Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 141 of 218
Found at i:43023696 original size:49 final size:48
Alignment explanation
Indices: 43023640--43023785 Score: 220
Period size: 49 Copynumber: 3.0 Consensus size: 48
43023630 TTTATTTTCT
43023640 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACATATCACATAC
1 CGATGCCATAG-CCAACTATGGTCTTACACGTAATCACATATCACATAC
* * *
43023689 CGATGCCATAGCTCAGCTATGGTCTTACACGTAATCACACATCATATAC
1 CGATGCCATAGC-CAACTATGGTCTTACACGTAATCACATATCACATAC
*
43023738 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACATTATCACAT
1 CGATGCCATAG-CCAACTATGGTCTTACACGTAATCACA-TATCACAT
43023786 TTTCACATGT
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
48 1 0.01
49 79 0.91
50 7 0.08
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (48 bp):
CGATGCCATAGCCAACTATGGTCTTACACGTAATCACATATCACATAC
Found at i:43024899 original size:40 final size:40
Alignment explanation
Indices: 43024839--43024920 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
43024829 GCCACAAAGA
*
43024839 TAGTACAAATTTTCTTTATTCGATATAAACCAAAACCTGT
1 TAGTACAAATTTTCTCTATTCGATATAAACCAAAACCTGT
43024879 TAGTACAAATTTTCTCTATTCGATATAAACCAAAACCTGT
1 TAGTACAAATTTTCTCTATTCGATATAAACCAAAACCTGT
43024919 TA
1 TA
43024921 TTTCTTTTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (40 bp):
TAGTACAAATTTTCTCTATTCGATATAAACCAAAACCTGT
Found at i:43026453 original size:51 final size:50
Alignment explanation
Indices: 43026398--43026536 Score: 163
Period size: 50 Copynumber: 2.8 Consensus size: 50
43026388 CTGATATATG
* *
43026398 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TATCCAGTACACA
1 TAGTAGCCTGCACATAGTACTACACAAGTGA-CCAAGCAT-TCCAGTACACA
* * * * * *
43026449 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACAAGTGACCAAGCATTCCAGTACACA
* *
43026499 TAGTAGCCTGCACATAGTACTGCACAAGTGACCTAGCA
1 TAGTAGCCTGCACATAGTACTACACAAGTGACCAAGCA
43026537 ACTTCACTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
50 46 0.61
51 30 0.39
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACAAGTGACCAAGCATTCCAGTACACA
Found at i:43026455 original size:102 final size:101
Alignment explanation
Indices: 43026337--43026529 Score: 269
Period size: 102 Copynumber: 1.9 Consensus size: 101
43026327 ATTAATGACA
* * * * * * * *
43026337 CCAGTTCACATAGTAGCCTGCACATGGTACTACACATGTGACCATTTTAATCTGATATATGTAGT
1 CCAGTACACATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCAATCCGATACACGTAGT
*
43026402 AGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
65 AGCCTGCACATAGTACTACACAAGTGATCGAAGCTAT
* *
43026439 CCAGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTA
1 CCAGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCAATCCGATACACGTAGTA
*
43026504 GCCTGCACATAGTACTGCACAAGTGA
66 GCCTGCACATAGTACTACACAAGTGA
43026530 CCTAGCAACT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
101 39 0.49
102 40 0.51
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
CCAGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCAATCCGATACACGTAGTA
GCCTGCACATAGTACTACACAAGTGATCGAAGCTAT
Found at i:43026517 original size:50 final size:50
Alignment explanation
Indices: 43026347--43026533 Score: 187
Period size: 51 Copynumber: 3.7 Consensus size: 50
43026337 CCAGTTCACA
* * * * * * * *
43026347 TAGTAGCCTGCACATGGTACTACACATGTGACCATTTTAATCTGATATATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTACACG
* ** * * *
43026398 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TATCCAGTACACA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCTATCAT-TCCGGTACACG
*
43026449 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCCGGTACACG
* *
43026499 TAGTAGCCTGCACATAGTACTGCACAAGTGACCTA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCTA
43026534 GCAACTTCAC
Statistics
Matches: 109, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 44 0.40
51 64 0.59
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCCGGTACACG
Found at i:43026551 original size:102 final size:102
Alignment explanation
Indices: 43026337--43026564 Score: 253
Period size: 102 Copynumber: 2.2 Consensus size: 102
43026327 ATTAATGACA
* * * * * * *
43026337 CCAGTTCACATAGTAGCCTGCACATGGTACTACACATGTGACCATTTTAATCTGATATATGTAGT
1 CCAGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCAATCCGATACACGTAGT
* * *
43026402 AGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
66 AGCCTGCACATAGTACTACACAAGTGATCCAAGCAAT
* * *
43026439 CCAGTACACATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGT
1 CCAGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCAATCCGATACACGTAGT
* *
43026503 AGCCTGCACATAGTACTGCACAAGTGA-CCTAGCAACT
66 AGCCTGCACATAGTACTACACAAGTGATCCAAGCAA-T
* * * *
43026540 TCACTTTCACATAGTGGCCTACACA
1 CCA-GTTCACATAGTAGCCTGCACA
43026565 CAGTCCATGC
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
100 5 0.05
101 42 0.40
102 57 0.55
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (102 bp):
CCAGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCAATCCGATACACGTAGT
AGCCTGCACATAGTACTACACAAGTGATCCAAGCAAT
Found at i:43028840 original size:13 final size:13
Alignment explanation
Indices: 43028822--43028846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43028812 TAATCATTGC
43028822 ATAATTTAATCAT
1 ATAATTTAATCAT
43028835 ATAATTTAATCA
1 ATAATTTAATCA
43028847 AAATTAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATTTAATCAT
Found at i:43031548 original size:4 final size:4
