Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008103.1 Hibiscus syriacus cultivar Beakdansim tig00110633_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: 1996589
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 11
Found at i:865671 original size:11 final size:11
Alignment explanation
Indices: 865645--865678 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
865635 ATATGTTTAA
*
865645 ATTATTAATTTA
1 ATTATT-ATTTT
865657 ATTATTATTTT
1 ATTATTATTTT
865668 ATTATTATTTT
1 ATTATTATTTT
865679 CATCTTAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:870472 original size:2 final size:2
Alignment explanation
Indices: 870467--870500 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
870457 ATTTAACCTA
870467 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
870501 TCGAGGACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:873548 original size:20 final size:20
Alignment explanation
Indices: 873523--873565 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
873513 ACAAAGAATT
873523 CCACCTCATACATAGTTGGG
1 CCACCTCATACATAGTTGGG
* *
873543 CCACCTCATACGTAGTTTGG
1 CCACCTCATACATAGTTGGG
873563 CCA
1 CCA
873566 ATAGTTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (20 bp):
CCACCTCATACATAGTTGGG
Found at i:876627 original size:14 final size:15
Alignment explanation
Indices: 876590--876631 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
876580 TGGTTTTTCA
876590 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
876605 GAATTTGAATT-CTG
1 GAAAATGAATTACTG
876619 GAAAATGAATTAC
1 GAAAATGAATTAC
876632 ATTTCAGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (15 bp):
GAAAATGAATTACTG
Found at i:876655 original size:14 final size:14
Alignment explanation
Indices: 876632--876674 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
876622 AATGAATTAC
876632 ATTTCAGGAAAATG
1 ATTTCAGGAAAATG
* *
876646 TTTTCCGGAAAATG
1 ATTTCAGGAAAATG
* *
876660 ATTTCTGTAAAATG
1 ATTTCAGGAAAATG
876674 A
1 A
876675 ATTACATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (14 bp):
ATTTCAGGAAAATG
Found at i:876900 original size:29 final size:30
Alignment explanation
Indices: 876867--876936 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 30
876857 ATTTATTATT
* *
876867 AAATATTATTTT-TATATTTTTAT-TAATAA
1 AAATATTATTTTGTATATTTTAATGAAAT-A
876896 AAATATTAATTTTTGTATATTTTAATGAAATA
1 AAATATT-A-TTTTGTATATTTTAATGAAATA
876928 AAATATTAT
1 AAATATTAT
876937 AAATTATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
29 7 0.20
30 2 0.06
31 5 0.14
32 18 0.51
33 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
AAATATTATTTTGTATATTTTAATGAAATA
Found at i:877026 original size:23 final size:23
Alignment explanation
Indices: 876977--877027 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
876967 GTGTTATATT
**
876977 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
877000 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
877023 ATATT
1 ATATT
877028 ATTTAAACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:877076 original size:25 final size:25
Alignment explanation
Indices: 877023--877164 Score: 67
Period size: 25 Copynumber: 5.3 Consensus size: 25
877013 CTTTATTAAA
877023 ATATTATTTAAACATATAAATAATATTAT
1 ATATTA-TTAAA-ATAT-AA-AATATTAT
877052 -TCATTATTAAATATATAAAAT-TTAT
1 AT-ATTATTAAA-ATATAAAATATTAT
* *
877077 ATATATATTAAAATAAAAAATAATAT
1 ATAT-TATTAAAATATAAAATATTAT
* * *
877103 CT-TATATTATAATATAATTGATTATTTTAT
1 ATAT-TATTAAAATATAA---A--ATATTAT
* *
877133 ATAATATTAAAA-ATATAATATTAT
1 ATATTATTAAAATATAAAATATTAT
877157 ATTATTAT
1 A-TATTAT
877165 AAATATTAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
24 7 0.08
25 32 0.36
26 16 0.18
27 2 0.02
28 11 0.12
29 7 0.08
30 13 0.15
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (25 bp):
ATATTATTAAAATATAAAATATTAT
Found at i:877149 original size:31 final size:32
Alignment explanation
Indices: 877125--877183 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
877115 TATAATTGAT
877125 TATT-TTATATAATATTAA-AAATATAATATTA
1 TATTATTATA-AATATTAATAAATATAATATTA
877156 TATTATTATAAATATTAATAAATA-AATA
1 TATTATTATAAATATTAATAAATATAATA
877184 ATATTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
TATTATTATAAATATTAATAAATATAATATTA
Found at i:877157 original size:22 final size:23
Alignment explanation
Indices: 877132--877175 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
877122 GATTATTTTA
877132 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
877154 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
877176 AATAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:877185 original size:34 final size:31
Alignment explanation
Indices: 877125--877190 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
877115 TATAATTGAT
877125 TATTTTATATAATATTAAAAATATAATATTA
1 TATTTTATATAATATTAAAAATATAATATTA
877156 TATTATTATA-AATATTAATAAATA-AATA--A
1 TATT-TTATATAATATTAA-AAATATAATATTA
877185 TATTTT
1 TATTTT
877191 GATGAAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
28 2 0.06
29 5 0.15
31 16 0.48
32 10 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TATTTTATATAATATTAAAAATATAATATTA
Found at i:877420 original size:42 final size:42
Alignment explanation
Indices: 877368--877481 Score: 192
Period size: 42 Copynumber: 2.7 Consensus size: 42
877358 TACATTCCAG
*
877368 AAAACCAATTACGTGAAACAAACACGGGAAAACATTTTCCGA
1 AAAACAAATTACGTGAAACAAACACGGGAAAACATTTTCCGA
* *
877410 AAAACAAATTACGTGAAACAAACACGGGAACACATTTTCCGG
1 AAAACAAATTACGTGAAACAAACACGGGAAAACATTTTCCGA
*
877452 AAAACGAATTACGTGAAACAAACACGGGAA
1 AAAACAAATTACGTGAAACAAACACGGGAA
877482 TTCGGGGAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.48, C:0.20, G:0.17, T:0.15
Consensus pattern (42 bp):
AAAACAAATTACGTGAAACAAACACGGGAAAACATTTTCCGA
Found at i:884609 original size:21 final size:22
Alignment explanation
Indices: 884583--884627 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
884573 ATGTAACCTT
*
884583 ATTTTTTTAAAAAAATA-AATA
1 ATTTTTTGAAAAAAATATAATA
*
884604 A-TTTTTGAACAAAATATAATA
1 ATTTTTTGAAAAAAATATAATA
884625 ATT
1 ATT
884628 AAAAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
20 13 0.65
21 6 0.30
22 1 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTTTTGAAAAAAATATAATA
Found at i:884634 original size:15 final size:15
Alignment explanation
Indices: 884614--884644 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
884604 ATTTTTGAAC
884614 AAAATATAATAATTA
1 AAAATATAATAATTA
884629 AAAATATAATAATTA
1 AAAATATAATAATTA
884644 A
1 A
884645 GGGTTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATATAATAATTA
Found at i:886984 original size:28 final size:29
Alignment explanation
Indices: 886953--887020 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
886943 AAAAATAAAT
886953 AAATAAATATTAATA-AAAC-ATTTATTAA
1 AAATAAATATTAATATAAACAATTTA-TAA
*
886981 AAAT--ATATTAATATATACAATTTATAA
1 AAATAAATATTAATATAAACAATTTATAA
887008 AAAGTAAAATATT
1 AAA-T-AAATATT
887021 TATTTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
26 9 0.27
27 9 0.27
28 10 0.30
31 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (29 bp):
AAATAAATATTAATATAAACAATTTATAA
Found at i:886988 original size:26 final size:27
Alignment explanation
Indices: 886951--887010 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
886941 TCAAAAATAA
886951 ATAAATAA-ATATTAATA-AAAC-ATTT
1 ATAAA-AATATATTAATATAAACAATTT
*
886976 ATTAAAAATATATTAATATATACAATTT
1 A-TAAAAATATATTAATATAAACAATTT
887004 ATAAAAA
1 ATAAAAA
887011 GTAAAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 3 0.10
26 13 0.43
27 9 0.30
28 5 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
ATAAAAATATATTAATATAAACAATTT
Found at i:888829 original size:3 final size:3
Alignment explanation
Indices: 888823--888895 Score: 114
Period size: 3 Copynumber: 24.7 Consensus size: 3
888813 ATTTATTATT
*
888823 TAA TAA TAA TAA T-A TAA -CA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
888869 TAA TAA TAA TAA TAA TAA TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TA
888896 TAAGCAAATG
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 3 0.05
3 59 0.91
4 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:889406 original size:94 final size:93
Alignment explanation
Indices: 889246--889434 Score: 288
Period size: 94 Copynumber: 2.0 Consensus size: 93
889236 TCTCATTATG
* * *
889246 AACTTCTTCTTCCTTCAGATGAGTTCTTCTTATTATGAACTCTTCTTGGCAATACTGATCCATCG
1 AACTTCTTCTTCCTTCAGATGAGTTATTCTTATTATGAACTCTACCTGGCAATACTGATCCATCG
*
889311 AATGATGAAATCGAGCAAAAAGTTGAAT
66 AATGATGAAATCAAGCAAAAAGTTGAAT
* *
889339 AACTTCTTCTTCTCTTCAGATGAGTTATTCTTATTATGAACTCTACCTGGTAATGCTGATCCATC
1 AACTTCTTCTTC-CTTCAGATGAGTTATTCTTATTATGAACTCTACCTGGCAATACTGATCCATC
* * *
889404 GAATGATGAATTCAAGCGAAAGGTTGAAT
65 GAATGATGAAATCAAGCAAAAAGTTGAAT
889433 AA
1 AA
889435 GTTATTCTCA
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 12 0.14
94 74 0.86
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (93 bp):
AACTTCTTCTTCCTTCAGATGAGTTATTCTTATTATGAACTCTACCTGGCAATACTGATCCATCG
AATGATGAAATCAAGCAAAAAGTTGAAT
Found at i:889475 original size:113 final size:114
Alignment explanation
Indices: 889339--889967 Score: 873
Period size: 113 Copynumber: 5.6 Consensus size: 114
889329 AAAGTTGAAT
* * * * *
889339 AACTTCTTCTT-C-TCTTCAGATGAGTTATTCTTATTATGAACTCTAC-CTGGTAATGCTGATCC
1 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGCTGATCC
** * * * *
889401 ATCGAATGATGAATTCAAGCGAAAGGTTGAATAAGTTATTCTCATTATG
66 ATCGAATGATGAATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATG
* * *
889450 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGTAATGCTGATCC
1 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGCTGATCC
** ** * * *
889514 ATCGAATGATGAATTCAAGTGAAAGGTTAAACAAGTTATTCTCATTATG
66 ATCGAATGATGAATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATG
889563 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-TCTCTGGAAAAGCTGATCC
1 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGCTGATCC
* *
889627 ATCGAGTGATGAATTTGAGCAAAAAGTTGAACAAGCTCTTCTCATTATG
66 ATCGAATGATGAATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATG
* *
889676 AACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCC
1 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGCTGATCC
* * *
889740 ATC-AAGTGATGGATTTGAGAAAAAAGTTGAACAAGCTCTTCTCATTATG
66 ATCGAA-TGATGAATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATG
*
889789 AACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCC
