTGC
* *
19365978 ATGATAATTAATATATTTGC
1 ATGGT-TTTAATATATTTGC
19365998 ATG
1 ATG
19366001 ATATATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 1 0.03
20 33 0.92
21 2 0.06
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (19 bp):
ATGGTTTTAATATATTTGC
Found at i:19366001 original size:20 final size:20
Alignment explanation
Indices: 19365945--19366057 Score: 105
Period size: 20 Copynumber: 6.0 Consensus size: 20
19365935 TGAATGGTTG
* *
19365945 TTAATATATTTGCATGGTAT
1 TTAATATATTTGCATGATAA
*
19365965 TTTATAT-TATTGCATGATAA
1 TTAATATAT-TTGCATGATAA
19365985 TTAATATATTTGCATGAT-A
1 TTAATATATTTGCATGATAA
* *
19366004 -T-ATATATTTACATGATTA
1 TTAATATATTTGCATGATAA
* *
19366022 TT-AT-T-CTTACATGATAA
1 TTAATATATTTGCATGATAA
19366039 TTAATATATTTGCATGATA
1 TTAATATATTTGCATGATA
19366058 TTATTGCATG
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
17 26 0.34
18 5 0.06
19 6 0.08
20 39 0.51
21 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (20 bp):
TTAATATATTTGCATGATAA
Found at i:19366064 original size:13 final size:13
Alignment explanation
Indices: 19366048--19366110 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
19366038 ATTAATATAT
19366048 TTGCATGATATTA
1 TTGCATGATATTA
19366061 TTGCATGAATATT-
1 TTGCATG-ATATTA
*
19366074 TTAGCATGAT-CTA
1 TT-GCATGATATTA
*
19366087 -GGCATGATATTA
1 TTGCATGATATTA
19366099 TTGCATGATATT
1 TTGCATGATATT
19366111 TGGTATGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 7 0.17
12 3 0.07
13 21 0.51
14 10 0.24
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (13 bp):
TTGCATGATATTA
Found at i:19368160 original size:220 final size:220
Alignment explanation
Indices: 19367757--19368369 Score: 507
Period size: 223 Copynumber: 2.8 Consensus size: 220
19367747 TGCTATCATC
** * *
19367757 ATATAATACCATAAATTGACGTAACAAAATTGTAATATTATTAATAGTTAACTAAAGTATTCAAT
1 ATATAATACCATAAATAAAAGTAACAAAATTGCAATATTATTAATAGTTAACTAAAGTATTCAAT
* * *
19367822 CTGAGATAAAAATTAATAACGTCACCTAAAATCTATTAGAAAATATTCGTCATAAATAAAATTTT
66 CTGAGACAAAAATTAATAACGTCACCTAAAATCTATTAGAAAATAATCGTCACAAATAAAATTTT
* * * * * *
19367887 AAATTAGTGATATATTTATAACATCACTTAAAATAAAATAATGTCGCAAAAAATTTTTTCACTAA
131 AAATTAGTAACAAAATTATAACATCACTTAAAATAAAAAAATGTCGAAAAAAATTTTTTCACTAA
19367952 ATAAATTTGATAGTAAAAGTTTGTG
196 ATAAATTTGATAGTAAAAGTTTGTG
* * *
19367977 ATATAATACCATAAAATAAAAGTGACAAAATTGCAATGTTA-TAATAGTTAACTAAAGTGTT-AC
1 ATATAATACCAT-AAATAAAAGTAACAAAATTGCAATATTATTAATAGTTAACTAAAGTATTCA-
* * * *
19368040 AT-TTATGACAAAAATTGATAATGTCACCTAAAATCTATTAGAAAA-AATCGTCACAGATAAAAT
64 ATCTGA-GACAAAAATTAATAACGTCACCTAAAATCTATTAGAAAATAATCGTCACAAATAAAAT
* *
19368103 TTTAAATTAGTAACAAAATT-TAA-ATGCCACATT-AAGTAAAAAAATGTC-ATAAAAAAATTTT
128 TTTAAATTAGTAACAAAATTATAACAT--CAC-TTAAAATAAAAAAATGTCGA-AAAAAATTTTT
* * * * * *
19368164 TCA-TCAAATTTAAGTTTGTAACATTCATA-TTATCGTC
