Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008914.1 Hibiscus syriacus cultivar Beakdansim tig00112217_pilon, 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: 1601432
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:865608 original size:171 final size:172
Alignment explanation
Indices: 865323--865669 Score: 678
Period size: 171 Copynumber: 2.0 Consensus size: 172
865313 GATCCAATCT
*
865323 CCAATTAAGGTCATTAATTGGATACATCTAGATAGTATATACATGCAATCTGAAGTACCTCATCC
1 CCAATTAAGGTCATTAATTGGATACATCTAAATAGTATATACATGCAATCTGAAGTACCTCATCC
865388 ACCTGTGCCCCTAAAAAATCACCTTACAAAAAGGAATAAAAAGTGTACTTTCCCAATTAACACCA
66 ACCTGTGCCCCTAAAAAATCACCTTACAAAAAGGAATAAAAAGTGTACTTTCCCAATTAACACCA
865453 ATTAGCAAAGATTGAAAATATTTTTTGTTTA-ATAGGTTTGA
131 ATTAGCAAAGATTGAAAATATTTTTTGTTTACATAGGTTTGA
865494 CCAATTAAGGTCATTAATTGGATACATCTAAATAGTATATACATGCAATCTGAAGTACCTCATCC
1 CCAATTAAGGTCATTAATTGGATACATCTAAATAGTATATACATGCAATCTGAAGTACCTCATCC
865559 ACCTGTGCCCCTAAAAAATCACCTTACAAAAAGGAATAAAAAGTGTACTTTCCCAATTAACACCA
66 ACCTGTGCCCCTAAAAAATCACCTTACAAAAAGGAATAAAAAGTGTACTTTCCCAATTAACACCA
865624 ATTAGCAAAGATTGAAAATATTTTTTGTTTACATAGGTTTGA
131 ATTAGCAAAGATTGAAAATATTTTTTGTTTACATAGGTTTGA
865666 CCAA
1 CCAA
865670 AGATTAAGTT
Statistics
Matches: 174, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
171 160 0.92
172 14 0.08
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (172 bp):
CCAATTAAGGTCATTAATTGGATACATCTAAATAGTATATACATGCAATCTGAAGTACCTCATCC
ACCTGTGCCCCTAAAAAATCACCTTACAAAAAGGAATAAAAAGTGTACTTTCCCAATTAACACCA
ATTAGCAAAGATTGAAAATATTTTTTGTTTACATAGGTTTGA
Found at i:866298 original size:44 final size:44
Alignment explanation
Indices: 866250--866453 Score: 261
Period size: 44 Copynumber: 4.7 Consensus size: 44
866240 GTGAATCCTC
*
866250 AAAATGTTTGATTATGGATTTTGTTTGATATGTGAAGACCAAGT
1 AAAATGTTTGATTATGTATTTTGTTTGATATGTGAAGACCAAGT
* *
866294 AAAATGTTTGATTATGTACTTTGTTTGAAATGTGAAGACCAAGT
1 AAAATGTTTGATTATGTATTTTGTTTGATATGTGAAGACCAAGT
* ** *
866338 AAAATGTTTGA-TATGTATCTTGTTTGATATGTGAAGTTCAAAT
1 AAAATGTTTGATTATGTATTTTGTTTGATATGTGAAGACCAAGT
* * * **
866381 AAATTGTTT-ATTATGTAATGTGTTTGATATGTGAAGATATAAGT
1 AAAATGTTTGATTATGTATTTTGTTTGATATGTGAAGA-CCAAGT
*
866425 AAAATGTTTTA-TATGTATTTTGTTTGATA
1 AAAATGTTTGATTATGTATTTTGTTTGATA
866454 GTGTTTTGTT
Statistics
Matches: 137, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 56 0.41
44 79 0.58
45 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.44
Consensus pattern (44 bp):
AAAATGTTTGATTATGTATTTTGTTTGATATGTGAAGACCAAGT
Found at i:866371 original size:87 final size:87
Alignment explanation
Indices: 866250--866453 Score: 275
Period size: 87 Copynumber: 2.3 Consensus size: 87
866240 GTGAATCCTC
* * * *
866250 AAAATGTTTGATTATGGATTTTGTTTGATATGTGAAGACCAAGTAAAATGTTTGATTATGTACTT
1 AAAATGTTTGA-TATGTATTTTGTTTGATATGTGAAGACCAAATAAAATGTTT-ATTATGTAATG
*
866315 TGTTTGAAATGTGAAGA-CCAAGT
64 TGTTTGAAATGTGAAGATACAAGT
* ** *
866338 AAAATGTTTGATATGTATCTTGTTTGATATGTGAAGTTCAAATAAATTGTTTATTATGTAATGTG
1 AAAATGTTTGATATGTATTTTGTTTGATATGTGAAGACCAAATAAAATGTTTATTATGTAATGTG
* *
866403 TTTGATATGTGAAGATATAAGT
66 TTTGAAATGTGAAGATACAAGT
*
866425 AAAATGTTTTATATGTATTTTGTTTGATA
1 AAAATGTTTGATATGTATTTTGTTTGATA
866454 GTGTTTTGTT
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
86 25 0.25
87 66 0.65
88 11 0.11
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.44
Consensus pattern (87 bp):
AAAATGTTTGATATGTATTTTGTTTGATATGTGAAGACCAAATAAAATGTTTATTATGTAATGTG
TTTGAAATGTGAAGATACAAGT
Found at i:869557 original size:18 final size:17
Alignment explanation
Indices: 869536--869583 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
869526 CACTAGCAAC
*
869536 ATTAGGACCACTGCCACT
1 ATTA-GACCACTGACACT
*
869554 ATTAGACCCACTGACAGT
1 ATTAGA-CCACTGACACT
869572 ATTATGACCACT
1 ATTA-GACCACT
869584 ACCAGCATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (17 bp):
ATTAGACCACTGACACT
Found at i:869581 original size:36 final size:36
Alignment explanation
Indices: 869536--869610 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
869526 CACTAGCAAC
* *
869536 ATTAGGACCACTGCCA-CTATTAGACCCACTGACAGT
1 ATTAGGACCACTACCAGC-ATTAGACCCACTGACAAT
* * *
869572 ATTATGACCACTACCAGCATTAGGCCCATTGACAAT
1 ATTAGGACCACTACCAGCATTAGACCCACTGACAAT
869608 ATT
1 ATT
869611 TGTTGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (36 bp):
ATTAGGACCACTACCAGCATTAGACCCACTGACAAT
Found at i:873308 original size:200 final size:199
Alignment explanation
Indices: 872964--873360 Score: 737
Period size: 200 Copynumber: 2.0 Consensus size: 199
872954 TAAAACATAA
872964 AATTTTGCTCGCAAGAGTAATCAAAGTAGAAATACCAGACTTATTAAGAAACTGTTGAACGAAGG
1 AATTTTGCTCGCAAGAGTAATCAAAGTAGAAATACCAGACTTATTAAGAAACTGTTGAACGAAGG
873029 GGCAATTTTAAGAACCTTTATCACATAAAAAGAACCTTGTGTTGACAGATATCTTGCGGATAGAA
66 GGCAATTTTAAGAACCTTTATCACATAAAAAGAACCTTGTGTTGACAGATATCTTGCGGATAGAA
873094 AGATGACCAAAGTAGGAACATAATTGCTAATAAATCTTTAGAAGTTGATCTTGACTTTAGGAGGC
131 AGATGACCAAAGTAGGAACATAATTGCTAAT-AATCTTTAGAAGTTGATCTTGACTTTA-GAGGC
873159 ATTTTT
194 ATTTTT
873165 AATTTTGCTCGCAAGAGTAATC-AAGTAGAAATACCAGACTTATTAAG-AACT-TGTGAACGAAG
1 AATTTTGCTCGCAAGAGTAATCAAAGTAGAAATACCAGACTTATTAAGAAACTGT-TGAACGAAG
873227 GGGCAATTTTAAAGAACCTTTATCACATAAAAAGAACCTTGTGTTGACAGATATCTTGCGGATAG
65 GGGCAATTTT-AAGAACCTTTATCACATAAAAAGAACCTTGTGTTGACAGATATCTTGCGGATAG
873292 AAAGATGACCAAAGTAGGAACATAATTGCTAATAATCTTTAGAAGTTGATCTTGACTTTAGAGGC
129 AAAGATGACCAAAGTAGGAACATAATTGCTAATAATCTTTAGAAGTTGATCTTGACTTTAGAGGC
873357 ATTT
194 ATTT
873361 AAAGAACATA
Statistics
Matches: 194, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
198 10 0.05
199 50 0.26
200 112 0.58
201 22 0.11
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (199 bp):
AATTTTGCTCGCAAGAGTAATCAAAGTAGAAATACCAGACTTATTAAGAAACTGTTGAACGAAGG
GGCAATTTTAAGAACCTTTATCACATAAAAAGAACCTTGTGTTGACAGATATCTTGCGGATAGAA
AGATGACCAAAGTAGGAACATAATTGCTAATAATCTTTAGAAGTTGATCTTGACTTTAGAGGCAT
TTTT
Found at i:877081 original size:12 final size:12
Alignment explanation
Indices: 877058--877095 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
877048 TTTTACTATA
*
877058 TTGAATTTTCTT
1 TTGAAATTTCTT
877070 TT-AAACTTTCTT
1 TTGAAA-TTTCTT
877082 TTGAAATTTCTT
1 TTGAAATTTCTT
877094 TT
1 TT
877096 TAATATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 18 0.78
13 3 0.13
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (12 bp):
TTGAAATTTCTT
Found at i:877091 original size:24 final size:23
Alignment explanation
Indices: 877058--877111 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
877048 TTTTACTATA
*
877058 TTGAATTTTCTTTTAAACT-TTCTT
1 TTGAAATTTCTTTTAAA-TATTC-T
*
877082 TTGAAATTTCTTTTTAATATTCT
1 TTGAAATTTCTTTTAAATATTCT
877105 TTGAAAT
1 TTGAAAT
877112 CTAATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (23 bp):
TTGAAATTTCTTTTAAATATTCT
Found at i:877840 original size:16 final size:15
Alignment explanation
Indices: 877819--877848 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
877809 CAAACAGTGC
877819 AGTGCAAGAAAAAAAT
1 AGTGCAA-AAAAAAAT
877835 AGTGCAAAAAAAAA
1 AGTGCAAAAAAAAA
877849 ACAGATTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.07, G:0.17, T:0.10
Consensus pattern (15 bp):
AGTGCAAAAAAAAAT
Found at i:877849 original size:16 final size:16
Alignment explanation
Indices: 877819--877849 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
877809 CAAACAGTGC
*
877819 AGTGCAAGAAAAAAAT
1 AGTGCAAAAAAAAAAT
877835 AGTGCAAAAAAAAAA
1 AGTGCAAAAAAAAAA
877850 CAGATTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.16, T:0.10
Consensus pattern (16 bp):
AGTGCAAAAAAAAAAT
Found at i:880930 original size:19 final size:20
Alignment explanation
Indices: 880904--880948 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
880894 TTCTTTTGAA
880904 TTTT-TTTAATCT-TTTTAT
1 TTTTCTTTAATCTATTTTAT
*
880922 TTTTCTTTATTCTATTTTAT
1 TTTTCTTTAATCTATTTTAT
*
880942 TTCTCTT
1 TTTTCTT
880949 CATCTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 7 0.30
20 12 0.52
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCTTTAATCTATTTTAT
Found at i:881493 original size:17 final size:18
Alignment explanation
Indices: 881465--881498 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
881455 CAACAATTGA
881465 GTTATGTTCAAGATTTTT
1 GTTATGTTCAAGATTTTT
*
881483 GTTAT-TTCAAGCTTTT
1 GTTATGTTCAAGATTTT
881499 ATGAGTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.56
Consensus pattern (18 bp):
GTTATGTTCAAGATTTTT
Found at i:888616 original size:18 final size:18
Alignment explanation
Indices: 888593--888627 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
888583 AGTCAGAATT
888593 ATGAATGTCTTAAATATC
1 ATGAATGTCTTAAATATC
888611 ATGAATGTCTTAAATAT
1 ATGAATGTCTTAAATAT
888628 GATTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (18 bp):
ATGAATGTCTTAAATATC
Found at i:897377 original size:2 final size:2
Alignment explanation
Indices: 897370--897409 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
897360 TGCAAAAGGT
897370 TA TA TA TA 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 TA TA TA TA
897410 CACACACGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:899325 original size:26 final size:25
Alignment explanation
Indices: 899272--899325 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
899262 AATTTTATTT
*
899272 TATTAAAATTAATTATTTTAATTTAA
1 TATTAAAATTAATTATTTT-ATTAAA
899298 TATTAAAATTAATTGATTATT-TTAAA
1 TATTAAAATTAATT-ATT-TTATTAAA
899324 TA
1 TA