1 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGCTGATCC
*
889853 ATC-AAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATG
66 ATCGAA-TGATGAATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATG
* * *
889902 AACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTCTT-TCTGGAAATGTTGATCC
1 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGCTGATCC
889966 AT
66 AT
889968 TGTGATGGAT
Statistics
Matches: 483, Mismatches: 29, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
111 11 0.02
112 3 0.01
113 467 0.97
114 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (114 bp):
AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGCTGATCC
ATCGAATGATGAATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATG
Found at i:890356 original size:22 final size:21
Alignment explanation
Indices: 890328--890400 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 21
890318 AATAAAGCTT
890328 TCATCTTCAGAAAGAGAATCTA
1 TCATCTT-AGAAAGAGAATCTA
* *
890350 TCATCTTTAAAAAGAGAATTTA
1 TCATC-TTAGAAAGAGAATCTA
*
890372 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTAGAA-AGAGAATCTA
890394 TCATCTT
1 TCATCTT
890401 TGAAGAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
21 4 0.09
22 38 0.86
23 2 0.05
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (21 bp):
TCATCTTAGAAAGAGAATCTA
Found at i:890401 original size:22 final size:22
Alignment explanation
Indices: 890340--890407 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
890330 ATCTTCAGAA
* *
890340 AGAGAATCTATCATCTTTAAAA
1 AGAGAATCTATCATCTTTGAAG
*
890362 AGAGAATTTATCATCTTTGAAG
1 AGAGAATCTATCATCTTTGAAG
890384 AGAGAATCTATCATCTTTGAAG
1 AGAGAATCTATCATCTTTGAAG
890406 AG
1 AG
890408 TGTAGATGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (22 bp):
AGAGAATCTATCATCTTTGAAG
Found at i:895175 original size:15 final size:15
Alignment explanation
Indices: 895152--895228 Score: 64
Period size: 15 Copynumber: 4.9 Consensus size: 15
895142 ATTCAATTTC
*
895152 TCCCCTTTTTCTTTT
1 TCCCTTTTTTCTTTT
*
895167 TCCCTTTTTTCTCATT
1 TCCCTTTTTTCT-TTT
* *
895183 TCTCATTTTTCCTTTT
1 TC-CCTTTTTTCTTTT
*
895199 TCATCTTTTTTCTTTT
1 TC-CCTTTTTTCTTTT
**
895215 TTTCTTTTTTCTTT
1 TCCCTTTTTTCTTT
895229 CTTTGCTGGA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
15 23 0.46
16 19 0.38
17 8 0.16
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (15 bp):
TCCCTTTTTTCTTTT
Found at i:895196 original size:24 final size:24
Alignment explanation
Indices: 895163--895226 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
895153 CCCCTTTTTC
895163 TTTTTCCCTTTTTTCTCATTTCTCA
1 TTTTT-CCTTTTTTCTCATTTCTCA
* * *
895188 TTTTTCC-TTTTTCATCTTTTTTCT
1 TTTTTCCTTTTTTC-TCATTTCTCA
*
895212 TTTTTTCTTTTTTCT
1 TTTTTCCTTTTTTCT
895227 TTCTTTGCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 6 0.18
24 16 0.48
25 11 0.33
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTCCTTTTTTCTCATTTCTCA
Found at i:895200 original size:16 final size:15
Alignment explanation
Indices: 895156--895228 Score: 58
Period size: 16 Copynumber: 4.7 Consensus size: 15
895146 AATTTCTCCC
*
895156 CTTTTT-CTTTTTCC
1 CTTTTTCCTTTTTCT
* *
895170 CTTTTTTCTCATTTCT
1 CTTTTTCCT-TTTTCT
895186 CATTTTTCCTTTTTCAT
1 C-TTTTTCCTTTTTC-T
* *
895203 CTTTTTTCTTTTTTT
1 CTTTTTCCTTTTTCT
*
895218 CTTTTTTCTTT
1 CTTTTTCCTTT
895229 CTTTGCTGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
14 6 0.12
15 14 0.29
16 20 0.41
17 9 0.18
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (15 bp):
CTTTTTCCTTTTTCT
Found at i:895216 original size:7 final size:7
Alignment explanation
Indices: 895157--895254 Score: 61
Period size: 7 Copynumber: 12.3 Consensus size: 7
895147 ATTTCTCCCC
895157 TTTTTCT
1 TTTTTCT
*
895164 TTTTCCCT
1 TTTT-TCT
895172 TTTTTCT
1 TTTTTCT
*
895179 CATTTCTCAT
1 --TTTTTC-T
*
895189 TTTTCCT
1 TTTTTCT
895196 TTTTCATCT
1 TTTT--TCT
895205 TTTTTCTT
1 TTTTTC-T
895213 TTTTTCT
1 TTTTTCT
895220 TTTTTCT
1 TTTTTCT
895227 TTCTTTGCT
1 TT-TTT-CT
895236 GGATTTTTCT
1 ---TTTTTCT
895246 TTTTTCT
1 TTTTTCT
895253 TT
1 TT
895255 CTTTGCTGGA
Statistics
Matches: 73, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
7 32 0.44
8 20 0.27
9 13 0.18
10 3 0.04
11 3 0.04
12 2 0.03
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.73
Consensus pattern (7 bp):
TTTTTCT
Found at i:895262 original size:26 final size:26
Alignment explanation
Indices: 895213--895265 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
895203 CTTTTTTCTT
895213 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCTTTCTTTGCTGGA
895239 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCTTTCTTTGCTGGA
895265 T
1 T
895266 GAGTATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.04, C:0.15, G:0.11, T:0.70
Consensus pattern (26 bp):
TTTTTCTTTTTTCTTTCTTTGCTGGA
Found at i:897597 original size:12 final size:13
Alignment explanation
Indices: 897538--897603 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 13
897528 GCAAATGCAA
897538 AAATG-AAAATAT
1 AAATGCAAAATAT
** *
897550 AAATATAAACATAA
1 AAATGCAAA-ATAT
*
897564 AAATG-AAAA-AA
1 AAATGCAAAATAT
*
897575 AAATGCAAAATGT
1 AAATGCAAAATAT
897588 AAATGC-AAATAT
1 AAATGCAAAATAT
897600 AAAT
1 AAAT
897604 ATGTAATGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
11 7 0.16
12 18 0.41
13 12 0.27
14 7 0.16
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (13 bp):
AAATGCAAAATAT
Found at i:899267 original size:28 final size:26
Alignment explanation
Indices: 899210--899267 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 26
899200 AAACATTAAT
* *
899210 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATA
* *
899236 AAAATAATAAGTATATATAAAAATTTTA
1 AAAATAAT-A-TACATATAAAAATTATA
899264 AAAA
1 AAAA
899268 GAAAGAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 8 0.31
27 1 0.04
28 17 0.65
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATA
Found at i:901730 original size:3 final size:3
Alignment explanation
Indices: 901724--901778 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
901714 ATTTATTATT
*
901724 TAA TAA TAA TAA T-A TAA -CA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
901770 TAAA TAA TA
1 T-AA TAA TA
901779 TAAGCAAATG
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 3 0.06
3 41 0.87
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:911377 original size:2 final size:2
Alignment explanation
Indices: 911370--911394 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
911360 ATACGAAAAC
911370 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
911395 ACAATATTAT
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:911392 original size:71 final size:71
Alignment explanation
Indices: 911233--911382 Score: 255
Period size: 71 Copynumber: 2.1 Consensus size: 71
911223 CACTGCACAT
* * *
911233 TATATATAAACTTATTTACAAAGTAAATTGCAAAACGTGAGAAATGAAAGCAAACTATACGAATA
1 TATATATAAACTTATATACAAAGTAAATTGCAAAACGTGAGAAATGAAACCAAACTATACGAAAA
*
911298 TATATA
66 CATATA
*
911304 TATATATAAACTTATATACAAAGTAAATTGCAAAACGTGAGAAATGGAACCAAACTATACGAAAA
1 TATATATAAACTTATATACAAAGTAAATTGCAAAACGTGAGAAATGAAACCAAACTATACGAAAA
911369 CATATA
66 CATATA
911375 TATATATA
1 TATATATA
911383 TATATATATA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (71 bp):
TATATATAAACTTATATACAAAGTAAATTGCAAAACGTGAGAAATGAAACCAAACTATACGAAAA
CATATA
Found at i:911413 original size:12 final size:13
Alignment explanation
Indices: 911370--911419 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
911360 ATACGAAAAC
911370 ATATATATATATA-T
1 ATAT-TATATA-ACT
*
911384 ATATATATATAACA
1 ATAT-TATATAACT
911398 ATATTATA-AACT
1 ATATTATATAACT
911410 ATATTATATA
1 ATATTATATA
911420 CATAATTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 11 0.34
13 6 0.19
14 15 0.47
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTATATAACT
Found at i:917446 original size:15 final size:15
Alignment explanation
Indices: 917428--917583 Score: 76
Period size: 15 Copynumber: 10.4 Consensus size: 15
917418 TAAAAAATAA
*
917428 AAAAGAGAGAGAAAG
1 AAAAGAGAGAAAAAG
* *
917443 AAAATATAGAAAAAG
1 AAAAGAGAGAAAAAG
*
917458 AAGAAGA-AAAAGAGAGAG
1 AA-AAGAGAGAA-A-A-AG
*
917476 AAAAGATAG-AAAAG
1 AAAAGAGAGAAAAAG
*
917490 AATA-AGA-AAAAAG
1 AAAAGAGAGAAAAAG
* * *
917503 AGAAGAAAGAAAAGAT
1 AAAAGAGAGAAAA-AG
*
917519 AAAAGA-AAAAAAAG
1 AAAAGAGAGAAAAAG
917533 AAGAAGA-AGAAAAAAG
1 AA-AAGAGAG-AAAAAG
*
917549 AAAA-AGAAAAAAAG
1 AAAAGAGAGAAAAAG
*
917563 AAAAGAGA-ATAAAG
1 AAAAGAGAGAAAAAG
917577 AGAAAGA
1 A-AAAGA
917584 AAATAAATCA
Statistics
Matches: 109, Mismatches: 18, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
13 9 0.08
14 27 0.25
15 43 0.39
16 19 0.17
17 6 0.06
18 5 0.05
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (15 bp):
AAAAGAGAGAAAAAG
Found at i:917462 original size:9 final size:9
Alignment explanation
Indices: 917458--917586 Score: 65
Period size: 9 Copynumber: 14.1 Consensus size: 9
917448 ATAGAAAAAG
917458 AAGAAGAAA
1 AAGAAGAAA
917467 AAGAGAGAGAA
1 AAGA-AGA-AA
917478 AAGATAG---
1 AAGA-AGAAA
*
917485 AA-AAGAAT
1 AAGAAGAAA
917493 AAGAA-AAA
1 AAGAAGAAA
917501 AGAGAAGAAA
1 A-AGAAGAAA
917511 GAA-AAGATAA
1 -AAGAAGA-AA
*
917521 AAGAAAAAA
1 AAGAAGAAA
*
917530 AAGAAGAAG
1 AAGAAGAAA
*
917539 AAGAAAAAA
1 AAGAAGAAA
*
917548 GAAAAAGAAA
1 -AAGAAGAAA
917558 AA-AAGAAA
1 AAGAAGAAA
*
917566 AGAGAATAAA
1 A-AGAAGAAA
*
917576 GAGAAAGAAA
1 AAG-AAGAAA
917586 A
1 A
917587 TAAATCAAGT
Statistics
Matches: 92, Mismatches: 13, Indels: 29
0.69 0.10 0.22
Matches are distributed among these distances:
5 2 0.02
6 1 0.01
7 2 0.02
8 12 0.13
9 37 0.40
10 29 0.32
11 9 0.10
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:917462 original size:22 final size:22
Alignment explanation
Indices: 917419--917583 Score: 94
Period size: 22 Copynumber: 7.3 Consensus size: 22
917409 ATAAATTCAT
* *
917419 AAAAAATAAAAAAGAGAGAGAAAG
1 AAAAGATAGAAAA-AGA-AGAAAG
*
917443 AAAATATAGAAAAAGAAG-AAG
1 AAAAGATAGAAAAAGAAGAAAG
*
917464 AAAAAGAGAGAGAAAAGATAGAAAAG
1 -AAAAGATAGA-AAAAGA-AG-AAAG
917490 AATAAGA-A-AAAAGAGAAGAAAG
1 AA-AAGATAGAAAA-AGAAGAAAG
*
917512 AAAAGATA-AAAGAA-AAAAAAG
1 AAAAGATAGAAA-AAGAAGAAAG
917533 AAGAAGA-AGAAAAAAGAA-AAAG
1 AA-AAGATAG-AAAAAGAAGAAAG
* *
917555 AAAA-AAAGAAAAGAGAATAAAG
1 AAAAGATAGAAAA-AGAAGAAAG
917577 AGAAAGA
1 A-AAAGA
917584 AAATAAATCA
Statistics
Matches: 118, Mismatches: 5, Indels: 36
0.74 0.03 0.23
Matches are distributed among these distances:
20 5 0.04
21 24 0.20
22 38 0.32
23 23 0.19
24 18 0.15
25 3 0.03
26 7 0.06
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (22 bp):