189 TCACT-AAA--TAAATTTG--ATAGTAAAAGTT-T-GTG
* * * * * * * * * *
19368201 ATATAACACTATACATTAATGTGAC-AAATTACAATGTCATTAATAGTTAACAAAAGTATAT-AA
1 ATATAATACCATAAATAAAAGTAACAAAATTGCAATATTATTAATAGTTAACTAAAGTAT-TCAA
* * * * * ** * *
19368264 TTTGTGTCAAAAATTAATAATGTCACCTAAAATATATTA-AAAA-AATTTATCATATATAAAATT
65 TCTGAGACAAAAATTAATAACGTCACCTAAAATCTATTAGAAAATAA-TCGTCACAAATAAAATT
* * ** * *
19368327 TTAAATTGGTGATGAAATTATAACTTCACCTAAAATAAAAAAA
129 TTAAATTAGTAACAAAATTATAACATCACTTAAAATAAAAAAA
19368370 ACATCACAAG
Statistics
Matches: 319, Mismatches: 53, Indels: 39
0.78 0.13 0.09
Matches are distributed among these distances:
217 2 0.01
218 4 0.01
219 66 0.21
220 71 0.22
221 29 0.09
222 21 0.07
223 107 0.34
224 18 0.06
225 1 0.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (220 bp):
ATATAATACCATAAATAAAAGTAACAAAATTGCAATATTATTAATAGTTAACTAAAGTATTCAAT
CTGAGACAAAAATTAATAACGTCACCTAAAATCTATTAGAAAATAATCGTCACAAATAAAATTTT
AAATTAGTAACAAAATTATAACATCACTTAAAATAAAAAAATGTCGAAAAAAATTTTTTCACTAA
ATAAATTTGATAGTAAAAGTTTGTG
Found at i:19370430 original size:2 final size:2
Alignment explanation
Indices: 19370425--19370467 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
19370415 TTAAAAAATT
* * * *
19370425 TA TA TA TA TA TG TG TA TA TA TA TA TA TA TG TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19370467 T
1 T
19370468 TTATGTACGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19370444 original size:16 final size:16
Alignment explanation
Indices: 19370425--19370467 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
19370415 TTAAAAAATT
*
19370425 TATATATATATGTGTA
1 TATATATATATATGTA
19370441 TATATATATATATGTA
1 TATATATATATATGTA
*
19370457 TACATATATAT
1 TATATATATAT
19370468 TTATGTACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (16 bp):
TATATATATATATGTA
Found at i:19370448 original size:18 final size:18
Alignment explanation
Indices: 19370425--19370474 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
19370415 TTAAAAAATT
* *
19370425 TATATATATATGTGTATA
1 TATATATATATGTATACA
19370443 TATATATATATGTATACA
1 TATATATATATGTATACA
*
19370461 TATATATTTATGTA
1 TATATATATATGTA
19370475 CGTATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (18 bp):
TATATATATATGTATACA
Found at i:19370481 original size:18 final size:18
Alignment explanation
Indices: 19370425--19370487 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 18
19370415 TTAAAAAATT
* **
19370425 TATATATATATGTGTATA
1 TATATATTTATGTACATA
* * *
19370443 TATATATATATGTATACA
1 TATATATTTATGTACATA
*
19370461 TATATATTTATGTACGTA
1 TATATATTTATGTACATA
19370479 TAT-TATTTA
1 TATATATTTA
19370488 AATATTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
17 6 0.15
18 33 0.85
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (18 bp):
TATATATTTATGTACATA
