Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_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: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 28
Found at i:879140 original size:53 final size:53
Alignment explanation
Indices: 879060--879227 Score: 309
Period size: 53 Copynumber: 3.2 Consensus size: 53
879050 GCTCGTTAAC
*
879060 AACTCGAATTAAATGTATTTGAATTGAGTGATGATCGAATTTTTACTGAATTA
1 AACTCGAATTAAATGTATTTGAATTGAGTGATGATCGAACTTTTACTGAATTA
*
879113 AACTCGAATTAAATGTATTTTAATTGAGTGATGATCGAACTTTTACTGAATTA
1 AACTCGAATTAAATGTATTTGAATTGAGTGATGATCGAACTTTTACTGAATTA
879166 AACTCGAATTAAATGTATTTGAATTGAGTGATGATCGAACTTTTACTGAATTA
1 AACTCGAATTAAATGTATTTGAATTGAGTGATGATCGAACTTTTACTGAATTA
*
879219 AACTTGAAT
1 AACTCGAAT
879228 AATTTATAAT
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 111 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (53 bp):
AACTCGAATTAAATGTATTTGAATTGAGTGATGATCGAACTTTTACTGAATTA
Found at i:879997 original size:2 final size:2
Alignment explanation
Indices: 879957--879989 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
879947 ATATTTTAAT
879957 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 T
879990 TTTATATAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:884636 original size:22 final size:22
Alignment explanation
Indices: 884610--884700 Score: 110
Period size: 22 Copynumber: 4.0 Consensus size: 22
884600 TAATAAATTA
*
884610 TTTAAAATAAATCAATCCGTAT
1 TTTAAAATAAATCAATCCATAT
*
884632 TTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCAT---AT
**
884657 TACAATAATAAATCAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
884680 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
884701 CAAATAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
22 35 0.60
23 4 0.07
25 4 0.07
26 15 0.26
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:884643 original size:26 final size:25
Alignment explanation
Indices: 884614--884696 Score: 64
Period size: 26 Copynumber: 3.4 Consensus size: 25
884604 AAATTATTTA
884614 AAATAAATCAATCCGTATTTTAAAAT
1 AAATAAATCAATCC-TATTTTAAAAT
* * * ** *
884640 AAATCAATCCATAC-A-ACTACAAT
1 AAATAAATCAATCCTATTTTAAAAT
884663 -AATAAATCAATCCATATTTTAAAAT
1 AAATAAATCAATCC-TATTTTAAAAT
*
884688 AAATCAATC
1 AAATAAATC
884697 CATACAAATA
Statistics
Matches: 40, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
22 10 0.25
23 5 0.12
24 2 0.05
25 5 0.12
26 18 0.45
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (25 bp):
AAATAAATCAATCCTATTTTAAAAT
Found at i:884709 original size:22 final size:22
Alignment explanation
Indices: 884636--884709 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
884626 CCGTATTTTA
*
884636 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
884661 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
884683 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
884706 AAAT
1 AAAT
884710 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:884719 original size:32 final size:32
Alignment explanation
Indices: 884680--885179 Score: 461
Period size: 32 Copynumber: 17.2 Consensus size: 32
884670 CAATCCATAT
*
884680 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
884712 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
884744 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
884776 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
884798 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
884830 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
884860 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
884878 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
884910 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
884942 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
884964 TTTAAAATAAATCAATCCATACTAAGAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
884996 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
885026 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
885044 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
885076 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
885108 TTTAAAATAAATCAATCCATATTTTATAATAAATTA
1 TTTAAAATAAATCAATCCATA----CTAATAAATTA
*
885144 TTTTAAAATAAAT-AA-CC-T--TATTAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
885172 TTTAAAAT
1 TTTAAAAT
885180 TATTTTAATA
Statistics
Matches: 402, Mismatches: 9, Indels: 119
0.76 0.02 0.22
Matches are distributed among these distances:
20 2 0.00
22 57 0.14
23 6 0.01
24 6 0.01
25 1 0.00
26 37 0.09
27 12 0.03
28 17 0.04
30 4 0.01
31 8 0.02
32 225 0.56
34 1 0.00
35 2 0.00
36 12 0.03
37 12 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:884779 original size:166 final size:163
Alignment explanation
Indices: 884600--885141 Score: 806
Period size: 166 Copynumber: 3.3 Consensus size: 163
884590 ACAACTACAA
* *
884600 TAATAAATTATTTAAAATAAATCAATCCGTATTTTAAAATAAATCAATCCATAC-AACTACA-A-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATAT
*** * * * *
884662 T-AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATC
65 TAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATC
884725 AATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
123 AATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
*
884766 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA-TA-
884831 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
64 TT-AAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
884896 ATACTAATAAATTATTTAAAATAAATCAATCCATAC
128 ATACTAATAAATTATTTAAAATAAATCAATCCATAC
*
884932 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAGAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA-TA-
884997 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
64 TT-AAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
885062 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
128 ATACTAATAAATTATTTAAAATAAATCAATCCATAC
*
885098 TAATAAATTATTTAAAATAAATCAATCCATATTTTATAATAAAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT
885142 TATTTTAAAA
Statistics
Matches: 354, Mismatches: 14, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
166 315 0.89
167 3 0.01
168 2 0.01
170 3 0.01
171 1 0.00
172 25 0.07
173 5 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (163 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATATT
AAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
CTAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:884827 original size:22 final size:22
Alignment explanation
Indices: 884778--884826 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
884768 ATAAATTATT
* **
884778 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
884800 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
884823 TAAA
1 TAAA
884827 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:884907 original size:22 final size:23
Alignment explanation
Indices: 884832--884906 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
884822 ATAAATTATT
884832 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
884854 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
884880 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
884903 TAAA
1 TAAA
884907 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:884968 original size:22 final size:22
Alignment explanation
Indices: 884942--884984 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
884932 TAATAAATTA
884942 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
884964 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
884985 CTAAGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:884993 original size:22 final size:22
Alignment explanation
Indices: 884945--884993 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
884935 TAAATTATTT
* *
884945 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATATCTA
884967 AAAATAAATCAATCCATA-CTA
1 AAAATAAATCAATCCATATCTA
884988 AGAAAT
1 A-AAAT
884994 TATTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATAAATCAATCCATATCTA
Found at i:885002 original size:198 final size:194
Alignment explanation
Indices: 884632--885156 Score: 638
Period size: 198 Copynumber: 2.6 Consensus size: 194
884622 CAATCCGTAT
884632 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
*
884697 CATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
66 CATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
*
884762 ATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAA-TAA
131 ATACTAATAAA-TA-TTAAAATAAATCAATCTAAATTTTAAAATAAATCAATCCATAC-AACTAA
884826 ATTA
193 A--A
884830 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
884895 CATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
66 CATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
** * *
884960 ATA-TTTTAAA-A-T-AAATCAATCCATACTAAGAAATTATTTAAAATAAATCAATCCATACAAC
131 ATACTAATAAATATTAAAATAAATCAAT-CT---AAA-T-TTTAAAATAAATCAATCCATACAAC
*
885021 TACAA
190 TAAAA
*** * * * *
885026 --T--AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAA
1 TTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAA
*
885086 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAA
59 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA----CTAATAAATTA-TTTAAA
885151 ATAAAT
119 ATAAAT
885157 AACCTTATTA
Statistics
Matches: 293, Mismatches: 15, Indels: 33
0.86 0.04 0.10
Matches are distributed among these distances:
191 5 0.02
192 35 0.12
193 4 0.01
194 3 0.01
195 1 0.00
196 4 0.01
197 9 0.03
198 210 0.72
202 10 0.03
203 12 0.04
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (194 bp):
TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
CATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
ATACTAATAAATATTAAAATAAATCAATCTAAATTTTAAAATAAATCAATCCATACAACTAAAA
Found at i:885069 original size:18 final size:18
Alignment explanation
Indices: 885048--885105 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
885038 CCATATTTTA
885048 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
885066 AAATAAAT-TAT--TTA-
1 AAATAAATCAATCCATAC
885080 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
*
885098 TAATAAAT
1 AAATAAAT
885106 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
17 4 0.13
18 15 0.48
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:885073 original size:22 final size:22
Alignment explanation
Indices: 885000--885073 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
884990 AAATTATTTA
*
885000 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
885025 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