AAAAGATAGAAAAAGAAGAAAG
Found at i:917467 original size:12 final size:12
Alignment explanation
Indices: 917450--917564 Score: 72
Period size: 12 Copynumber: 10.1 Consensus size: 12
917440 AAGAAAATAT
917450 AGAAAAAGAAGA
1 AGAAAAAGAAGA
917462 AGAAAAAG-AG-
1 AGAAAAAGAAGA
*
917472 AGAGAAAAG-A-T
1 AGA-AAAAGAAGA
*
917483 AG-AAAAGAATA
1 AGAAAAAGAAGA
917494 AG-AAAA-AAG-
1 AGAAAAAGAAGA
917503 AGAAGAAAGAA-A
1 AGAA-AAAGAAGA
917515 AGATAAAAGAA-A
1 AGA-AAAAGAAGA
*
917527 AAAAAGAAGAAGA
1 AGAAA-AAGAAGA
*
917540 AGAAAAAAGAAAA
1 AG-AAAAAGAAGA
917553 AGAAAAA-AAGA
1 AGAAAAAGAAGA
917564 A
1 A
917565 AAGAGAATAA
Statistics
Matches: 85, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
9 7 0.08
10 7 0.08
11 25 0.29
12 32 0.38
13 11 0.13
14 3 0.04
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (12 bp):
AGAAAAAGAAGA
Found at i:917512 original size:31 final size:30
Alignment explanation
Indices: 917450--917581 Score: 110
Period size: 32 Copynumber: 4.2 Consensus size: 30
917440 AAGAAAATAT
917450 AGAAAAAGAAGAAG-AAAAAGAGAGAGAAAAGA
1 AGAAAAAGAA-AAGAAAAAAGAGA-AG-AAAGA
917482 TAG-AAAAGAATAAGAAAAAAGAGAAGAAAGAAA
1 -AGAAAAAGAA-AAGAAAAAAGAGAAGAAAG--A
*
917515 AGATAAAAGAAAA-AAAAGAAGAAGAAGAAAAA
1 AGA-AAAAGAAAAGAAAA-AAG-AGAAGAAAGA
* *
917547 AGAAAAAGAAAAAAAGAAAAGAGAATAAAG-
1 AGAAAAAGAAAAGAA-AAAAGAGAAGAAAGA
917577 AGAAA
1 AGAAA
917582 GAAAATAAAT
Statistics
Matches: 86, Mismatches: 4, Indels: 21
0.77 0.04 0.19
Matches are distributed among these distances:
30 5 0.06
31 20 0.23
32 27 0.31
33 19 0.22
34 15 0.17
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (30 bp):
AGAAAAAGAAAAGAAAAAAGAGAAGAAAGA
Found at i:917532 original size:30 final size:31
Alignment explanation
Indices: 917452--917586 Score: 117
Period size: 30 Copynumber: 4.5 Consensus size: 31
917442 GAAAATATAG
* *
917452 AAAAAGAAGAAG-AAAAAGAGAGAGAA-AAGA
1 AAAAAGAAAAAGAAAAAAAAGA-AGAAGAAGA
*
917482 TAGAAAAGAATAAG--AAAAAAG-AGAAGAA-A
1 -A-AAAAGAAAAAGAAAAAAAAGAAGAAGAAGA
*
917511 GAAAAGATAAAAGAAAAAAAAGAAGAAGAAGA
1 AAAAAGA-AAAAGAAAAAAAAGAAGAAGAAGA
917543 AAAAAGAAAAAG-AAAAAAAGAA-AAG-AGA
1 AAAAAGAAAAAGAAAAAAAAGAAGAAGAAGA
* *
917571 ATAAAGAGAAAGAAAA
1 AAAAAGAAAAAGAAAA
917587 TAAATCAAGT
Statistics
Matches: 89, Mismatches: 7, Indels: 18
0.78 0.06 0.16
Matches are distributed among these distances:
27 6 0.07
28 17 0.19
29 11 0.12
30 19 0.21
31 19 0.21
32 17 0.19
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (31 bp):
AAAAAGAAAAAGAAAAAAAAGAAGAAGAAGA
Found at i:917540 original size:43 final size:43
Alignment explanation
Indices: 917452--917586 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 43
917442 GAAAATATAG
* * *
917452 AAAAAGAAGAAGAAA-AAGAGAGAGAAAAGATAGAAAAGAATAAGA
1 AAAAAG-AGAAGAAAGAA-A-AGAGAAAAGAAAAAAAAGAAGAAGA
*
917497 AAAAAGAGAAGAAAGAAAAGATAAAAGAAAAAAAAGAAGAAGA
1 AAAAAGAGAAGAAAGAAAAGAGAAAAGAAAAAAAAGAAGAAGA
* * * *
917540 AGAAAAAAGAA-AAAGAAAAAAAGAAAAGAGAATAAAG-AGAAAGA
1 A-AAAAGAGAAGAAAG-AAAAGAGAAAAGAAAAAAAAGAAG-AAGA
917584 AAA
1 AAA
917587 TAAATCAAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
43 30 0.39
44 39 0.51
45 8 0.10
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (43 bp):
AAAAAGAGAAGAAAGAAAAGAGAAAAGAAAAAAAAGAAGAAGA
Found at i:917562 original size:46 final size:46
Alignment explanation
Indices: 917487--917580 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 46
917477 AAAGATAGAA
* *
917487 AAGAATAAGAAAAAAGAGAAGAAAGAAAAGATAAA-AGAAAAAAAAG
1 AAGAAGAAGAAAAAAGAAAAGAAAGAAAAGA-AAAGAGAAAAAAAAG
* *
917533 AAGAAGAAGAAAAAAGAAAAAGAAA-AAAAGAAAAGAGAATAAAGAG
1 AAGAAGAAGAAAAAAG-AAAAGAAAGAAAAGAAAAGAGAAAAAAAAG
917579 AA
1 AA
917581 AGAAAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 3 0.07
46 32 0.76
47 7 0.17
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (46 bp):
AAGAAGAAGAAAAAAGAAAAGAAAGAAAAGAAAAGAGAAAAAAAAG
Found at i:917577 original size:60 final size:61
Alignment explanation
Indices: 917458--917586 Score: 144
Period size: 59 Copynumber: 2.1 Consensus size: 61
917448 ATAGAAAAAG
*
917458 AAGAAGAAAAAGAGAGAGAAAAGATAGAAAAGAATAAGAAAAAAGAGAAGAAAGAAAAGATAA
1 AAGAA-AAAAAGAGAGAGAAAAGATAGAAAAGAAAAAGAAAAAAGAGAAGAAAGAAAAGA-AA
*
917521 AAGAAAAAAA-AGA-AGAAGAAGA-A-AAAAGAAAAAGAAAAAA-AGAA-AAGAGAATAAAGAGA
1 AAGAAAAAAAGAGAGAGAA-AAGATAGAAAAGAAAAAGAAAAAAGAGAAGAA-AG-A-AAAGAAA
917580 AAGAAAA
1 AAGAAAA
917587 TAAATCAAGT
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
57 2 0.03
58 6 0.10
59 25 0.42
60 10 0.17
61 7 0.12
62 5 0.08
63 5 0.08
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (61 bp):
AAGAAAAAAAGAGAGAGAAAAGATAGAAAAGAAAAAGAAAAAAGAGAAGAAAGAAAAGAAA
Found at i:920932 original size:134 final size:135
Alignment explanation
Indices: 920692--921430 Score: 755
Period size: 134 Copynumber: 5.5 Consensus size: 135
920682 ATTGACCTAT
* * ** * *
920692 ATTCAATCTTCTCTGAGTAACAATGGAATGAATCAAAATACCCAGATCTGATTTTCCCTTC-GGA
1 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCC-TCAAGA
* * * *
920756 AGAAGCAGAAAA-A-AT-C-ACTCTCTTTGAAGATCTGATATTCCCTGAGTAACAGTGGAATAAA
65 AGAAG-A-AAAACATATCCTA-TCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
**
920817 TCAAACTCG
127 TCAGCCTCG
* * * * * *
920826 ATTCAATCTTCCCTGAGCAAAAGTGGAATGAATCAACGTCCCCATATTTGATTATACCTCAAGAA
1 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
* *
920891 GAAGAAAAACATA-CCTATCTCTTTCAAGATATGATATTCCCTGAGTAACAGTGGAACAAGTCTG
66 GAAGAAAAACATATCCTATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCAG
920955 CCTCG
131 CCTCG
**
920960 ATTCAATCTTCCCTGAGTAACAGTACAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
1 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
* * * *
921025 GAA-ACAGAACATATCCCTA--GCTTCCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTG
66 GAAGA-AAAACATAT-CCTATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
*
921087 TGCCTCG
129 AGCCTCG
* * * * * * * *
921094 ATTCAATCTTCCCTAAGGAACAGTGAAATGAATCAACGTTCTCAGATATGATTTTGCTTCAAGAA
1 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
*** * * * * *
921159 GAAGTGGAACAGATCC-CTCTTTTTCAAGATTTAATATTCCCTGAGTAATAGTGGAACAAGT-AT
66 GAAGAAAAACATATCCTATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCA-
921222 GCCTCG
130 GCCTCG
* * *
921228 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTAAAAAA
1 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
* ** * * * * **
921293 GAGGTGAAACATAT-CTCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAATAGAACAAGTCCT
66 GAAGAAAAACATATCCTATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCAG
*
921357 CCTTG
131 CCTCG
* * * ** * * *
921362 ATTCAATCTTTCTTGAGGAACAGTAAAATGAATCAACATTCCCAGTTCTGATTTTCCCTCAAGAA
1 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
921427 GAAG
66 GAAG
921431 CAGAACAGAT
Statistics
Matches: 507, Mismatches: 84, Indels: 28
0.82 0.14 0.05
Matches are distributed among these distances:
132 4 0.01
133 8 0.02
134 490 0.97
135 1 0.00
136 4 0.01
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (135 bp):
ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
GAAGAAAAACATATCCTATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCAG
CCTCG
Found at i:921186 original size:268 final size:268
Alignment explanation
Indices: 920692--921441 Score: 878
Period size: 268 Copynumber: 2.8 Consensus size: 268
920682 ATTGACCTAT
* * ** * *
920692 ATTCAATCTTCTCTGAGTAACAATGGAATGAATCAAAATACCCAGATCTGATTTTCCCTTC-GGA
1 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCC-TCAAGA
* * * * * * *
920756 AGAAGCAGAAAAAATCACTCTCTTTGAAGATCTGATATTCCCTGAGTAACAGTGGAATAAATCAA
65 AGAAGCAGAACATATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC-T
* * * * * * * *
920821 ACTCGATTCAATCTTCCCTGAGCAAAAGTGGAATGAATCAACGTCCCCATATTTGATTATACCTC
129 CCTCGATTCAATCTTCCCTGAGGAACAGTGAAATGAATCAACGTTCCCAGATATGATTTTACCTC
* * *
920886 AAGAAGAAGAAAAACATA-CCTATCTCTTTCAAGATATGATATTCCCTGAGTAACAGTGGAACAA
194 AAGAAGAAGAAGAACAGATCCTATCTCTTTCAAGATATAATATTCCCTGAGTAACAGTGGAACAA
*
920950 GTCTGCCTCG
259 GTATGCCTCG
**
920960 ATTCAATCTTCCCTGAGTAACAGTACAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
1 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
* * ** * *
921025 GAAACAGAACATATCCCTAGCTTCCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTGTGC
66 GAAGCAGAACATATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCT-C
* * * *
921090 CTCGATTCAATCTTCCCTAAGGAACAGTGAAATGAATCAACGTTCTCAGATATGATTTTGCTTCA
130 CTCGATTCAATCTTCCCTGAGGAACAGTGAAATGAATCAACGTTCCCAGATATGATTTTACCTCA
** * * * *
921155 AGAAGAAGTGGAACAGATCC-CTCTTTTTCAAGATTTAATATTCCCTGAGTAATAGTGGAACAAG
195 AGAAGAAGAAGAACAGATCCTATCTCTTTCAAGATATAATATTCCCTGAGTAACAGTGGAACAAG
921219 TATGCCTCG
260 TATGCCTCG
* * *
921228 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTAAAAAA
1 ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
** * * * *
921293 G-AGGTGAAACATATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAATAGAACAAGTCCT
66 GAAGCAG-AACATATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT-CT
* * * * * * * *
921357 CCTTGATTCAATCTTTCTTGAGGAACAGTAAAATGAATCAACATTCCCAGTTCTGATTTTCCCTC
129 CCTCGATTCAATCTTCCCTGAGGAACAGTGAAATGAATCAACGTTCCCAGATATGATTTTACCTC
*
921422 AAGAAGAAGCAGAACAGATC
194 AAGAAGAAGAAGAACAGATC
921442 TGTTGGGATT
Statistics
Matches: 405, Mismatches: 72, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
267 4 0.01
268 398 0.98
269 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (268 bp):
ATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAA
GAAGCAGAACATATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTCC
TCGATTCAATCTTCCCTGAGGAACAGTGAAATGAATCAACGTTCCCAGATATGATTTTACCTCAA
GAAGAAGAAGAACAGATCCTATCTCTTTCAAGATATAATATTCCCTGAGTAACAGTGGAACAAGT
ATGCCTCG
Found at i:923672 original size:19 final size:19
Alignment explanation
Indices: 923650--923686 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
923640 AAAATTTTAT
*
923650 TTTGATTTTCAAAATCAAC
1 TTTGACTTTCAAAATCAAC
*
923669 TTTGGCTTTCAAAATCAA
1 TTTGACTTTCAAAATCAA
923687 ATCATTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (19 bp):
TTTGACTTTCAAAATCAAC
Found at i:925908 original size:14 final size:14
Alignment explanation
Indices: 925889--925916 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
925879 TTTTTTTATC
925889 TTTTAAAATTATTT
1 TTTTAAAATTATTT
925903 TTTTAAAATTATTT
1 TTTTAAAATTATTT
925917 AAAAGGTATT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAAAATTATTT
Found at i:941053 original size:14 final size:13
Alignment explanation