Found at i:19370849 original size:42 final size:42
Alignment explanation
Indices: 19370765--19370870 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
19370755 TTTAATATAA
* *
19370765 TTTAATATTTATAATATCGAATTTGATTTAATTAATTATTATTTT
1 TTTAATATTTA-AAT-T-TAATATGATTTAATTAATTATTATTTT
*
19370810 TTTAATATTTAAATTTAATATGATTTAA-TAATTTTTTATTTT
1 TTTAATATTTAAATTTAATATGATTTAATTAA-TTATTATTTT
*
19370852 TTAAATATTTAAATTTAAT
1 TTTAATATTTAAATTTAAT
19370871 TTAATATTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
41 3 0.05
42 38 0.68
43 1 0.02
44 3 0.05
45 11 0.20
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (42 bp):
TTTAATATTTAAATTTAATATGATTTAATTAATTATTATTTT
Found at i:19371222 original size:20 final size:20
Alignment explanation
Indices: 19371181--19371229 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
19371171 AAATTAATGA
* *
19371181 TTTATTTTAATTTTATATTT
1 TTTATTTTAATTGTATACTT
19371201 TTTAGTTTTAATTGT-TACTT
1 TTTA-TTTTAATTGTATACTT
19371221 TTTATTTTA
1 TTTATTTTA
19371230 TTTTAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 5 0.19
20 12 0.46
21 9 0.35
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTATTTTAATTGTATACTT
Found at i:19371251 original size:29 final size:29
Alignment explanation
Indices: 19371191--19371252 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
19371181 TTTATTTTAA
* *
19371191 TTTTATATTTTTTAGTTTTAATTGTTACT
1 TTTTATATTTTTTAGTTTTAAATGTAACT
* *
19371220 TTTTATTTTATTTTAGTTTTAAAT-TAATT
1 TTTTATATT-TTTTAGTTTTAAATGTAACT
19371249 TTTT
1 TTTT
19371253 GATAAAATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (29 bp):
TTTTATATTTTTTAGTTTTAAATGTAACT
Found at i:19377328 original size:156 final size:157
Alignment explanation
Indices: 19377029--19377345 Score: 487
Period size: 156 Copynumber: 2.0 Consensus size: 157
19377019 CTTGCCCAAA
*
19377029 TCTGATTTCTCTTTTCAAACAACAAATTGCCTTCGAATCTAAAAACCCTAGACATTAGTGATTGT
1 TCTGATTTCTCTTTTCAAACAACAAATTGCCTTCGAATCTAAAAACCCTAGACATTAGTCATTGT
* * *
19377094 GAAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACCTCAGCAGTGCATGTCTTCTTGA
66 AAAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACCTCAGCAATGCAGGTCTTCTTGA
* *
19377159 ACGGTTGTCTGTTAGC-AGTTGTCCATC
131 ACGGTTGTATGTTAACGA-TTGTCCATC
* * * * * *
19377186 TCTGATTTCTC-TTTCAAACAACAATTTGCCTTCGAATCTCAAAAGCCTAGAGATTATTCATTTT
1 TCTGATTTCTCTTTTCAAACAACAAATTGCCTTCGAATCTAAAAACCCTAGACATTAGTCATTGT
19377250 AAAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACCTCAGCAATGCAGGTCTTCTTGA
66 AAAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACCTCAGCAATGCAGGTCTTCTTGA
19377315 GAC-GTTGTATGTTAACGATTGTCCATC
131 -ACGGTTGTATGTTAACGATTGTCCATC
19377342 TCTG
1 TCTG
19377346 GTATCTTTAT
Statistics
Matches: 146, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
156 132 0.90
157 14 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (157 bp):