885047 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
885070 AAAT
1 AAAT
885074 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:885147 original size:15 final size:15
Alignment explanation
Indices: 885127--885156 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
885117 AATCAATCCA
*
885127 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
885142 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
885157 AACCTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:886695 original size:276 final size:276
Alignment explanation
Indices: 886154--886700 Score: 857
Period size: 277 Copynumber: 2.0 Consensus size: 276
886144 TGAAAAATCG
*
886154 ACCGGTCGTCGATGGGTGAGTGGGCGATCACCTGTGATGATGATGTTCGGTGACGAATTTGAAAC
1 ACCGGTCGTCGATGGGTGAGTGGGCGATCACCGGTGATGATGATGTTCGGTGACGAATTTGAAAC
*
886219 TCTTGAGGTATTTTCATAAAACTAAGAAAAATTGTGTTTTTTTAATTTATGAATTTTATTGTTTA
66 TCTTGAGGTATTTTCATAAAACTAAGAAAAAATGTGTTTTTTTAATTTATGAATTTTATTGTTTA
** *
886284 AAGTTTTAAAGAAAAAAAATCAAACCACATGTAAAATATTGATTGATTGAGTAATTTCTAAAGAA
131 AAAATTTAAAGAAAAAAAATCAAACCACATGTAAAATATTGATTGATTGACTAATTTCTAAAGAA
* *
886349 TTTTTTACGACCATTTCGGCATAAGCAATTGAAGTTTGTAACGAAAGGTACCTACATTGACAAAA
196 TTTTTTACGACCATTTCGACATAAGCAATTGAAGTTTGTAACGAAAGATACCTACATTGACAAAA
886414 AAAAAAGTTTTTTTCT
261 AAAAAAGTTTTTTTCT
* * * *
886430 ACCGGTCGTCGATGGGTGAGTTGGTGATCACCGGTGATTATGATGTTCGGTGACGAAATTT-AAG
1 ACCGGTCGTCGATGGGTGAGTGGGCGATCACCGGTGATGATGATGTTCGGTGACG-AATTTGAAA
*
886494 CTCTTGAGGTATTTTCATAAAACTATGAAAAAATGTGTTTTTTTTAATTTATGAATTTTATTGTT
65 CTCTTGAGGTATTTTCATAAAACTAAGAAAAAATGTG-TTTTTTTAATTTATGAATTTTATTGTT
* * *
886559 TAAAAATTTAGAGAAAAAAAATCAAACCACATGTAAAATATTGATTGATTGACTAATTTGTAATG
129 TAAAAATTTAAAGAAAAAAAATCAAACCACATGTAAAATATTGATTGATTGACTAATTTCTAAAG
* ** *
886624 AATTTTTTTACGACCATTTCGACATAAGCATTTGAAGTTTGTAAC-ATAAGATATTTATATTGAC
194 AA-TTTTTTACGACCATTTCGACATAAGCAATTGAAGTTTGTAACGA-AAGATACCTACATTGAC
*
886688 -CAAAAAAAAGTTT
257 AAAAAAAAAAGTTT
886701 AGAAAAAAAT
Statistics
Matches: 247, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
276 88 0.36
277 106 0.43
278 53 0.21
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (276 bp):
ACCGGTCGTCGATGGGTGAGTGGGCGATCACCGGTGATGATGATGTTCGGTGACGAATTTGAAAC
TCTTGAGGTATTTTCATAAAACTAAGAAAAAATGTGTTTTTTTAATTTATGAATTTTATTGTTTA
AAAATTTAAAGAAAAAAAATCAAACCACATGTAAAATATTGATTGATTGACTAATTTCTAAAGAA
TTTTTTACGACCATTTCGACATAAGCAATTGAAGTTTGTAACGAAAGATACCTACATTGACAAAA
AAAAAAGTTTTTTTCT
Found at i:893731 original size:81 final size:81
Alignment explanation
Indices: 893596--893762 Score: 334
Period size: 81 Copynumber: 2.1 Consensus size: 81
893586 GTATGCCTTA
893596 TCATTTGCTTTAGCCACCATTTTCTTGGCTTCCCACTTTGCCTCCATGTATCTTTGTTTAGCTCT
1 TCATTTGCTTTAGCCACCATTTTCTTGGCTTCCCACTTTGCCTCCATGTATCTTTGTTTAGCTCT
893661 CGATCTATCTTCGATG
66 CGATCTATCTTCGATG
893677 TCATTTGCTTTAGCCACCATTTTCTTGGCTTCCCACTTTGCCTCCATGTATCTTTGTTTAGCTCT
1 TCATTTGCTTTAGCCACCATTTTCTTGGCTTCCCACTTTGCCTCCATGTATCTTTGTTTAGCTCT
893742 CGATCTATCTTCGATG
66 CGATCTATCTTCGATG
893758 TCATT
1 TCATT
893763 GCATTGTAGA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.14, C:0.28, G:0.13, T:0.45
Consensus pattern (81 bp):
TCATTTGCTTTAGCCACCATTTTCTTGGCTTCCCACTTTGCCTCCATGTATCTTTGTTTAGCTCT
CGATCTATCTTCGATG
Found at i:896722 original size:99 final size:99
Alignment explanation
Indices: 896551--896746 Score: 392
Period size: 99 Copynumber: 2.0 Consensus size: 99
896541 ACAACACAAT
896551 TTTAATTGTTTCGTGTAAAGCTTAATGTTCAGTCATTTCTTGGGGGAGAAGAAAAAAGTAGGGAG
1 TTTAATTGTTTCGTGTAAAGCTTAATGTTCAGTCATTTCTTGGGGGAGAAGAAAAAAGTAGGGAG
896616 AATGTTAAGTATAGTTGAGGTTCAGCTAGGTGAA
66 AATGTTAAGTATAGTTGAGGTTCAGCTAGGTGAA
896650 TTTAATTGTTTCGTGTAAAGCTTAATGTTCAGTCATTTCTTGGGGGAGAAGAAAAAAGTAGGGAG
1 TTTAATTGTTTCGTGTAAAGCTTAATGTTCAGTCATTTCTTGGGGGAGAAGAAAAAAGTAGGGAG
896715 AATGTTAAGTATAGTTGAGGTTCAGCTAGGTG
66 AATGTTAAGTATAGTTGAGGTTCAGCTAGGTG
896747 CAGTGCTCGG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.34
Consensus pattern (99 bp):
TTTAATTGTTTCGTGTAAAGCTTAATGTTCAGTCATTTCTTGGGGGAGAAGAAAAAAGTAGGGAG
AATGTTAAGTATAGTTGAGGTTCAGCTAGGTGAA
Found at i:898787 original size:2 final size:2
Alignment explanation
Indices: 898780--898818 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
898770 TTATAGAATG
898780 AT AT 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 A
898819 GATTGATGCT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:899116 original size:93 final size:93
Alignment explanation
Indices: 898957--899143 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
898947 GAGCAGCACC
898957 CATCAACTTAACCCTCCTCAACCTCGACAACTTGAAGAACACCAGCGTCAAAACCCCATTCGTGC
1 CATCAACTTAACCCTCCTCAACCTCGACAACTTGAAGAACACCAGCGTCAAAACCCCATTCGTGC
899022 AATCTCACAGTTTGTTTCTTGAAAGGTT
66 AATCTCACAGTTTGTTTCTTGAAAGGTT
899050 CATCAACTTAACCCTCCTCAACCTCGACAACTTGAAGAACACCAGCGTCAAAACCCCATTCGTGC
1 CATCAACTTAACCCTCCTCAACCTCGACAACTTGAAGAACACCAGCGTCAAAACCCCATTCGTGC
899115 AATCTCACAGTTTGTTTCTTGAAAGGTT
66 AATCTCACAGTTTGTTTCTTGAAAGGTT
899143 C
1 C
899144 TATTTCTTCT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.26
Consensus pattern (93 bp):
CATCAACTTAACCCTCCTCAACCTCGACAACTTGAAGAACACCAGCGTCAAAACCCCATTCGTGC
AATCTCACAGTTTGTTTCTTGAAAGGTT
Found at i:900562 original size:6 final size:6
Alignment explanation
Indices: 900544--900603 Score: 86
Period size: 6 Copynumber: 10.2 Consensus size: 6
900534 GACACGTATT
* * *
900544 ACCACG A-CACG ACCACG ACCACG ACCTCG ACCTCG ACCTCG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
900591 ACCACG ACCACG A
1 ACCACG ACCACG A
900604 GCCGAGCCGA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
5 5 0.10
6 46 0.90
ACGTcount: A:0.30, C:0.48, G:0.17, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:900611 original size:5 final size:5
Alignment explanation
Indices: 900601--900644 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
900591 ACCACGACCA
* * *
900601 CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGTGC CGAGC CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
900645 ACGACGGACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.14, C:0.39, G:0.41, T:0.07
Consensus pattern (5 bp):
CGAGC
Found at i:906610 original size:6 final size:6
Alignment explanation
Indices: 906599--906659 Score: 104
Period size: 6 Copynumber: 10.2 Consensus size: 6
906589 GACACGTATT
* *
906599 ACCACG ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
906647 ACCACG ACCACG A
1 ACCACG ACCACG A
906660 GCCGAGCCGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.31, C:0.49, G:0.16, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:906667 original size:5 final size:5
Alignment explanation
Indices: 906657--906705 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
906647 ACCACGACCA
* * * *
906657 CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGTGC CGAGC CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
906706 ACGGACGGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.16, C:0.37, G:0.41, T:0.06
Consensus pattern (5 bp):
CGAGC
Found at i:907549 original size:82 final size:83
Alignment explanation
Indices: 907453--907634 Score: 192
Period size: 82 Copynumber: 2.2 Consensus size: 83
907443 ATTTTCATAC
* * * * * * * * *
907453 AAACGCCACAATAGATTGGTACTTTAGCTGTGTTTTTATACAAACGCCGCAATATGTTTAA-CAT
1 AAACACCACAATAGATTAGTACGTTAGCAGCGTTTGTATACAAAAGCCGCAATAAGGTTAATC-T
907517 ATAGTGGCT-TTTT-CCAAA
65 ATAGTGG-TGTTTTCCCAAA
* ** *
907535 AAACACCGCAATAGAGAAGTACGTTATCAGCGTTTGTATACAAAAGCCGCAATAAGGTTAATCTA
1 AAACACCACAATAGATTAGTACGTTAGCAGCGTTTGTATACAAAAGCCGCAATAAGGTTAATCTA
*
907600 TAGTGGTGTTTTCCCAAC
66 TAGTGGTGTTTTCCCAAA
907618 AAACACCACAAT-GATTA
1 AAACACCACAATAGATTA
907635 AAATGTATTT
Statistics
Matches: 80, Mismatches: 17, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
81 1 0.01
82 63 0.79
83 16 0.20
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (83 bp):
AAACACCACAATAGATTAGTACGTTAGCAGCGTTTGTATACAAAAGCCGCAATAAGGTTAATCTA
TAGTGGTGTTTTCCCAAA
Found at i:907803 original size:41 final size:41
Alignment explanation
Indices: 907758--907838 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
907748 TGTTTGTAAA
* * *
907758 CAAACGCCACTATAGACTTTTACATTAGTGGCGTTTTGGTT
1 CAAACGCCACAATAGACATGTACATTAGTGGCGTTTTGGTT
* * **
907799 CAAACGCCGCAATAGTCATGTATGTTAGTGGCGTTTTGGT
1 CAAACGCCACAATAGACATGTACATTAGTGGCGTTTTGGT
907839 AATAAACACC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
CAAACGCCACAATAGACATGTACATTAGTGGCGTTTTGGTT
Found at i:908027 original size:32 final size:32
Alignment explanation
Indices: 907986--908076 Score: 157
Period size: 32 Copynumber: 2.9 Consensus size: 32
907976 CATTCACCCT
907986 TCGTCGATTGCTCCATTTACTTCACCCTTCAG
1 TCGTCGATTGCTCCATTTACTTCACCCTTCAG
*
908018 TCGTCGATTGCTCCATTTACTTCACCCTTCCG
1 TCGTCGATTGCTCCATTTACTTCACCCTTCAG
*
908050 TCGTCGATTGCTCC-TTTACTTTACCCT
1 TCGTCGATTGCTCCATTTACTTCACCCT
908077 GCCATCGCAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
31 12 0.21
32 45 0.79
ACGTcount: A:0.13, C:0.35, G:0.12, T:0.40
Consensus pattern (32 bp):
TCGTCGATTGCTCCATTTACTTCACCCTTCAG
Found at i:908656 original size:41 final size:41
Alignment explanation
Indices: 908589--908867 Score: 330
Period size: 41 Copynumber: 6.8 Consensus size: 41
908579 CAAAATACTA
* * *
908589 TACTTTAGTGGCGTTTGTATAAAAACGCCGCTAAAGAATCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAATCG
* * * *
908630 TAATGTAGTGGCATTTTTATACAAACGCCGCTATA-AACTAG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAA-TCG
* *
908671 TATTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAATCG
* *
908712 TACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACA-CG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* * * *
908753 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTCA
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGAATCG
*
908795 TACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACA-CG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* *
908836 TACTTTTGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGC
908868 AATTGTCATA
Statistics
Matches: 201, Mismatches: 30, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
40 2 0.01
41 153 0.76
42 46 0.23
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (41 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAATCG
Found at i:908812 original size:83 final size:82
Alignment explanation
Indices: 908589--908867 Score: 384
Period size: 83 Copynumber: 3.4 Consensus size: 82
908579 CAAAATACTA
* * * * * *