Indices: 941035--941060 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
941025 GGAAATTTCT
941035 TTTTTTTCTTTTG
1 TTTTTTTCTTTTG
941048 TTTTTTTCTTTTG
1 TTTTTTTCTTTTG
941061 AATCTTTTAA
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:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (13 bp):
TTTTTTTCTTTTG
Found at i:942714 original size:2 final size:2
Alignment explanation
Indices: 942703--942772 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
942693 AATGAAAGAA
942703 AT AT -T 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
942744 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
942773 AAGATATCAA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:946126 original size:20 final size:20
Alignment explanation
Indices: 946101--946140 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
946091 ATTTTGATAA
946101 AAATATAATAATAAGTTAAG
1 AAATATAATAATAAGTTAAG
946121 AAATATAATAATAAGTTAAG
1 AAATATAATAATAAGTTAAG
946141 GGAATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (20 bp):
AAATATAATAATAAGTTAAG
Found at i:949020 original size:15 final size:15
Alignment explanation
Indices: 949000--949041 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
948990 CTTCATGGGG
*
949000 TAAGAAGACAACGTC
1 TAAGAAGAAAACGTC
949015 TAAGAAGAAAACGTC
1 TAAGAAGAAAACGTC
*
949030 AAAGAAGGAAAA
1 TAAGAA-GAAAA
949042 AGAAAGCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.57, C:0.12, G:0.21, T:0.10
Consensus pattern (15 bp):
TAAGAAGAAAACGTC
Found at i:950089 original size:18 final size:18
Alignment explanation
Indices: 950063--950114 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
950053 ATTAAAATTT
950063 TTCTAACTTCTAATATGA
1 TTCTAACTTCTAATATGA
*
950081 TTCTGACTTCTAATATGA
1 TTCTAACTTCTAATATGA
950099 TTCTAACTTCTAATAT
1 TTCTAACTTCTAATAT
950115 TATTTAGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (18 bp):
TTCTAACTTCTAATATGA
Found at i:952992 original size:46 final size:48
Alignment explanation
Indices: 952886--953023 Score: 174
Period size: 46 Copynumber: 2.9 Consensus size: 48
952876 GAAAAGGAAT
* *
952886 AGGAGAAAGGAGAAGGGACACCGAAGACGGAAAAAAAAAGAAAGGGGAG
1 AGGAGAAAGGAGAAGGGACACCGAAGACGGAAAAAAAAAG-AAGGAGAA
* **
952935 AGGTGAAAGGAGAAGGGACACCGCAA-A-GGAAAAAGGAAG-AGGAGAA
1 AGGAGAAAGGAGAAGGGACACCG-AAGACGGAAAAAAAAAGAAGGAGAA
*
952981 AGGAGAAAGGAGAAGGGACACCGAAGACCGAAAAAAGAAAGAA
1 AGGAGAAAGGAGAAGGGACACCGAAGACGGAAAAAA-AAAGAA
953024 AATGAGAAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
45 2 0.03
46 28 0.37
47 6 0.08
48 13 0.17
49 24 0.32
50 2 0.03
ACGTcount: A:0.53, C:0.09, G:0.37, T:0.01
Consensus pattern (48 bp):
AGGAGAAAGGAGAAGGGACACCGAAGACGGAAAAAAAAAGAAGGAGAA
Found at i:955501 original size:2 final size:2
Alignment explanation
Indices: 955494--955551 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
955484 TCAATCTACA
*
955494 AT AT AT AT AT AT AT A- AA 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
955535 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
955552 ATTTACGAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:956236 original size:17 final size:17
Alignment explanation
Indices: 956214--956247 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
956204 TTCCATTGAT
956214 ATATATATATATATATA
1 ATATATATATATATATA
956231 ATATATATATATATATA
1 ATATATATATATATATA
956248 TAATTACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:956236 original size:19 final size:19
Alignment explanation
Indices: 956212--956251 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
956202 AATTCCATTG
956212 ATATATATATATATATATA
1 ATATATATATATATATATA
956231 ATATATATATATATATATA
1 ATATATATATATATATATA
956250 AT
1 AT
956252 TACATTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATATATATATATATATA
Found at i:956265 original size:2 final size:2
Alignment explanation
Indices: 956212--956249 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
956202 AATTCCATTG
956212 AT AT AT AT AT AT AT AT AT A- 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
956250 ATTACATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:956443 original size:2 final size:2
Alignment explanation
Indices: 956436--956467 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
956426 TATGCGCATC
956436 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
956468 GAAACTATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:956941 original size:27 final size:25
Alignment explanation
Indices: 956907--956969 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 25
956897 TAAATTTAAT
956907 TTTTTAATATTGTCATATTTTTAA-AA
1 TTTTTAATATTGT-AT-TTTTTAATAA
*
956933 TTTTGTAATTTTGTATTTTTTAATTAA
1 TTTT-TAATATTGTATTTTTTAA-TAA
956960 TTTTTAATAT
1 TTTTTAATAT
956970 AATATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 7 0.22
26 11 0.34
27 14 0.44
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (25 bp):
TTTTTAATATTGTATTTTTTAATAA
Found at i:959303 original size:15 final size:15
Alignment explanation
Indices: 959283--959312 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
959273 TAGAATAGAC
959283 ACGTACTCATACTCT
1 ACGTACTCATACTCT
959298 ACGTACTCATACTCT
1 ACGTACTCATACTCT
959313 TCCATGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.07, T:0.33
Consensus pattern (15 bp):
ACGTACTCATACTCT
Found at i:962763 original size:2 final size:2
Alignment explanation
Indices: 962756--962794 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
962746 TTTTAACTAT
*
962756 TA TA TA TA TA TA TA TA T- TCA CA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA T
962795 GTGTGTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:962882 original size:26 final size:26
Alignment explanation
Indices: 962843--962892 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
962833 TATCCTAAGT
* * *
962843 TAAAAGTGTATATATATATATATATA
1 TAAAAGTGGATATAAAGATATATATA
*
962869 TAAAAGTGGGTATAAAGATATATA
1 TAAAAGTGGATATAAAGATATATA
962893 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (26 bp):
TAAAAGTGGATATAAAGATATATATA
Found at i:962966 original size:5 final size:5
Alignment explanation
Indices: 962956--962988 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
962946 ACTTACTAAG
*
962956 TATAA TATAA TATAA TATAA -ATAA TATTA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATA
962989 TATGCTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:964784 original size:18 final size:19
Alignment explanation
Indices: 964761--964797 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
964751 CCTAGGTAAA
964761 GCCCAA-CCAAACCTTAAG
1 GCCCAACCCAAACCTTAAG
964779 GCCCAACCCAAACCTTAAG
1 GCCCAACCCAAACCTTAAG
964798 AATCCCGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.41, G:0.11, T:0.11
Consensus pattern (19 bp):
GCCCAACCCAAACCTTAAG
Found at i:969980 original size:42 final size:41
Alignment explanation
Indices: 969919--970021 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 41
969909 ACTTAGTAAG
* * * *
969919 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGAT-ACTTAAA
1 TCCTTCAGGCCATCTATAAGTCTTTCAAGCAAGATGA--TAAA
* *
969961 TCCTTCAGGTCATCTATAAGTCTTTCAAGCAAGATGATAAG
1 TCCTTCAGGCCATCTATAAGTCTTTCAAGCAAGATGATAAA
*
970002 TCCTTCAAGCCATCTATAAG
1 TCCTTCAGGCCATCTATAAG
970022 ACCTTCGGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
41 21 0.40
42 30 0.58
43 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (41 bp):
TCCTTCAGGCCATCTATAAGTCTTTCAAGCAAGATGATAAA
Found at i:970193 original size:177 final size:176
Alignment explanation
Indices: 969893--970261 Score: 549
Period size: 177 Copynumber: 2.1 Consensus size: 176
969883 ACTAAGCTCG
*
969893 ATTTCCAAAGTTTTTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATACTT
1 ATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATACTT
*
969958 AAATCCTTCAGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGTCCTTCAAGCCATCTATAAGA
66 AAATCCTTCAGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGCCCTTCAAGCCATCTATAAGA
*
970023 CCTTCGGGTAAGATGTTTTAACATGATTTTCAAAAAATGGGAAAAC
131 CCTTCGGGTAAGATGTTTTAACATGATTTTCAAAAAATGAGAAAAC
* * * * *
970069 TATTTCCAAAGTTTCTTACTTAGTAAGTTCTTTGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
1 -ATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATACT
** * ***
970134 TAAATCCTTTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGCCCTTTGGGCCATCTATAAG
65 TAAATCCTTCAGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGCCCTTCAAGCCATCTATAAG
* * * *
970199 ACCTTCGGGTAGGATGTTTTCACATGATTTTCGAAAAATGAGAAAGC
130 ACCTTCGGGTAAGATGTTTTAACATGATTTTCAAAAAATGAGAAAAC
*
970246 AGTTTCCAAAGCTTCT
1 A-TTTCCAAAGTTTCT
970262 CATTTAAATC
Statistics
Matches: 172, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 1 0.01
177 171 0.99
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (176 bp):
ATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATACTT
AAATCCTTCAGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGCCCTTCAAGCCATCTATAAGA
CCTTCGGGTAAGATGTTTTAACATGATTTTCAAAAAATGAGAAAAC
Found at i:970195 original size:41 final size:42
Alignment explanation
Indices: 970098--970198 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
970088 TTAGTAAGTT
* * *
970098 CTTTGGGTCATC-AGTAAGTCTTTCGAGCATGATGCTTAAATC
1 CTTTGGGTCATCTA-TAAGTCTTTCGAGCAAGATGCATAAACC
*
970140 CTTTGGGTCATCTATAAGTCTTTCGAGCAAGATG-ATAAGCC
1 CTTTGGGTCATCTATAAGTCTTTCGAGCAAGATGCATAAACC
*
970181 CTTTGGGCCATCTATAAG
1 CTTTGGGTCATCTATAAG
970199 ACCTTCGGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 21 0.40
42 31 0.58
43 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (42 bp):
CTTTGGGTCATCTATAAGTCTTTCGAGCAAGATGCATAAACC
Found at i:970464 original size:238 final size:238
Alignment explanation
Indices: 970063--970651 Score: 887
Period size: 238 Copynumber: 2.5 Consensus size: 238
970053 CAAAAAATGG
* * * *
970063 GAAAACTATTTCCAAAGTTTCTTACTTAGTAAGTTCTTTGGGTCATCAGTAAGTCTTTCGAGCAT
1 GAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
** *
970128 GATGCTTAAATCCTTTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGCCCTTTGGGCCATC
66 GATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGCCCTTCGGGCCATC
** * *
970193 TATAAGACCTTCGGGTAGGATGTTTTCACATGATTTTCGAAAAATGAGAAAGC-AGTTTCCAAAG
131 TATAAGACCTTCGGCCAGGATGTTTTCACATGATTTTCAAAAAATGAGAAAACGA-TTTCCAAAG
* *
970257 CTTCTCATTTAAATC-TTTTCTGAAAATTGATTTTTAAAAGGTAA
195 CTTCTCATTTAAATCTTTTTCTAAAAATTGATTTTGAAAA-GTAA
* *
970301 GAAAATGATTTACAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
1 GAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