Alignment explanation
Indices: 43031539--43031569 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
43031529 AACCTGAGCT
43031539 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
43031570 CTGTACAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:43031833 original size:22 final size:22
Alignment explanation
Indices: 43031808--43031851 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
43031798 ACAAAAATCA
*
43031808 ATCAATCATGTATACTTACCAT
1 ATCAATCATGCATACTTACCAT
43031830 ATCAATCATGCATACTTACCAT
1 ATCAATCATGCATACTTACCAT
43031852 TTAAACCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (22 bp):
ATCAATCATGCATACTTACCAT
Found at i:43035213 original size:42 final size:40
Alignment explanation
Indices: 43035159--43035293 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 40
43035149 TAGATGTTAC
43035159 TTAGTATTATTGTTAGTAAAAAACTAGTATTATTATTATGG
1 TTAGTATTATTGTTAGTAAAAAACTA-TATTATTATTATGG
* * * *
43035200 TTAGTTATTATTGTTAGT-AAAACCT-TAATTATCATTGTTAG
1 TTAG-TATTATTGTTAGTAAAAAACTAT-ATTATTATT-ATGG
* *
43035241 TTAGTATTATT-TTGAGTATAAAACTATTATTATTGTTATTGTG
1 TTAGTATTATTGTT-AGTAAAAAACTA-TATTATTATTA-TG-G
43035284 TTAGTTATTA
1 TTAG-TATTA
43035294 GGGTTAGTGG
Statistics
Matches: 74, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
39 3 0.04
40 18 0.24
41 21 0.28
42 21 0.28
43 6 0.08
44 5 0.07
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (40 bp):
TTAGTATTATTGTTAGTAAAAAACTATATTATTATTATGG
Found at i:43035231 original size:37 final size:40
Alignment explanation
Indices: 43035159--43035273 Score: 98
Period size: 42 Copynumber: 2.9 Consensus size: 40
43035149 TAGATGTTAC
*
43035159 TTAG-TATTATTGTTAGTAAAAAACTAGTATTATTATTATGG
1 TTAGTTATTATTGTTAGTAAAAAACTA-TA-TATTATCATGG
* *
43035200 TTAGTTATTATTGTTAGT-AAAACCT-TA-ATTATCATTG
1 TTAGTTATTATTGTTAGTAAAAAACTATATATTATCATGG
*
43035237 TTAGTTAGTATTATT-TTGAGTATAAAACTAT-TATTAT
1 TTAG-T--TATTATTGTT-AGTAAAAAACTATATATTAT
43035274 TGTTATTGTG
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
37 12 0.20
38 1 0.02
39 4 0.07
40 10 0.16
41 15 0.25
42 19 0.31
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (40 bp):
TTAGTTATTATTGTTAGTAAAAAACTATATATTATCATGG
Found at i:43037022 original size:29 final size:29
Alignment explanation
Indices: 43036939--43037022 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 29
43036929 TTTTTTTCCC
*
43036939 GAATTTTATTACTTTCAATAAAAATATAT
1 GAATTTTATTACTTTCAATAAAAATTTAT
* * * *
43036968 -TATTTCTA-TATTTTTAA-AAAATATTTCT
1 GAATTT-TATTACTTTCAATAAAA-ATTTAT
*
43036996 GAATTTTATTACTTTCAATATAAATTT
1 GAATTTTATTACTTTCAATAAAAATTT
43037023 TTAAAAATTT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
27 4 0.10
28 17 0.41
29 17 0.41
30 3 0.07
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (29 bp):
GAATTTTATTACTTTCAATAAAAATTTAT
Found at i:43037283 original size:159 final size:158
Alignment explanation
Indices: 43037018--43037635 Score: 582
Period size: 159 Copynumber: 3.9 Consensus size: 158
43037008 TTTCAATATA
* * * **
43037018 AATTTTT-AAAAATTTAGTGTAAAAAAAACTCTTA-TTCCTGCCCTTTGCTCATATAATTTTCCC
1 AATTTTTAAAAAATTTA--GT--AAAAAACTCTTACTT-CGGCCCTTTGTTCGTATTTTTTTCCC
* * * * *
43037081 GAATTTTATTACTTTCAATAAAAATATATTATTTTTGTATTTTATTATTTTAAATTATTTTAGTA
61 GAATTTTATTACTTT-AATAAAAATATATAATTTCT-AATTTTATTATTTTATATTATTTCAGTA
*
43037146 CATTTTTTTTTGAAATATTTGTATTCATTATTTCTG
124 CA-TTTTTTTTGAAATATTTGTATTAATTATTTCTG
* *
43037182 AATTTTTAAAAAATTTAGTAAAAGACTCTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCGCAT
1 AATTTTTAAAAAATTTAGTAAAAAACTCTTACTTCGGCCCTTTGTTCGTATTTTTTTC-CCGAAT
* * * *
43037247 TTTATTACTTT-A-AAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTA
65 TTTATTACTTTAATAAAAATAT-ATAATTTCTAATTTTATTATTTTATATTATTTCAGTACATTT
* * *
43037310 TGTTTG-AA-A-TT-TATTAATT-TAGTGTG
129 TTTTTGAAATATTTGTATTAATTAT-TTCTG
* * * ** * *
43037336 -TTTTTTAAATTAATTTAGTGTAAAAAAATCCTTA-TTCCTACCCTTTGCTCGTATTATTTTCCC
1 AATTTTTAAA-AAATTTA--GTAAAAAACT-CTTACTT-CGGCCCTTTGTTCGTATTTTTTTCCC
* *
43037399 GAATTTTATTATTTTCAATAAAAATATATTATTTTCGT-ATTTTATTATTTTATATTATTTCAGT
61 GAATTTTATTACTTT-AATAAAAATATA-TAATTTC-TAATTTTATTATTTTATATTATTTCAGT
*
43037463 ACA-TTTTTTTGAAATATTTGTATTAATTATTTCTA
123 ACATTTTTTTTGAAATATTTGTATTAATTATTTCTG
* * * * *
43037498 AATTTTTAAAAAATTTAGTAAAACACTTTTACTTCGGCCATTTGTTTGTATTTTTTTCTCCGCAT
1 AATTTTTAAAAAATTTAGTAAAAAACTCTTACTTCGGCCCTTTGTTCGTATTTTTTTC-CCGAAT
* * * *
43037563 TTTATTACTTT-A-AAAAATACCATAATTTTTAATTTTATTATTTTATATTATTTTAGTACATTA
65 TTTATTACTTTAATAAAAATA-TATAATTTCTAATTTTATTATTTTATATTATTTCAGTACATTT
*
43037626 TGTTTGAAAT
129 TTTTTGAAAT
43037636 TTATTAATTT
Statistics
Matches: 371, Mismatches: 57, Indels: 58
0.76 0.12 0.12
Matches are distributed among these distances:
153 9 0.02
154 16 0.04
155 2 0.01
156 27 0.07
157 66 0.18
158 27 0.07
159 96 0.26
160 35 0.09
161 32 0.09
162 34 0.09
163 11 0.03
164 7 0.02
165 9 0.02
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (158 bp):
AATTTTTAAAAAATTTAGTAAAAAACTCTTACTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATT
TTATTACTTTAATAAAAATATATAATTTCTAATTTTATTATTTTATATTATTTCAGTACATTTTT
TTTGAAATATTTGTATTAATTATTTCTG
Found at i:43037615 original size:316 final size:316
Alignment explanation
Indices: 43037020--43037661 Score: 1047
Period size: 316 Copynumber: 2.0 Consensus size: 316
43037010 TCAATATAAA
*
43037020 TTTTTAAA-AATTTAGTGTAAAAAAAACTCTTATTCCTGCCCTTTGCTCATATAATTTTCCCGAA