TCTGATTTCTCTTTTCAAACAACAAATTGCCTTCGAATCTAAAAACCCTAGACATTAGTCATTGT
AAAAATTTACGGTGTTTGTTGGAAGAGGGAGAGAATGTTAACCTCAGCAATGCAGGTCTTCTTGA
ACGGTTGTATGTTAACGATTGTCCATC
Found at i:19388775 original size:31 final size:32
Alignment explanation
Indices: 19388716--19388777 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
19388706 TACAAACGCC
*
19388716 GCTAATATAACAGTATTTTTTCATATACAAAT
1 GCTAATATAACAGTATTTTTTCAGATACAAAT
**
19388748 GCTAATATAGTAGTA-TTTTTCAGATACAAA
1 GCTAATATAACAGTATTTTTTCAGATACAAA
19388778 AACAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (32 bp):
GCTAATATAACAGTATTTTTTCAGATACAAAT
Found at i:19390230 original size:30 final size:30
Alignment explanation
Indices: 19390196--19390258 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
19390186 ATCACTATCT
19390196 TATACGATATACGTTAA-ATGATTAAAATGA
1 TATACGATATACG-TAAGATGATTAAAATGA
*
19390226 TATACGATGTACGTAAGATGATTAAAATGA
1 TATACGATATACGTAAGATGATTAAAATGA
19390256 TAT
1 TAT
19390259 TTACTTCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.33
Consensus pattern (30 bp):
TATACGATATACGTAAGATGATTAAAATGA
Found at i:19390801 original size:16 final size:17
Alignment explanation
Indices: 19390782--19390827 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
19390772 TAAGTACAAA
19390782 AAATTATAAAATAA-AT
1 AAATTATAAAATAATAT
*
19390798 AAATAATAAAA-AATAT
1 AAATTATAAAATAATAT
19390814 AAA-TATAAATATAA
1 AAATTATAAA-ATAA
19390828 CAAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 7 0.28
16 16 0.64
17 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATTATAAAATAATAT
Found at i:19390965 original size:182 final size:182
Alignment explanation
Indices: 19390658--19391026 Score: 713
Period size: 182 Copynumber: 2.0 Consensus size: 182
19390648 TAATCATCTT
19390658 TATTTTTTACAATAAAATTTTTTTTTATATAACATACACCTCTTTCATGAATCTTATTCTTCAAT
1 TATTTTTTACAATAAAATTTTTTTTTATATAACATACACCTCTTTCATGAATCTTATTCTTCAAT
*
19390723 CTATATACATTATGGCTCCAAAAAATATTATGAATATAAAATCTCTACATAAGTACAAAAAATTA
66 CTATATACATTACGGCTCCAAAAAATATTATGAATATAAAATCTCTACATAAGTACAAAAAATTA
19390788 TAAAATAAATAAATAATAAAAAATATAAATATAAATATAACAAAAATAAATG
131 TAAAATAAATAAATAATAAAAAATATAAATATAAATATAACAAAAATAAATG
19390840 TATTTTTTACAAT-AAATTTTTTTTATATATAACATACACCTCTTTCATGAATCTTATTCTTCAA
1 TATTTTTTACAATAAAATTTTTTTT-TATATAACATACACCTCTTTCATGAATCTTATTCTTCAA
19390904 TCTATATACATTACGGCTCCAAAAAATATTATGAATATAAAATCTCTACATAAGTACAAAAAATT
65 TCTATATACATTACGGCTCCAAAAAATATTATGAATATAAAATCTCTACATAAGTACAAAAAATT
19390969 ATAAAATAAATAAATAATAAAAAATATAAATATAAATATAACAAAAATAAATG
130 ATAAAATAAATAAATAATAAAAAATATAAATATAAATATAACAAAAATAAATG
19391022 TATTT
1 TATTT
19391027 ACATACCTTT
Statistics
Matches: 185, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
181 11 0.06
182 174 0.94