**
970366 GATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATC
66 GATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGCCCTTCGGGCCATC
*
970431 TATAAGACCTTCGGCCAGGATGTTTTCACATGATTTTCAAAAAATGAGAAAACGATTTCCAAAGT
131 TATAAGACCTTCGGCCAGGATGTTTTCACATGATTTTCAAAAAATGAGAAAACGATTTCCAAAGC
970496 TTCTCATTTAAATCTTTTTCTAAAAATTGATTTTGAAAAGTAA
196 TTCTCATTTAAATCTTTTTCTAAAAATTGATTTTGAAAAGTAA
* * **
970539 GAAAACGATTTCCAAAATTTATTACTTAGTAAGTCCTTCGACCCATCAGTAAGTCTTTCGAGCAT
1 GAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
** * * *
970604 GATATTTAAATCCTTCAGGCCATC-AGTAAGTCTTTTGAGCATGATGAT
66 GATGCTTAAATCCTTCAGGTCATCTA-TAAGTCTTTCGAGCAAGATGAT
970652 TAAATCATTC
Statistics
Matches: 319, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
237 1 0.00
238 295 0.92
239 23 0.07
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (238 bp):
GAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
GATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGCCCTTCGGGCCATC
TATAAGACCTTCGGCCAGGATGTTTTCACATGATTTTCAAAAAATGAGAAAACGATTTCCAAAGC
TTCTCATTTAAATCTTTTTCTAAAAATTGATTTTGAAAAGTAA
Found at i:970631 original size:42 final size:42
Alignment explanation
Indices: 970581--970693 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 42
970571 GTCCTTCGAC
*
970581 CCATCAGTAAGTCTTTCGAGCATGAT-ATTTAAATCCTTCAGG
1 CCATCAGTAAGTCTTTCGAGCATGATGA-TTAAATCATTCAGG
*
970623 CCATCAGTAAGTCTTTTGAGCATGATGATTAAATCATTCAGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCAGG
* * *
970665 TCATCTA-TAAGTCATTCGAGCAAGATGAT
1 CCATC-AGTAAGTCTTTCGAGCATGATGAT
970694 AAGTCCTTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
42 61 0.97
43 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (42 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCAGG
Found at i:971325 original size:133 final size:131
Alignment explanation
Indices: 971053--971790 Score: 789
Period size: 130 Copynumber: 5.6 Consensus size: 131
971043 ATTGATCTCA
* * *
971053 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATGTTTCCATATCTGATCTA-CCTGAAGAG
1 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTTTTCAGATCTGATCTACCCTGAAGAG
* * * * * **
971117 CAGCGAAACAGATCCTTTTTTTCCGGATTTGGTCTTCCCTGAGGAGTAGTGGAACAAATCTAACT
66 CAGCGAATCAGATCCCTTTTTT-CAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTGCCT
*
971182 CA
130 CG
* * * * *
971184 ATTTAATCTTCCCTAAAGAACATTGGAATAAATCAACATTTTCAGATCTGATCTACCCTGAAGAG
1 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTTTTCAGATCTGATCTACCCTGAAGAG
* * * *
971249 CAGCGAATCATATCACCTTTTTTCCAGATTTGGTCTTCCTTGAGGAGCAGTGGAACAAATCTACC
66 CAGCGAATCAGATC-CCTTTTTT-CAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTGCC
971314 TCG
129 TCG
* * * * * *
971317 ATTCAATCTTTCTTGAATAACAGTGGAATGAATCAATGTTTCCAGATCTGATCTACCCTAAAGAG
1 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTTTTCAGATCTGATCTACCCTGAAGAG
* * * *
971382 CAGCGGATCAGATCCTCTTTTTTCATA-TT-ATCTTCCCTAAGGAGCAGTGGAACAAATGTGCCT
66 CAGCGAATCAGATCC-CTTTTTTCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTGCCT
971445 CG
130 CG
* *
971447 ATTCAATCTT-CCTGAAGAATAGTGGAATGAATCAATG-TTTCTAGATCTGATCTACCCTGAAGA
1 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTTTTC-AGATCTGATCTACCCTGAAGA
* * *
971510 GCAGC-AGATCAGATCCC-TTATTCAGATTTGATCTTCCCTAAGGAGTAGTGGAACAAATCTGCC
65 GCAGCGA-ATCAGATCCCTTTTTTCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTGCC
971573 TC-
129 TCG
* * * *
971575 AGTTCAATCTTCCTTGAAAAACAGTGGAATTAATCAACGTTTTCAGATTTGATCTACCCTGAAGA
1 A-TTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTTTTCAGATCTGATCTACCCTGAAGA
* * * * * * * *
971640 GCAGC-AGAGCATA-CCCTTTTTTCATATTTGATCTTTCTTGAGGAGAAGTGGAATAAATATGCC
65 GCAGCGA-ATCAGATCCCTTTTTTCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTGCC
971703 TCG
129 TCG
* * * ** * * *
971706 ATTCAGTCTACTCTGAAGAGTAGTGGAATGAATTAAC-TTTTCCAGATCTTATTTACCCTGAAGA
1 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTTTT-CAGATCTGATCTACCCTGAAGA
* *
971770 GCA-CTGGAGCAGATCCCTTTT
65 GCAGC-GAATCAGATCCCTTTT
971791 CAAATTTAAT
Statistics
Matches: 516, Mismatches: 75, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
127 7 0.01
128 7 0.01
129 108 0.21
130 188 0.36
131 61 0.12
132 25 0.05
133 120 0.23
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (131 bp):
ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTTTTCAGATCTGATCTACCCTGAAGAG
CAGCGAATCAGATCCCTTTTTTCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTGCCTC
G
Found at i:971600 original size:259 final size:256
Alignment explanation
Indices: 971049--971804 Score: 826
Period size: 259 Copynumber: 2.9 Consensus size: 256
971039 GCAAATTGAT
* * * *
971049 CTCAATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATGTTTCCATATCTGATCTA-CCTGA
1 CTCAGTTCAATCTTCCTTGAAAAACAGTGGAATGAATCAATGTTTCCAGATCTGATCTACCCTGA
* * *
971113 AGAGCAGCGAAACAGATCCT-TTTTTTCCGGAT-TTGGTCTTCCCTGAGGAGTAGTGGAACAAAT
66 AGAGCAGCGGAACAGATCCTCTTTTTT-C--ATATTGATCTTCCCTGAGGAGAAGTGGAACAAAT
* ** * * * * * *
971176 CTAACTCAATTTAATCTTCCCTAAAGAACATTGGAATAAATCAACATTTTCAGATCTGATCTACC
128 ATGCCTCGATTCAATCTT-CCTGAAGAATAGTGGAATGAATC-A-ATTTTCAGATCTGATCTACC
* * * *
971241 CTGAAGAGCAGCGAATCATATCACCTTTTTTCCAGATTTGGTCTTCCTTGAGGAGCAGTGGAACA
190 CTGAAGAGCAGCG-ATCAGATC-CC--TTTT-CAGATTTGATCTTCCCTAAGGAGCAGTGGAACA
971306 AATCTAC
250 AATCTAC
* * *
971313 CTC-GATTCAATCTTTCTTGAATAACAGTGGAATGAATCAATGTTTCCAGATCTGATCTACCCTA
1 CTCAG-TTCAATCTTCCTTGAAAAACAGTGGAATGAATCAATGTTTCCAGATCTGATCTACCCTG
* * * *
971377 AAGAGCAGCGGATCAGATCCTCTTTTTTCATATT-ATCTTCCCTAAGGAGCAGTGGAACAAATGT
65 AAGAGCAGCGGAACAGATCCTCTTTTTTCATATTGATCTTCCCTGAGGAGAAGTGGAACAAATAT
971441 GCCTCGATTCAATCTTCCTGAAGAATAGTGGAATGAATCAATGTTTCTAGATCTGATCTACCCTG
130 GCCTCGATTCAATCTTCCTGAAGAATAGTGGAATGAATCAAT-TTTC-AGATCTGATCTACCCTG
* *
971506 AAGAGCAGCAGATCAGATCCCTTATTCAGATTTGATCTTCCCTAAGGAGTAGTGGAACAAATCTG
193 AAGAGCAGC-GATCAGATCCCTT-TTCAGATTTGATCTTCCCTAAGGAGCAGTGGAACAAATCTA
971571 C
256 C
* * * *
971572 CTCAGTTCAATCTTCCTTGAAAAACAGTGGAATTAATCAACGTTTTCAGATTTGATCTACCCTGA
1 CTCAGTTCAATCTTCCTTGAAAAACAGTGGAATGAATCAATGTTTCCAGATCTGATCTACCCTGA
* * * * * *
971637 AGAGCAGCAGAGCATA-CC-CTTTTTTCATATTTGATCTTTCTTGAGGAGAAGTGGAATAAATAT
66 AGAGCAGCGGAACAGATCCTCTTTTTTCATA-TTGATCTTCCCTGAGGAGAAGTGGAACAAATAT
* * * * * *
971700 GCCTCGATTCAGTCTACTCTGAAGAGTAGTGGAATGAATTAACTTTTCCAGATCTTATTTACCCT
130 GCCTCGATTCAATCTTC-CTGAAGAATAGTGGAATGAATCAA-TTTT-CAGATCTGATCTACCCT
* * *
971765 GAAGAGCA-CTGGAGCAGATCCCTTTTCAAATTTAATCTTC
192 GAAGAGCAGC--GATCAGATCCCTTTTCAGATTTGATCTTC
971805 AAGAATCTCT
Statistics
Matches: 425, Mismatches: 52, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
257 11 0.03
258 4 0.01
259 160 0.38
260 64 0.15
261 9 0.02
262 52 0.12
263 41 0.10
264 55 0.13
265 23 0.05
266 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (256 bp):
CTCAGTTCAATCTTCCTTGAAAAACAGTGGAATGAATCAATGTTTCCAGATCTGATCTACCCTGA
AGAGCAGCGGAACAGATCCTCTTTTTTCATATTGATCTTCCCTGAGGAGAAGTGGAACAAATATG
CCTCGATTCAATCTTCCTGAAGAATAGTGGAATGAATCAATTTTCAGATCTGATCTACCCTGAAG
AGCAGCGATCAGATCCCTTTTCAGATTTGATCTTCCCTAAGGAGCAGTGGAACAAATCTAC
Found at i:971976 original size:15 final size:14
Alignment explanation
Indices: 971951--971980 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
971941 GAGAGAAAGC
971951 TAAATAAAATAAAA
1 TAAATAAAATAAAA
971965 TAAATAAAAATAAAA
1 TAAAT-AAAATAAAA
971980 T
1 T
971981 GACTAGACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAATAAAATAAAA
Found at i:977014 original size:7 final size:7
Alignment explanation
Indices: 976978--977037 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
976968 AGTTTAAGAT
*
976978 TTTAGAT
1 TTTAGAA
*
976985 TTTAGGA
1 TTTAGAA
*
976992 TTTAGAGC
1 TTTAGA-A
977000 TTTA-AA
1 TTTAGAA
977006 TTTAGAA
1 TTTAGAA
977013 TTTAGAA
1 TTTAGAA
977020 TTT-GAAA
1 TTTAG-AA
*
977027 TTTAAAA
1 TTTAGAA
977034 TTTA
1 TTTA
977038 AATAATTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 5 0.12
7 34 0.79
8 4 0.09
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (7 bp):
TTTAGAA
Found at i:977015 original size:21 final size:21
Alignment explanation
Indices: 976985--977037 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
976975 GATTTTAGAT
* *
976985 TTTAGGATTTAGAGCTTT-AAA
1 TTTAGAATTTAGA-ATTTGAAA
977006 TTTAGAATTTAGAATTTGAAA
1 TTTAGAATTTAGAATTTGAAA
*
977027 TTTAAAATTTA
1 TTTAGAATTTA
977038 AATAATTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (21 bp):
TTTAGAATTTAGAATTTGAAA
Found at i:978048 original size:60 final size:61
Alignment explanation
Indices: 977967--978130 Score: 191
Period size: 60 Copynumber: 2.8 Consensus size: 61
977957 TGATTAGTAT
* *
977967 ATAGT-ATAGTTT-GGGATGAAATTGGAATGTTCAAAATGTTTGGGGA-TAATTTAGAATG
1 ATAGTCATAGTTTGGGGATGAAATTGGAATATTCAAAATGTTTGAGGATTAATTTAGAATG
* * *
978025 A-AGGTCATAGTTTGGGGATGAAATTGAAATATTTAAAA-GTTTGAGGATTAATTTATAATG
1 ATA-GTCATAGTTTGGGGATGAAATTGGAATATTCAAAATGTTTGAGGATTAATTTAGAATG
* *
978085 ATAGTCATAGTTTAGGGG-TGAAATTAGAATATACAAAAT-TTT-AGGA
1 ATAGTCATAGTTT-GGGGATGAAATTGGAATATTCAAAATGTTTGAGGA
978131 ACCAATCTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
57 1 0.01
58 3 0.03
59 19 0.21
60 62 0.69
61 5 0.06
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.35
Consensus pattern (61 bp):
ATAGTCATAGTTTGGGGATGAAATTGGAATATTCAAAATGTTTGAGGATTAATTTAGAATG
Found at i:978757 original size:16 final size:16
Alignment explanation
Indices: 978730--978776 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
978720 TGAAATAAGG
978730 AAAGT-AATAAAAAAT
1 AAAGTAAATAAAAAAT
978745 AAAG-AAGAT-AAAAAT
1 AAAGTAA-ATAAAAAAT
978760 AAAGTAAATATAAAAAT
1 AAAGTAAATA-AAAAAT
978777 GAATAGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
15 17 0.63
16 4 0.15
17 6 0.22
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (16 bp):
AAAGTAAATAAAAAAT
Found at i:978979 original size:2 final size:2
Alignment explanation
Indices: 978974--979002 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
978964 TAAAAAAGTA
978974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
979003 ACAGTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:981607 original size:23 final size:21
Alignment explanation
Indices: 981577--981624 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 21
981567 CATGTTGGAA
981577 TCTTGATTCTGGAATCTTGAAGT
1 TCTTGATTCTGG-ATCTTGAA-T
*
981600 TCTTGATTCTTGATCTTGAAT
1 TCTTGATTCTGGATCTTGAAT
981621 TCTT
1 TCTT
981625 CAAATTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 11 0.46
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.50