1 TTTTTAAATAATTTAGTGTAAAAAAAACTCTTATTCCTACCCTTTGCTCATATAATTTTCCCGAA
* *
43037084 TTTTATTACTTTCAATAAAAATATATTATTTTTGTATTTTATTATTTTAAATTATTTTAGTACAT
66 TTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTAAATTATTTCAGTACA-
* * *
43037149 TTTTTTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAAGACTCTTAC
130 TTTTTTTTGAAATATTTGTATTAATTATTTCTAAATTTTTAAAAAATTTAGTAAAACACTCTTAC
* *
43037214 TTCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAA
195 TTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATACCATAATTTCTAA
* *
43037279 TTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGT
260 TTTTATAATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAGTAT-T
* * *
43037337 TTTTTAAATTAATTTAGTGTAAAAAAATC-CTTATTCCTACCCTTTGCTCGTATTATTTTCCCGA
1 TTTTTAAA-TAATTTAGTGTAAAAAAAACTCTTATTCCTACCCTTTGCTCATATAATTTTCCCGA
* *
43037401 ATTTTATTATTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACA
65 ATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTAAATTATTTCAGTACA
*
43037466 -TTTTTTTGAAATATTTGTATTAATTATTTCTAAATTTTTAAAAAATTTAGTAAAACACTTTTAC
130 TTTTTTTTGAAATATTTGTATTAATTATTTCTAAATTTTTAAAAAATTTAGTAAAACACTCTTAC
* *
43037530 TTCGGCCATTTGTTTGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATACCATAATTTTTAA
195 TTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATACCATAATTTCTAA
* * *
43037595 TTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTATT
260 TTTTATAATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAGTATT
43037652 TTTTTAAATA
1 TTTTTAAATA
43037662 TACCATTTTT
Statistics
Matches: 302, Mismatches: 21, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
314 2 0.01
315 9 0.03
316 172 0.57
317 8 0.03
318 93 0.31
319 18 0.06
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (316 bp):
TTTTTAAATAATTTAGTGTAAAAAAAACTCTTATTCCTACCCTTTGCTCATATAATTTTCCCGAA
TTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTAAATTATTTCAGTACAT
TTTTTTTGAAATATTTGTATTAATTATTTCTAAATTTTTAAAAAATTTAGTAAAACACTCTTACT
TCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATACCATAATTTCTAAT
TTTATAATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAGTATT
Found at i:43038023 original size:21 final size:20
Alignment explanation
Indices: 43037999--43038132 Score: 52
Period size: 18 Copynumber: 6.9 Consensus size: 20
43037989 AATTACCTTT
43037999 TCTTTCTTTCTTTTCCTTCC
1 TCTTTCTTTCTTTTCCTTCC
*
43038019 -CTCTTC-TTCTTCTT-CTTTC
1 TCT-TTCTTTCTT-TTCCTTCC
* *
43038038 TTTTTCTTTTCTTCTCCTTTCC
1 TCTTTC-TTTCTTTTCC-TTCC
* **
43038060 T-TTTCTTTC-CTT-CTTTT
1 TCTTTCTTTCTTTTCCTTCC
* * *
43038077 TCTTTCTTCCCTCTCCTTTCC
1 TCTTTCTTTCTTTTCC-TTCC
**
43038098 T-TTTCTTTCTTTTTGTT--
1 TCTTTCTTTCTTTTCCTTCC
*
43038115 TCTTTCTTTCTTCTCCTT
1 TCTTTCTTTCTTTTCCTT
43038133 TCCCTCTCCT
Statistics
Matches: 81, Mismatches: 21, Indels: 26
0.63 0.16 0.20
Matches are distributed among these distances:
17 4 0.05
18 21 0.26
19 18 0.22
20 21 0.26
21 13 0.16
22 4 0.05
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (20 bp):
TCTTTCTTTCTTTTCCTTCC
Found at i:43038038 original size:10 final size:10
Alignment explanation
Indices: 43038002--43038134 Score: 68
Period size: 10 Copynumber: 13.7 Consensus size: 10
43037992 TACCTTTTCT
43038002 TTCTTTCTT-
1 TTCTTTCTTC
* *
43038011 TTCCTTCCCTC
1 TT-CTTTCTTC
43038022 TTC-TTCTTC
1 TTCTTTCTTC
*
43038031 TTCTTTCTTT
1 TTCTTTCTTC
43038041 TTCTTTTCTTC
1 TTC-TTTCTTC
*
43038052 TCCTTTCCTT-
1 TTCTTT-CTTC
43038062 TTCTTTC--C
1 TTCTTTCTTC
43038070 TTCTTT-TTC
1 TTCTTTCTTC
* *
43038079 TTTCTTCCCTC
1 -TTCTTTCTTC
*
43038090 TCCTTTCCTT-
1 TTCTTT-CTTC
*
43038100 TTCTTTCTTT
1 TTCTTTCTTC
*
43038110 TTGTTTC-T-
1 TTCTTTCTTC
43038118 TTCTTTCTTC
1 TTCTTTCTTC
*
43038128 TCCTTTC
1 TTCTTTC
43038135 CCTCTCCTTC
Statistics
Matches: 93, Mismatches: 17, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
8 12 0.13
9 16 0.17
10 48 0.52
11 17 0.18
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (10 bp):
TTCTTTCTTC
Found at i:43038100 original size:38 final size:37
Alignment explanation
Indices: 43037996--43038135 Score: 165
Period size: 38 Copynumber: 3.6 Consensus size: 37
43037986 AAAAATTACC
* * *
43037996 TTTTCTTTCTTTCTTTTCCTTCCCTCTTC-TTCTTCT
1 TTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTTCT
43038032 TCTTTCTTTTTCTTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 T-TTTC--TTTC-TTTCTTCTCCTTTCCTTTTCTTT-CTTCT
* * *
43038074 TTTTCTTTCTTCCCTCTCCTTTCCTTTTCTTTCTTTT
1 TTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTTCT
43038111 TGTTTCTTTCTTTCTTCTCCTTTCC
1 T-TTTCTTTCTTTCTTCTCCTTTCC
43038136 CTCTCCTTCT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
36 1 0.01
37 9 0.10
38 42 0.47
39 8 0.09
40 17 0.19
41 6 0.07
42 6 0.07
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (37 bp):
TTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTTCT
Found at i:43038230 original size:27 final size:27
Alignment explanation
Indices: 43038188--43038253 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
43038178 TATAGGGCCA
43038188 GTGCCGCCTCTGCCAGAGGCACAACCG
1 GTGCCGCCTCTGCCAGAGGCACAACCG
* *
43038215 GTGTCGCCTCTGCCAGAGGTACAACCG
1 GTGCCGCCTCTGCCAGAGGCACAACCG
43038242 GTGCCGCCTCTG
1 GTGCCGCCTCTG
43038254 GCACCTCCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.15, C:0.38, G:0.30, T:0.17
Consensus pattern (27 bp):
GTGCCGCCTCTGCCAGAGGCACAACCG
Found at i:43044816 original size:43 final size:43
Alignment explanation