899326 ATCTTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 20 0.80
27 3 0.12
28 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TATTAAAATTAATTATTTTATTAAA
Found at i:899614 original size:3 final size:3
Alignment explanation
Indices: 899606--899655 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
899596 TCCGGGTTTA
* * * *
899606 TAT TAT TAT TAT TAT TAT TAC TAA TAC TAT TAT TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
899654 TA
1 TA
899656 CATTTGCAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:901748 original size:37 final size:37
Alignment explanation
Indices: 901691--901787 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
901681 CCTTTTCGTC
* * *
901691 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAAGATTCTAACTCCTAAAAATAGGATAGAATT
* * *
901728 TTGCTAAGATTCTAACTCCTAAAAATAGGATAGAGTT
1 CTACTAAGATTCTAACTCCTAAAAATAGGATAGAATT
*
901765 CTACTATGATT-TAAACTCCTAAA
1 CTACTAAGATTCT-AACTCCTAAA
901788 GATAAGATCC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 1 0.02
37 49 0.98
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (37 bp):
CTACTAAGATTCTAACTCCTAAAAATAGGATAGAATT
Found at i:902710 original size:13 final size:13
Alignment explanation
Indices: 902634--902712 Score: 63
Period size: 13 Copynumber: 5.8 Consensus size: 13
902624 TATTTTAATA
*
902634 TTTCATTTATTTA
1 TTTCATTTATTTT
902647 TTT-ATTTATTTGT
1 TTTCATTTATTT-T
*
902660 CCTTTTATTTTATTTT
1 --TTTCA-TTTATTTT
* *
902676 TTTTACTTATTTT
1 TTTCATTTATTTT
902689 TATTC-TTTATTTT
1 T-TTCATTTATTTT
902702 TTTCATTTATT
1 TTTCATTTATT
902713 CATTTTTTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
12 11 0.20
13 25 0.45
14 7 0.13
15 3 0.05
16 2 0.04
17 7 0.13
ACGTcount: A:0.16, C:0.08, G:0.01, T:0.75
Consensus pattern (13 bp):
TTTCATTTATTTT
Found at i:907135 original size:21 final size:21
Alignment explanation
Indices: 907090--907171 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 21
907080 AGATTCAATC
*
907090 AGAACAAAAA-CAAAAAA-AA
1 AGAAAAAAAAGCAAAAAAGAA
907109 CA-AAAAAAGAAGCAAAAAAG-A
1 -AGAAAAAA-AAGCAAAAAAGAA
907130 AGAAAACAAAAG-AAAAAAGAA
1 AGAAAA-AAAAGCAAAAAAGAA
* *
907151 AGAACAAAAATC-AAAAAGAA
1 AGAAAAAAAAGCAAAAAAGAA
907171 A
1 A
907172 AAGGGACAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
19 5 0.10
20 24 0.46
21 21 0.40
22 2 0.04
ACGTcount: A:0.79, C:0.09, G:0.11, T:0.01
Consensus pattern (21 bp):
AGAAAAAAAAGCAAAAAAGAA
Found at i:907154 original size:11 final size:10
Alignment explanation
Indices: 907111--907150 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
907101 AAAAAAAACA
907111 AAAAAAGAAG
1 AAAAAAGAAG
907121 CAAAAAAGAAG
1 -AAAAAAGAAG
907132 AAAACAA-AAG
1 AAAA-AAGAAG
907142 AAAAAAGAA
1 AAAAAAGAA
907151 AGAACAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.07
10 13 0.48
11 12 0.44
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAG
Found at i:907172 original size:13 final size:13
Alignment explanation
Indices: 907103--907173 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
907093 ACAAAAACAA
907103 AAAAAACAAAAA-
1 AAAAAACAAAAAG
* *
907115 AAGAAGCAAAAAAG
1 AAAAAAC-AAAAAG
907129 AAGAAAAC-AAAAG
1 AA-AAAACAAAAAG
* *
907142 AAAAAAGAAAGAAC
1 AAAAAACAAA-AAG
*
907156 AAAAATCAAAAAG
1 AAAAAACAAAAAG
907169 AAAAA
1 AAAAA
907174 GGGACAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
12 9 0.20
13 21 0.47
14 12 0.27
15 3 0.07
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.01
Consensus pattern (13 bp):
AAAAAACAAAAAG
Found at i:907806 original size:22 final size:22
Alignment explanation
Indices: 907778--907832 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
907768 GCCACCCCAT
907778 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
907800 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
907822 CAAACCTTTGA
1 CAAACCTTTGA
907833 CCAAACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:908050 original size:24 final size:21
Alignment explanation
Indices: 908021--908080 Score: 57
Period size: 24 Copynumber: 2.7 Consensus size: 21
908011 AAGAGACAAT
908021 ATTTTCAAAACTTTTGATTAAAC
1 ATTTTCAAAACTTTT-ATT-AAC
* * *
908044 ATTTTTCGAAACTCTTTATTGAT
1 A-TTTTCAAAACT-TTTATTAAC
908067 ATTTTCAAAACTTT
1 ATTTTCAAAACTTT
908081 GAAAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 2 0.06
22 10 0.32
23 3 0.10
24 13 0.42
25 3 0.10
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.48
Consensus pattern (21 bp):
ATTTTCAAAACTTTTATTAAC
Found at i:908868 original size:106 final size:106
Alignment explanation
Indices: 908668--909820 Score: 1585
Period size: 106 Copynumber: 10.9 Consensus size: 106
908658 CAAGATAACA
* *** * *
908668 CAAGTTCAACTTCACAACGAAGGGAAAACTGGTTGTCAAC-AACAATTTTCCAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
908732 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
908773 CAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAA-ATATTTCCCAATTTCAGATCC
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA-ATTTCCCAATTTCAGAGCC
* * *
908837 AATTTCAACTTCACAGCAAAGGATATTGGACTCCAGAAAACA
65 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
908879 CAAGTTCAACTTCACGACGAAGGGACCAG-TGGTTGTCAATAAACAACTTCCTAATTTCAGAGCC
1 CAAGTTCAACTTCACGACGAAGGGACC-GCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
908943 AATTTCAACTTCACTA-CGAAGGATATTGGACTCCAGACAACG
65 AATTTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACG
* *
908985 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
*
909050 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
909091 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCATAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* * * *
909156 ATTTCAACTTCACAACGAAGGAAATTGGACTCAAGACAATG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
909197 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAATAAACAACTTCCCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
909262 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
909303 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
**
909368 ATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
909409 CAAGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* * *
909473 ATTTCAACTTCACATCGTAGGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
909514 CAAATTCAACTTCACGACAAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* * *
909579 ATTTCAACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACG
* * * * * * * *
909620 CAAGCTCAACTTCACGATGAAGGGGCGGCTGATTGTTAAC-AA-AATTT--CATTCATTCAGAGT
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT--TTCAGAGC
* * * *
909681 CAATTTCAACTTCACCGCAAAGGATATTGGACTCGAGACAACA
64 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* ** * *
909724 CAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGTC
1 CAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
*
909788 AACTTT-AACTTCAC-GACGGAGGATATTGGACTC
65 AA-TTTCAACTTCACAG-CGAAGGATATTGGACTC
909821 GGAACAATGC
Statistics
Matches: 943, Mismatches: 86, Indels: 37
0.88 0.08 0.03
Matches are distributed among these distances:
102 3 0.00
103 1 0.00
104 78 0.08
105 141 0.15
106 712 0.76
107 6 0.01
108 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:910572 original size:37 final size:37
Alignment explanation
Indices: 910519--910623 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
910509 CCTTTTCGTC
910519 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
910556 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
910593 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
910624 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:911505 original size:4 final size:4
Alignment explanation
Indices: 911498--911524 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
911488 ATATTAATAT
911498 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
911525 TTCCTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:913799 original size:20 final size:19
Alignment explanation
Indices: 913737--913799 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
913727 CATTTTTTTC
913737 ATCATTCTTTGCAT-TG--T
1 ATCA-TCTTTGCATCTGCAT
*
913754 ATCATTTTTGCATCTGCAT
1 ATCATCTTTGCATCTGCAT
* *
913773 TTGCATCTTTGCATTTGCAT
1 AT-CATCTTTGCATCTGCAT
913793 AATCATC
1 -ATCATC
913800 ATGAATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
16 8 0.22
17 6 0.17
19 2 0.06
20 19 0.53
21 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.48
Consensus pattern (19 bp):
ATCATCTTTGCATCTGCAT
Found at i:914791 original size:6 final size:6
Alignment explanation
Indices: 914780--914820 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
914770 ATCGATACAT
*
914780 TTTGCA TTTGCA TTTGCA TTTGTA TTTGCA TCTTTGCA TTT
1 TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA --TTTGCA TTT
914821 TTACGTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 25 0.81
8 6 0.19
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGCA
Found at i:918616 original size:52 final size:52
Alignment explanation
Indices: 918474--918620 Score: 199
Period size: 53 Copynumber: 2.8 Consensus size: 52
918464 AGGTTCATAT
** * *
918474 GATCCATGTGGGGCATCATGAAGGTTCACATCAATATGAAAAAGACAGAAAT
1 GATCCATGTGGGGCATCATGAAGGTTCACATCAGCATGAAAAAGACAAAAAA
918526 GATCCATGTGGGGGCATCATGAAGGTTCACATCAGCATGAAAAAGACAAAAAA
1 GATCCATGT-GGGGCATCATGAAGGTTCACATCAGCATGAAAAAGACAAAAAA
* *
918579 GATCCATGTGAGGCAT-ATTGAAGGCTCACA-CTAGCATGAAAA
1 GATCCATGTGGGGCATCA-TGAAGGTTCACATC-AGCATGAAAA
918621 GGTTGGGATA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.02