Consensus pattern (21 bp):
TCTTGATTCTGGATCTTGAAT
Found at i:992827 original size:4 final size:4
Alignment explanation
Indices: 992818--992916 Score: 61
Period size: 4 Copynumber: 25.5 Consensus size: 4
992808 ATGATAATGC
* *
992818 AAAT AAAT AAAT AAAT AAAC AAAT AAA- AGAA- AGAT AAA- AAGAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AA-AT AAAT
* *
992864 AATAG AGAAT -AA- AAAT AAA- AAGA- AAAT AGAT AAAT AAAT AAAT AAAT
1 AA-AT A-AAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT
992911 AAAT AA
1 AAAT AA
992917 GTATATATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
3 13 0.17
4 59 0.77
5 4 0.05
6 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:993033 original size:12 final size:12
Alignment explanation
Indices: 993018--993062 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
993008 AAAATAGGAA
*
993018 ATATAATTATAT
1 ATATAATAATAT
993030 ATATAATAATACT
1 ATATAATAATA-T
*
993043 A-ATAATAAAAT
1 ATATAATAATAT
993054 ATATAATAA
1 ATATAATAA
993063 AATTAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 2 0.07
12 25 0.86
13 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATAATAATAT
Found at i:994349 original size:2 final size:2
Alignment explanation
Indices: 994342--994384 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
994332 TTTACAATCC
994342 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
994384 T
1 T
994385 TTAACGTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:996754 original size:60 final size:59
Alignment explanation
Indices: 996675--996836 Score: 202
Period size: 60 Copynumber: 2.7 Consensus size: 59
996665 ATTATATATC
* **
996675 AGTCCT-AAACTTTTAAACATTCTAATTTCATACTCAAACTATG-GTTGTCATTCTAAATT
1 AGTCCTCAAACTTTTGAACATTCTAATTTCAT-CTCAAACTATGACCT-TCATTCTAAATT
* *
996734 AGTCCTCAAACTTTTGAACATTTTAATTCCATCCTCAAACTATGACCTTCATTCTAAATT
1 AGTCCTCAAACTTTTGAACATTCTAATTTCAT-CTCAAACTATGACCTTCATTCTAAATT
* * *
996794 AGTCCCCAAACTTTTTGAAGATTCTAATTTCATCCCAAACTAT
1 AGTCCTCAAAC-TTTTGAACATTCTAATTTCATCTCAAACTAT
996837 ATGTATATAC
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
59 6 0.07
60 64 0.72
61 19 0.21
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (59 bp):
AGTCCTCAAACTTTTGAACATTCTAATTTCATCTCAAACTATGACCTTCATTCTAAATT
Found at i:997109 original size:59 final size:58
Alignment explanation
Indices: 996981--997144 Score: 204
Period size: 59 Copynumber: 2.8 Consensus size: 58
996971 AAATTGGAAG
** * * *
996981 ATTCAAAAGTTTGGGGACTAATTTAAAAT-AAGGGTCATAGTTTAGGAATGAAATTATAAT
1 ATTCAAAAGTTTAAGGACTAATTTAAAATGAA--GTCATAGTTT-GGAATAAAATCAGAAT
*
997041 ATTCAAAAGTTTAAGGACTAATTTAAAATGAAGTCATAGATTGGAGATAAAATCAGAAT
1 ATTCAAAAGTTTAAGGACTAATTTAAAATGAAGTCATAGTTTGGA-ATAAAATCAGAAT
* *
997100 ATTTAAAAGTTTAAGGACCAATTTAAAATGAGAGTCATAGTTTGG
1 ATTCAAAAGTTTAAGGACTAATTTAAAATGA-AGTCATAGTTTGG
997145 GGACATATGA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
58 3 0.03
59 48 0.52
60 39 0.42
61 2 0.02
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (58 bp):
ATTCAAAAGTTTAAGGACTAATTTAAAATGAAGTCATAGTTTGGAATAAAATCAGAAT
Found at i:1003446 original size:16 final size:18
Alignment explanation
Indices: 1003414--1003448 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1003404 AAAGATTTTG
1003414 TTTTCACAAATATAATTA
1 TTTTCACAAATATAATTA
1003432 TTTTCA-AAATA-AATTA
1 TTTTCACAAATATAATTA
1003448 T
1 T
1003449 AAATAGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTTCACAAATATAATTA
Found at i:1005431 original size:21 final size:21
Alignment explanation
Indices: 1005391--1005431 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1005381 TCTGGGCTAA
* *
1005391 GGGAATCGGTACCCATTCAAG
1 GGGAATCGATACCCACTCAAG
*
1005412 GGGAATCGATACCCCCTCAA
1 GGGAATCGATACCCACTCAA
1005432 CGAATATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (21 bp):
GGGAATCGATACCCACTCAAG
Found at i:1006159 original size:149 final size:150
Alignment explanation
Indices: 1005970--1006285 Score: 582
Period size: 150 Copynumber: 2.1 Consensus size: 150
1005960 GGGTAGAGGG
* *
1005970 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTATGGAACATGTGTGAAGTCTTGGAAAGACACA
1006034 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
1006099 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
*
1006119 TCTACGCGGTCCTTCGGGATATATATATATTCTATGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTATGGAACATGTGTGAAGTCTTGGAAAGACACA
1006184 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
1006249 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
1006269 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1006286 TGCATTTATA
Statistics
Matches: 162, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
149 52 0.32
150 110 0.68
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTATGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:1012381 original size:21 final size:21
Alignment explanation
Indices: 1012339--1012381 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1012329 TTTCTGGGCT
* *
1012339 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1012360 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1012381 A
1 A
1012382 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1012732 original size:18 final size:18
Alignment explanation
Indices: 1012709--1012743 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1012699 TCTAGATTTT
1012709 ATATCATGGTA-TATGAGC
1 ATATCAT-GTATTATGAGC
1012727 ATATCATGTATTATGAG
1 ATATCATGTATTATGAG
1012744 ACATGACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (18 bp):
ATATCATGTATTATGAGC
Found at i:1013109 original size:149 final size:150
Alignment explanation
Indices: 1012920--1013235 Score: 564
Period size: 150 Copynumber: 2.1 Consensus size: 150
1012910 GGGTAGAGGG
* *
1012920 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1012984 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
*
1013049 ATATGGCACTACGGTGCAAT
131 ATATGACACTACGGTGCAAT
*
1013069 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1013134 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
*
1013199 ATATGACATTACGGTGCAAT
131 ATATGACACTACGGTGCAAT
1013219 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1013236 TGCATTTATA
Statistics
Matches: 160, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
149 52 0.32
150 108 0.68
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
ATATGACACTACGGTGCAAT
Found at i:1014526 original size:36 final size:36
Alignment explanation
Indices: 1014477--1014665 Score: 225
Period size: 36 Copynumber: 5.2 Consensus size: 36
1014467 GATACATCTG
* **
1014477 TCCGTTCAATTTGAATCGGAAGTGCCGATGTTTCCT
1 TCCGTTCGATTTGAATCGGAAGTGCCGATGCCTCCT
* * *
1014513 TCCATTCGATTTGAATCAGAAGTGCCGATACCTCCT
1 TCCGTTCGATTTGAATCGGAAGTGCCGATGCCTCCT
* ** * *
1014549 TCCGTTCAATTTGAATCGGAAGTGTTGATGTCTCAT
1 TCCGTTCGATTTGAATCGGAAGTGCCGATGCCTCCT
* * * *
1014585 TCCGTTCGACTTGAATCGAAAGTGTCGATGCCTCAT
1 TCCGTTCGATTTGAATCGGAAGTGCCGATGCCTCCT
* *
1014621 TTCGTTCGACTTGAATCGGAAGTGCCGATGCCTCCT
1 TCCGTTCGATTTGAATCGGAAGTGCCGATGCCTCCT
1014657 TCCGTTCGA
1 TCCGTTCGA
1014666 CTAGAAACGC
Statistics
Matches: 129, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 129 1.00
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (36 bp):
TCCGTTCGATTTGAATCGGAAGTGCCGATGCCTCCT
Found at i:1014593 original size:72 final size:71
Alignment explanation
Indices: 1014458--1014667 Score: 253
Period size: 72 Copynumber: 2.9 Consensus size: 71
1014448 AAACTCGAAA
* * *
1014458 CGAAAGTGCGATACAT-CTGTCCGTTCAATTTGAATCGGAAGTGCCGATGTTTCCTTCCATTCGA
1 CGAAAGTGCGATACCTCCT-TCCGTTCAATTTGAATCGGAAGTGCCGATGTCTCCTTCCGTTCGA
*
1014522 TTTGAAT
65 CTTGAAT
** *
1014529 C-AGAAGTGCCGATACCTCCTTCCGTTCAATTTGAATCGGAAGTGTTGATGTCTCATTCCGTTCG
1 CGA-AAGTG-CGATACCTCCTTCCGTTCAATTTGAATCGGAAGTGCCGATGTCTCCTTCCGTTCG
1014593 ACTTGAAT
64 ACTTGAAT
* * * * * *
1014601 CGAAAGTGTCGATGCCTCATTTCGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCCGTTCGA
1 CGAAAGTG-CGATACCTCCTTCCGTTCAATTTGAATCGGAAGTGCCGATGTCTCCTTCCGTTCGA
1014666 CT
65 CT
1014668 AGAAACGCGG
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
70 1 0.01
71 6 0.05
72 108 0.92
73 3 0.03
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (71 bp):
CGAAAGTGCGATACCTCCTTCCGTTCAATTTGAATCGGAAGTGCCGATGTCTCCTTCCGTTCGAC
TTGAAT
Found at i:1016799 original size:20 final size:20
Alignment explanation
Indices: 1016774--1016834 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 20
1016764 GATCCCAGAT
1016774 TTTTCATAGTTCCAGCACAC
1 TTTTCATAGTTCCAGCACAC
* * *
1016794 TTTTC--AGATCCA--AGAT
1 TTTTCATAGTTCCAGCACAC
1016810 TTTTCATAGTTCCAGCACAC
1 TTTTCATAGTTCCAGCACAC
1016830 TTTTC
1 TTTTC
1016835 TATCCTGCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 7 0.23
18 12 0.39
20 12 0.39
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.39
Consensus pattern (20 bp):
TTTTCATAGTTCCAGCACAC
Found at i:1016810 original size:36 final size:36
Alignment explanation
Indices: 1016762--1016834 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
1016752 CCCATACTTG
*
1016762 CAGATCCCAGATTTTTCATAGTTCCAGCACACTTTT
1 CAGATCCAAGATTTTTCATAGTTCCAGCACACTTTT
1016798 CAGATCCAAGATTTTTCATAGTTCCAGCACACTTTT
1 CAGATCCAAGATTTTTCATAGTTCCAGCACACTTTT
1016834 C
1 C
1016835 TATCCTGCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (36 bp):
CAGATCCAAGATTTTTCATAGTTCCAGCACACTTTT
Found at i:1026076 original size:13 final size:13
Alignment explanation
Indices: 1026053--1026117 Score: 69
Period size: 13 Copynumber: 5.0 Consensus size: 13
1026043 AATGACGCTC
*
1026053 AATGCATGTCATA
1 AATGCACGTCATA
1026066 AATG-AGCGTCATA
1 AATGCA-CGTCATA
***
1026079 AATGTGTGTCATA
1 AATGCACGTCATA
*
1026092 AATGCATGTCATA
1 AATGCACGTCATA
1026105 AATGCACGTCATA
1 AATGCACGTCATA
1026118 GATTTATAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
12 1 0.02
13 43 0.98
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (13 bp):
AATGCACGTCATA
Found at i:1026103 original size:83 final size:82
Alignment explanation
Indices: 1025930--1026083 Score: 202
Period size: 83 Copynumber: 1.9 Consensus size: 82
1025920 CACACGAATG
* * * *
1025930 TGTGTCATCTTTTTTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCAT
1 TGTGTCATCTTTTTTAATGACGGGGGCTTCAATGACACGCAATGCAAGTCATAAATGAGCGTCAT
* *
1025995 TAATTTATGACACACAAA
66 AAATGTATGA-ACACAAA
* * *
1026013 TGTGTCATCTTTATTT-ATGACGGGGGCTTCAATGACGCTCAATGCATGTCATAAATGAGCGTCA
1 TGTGTCATCTTT-TTTAATGACGGGGGCTTCAATGACACGCAATGCAAGTCATAAATGAGCGTCA
1026077 TAAATGT
65 TAAATGT