Indices: 43044761--43044910 Score: 255
Period size: 43 Copynumber: 3.5 Consensus size: 43
43044751 CCGCTAAAAG
*
43044761 TCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
* *
43044804 TCATGACTTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
* *
43044847 TCATGACTTTTAGTGGCGCTTCTCCCACAAACGCCGCTATACA
1 TCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
43044890 TCATGACTTTTAGCGGCGCTT
1 TCATGACTTTTAGCGGCGCTT
43044911 TTTTATAAAC
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (43 bp):
TCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
Found at i:43044940 original size:42 final size:42
Alignment explanation
Indices: 43044761--43044947 Score: 232
Period size: 43 Copynumber: 4.4 Consensus size: 42
43044751 CCGCTAAAAG
* *
43044761 TCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTT-TTCCACAAACGCCGCTATAGA
*
43044804 TCATGACTTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTTT-CCACAAACGCCGCTATAGA
* * *
43044847 TCATGACTTTTAGTGGCGCTTCTCCCACAAACGCCGCTATACA
1 TCATGACTTTTAGCGGCGCTT-TTCCACAAACGCCGCTATAGA
** * *
43044890 TCATGACTTTTAGCGGCGCTTTTTTATAAACGCCGCTAAAGA
1 TCATGACTTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGA
* *
43044932 ACACGAC-TTTAGCGGC
1 TCATGACTTTTAGCGGC
43044948 ATTTTTTTAA
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
41 9 0.07
42 21 0.17
43 95 0.75
44 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (42 bp):
TCATGACTTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGA
Found at i:43044955 original size:41 final size:43
Alignment explanation
Indices: 43044875--43044970 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 43
43044865 CTTCTCCCAC
* * * * *
43044875 AAACGCCGCTATACATCATGACTTTTAGCGGCGCTTTTTT-AT
1 AAACGCCGCTAAACAACACGACTTTTAGCGGCACTTTTTTAAA
* *
43044917 AAACGCCGCTAAAGAACACGAC-TTTAGCGGCATTTTTTTAAA
1 AAACGCCGCTAAACAACACGACTTTTAGCGGCACTTTTTTAAA
*
43044959 AAACGCCACTAA
1 AAACGCCGCTAA
43044971 TTTTGGCAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 15 0.33
42 30 0.67
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAACAACACGACTTTTAGCGGCACTTTTTTAAA
Found at i:43047688 original size:9 final size:9
Alignment explanation
Indices: 43047631--43048282 Score: 141
Period size: 9 Copynumber: 71.7 Consensus size: 9
43047621 TAAGTATAAT
43047631 TAAGTTATG
1 TAAGTTATG
*
43047640 TAACTTATG
1 TAAGTTATG
* *
43047649 ATAAGAATATA
1 -TAAG-TTATG
43047660 TAA-TTATG
1 TAAGTTATG
43047668 T-A-TTATG
1 TAAGTTATG
*
43047675 CAAGTTATG
1 TAAGTTATG
43047684 TAAGTTATG
1 TAAGTTATG
* *
43047693 ATATGATATATA
1 -TAAG-T-TATG
*
43047705 TAAGTTGT-
1 TAAGTTATG
43047713 TAAGTTATG
1 TAAGTTATG
43047722 TAAGTTATG
1 TAAGTTATG
*
43047731 TGAGTTATG
1 TAAGTTATG
43047740 T-AGATTATG
1 TAAG-TTATG
* * *
43047749 ATATGATACATA
1 -TAAG-T-TATG
43047761 TAAGTTAT-
1 TAAGTTATG
*
43047769 TAAGTTAGG
1 TAAGTTATG
43047778 TAAGTTATG
1 TAAGTTATG
*
43047787 CAAGTTATG
1 TAAGTTATG
*
43047796 CAAGTTATG
1 TAAGTTATG
*
43047805 CAAGTTATG
1 TAAGTTATG
43047814 TAAGTTATG
1 TAAGTTATG
*
43047823 --A-TATATA
1 TAAGT-TATG
*
43047830 TAAGTTGT-
1 TAAGTTATG
*
43047838 TAACTTATG
1 TAAGTTATG
*
43047847 TAAGTTATA
1 TAAGTTATG
*
43047856 TGAGTTATG
1 TAAGTTATG
43047865 T-AGATTATG
1 TAAG-TTATG
* *
43047874 ATATGATATATA
1 -TAAG-T-TATG
43047886 TAAGTTAT-
1 TAAGTTATG
*
43047894 T-A-TTCA-C
1 TAAGTT-ATG
*
43047901 TAATTTATG
1 TAAGTTATG
* *
43047910 --AGATACATT
1 TAAG-T-TATG
*
43047919 TAAGTTACGG
1 TAAGTTA-TG
* *
43047929 TATGATTTATA
1 TA--AGTTATG
43047940 TAAGTTAT-
1 TAAGTTATG
43047948 TAAGTTATG
1 TAAGTTATG
43047957 T-AGATTATG
1 TAAG-TTATG
* * *
43047966 ATATGATACATA
1 -TAAG-T-TATG
43047978 TAAGTTAT-
1 TAAGTTATG
*
43047986 TAAGTTAGG
1 TAAGTTATG
*
43047995 TAAGTTATC
1 TAAGTTATG
*
43048004 CAAGTTATG
1 TAAGTTATG
43048013 TAAGTTATG
1 TAAGTTATG
*
43048022 --A-TATATA
1 TAAGT-TATG
*
43048029 TAAGTTGT-
1 TAAGTTATG
*
43048037 TAACTTATG
1 TAAGTTATG
43048046 TAAGTTATG
1 TAAGTTATG
*
43048055 TGAGTTATG
1 TAAGTTATG
43048064 T-AGATTATG
1 TAAG-TTATG
* *
43048073 ATATGATATATA
1 -TAAG-T-TATG
43048085 TAAGTTAT-
1 TAAGTTATG
*
43048093 T-A-TTCA-C
1 TAAGTT-ATG
*
43048100 TAATTTATG
1 TAAGTTATG
* *
43048109 --AGATACATT
1 TAAG-T-TATG
*
43048118 TAAGTTACAG
1 TAAGTTA-TG
* *
43048128 TATGATATATA
1 TAAG-T-TATG
43048139 TAAGTTAT-
1 TAAGTTATG
43048147 TAAGTTATG
1 TAAGTTATG
43048156 TAAGTTATG
1 TAAGTTATG
*
43048165 TGAGTTATG
1 TAAGTTATG
43048174 T-AGATTATG
1 TAAG-TTATG
* *
43048183 ATATGATATATC
1 -TAAG-T-TATG
43048195 TAAGTTAT-
1 TAAGTTATG
*
43048203 TAAGTTAGG
1 TAAGTTATG
*
43048212 TAATTTATG
1 TAAGTTATG
* *
43048221 TGAGTTATT
1 TAAGTTATG
43048230 TAAGTTATGG
1 TAAGTTAT-G
* *
43048240 TATGATATATA
1 TAAG-T-TATG
43048251 TAAGTTAT-
1 TAAGTTATG
*
43048259 TAAGTTTTG
1 TAAGTTATG
*
43048268 TAAATTATG
1 TAAGTTATG
*
43048277 TGAGTT
1 TAAGTT
43048283 TCCGGGATTA
Statistics
Matches: 476, Mismatches: 96, Indels: 142
0.67 0.13 0.20
Matches are distributed among these distances:
6 6 0.01
7 22 0.05
8 86 0.18
9 252 0.53
10 34 0.07
11 51 0.11
12 25 0.05
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:43047695 original size:44 final size:47
Alignment explanation
Indices: 43047632--43047739 Score: 134
Period size: 44 Copynumber: 2.4 Consensus size: 47
43047622 AAGTATAATT
* *
43047632 AAGTTATGTAACTTATGATAAGA-ATATATAA-TTATGT-A-TTATGC
1 AAGTTATGTAAGTTATGATAAGATATATATAAGTTGT-TAAGTTATGC
* *
43047676 AAGTTATGTAAGTTATGATATGATATATATAAGTTGTTAAGTTATGT