52 36 0.42
53 48 0.56
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (52 bp):
GATCCATGTGGGGCATCATGAAGGTTCACATCAGCATGAAAAAGACAAAAAA
Found at i:920104 original size:42 final size:42
Alignment explanation
Indices: 920045--920172 Score: 179
Period size: 42 Copynumber: 3.1 Consensus size: 42
920035 TCTTGATTTT
* *
920045 TAAATCCTTCGGGTCATCAGTACGTCTTTCGAGCATGATGTA
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGTA
* *
920087 TAAATCCTTCGGGTCATCAGTAAGTCTTTTGGGCATGAT-TCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGT-A
* *
920129 TAAATCCTTCGGGTCATCTGTAAGTCTTTTGAGCAAGATG-A
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGTA
920170 TAA
1 TAA
920173 TACCTTCAGT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 4 0.05
42 72 0.95
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGTA
Found at i:920458 original size:136 final size:136
Alignment explanation
Indices: 920204--920978 Score: 1177
Period size: 136 Copynumber: 5.8 Consensus size: 136
920194 TCAAAATTTT
*
920204 TGACGCCTCGCTTGAGGGATTGATATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCCGAC
1 TGACGCCTCGCTTGAGGGATTGACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCCGAC
* *
920269 AGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCA
66 AGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTCG
920334 AATCAG
131 AATCAG
* * * * *
920340 TGACACCTCACTTGAGGGATTAATATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCTGAC
1 TGACGCCTCGCTTGAGGGATTGACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCCGAC
* * *
920405 AGAGGGAGAAGAAGTTCAAAATGAGAAGAGCTTGTTTGACCTATCACTCGATTCACGGCATTTCG
66 AGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTCG
920470 AATCAG
131 AATCAG
* *
920476 TGATGCCTCGCTTGAGGGATTGACATTTCCAATTGAGAGTTTATAATGAGAAGAACTCATCCGAC
1 TGACGCCTCGCTTGAGGGATTGACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCCGAC
* * * *
920541 AAAGGGAGAAGAGGTTTATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTTG
66 AGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTCG
920606 AATCAG
131 AATCAG
** * * * * *
920612 TGATACCTCACTTAAGGGATTGACATTTCCAATTGAAAGTTCATAATGAGAATAACTCATCTGAC
1 TGACGCCTCGCTTGAGGGATTGACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCCGAC
**
920677 AGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTTA
66 AGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTCG
920742 AATCAG
131 AATCAG
* *
920748 TGATGCCTCGCTTGAGGGATTGACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCGTCCGAC
1 TGACGCCTCGCTTGAGGGATTGACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCCGAC
* *
920813 AGAGTGAGAAGAAGTTTATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTCG
66 AGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTCG
920878 AATCAG
131 AATCAG
* * * * *
920884 TGACGCCTCGCTTGAGGGATTGACATTTCCAA--AAGAGTTCATAATGATAATAACTCGTCCTA-
1 TGACGCCTCGCTTGAGGGATTGACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCCGAC
*
920946 A-A-GGAG-A-AAGTTCATAATGAGAAGAACTTGTTC
66 AGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
920979 CTTTCAAGTC
Statistics
Matches: 588, Mismatches: 51, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
129 24 0.04
130 1 0.00
131 3 0.01
132 1 0.00
133 1 0.00
134 26 0.04
136 532 0.90
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (136 bp):
TGACGCCTCGCTTGAGGGATTGACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCCGAC
AGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTCG
AATCAG
Found at i:921233 original size:117 final size:117
Alignment explanation
Indices: 921022--921438 Score: 619
Period size: 117 Copynumber: 3.6 Consensus size: 117
921012 CATTTCCAAA
*
921022 AGAGTTAATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
921087 CAACCTTGGTTTGATTCCATCACAA-AAAGAGGTGGATCAACATTTTCAGTGG
66 CAACCTTGGTTTGATTCCATCA-AAGAAAGAGGTGGATCAACATTTTCAGTGG
921139 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
921204 CAACCTTGGTTTGATTTCATCAAAGAAAGATGTGGATCAACATTTTCAGTGG
66 CAACCTTGGTTTGATTCCATCAAAGAAAGAGGTGGATCAACATTTTCAGTGG
* * * *
921256 AAAGTTCATAATGAGAAAAACTCATTCAATGAGGAATAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* ** * * * * *
921321 CAACCTTGGTTCT-ATTCCACCGCAGAAGGAGGTGAACCAACATTTCCA--GA
66 CAACCTTGGTT-TGATTCCATCAAAGAAAGAGGTGGATCAACATTTTCAGTGG
* *
921371 AGAGTTCATAATGAGAAGAACTCATCCAA-CAAGAGAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGA-AGAAGAAGTTCATAATGAGAAGAACTTGT
921435 TCAA
65 TCAA
921439 TTCAACACTT
Statistics
Matches: 274, Mismatches: 23, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
114 3 0.01
115 59 0.22
116 2 0.01
117 209 0.76
118 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (117 bp):
AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTGGTTTGATTCCATCAAAGAAAGAGGTGGATCAACATTTTCAGTGG
Found at i:921911 original size:128 final size:128
Alignment explanation
Indices: 921574--921913 Score: 305
Period size: 128 Copynumber: 2.7 Consensus size: 128
921564 TTGTCATCCA
* * * * * * * *
921574 CCGACCTGATTTCTTCATCACGTAGGAACCGTGTCAACCCTAGATAGCCAATCATCCTCATCACG
1 CCGACCTGATCTCCTCATTATGTAGGAGCCATGTCAACCCTAGATAACCAAACATCCTCATCACG
* * *** * *
921639 TAGGAAC-CATGTTATCACCTATAGATGGTCTGCCATCCTCATTACGTAGGAATCGTGTCACAC
66 TAGGAACTGA-GTTATCACCTATAGATGGCCAAACATCCTCATCACGTAGGAACCGTGTCACAC
* * * *
921702 CCGACCTGATCTCCTCATTATGTAGGAGCCGTGTCAATCCTTGATAACCATAAC-TCTTCATCAC
1 CCGACCTGATCTCCTCATTATGTAGGAGCCATGTCAACCCTAGATAACCA-AACATCCTCATCAC
* * * * * * *
921766 GTATG-AGTCGTGTTATCACCTTTAGATGGCCAAA-ACTCGTCATCACGTATGAGCCGTGTCATC
65 GTAGGAACT-GAGTTATCACCTATAGATGGCCAAACA-TCCTCATCACGTAGGAACCGTGTCA-C
921829 AC
127 AC
* * * *
921831 CCGA-CTAGATTTCGTCATTATGTAGGAGCTATGTCAA-CCTAGATAACCAACCATCCTCATCAC
1 CCGACCT-GATCTCCTCATTATGTAGGAGCCATGTCAACCCTAGATAACCAAACATCCTCATCAC
*
921894 GTAGGAACTGAGATATCACC
65 GTAGGAACTGAGTTATCACC
921914 CTTCCTAAAG
Statistics
Matches: 169, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
127 4 0.02
128 128 0.76
129 37 0.22
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (128 bp):
CCGACCTGATCTCCTCATTATGTAGGAGCCATGTCAACCCTAGATAACCAAACATCCTCATCACG
TAGGAACTGAGTTATCACCTATAGATGGCCAAACATCCTCATCACGTAGGAACCGTGTCACAC
Found at i:922200 original size:3 final size:3
Alignment explanation
Indices: 922192--922235 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
922182 TCCGGGTTTA
* * * *
922192 TAT TAT TAT TAT TAC TAA TAC TAT TAT TAA TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
922236 CATTTGCTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:923668 original size:21 final size:20
Alignment explanation
Indices: 923630--923668 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
923620 TTAATTTATT
* *
923630 TTTGTATTTTTAATATTTGG
1 TTTGTATTTTGAAAATTTGG
923650 TTTGTTATTTTGAAAATTT
1 TTTG-TATTTTGAAAATTT
923669 TCCATTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (20 bp):
TTTGTATTTTGAAAATTTGG
Found at i:924280 original size:35 final size:35
Alignment explanation
Indices: 924238--924304 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
924228 ATGTGTTCAT
924238 ATGTATATATATTTTACTATTCTAACTTTTAGCAA
1 ATGTATATATATTTTACTATTCTAACTTTTAGCAA
924273 ATGTATATATATTTTACTATTCTAACTTTTAG
1 ATGTATATATATTTTACTATTCTAACTTTTAG
924305 TAAACATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (35 bp):
ATGTATATATATTTTACTATTCTAACTTTTAGCAA
Found at i:926335 original size:18 final size:18
Alignment explanation
Indices: 926314--926352 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
926304 TTAATGAAAG
926314 TAAATAAAT-AATAAAAAA
1 TAAAT-AATGAATAAAAAA
*
926332 TAAATATTGAATAAAAAA
1 TAAATAATGAATAAAAAA
926350 TAA
1 TAA
926353 TTTGAGTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAATAATGAATAAAAAA
Found at i:926446 original size:33 final size:33
Alignment explanation
Indices: 926404--926470 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
926394 AGCTTTCAGC
926404 TTTGACTCAGTTTCCTCGGATCATCGAAATAGA
1 TTTGACTCAGTTTCCTCGGATCATCGAAATAGA
926437 TTTGACTCAGTTTCCTCGGATCATCGAAATAGA
1 TTTGACTCAGTTTCCTCGGATCATCGAAATAGA
926470 T
1 T
926471 CTTTACTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (33 bp):
TTTGACTCAGTTTCCTCGGATCATCGAAATAGA
Found at i:931161 original size:33 final size:33
Alignment explanation
Indices: 931121--931226 Score: 94
Period size: 33 Copynumber: 3.2 Consensus size: 33
931111 AAATTATATG
931121 TTATATCAAATATCAATTCACATAATTAACTTC
1 TTATATCAAATATCAATTCACATAATTAACTTC
* * * * *
931154 TCATATCATATATTCAA--AAGATAAATT--CTATG
1 TTATATCAAATA-TCAATTCACAT-AATTAACT-TC
* *
931186 TTAAATCAAATGTCAATTCACATAATTAACTTC
1 TTATATCAAATATCAATTCACATAATTAACTTC
931219 TTATATCA
1 TTATATCA
931227 CATGACAATA
Statistics
Matches: 53, Mismatches: 13, Indels: 14
0.66 0.16 0.17
Matches are distributed among these distances:
31 6 0.11
32 16 0.30
33 25 0.47
34 6 0.11
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (33 bp):
TTATATCAAATATCAATTCACATAATTAACTTC
Found at i:931172 original size:65 final size:65
Alignment explanation
Indices: 931103--931226 Score: 203
Period size: 65 Copynumber: 1.9 Consensus size: 65
931093 ATATATCATA
*
931103 CAAAAGAGAAATTATATGTTATATCAAATATCAATTCACATAATTAACTTCTCATATCATATATT
1 CAAAAGAGAAATTATATGTTAAATCAAATATCAATTCACATAATTAACTTCTCATATCATATATT
* * * *
931168 CAAAAGATAAATTCTATGTTAAATCAAATGTCAATTCACATAATTAACTTCTTATATCA
1 CAAAAGAGAAATTATATGTTAAATCAAATATCAATTCACATAATTAACTTCTCATATCA
931227 CATGACAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (65 bp):