908589 TACTTTAGTGGCGTTTGT-ATAAAAACGCCGCTAAAGAATCGTAATGTAGTGGCATTTTTATACA
1 TACTTTTGTGGCGTTT-TAATACAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACA
*
908653 AACGCCGCTATAAACTA-G
65 AACGCCGCTATAGAC-ACG
* *
908671 TA-TTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTACACA
1 TACTTTT-GTGGCGTTTTAATACAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACA
908735 AACGCCGCTATAGACACG
65 AACGCCGCTATAGACACG
* * *
908753 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTCATACTTTAGTGGCGTTTTTACACA
1 TACTTTTGTGGCGTTTTAATA-CAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACA
908818 AACGCCGCTATAGACACG
65 AACGCCGCTATAGACACG
908836 TACTTTTGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTTGTGGCGTTTTAATA-CAAACGCCGC
908868 AATTGTCATA
Statistics
Matches: 180, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
81 5 0.03
82 81 0.45
83 94 0.52
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (82 bp):
TACTTTTGTGGCGTTTTAATACAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACAA
ACGCCGCTATAGACACG
Found at i:912165 original size:43 final size:43
Alignment explanation
Indices: 912104--912390 Score: 298
Period size: 43 Copynumber: 6.7 Consensus size: 43
912094 AAGGTAATTA
* * * *
912104 GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
*
912147 GCGGCGTTTGTGTTCAAAAACGCCGTTATAGGTCTGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
* * *
912190 GCAGCGTTTGTGTCCAAAAATGCCGCTATAGGTCTGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
*
912233 GCGGCG-TT-TGTTCTAAAAATGCCAG-TATAGGTCTG-CTCTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCC-GCTATAGGTCTGAC-CTTTT
* * * *
912275 GCGGCATTTGT-ATCAAAAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCCGCTATAGGTCT-GACCTTTT
* * *
912319 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCT-GACCTTTT
* **
912362 GCGGCGTTTTTTGTTCTCAAACGCCGCTA
1 GCGGCG-TTTGTGTTCAAAAACGCCGCTA
912391 ACTTTAGCGG
Statistics
Matches: 210, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
41 5 0.02
42 32 0.15
43 137 0.65
44 22 0.10
45 14 0.07
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
Found at i:912285 original size:128 final size:130
Alignment explanation
Indices: 912104--912370 Score: 348
Period size: 128 Copynumber: 2.1 Consensus size: 130
912094 AAGGTAATTA
* *
912104 GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTC-AAAAAC
1 GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCATTTGT-ATCAAAAAAC
* * * * * *
912168 GCCGTTATAGGTCT-GACCTTTTGCAGCGTTTGTGTCCAAAAATGCCGCTATAGGTCT-GACCTT
65 GCCGCTATAGATATCGACCTTTTGCAGCGTTTGT-TCCAAAAACGCCGCTATAGATATCGACCTT
912231 TT
129 TT
* * *
912233 GCGGCGTTTGT-TCTAAAAATGCCAG-TATAGGTCTG-CTCTTTTGCGGCATTTGTATCAAAAAA
1 GCGGCGTTTATATCCAAAAACGCC-GCTATAGGTCTGACT-TTTTGCGGCATTTGTATCAAAAAA
*
912295 CGCCGCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTT
64 CGCCGCTATAGATATCGACCTTTTGCAGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTT
912360 TT
129 TT
912362 GCGGCGTTT
1 GCGGCGTTT
912371 TTTGTTCTCA
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
127 4 0.03
128 71 0.59
129 46 0.38
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (130 bp):
GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCATTTGTATCAAAAAACG
CCGCTATAGATATCGACCTTTTGCAGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTT
Found at i:912327 original size:86 final size:85
Alignment explanation
Indices: 912104--912370 Score: 333
Period size: 86 Copynumber: 3.1 Consensus size: 85
912094 AAGGTAATTA
* *
912104 GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGT-TCAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGT-TCT-AAAAAC
912168 GCCGTTATAGGTCTGACCTTTT
64 GCCGTTATAGGTCTGACCTTTT
* * * *
912190 GCAGCGTTTGTGTCCAAAAATGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAATGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
912255 CAG-TATAGGTCTG-CTCTTTT
66 C-GTTATAGGTCTGAC-CTTTT
* * * * *
912275 GCGGCATTTGTATCAAAAAACGCCGCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCT-GACCTTTTGCGGCGTTTGTTCTAAAAACG
* * *
912340 CCGCTATAGATATCGACCTTTT
65 CCGTTATAGGTCT-GACCTTTT
912362 GCGGCGTTT
1 GCGGCGTTT
912371 TTTGTTCTCA
Statistics
Matches: 156, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
84 1 0.01
85 53 0.34
86 87 0.56
87 14 0.09
88 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (85 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
CGTTATAGGTCTGACCTTTT
Found at i:914136 original size:3 final size:3
Alignment explanation
Indices: 914128--914208 Score: 56
Period size: 3 Copynumber: 26.7 Consensus size: 3
914118 ATGTTATTTA
* * * * * * *
914128 TAT TAT TAT TAT TAT AAT AAT AAT TAT TAT TAT AAT AAT AAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
914176 TAT TAT TAA TA- TAT ATAT TATT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TA
914209 CAAAACCCAA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.03
3 60 0.88
4 6 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (3 bp):
TAT
Found at i:914155 original size:21 final size:21
Alignment explanation
Indices: 914129--914183 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
914119 TGTTATTTAT
914129 ATTATTATTATTATAATAATA
1 ATTATTATTATTATAATAATA
*
914150 ATTATTATTATAATAATAATA
1 ATTATTATTATTATAATAATA
914171 ATTATTATTATTA
1 ATTATTATTATTA
914184 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTATTATTATTATAATAATA
Found at i:914195 original size:21 final size:20
Alignment explanation
Indices: 914126--914202 Score: 90
Period size: 18 Copynumber: 3.9 Consensus size: 20
914116 AAATGTTATT
914126 TATAT-TATTATTATTATAA
1 TATATATATTATTATTATAA
914145 TA-ATA-ATTATTATTATAA
1 TATATATATTATTATTATAA
914163 TA-ATAATAATTATTATTATTAA
1 TATAT-AT-ATTATTATTA-TAA
914185 TATATATATTATTTATTA
1 TATATATATTA-TTATTA
914203 ATATTACAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
18 19 0.37
19 3 0.06
21 14 0.27
22 13 0.25
23 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATATATTATTATTATAA
Found at i:918745 original size:41 final size:43
Alignment explanation
Indices: 918680--918883 Score: 166
Period size: 42 Copynumber: 4.7 Consensus size: 43
918670 GTGTTCATTA
**
918680 GCGGCGTTTGTATCCAAAAAACGCCGCTATATACCT-GACCTTTT
1 GCGGCGTTTGT-T-CAAAAAACGCCGCTATATATATAGACCTTTT
* *
918724 GCGGTGTTTGTT-AAAAAACGCCGCTATAGATATAGACCTTTT
1 GCGGCGTTTGTTCAAAAAACGCCGCTATATATATAGACCTTTT
* * * * * * *
918766 GCGTCATTTGTATCCAAAAAAAACTCAGCTATATATCTCGAACTTTT
1 GCGGCGTTTGT-T-C--AAAAAACGCCGCTATATATATAGACCTTTT
* * * *
918813 GCGGCGTTTGTT-AAAAAATGCCACTATAGATA-ATACCTTTT
1 GCGGCGTTTGTTCAAAAAACGCCGCTATATATATAGACCTTTT
*
918854 GCGGCGTTTGTTCCAAAAAA-ACCGCTATAT
1 GCGGCGTTTGTT-CAAAAAACGCCGCTATAT
918884 CTCTTTACCT
Statistics
Matches: 125, Mismatches: 27, Indels: 18
0.74 0.16 0.11
Matches are distributed among these distances:
41 36 0.29
42 37 0.30
43 8 0.06
44 10 0.08
46 1 0.01
47 33 0.26
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (43 bp):
GCGGCGTTTGTTCAAAAAACGCCGCTATATATATAGACCTTTT
Found at i:918797 original size:47 final size:45
Alignment explanation
Indices: 918680--918882 Score: 149
Period size: 41 Copynumber: 4.7 Consensus size: 45
918670 GTGTTCATTA
** * **
918680 GCGGCGTTTGTATCCAAAAAACGCC-GCTATATACCT-GACCTTTT
1 GCGGCGTTTGT-TCCAAAAAAAACCAGCTATAGATATAGACCTTTT
* **
918724 GCGGTGTTTGTT--AAAAAACGCC-GCTATAGATATAGACCTTTT
1 GCGGCGTTTGTTCCAAAAAAAACCAGCTATAGATATAGACCTTTT
* * * * * *
918766 GCGTCATTTGTATCCAAAAAAAACTCAGCTATATATCTCGAACTTTT
1 GCGGCGTTTGT-TCCAAAAAAAAC-CAGCTATAGATATAGACCTTTT
** *
918813 GCGGCGTTTGTT--AAAAAATGCCA-CTATAGATA-ATACCTTTT
1 GCGGCGTTTGTTCCAAAAAAAACCAGCTATAGATATAGACCTTTT
918854 GCGGCGTTTGTTCC-AAAAAAACC-GCTATA
1 GCGGCGTTTGTTCCAAAAAAAACCAGCTATA
918883 TCTCTTTACC
Statistics
Matches: 126, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
41 36 0.29
42 35 0.28
43 4 0.03
44 17 0.13
45 7 0.06
46 2 0.02
47 25 0.20
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
GCGGCGTTTGTTCCAAAAAAAACCAGCTATAGATATAGACCTTTT
Found at i:918864 original size:88 final size:88
Alignment explanation
Indices: 918680--918874 Score: 263
Period size: 89 Copynumber: 2.2 Consensus size: 88
918670 GTGTTCATTA
* * *
918680 GCGGCGTTTGTATCC--AAAAAACGCCGCTATATACCTGACCTTTTGCGGTGTTTGTTAAAAAAC
1 GCGGCGTTTGTATCCAAAAAAAACGCAGCTATATACCTGAACTTTTGCGGCGTTTGTTAAAAAAC
*
918743 GCCGCTATAGATATAGACCTTTT
66 GCCACTATAGATATAGACCTTTT
* * * *
918766 GCGTCATTTGTATCCAAAAAAAACTCAGCTATATATCTCGAACTTTTGCGGCGTTTGTTAAAAAA
1 GCGGCGTTTGTATCCAAAAAAAACGCAGCTATATACCT-GAACTTTTGCGGCGTTTGTTAAAAAA
* *
918831 TGCCACTATAGATA-ATACCTTTT
65 CGCCACTATAGATATAGACCTTTT
918854 GCGGCGTTTGT-TCCAAAAAAA
1 GCGGCGTTTGTATCCAAAAAAA
918875 CCGCTATATC
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
86 13 0.14
87 10 0.11
88 35 0.37
89 36 0.38
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (88 bp):
GCGGCGTTTGTATCCAAAAAAAACGCAGCTATATACCTGAACTTTTGCGGCGTTTGTTAAAAAAC
GCCACTATAGATATAGACCTTTT
Found at i:924620 original size:762 final size:762
Alignment explanation
Indices: 923157--924689 Score: 2976
Period size: 762 Copynumber: 2.0 Consensus size: 762
923147 AACAAAAACG
923157 CAAAAACTTCAAGCTTCTATACCAGCAAATTCACAACCAGCACTAGCCATCGGAACACATCAACC
1 CAAAAACTTCAAGCTTCTATACCAGCAAATTCACAACCAGCACTAGCCATCGGAACACATCAACC
923222 TGACCAATACTTCCACTTTGCACAAGGGAGAAGGCCTTGCAAGATCACGAGTAACAATTTCATAA
66 TGACCAATACTTCCACTTTGCACAAGGGAGAAGGCCTTGCAAGATCACGAGTAACAATTTCATAA
923287 TATCATGGTCCATCCTTTCTAACTCTCAAGCGATCAGAAGTTTGCATTAAGTTCTACTGCTTCCA
131 TATCATGGTCCATCCTTTCTAACTCTCAAGCGATCAGAAGTTTGCATTAAGTTCTACTGCTTCCA
923352 ATCAAATGGAAAAGACGTTCCCTTGCGGAATGTAAAAACTCAGCACTAGGTAATTACACTTCTAT
196 ATCAAATGGAAAAGACGTTCCCTTGCGGAATGTAAAAACTCAGCACTAGGTAATTACACTTCTAT
923417 AAGATTCCAATTCAATCAAAATCAAAACCTCGTTGGATTGATTATCAAAGGGGATCTCTCTAATG
261 AAGATTCCAATTCAATCAAAATCAAAACCTCGTTGGATTGATTATCAAAGGGGATCTCTCTAATG
*
923482 TTGGAAGTGTAGGTGGGCTCTTGATAATTTATATAACTCGAACTATTATTGATACGAAACAAAAT
326 TTGGAAGCGTAGGTGGGCTCTTGATAATTTATATAACTCGAACTATTATTGATACGAAACAAAAT
923547 ACGTACGTTATAACGACGTTACCCCAATATTACAATACTAGCTGCGCCTAGTTTACAAACACAAC
391 ACGTACGTTATAACGACGTTACCCCAATATTACAATACTAGCTGCGCCTAGTTTACAAACACAAC
*
923612 CTCGCTATTCTAAGCTTTGCTAAGCTTTATCCTCTCTCTCATAGCTTTGCTAAGCTATTTCTCGT
456 CTCGCTATTCTAAGCTTTGCTAAACTTTATCCTCTCTCTCATAGCTTTGCTAAGCTATTTCTCGT
923677 TATGGCTTTTCTAAGCTTTTACTCATTTTTATTTTTCTTTCACTTGTATTTTACATTCATATATC
521 TATGGCTTTTCTAAGCTTTTACTCATTTTTATTTTTCTTTCACTTGTATTTTACATTCATATATC
*
923742 TCATGCATATATATAAGCTAATTAAACTGACTACTTTTCAGCTCTGGATGCTTCTCAATTTCTCT