1 AAGTTATGTAAGTTATGATAAGATATATATAAGTTGTTAAGTTATGC
*
43047723 AAGTTATGTGAGTTATG
1 AAGTTATGTAAGTTATG
43047740 TAGATTATGA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
44 21 0.38
45 9 0.16
46 4 0.07
47 21 0.38
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.43
Consensus pattern (47 bp):
AAGTTATGTAAGTTATGATAAGATATATATAAGTTGTTAAGTTATGC
Found at i:43047727 original size:47 final size:47
Alignment explanation
Indices: 43047631--43047795 Score: 149
Period size: 56 Copynumber: 3.4 Consensus size: 47
43047621 TAAGTATAAT
* *
43047631 TAAGTTATGTAACTTATGATAAGA-ATATATAA-TTATGT-A-TTATG
1 TAAGTTATGTAAGTTATGATATGATATATATAAGTTAT-TAAGTTATG
* *
43047675 CAAGTTATGTAAGTTATGATATGATATATATAAGTTGTTAAGTTATG
1 TAAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATG
* *
43047722 TAAGTTATGTGAGTTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGG
1 TAAGTTA--T--G-TA---AG-TTATGATATGATATATATAAGTTATTAAGTTATG
*
43047778 TAAGTTATGCAAGTTATG
1 TAAGTTATGTAAGTTATG
43047796 CAAGTTATGC
Statistics
Matches: 99, Mismatches: 9, Indels: 23
0.76 0.07 0.18
Matches are distributed among these distances:
44 21 0.21
45 9 0.09
46 4 0.04
47 16 0.16
48 2 0.02
49 1 0.01
51 2 0.02
52 3 0.03
54 1 0.01
55 2 0.02
56 38 0.38
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (47 bp):
TAAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATG
Found at i:43047737 original size:56 final size:56
Alignment explanation
Indices: 43047670--43047804 Score: 200
Period size: 56 Copynumber: 2.4 Consensus size: 56
43047660 TAATTATGTA
* * *
43047670 TTATGCAAGTTATGTAAGTTATGATATGATATATATAAGTTGTTAAGTTATGTAAG
1 TTATGCAAGTTATGTAAGTTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
**
43047726 TTATGTGAGTTATGT-AGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
1 TTATGCAAGTTATGTAAG-TTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
*
43047782 TTATGCAAGTTATGCAAGTTATG
1 TTATGCAAGTTATGTAAGTTATG
43047805 CAAGTTATGT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
55 2 0.03
56 65 0.94
57 2 0.03
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (56 bp):
TTATGCAAGTTATGTAAGTTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
Found at i:43047860 original size:125 final size:121
Alignment explanation
Indices: 43047670--43047895 Score: 380
Period size: 125 Copynumber: 1.8 Consensus size: 121
43047660 TAATTATGTA
* * *
43047670 TTATGCAAGTTATGTAAGTTATGATATGATATATATAAGTTGTTAAGTTATGTAAGTTATGTGAG
1 TTATGCAAGTTATGCAAGTTATGATATGATATATATAAGTTGTTAACTTATGTAAGTTATATGAG
43047735 TTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTATGCAAG
66 TTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTATGCAAG
43047791 TTATGCAAGTTATGCAAGTTATGTAAGTTATGATATATATAAGTTGTTAACTTATGTAAGTTATA
1 TTATGCAAGTTATGCAAGTTATG--A--TATGATATATATAAGTTGTTAACTTATGTAAGTTATA
*
43047856 TGAGTTATGTAGATTATGATATGATATATATAAGTTATTA
62 TGAGTTATGTAGATTATGATATGATACATATAAGTTATTA
43047896 TTCACTAATT
Statistics
Matches: 97, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
121 22 0.23
123 1 0.01
125 74 0.76
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (121 bp):
TTATGCAAGTTATGCAAGTTATGATATGATATATATAAGTTGTTAACTTATGTAAGTTATATGAG
TTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTATGCAAG
Found at i:43048010 original size:199 final size:200
Alignment explanation
Indices: 43047778--43048157 Score: 690
Period size: 199 Copynumber: 1.9 Consensus size: 200
43047768 TTAAGTTAGG
* *
43047778 TAAGTTATGCAAGTTATGCAAGTTATGCAAGTTATGTAAGTTATGATATATATAAGTTGTTAACT
1 TAAGTTATGCAAGTTAGGCAAGTTATCCAAGTTATGTAAGTTATGATATATATAAGTTGTTAACT
43047843 TATGTAAGTTATATGAGTTATGTAGATTATGATATGATATATATAAGTTATTATTCACTAATTTA
66 TATGTAAGTTATATGAGTTATGTAGATTATGATATGATATATATAAGTTATTATTCACTAATTTA
* *
43047908 TGAGATACATTTAAGTTACGGTATGATTTATATAAGTTATTAAGTTATGTAGATTATGATATGAT
131 TGAGATACATTTAAGTTACAGTATGATATATATAAGTTATTAAGTTATGTAGATTATGATATGAT
43047973 ACATA
196 ACATA
* *
43047978 TAAGTTAT-TAAGTTAGGTAAGTTATCCAAGTTATGTAAGTTATGATATATATAAGTTGTTAACT
1 TAAGTTATGCAAGTTAGGCAAGTTATCCAAGTTATGTAAGTTATGATATATATAAGTTGTTAACT
*
43048042 TATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATTATTCACTAATTTA
66 TATGTAAGTTATATGAGTTATGTAGATTATGATATGATATATATAAGTTATTATTCACTAATTTA
43048107 TGAGATACATTTAAGTTACAGTATGATATATATAAGTTATTAAGTTATGTA
131 TGAGATACATTTAAGTTACAGTATGATATATATAAGTTATTAAGTTATGTA
43048158 AGTTATGTGA
Statistics
Matches: 173, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
199 165 0.95
200 8 0.05
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (200 bp):
TAAGTTATGCAAGTTAGGCAAGTTATCCAAGTTATGTAAGTTATGATATATATAAGTTGTTAACT
TATGTAAGTTATATGAGTTATGTAGATTATGATATGATATATATAAGTTATTATTCACTAATTTA
TGAGATACATTTAAGTTACAGTATGATATATATAAGTTATTAAGTTATGTAGATTATGATATGAT
ACATA
Found at i:43048012 original size:56 final size:56
Alignment explanation
Indices: 43047940--43048282 Score: 336
Period size: 56 Copynumber: 6.3 Consensus size: 56
43047930 ATGATTTATA
* *
43047940 TAAGTTAT-TAAGTTATGT-AGATTATGATATGATACATATAAGTTATTAAGTTAGG
1 TAAGTTATGTGAGTTATGTAAG-TTATGATATGATATATATAAGTTATTAAGTTAGG
*** * * *
43047995 TAAGTTATCCAAGTTATGTAAG---T--TATGATATATATAAGTTGTTAACTTATG
1 TAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTAGG
*
43048046 TAAGTTATGTGAGTTATGT-AGATTATGATATGATATATATAAGTTATT-A-TTCA-C
1 TAAGTTATGTGAGTTATGTAAG-TTATGATATGATATATATAAGTTATTAAGTT-AGG
* * * * * *
43048100 TAATTTATGAGA-TACATTTAAGTTA-CAGTATGATATATATAAGTTATTAAGTTATG