CAAAAGAGAAATTATATGTTAAATCAAATATCAATTCACATAATTAACTTCTCATATCATATATT
Found at i:941658 original size:16 final size:16
Alignment explanation
Indices: 941639--941669 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
941629 TTTTTTTATT
*
941639 TTTTATTTAATTTTAA
1 TTTTAGTTAATTTTAA
941655 TTTTAGTTAATTTTA
1 TTTTAGTTAATTTTA
941670 GGGACCAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTAGTTAATTTTAA
Found at i:943223 original size:3 final size:3
Alignment explanation
Indices: 943215--943315 Score: 202
Period size: 3 Copynumber: 33.7 Consensus size: 3
943205 ACTATGCTCT
943215 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
943263 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
943311 TTA TT
1 TTA TT
943316 TCTCTCTTAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:948168 original size:20 final size:20
Alignment explanation
Indices: 948113--948180 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
948103 AATAAATTTA
948113 TTATTTTTATATTTTTAAAC
1 TTATTTTTATATTTTTAAAC
* * **
948133 TAAATTCAATATTTTTAAAC
1 TTATTTTTATATTTTTAAAC
* *
948153 TTATTTTTATAATTTTATA-
1 TTATTTTTATATTTTTAAAC
948172 TTATTTTTA
1 TTATTTTTA
948181 GAAATATAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 9 0.24
20 29 0.76
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTTTATATTTTTAAAC
Found at i:948249 original size:20 final size:19
Alignment explanation
Indices: 948224--948266 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
948214 TTTAGAACTA
948224 TAAAATAATAAATTTAATAT
1 TAAAATAATAAATTTAAT-T
* *
948244 TAAAATATTGAATTTAATT
1 TAAAATAATAAATTTAATT
948263 TAAA
1 TAAA
948267 TTTTAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAAATAATAAATTTAATT
Found at i:951023 original size:27 final size:27
Alignment explanation
Indices: 950991--951056 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
950981 AAAACAGTGT
950991 TGAATGATTCAGCACAAAAGTACATTC
1 TGAATGATTCAGCACAAAAGTACATTC
*
951018 TGAATGATTCAGCACAGAAGTACATTC
1 TGAATGATTCAGCACAAAAGTACATTC
951045 TGAATGATTCAG
1 TGAATGATTCAG
951057 AGCCATTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (27 bp):
TGAATGATTCAGCACAAAAGTACATTC
Found at i:951129 original size:16 final size:16
Alignment explanation
Indices: 951108--951152 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
951098 TCAGAGCCTC
951108 TGAATCATTCAGCATT
1 TGAATCATTCAGCATT
951124 TGAATCATTCAGCATT
1 TGAATCATTCAGCATT
*
951140 TGAATAATTCAGC
1 TGAATCATTCAGC
951153 GCTTAATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (16 bp):
TGAATCATTCAGCATT
Found at i:956980 original size:15 final size:15
Alignment explanation
Indices: 956960--957007 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
956950 TGTACTCATG
956960 TCATTTCTCTTGTGA
1 TCATTTCTCTTGTGA
**
956975 TCATTTAGC-TGATG-
1 TCATTTCTCTTG-TGA
956989 TCATTTCTCTTGTGA
1 TCATTTCTCTTGTGA
957004 TCAT
1 TCAT
957008 GTAGCTCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.50
Consensus pattern (15 bp):
TCATTTCTCTTGTGA
Found at i:956990 original size:29 final size:29
Alignment explanation
Indices: 956947--957020 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
956937 TTTCATATGT
956947 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
* *
956975 TCATTTAGCTGATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
957004 TCATGTAGCTCATGTCA
1 TCATGTAGCTCATGTCA
957021 CTTCATATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 6 0.15
29 35 0.85
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:957055 original size:12 final size:12
Alignment explanation
Indices: 957038--957067 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
957028 TCATGTTCTT
*
957038 ATATCACATGTC
1 ATATCACATATC
957050 ATATCACATATC
1 ATATCACATATC
957062 ATATCA
1 ATATCA
957068 TGAACATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.33
Consensus pattern (12 bp):
ATATCACATATC
Found at i:957456 original size:64 final size:64
Alignment explanation
Indices: 957377--957600 Score: 238
Period size: 64 Copynumber: 3.5 Consensus size: 64
957367 TAATGAAGGT
* * * **
957377 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGTTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGT-GTCATTATTAATGGG
* ** *
957441 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTGTCATTATTAATGGG
* ** * * **
957505 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGT-GTCATTATTAATGGG
**
957568 AGTGCATCGATGCACTACCAATGCATCGATGCA
1 A-TGCATCGATGCACTACTTATGCATCGATGCA
957601 CATTCAAACA
Statistics
Matches: 143, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
63 3 0.02
64 135 0.94
65 5 0.03
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTGTCATTATTAATGGG
Found at i:964033 original size:29 final size:29
Alignment explanation
Indices: 963991--964064 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
963981 TTTCATATGT
963991 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
964019 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
964048 TCATGTAGCTCATGTCA
1 TCATGTAGCTCATGTCA
964065 CTTCATATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:964097 original size:12 final size:12
Alignment explanation
Indices: 964080--964115 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
964070 TATCATGTTC
964080 TCATATCACATG
1 TCATATCACATG
*
964092 TCATATCACATA
1 TCATATCACATG
964104 TCATATCACATG
1 TCATATCACATG
964116 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:964501 original size:64 final size:64
Alignment explanation
Indices: 964422--964642 Score: 205
Period size: 64 Copynumber: 3.5 Consensus size: 64
964412 TAATGAAGGT
* * * * **
964422 ATGCATCGATGCACTACTGATACATCGGTACATAAAAGGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATACATAAAAGGCATTCGATGT-GTCATTATTAATGGG
* * ** *
964486 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATACATAAAAGGCATTCGATGTGTCATTATTAATGGG
* * ** * * **
964550 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATACATAAAAGGCATTCGATGT-GTCATTATTAATGGG
**
964613 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
964643 GCACATTTAA
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
63 3 0.02
64 130 0.94
65 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATACATAAAAGGCATTCGATGTGTCATTATTAATGGG
Found at i:964643 original size:64 final size:64
Alignment explanation
Indices: 964485--964645 Score: 245
Period size: 64 Copynumber: 2.5 Consensus size: 64
964475 TTATTGCTGG
* *
964485 GATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTCATTATTAATGG
1 GATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTCATTATTAAAGA
*
964549 GATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTATTTATT-TTAAA-A
1 GATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT-TTCATTATTAAAGA
**
964612 GAGTGCATCGATGCACTACCAATGCATCGATGCA
1 GA-TGCATCGATGCACTACTTATGCATCGATGCA
964646 CATTTAAACA
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
63 2 0.02
64 83 0.92
65 5 0.06
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (64 bp):
GATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTCATTATTAAAGA
Found at i:987289 original size:21 final size:21
Alignment explanation
Indices: 987264--987315 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
987254 TACTAACATC
987264 TTTAAAATATAATTT-ATTACT
1 TTTAAAATATAATTTAATTA-T
* *
987285 TTTAATAATTTATTTTAATTAT
1 TTTAA-AATATAATTTAATTAT
*
987307 TTAAAAATA
1 TTTAAAATA
987316 AATAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.32
22 13 0.52
23 4 0.16
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAAAATATAATTTAATTAT
Found at i:987930 original size:13 final size:14
Alignment explanation
Indices: 987912--987941 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
987902 AAATAGTTAA
987912 AATAATATA-TTAT
1 AATAATATATTTAT
987925 AATAATATATTTAT
1 AATAATATATTTAT
987939 AAT
1 AAT
987942 CATTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATAATATATTTAT
Found at i:988257 original size:38 final size:38
Alignment explanation
Indices: 988215--988289 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
988205 ATCCATATAT
*
988215 ATACCCAACCTAATTATGTAAGTTTAATGTATCAAACA
1 ATACCCAACCTAATTATGCAAGTTTAATGTATCAAACA
**
988253 ATACCCAAGTTAATTATGCAAGTTTAATGTATCAAAC
1 ATACCCAACCTAATTATGCAAGTTTAATGTATCAAAC
988290 GAAATGATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.32
Consensus pattern (38 bp):
ATACCCAACCTAATTATGCAAGTTTAATGTATCAAACA
Found at i:988609 original size:32 final size:32
Alignment explanation
Indices: 988573--988657 Score: 107
Period size: 32 Copynumber: 2.7 Consensus size: 32
988563 AACTGCTACA
*
988573 CATTATCTAAAAGCAATACTAACACTCTTGTG
1 CATTATCTAAAAGCAACACTAACACTCTTGTG
* * * *
988605 CATTATCTAAATGCAACACTGACTCTGTTGTG
1 CATTATCTAAAAGCAACACTAACACTCTTGTG
* *
988637 CATTATCTGAATGCAACACTA
1 CATTATCTAAAAGCAACACTA
988658 CCAATATCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (32 bp):
CATTATCTAAAAGCAACACTAACACTCTTGTG
Found at i:998930 original size:2 final size:2
Alignment explanation
Indices: 998923--998952 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
998913 TACCCAGTAG
998923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
998953 CAGCAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1007618 original size:16 final size:16
Alignment explanation
Indices: 1007597--1007627 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1007587 TATATATGAA
1007597 GAAAAAATAATGAAAT
1 GAAAAAATAATGAAAT
1007613 GAAAAAATAATGAAA
1 GAAAAAATAATGAAA