1026084 GTGTCATAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 58 0.95
84 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (82 bp):
TGTGTCATCTTTTTTAATGACGGGGGCTTCAATGACACGCAATGCAAGTCATAAATGAGCGTCAT
AAATGTATGAACACAAA
Found at i:1026115 original size:26 final size:26
Alignment explanation
Indices: 1026053--1026117 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
1026043 AATGACGCTC
1026053 AATGCATGTCATAAATGAGCGTCATA
1 AATGCATGTCATAAATGAGCGTCATA
** *
1026079 AATGTGTGTCATAAATGCA-TGTCATA
1 AATGCATGTCATAAATG-AGCGTCATA
*
1026105 AATGCACGTCATA
1 AATGCATGTCATA
1026118 GATTTATAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (26 bp):
AATGCATGTCATAAATGAGCGTCATA
Found at i:1026388 original size:21 final size:21
Alignment explanation
Indices: 1026294--1026389 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
1026284 ACCACTCCTT
* *
1026294 AAGGATCACATATATATTCCA
1 AAGGACCACATATATATCCCA
* * * *
1026315 AATGACCAAATATATGTCCCG
1 AAGGACCACATATATATCCCA
* * * *
1026336 AAGAACCGCATATATGTTCCA
1 AAGGACCACATATATATCCCA
** *
1026357 AAGGATTACATATATATCCCG
1 AAGGACCACATATATATCCCA
1026378 AAGGACCACATA
1 AAGGACCACATA
1026390 GAACCCTCGA
Statistics
Matches: 54, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.24
Consensus pattern (21 bp):
AAGGACCACATATATATCCCA
Found at i:1028151 original size:27 final size:27
Alignment explanation
Indices: 1028121--1028200 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 27
1028111 TTTTGGGATG
* * * *
1028121 TTACACATAACACTCTCTTTTCATCTC
1 TTACACAAAAAACACTCATTTCATCTC
1028148 TTACACAAAAAACACTCATTTCATCTC
1 TTACACAAAAAACACTCATTTCATCTC
** * *
1028175 TTACACGCAAAACCCTCCTTTCATCT
1 TTACACAAAAAACACTCATTTCATCT
1028201 TCAATCTCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.31, C:0.34, G:0.01, T:0.34
Consensus pattern (27 bp):
TTACACAAAAAACACTCATTTCATCTC
Found at i:1029079 original size:45 final size:45
Alignment explanation
Indices: 1029021--1029275 Score: 341
Period size: 45 Copynumber: 5.7 Consensus size: 45
1029011 TCTAACATCA
*
1029021 TTTTCTGTTGATAAGGCACCCATATGCATTTCAACTATAGTATAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* * * *
1029066 TTTTATGTTGATAATGTACCCATATACATTTCAACCATAGTATAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* * *
1029111 TTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGTATAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* * *
1029156 TTTTCTGTTGATAATGTACCCATATGCATTTCAACTTTAGCATAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* *
1029201 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCAT-C
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* ***
1029245 CTTTCATGCCAATAATGCACCCATATGCATT
1 TTTTC-TGTTGATAATGCACCCATATGCATT
1029276 ATTCTTTTAT
Statistics
Matches: 191, Mismatches: 18, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
44 5 0.03
45 186 0.97
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (45 bp):
TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
Found at i:1029339 original size:79 final size:78
Alignment explanation
Indices: 1029200--1029442 Score: 342
Period size: 79 Copynumber: 3.1 Consensus size: 78
1029190 CTTTAGCATA
* * * * *
1029200 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGTTGATAATGTACCCATATACATTTCAGCTATGACATCCTTTCATGCC-ATAATGCAC
1029265 CCATATGCATTATT
65 CCATATGCATTATT
* * * *
1029279 CTTTTATGTTGACAATGTATCCATATACATTTCAGCTATGACATTCTTTTATGACCATAATGCAC
1 CTTTTATGTTGATAATGTACCCATATACATTTCAGCTATGACATCCTTTCATG-CCATAATGCAC
1029344 CCATATGCATTATT
65 CCATATGCATTATT
* * **
1029358 CTTTTATGCTGATAATGTACCCATATACATTTCAGCTATGATATCCTTTCATGCCCATAATTTAC
1 CTTTTATGTTGATAATGTACCCATATACATTTCAGCTATGACATCCTTTCATG-CCATAATGCAC
1029423 CCATATGCATTATT
65 CCATATGCATTATT
1029437 CTTTTA
1 CTTTTA
1029443 CATTCGTTTT
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
79 143 0.99
80 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (78 bp):
CTTTTATGTTGATAATGTACCCATATACATTTCAGCTATGACATCCTTTCATGCCATAATGCACC
CATATGCATTATT
Found at i:1029359 original size:34 final size:34
Alignment explanation
Indices: 1029321--1029388 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
1029311 CAGCTATGAC
*
1029321 ATTCTTTTATGAC-CATAATGCACCCATATGCATT
1 ATTCTTTTATG-CTCATAATGCACCCATATACATT
* *
1029355 ATTCTTTTATGCTGATAATGTACCCATATACATT
1 ATTCTTTTATGCTCATAATGCACCCATATACATT
1029389 TCAGCTATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 1 0.03
34 29 0.97
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (34 bp):
ATTCTTTTATGCTCATAATGCACCCATATACATT
Found at i:1029893 original size:22 final size:23
Alignment explanation
Indices: 1029857--1029899 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1029847 GTATCAATAC
*
1029857 CCCTACTTATGGTATCGATACTA
1 CCCTACTTAGGGTATCGATACTA
1029880 CCCTA-TTAGGGTATCGATAC
1 CCCTACTTAGGGTATCGATAC
1029900 CCCCTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (23 bp):
CCCTACTTAGGGTATCGATACTA
Found at i:1030034 original size:72 final size:71
Alignment explanation
Indices: 1029889--1030044 Score: 176
Period size: 71 Copynumber: 2.2 Consensus size: 71
1029879 ACCCTATTAG
* * * *
1029889 GGTATCGATACCCCCTTAATGTATCAATACCAAAATTAGCTTCGATATAGCCTGGTATCGATACC
1 GGTATCGATACCCCCTTAAGGTATCAATACCAAAATTAGATTCAATATA-CCTGGTATAGATACC
1029954 CACCCAT
65 CACCCAT
* *
1029961 GGTATCGATA-CCCCTCT-AGGTATCAATACCCAAATTAGATTCAAAGTTTA-CTGGTATAGATA
1 GGTATCGATACCCCCT-TAAGGTATCAATACCAAAATTAGATTC-AA-TATACCTGGTATAGATA
1030023 CCCTTA-CCAT
63 CCC--ACCCAT
1030033 GGTATCGATACC
1 GGTATCGATACC
1030045 ACATTGCTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
71 41 0.57
72 26 0.36
73 5 0.07
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (71 bp):
GGTATCGATACCCCCTTAAGGTATCAATACCAAAATTAGATTCAATATACCTGGTATAGATACCC
ACCCAT
Found at i:1048215 original size:45 final size:45
Alignment explanation
Indices: 1048148--1048403 Score: 280
Period size: 45 Copynumber: 5.7 Consensus size: 45
1048138 ATTCTAACAT
* * * *
1048148 CTTTTCTATTGATAAGGAACCCATATGGATTTCAACTATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * * * *
1048193 CTTTTATGTTGATAATGTACCCATATACATTTCAACCATATTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * * *
1048238 TTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * * *
1048283 CTTTTCTGTTGAAAATGCACCCATATGCTTTTCAACTTTAGCATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * *
1048328 CTTTTCTATTGATAATGCACCCATATGCATTTCAACTATGGCAT-
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* ***
1048372 CCTTTCATGCCAATAATGCACCCATATGCATT
1 CTTTTC-TGTTGATAATGCACCCATATGCATT
1048404 ATTCTTTTAT
Statistics
Matches: 180, Mismatches: 30, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
44 5 0.03
45 175 0.97
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
Found at i:1048459 original size:79 final size:79
Alignment explanation
Indices: 1048341--1048491 Score: 257
Period size: 79 Copynumber: 1.9 Consensus size: 79
1048331 TTCTATTGAT
* *
1048341 AATGCACCCATATGCATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATAGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
1048406 TCTTTTATGTTAAC
66 TCTTTTATGTTAAC
* * *
1048420 AATGTACCCATATACATTTCAACTATAGCATCCTTTCATGCCCATAATGTACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATAGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
1048485 TCTTTTA
66 TCTTTTA
1048492 CATTCGTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (79 bp):
AATGCACCCATATACATTTCAACTATAGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
TCTTTTATGTTAAC
Found at i:1050539 original size:16 final size:16
Alignment explanation
Indices: 1050520--1050558 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
1050510 TTAGAAAAAG
1050520 TATTTTTTATTCTA-TT
1 TATTTTTTA-TCTATTT
1050536 TATTTTTTATCTATTT
1 TATTTTTTATCTATTT
1050552 TATTTTT
1 TATTTTT
1050559 ATTATTGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTTATCTATTT
Found at i:1055673 original size:63 final size:63
Alignment explanation
Indices: 1055574--1055701 Score: 193
Period size: 63 Copynumber: 2.0 Consensus size: 63
1055564 AAATAATTTT
* * ** * *
1055574 GGGTAAATTAAGCGTTAGGTCCTCTATTTTTAGTGTACTTCATGCTTTTGTCACCAAAATAAA
1 GGGTAAATCAAGCGTTAGGTCCTCCATTTCCAGTGTAATTCATGCCTTTGTCACCAAAATAAA
*
1055637 GGGTAAATCATGCGTTAGGTCCTCCATTTCCAGTGTAATTCATGCCTTTGTCACCAAAATAAA
1 GGGTAAATCAAGCGTTAGGTCCTCCATTTCCAGTGTAATTCATGCCTTTGTCACCAAAATAAA
1055700 GG
1 GG
1055702 TTAATTACGT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (63 bp):
GGGTAAATCAAGCGTTAGGTCCTCCATTTCCAGTGTAATTCATGCCTTTGTCACCAAAATAAA
Found at i:1058852 original size:118 final size:118
Alignment explanation
Indices: 1058644--1058856 Score: 311
Period size: 118 Copynumber: 1.8 Consensus size: 118
1058634 CAGTGCTATC
* * * * * *
1058644 ATCATAATCAGAATATATAAGCACACACAGTGCTATCATATCATAATTGTAATGTGCACACTAAG
1 ATCATAATCAGAACATATAAGCACACACAATGCTATCATATCAGAATCGTAATGTGCACACAAAC
*
1058709 TGCAATCAGAACAAAATATATATACTAGTGCTCCCACCGGAACACCACATTAT
66 TGCAATCACAACAAAATATATATACTAGTGCTCCCACCGGAACACCACATTAT
* *
1058762 ATCATAATCAGAACATATAAGCACACACAATGCTATCATATTAGAATCGTAATGTGTACACAAAC
1 ATCATAATCAGAACATATAAGCACACACAATGCTATCATATCAGAATCGTAATGTGCACACAAAC
**
1058827 TGCAATCACATA-TGAATATATATACTAGTG
66 TGCAATCACA-ACAAAATATATATACTAGTG
1058857 TACCTTCCGG
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
118 82 0.99
119 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (118 bp):
ATCATAATCAGAACATATAAGCACACACAATGCTATCATATCAGAATCGTAATGTGCACACAAAC
TGCAATCACAACAAAATATATATACTAGTGCTCCCACCGGAACACCACATTAT
Found at i:1060786 original size:24 final size:24
Alignment explanation
Indices: 1060759--1060813 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
1060749 TTGAACACAA
1060759 ACCAAATTAGCAAGCAATAATGGT
1 ACCAAATTAGCAAGCAATAATGGT
1060783 ACCAAATTAGCAAGCAATAATGGT
1 ACCAAATTAGCAAGCAATAATGGT
1060807 ACCAAAT
1 ACCAAAT
1060814 GATAGAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (24 bp):
ACCAAATTAGCAAGCAATAATGGT
Found at i:1061920 original size:19 final size:19
Alignment explanation
Indices: 1061896--1061939 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1061886 GGGGTATTAC
*
1061896 ACTTTAGTTCTATAACCAA
1 ACTTTAATTCTATAACCAA
1061915 ACTTTAATTCTATAACCAA
1 ACTTTAATTCTATAACCAA
1061934 ACTTTA
1 ACTTTA
1061940 TATAGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (19 bp):
ACTTTAATTCTATAACCAA
Found at i:1065093 original size:68 final size:68
Alignment explanation
Indices: 1064977--1065751 Score: 1210
Period size: 68 Copynumber: 11.4 Consensus size: 68