586 TCATGCATATATATAAGCTAATTAAACTGACTACTTTTCAGCTCTAGATGCTTCTCAATTTCTCT
923807 TCATTATTGTCGACTTAATACTTGCTTGACGTGGTAGACACCTTTGCTGCAAACTTAACCCTTTT
651 TCATTATTGTCGACTTAATACTTGCTTGACGTGGTAGACACCTTTGCTGCAAACTTAACCCTTTT
* *
923872 TGTGGGATCACCTTAATATGCTTAATAATTAAGCATGTGCATATTGC
716 TGTGGGACCACCTTAATATGCTTAATAATTAAGCATGTGCATACTGC
923919 CAAAAACTTCAAGCTTCTATACCAGCAAATTCACAACCAGCACTAGCCATCGGAACACATCAACC
1 CAAAAACTTCAAGCTTCTATACCAGCAAATTCACAACCAGCACTAGCCATCGGAACACATCAACC
923984 TGACCAATACTTCCACTTTGCACAAGGGAGAAGGCCTTGCAAGATCACGAGTAACAATTTCATAA
66 TGACCAATACTTCCACTTTGCACAAGGGAGAAGGCCTTGCAAGATCACGAGTAACAATTTCATAA
* *
924049 TATCATGGTCCTTCCTTTCTAACTCTCAAGCGATCAGAAGTTTGCATTAAGTTCTACTGCTTCCG
131 TATCATGGTCCATCCTTTCTAACTCTCAAGCGATCAGAAGTTTGCATTAAGTTCTACTGCTTCCA
924114 ATCAAATGGAAAAGACGTTCCCTTGCGGAATGTAAAAACTCAGCACTAGGTAATTACACTTCTAT
196 ATCAAATGGAAAAGACGTTCCCTTGCGGAATGTAAAAACTCAGCACTAGGTAATTACACTTCTAT
924179 AAGATTCCAATTCAATCAAAATCAAAACCTCGTTGGATTGATTATCAAAGGGGATCTCTCTAATG
261 AAGATTCCAATTCAATCAAAATCAAAACCTCGTTGGATTGATTATCAAAGGGGATCTCTCTAATG
924244 TTGGAAGCGTAGGTGGGCTCTTGATAATTTATATAACTCGAACTATTATTGATACGAAACAAAAT
326 TTGGAAGCGTAGGTGGGCTCTTGATAATTTATATAACTCGAACTATTATTGATACGAAACAAAAT
*
924309 ACGTATGTTATAACGACGTTACCCCAATATTACAATACTAGCTGCGCCTAGTTTACAAACACAAC
391 ACGTACGTTATAACGACGTTACCCCAATATTACAATACTAGCTGCGCCTAGTTTACAAACACAAC
924374 CTCGCTATTCTAAGCTTTGCTAAACTTTATCCTCTCTCTCATAGCTTTGCTAAGCTATTTCTCGT
456 CTCGCTATTCTAAGCTTTGCTAAACTTTATCCTCTCTCTCATAGCTTTGCTAAGCTATTTCTCGT
924439 TATGGCTTTTCTAAGCTTTTACTCATTTTTATTTTTCTTTCACTTGTATTTTACATTCATATATC
521 TATGGCTTTTCTAAGCTTTTACTCATTTTTATTTTTCTTTCACTTGTATTTTACATTCATATATC
*
924504 TCATGCATATATATAAGGTAATTAAACTGACTACTTTTCAGCTCTAGATGCTTCTCAATTTCTCT
586 TCATGCATATATATAAGCTAATTAAACTGACTACTTTTCAGCTCTAGATGCTTCTCAATTTCTCT
924569 TCATTATTGTCGACTTAATACTTGCTTGACGTGGTAGACACCTTTGCTGCAAACTTAACCCTTTT
651 TCATTATTGTCGACTTAATACTTGCTTGACGTGGTAGACACCTTTGCTGCAAACTTAACCCTTTT
*
924634 TGTGGGACCACCTTAATATGCTTAATAATTAAGCATGTGTATACTGC
716 TGTGGGACCACCTTAATATGCTTAATAATTAAGCATGTGCATACTGC
924681 CAAAAACTT
1 CAAAAACTT
924690 TTCAACTTTG
Statistics
Matches: 761, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
762 761 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (762 bp):
CAAAAACTTCAAGCTTCTATACCAGCAAATTCACAACCAGCACTAGCCATCGGAACACATCAACC
TGACCAATACTTCCACTTTGCACAAGGGAGAAGGCCTTGCAAGATCACGAGTAACAATTTCATAA
TATCATGGTCCATCCTTTCTAACTCTCAAGCGATCAGAAGTTTGCATTAAGTTCTACTGCTTCCA
ATCAAATGGAAAAGACGTTCCCTTGCGGAATGTAAAAACTCAGCACTAGGTAATTACACTTCTAT
AAGATTCCAATTCAATCAAAATCAAAACCTCGTTGGATTGATTATCAAAGGGGATCTCTCTAATG
TTGGAAGCGTAGGTGGGCTCTTGATAATTTATATAACTCGAACTATTATTGATACGAAACAAAAT
ACGTACGTTATAACGACGTTACCCCAATATTACAATACTAGCTGCGCCTAGTTTACAAACACAAC
CTCGCTATTCTAAGCTTTGCTAAACTTTATCCTCTCTCTCATAGCTTTGCTAAGCTATTTCTCGT
TATGGCTTTTCTAAGCTTTTACTCATTTTTATTTTTCTTTCACTTGTATTTTACATTCATATATC
TCATGCATATATATAAGCTAATTAAACTGACTACTTTTCAGCTCTAGATGCTTCTCAATTTCTCT
TCATTATTGTCGACTTAATACTTGCTTGACGTGGTAGACACCTTTGCTGCAAACTTAACCCTTTT
TGTGGGACCACCTTAATATGCTTAATAATTAAGCATGTGCATACTGC
Found at i:932410 original size:17 final size:18
Alignment explanation
Indices: 932379--932412 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
932369 TTTTCATACG
*
932379 ATATTATTTATTTATTAA
1 ATATTATTTAATTATTAA
932397 ATATT-TTTAATTATTA
1 ATATTATTTAATTATTA
932413 TATTTGGTTG
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTATTTAATTATTAA
Found at i:934911 original size:21 final size:21
Alignment explanation
Indices: 934887--934959 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 21
934877 ACACAGTTTC
*
934887 CAAATTCGAAACGCGAATTTT
1 CAAATTCGCAACGCGAATTTT
* *
934908 CAAATTTGCAACGCGAATATGT
1 CAAATTCGCAACGCGAAT-TTT
934930 -AAA-TCGCAACGCGAATTTGT
1 CAAATTCGCAACGCGAATTT-T
934950 --AATTCGCAAC
1 CAAATTCGCAAC
934960 ACATAAGTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.07
20 20 0.45
21 19 0.43
22 2 0.05
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (21 bp):
CAAATTCGCAACGCGAATTTT
Found at i:935511 original size:20 final size:20
Alignment explanation
Indices: 935488--935526 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
935478 TTTGAAACTT
935488 AAATTCACAACACGAAAATG
1 AAATTCACAACACGAAAATG
** *
935508 AAATTTGCAACACTAAAAT
1 AAATTCACAACACGAAAAT
935527 TGCAACACGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.18, G:0.08, T:0.21
Consensus pattern (20 bp):
AAATTCACAACACGAAAATG
Found at i:935586 original size:20 final size:20
Alignment explanation
Indices: 935536--935586 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
935526 TTGCAACACG
*
935536 ATTTTAGTTTCGCGTTGCGA
1 ATTTAAGTTTCGCGTTGCGA
* * * *
935556 ATTTCATTTTCGTGTTGTGA
1 ATTTAAGTTTCGCGTTGCGA
935576 ATTTAAGTTTC
1 ATTTAAGTTTC
935587 AAAAACTACT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.12, G:0.20, T:0.51
Consensus pattern (20 bp):
ATTTAAGTTTCGCGTTGCGA
Found at i:937159 original size:42 final size:42
Alignment explanation
Indices: 937079--937173 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
937069 CCACTTCGAA
* * * * *
937079 AGCCATCACCTGATTAAGCCGATTCTACAGCTCGACACCGAG
1 AGCCATCACCTGATCAAGCCAATTATACACCTCCACACCGAG
*
937121 AGCCATCACCTGATCGAGCCAATTATACACCTCCACACCGAG
1 AGCCATCACCTGATCAAGCCAATTATACACCTCCACACCGAG
937163 AGCCATCACCT
1 AGCCATCACCT
937174 ATTCCATCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.29, C:0.37, G:0.16, T:0.18
Consensus pattern (42 bp):
AGCCATCACCTGATCAAGCCAATTATACACCTCCACACCGAG
Found at i:937571 original size:21 final size:21
Alignment explanation
Indices: 937526--937575 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
937516 CCTGTCATTG
* * *
937526 TTCAAGAGGCCCCTCCTATCG
1 TTCAAGAGGCCCCTCCCACCA
937547 TTCAAGAGGCCCCTCCCACCA
1 TTCAAGAGGCCCCTCCCACCA
937568 TTCAAGAG
1 TTCAAGAG
937576 CCCGATTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.38, G:0.18, T:0.20
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCA
Found at i:939411 original size:18 final size:18
Alignment explanation
Indices: 939388--939423 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
939378 AAGCCGGTTG
939388 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
939406 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
939424 CCTTTTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:941722 original size:24 final size:24
Alignment explanation
Indices: 941685--941738 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
941675 CTAAAACATC
*
941685 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
*
941709 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
941733 ATCAAA
1 ATCAAA
941739 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:941752 original size:24 final size:24
Alignment explanation
Indices: 941701--941752 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
941691 ATCTGAGTAT
* *
941701 TGACCAAGATCAAAGTCCGAGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* **
941725 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
941749 TGAC
1 TGAC
941753 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:951137 original size:6 final size:6
Alignment explanation
Indices: 951124--951155 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
951114 TAAAAAAATG
951124 AAAA-A AAAACA AAAACA AAAA-A AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAA
951156 AAGAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 9 0.36
6 16 0.64
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:951138 original size:11 final size:11
Alignment explanation
Indices: 951124--951157 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
951114 TAAAAAAATG
*
951124 AAAAA-AAAAC
1 AAAAACAAAAA
951134 AAAAACAAAAA
1 AAAAACAAAAA
951145 AAAAACAAAAA
1 AAAAACAAAAA
951156 AA
1 AA
951158 GAAAGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:951166 original size:17 final size:17
Alignment explanation
Indices: 951115--951166 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
951105 GCCTGAAGAT
951115 AAAAAAATGAAAAAAAAAC
1 AAAAAAA-G-AAAAAAAAC
951134 AAAAACAA-AAAAAAAAC
1 AAAAA-AAGAAAAAAAAC
951151 AAAAAAAGAAAGAAAA
1 AAAAAAAGAAA-AAAA
951167 GGAGGGTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.07
17 17 0.57
18 4 0.13
19 5 0.17
20 2 0.07
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAC
Found at i:952512 original size:51 final size:51
Alignment explanation
Indices: 952456--953393 Score: 926
Period size: 51 Copynumber: 17.8 Consensus size: 51
952446 TGAAGCGGAA
* *
952456 GAAGATGTTCGAGTTCCATACTCCCT-AGAGAAAGAGTGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTT
* * *
952507 GAAGATGTCCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTT
* * * * *
952558 GAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
* * * * *
952609 GAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAACCCGTTT
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
* *
952660 GAAAAAGATGTCCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGGGAACCCGTTT
1 G---AAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTT
*
952714 GAAGAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
* *
952768 GAAGAAGATGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACTCGTTT
1 ---GAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTT
* *
952822 GAAGATGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTT
* * * * *
952873 GAAGTTATTCGAGTTCCATACTCCCT-AGAGAAAAAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTT
* * *
952924 GAAGTTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
* * * *
952975 GAAGAAGATGTCTGAGTTCCATACTCCCT-AGGGAAAGAGGGAGCGAACCAGTTT
1 GAAGATG-T-TC-GAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTT
* * * **
953029 GAAGAAAATGTCCGAGTTCTATACT-CCTTAGAGAAAGAGGGACCGAACATGTTT
1 GAAG---ATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTT
* * *
953083 GTTAAAGATTTTCGAGTTCTATACTCCCTGAAGAAACAAGGAGCGAACCCGTTT
1 G---AAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
953137 GAAGAAT-TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
1 GAAG-ATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
* * * *
953188 AAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGTAGTGAACCCGTTTT
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCG-TTT
*
953240 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTT
1 --GAAGA-TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
* * * * * * *
953294 CCAAAAGATTGTTCTAG-TCTCATACTCTCTGAAGAAATAGAGAGCAAACACGATTATT
1 ---GAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGAACCCG--T-TT
* *