1007628 AAATGATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (16 bp):
GAAAAAATAATGAAAT
Found at i:1007624 original size:11 final size:11
Alignment explanation
Indices: 1007610--1007640 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1007600 AAAATAATGA
1007610 AATGAAAAAAT
1 AATGAAAAAAT
1007621 AATGAAAAAAT
1 AATGAAAAAAT
*
1007632 GATGAAAAA
1 AATGAAAAA
1007641 TGAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (11 bp):
AATGAAAAAAT
Found at i:1008980 original size:35 final size:35
Alignment explanation
Indices: 1008941--1009016 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
1008931 GGTAAATAAA
1008941 ATAAAATAAAGAAATCATTATATATTTATATATAT
1 ATAAAATAAAGAAATCATTATATATTTATATATAT
1008976 ATAAAATAAAGAAATCATTATATATTTATATATAT
1 ATAAAATAAAGAAATCATTATATATTTATATATAT
1009011 ATAAAA
1 ATAAAA
1009017 GATATTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (35 bp):
ATAAAATAAAGAAATCATTATATATTTATATATAT
Found at i:1010730 original size:3 final size:3
Alignment explanation
Indices: 1010722--1010767 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
1010712 TAATTTGTAT
**
1010722 TAA TAA TAA TAA TAA TAA TATA TTT TAA TAA TAA TAA TAA TTAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA -TAA TA
1010768 TTTATAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 32 0.86
4 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1010740 original size:25 final size:25
Alignment explanation
Indices: 1010719--1010776 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
1010709 ATGTAATTTG
1010719 TATTAATAATAATAATAATAATATA
1 TATTAATAATAATAATAATAATATA
* *
1010744 TTTTAATAATAATAATAATTAATATT
1 TATTAATAATAATAATAA-TAATATA
1010770 TA-TAATA
1 TATTAATA
1010777 TAGTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TATTAATAATAATAATAATAATATA
Found at i:1010750 original size:19 final size:19
Alignment explanation
Indices: 1010728--1010786 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
1010718 GTATTAATAA
1010728 TAATAATAATAATATATTT
1 TAATAATAATAATATATTT
1010747 TAATAATAATAATA-A--T
1 TAATAATAATAATATATTT
* *
1010763 TAATATTTATAATATAGTTT
1 TAATAATAATAATATA-TTT
1010783 TAAT
1 TAAT
1010787 CTCGGTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 13 0.38
17 1 0.03
18 1 0.03
19 14 0.41
20 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TAATAATAATAATATATTT
Found at i:1010774 original size:22 final size:23
Alignment explanation
Indices: 1010719--1010776 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
1010709 ATGTAATTTG
*
1010719 TATTAATAATAATAATAATAATA
1 TATTTATAATAATAATAATAATA
1010742 TATTT-TAATAATAATAATAATTAA
1 TATTTATAATAATAATAATAA-T-A
1010766 TATTTATAATA
1 TATTTATAATA
1010777 TAGTTTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 15 0.48
23 5 0.16
24 6 0.19
25 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTTATAATAATAATAATAATA
Found at i:1011375 original size:23 final size:23
Alignment explanation
Indices: 1011349--1011394 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1011339 GTTTTACATC
1011349 AAGTTTTTCATTAAGTTTTCTTT
1 AAGTTTTTCATTAAGTTTTCTTT
* **
1011372 AAGTTTTTCTTTTGGTTTTCTTT
1 AAGTTTTTCATTAAGTTTTCTTT
1011395 CAATTATGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.11, T:0.65
Consensus pattern (23 bp):
AAGTTTTTCATTAAGTTTTCTTT
Found at i:1011379 original size:12 final size:12
Alignment explanation
Indices: 1011349--1011383 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1011339 GTTTTACATC
*
1011349 AAGTTTTTCATT
1 AAGTTTTTCTTT
1011361 AAG-TTTTCTTT
1 AAGTTTTTCTTT
1011372 AAGTTTTTCTTT
1 AAGTTTTTCTTT
1011384 TGGTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.63
Consensus pattern (12 bp):
AAGTTTTTCTTT
Found at i:1013863 original size:102 final size:102
Alignment explanation
Indices: 1013687--1013897 Score: 280
Period size: 102 Copynumber: 2.1 Consensus size: 102
1013677 CTTCAGACTC
** * *
1013687 AGAAAGACCAACCTAAAGGATTCAAAAGCGAAAAATCGAAGGAATTTGTCATAGATCTTCATTTT
1 AGAAAGACCAACCTAAAAAACTCAAAAGCGAAAAATCGAAGGAATTTGTCATAGATCCTCATTTT
**
1013752 CCCTCTAGATTCGCCAAGTCCAAGAAAGAAGTAGAAG
66 CCCTCTAGATTCGCCAAGTCCAAGAAAGAAACAGAAG
* * * * *
1013789 AGAAATACCAACCTAAAAAACTCAAAAGTGAAAAA-CTGAAGGAATTTTTCATATATCCTCCTTT
1 AGAAAGACCAACCTAAAAAACTCAAAAGCGAAAAATC-GAAGGAATTTGTCATAGATCCTCATTT
* * *
1013853 TCTCTCTAGATTCGCTAAGTCTAAGAAAGAAACAGAAG
65 TCCCTCTAGATTCGCCAAGTCCAAGAAAGAAACAGAAG
1013891 AGAAAGA
1 AGAAAGA
1013898 AATTCTTGAG
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
101 1 0.01
102 92 0.99
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (102 bp):
AGAAAGACCAACCTAAAAAACTCAAAAGCGAAAAATCGAAGGAATTTGTCATAGATCCTCATTTT
CCCTCTAGATTCGCCAAGTCCAAGAAAGAAACAGAAG
Found at i:1015145 original size:16 final size:16
Alignment explanation
Indices: 1015113--1015162 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
1015103 AGGCAACCCA
1015113 ATATTTTT-TTTCAATTT
1 ATATTTTTATTT--ATTT
1015130 ATATTTTTATTTATTT
1 ATATTTTTATTTATTT
*
1015146 ATATTTATATTTTATTT
1 ATATTTTTA-TTTATTT
1015163 TTCCTTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 12 0.40
17 15 0.50
18 3 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (16 bp):
ATATTTTTATTTATTT
Found at i:1016318 original size:34 final size:35
Alignment explanation
Indices: 1016280--1016348 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
1016270 TTTTAAGATT
1016280 TTGAAATCAAAAACCGACG-TTTTGAAAATTACTC
1 TTGAAATCAAAAACCGACGTTTTTGAAAATTACTC
1016314 TTGAAATCAAAAACCGACGTTTTTGAAAATTACTC
1 TTGAAATCAAAAACCGACGTTTTTGAAAATTACTC
1016349 CCCCTTACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 19 0.56
35 15 0.44
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (35 bp):
TTGAAATCAAAAACCGACGTTTTTGAAAATTACTC
Found at i:1031479 original size:19 final size:21
Alignment explanation
Indices: 1031434--1031490 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
1031424 ACCCCCATGA
1031434 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC-TT-AAG
1031457 GGGAACCGATTCCCCC-T-AG
1 GGGAACCGATTCCCCCTTAAG
* *
1031476 GGGAATCGATACCCC
1 GGGAACCGATTCCCC
1031491 TGGGGTTCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 15 0.47
21 1 0.03
23 16 0.50
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (21 bp):
GGGAACCGATTCCCCCTTAAG
Found at i:1035041 original size:13 final size:13
Alignment explanation
Indices: 1035025--1035067 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
1035015 AGAATAGTAG
1035025 TTGTTAATATTAA
1 TTGTTAATATTAA
*
1035038 TTGTTAATTTTAA
1 TTGTTAATATTAA
**
1035051 TTGTTAGCATTAA
1 TTGTTAATATTAA
1035064 TTGT
1 TTGT
1035068 GGTAGTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (13 bp):
TTGTTAATATTAA
Found at i:1035091 original size:13 final size:13
Alignment explanation
Indices: 1035033--1035092 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
1035023 AGTTGTTAAT
**
1035033 ATTAATTGTTAAT
1 ATTAATTGTTAGC
*
1035046 TTTAATTGTTAGC
1 ATTAATTGTTAGC
* *
1035059 ATTAATTG-TGGT
1 ATTAATTGTTAGC
*
1035071 AGTAATTGTTAGC
1 ATTAATTGTTAGC
1035084 ATTAATTGT
1 ATTAATTGT
1035093 GTCAGTAATG
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
12 9 0.25
13 27 0.75
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (13 bp):
ATTAATTGTTAGC
Found at i:1035125 original size:50 final size:50
Alignment explanation
Indices: 1035048--1035170 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
1035038 TTGTTAATTT
* * * * *
1035048 TAATTGTTAGCATTAATTGTGGTAGTAATT-GTTAGCATTAATTGTGTCAG
1 TAATGGTTAACATTAATTGTGTTAGTAATTAG-TAACATTAATTGTGTCAA
* *
1035098 TAATGGTTAACATTAATTGTGTTAGTAATTAGTAATATTAATTGTGTTAA
1 TAATGGTTAACATTAATTGTGTTAGTAATTAGTAACATTAATTGTGTCAA
* *
1035148 TAATGGTTAATATTAATTATGTT
1 TAATGGTTAACATTAATTGTGTT
1035171 TTAATAATCA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 62 0.98
51 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (50 bp):
TAATGGTTAACATTAATTGTGTTAGTAATTAGTAACATTAATTGTGTCAA
Found at i:1035137 original size:25 final size:25
Alignment explanation
Indices: 1035048--1035170 Score: 131
Period size: 25 Copynumber: 4.9 Consensus size: 25
1035038 TTGTTAATTT
* * *
1035048 TAATTGTTAGCATTAATTGTGGTAG
1 TAATGGTTAACATTAATTGTGTTAG
* * *
1035073 TAATTGTTAGCATTAATTGTGTCAG
1 TAATGGTTAACATTAATTGTGTTAG
1035098 TAATGGTTAACATTAATTGTGTTAG
1 TAATGGTTAACATTAATTGTGTTAG
* * *
1035123 TAATTAG-TAATATTAATTGTGTTAA
1 TAA-TGGTTAACATTAATTGTGTTAG
* *
1035148 TAATGGTTAATATTAATTATGTT
1 TAATGGTTAACATTAATTGTGTT
1035171 TTAATAATCA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
24 2 0.02
25 82 0.95
26 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (25 bp):
TAATGGTTAACATTAATTGTGTTAG
Found at i:1035300 original size:15 final size:15
Alignment explanation
Indices: 1035267--1035300 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1035257 TGTGTTTAGT
* *
1035267 TGTTAATATTGATTG
1 TGTTAATATTAATTA
1035282 TGTTAATATTAATTA
1 TGTTAATATTAATTA
1035297 TGTT
1 TGTT
1035301 GAATTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (15 bp):
TGTTAATATTAATTA
Found at i:1036346 original size:36 final size:36
Alignment explanation
Indices: 1036301--1036371 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
1036291 AGATGTTCAA
1036301 TTTTTCTTTATTTATCGTTTAATTCTTTTACGTTAT
1 TTTTTCTTTATTTATCGTTTAATTCTTTTACGTTAT
*
1036337 TTTTTCTTTATTTATCGTTTATTTCTTTTACGTTA
1 TTTTTCTTTATTTATCGTTTAATTCTTTTACGTTA
1036372 CCTATTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.15, C:0.11, G:0.06, T:0.68
Consensus pattern (36 bp):