1 TAAGTTATGTGAGT-TATGTAAGTTATGA-TATGATATATATAAGTTATTAAGTTAGG
*
43048156 TAAGTTATGTGAGTTATGT-AGATTATGATATGATATATCTAAGTTATTAAGTTAGG
1 TAAGTTATGTGAGTTATGTAAG-TTATGATATGATATATATAAGTTATTAAGTTAGG
* * * **
43048212 TAATTTATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTATTAAGTTTTG
1 TAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTAGG
*
43048268 TAAATTATGTGAGTT
1 TAAGTTATGTGAGTT
43048283 TCCGGGATTA
Statistics
Matches: 239, Mismatches: 30, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
50 2 0.01
51 40 0.17
53 3 0.01
54 39 0.16
55 16 0.07
56 133 0.56
57 6 0.03
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (56 bp):
TAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTAGG
Found at i:43048049 original size:51 final size:51
Alignment explanation
Indices: 43047940--43048082 Score: 146
Period size: 51 Copynumber: 2.7 Consensus size: 51
43047930 ATGATTTATA
* *
43047940 TAAGTTAT-TAAGTTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGG
1 TAAGTTATCCAAGTTATGTAGATTATG--AT-AT--ATATAAGTTATTAACTTAGG
* *
43047995 TAAGTTATCCAAGTTATGTA-AGTTATGATATATATAAGTTGTTAACTTATG
1 TAAGTTATCCAAGTTATGTAGA-TTATGATATATATAAGTTATTAACTTAGG
***
43048046 TAAGTTATGTGAGTTATGTAGATTATGATATGATATA
1 TAAGTTATCCAAGTTATGTAGATTATGATAT-ATATA
43048083 TATAAGTTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
51 43 0.56
52 6 0.08
53 2 0.03
54 2 0.03
55 9 0.12
56 15 0.19
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (51 bp):
TAAGTTATCCAAGTTATGTAGATTATGATATATATAAGTTATTAACTTAGG
Found at i:43048294 original size:112 final size:110
Alignment explanation
Indices: 43048018--43048282 Score: 390
Period size: 110 Copynumber: 2.4 Consensus size: 110
43048008 TTATGTAAGT
* *
43048018 TATGATATATATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
43048083 TATAAGTTATTATTCACTAATTTATGAGATACATTTAAGTTACAG
66 TATAAGTTATTATTCACTAATTTATGAGATACATTTAAGTTACAG
43048128 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
* * * * **
43048193 TCTAAGTTATTAAGTT-AGGTAATTTATGTGAGT-TATTTAAGTTATGG
66 TATAAGTTATT-A-TTCA-CTAATTTATGAGA-TACATTTAAGTTACAG
* *
43048240 TATGATATATATAAGTTATTAAGTTTTGTAAATTATGTGAGTT
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTT
43048283 TCCGGGATTA
Statistics
Matches: 141, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
110 73 0.52
111 2 0.01
112 65 0.46
113 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.45
Consensus pattern (110 bp):
TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
TATAAGTTATTATTCACTAATTTATGAGATACATTTAAGTTACAG
Found at i:43048303 original size:74 final size:75
Alignment explanation
Indices: 43048216--43048358 Score: 225
Period size: 76 Copynumber: 1.9 Consensus size: 75
43048206 GTTAGGTAAT
**
43048216 TTATGTGAGTTATTTAAGTTATGGTATG-ATATATATAAGTTATTAAGTTTTGTAAATTATGTGA
1 TTATGTGAGTTATTTAAGTTATGGTATGAATATATATAAGTTATTAAGTTAGGTAAATTATGTGA
43048280 GTTTCCGGGA
66 GTTTCCGGGA
* * *
43048290 TTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTTATTAAGTTAGGTAATTTATGTG
1 TTATGTGAGTTATTTAAGTTATGGTATGA-ATATATATAAGTTATTAAGTTAGGTAAATTATGTG
43048355 AGTT
65 AGTT
43048359 ATTTAAGTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 26 0.42
76 36 0.58
ACGTcount: A:0.30, C:0.01, G:0.20, T:0.48
Consensus pattern (75 bp):
TTATGTGAGTTATTTAAGTTATGGTATGAATATATATAAGTTATTAAGTTAGGTAAATTATGTGA
GTTTCCGGGA
Found at i:43048428 original size:27 final size:27
Alignment explanation
Indices: 43048387--43048438 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
43048377 ATATATAAGT
*
43048387 TATTATGTGAGTTATGTGAGTTATGTA
1 TATTATGTGAGTTATGTAAGTTATGTA
* *
43048414 TATTATGTGATTTATTTAAGTTATG
1 TATTATGTGAGTTATGTAAGTTATG
43048439 GTTTGATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (27 bp):
TATTATGTGAGTTATGTAAGTTATGTA
Found at i:43048449 original size:126 final size:129
Alignment explanation
Indices: 43048188--43048490 Score: 418
Period size: 132 Copynumber: 2.3 Consensus size: 129
43048178 TTATGATATG
* *
43048188 ATATATCTAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTTATGGTATGATATATATA
1 ATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGGTATGATATATATA
*
43048253 AGTTATTAAGTTTTGTAAATTATGTGAGTTTCCGGGATTATGTGATTTATTTAAGTTATGGTTTG
66 AGTTATTAA---TTGTAAATTATGTGAGTTT-CGAGATTATGTGATTTATTTAAGTTATGGTTTG
43048318 -AT
127 AAT
43048320 ATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGG-ATGATATATATA
1 ATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGGTATGATATATATA
* * *
43048384 AGTTATT-A-TGTGAGTTATGTGAGTTAT-GTATATTATGTGATTTATTTAAGTTATGGTTTGAT
66 AGTTATTAATTGTAAATTATGTGAGTT-TCG-AGATTATGTGATTTATTTAAGTTATGGTTTG--
43048446 ATAT
127 A-AT
* *
43048450 ATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTAT
1 ATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTAT
43048491 GTAGATTATC
Statistics
Matches: 157, Mismatches: 8, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
125 1 0.01
126 44 0.28
127 1 0.01
130 42 0.27
131 19 0.12
132 50 0.32
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (129 bp):
ATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGGTATGATATATATA
AGTTATTAATTGTAAATTATGTGAGTTTCGAGATTATGTGATTTATTTAAGTTATGGTTTGAAT
Found at i:43048479 original size:9 final size:9
Alignment explanation
Indices: 43048457--43048493 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
43048447 TATATATATA
43048457 TAAGTTAT-
1 TAAGTTATG
43048465 TAAGTTATG