953352 GAAGATTGTTCGAG-TCTGATACTCTCTGAAGAAATAGGGAGC
1 GAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGC
953394 AGACACAATT
Statistics
Matches: 776, Mismatches: 77, Indels: 64
0.85 0.08 0.07
Matches are distributed among these distances:
50 2 0.00
51 374 0.48
52 8 0.01
53 8 0.01
54 252 0.32
55 122 0.16
56 1 0.00
57 7 0.01
58 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (51 bp):
GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
Found at i:952921 original size:264 final size:262
Alignment explanation
Indices: 952453--953289 Score: 1106
Period size: 264 Copynumber: 3.2 Consensus size: 262
952443 TAGTGAAGCG
*
952453 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGTGAGCGAACCCGTTT---GAAGATGT
1 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
* * * *
952515 CCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTGGAGTTCTATACT
66 CCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACTCGTTTGAAGATATTCGAGTTCTATACT
* * *
952580 TCCTGAAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAG
131 CCCTGAAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCTATACTCCCTGAAGAAAGAG
* * * *
952645 GGAGCAAACCCGTTTGAAAAAGATGTCCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGGGAACC
196 GGAGCGAACCCGTTTG--AAAGATATTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACC
952709 CGTTT
258 CGTTT
* *
952714 GAAGAAGATGTTCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
1 GAAGAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
* * *
952778 TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACTCGTTTGAAGATGTTCGAGTTCCATAC
65 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACTCGTTTGAAGATATTCGAGTTCTATAC
*
952843 TCCCT-AGAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCCATACTCCCT-AGAGAAA
130 TCCCTGA-AGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCTATACTCCCTGA-AGAAA
* * * *
952906 AAGGGAGCGAACCCGTGTG-AAGTTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACC
193 GAGGGAGCGAACCCGTTTGAAAGATATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACC
952970 CGTTT
258 CGTTT
* * *
952975 GAAGAAGATG-TCTGAGTTCCATACTCCCTAGGGAAAGAGGGAGCGAACCAGTTTGAAGAAAATG
1 GAAGAAGATGTTC-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
* * * *
953039 TCCGAGTTCTATACTCCTTAGAGAAAGAGGGACCGAACAT-GTTTGTTAAAGATTTTCGAGTTCT
65 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAAC-TCGTTTG---AAGATATTCGAGTTCT
* * * *
953103 ATACTCCCTGAAGAAACAAGGAGCGAACCCGTTTGAAG-AATTTCGAGTTCTATACTCCCTGAAG
126 ATACTCCCTGAAGAAAGAGGGAGCGAACCCGTGTGAAGTTA-TTCGAGTTCTATACTCCCTGAAG
* * *
953167 AAAGAGGGAGCGAACCCGTTT-AAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGTAGTGA
190 AAAGAGGGAGCGAACCCGTTTGAAAGATATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGA
953231 ACCCGTTT
255 ACCCGTTT
** *
953239 TCAGAAGATTGTTCGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCC
1 GAAGAAGA-TGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCC
953290 ATTTCCAAAA
Statistics
Matches: 506, Mismatches: 50, Indels: 36
0.85 0.08 0.06
Matches are distributed among these distances:
260 3 0.01
261 185 0.37
262 3 0.01
263 3 0.01
264 274 0.54
265 36 0.07
266 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (262 bp):
GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
CCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACTCGTTTGAAGATATTCGAGTTCTATACT
CCCTGAAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCTATACTCCCTGAAGAAAGAG
GGAGCGAACCCGTTTGAAAGATATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGT
TT
Found at i:953031 original size:315 final size:315
Alignment explanation
Indices: 952453--953289 Score: 1220
Period size: 315 Copynumber: 2.6 Consensus size: 315
952443 TAGTGAAGCG
* *
952453 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGTGAGCGAACCCGTTTGAAGATGTCCG
1 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCG
* *
952518 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTGGAGTTCTATACTTCC
66 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCTATACTCCC
*
952583 TGAAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGA
131 TGAAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGA
* * * *
952648 GCAAACCCGTTTGAAAAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGGGAACCCGTT
196 GCGAACCCGTTTGAAAAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCAGTT
* * * *
952713 TGAAGAAGATGTTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTT
261 TGAAGAAAATGTCCGAGTTCTATAC-TCCTGAGAGAAAGAGGGACCGAACACGTTT
*
952768 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACTCGTTTGAAGATGTTCG
1 GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCG
*
952833 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCCATACTCCC
66 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCTATACTCCC
*
952898 T-AGAGAAAAAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCTATACTTCCTGAAGAAAGAGGG
131 TGA-AGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCTATACTTCCTGAAGAAAGAGGG
* * *
952962 AGCGAACCCGTTTGAAGAAGATGTCTGAGTTCCATACTCCCTAGGGAAAGAGGGAGCGAACCAGT
195 AGCGAACCCGTTTGAAAAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCAGT
* *
953027 TTGAAGAAAATGTCCGAGTTCTATACTCCTTAGAGAAAGAGGGACCGAACATGTTT
260 TTGAAGAAAATGTCCGAGTTCTATACTCCTGAGAGAAAGAGGGACCGAACACGTTT
* * * * *
953083 GTTA-AAGATTTTCGAGTTCTATACTCCCT-GAAGAAACAAGGAGCGAACCCGTTTGAAGAAT-T
1 G-AAGAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAG-ATGT
* * *
953145 TCGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTAAAGATT-TTCGAGTTCTATA
63 TCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTGTGAAG-TTATTCGAGTTCTATA
* * * * *
953208 CTCCCTGAAGAAAGAGGTAGTGAACCCGTTTTCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
126 CTCCCTGAAGAAAGAGGGAGCGAACCCG-TGT--GAAG-TTATTCGAGTTCTATACTTCCTGAAG
953273 AAAGAGGGAGCGAACCC
187 AAAGAGGGAGCGAACCC
953290 ATTTCCAAAA
Statistics
Matches: 473, Mismatches: 37, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
314 8 0.02
315 412 0.87
316 8 0.02
318 4 0.01
319 41 0.09
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (315 bp):
GAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCG
AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCTATACTCCC
TGAAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGA
GCGAACCCGTTTGAAAAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCAGTT
TGAAGAAAATGTCCGAGTTCTATACTCCTGAGAGAAAGAGGGACCGAACACGTTT
Found at i:953386 original size:55 final size:54
Alignment explanation
Indices: 953081--953485 Score: 257
Period size: 55 Copynumber: 7.5 Consensus size: 54
953071 CCGAACATGT
* * * * *
953081 TTGTTAAAGATT-TTCGAGTTCTATACTCCCTGAAGAAACA-AGGAGCGAACCCG-
1 TTGTTGAAGATTGTTCGAG-TCTATACTCTCTGAAGAAATAGA-GAGCAAACACGA
* * * * * *
953134 -T-TTGAAGAAT-TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCG-
1 TTGTTGAAGATTGTTCGAG-TCTATACTCTCTGAAGAAATAGAGAGCAAACACGA
* * * ** *
953185 -T-TTAAAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGAG-GTAGTGAACCCG-
1 TTGTTGAAGATTGTTCGAG-TCTATACTCTCTGAAGAAATAGAG-AGCAAACACGA
* * * * *
953236 TT-TTCAGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAAC-CCA
1 TTGTT--GAAGATTGTTCGAG-TCTATACTCTCTGAAGAAATAGAGAGCAAACACGA
** *
953291 TT-TCCAAAAGATTGTTCTAGTCTCATACTCTCTGAAGAAATAGAGAGCAAACACGA
1 TTGT--TGAAGATTGTTCGAGTCT-ATACTCTCTGAAGAAATAGAGAGCAAACACGA
* * * *
953347 TTATTGAAGATTGTTCGAGTCTGATACTCTCTGAAGAAATAGGGAGCAGACACAA
1 TTGTTGAAGATTGTTCGAGTCT-ATACTCTCTGAAGAAATAGAGAGCAAACACGA
* * * * * *
953402 TTGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGAAAACATACATGA
1 TTGTTGAAGATTGTTCGAGTC-TATACTCTCTGAAGAAATAGAGAGCAAACACGA
953457 TTGTTGAAGA-TGTTCGAGTTCTATACTCT
1 TTGTTGAAGATTGTTCGAG-TCTATACTCT
953486 AAAAGGAGGG
Statistics
Matches: 302, Mismatches: 35, Indels: 29
0.83 0.10 0.08
Matches are distributed among these distances:
50 1 0.00
51 91 0.30
52 4 0.01
54 25 0.08
55 174 0.58
56 6 0.02
57 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (54 bp):
TTGTTGAAGATTGTTCGAGTCTATACTCTCTGAAGAAATAGAGAGCAAACACGA
Found at i:953508 original size:32 final size:32
Alignment explanation
Indices: 953467--953528 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
953457 TTGTTGAAGA
*
953467 TGTTCGAGTTCTATACTCTAAAAGGAGGGAGT
1 TGTTCGAGTTCCATACTCTAAAAGGAGGGAGT
*
953499 TGTTCGAGTTCCATACTCTAAGAGGAGGGA
1 TGTTCGAGTTCCATACTCTAAAAGGAGGGA
953529 ATGAACCTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (32 bp):
TGTTCGAGTTCCATACTCTAAAAGGAGGGAGT
Found at i:955972 original size:20 final size:19
Alignment explanation
Indices: 955928--956014 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 19
955918 CAAAACATTT
*
955928 GTGTTGCGAAAATAAAAGC
1 GTGTTGCGAAAATAAAATC
*
955947 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAAATAAAA-TC
*
955966 GTGTTGC-AAATTCGAAAATC
1 GTGTTGCGAAAAT--AAAATC
* *
955986 GAGTTGCGAAAACAAAAATC
1 GTGTTGCGAAAA-TAAAATC
956006 GTGTTGCGA
1 GTGTTGCGA
956015 TTTAGAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
18 15 0.27
19 6 0.11
20 28 0.50
21 7 0.12
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (19 bp):
GTGTTGCGAAAATAAAATC
Found at i:956023 original size:40 final size:40
Alignment explanation
Indices: 955948--956025 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
955938 AATAAAAGCT
** * *
955948 GTTGCGAAATTAAAATTCGTGTTGCAAATTCGAAAATCGA
1 GTTGCGAAAACAAAAATCGTGTTGCAAATTAGAAAATCGA
* *
955988 GTTGCGAAAACAAAAATCGTGTTGCGATTTAGAAAATC
1 GTTGCGAAAACAAAAATCGTGTTGCAAATTAGAAAATC
956026 TTGTTGCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (40 bp):
GTTGCGAAAACAAAAATCGTGTTGCAAATTAGAAAATCGA
Found at i:956032 original size:40 final size:40
Alignment explanation
Indices: 955947--956037 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 40
955937 AAATAAAAGC
** * *
955947 TGTTGCGAAATTAAAATTCGTGTTGCAAATTCGAAAATCG
1 TGTTGCGAAAACAAAAATCGTGTTGCAAATTAGAAAATCG
* * * *
955987 AGTTGCGAAAACAAAAATCGTGTTGCGATTTAGAAAATCT
1 TGTTGCGAAAACAAAAATCGTGTTGCAAATTAGAAAATCG
*
956027 TGTTGCAAAAA
1 TGTTGCGAAAA
956038 GGAAACTTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (40 bp):
TGTTGCGAAAACAAAAATCGTGTTGCAAATTAGAAAATCG
Found at i:956050 original size:20 final size:19
Alignment explanation
Indices: 956027--956075 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
956017 TAGAAAATCT
956027 TGTTGCAAAAAGGAAACTTG
1 TGTTGCAAAAA-GAAACTTG
*
956047 TGTTGCGAAAAAGAAATTTG
1 TGTTGC-AAAAAGAAACTTG
*
956067 CGTTGCAAA
1 TGTTGCAAA
956076 TTTGAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.69
21 5 0.19
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (19 bp):