TTTTTCTTTATTTATCGTTTAATTCTTTTACGTTAT
Found at i:1036971 original size:44 final size:41
Alignment explanation
Indices: 1036894--1036975 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 41
1036884 GCAATGCGAT
* * *
1036894 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGAAAG
1 TTTGAAAAATGTGTTGCGATAATGAAAAAGTGTTGCGAAAG
1036935 TTTGAAAAACGTGTTGTTGCGATAATGAAAAAGTGTTGCGA
1 TTTGAAAAA--TG-TGTTGCGATAATGAAAAAGTGTTGCGA
1036976 TAGTGAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.26
43 2 0.06
44 24 0.69
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAATGAAAAAGTGTTGCGAAAG
Found at i:1036985 original size:19 final size:20
Alignment explanation
Indices: 1036896--1036986 Score: 96
Period size: 19 Copynumber: 4.4 Consensus size: 20
1036886 AATGCGATTT
1036896 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
* *
1036916 T-TAAAATGTGTTGCGAAAG
1 TGAAAAATGTGTTGCGATAG
*
1036935 TTTGAAAAACGTGTTGTTGCGATAA
1 --TGAAAAA--TG-TGTTGCGATAG
1036960 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
1036979 TGAAAAAT
1 TGAAAAAT
1036987 CCAAAATAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
19 33 0.57
20 2 0.03
21 1 0.02
22 4 0.07
23 7 0.12
24 2 0.03
25 9 0.16
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.31
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:1037693 original size:16 final size:17
Alignment explanation
Indices: 1037663--1037695 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1037653 TTTTCTAAAC
1037663 TAAAATTATAATTATTT
1 TAAAATTATAATTATTT
1037680 TAAAATTA-AATTATTT
1 TAAAATTATAATTATTT
1037696 ATCGTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAAAATTATAATTATTT
Found at i:1038095 original size:15 final size:15
Alignment explanation
Indices: 1038070--1038112 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1038060 ATATTACTTA
1038070 TTTTA-TAAAAATAT
1 TTTTATTAAAAATAT
1038084 TTTTATTAAAAATAT
1 TTTTATTAAAAATAT
* *
1038099 TTTTTTTCAAAATA
1 TTTTATTAAAAATA
1038113 ATAATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTATTAAAAATAT
Found at i:1045279 original size:35 final size:36
Alignment explanation
Indices: 1045233--1045304 Score: 128
Period size: 35 Copynumber: 2.0 Consensus size: 36
1045223 CACAGTCATT
1045233 AATTATATTCTAAACCCCAAATTCC-AAAATACTTC
1 AATTATATTCTAAACCCCAAATTCCAAAAATACTTC
*
1045268 AATTATATTCTAAACCTCAAATTCCAAAAATACTTC
1 AATTATATTCTAAACCCCAAATTCCAAAAATACTTC
1045304 A
1 A
1045305 GTTACATGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 24 0.69
36 11 0.31
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (36 bp):
AATTATATTCTAAACCCCAAATTCCAAAAATACTTC
Found at i:1045325 original size:36 final size:35
Alignment explanation
Indices: 1045233--1045327 Score: 102
Period size: 36 Copynumber: 2.7 Consensus size: 35
1045223 CACAGTCATT
* *
1045233 AATTATATTCTAAACCCCAAATTCCAAAATACTTC
1 AATTACATACTAAACCCCAAATTCCAAAATACTTC
* * *
1045268 AATTATATTCTAAACCTCAAATTCCAAAAATACTTC
1 AATTACATACTAAACCCCAAATTCC-AAAATACTTC
* *
1045304 AGTTACATGAC-CAACCCCAAATTC
1 AATTACAT-ACTAAACCCCAAATTC
1045328 ATAATTCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
35 24 0.46
36 27 0.52
37 1 0.02
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.29
Consensus pattern (35 bp):
AATTACATACTAAACCCCAAATTCCAAAATACTTC
Found at i:1046296 original size:36 final size:36
Alignment explanation
Indices: 1046256--1046324 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
1046246 AATGTATTGT
* * *
1046256 GAATTTGGGGTTGAGCATGTAATTGAAGTATTTTTG
1 GAATTTGAGGTTGAGAATGTAATTGAAGCATTTTTG
*
1046292 GAATTTGAGGTTTAGAATGTAATTGAAGCATTT
1 GAATTTGAGGTTGAGAATGTAATTGAAGCATTT
1046325 GAATTTTAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.28, T:0.41
Consensus pattern (36 bp):
GAATTTGAGGTTGAGAATGTAATTGAAGCATTTTTG
Found at i:1046343 original size:34 final size:35
Alignment explanation
Indices: 1046255--1046344 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 35
1046245 GAATGTATTG
* * * *
1046255 TGAA-TTTGGGGTTGAGCATGTAATTGAAGTATTTT
1 TGAATTTTAGGGTTTAGAATGTAATTGAAGCA-TTT
*
1046290 TGGAATTTGA-GGTTTAGAATGTAATTGAAGCA-TT
1 T-GAATTTTAGGGTTTAGAATGTAATTGAAGCATTT
1046324 TGAATTTTAGGGTTTAGAATG
1 TGAATTTTAGGGTTTAGAATG
1046345 ATTATGTTGC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
33 7 0.15
34 14 0.30
35 1 0.02
36 22 0.48
37 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.28, T:0.41
Consensus pattern (35 bp):
TGAATTTTAGGGTTTAGAATGTAATTGAAGCATTT
Found at i:1065637 original size:25 final size:26
Alignment explanation
Indices: 1065609--1065661 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
1065599 CCGTCCTTGC
1065609 CTGTATCTCACGTTCCTTTTG-TTCT
1 CTGTATCTCACGTTCCTTTTGTTTCT
* *
1065634 CTGTATCTCATGTTCTTTTTGTTTCT
1 CTGTATCTCACGTTCCTTTTGTTTCT
1065660 CT
1 CT
1065662 ATACCATCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.08, C:0.25, G:0.11, T:0.57
Consensus pattern (26 bp):
CTGTATCTCACGTTCCTTTTGTTTCT
Found at i:1068216 original size:51 final size:51
Alignment explanation
Indices: 1068149--1068392 Score: 259
Period size: 51 Copynumber: 4.8 Consensus size: 51
1068139 TTCATACAAC
* * * *
1068149 AAAAAA-TGTATAACTTAACATATACTTACACTGATGTAAGTGAATAAAAT
1 AAAAAAGTGTATCACTTAACACATACTTACACAGATGTAAGTAAATAAAAT
* * *
1068199 AAAAAAGTGCATCACTTAACACATATTTACACAGGTGTAAGTAAATAAAAT
1 AAAAAAGTGTATCACTTAACACATACTTACACAGATGTAAGTAAATAAAAT
* * *
1068250 AAAAAGGTGTAGT-ACTTAACACATACTTACACAGGTGTAAGTGAAT--AA-
1 AAAAAAGTGTA-TCACTTAACACATACTTACACAGATGTAAGTAAATAAAAT
* *
1068298 AAAAAAGTGTAGCACTTAACACATACTTACACCA-ATGTAAATAAATAAAATT
1 AAAAAAGTGTATCACTTAACACATACTTACA-CAGATGTAAGTAAATAAAA-T
* * * *
1068350 AAAAAAATGTAGCACTTAATACATATTTACACCAG-TGTAAGTA
1 AAAAAAGTGTATCACTTAACACATACTTACA-CAGATGTAAGTA
1068393 TGTACATATA
Statistics
Matches: 165, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
48 37 0.22
49 4 0.02
50 8 0.05
51 77 0.47
52 39 0.24
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (51 bp):
AAAAAAGTGTATCACTTAACACATACTTACACAGATGTAAGTAAATAAAAT
Found at i:1068296 original size:102 final size:100
Alignment explanation
Indices: 1068149--1068391 Score: 285
Period size: 99 Copynumber: 2.4 Consensus size: 100
1068139 TTCATACAAC
** * * * *
1068149 AAAAAATGTATAACTTAACATATACTTACACTGATGTAAGTGAATAAAATAAAAAAGTGCATCAC
1 AAAAAATGTAGCACTTAACACATACTTACACAGGTGTAAGTGAAT--AA-AAAAAAGTGCAGCAC
* * *
1068214 TTAACACATATTTACA-CAGGTGTAAGTAAATAAAA-TA
63 TTAACACATACTTACACCA-ATGTAAATAAATAAAATTA
** * *
1068251 AAAAGGTGTAGTACTTAACACATACTTACACAGGTGTAAGTGAATAAAAAAAAGTGTAGCACTTA
1 AAAAAATGTAGCACTTAACACATACTTACACAGGTGTAAGTGAATAAAAAAAAGTGCAGCACTTA
1068316 ACACATACTTACACCAATGTAAATAAATAAAATTA
66 ACACATACTTACACCAATGTAAATAAATAAAATTA
* *
1068351 AAAAAATGTAGCACTTAATACATATTTACACCA-GTGTAAGT
1 AAAAAATGTAGCACTTAACACATACTTACA-CAGGTGTAAGT
1068392 ATGTACATAT
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
99 42 0.35
100 39 0.32
101 2 0.02
102 38 0.31
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (100 bp):
AAAAAATGTAGCACTTAACACATACTTACACAGGTGTAAGTGAATAAAAAAAAGTGCAGCACTTA
ACACATACTTACACCAATGTAAATAAATAAAATTA
Found at i:1068904 original size:29 final size:30
Alignment explanation
Indices: 1068834--1068893 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
1068824 CAATTTAAGG
*
1068834 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTAAATTTA
1068865 CAAAATGTTTTTGGACTT-AATTAAATTTA
1 CAAAATGTTTTTGGACTTGAATTAAATTTA
1068894 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 12 0.43
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTAAATTTA
Found at i:1069001 original size:21 final size:20
Alignment explanation
Indices: 1068975--1069071 Score: 124
Period size: 21 Copynumber: 4.7 Consensus size: 20
1068965 GGTGTCAAAA
1068975 TGCATCCATGCACCCTTGCAG
1 TGCATCCATGCACCC-TGCAG
1068996 TGCATCCATGCATCCCTGCAG
1 TGCATCCATGCA-CCCTGCAG
1069017 TGCATCCATGCA-CCTGCACTAG
1 TGCATCCATGCACCCTG--C-AG
* *
1069039 TGCATCGATGCACCATGCAG
1 TGCATCCATGCACCCTGCAG
1069059 TGCATCCATGCAC
1 TGCATCCATGCAC
1069072 TCAAACACCG
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.06
20 14 0.21
21 31 0.46
22 16 0.24
23 3 0.04
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.23
Consensus pattern (20 bp):
TGCATCCATGCACCCTGCAG
Found at i:1069007 original size:13 final size:14
Alignment explanation
Indices: 1069004--1069071 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 14
1068994 AGTGCATCCA
*
1069004 TGCATCCCTGCA-G
1 TGCATCCATGCACG
*
1069017 TGCATCCATGCACC
1 TGCATCCATGCACG
*
1069031 TGCA-CTAGTGCATCG
1 TGCATCCA-TGCA-CG
1069046 ATGCA-CCATGCA-G
1 -TGCATCCATGCACG
1069059 TGCATCCATGCAC
1 TGCATCCATGCAC
1069072 TCAAACACCG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
12 4 0.09
13 21 0.48
14 8 0.18
15 5 0.11
16 6 0.14
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (14 bp):
TGCATCCATGCACG
Found at i:1069062 original size:20 final size:20
Alignment explanation
Indices: 1068975--1069225 Score: 146
Period size: 20 Copynumber: 12.6 Consensus size: 20
1068965 GGTGTCAAAA
* *
1068975 TGCATCCATGCACCCTTGCAG
1 TGCATCGATGCATCC-TGCAG
*
1068996 TGCATCCATGCATCCCTGCAG
1 TGCATCGATGCAT-CCTGCAG
*
1069017 TGCATCCATGCA-CCTGCACTAG
1 TGCATCGATGCATCCTG--C-AG
1069039 TGCATCGATGCA-CCATGCAG
1 TGCATCGATGCATCC-TGCAG
*
1069059 TGCATCCATGCA--CT-CA-
1 TGCATCGATGCATCCTGCAG
** *
1069075 AACACCGAATGCAAT--T--AG
1 TGCATCG-ATGC-ATCCTGCAG
* *
1069093 TGCATCGATGCATCCTTCTG
1 TGCATCGATGCATCCTGCAG
* *
1069113 TGCATCGATGCATCCTTCTG