1 TAAGTTATG
43048474 TAAGTTATG
1 TAAGTTATG
*
43048483 TGAGTTATG
1 TAAGTTATG
43048492 TA
1 TA
43048494 GATTATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:43048493 original size:18 final size:18
Alignment explanation
Indices: 43048139--43048438 Score: 81
Period size: 18 Copynumber: 16.5 Consensus size: 18
43048129 ATGATATATA
*
43048139 TAAGTTAT-TAAGTTATG
1 TAAGTTATGTGAGTTATG
43048156 TAAGTTATGTGAGTTATG
1 TAAGTTATGTGAGTTATG
*
43048174 T-AGATTATGAT-ATGATATATC
1 TAAG-TTATG-TGA-G-T-TATG
* *
43048195 TAAGTTAT-TAAGTTAGG
1 TAAGTTATGTGAGTTATG
* *
43048212 TAATTTATGTGAGTTATT
1 TAAGTTATGTGAGTTATG
*
43048230 TAAGTTATG-GTATGATATATA
1 TAAGTTATGTG-A-G-T-TATG
* *
43048251 TAAGTTAT-TAAGTTTTG
1 TAAGTTATGTGAGTTATG
*
43048268 TAAATTATGTGAGTT-TCCG
1 TAAGTTATGTGAGTTAT--G
** * *
43048287 GGA-TTATGTGATTTATT
1 TAAGTTATGTGAGTTATG
* *
43048304 TAAGTTATGGTTTGATATATATA
1 TAAGTTAT-G--TGA-GT-TATG
* *
43048327 TAAGTTAT-TAAGTTAGG
1 TAAGTTATGTGAGTTATG
* *
43048344 TAATTTATGTGAGTTATT
1 TAAGTTATGTGAGTTATG
* * *
43048362 TAAGTAATG-GA-TGATA
1 TAAGTTATGTGAGTTATG
* *
43048378 T-A-TATAAGTTA-TTATG
1 TAAGT-TATGTGAGTTATG
*
43048394 TGAGTTATGTGAGTTATG
1 TAAGTTATGTGAGTTATG
* *
43048412 TATA-TTATGTGATTTATT
1 TA-AGTTATGTGAGTTATG
43048430 TAAGTTATG
1 TAAGTTATG
43048439 GTTTGATATA
Statistics
Matches: 206, Mismatches: 45, Indels: 63
0.66 0.14 0.20
Matches are distributed among these distances:
14 1 0.00
15 3 0.01
16 9 0.04
17 49 0.24
18 91 0.44
19 13 0.06
20 4 0.02
21 22 0.11
22 3 0.01
23 11 0.05
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (18 bp):
TAAGTTATGTGAGTTATG
Found at i:43049240 original size:13 final size:13
Alignment explanation
Indices: 43049222--43049246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43049212 TTACCCACAG
43049222 CATTAACCAGAAA
1 CATTAACCAGAAA
43049235 CATTAACCAGAA
1 CATTAACCAGAA
43049247 CTTGCAGCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (13 bp):
CATTAACCAGAAA
Found at i:43050610 original size:19 final size:20
Alignment explanation
Indices: 43050573--43050612 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
43050563 ATTTGGCAGA
*
43050573 GATTTCGAAGGGGAGTTAGG
1 GATTTCGAAGGGGAATTAGG
*
43050593 GATTTGGAA-GGGAATTAGG
1 GATTTCGAAGGGGAATTAGG
43050612 G
1 G
43050613 GCTGGGTGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.28, C:0.03, G:0.45, T:0.25
Consensus pattern (20 bp):
GATTTCGAAGGGGAATTAGG
Found at i:43051035 original size:18 final size:20
Alignment explanation
Indices: 43051009--43051050 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
43050999 CAAACGCCAC
43051009 AATTGTTAA-AATTTT-TAA
1 AATTGTTAATAATTTTATAA
* *
43051027 AATTTTTAATAGTTTTATAA
1 AATTGTTAATAATTTTATAA
43051047 AATT
1 AATT
43051051 ATAATTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
AATTGTTAATAATTTTATAA
Found at i:43051573 original size:20 final size:20
Alignment explanation
Indices: 43051538--43051575 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43051528 GAAGCCTTAA
*
43051538 ACCCTAAACCATAAATATAC
1 ACCCTAAACCAGAAATATAC
*
43051558 ACCCTAAACCCGAAATAT
1 ACCCTAAACCAGAAATAT
43051576 GATATTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.18
Consensus pattern (20 bp):
ACCCTAAACCAGAAATATAC
Found at i:43052018 original size:14 final size:14
Alignment explanation
Indices: 43052009--43052050 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
43051999 CCCTAACTTT
43052009 TAACCCCTAACACC
1 TAACCCCTAACACC
43052023 TAACCCCTAAC-CTC
1 TAACCCCTAACAC-C
*
43052037 TAATCCCTAA-ACC
1 TAACCCCTAACACC
43052050 T
1 T
43052051 TAAATCACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.21
Consensus pattern (14 bp):
TAACCCCTAACACC
Found at i:43052087 original size:15 final size:14
Alignment explanation
Indices: 43052065--43052099 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
43052055 TCACAACCCT
43052065 TAAACCATAATCCC
1 TAAACCATAATCCC
*
43052079 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
43052094 TAAACC
1 TAAACC
43052100 TTACACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:43052540 original size:41 final size:41
Alignment explanation
Indices: 43052482--43052721 Score: 237
Period size: 41 Copynumber: 5.9 Consensus size: 41
43052472 AAATGTTTTT
* * *
43052482 GCGGCGCATTTTCAAAAATGCCGCTATAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* ** * *
43052523 GCGGCGCTTTTTTAAAAATACCGTTAAATCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * ** * * *
43052564 GCGGCACTTCTTGGAGAACGCCGCTATAGCCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * * * *
43052605 GTGGTGCTTTTTCAAAACCGCCGCTAAATCCCCAAACATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
43052646 GCGGCGCTTTTTCAAAAACACCTCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
43052687 GCAGCGCTTTTTCAAAAACGCCACTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
43052722 AAGGTCAGAA
Statistics
Matches: 156, Mismatches: 43, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
41 156 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:43052718 original size:123 final size:123
Alignment explanation
Indices: 43052490--43052719 Score: 273
Period size: 123 Copynumber: 1.9 Consensus size: 123
43052480 TTGCGGCGCA
* * * * * * *
43052490 TTTTCAAAAATGCCGCTATAGCCCCGAGCATTAGCGGCGCTTTTTTAAAAATACCGTTAAATCCC
1 TTTTCAAAAACGCCGCTAAAGCCCCAAACATTAGCGGCGCTTTTTCAAAAACACCGTTAAAGCCC
* ** * * *
43052555 CGAGCATTAGCGGCACTTCTTGGAGAACGCCGCTATAGCCCCAAGCATTAGTGGTGCT