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (182 bp):
TATTTTTTACAATAAAATTTTTTTTTATATAACATACACCTCTTTCATGAATCTTATTCTTCAAT
CTATATACATTACGGCTCCAAAAAATATTATGAATATAAAATCTCTACATAAGTACAAAAAATTA
TAAAATAAATAAATAATAAAAAATATAAATATAAATATAACAAAAATAAATG
Found at i:19390983 original size:16 final size:17
Alignment explanation
Indices: 19390964--19391009 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
19390954 TAAGTACAAA
19390964 AAATTATAAAATAA-AT
1 AAATTATAAAATAATAT
*
19390980 AAATAATAAAA-AATAT
1 AAATTATAAAATAATAT
19390996 AAA-TATAAATATAA
1 AAATTATAAA-ATAA
19391010 CAAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 7 0.28
16 16 0.64
17 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATTATAAAATAATAT
Found at i:19391960 original size:24 final size:24
Alignment explanation
Indices: 19391931--19391982 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 24
19391921 GTTTTTTTTT
19391931 TAAATAAGTATTTATTTTGATACAATAA
1 TAAATAA-TA-TT-TTTTGATA-AATAA
19391959 TAAATAATATTTTTTGATAAATAA
1 TAAATAATATTTTTTGATAAATAA
19391983 AACTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.21
25 8 0.33
26 2 0.08
27 2 0.08
28 7 0.29
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (24 bp):
TAAATAATATTTTTTGATAAATAA
Found at i:19393112 original size:19 final size:19
Alignment explanation
Indices: 19393088--19393140 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
19393078 ATATTTAATA
19393088 TATTTAATAAATTAATTTT
1 TATTTAATAAATTAATTTT
*
19393107 TATTTAAT-AATATAAATTT
1 TATTTAATAAAT-TAATTTT
19393126 TATTT--TAAATTAATT
1 TATTTAATAAATTAATT
19393141 AGAATTAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 19 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTAATAAATTAATTTT
Found at i:19399864 original size:156 final size:156
Alignment explanation
Indices: 19399606--19399890 Score: 439
Period size: 156 Copynumber: 1.8 Consensus size: 156
19399596 ATACAACCGT
* * * *
19399606 TCAAGAAGACATGCACTGCTGAGGTTAATATTCTCTCCCTCTTCCAACAAACACCGTAAATTTTT
1 TCAAGAAGACATACACTGCCGAGGTTAACATTCTCTCCCTCTTCCAACAAACACCGTAAATTTGT
* *
19399671 ACAATCAATAATCGCTAGGCTTTTGAGATTTGAAGGCAAATTGTTGTTTGAAAGAGAAATCAGAG
66 ACAACCAATAATCACTAGGCTTTTGAGATTTGAAGGCAAATTGTTGTTTGAAAGAGAAATCAGAG
19399736 ATGGACAACTGCTAATATTCAAATGC
131 ATGGACAACTGCTAATATTCAAATGC
* * *
19399762 TCAAGAAGACATACACTGCCGATGTTAACGTTCTCTCCCTCTTCGAACAAACACCG-AATATTTG
1 TCAAGAAGACATACACTGCCGAGGTTAACATTCTCTCCCTCTTCCAACAAACACCGTAA-ATTTG
* *
19399826 TACAACCAATAATCACTAGGCTTTTTAGATTCT-TAGGCAAATTGTTGTTTGAAAGAGAAATCAG
65 TACAACCAATAATCACTAGGCTTTTGAGATT-TGAAGGCAAATTGTTGTTTGAAAGAGAAATCAG
19399890 A
129 A
19399891 TTTGGGCAAG
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
155 2 0.02
156 113 0.97
157 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (156 bp):
TCAAGAAGACATACACTGCCGAGGTTAACATTCTCTCCCTCTTCCAACAAACACCGTAAATTTGT