1 TGCATCGATGCATCCTGCAG
* * *
1069133 TGCATCGATGCATCATTCTG
1 TGCATCGATGCATCCTGCAG
* *
1069153 TGCATCGATGCATCCTTCTG
1 TGCATCGATGCATCCTGCAG
** *
1069173 TGCATCGATGCATCAAGGCTG
1 TGCATCGATGCATC-CTGCAG
1069194 TGCATCGATGCATCCTGCTA-
1 TGCATCGATGCATCCTGC-AG
*
1069214 TGCATCCATGCA
1 TGCATCGATGCA
1069226 CGAAGGCTGC
Statistics
Matches: 195, Mismatches: 20, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
16 5 0.03
17 11 0.06
18 8 0.04
19 5 0.03
20 99 0.51
21 48 0.25
22 17 0.09
23 2 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (20 bp):
TGCATCGATGCATCCTGCAG
Found at i:1069138 original size:40 final size:40
Alignment explanation
Indices: 1069092--1069225 Score: 205
Period size: 40 Copynumber: 3.3 Consensus size: 40
1069082 AATGCAATTA
*
1069092 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCATTCTGTGCATCGATGCATCCTTCT
1069132 GTGCATCGATGCATCATTCTGTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCATTCTGTGCATCGATGCATCCTTCT
** *
1069172 GTGCATCGATGCATCAAGGCTGTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATC-ATTCTGTGCATCGATGCATCCTTCT
* *
1069213 ATGCATCCATGCA
1 GTGCATCGATGCA
1069226 CGAAGGCTGC
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 54 0.62
41 33 0.38
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (40 bp):
GTGCATCGATGCATCATTCTGTGCATCGATGCATCCTTCT
Found at i:1070512 original size:19 final size:20
Alignment explanation
Indices: 1070488--1070535 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1070478 AACGATTTTC
*
1070488 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
1070507 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1070527 TTTTGAAAA
1 TTTTGAAAA
1070536 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:1071831 original size:29 final size:30
Alignment explanation
Indices: 1071761--1071820 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1071751 CAATTTAAGG
*
1071761 CAAAATGGTTTTTGGAATTGAATTGAATTTA
1 CAAAAT-GTTTTTGGAATTGAATTAAATTTA
*
1071792 CAAAATGTTTTTGGACTT-AATTAAATTTA
1 CAAAATGTTTTTGGAATTGAATTAAATTTA
1071821 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGAATTGAATTAAATTTA
Found at i:1071934 original size:21 final size:21
Alignment explanation
Indices: 1071904--1071957 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
1071894 TGTCAAAGTG
1071904 CATCCATGCACCCCTGCAGTA
1 CATCCATGCACCCCTGCAGTA
* *
1071925 CATTCATGCATCCCTGCAGTA
1 CATCCATGCACCCCTGCAGTA
1071946 CATCCATGCACC
1 CATCCATGCACC
1071958 TGCACTAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.41, G:0.13, T:0.22
Consensus pattern (21 bp):
CATCCATGCACCCCTGCAGTA
Found at i:1072044 original size:20 final size:19
Alignment explanation
Indices: 1072019--1072086 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 19
1072009 AATGCAATTA
1072019 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTT-T
**
1072039 GTGCATCGATGCATCAAGGTT
1 GTGCATCGATGCATC--CTTT
1072060 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCT-TT
1072080 GTGCATC
1 GTGCATC
1072087 CATGTACGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 24 0.59
21 16 0.39
22 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (19 bp):
GTGCATCGATGCATCCTTT
Found at i:1072233 original size:20 final size:22
Alignment explanation
Indices: 1072195--1072234 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1072185 TTTGAGTAGA
1072195 AAAATCATCCCCAAACGACTCC
1 AAAATCATCCCCAAACGACTCC
1072217 AAAA-CATCCCC-AACGACT
1 AAAATCATCCCCAAACGACT
1072235 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.42, C:0.40, G:0.05, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGACTCC
Found at i:1073290 original size:64 final size:64
Alignment explanation
Indices: 1073222--1073442 Score: 261
Period size: 64 Copynumber: 3.5 Consensus size: 64
1073212 TTGAAGGTGT
** **
1073222 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTATG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTTATG
1073285 C
64 C
**
1073286 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAA-TTACTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTA-TGC
* * * * *
1073350 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTATGC
1 ATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTATGC
* *
1073414 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
1073443 ACCTTCATTA
Statistics
Matches: 135, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
63 5 0.04
64 120 0.89
65 10 0.07
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTATGC
Found at i:1074378 original size:103 final size:103
Alignment explanation
Indices: 1074194--1074411 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
1074184 GTTGAGGGTC
*
1074194 TATGTGGTCCTTCAAGATATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAAGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
* *
1074259 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
** *
1074297 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAAGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
*
1074362 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1074400 TATGTGGTCCTT
1 TATGTGGTCCTT
1074412 ATGGTAATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAAGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1074454 original size:23 final size:23
Alignment explanation
Indices: 1074428--1074490 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1074418 ATTATTATAT
1074428 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1074451 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
1074474 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
1074491 ATATGAGCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1079285 original size:64 final size:64
Alignment explanation
Indices: 1079216--1079424 Score: 253
Period size: 64 Copynumber: 3.3 Consensus size: 64
1079206 CGATACATTG
**
1079216 GTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTGTGCATCGATGCATA
1 GTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTTGTGCATCGATGCATA
1079279 A
64 A
** *
1079280 GTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGCATCGATGCATAA
1 GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGCATCGATGCATAA
* * * * * * * *
1079344 GGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTATGCACCGATGCATCA
1 -GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGCATCGATGCATAA
1079408 GTAGTGCATCGATGCAT
1 GTAGTGCATCGATGCAT
1079425 ACCTTCATTA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
63 2 0.02
64 115 0.93
65 7 0.06
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGCATCGATGCATAA
Found at i:1080305 original size:103 final size:103
Alignment explanation
Indices: 1080176--1080401 Score: 382
Period size: 103 Copynumber: 2.2 Consensus size: 103
1080166 GTCGAGGGTC
*
1080176 TATGTGGTCCTTCAGGATATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
* *
1080241 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
1080279 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
*
1080344 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1080382 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
1080402 TATTATATGG
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
103 115 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1080443 original size:23 final size:23
Alignment explanation
Indices: 1080410--1080472 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1080400 ATTATTATAT
1080410 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1080433 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
1080456 GGCACTTCGGTGTAATT
1 GGCACTACGGTGCAATT
1080473 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1081449 original size:32 final size:34
Alignment explanation
Indices: 1081382--1081449 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
1081372 GGGTGTTACA
* * *
1081382 GAAATGTTCTAGCTTATCCCGTGTAAAAGCTAGG
1 GAAAGGTTCTAGCTTAGCCCGTGTAAAAACTAGG
*
1081416 GAAAGGTTCTAGTTTAGCCCG-G-AAAAACTAGG
1 GAAAGGTTCTAGCTTAGCCCGTGTAAAAACTAGG
1081448 GA
1 GA
1081450 GTTGTAAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 11 0.37
33 1 0.03
34 18 0.60
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (34 bp):
GAAAGGTTCTAGCTTAGCCCGTGTAAAAACTAGG
Found at i:1082350 original size:68 final size:68
Alignment explanation
Indices: 1082236--1082363 Score: 202
Period size: 68 Copynumber: 1.9 Consensus size: 68
1082226 ATGGGGTTTG
*
1082236 CAACCATTATTAACATATCAGTACTAATACTTCACCGCATAGTATCAGTACTTGCCTCATCAAGA
1 CAACCATTATTAACATATCAGTACTAATACTTCACCGCATAGTATCAATACTTGCCTCATCAAGA
1082301 TTA
66 TTA
* * * * *
1082304 CAACTATTATTATCATGTCAGTGCTAATACTTCACCGTATAGTATCAATACTTGCCTCAT
1 CAACCATTATTAACATATCAGTACTAATACTTCACCGCATAGTATCAATACTTGCCTCAT
1082364 TGTGGTACCA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 54 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (68 bp):
CAACCATTATTAACATATCAGTACTAATACTTCACCGCATAGTATCAATACTTGCCTCATCAAGA
TTA
Found at i:1089031 original size:16 final size:17
Alignment explanation
Indices: 1089002--1089040 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
1088992 TATCGCCGAC
1089002 AAAATTTCACTATTCAT
1 AAAATTTCACTATTCAT
1089019 AAAATTT-ACTATTCAT
1 AAAATTTCACTATTCAT
1089035 ATAAAT
1 A-AAAT
1089041 AGTAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTTCACTATTCAT
Found at i:1105930 original size:18 final size:18
Alignment explanation
Indices: 1105907--1105942 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1105897 GCAACGGCGC