TGTTGCAAAAAGAAACTTG
Found at i:966596 original size:14 final size:14
Alignment explanation
Indices: 966577--966604 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
966567 TGGAAACATC
966577 GACATGTTATTGAT
1 GACATGTTATTGAT
966591 GACATGTTATTGAT
1 GACATGTTATTGAT
966605 ATGACCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
GACATGTTATTGAT
Found at i:967343 original size:24 final size:24
Alignment explanation
Indices: 967311--967366 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
967301 AATGATCGGG
967311 TGTGGCATCCGAGGAAGATGGAGT
1 TGTGGCATCCGAGGAAGATGGAGT
967335 TGTGGCATCCGAGGAAGATGGAGT
1 TGTGGCATCCGAGGAAGATGGAGT
967359 TGTGGCAT
1 TGTGGCAT
967367 ATGTAGTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.12, G:0.41, T:0.23
Consensus pattern (24 bp):
TGTGGCATCCGAGGAAGATGGAGT
Found at i:970937 original size:119 final size:119
Alignment explanation
Indices: 970726--970967 Score: 475
Period size: 119 Copynumber: 2.0 Consensus size: 119
970716 AAGAATTTTG
970726 TAGCCTTTGCCGCAGGGGACACTTGAAATGAAGGTCCAAGCATTTCCCAATCTTCTCCACTCTCA
1 TAGCCTTTGCCGCAGGGGACACTTGAAATGAAGGTCCAAGCATTTCCCAATCTTCTCCACTCTCA
*
970791 CAGCTTCTTCTCAATATACATCACCCTTATCCTACAACAACAACCTTAACATAT
66 CAGCTTCTTCACAATATACATCACCCTTATCCTACAACAACAACCTTAACATAT
970845 TAGCCTTTGCCGCAGGGGACACTTGAAATGAAGGTCCAAGCATTTCCCAATCTTCTCCACTCTCA
1 TAGCCTTTGCCGCAGGGGACACTTGAAATGAAGGTCCAAGCATTTCCCAATCTTCTCCACTCTCA
970910 CAGCTTCTTCACAATATACATCACCCTTATCCTACAACAACAACCTTAACATAT
66 CAGCTTCTTCACAATATACATCACCCTTATCCTACAACAACAACCTTAACATAT
970964 TAGC
1 TAGC
970968 ACCATGAAAT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 122 1.00
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.27
Consensus pattern (119 bp):
TAGCCTTTGCCGCAGGGGACACTTGAAATGAAGGTCCAAGCATTTCCCAATCTTCTCCACTCTCA
CAGCTTCTTCACAATATACATCACCCTTATCCTACAACAACAACCTTAACATAT
Found at i:971134 original size:80 final size:80
Alignment explanation
Indices: 971048--971207 Score: 275
Period size: 80 Copynumber: 2.0 Consensus size: 80
971038 AATTGAAAGA
* * *
971048 AAAAAATGTTAGATACAAACAAAACTACATATATTGAATTTTAGAACATGCATTAAATATATATA
1 AAAAAATGTTAGATACAAAAAAAACTACATATATTGAATTTTAGAACATGCATTAAAAATATACA
971113 TTTTAAAGTTTATCT
66 TTTTAAAGTTTATCT
* *
971128 AAAAAATGTTAGATACAAAAAAAACTACATATATTGAATTTTAGAACCTGTATTAAAAATATACA
1 AAAAAATGTTAGATACAAAAAAAACTACATATATTGAATTTTAGAACATGCATTAAAAATATACA
971193 TTTTAAAGTTTATCT
66 TTTTAAAGTTTATCT
971208 TATAAATATA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (80 bp):
AAAAAATGTTAGATACAAAAAAAACTACATATATTGAATTTTAGAACATGCATTAAAAATATACA
TTTTAAAGTTTATCT
Found at i:974774 original size:15 final size:15
Alignment explanation
Indices: 974742--974783 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
974732 TTGAAACAAT
974742 TATAATATATATATA
1 TATAATATATATATA
*
974757 TATATTATATA-ATAA
1 TATAATATATATAT-A
*
974772 TATAAAATATAT
1 TATAATATATAT
974784 GATGAGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAATATATATATA
Found at i:974846 original size:24 final size:24
Alignment explanation
Indices: 974832--974882 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
974822 TAATGTACAT
*
974832 TATAC-TTATGCTTATAATATAAG
1 TATACATTATACTTATAATATAAG
*
974855 TATACATTATACTTATAATATATG
1 TATACATTATACTTATAATATAAG
974879 TATA
1 TATA
974883 ATATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (24 bp):
TATACATTATACTTATAATATAAG
Found at i:974888 original size:2 final size:2
Alignment explanation
Indices: 974868--975038 Score: 86
Period size: 2 Copynumber: 85.0 Consensus size: 2
974858 ACATTATACT
*
974868 TA TA -A TA TA TG TA TA -A 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 TA
* * * * * *
974908 TA TA TA TA -A GTA TA -A AA TA TA AA AA CTA TA AA GCA TA TA AA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * *
974949 CTA TA TA GA -A AA TA TA TA AA GTT 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 TA
* * * *
974992 TA CTA TA AA GCA TA TA -A TA TA AA T- TA TA TA GTG 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
975033 TA TA TA
1 TA TA TA
975039 AACTATATGG
Statistics
Matches: 131, Mismatches: 23, Indels: 30
0.71 0.12 0.16
Matches are distributed among these distances:
1 7 0.05
2 116 0.89
3 8 0.06
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (2 bp):
TA
Found at i:974889 original size:24 final size:25
Alignment explanation
Indices: 974842--974915 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 25
974832 TATACTTATG
*
974842 CTTATAATATAAGTATACAT-TATA
1 CTTATAATATATGTATACATATATA
974866 CTTATAATATATGTATA-ATATATA
1 CTTATAATATATGTATACATATATA
* *
974890 -TATATATATATATATATATATATATA
1 CT-TATA-ATATATGTATACATATATA
974916 AGTATAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
23 3 0.07
24 24 0.55
25 10 0.23
26 7 0.16
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (25 bp):
CTTATAATATATGTATACATATATA
Found at i:975053 original size:45 final size:44
Alignment explanation
Indices: 974942--975058 Score: 110
Period size: 47 Copynumber: 2.5 Consensus size: 44
974932 ACTATAAAGC
* * *
974942 ATATAAACTATATAGAAAATATATAAAGTTTATATATATATATAT
1 ATATAAACTATATGGTATA-ATATAAAGTTTATATATATATATAT
* * * *
974987 ATATATACTATAAAGCATATAATATAAA-TTATATAGTGTATATATAT
1 ATATAAACTAT-ATG-GTATAATATAAAGTT-TATA-TATATATATAT
975034 ATATAAACTATATGGTATAAGTATA
1 ATATAAACTATATGGTATAA-TATA
975059 TATATAAGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
45 17 0.30
46 18 0.32
47 22 0.39
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.39
Consensus pattern (44 bp):
ATATAAACTATATGGTATAATATAAAGTTTATATATATATATAT
Found at i:975060 original size:53 final size:52
Alignment explanation
Indices: 974958--975074 Score: 128
Period size: 53 Copynumber: 2.2 Consensus size: 52
974948 ACTATATAGA
* * *
974958 AAATATATAAAGTTTATATATATATATATATATATACTATAAAGCATATAATAT
1 AAAT-TATATAGTGTATATATATATATAAATATATACTATAAAGCATAT-ATAT
** *
975012 AAATTATATAGTGTATATATATATATAAACTATATGGTAT-AAGTATATATAT
1 AAATTATATAGTGTATATATATATATAAA-TATATACTATAAAGCATATATAT
*
975064 AAGAATATATA
1 AA-ATTATATA
975075 TGCATATGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
52 6 0.11
53 36 0.67
54 12 0.22
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (52 bp):
AAATTATATAGTGTATATATATATATAAATATATACTATAAAGCATATATAT
Found at i:975065 original size:26 final size:25
Alignment explanation
Indices: 974976--975065 Score: 76
Period size: 26 Copynumber: 3.4 Consensus size: 25
974966 AAAGTTTATA
* **
974976 TATATATATATATATATACTATAAAG
1 TATATATATAAATATATGGTAT-AAG
*
975002 CATATAATATAAATTATATAGTGTAT-A-
1 TATAT-ATATAAA-TATAT-G-GTATAAG
975029 TATATATATAAACTATATGGTATAAG
1 TATATATATAAA-TATATGGTATAAG
975055 TATATATATAA
1 TATATATATAA
975066 GAATATATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
24 4 0.08
25 2 0.04
26 27 0.52
27 10 0.19
28 6 0.12
30 3 0.06
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (25 bp):
TATATATATAAATATATGGTATAAG
Found at i:975103 original size:15 final size:15
Alignment explanation
Indices: 975079--975119 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
975069 TATATATGCA
975079 TATG-TGTACATATG
1 TATGATGTACATATG
975093 TATGATGTACATATG
1 TATGATGTACATATG
975108 TATGATGTACAT
1 TATGATGTACAT
975120 GTATGTATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (15 bp):
TATGATGTACATATG
Found at i:975135 original size:15 final size:13
Alignment explanation
Indices: 975090--975143 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 13
975080 ATGTGTACAT
975090 ATGTATGATGTAC
1 ATGTATGATGTAC
975103 ATATGTATGATGTAC
1 --ATGTATGATGTAC
*
975118 ATGTATGTATGGTCC
1 ATGTATG-AT-GTAC
975133 ATGTAT-ATGTA
1 ATGTATGATGTA
975144 TATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
12 2 0.06
13 9 0.26
14 2 0.06
15 22 0.63
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
ATGTATGATGTAC
Found at i:975263 original size:14 final size:14
Alignment explanation
Indices: 975235--975282 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
975225 ATGTAATTAC
975235 ATATATAAG--TAT
1 ATATATAAGTATAT
*
975247 ATACATAAGTATAT
1 ATATATAAGTATAT
* *
975261 ATATGTAAGTGTAT
1 ATATATAAGTATAT
975275 ATATATAA
1 ATATATAA
975283 TTAAACATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 8 0.28
14 21 0.72
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (14 bp):
ATATATAAGTATAT
Found at i:975711 original size:2 final size:2
Alignment explanation
Indices: 975704--975734 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
975694 CTCACTTTGA
975704 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 A
975735 GAAATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:975929 original size:13 final size:13
Alignment explanation
Indices: 975913--975957 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
975903 TAAAATTAAT
975913 TTAATGATTATAA
1 TTAATGATTATAA
975926 TTAA-GATTTATAA
1 TTAATGA-TTATAA
*
975939 TATAAGGATTATAA
1 T-TAATGATTATAA
975953 TTAAT
1 TTAAT
975958 ATAGGAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 2 0.07
13 14 0.50
14 10 0.36
15 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (13 bp):
TTAATGATTATAA
Found at i:987233 original size:22 final size:22
Alignment explanation
Indices: 987175--987233 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
987165 GACAAGCTGT
* ** *
987175 TAATATCAGGAGTTATTTGATT
1 TAATTTCAGGAGTTACATGATA
*
987197 TAATTCCAAGG-GTTACATGATA
1 TAATTTC-AGGAGTTACATGATA
987219 TAATTTCAGGAGTTA
1 TAATTTCAGGAGTTA
987234 TAACAGTTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 3 0.10
22 23 0.79
23 3 0.10
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (22 bp):
TAATTTCAGGAGTTACATGATA
Found at i:1001486 original size:21 final size:21
Alignment explanation
Indices: 1001461--1001500 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1001451 ATTCTAAATG
* *
1001461 TCTTTTAATTTTATTTTAAGA
1 TCTTTAAATTGTATTTTAAGA
1001482 TCTTTAAATTGTATTTTAA
1 TCTTTAAATTGTATTTTAA
1001501 AAATAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
TCTTTAAATTGTATTTTAAGA
Found at i:1002957 original size:30 final size:30
Alignment explanation
Indices: 1002886--1002960 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
1002876 GATTCTGCAT
* * *
1002886 GGGAATTCGTTCCCCGTCCTGACATTGTAT
1 GGGACTTCGTTCCCCGTCCTAACATTGTAA
*
1002916 GGGACTCCGTTCCCCGTCCTAAC-TCTGTAA
1 GGGACTTCGTTCCCCGTCCTAACAT-TGTAA
1002946 GTGG-CTTCGTTCCCC
1 G-GGACTTCGTTCCCC
1002961 ATTCTGATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 1 0.03
30 35 0.92
31 2 0.05
ACGTcount: A:0.13, C:0.33, G:0.23, T:0.31