ACAACCAATAATCACTAGGCTTTTGAGATTTGAAGGCAAATTGTTGTTTGAAAGAGAAATCAGAG
ATGGACAACTGCTAATATTCAAATGC
Found at i:19408335 original size:36 final size:36
Alignment explanation
Indices: 19408288--19408357 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
19408278 TGTACAGTTG
19408288 TTCTGGAAAGAAACAATATATGTGCTGCACTGCCTA
1 TTCTGGAAAGAAACAATATATGTGCTGCACTGCCTA
* * *
19408324 TTCTGGTAAGAAACAGTATCTGTGCTGCACTGCC
1 TTCTGGAAAGAAACAATATATGTGCTGCACTGCC
19408358 ATTTACCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (36 bp):
TTCTGGAAAGAAACAATATATGTGCTGCACTGCCTA
Found at i:19412069 original size:156 final size:156
Alignment explanation
Indices: 19411785--19412412 Score: 855
Period size: 156 Copynumber: 4.0 Consensus size: 156
19411775 ATAAAGATAC
* * * * * * * * * * * *
19411785 CAGAGATGGACAATAGCCAATATACAACTCCTCGAGAAGACTTGCATTGCTGATGTCAACATTCT
1 CAGAGATGGACATTTGCTAATATTCAACTGCTCAAGAAGACATACACTGCCGAGGTTAACATTCT
* * * **
19411850 CTCCCTCTTTCAACAAACACCGTAAATTTTTACAATTAGCAATCTCTAGGCTTTTGAGATTCGAA
66 CTCCCTCTTCCAACAAACACCGTAAATTTTCACAATCAAAAATCTCTAGGCTTTTGAGATTCGAA
**
19411915 GGCAAATTGTTGTTTGAAAGAGAAAT
131 GGCAAATTGTACTTTGAAAGAGAAAT
* * * * *
19411941 CAGAGATGGACATTTGCGAATTTTCAAATGCTCAAGAAGACATGCACTGCTGAGGTTAACATTCT
1 CAGAGATGGACATTTGCTAATATTCAACTGCTCAAGAAGACATACACTGCCGAGGTTAACATTCT
19412006 CTCCCTCTTCCAACAAACACCGTAAATTTTCACAATCAAAAATCTCTAGGCTTTTGAGATTCGAA
66 CTCCCTCTTCCAACAAACACCGTAAATTTTCACAATCAAAAATCTCTAGGCTTTTGAGATTCGAA
19412071 GGCAAATTGTACTTTGAAAGAGAAAT
131 GGCAAATTGTACTTTGAAAGAGAAAT
*
19412097 CAGAGATGGACATTTGCTAATATTCAACTGCTCAAGAAGACATATACTGCCGAGGTTAACATTCT
1 CAGAGATGGACATTTGCTAATATTCAACTGCTCAAGAAGACATACACTGCCGAGGTTAACATTCT
*
19412162 CTCCCTCTTCCAACAAACACCGTAAATTTTCACAATCAAAAATCTCTAGGCTTTTGAGATTCGAC
66 CTCCCTCTTCCAACAAACACCGTAAATTTTCACAATCAAAAATCTCTAGGCTTTTGAGATTCGAA
19412227 GGCAAATTGTACTTTGAAAGAGAAAT
131 GGCAAATTGTACTTTGAAAGAGAAAT
* * * *
19412253 CAGAGATGCACAGTCGCTAATATTCAACTGCTCAAGAAGACATACACTGCCGATGTTAACATTCT
1 CAGAGATGGACATTTGCTAATATTCAACTGCTCAAGAAGACATACACTGCCGAGGTTAACATTCT
* * * * * * *
19412318 CTCCCTCTTCGAACAAACACTGTATA-TTTCTACAA-CAACCAATGTCTAGGATTTTTAGATTCG
66 CTCCCTCTTCCAACAAACACCGTAAATTTTC-ACAATCAA-AAATCTCTAGGCTTTTGAGATTCG
* * **
19412381 AAGGCGAATAGTTGTTTGAAAGAGAAAT
129 AAGGCAAATTGTACTTTGAAAGAGAAAT
19412409 CAGA
1 CAGA
19412413 TTTGGACAAT
Statistics
Matches: 427, Mismatches: 43, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
155 7 0.02
156 420 0.98
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (156 bp):
CAGAGATGGACATTTGCTAATATTCAACTGCTCAAGAAGACATACACTGCCGAGGTTAACATTCT
CTCCCTCTTCCAACAAACACCGTAAATTTTCACAATCAAAAATCTCTAGGCTTTTGAGATTCGAA
GGCAAATTGTACTTTGAAAGAGAAAT
Found at i:19419694 original size:30 final size:30
Alignment explanation