1064967 AAGTCGAAGA
* * * *
1064977 CTTTGTGTCAAATGCACAATTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTAGCATGATTGA
1 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1065042 CA-
66 CAC
* * *
1065044 CTGTTATATCAAATACACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTG
1 CT-TTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTG
1065109 ACAC
65 ACAC
* * * * *
1065113 CTTTCTATCAAATGCACAATTAGGTCTCAAAGGCACATAGCCTTTCATCTAATTGGCATAATTGA
1 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1065178 CAC
66 CAC
1065181 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1065246 CAC
66 CAC
* * *
1065249 CTTTCTGTCAAATGCACAGTTAGGCCTGAAAAGCACTTAGCCTTTCATGTAACTGGCATAATTGA
1 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1065314 CAC
66 CAC
* * *
1065317 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTAGAATAATTGA
1 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1065382 CAC
66 CAC
* *
1065385 CTTTCTGTCAAATGCACAGTTAGGCATCAAAGGCACTTAGCCTTTCATCTAACTGGTATAATTGA
1 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1065450 CAC
66 CAC
* * *
1065453 CTTTATGTCAAATGCATAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTGGCATAATTGA
1 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1065518 CAC
66 CAC
* * *
1065521 CTTTCTGTCAAATGCACAGTTAGGCCTCAATGGCATTTTGCCTTTCATCTAACTGGCATAATTGA
1 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1065586 CAC
66 CAC
* * * * *
1065589 CTTTCTGTCAAATGCACATTTAGGCCTCAAATGCACTTAGCCTTTTATCTAACTAGTATAATTGA
1 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1065654 CAC
66 CAC
* * *
1065657 CTTTCTGTCAAATGCACATTTAGGCCTCAAAGGCACTTAGCCTTTTATCTAACTGGCGTAATTGA
1 CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
1065722 CAC
66 CAC
* *
1065725 CTTTATGTCAAATGCACAATTAGGCCT
1 CTTTCTGTCAAATGCACAGTTAGGCCT
1065752 TTAATAATTT
Statistics
Matches: 651, Mismatches: 55, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
67 2 0.00
68 647 0.99
69 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (68 bp):
CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
CAC
Found at i:1066173 original size:59 final size:59
Alignment explanation
Indices: 1066107--1066267 Score: 272
Period size: 59 Copynumber: 2.7 Consensus size: 59
1066097 TTCCCATACT
*
1066107 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCAATACGA
1 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATA-GA
* *
1066167 -AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCTAATATA
1 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAGA
1066225 GAAATTCATACACTTAGTATGAATTTCTTAACATTTT-GCACAC
1 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
1066268 TTAGTGCCAT
Statistics
Matches: 97, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
58 7 0.07
59 90 0.93
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAGA
Found at i:1067541 original size:18 final size:18
Alignment explanation
Indices: 1067518--1067553 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1067508 CTCACTAAAA
1067518 ACTATAATTTCCATACCC
1 ACTATAATTTCCATACCC
1067536 ACTATAATTTCCATACCC
1 ACTATAATTTCCATACCC
1067554 TCTGTATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (18 bp):
ACTATAATTTCCATACCC
Found at i:1068917 original size:65 final size:64
Alignment explanation
Indices: 1068848--1069008 Score: 171
Period size: 65 Copynumber: 2.5 Consensus size: 64
1068838 AATTAAATTG
* * *
1068848 AACATCGAATGCATTTCATGCATCGATGCACTTACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGAATCGATGCACTAACCATGCACCGATGCACTGAGGATATTT-T-A
1068912 A
64 A
* * * * * * *** *
1068913 AACATCAAATGCATTTGATGTATTGATGCACCAATCATGCATCGATGCACTTTTGCTATTTTAA
1 AACATCGAATGCATTTGATGAATCGATGCACTAACCATGCACCGATGCACTGAGGATATTTTAA
*
1068977 AACATCGAATGCACTTGATGAATCGATGCACT
1 AACATCGAATGCATTTGATGAATCGATGCACT
1069009 CTTAGTGCAC
Statistics
Matches: 78, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
64 29 0.37
65 46 0.59
66 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGAATCGATGCACTAACCATGCACCGATGCACTGAGGATATTTTAA
Found at i:1070980 original size:21 final size:21
Alignment explanation
Indices: 1070955--1070994 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1070945 AAGACTCTAT
1070955 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
1070976 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
1070995 AAATAGTCTT
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:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:1077669 original size:17 final size:19
Alignment explanation
Indices: 1077641--1077689 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1077631 TATTTTGAAA
1077641 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
1077659 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
1077678 CACCGATGCACT
1 CATCGATGCACT
1077690 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:1077687 original size:64 final size:64
Alignment explanation
Indices: 1077510--1077689 Score: 154
Period size: 65 Copynumber: 2.8 Consensus size: 64
1077500 AATTAAATTG
* * * * *
1077510 AACATTGAATGCATTTCATGCATCGATGCACT-TAACATACACCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACTCT-A-GTGCACCGATGCACTCAGGATTTTATGA
1077574 A
64 A
* * * * * *
1077575 AACATCGAATGTATTTGATGTATCGATGCAC-C-AGCCATGCATCAATGCACTCTGGCTATTT-T
1 AACATCGAATGCATTTGATGCATCGATGCACTCTAG---TGCACCGATGCACTCAGGAT-TTTAT
1077637 G-A
62 GAA
*
1077639 AACATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACTC-TAGTGCACCGATGCACT
1077690 AAGGGTCCAA
Statistics
Matches: 91, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
63 1 0.01
64 41 0.45
65 44 0.48
66 3 0.03
67 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCTAGTGCACCGATGCACTCAGGATTTTATGAA
Found at i:1079111 original size:21 final size:20
Alignment explanation
Indices: 1079086--1079151 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 20
1079076 TTTATGGCAT
1079086 CATTTCATGCCTTTTATACA
1 CATTTCATGCCTTTTATACA
*
1079106 CCATTTACAT--TTTTTA-AGCA
1 -CATTT-CATGCCTTTTATA-CA
1079126 -ATCTTTCATGCCTTTTATACA
1 CA--TTTCATGCCTTTTATACA
1079147 CATTT
1 CATTT
1079152 ACATTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 17
0.65 0.04 0.31
Matches are distributed among these distances:
18 1 0.03
19 4 0.11
20 13 0.37
21 12 0.34
22 5 0.14
ACGTcount: A:0.26, C:0.23, G:0.05, T:0.47
Consensus pattern (20 bp):
CATTTCATGCCTTTTATACA
Found at i:1079144 original size:41 final size:43
Alignment explanation
Indices: 1079046--1079238 Score: 203
Period size: 41 Copynumber: 4.7 Consensus size: 43
1079036 ATGGCAACTG
* * *
1079046 TTCATACCTTTTATACACCATTATAC-TTCATTTATGGCATCAT
1 TTCATGCCTTTTATACACCATT-TACATTTATTTATAGCATCAT
1079089 TTCATGCCTTTTATACACCATTTACATTT-TTTA-AGCAATC-T
1 TTCATGCCTTTTATACACCATTTACATTTATTTATAGC-ATCAT
1079130 TTCATGCCTTTTATACA-CATTTACATTTATTTATA-CATCAT
1 TTCATGCCTTTTATACACCATTTACATTTATTTATAGCATCAT
* * * *
1079171 TT--TTCCTTTTATACACTATTTTACATTTCA-TTATGGCATC-C
1 TTCATGCCTTTTATACACCA-TTTACATTT-ATTTATAGCATCAT
1079212 TTCATGCCTTTTAT--ACCATTTACATTT
1 TTCATGCCTTTTATACACCATTTACATTT
1079239 CACTTATACA
Statistics
Matches: 130, Mismatches: 9, Indels: 25
0.79 0.05 0.15
Matches are distributed among these distances:
39 12 0.09
40 24 0.18
41 46 0.35
42 16 0.12
43 32 0.25
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.48
Consensus pattern (43 bp):
TTCATGCCTTTTATACACCATTTACATTTATTTATAGCATCAT
Found at i:1079218 original size:82 final size:82
Alignment explanation
Indices: 1079029--1079250 Score: 238
Period size: 82 Copynumber: 2.7 Consensus size: 82
1079019 CATTATGCCT
* * * * *
1079029 TTTCATTATGGCAACTGTTCATACCTTTTATACACCATTATAC-TTCATTTATGGCATCATTTCA
1 TTTCATTATGGCATC-CTTCATGCCTTTTATACA-CATT-TACATTTATTTAT-ACATCATTT-A
1079093 TGCCTTTTATACACCATTTACA
61 TGCCTTTTATACACCATTTACA
* * * *
1079115 TTT-TTTA-AGCAATCTTTCATGCCTTTTATACACATTTACATTTATTTATACATCATTT-TTCC
1 TTTCATTATGGC-ATCCTTCATGCCTTTTATACACATTTACATTTATTTATACATCATTTATGCC
*
1079177 TTTTATACACTATTTTACA
65 TTTTATACACCA-TTTACA
*
1079196 TTTCATTATGGCATCCTTCATGCCTTTTATAC-CATTTACATTTCACTTATACATC
1 TTTCATTATGGCATCCTTCATGCCTTTTATACACATTTACATTT-ATTTATACATC
1079251 TTGTCTTTTA
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
80 14 0.12
81 20 0.17
82 43 0.37
83 14 0.12
84 18 0.15
85 5 0.04
86 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.05, T:0.47
Consensus pattern (82 bp):
TTTCATTATGGCATCCTTCATGCCTTTTATACACATTTACATTTATTTATACATCATTTATGCCT
TTTATACACCATTTACA
Found at i:1079489 original size:66 final size:64
Alignment explanation
Indices: 1079292--1079513 Score: 226
Period size: 66 Copynumber: 3.5 Consensus size: 64
1079282 AACTAGAATG
** *
1079292 ATTGACATGTTTCTGTCAAATGCACAGTTACGCCT-A-CT-TAGCCTTTCATCTAACTGGCATA
1 ATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTAAGCTCTAGCCTTTCATCTAACTGGCATA
* *** * ** *
1079353 ATTGGCACCTTTCTGTC-AATGCACA-TTAGGCCTGAAAAGCAAGAGTTT--T-TAAACTGACAT
1 ATTGACACCTTTCTGTCAAATGCACAGTTAGGCCT-AAGCTCTAGCCTTTCATCT-AACTGGCAT
1079413 A
64 A
*
1079414 CTTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAGGCTCTAGCCTTTCATCTAACTGGCAT
1 ATTGACACCTTTCTGTCAAATGCACAGTTAGGCCT-AA-GCTCTAGCCTTTCATCTAACTGGCAT
1079479 A
64 A
* *
1079480 ATTGACACCTTTCTGTCAAATGCATAGTAAGGCC
1 ATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
1079514 GTTAATCTTT
Statistics
Matches: 127, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
59 7 0.06
60 9 0.07
61 40 0.31
62 8 0.06
63 15 0.12
64 6 0.05
66 41 0.32
67 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (64 bp):
ATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTAAGCTCTAGCCTTTCATCTAACTGGCATA
Found at i:1079927 original size:58 final size:59
Alignment explanation
Indices: 1079863--1080065 Score: 309
Period size: 59 Copynumber: 3.5 Consensus size: 59
1079853 TTCCATACGA
* * * *
1079863 AAATTCATACACTTTGTATGATTTTCTTAACATTTTAGCACACAAATTGCCC-CTATGG
1 AAATTCATACACTTAGTATGAATTTCTAAACATTTTAGCACACAAATTGCCCAATATGG
* *
1079921 AAATTCATACACTTAGTATGAATTTTTAAACATTTTAGCACACAAATAGCCCAATATGG
1 AAATTCATACACTTAGTATGAATTTCTAAACATTTTAGCACACAAATTGCCCAATATGG
* * * *
1079980 AAATTCATACACTTATTATGAATTTCTAAACATTTTAGCACACAAAGTGCCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTAAACATTTTAGCACACAAATTGCCCAATATGG
1080039 AAATTCATACACTTAGTATGAATTTCT
1 AAATTCATACACTTAGTATGAATTTCT
1080066 TAAAAGTGCC
Statistics
Matches: 131, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 47 0.36
59 84 0.64
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTCTAAACATTTTAGCACACAAATTGCCCAATATGG
Done.