Consensus pattern (30 bp):
GGGACTTCGTTCCCCGTCCTAACATTGTAA
Found at i:1003040 original size:60 final size:58
Alignment explanation
Indices: 1002870--1003041 Score: 130
Period size: 60 Copynumber: 2.9 Consensus size: 58
1002860 TATACCAATG
* * * ** *
1002870 CATTTTGATTCTGCATGGGAATTCGTTCCCCGTCCTGACATTGTATGGGACTCCGTTCCC
1 CATTTTGATTCTGCATGGGACTTCGTT-CCCATTCTGATTTTGTATGGGAC-CCGGTCCC
* ** * * * * * * *
1002930 CGTCCTAACTCTGTAAGTGG-CTTCGTTCCCCATTCTGATTCTATAAGGGACCCTGGTCCC
1 CATTTTGATTCTGCATG-GGACTTCGTT-CCCATTCTGATTTTGTATGGGACCC-GGTCCC
*
1002990 CATTTTGATTCTGCATGGGACTTCGTTCCCTTTCTTGATTTTGTATGGGACC
1 CATTTTGATTCTGCATGGGACTTCGTTCCCATTC-TGATTTTGTATGGGACC
1003042 TCATCCCCAT
Statistics
Matches: 81, Mismatches: 27, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
59 10 0.12
60 69 0.85
61 2 0.02
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (58 bp):
CATTTTGATTCTGCATGGGACTTCGTTCCCATTCTGATTTTGTATGGGACCCGGTCCC
Found at i:1005725 original size:20 final size:20
Alignment explanation
Indices: 1005688--1005729 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1005678 ATTCCACCAC
*
1005688 ATGCAACTATATGCTCCTAA
1 ATGCAACTACATGCTCCTAA
* *
1005708 ATGCATCTACATGGTCCTAA
1 ATGCAACTACATGCTCCTAA
1005728 AT
1 AT
1005730 AGGCTCTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (20 bp):
ATGCAACTACATGCTCCTAA
Found at i:1010496 original size:30 final size:30
Alignment explanation
Indices: 1010462--1010535 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
1010452 GTATGAGGCT
1010462 TCGTTCCCCATTCTAATTCAGTAAGGGACC
1 TCGTTCCCCATTCTAATTCAGTAAGGGACC
** *
1010492 TCGTTCCCCATTCTAATTTTGTAAGGGATC
1 TCGTTCCCCATTCTAATTCAGTAAGGGACC
*
1010522 TCATTCCCCATTCT
1 TCGTTCCCCATTCT
1010536 CCTTCTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (30 bp):
TCGTTCCCCATTCTAATTCAGTAAGGGACC
Found at i:1020657 original size:21 final size:21
Alignment explanation
Indices: 1020632--1020680 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1020622 ACATAGTTGA
* *
1020632 TGGACTGTCATGTTAGTTTTG
1 TGGACTGTCACGTTAGTATTG
1020653 TGGACTGTCACGTTAGTATTG
1 TGGACTGTCACGTTAGTATTG
*
1020674 TGAACTG
1 TGGACTG
1020681 CCACATCAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (21 bp):
TGGACTGTCACGTTAGTATTG
Found at i:1032781 original size:2 final size:2
Alignment explanation
Indices: 1032764--1032852 Score: 155
Period size: 2 Copynumber: 45.0 Consensus size: 2
1032754 AATTGCTTAC
1032764 AT AT A- AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1032806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1032847 AT AT AT
1 AT AT AT
1032853 TATTTATTAT
Statistics
Matches: 84, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.02
2 80 0.95
3 2 0.02
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1033096 original size:85 final size:85
Alignment explanation
Indices: 1032948--1033113 Score: 219
Period size: 85 Copynumber: 2.0 Consensus size: 85
1032938 ATACAATCAC
* * * *
1032948 GACACACAAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACGCAATGTGAGTCATG
1 GACACAAAAATGTGTGTCATCTTATTTAATGACGTGGGCTTCAATGACACGCAATGTGAGTCATA
*
1033013 CATGCGTGTCATAAATTTAT
66 AATGCGTGTCATAAATTTAT
* * *
1033033 GACACAAAAATGTGTGTCATCTTCATTT-ATGACG-GAGGCTTCAATGACGCTCAATGTGCGTCA
1 GACACAAAAATGTGTGTCATCTT-ATTTAATGACGTG-GGCTTCAATGACACGCAATGTGAGTCA
*
1033096 TAAATGTGTGTCATAAAT
64 TAAATGCGTGTCATAAAT
1033114 ATGTGTCATC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 66 0.94
86 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (85 bp):
GACACAAAAATGTGTGTCATCTTATTTAATGACGTGGGCTTCAATGACACGCAATGTGAGTCATA
AATGCGTGTCATAAATTTAT
Found at i:1033117 original size:15 final size:13
Alignment explanation
Indices: 1033085--1033127 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
1033075 AATGACGCTC
*
1033085 AATGTGCGTCATA
1 AATGTGTGTCATA
1033098 AATGTGTGTCATA
1 AATGTGTGTCATA
* *
1033111 AATATGTGTCATC
1 AATGTGTGTCATA
1033124 AATG
1 AATG
1033128 CGCATCATAG
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:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (13 bp):
AATGTGTGTCATA
Found at i:1035305 original size:12 final size:10
Alignment explanation
Indices: 1035275--1035304 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1035265 TCATCACACA
1035275 AAATTCTCTC
1 AAATTCTCTC
1035285 AAATTCTCTC
1 AAATTCTCTC
*
1035295 AAATACTCTC
1 AAATTCTCTC
1035305 TGTTTAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:1035379 original size:17 final size:18
Alignment explanation
Indices: 1035349--1035382 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1035339 ATGTATTCAA
1035349 TTTATTTAAGTATTTTAC
1 TTTATTTAAGTATTTTAC
1035367 TTTATTTAA-TATTTTA
1 TTTATTTAAGTATTTTA
1035383 GTAATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTATTTAAGTATTTTAC
Found at i:1037087 original size:18 final size:18
Alignment explanation
Indices: 1037064--1037100 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1037054 CAGCAGCCAC
*
1037064 CGCAGCCATTTATGATGT
1 CGCAGCCATATATGATGT
1037082 CGCAGCCATATATGATGT
1 CGCAGCCATATATGATGT
1037100 C
1 C
1037101 TCCATCGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (18 bp):
CGCAGCCATATATGATGT
Found at i:1043761 original size:2 final size:2
Alignment explanation
Indices: 1043754--1043781 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1043744 CTCATACTCA
1043754 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
1043782 TTCTAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1045476 original size:3 final size:3
Alignment explanation
Indices: 1045468--1045549 Score: 164
Period size: 3 Copynumber: 27.3 Consensus size: 3
1045458 GAGCATTTGT
1045468 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1045516 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1045550 GGAATATTAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1047682 original size:31 final size:31
Alignment explanation
Indices: 1047647--1047714 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
1047637 GAGCTGCTCA
1047647 CGAGCTTCAGTT-A-AAGATTTCGAGTTCGAGT
1 CGAGCTTCAGTTCAGAA-ATTTCGAG-TCGAGT
* *
1047678 CGAGCTTCATTTCAGAATTTTCGAGTCGAGT
1 CGAGCTTCAGTTCAGAAATTTCGAGTCGAGT
1047709 CGAGCT
1 CGAGCT
1047715 CAGCAATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 23 0.70
32 8 0.24
33 2 0.06
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (31 bp):
CGAGCTTCAGTTCAGAAATTTCGAGTCGAGT
Found at i:1053865 original size:23 final size:23
Alignment explanation
Indices: 1053834--1053896 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1053824 CTTATATGGT
* *
1053834 ACTTCGGTGTATTTCTACGCGGC
1 ACTTCGGTGCATTTATACGCGGC
* * *
1053857 ACTTAGGTGCAATTATACGTGGC
1 ACTTCGGTGCATTTATACGCGGC
1053880 ACTTCGGTGCATTTATA
1 ACTTCGGTGCATTTATA
1053897 TGAGCTGTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (23 bp):
ACTTCGGTGCATTTATACGCGGC
Found at i:1056235 original size:13 final size:13
Alignment explanation
Indices: 1056204--1056250 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
1056194 TCACAACCCG
* *
1056204 ACCCGACCCATTG
1 ACCCGACCCGTTT
*
1056217 ATCCGACCCGTTT
1 ACCCGACCCGTTT
1056230 ACCCGACCCGTTT
1 ACCCGACCCGTTT
*
1056243 ACCTGACC
1 ACCCGACC
1056251 TGACCCGTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.19, C:0.45, G:0.15, T:0.21
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:1056262 original size:13 final size:13
Alignment explanation
Indices: 1056246--1056290 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
1056236 CCCGTTTACC
1056246 TGACCTGACCCGT
1 TGACCTGACCCGT
1056259 TGA-CTCGACCCGT
1 TGACCT-GACCCGT
1056272 TGACCATTGACCCGT
1 TGACC--TGACCCGT
1056287 TGAC
1 TGAC
1056291 TGTTGACCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.07
13 13 0.46
14 1 0.04
15 11 0.39
16 1 0.04
ACGTcount: A:0.18, C:0.36, G:0.22, T:0.24
Consensus pattern (13 bp):
TGACCTGACCCGT
Found at i:1056285 original size:15 final size:15
Alignment explanation
Indices: 1056251--1056309 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
1056241 TTACCTGACC
1056251 TGACCCGTTGA-C-T
1 TGACCCGTTGACCAT
*
1056264 CGACCCGTTGACCAT
1 TGACCCGTTGACCAT
**
1056279 TGACCCGTTGACTGT
1 TGACCCGTTGACCAT
1056294 TGACCGGCGTTGACCA
1 TGACC--CGTTGACCA
1056310 CTGTTGACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
15 18 0.50
17 7 0.19
ACGTcount: A:0.17, C:0.32, G:0.25, T:0.25
Consensus pattern (15 bp):
TGACCCGTTGACCAT
Found at i:1058829 original size:43 final size:43
Alignment explanation
Indices: 1058764--1059281 Score: 801
Period size: 43 Copynumber: 12.1 Consensus size: 43
1058754 TTAATTACCG
*
1058764 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
1058807 TTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAAGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
1058850 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1058892 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1058935 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
1058978 TTACAGTTCCCCTAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
1059021 TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
** *
1059064 TTACAGTTTTCCCAGGTCCCTTTGCTGTGTGCAAGGGTAGGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
1059107 TTACAGTTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAG-TTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
1059151 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
1059193 TTACAGTT-TCCCAGGTTCCTTTGCTGTTTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * * *
1059235 TTACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAGGATAAGACC
1 TTACAGTTCCCCCAGGTC-CCTTTGCTGTGTGCAAGGGTAAG-CC
1059279 TTA
1 TTA
1059282 TCGTTTTTGC
Statistics
Matches: 446, Mismatches: 24, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
42 122 0.27
43 280 0.63
44 44 0.10
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.31
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:1062113 original size:19 final size:19
Alignment explanation
Indices: 1062089--1062137 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
1062079 TTCAAGGTGT
*
1062089 ATCGATGCACCTGAAGTGC
1 ATCGATGCACCAGAAGTGC
* *
1062108 ATCGATGCACAAGTAGTGC
1 ATCGATGCACCAGAAGTGC
1062127 ATCGATGCACC
1 ATCGATGCACC
1062138 CCCTTAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (19 bp):
ATCGATGCACCAGAAGTGC
Found at i:1063593 original size:23 final size:23
Alignment explanation
Indices: 1063525--1063593 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
1063515 ACATATTATA
* **