Indices: 19419660--19419722 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
19419650 TTAGAAGTAA
19419660 ATATCATTTTAATCATCTT-ACGTACATCGT
1 ATATCATTTTAATCAT-TTAACGTACATCGT
*
19419690 ATATCATTTTAATCATTTAACGTATATCGT
1 ATATCATTTTAATCATTTAACGTACATCGT
19419720 ATA
1 ATA
19419723 AGATAGTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.44
Consensus pattern (30 bp):
ATATCATTTTAATCATTTAACGTACATCGT
Found at i:19421212 original size:34 final size:31
Alignment explanation
Indices: 19421142--19421202 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
19421132 ATTTGCTGTT
*
19421142 TTTGTATCTGAAAAATGCTACTATATTAGCA
1 TTTGTATATGAAAAATGCTACTATATTAGCA
* *
19421173 TTTGTATATGAAAAATGTTGCTATATTAGC
1 TTTGTATATGAAAAATGCTACTATATTAGC
19421203 GGCGTTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (31 bp):
TTTGTATATGAAAAATGCTACTATATTAGCA
Found at i:19421832 original size:13 final size:13
Alignment explanation
Indices: 19421793--19421832 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
19421783 TCAAAATTTA
19421793 ATTTAAATTTAAT
1 ATTTAAATTTAAT
* *
19421806 ATATATATTTAAT
1 ATTTAAATTTAAT
*
19421819 ATTTAAATTAAAT
1 ATTTAAATTTAAT
19421832 A
1 A
19421833 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAAATTTAAT
Found at i:19422731 original size:15 final size:15
Alignment explanation
Indices: 19422704--19422743 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
19422694 AAATTTTAAA
19422704 ATTTAATATTAAATAT
1 ATTTAA-ATTAAATAT
*
19422720 ATTTAAATTAAATTT
1 ATTTAAATTAAATAT
*
19422735 TTTTAAATT
1 ATTTAAATT
19422744 TCGTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTAAATTAAATAT
Found at i:19423143 original size:15 final size:14
Alignment explanation
Indices: 19423103--19423144 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
19423093 ATATTTTAAA
19423103 ATTTTTATTT-ATT
1 ATTTTTATTTAATT
*
19423116 TTTTGTTATTTAATT
1 ATTT-TTATTTAATT
19423131 ATTTTTAATTTAAT
1 ATTTTT-ATTTAAT
19423145 ATAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 3 0.12
14 8 0.33
15 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (14 bp):
ATTTTTATTTAATT
Found at i:19423197 original size:7 final size:7
Alignment explanation
Indices: 19423187--19423219 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
19423177 AAAATTAATT
19423187 TTTTTTA
1 TTTTTTA
19423194 TTTTTTA
1 TTTTTTA
19423201 -TTTTTA
1 TTTTTTA
*
19423207 TCTTTTA
1 TTTTTTA
19423214 TTTTTT
1 TTTTTT
19423220 CAAACCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:19423204 original size:13 final size:13
Alignment explanation
Indices: 19423188--19423218 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19423178 AAATTAATTT
*
19423188 TTTTTATTTTTTA
1 TTTTTATCTTTTA
19423201 TTTTTATCTTTTA
1 TTTTTATCTTTTA
19423214 TTTTT
1 TTTTT
19423219 TCAAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATCTTTTA
Done.