1105907 CAATTTGACAACTGTCGT
1 CAATTTGACAACTGTCGT
1105925 CAATTTGACAACTGTCGT
1 CAATTTGACAACTGTCGT
1105943 TTCGATGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (18 bp):
CAATTTGACAACTGTCGT
Found at i:1114587 original size:22 final size:23
Alignment explanation
Indices: 1114544--1114589 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
1114534 TTTTAAGAAA
1114544 AATTAAATACATGTCAGTTTAATT
1 AATTAAATACATG-CAGTTTAATT
*
1114568 AATTAAATATATG-AGTTTAATT
1 AATTAAATACATGCAGTTTAATT
1114590 GAGTTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
24 12 0.57
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
AATTAAATACATGCAGTTTAATT
Found at i:1130402 original size:23 final size:22
Alignment explanation
Indices: 1130353--1130402 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
1130343 TATTAAAATT
1130353 TTTAAAATTTATATAAATTAAA
1 TTTAAAATTTATATAAATTAAA
* * * *
1130375 ATTAAATATTTTTTTAAATTACA
1 TTTAAA-ATTTATATAAATTAAA
1130398 TTTAA
1 TTTAA
1130403 GGAAAAAGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAAATTTATATAAATTAAA
Found at i:1130451 original size:58 final size:56
Alignment explanation
Indices: 1130383--1130574 Score: 188
Period size: 58 Copynumber: 3.3 Consensus size: 56
1130373 AAATTAAATA
* * **
1130383 TTTTTTTAAATTACATTTAAGGAAAAAGATTTTTATAAATTACAATAATGGACAATTC
1 TTTTTATAAATTACA-ATAA-GAAAAATCTTTTTATAAATTACAATAATGGACAATTC
* * * * *
1130441 TTTTTATAAATTATAATAGAAGATAAATCTTCTTATAAATTACAATAAAGGACAAATC
1 TTTTTATAAATTACAAT--AAGAAAAATCTTTTTATAAATTACAATAATGGACAATTC
* * * * *
1130499 TTTTTATAATTTAAAATAAAAACAAATCTTTTTATAAATTACAATACT-GACATATAC
1 TTTTTATAAATTACAATAAGAA-AAATCTTTTTATAAATTACAATAATGGACA-ATTC
*
1130556 TTTTTACAAATTACAATAA
1 TTTTTATAAATTACAATAA
1130575 CAACTCATAT
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
56 7 0.06
57 41 0.38
58 59 0.54
59 2 0.02
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (56 bp):
TTTTTATAAATTACAATAAGAAAAATCTTTTTATAAATTACAATAATGGACAATTC
Found at i:1130524 original size:28 final size:28
Alignment explanation
Indices: 1130412--1130574 Score: 182
Period size: 29 Copynumber: 5.7 Consensus size: 28
1130402 AGGAAAAAGA
* *
1130412 TTTTTATAAATTACAATAATGGACAATTC
1 TTTTTATAAATTACAATAA-AGACAAATC
* *
1130441 TTTTTATAAATTATAATAGAAGATAAATC
1 TTTTTATAAATTACAATA-AAGACAAATC
*
1130470 TTCTTATAAATTACAATAAAGGACAAATC
1 TTTTTATAAATTACAATAAA-GACAAATC
* * *
1130499 TTTTTATAATTTAAAATAAAAACAAATC
1 TTTTTATAAATTACAATAAAGACAAATC
** *
1130527 TTTTTATAAATTACAATACTGACATATAC
1 TTTTTATAAATTACAATAAAGACAAAT-C
*
1130556 TTTTTACAAATTACAATAA
1 TTTTTATAAATTACAATAA
1130575 CAACTCATAT
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
28 30 0.27
29 81 0.72
30 1 0.01
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (28 bp):
TTTTTATAAATTACAATAAAGACAAATC
Found at i:1130588 original size:57 final size:53
Alignment explanation
Indices: 1130411--1130589 Score: 144
Period size: 57 Copynumber: 3.1 Consensus size: 53
1130401 AAGGAAAAAG
* *
1130411 ATTTTTATAAATTACAATAATGGACAATTCTTTTTATAAATTATAATAGAAGA-TAA
1 ATTTTTATAAATTACAATAAT-GACAA-TCTTTTTATAAATTAAAATA-AA-ACTAT
* * *
1130467 ATCTTCTTATAAATTACAATAAAGGACAAATCTTTTTATAATTTAAAATAAAAACAAAT
1 AT-TT-TTATAAATTACAAT-AATGAC-AATCTTTTTATAAATTAAAAT-AAAAC-TAT
* * * *
1130526 CTTTTTATAAATTACAATACTGACATATACTTTTTACAAATTACAATAACAACTCAT
1 ATTTTTATAAATTACAATAATGACA-AT-CTTTTTATAAATTAAAATAA-AACT-AT
1130583 ATTTTTA
1 ATTTTTA
1130590 CATATAACAA
Statistics
Matches: 99, Mismatches: 13, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
55 1 0.01
56 10 0.10
57 43 0.43
58 38 0.38
59 7 0.07
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.40
Consensus pattern (53 bp):
ATTTTTATAAATTACAATAATGACAATCTTTTTATAAATTAAAATAAAACTAT
Found at i:1130599 original size:28 final size:28
Alignment explanation
Indices: 1130551--1130620 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
1130541 AATACTGACA
*
1130551 TATACTTTTTACAAATTACAATAACAA-C
1 TATA-TTTTTACAAATAACAATAACAACC
*
1130579 TCATATTTTTACATATAACAATAACAACC
1 T-ATATTTTTACAAATAACAATAACAACC
1130608 TATATTTTTACAA
1 TATATTTTTACAA
1130621 TCACTACATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 32 0.86
29 5 0.14
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (28 bp):
TATATTTTTACAAATAACAATAACAACC
Found at i:1131500 original size:25 final size:25
Alignment explanation
Indices: 1131472--1131536 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
1131462 ACAATTTATC
*
1131472 AAATATAATATTTTTTATTGTAAAA
1 AAATATAATATTTTCTATTGTAAAA
1131497 AAATATAATATTTTCTATTGTAAAA
1 AAATATAATATTTTCTATTGTAAAA
1131522 AAATATAATATTTTC
1 AAATATAATATTTTC
1131537 CCATCATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (25 bp):
AAATATAATATTTTCTATTGTAAAA
Found at i:1131978 original size:130 final size:130
Alignment explanation
Indices: 1131774--1132021 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
1131764 AATTTTATTC
* *
1131774 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
1131839 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
1131904 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
1131969 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
1132022 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:1132468 original size:35 final size:35
Alignment explanation
Indices: 1132418--1132493 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
1132408 AATTGAATTT
* *
1132418 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
1132453 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
1132488 AATTGA
1 AATTGA
1132494 GGTCTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:1137508 original size:41 final size:41
Alignment explanation
Indices: 1137454--1137978 Score: 468
Period size: 41 Copynumber: 12.6 Consensus size: 41
1137444 GGTTCATCGA
* *
1137454 TAGTGGCGTTTTT-TCAACAAACGCCGCAAAAGAGTAGTACTT
1 TAGTGGCGTTTTTAT--ACAAACGCCGCTAAAGACTAGTACTT
*
1137496 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCA-TAATT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACT-AGTACTT
* * * * * *
1137537 TAGCGGCATTGTTATACAAACGCCGCTATAGAATTGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTT
* * * *
1137578 TAGTGGCGTTTTTATACAAACGCCGTTATACAC-ATGTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTA-GTACTT
* *
1137619 TAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCA-TAATT
1 TAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACT-AGTACTT
*
1137662 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCA-TTCTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACT-AGTACTT
* **
1137703 TAGTGGCGTTTTTATACAAACTCCGCTAAAGACGCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTT
* * * * * * * * *
1137744 TAGTGACATTTTTATTCAAACGTCGTTATACACTTGTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTT
* * * *
1137785 TAGTGGCGTTTGTGTTTACAAACGTCACTAAAGACTCA-TAATT
1 TAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACT-AGTACTT
* * *
1137828 TAGTGGCATTTTTATACAAACGCCACTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTT
* *** *
1137869 TATTGATATTTTTATACAAACGCCGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTT
* * * * * *
1137910 TAGTGGCGTTTTTATTCAAATGCCGCTATACACTTGTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTT
*
1137951 TAGTGGCGTTTGTGTTTACAAACGCCGC
1 TAGTGGCGTTT-T-TATACAAACGCCGC
1137979 AAGTTTACAA
Statistics
Matches: 393, Mismatches: 75, Indels: 29
0.79 0.15 0.06
Matches are distributed among these distances:
41 301 0.77
42 19 0.05
43 72 0.18
45 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (41 bp):
TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTT
Found at i:1137674 original size:166 final size:166
Alignment explanation
Indices: 1137453--1137978 Score: 752
Period size: 166 Copynumber: 3.2 Consensus size: 166
1137443 AGGTTCATCG
* * * *
1137453 ATAGTGGCGTTT-T-TTCAACAAACGCCGCAAAAGAGT-AGTACTTTAGTGGCGTTTTTATACAA
1 ATAGTGGCGTTTGTGTT-TACAAACGCCGCTAAAGACTCA-TAATTTAGTGGCGTTTTTATACAA
* * * * * *
1137515 ACGCCGCTAAAGACTCATAATTTAGCGGCATTGTTATACAAACGCCGCTATAGAATTGTACTTTA
64 ACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
* *
1137580 GTGGCGTTTTTATACAAACGCCGTTATACACATGTACT
129 GTGGCGTTTTTATTCAAACGCCGTTATACACTTGTACT
1137618 ATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAAAC
1 ATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAAAC
* * * *
1137683 GCCGCTAAAGACTCATTCTTTAGTGGCGTTTTTATACAAACTCCGCTAAAGACGCGTACTTTAGT
66 GCCGCTAAAGACTCATACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* * *
1137748 GACATTTTTATTCAAACGTCGTTATACACTTGTACT
131 GGCGTTTTTATTCAAACGCCGTTATACACTTGTACT
* * *
1137784 ATAGTGGCGTTTGTGTTTACAAACGTCACTAAAGACTCATAATTTAGTGGCATTTTTATACAAAC
1 ATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAAAC
* * * **
1137849 GCCACTAAAGACTCGTACTTTATTGATATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
66 GCCGCTAAAGACTCATACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* *
1137914 GGCGTTTTTATTCAAATGCCGCTATACACTTGTACT
131 GGCGTTTTTATTCAAACGCCGTTATACACTTGTACT
1137950 ATAGTGGCGTTTGTGTTTACAAACGCCGC
1 ATAGTGGCGTTTGTGTTTACAAACGCCGC
1137979 AAGTTTACAA
Statistics
Matches: 320, Mismatches: 38, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
165 12 0.04
166 305 0.95
167 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (166 bp):
ATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAAAC
GCCGCTAAAGACTCATACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
GGCGTTTTTATTCAAACGCCGTTATACACTTGTACT
Done.