1063525 TGGCACTTTGGTGCATTTCTACA
1 TGGCACTTAGGTGCATTTCTATG
* *
1063548 CGGCACTTAGGTGCAATTCTATG
1 TGGCACTTAGGTGCATTTCTATG
* *
1063571 TGGCACTTCGGTGCATTTATATG
1 TGGCACTTAGGTGCATTTCTATG
1063594 AGTTGTGGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (23 bp):
TGGCACTTAGGTGCATTTCTATG
Found at i:1063651 original size:17 final size:17
Alignment explanation
Indices: 1063631--1063671 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
1063621 CCTCTATAGA
1063631 CTCACATATCTATAGTT
1 CTCACATATCTATAGTT
1063648 CTCACATATCTATAGTT
1 CTCACATATCTATAGTT
1063665 CTCACAT
1 CTCACAT
1063672 GTGTACACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (17 bp):
CTCACATATCTATAGTT
Found at i:1063997 original size:2 final size:2
Alignment explanation
Indices: 1063990--1064024 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1063980 ATGCAATAAG
1063990 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 T
1064025 TATGTTTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1066473 original size:11 final size:11
Alignment explanation
Indices: 1066457--1066481 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1066447 GTTAAATAAT
1066457 TAAATATAAAA
1 TAAATATAAAA
1066468 TAAATATAAAA
1 TAAATATAAAA
1066479 TAA
1 TAA
1066482 TAATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAATATAAAA
Found at i:1066486 original size:17 final size:17
Alignment explanation
Indices: 1066457--1066490 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1066447 GTTAAATAAT
1066457 TAAATATAAAATAAATA
1 TAAATATAAAATAAATA
1066474 TAAA-ATAATAATAAATA
1 TAAATATAA-AATAAATA
1066491 ATTTTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAATATAAAATAAATA
Found at i:1067330 original size:2 final size:2
Alignment explanation
Indices: 1067323--1067347 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1067313 TTTTTAAAAC
1067323 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 A
1067348 CCCCCATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1067547 original size:24 final size:24
Alignment explanation
Indices: 1067515--1067616 Score: 80
Period size: 24 Copynumber: 4.2 Consensus size: 24
1067505 GATATCAAAA
* *
1067515 ATCAAAACATAATTCAGATAAGAT
1 ATCAGAACAGAATTCAGATAAGAT
* * *
1067539 ATCAGAACAGAATCCAGGTTAGGA-
1 ATCAGAACAGAATTCA-GATAAGAT
* *
1067563 ATCAGAACAGATTTCAGATCAGAT
1 ATCAGAACAGAATTCAGATAAGAT
* * * * *
1067587 GTCAAAACAGAATTCAAATCAGAA
1 ATCAGAACAGAATTCAGATAAGAT
1067611 ATCAGA
1 ATCAGA
1067617 TAAAATATTC
Statistics
Matches: 59, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 4 0.07
24 50 0.85
25 5 0.08
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.21
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATAAGAT
Found at i:1067614 original size:48 final size:48
Alignment explanation
Indices: 1067508--1067616 Score: 110
Period size: 48 Copynumber: 2.3 Consensus size: 48
1067498 AAACGGAGAT
* * * * *
1067508 ATCAAAAATCAAAACATAATTCAGATAAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATAAGATATCAAAACAGAATCCAA
* * * * * * *
1067556 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATAAGATATCAAAACAGAATCCAA
1067604 ATCAGAAATCAGA
1 ATCAGAAATCAGA
1067617 TAAAATATTC
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATAAGATATCAAAACAGAATCCAA
Found at i:1069772 original size:2 final size:2
Alignment explanation
Indices: 1069765--1069819 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
1069755 TTTTTAAAAC
1069765 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1069807 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
1069820 CCCCCATCCG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1070014 original size:24 final size:24
Alignment explanation
Indices: 1069987--1070086 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
1069977 GATATCAAAA
*
1069987 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * * *
1070011 ATCAGAACAGAATCCAGGTTAGGA-
1 ATCAAAACAGAATTCAGATCA-GAT
* *
1070035 ATCAGAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
1070059 GTCAAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
1070083 ATCA
1 ATCA
1070087 GATAAAATAT
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
23 2 0.03
24 55 0.93
25 2 0.03
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:1070086 original size:48 final size:48
Alignment explanation
Indices: 1069980--1070088 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
1069970 AAACAGAGAT
* * * * *
1069980 ATCAAAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
1070028 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
1070076 ATCAGAAATCAGA
1 ATCAGAAATCAGA
1070089 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:1072581 original size:8 final size:8
Alignment explanation
Indices: 1072558--1072619 Score: 58
Period size: 8 Copynumber: 7.6 Consensus size: 8
1072548 GGTCAATAGT
1072558 GGTCAACG
1 GGTCAACG
1072566 CCGGTCAACG
1 --GGTCAACG
1072576 GGTCAACG
1 GGTCAACG
1072584 GGT---CG
1 GGTCAACG
*
1072589 GGTCAACA
1 GGTCAACG
1072597 GGTCAAGTCG
1 GGTCAA--CG
1072607 GGTCAACG
1 GGTCAACG
1072615 GGTCA
1 GGTCA
1072620 GGTCTGGTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
5 5 0.11
8 25 0.56
10 15 0.33
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:1072581 original size:18 final size:19
Alignment explanation
Indices: 1072558--1072619 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 19
1072548 GGTCAATAGT
*
1072558 GGTCAACG-CCGGTCAACG
1 GGTCAACGTCGGGTCAACG
*
1072576 GGTCAACGGGTCGGGTCAACA
1 GGTCAAC--GTCGGGTCAACG
1072597 GGTCAA-GTCGGGTCAACG
1 GGTCAACGTCGGGTCAACG
1072615 GGTCA
1 GGTCA
1072620 GGTCTGGTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 23 0.61
20 1 0.03
21 14 0.37
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.15
Consensus pattern (19 bp):
GGTCAACGTCGGGTCAACG
Found at i:1074703 original size:24 final size:24
Alignment explanation
Indices: 1074676--1074775 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 24
1074666 GATATCAAAA
*
1074676 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
1074700 ATCAGAACAGAA-TCTAGGTTAGGA-
1 ATCAAAACAGAATTC-AGATCA-GAT
* *
1074724 ATCAGAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
1074748 GTCAAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
1074772 ATCA
1 ATCA
1074776 GATAAAATAT
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
23 4 0.07
24 51 0.86
25 4 0.07
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:1074775 original size:48 final size:48
Alignment explanation
Indices: 1074669--1074777 Score: 112
Period size: 48 Copynumber: 2.3 Consensus size: 48
1074659 AAACGGAGAT
* * * * *
1074669 ATCAAAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCTAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCTAA
* * * * *
1074717 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAAT-TCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCT-AA
1074765 ATCAGAAATCAGA
1 ATCAGAAATCAGA
1074778 TAAAATATTC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
47 1 0.02
48 46 0.98
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCTAA
Found at i:1077302 original size:13 final size:13
Alignment explanation
Indices: 1077280--1077339 Score: 66
Period size: 13 Copynumber: 4.2 Consensus size: 13
1077270 CGGTCAACGA
1077280 GTCAACGGGTCGG
1 GTCAACGGGTCGG
1077293 GTCAATGGGTCGGGTCGG
1 GTCAA-----CGGGTCGG
1077311 GTCAACGGGTCGG
1 GTCAACGGGTCGG
*
1077324 GTAAACGGGTCGG
1 GTCAACGGGTCGG
1077337 GTC
1 GTC
1077340 GGGTTATGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 27 0.68
18 13 0.32
ACGTcount: A:0.15, C:0.20, G:0.47, T:0.18
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:1077308 original size:18 final size:18
Alignment explanation
Indices: 1077285--1077325 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1077275 AACGAGTCAA
*
1077285 CGGGTCGGGTCAATGGGT
1 CGGGTCGGGTCAACGGGT
1077303 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
1077321 CGGGT
1 CGGGT
1077326 AAACGGGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.20, G:0.51, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:1077316 original size:31 final size:31
Alignment explanation
Indices: 1077280--1077343 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
1077270 CGGTCAACGA
* *
1077280 GTCAACGGGTCGGGTCAATGGGTCGGGTCGG
1 GTCAACGGGTCGGGTAAACGGGTCGGGTCGG
1077311 GTCAACGGGTCGGGTAAACGGGTCGGGTCGG
1 GTCAACGGGTCGGGTAAACGGGTCGGGTCGG
1077342 GT
1 GT
1077344 TATGACCGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.14, C:0.19, G:0.48, T:0.19
Consensus pattern (31 bp):
GTCAACGGGTCGGGTAAACGGGTCGGGTCGG
Found at i:1078901 original size:13 final size:13
Alignment explanation
Indices: 1078883--1078908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1078873 GCAACGAGTA
1078883 AACGGGTCGGGTC
1 AACGGGTCGGGTC
1078896 AACGGGTCGGGTC
1 AACGGGTCGGGTC
1078909 GGGTTATGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15
Consensus pattern (13 bp):
AACGGGTCGGGTC
Found at i:1081590 original size:27 final size:27
Alignment explanation
Indices: 1081552--1081605 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1081542 TAAATTTTTC
1081552 ATGTCATCTTCATACGTTGATAGTTAG
1 ATGTCATCTTCATACGTTGATAGTTAG
1081579 ATGTCATCTTCATACGTTGATAGTTAG
1 ATGTCATCTTCATACGTTGATAGTTAG
1081606 TTGACTAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (27 bp):
ATGTCATCTTCATACGTTGATAGTTAG
Found at i:1086460 original size:19 final size:18
Alignment explanation
Indices: 1086436--1086482 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
1086426 AATAACCAGA
*
1086436 AGTGCATCGATGCATTAT
1 AGTGCATCAATGCATTAT
1086454 CAGTGCATCAATGCATTAT
1 -AGTGCATCAATGCATTAT
1086473 ATGTGCATCA
1 A-GTGCATCA
1086483 GTACATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 1 0.04
19 25 0.96
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (18 bp):
AGTGCATCAATGCATTAT
Found at i:1089182 original size:44 final size:44
Alignment explanation
Indices: 1089120--1089237 Score: 166
Period size: 44 Copynumber: 2.7 Consensus size: 44
1089110 CGACGGGTGT
* *
1089120 ATCGGTACA-CTGCATAGTGTAACGATGCACATTCAAAGAATGC
1 ATCGGTACACCTTCATAGTGTATCGATGCACATTCAAAGAATGC
* * *
1089163 ATCGGTGCACCTTCATAGTGTATCGATGCATATTCAAGGAATGC
1 ATCGGTACACCTTCATAGTGTATCGATGCACATTCAAAGAATGC
* *
1089207 ATTGGTACACTTTCATAGTGTATCGATGCAC
1 ATCGGTACACCTTCATAGTGTATCGATGCAC
1089238 TTAGCATAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 8 0.12
44 57 0.88
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCGGTACACCTTCATAGTGTATCGATGCACATTCAAAGAATGC
Done.