66 CGAGCATTAGCAGCACTTCTTCAAAAACGCCACTAAAGCCCCAAGCATTAGTGGTGCT
* * *
43052613 TTTTCAAAACCGCCGCTAAATCCCCAAACATTAGCGGCGCTTTTTCAAAAACACC-TCTAAAGCT
1 TTTTCAAAAACGCCGCTAAAGCCCCAAACATTAGCGGCGCTTTTTCAAAAACACCGT-TAAAGCC
* * *
43052677 CTGAGCATTAGCAGCGCTTTTTCAAAAACGCCACTAAAGCCCC
65 CCGAGCATTAGCAGCACTTCTTCAAAAACGCCACTAAAGCCCC
43052720 GAAAGGTCAG
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
122 1 0.01
123 86 0.99
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (123 bp):
TTTTCAAAAACGCCGCTAAAGCCCCAAACATTAGCGGCGCTTTTTCAAAAACACCGTTAAAGCCC
CGAGCATTAGCAGCACTTCTTCAAAAACGCCACTAAAGCCCCAAGCATTAGTGGTGCT
Found at i:43052844 original size:40 final size:39
Alignment explanation
Indices: 43052770--43052863 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
43052760 CAGCATTTTT
43052770 CTAATGCTCAATTTTATCGGCGCTTTACTAAAAGTGCCG
1 CTAATGCTCAATTTTATCGGCGCTTTACTAAAAGTGCCG
* *
43052809 CTAATGCTCTATCTTTAGT-GGCGTTTTACGT-AAAGTGCCG
1 CTAATGCTCAAT-TTTA-TCGGCGCTTTAC-TAAAAGTGCCG
* *
43052849 CTAATACTCGATTTT
1 CTAATGCTCAATTTT
43052864 TAGCAGTGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
39 14 0.29
40 32 0.67
41 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (39 bp):
CTAATGCTCAATTTTATCGGCGCTTTACTAAAAGTGCCG
Found at i:43052875 original size:40 final size:40
Alignment explanation
Indices: 43052800--43052875 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
43052790 CGCTTTACTA
* * **
43052800 AAAGTGCCGCTAATGCTCTATCTTTAGTGGCGTTTTACGT
1 AAAGTGCCGCTAATACTCGATCTTTAGCAGCGTTTTACGT
* *
43052840 AAAGTGCCGCTAATACTCGATTTTTAGCAGTGTTTT
1 AAAGTGCCGCTAATACTCGATCTTTAGCAGCGTTTT
43052876 TCGTCCAAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (40 bp):
AAAGTGCCGCTAATACTCGATCTTTAGCAGCGTTTTACGT
Found at i:43057413 original size:20 final size:22
Alignment explanation
Indices: 43057390--43057435 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
43057380 AATAGTAGAT
43057390 TATTTTTAA-AATA-TTAAAAA
1 TATTTTTAACAATATTTAAAAA
*
43057410 TA--TTTAACTATATTTAAAAA
1 TATTTTTAACAATATTTAAAAA
43057430 TATTTT
1 TATTTT
43057436 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
18 5 0.24
19 3 0.14
20 11 0.52
22 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTTAACAATATTTAAAAA
Found at i:43057432 original size:10 final size:10
Alignment explanation
Indices: 43057397--43057434 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
43057387 GATTATTTTT
43057397 AAAATA-TTA
1 AAAATATTTA
43057406 AAAATATTTA
1 AAAATATTTA
**
43057416 ACTATATTTA
1 AAAATATTTA
43057426 AAAATATTT
1 AAAATATTT
43057435 TATTTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATATTTA
Found at i:43057768 original size:19 final size:19
Alignment explanation
Indices: 43057744--43057784 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
43057734 CTTTAAAATG
* *
43057744 AAACTTATAAAATACTTTC
1 AAACTTACAAAATACTATC
43057763 AAACTTACAAAATACTATC
1 AAACTTACAAAATACTATC
43057782 AAA
1 AAA
43057785 ATTGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (19 bp):
AAACTTACAAAATACTATC
Found at i:43063135 original size:20 final size:20
Alignment explanation
Indices: 43063112--43063247 Score: 55
Period size: 20 Copynumber: 6.8 Consensus size: 20
43063102 GCCCCTAAAT
43063112 GCACTCTGGTGCCCCTGATA
1 GCACTCTGGTGCCCCTGATA
* *
43063132 GCACAT-TTGTGCCCTTGA-A
1 GCAC-TCTGGTGCCCCTGATA
* * **
43063151 TGCACTCCGATGCCTTTGATA
1 -GCACTCTGGTGCCCCTGATA
* *
43063172 GCACAT-TCGTGCCCTTGATA
1 GCAC-TCTGGTGCCCCTGATA
* * *
43063192 GCA-TATTTGTGCCCCTGATT
1 GCACT-CTGGTGCCCCTGATA
* * * *
43063212 GCACACTTGTGCTCCTGATT
1 GCACTCTGGTGCCCCTGATA
* *
43063232 GCACTTTGGTACCCCT
1 GCACTCTGGTGCCCCT
43063248 ATTTTTGCAT
Statistics
Matches: 87, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 81 0.93
21 3 0.03
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (20 bp):
GCACTCTGGTGCCCCTGATA
Found at i:43063186 original size:40 final size:40
Alignment explanation
Indices: 43063092--43063189 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 40
43063082 GTTTATGTTT
* * * *
43063092 GCACATTTGTGCCCCTAAATGCACTCTGGTGCCCCTGATA
1 GCACATTTGTGCCCTTGAATGCACTCCGATGCCCCTGATA
**
43063132 GCACATTTGTGCCCTTGAATGCACTCCGATGCCTTTGATA
1 GCACATTTGTGCCCTTGAATGCACTCCGATGCCCCTGATA
*
43063172 GCACATTCGTGCCCTTGA
1 GCACATTTGTGCCCTTGA
43063190 TAGCATATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.30
Consensus pattern (40 bp):
GCACATTTGTGCCCTTGAATGCACTCCGATGCCCCTGATA
Found at i:43063207 original size:21 final size:20
Alignment explanation
Indices: 43063120--43063216 Score: 90
Period size: 20 Copynumber: 4.8 Consensus size: 20
43063110 ATGCACTCTG
* *
43063120 GTGCCCCTGATAGCACATTT
1 GTGCCCTTGATAGCACATTC
*
43063140 GTGCCCTTGA-ATGCAC-TCC
1 GTGCCCTTGATA-GCACATTC
*
43063159 GATGCCTTTGATAGCACATTC
1 G-TGCCCTTGATAGCACATTC
* *
43063180 GTGCCCTTGATAGCATATTT
1 GTGCCCTTGATAGCACATTC
* *
43063200 GTGCCCCTGATTGCACA
1 GTGCCCTTGATAGCACA
43063217 CTTGTGCTCC
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
19 3 0.05
20 55 0.89
21 4 0.06
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.31
Consensus pattern (20 bp):
GTGCCCTTGATAGCACATTC
Found at i:43069301 original size:40 final size:40
Alignment explanation
Indices: 43069257--43069428 Score: 166
Period size: 40 Copynumber: 4.3 Consensus size: 40
43069247 CCCTTGTGAA
* * * *
43069257 CACTTTGGTGTCCATGTTTGCACATTCATGCCCCTGAATG
1 CACTTTGGTGCCCCTGATAGCACATTCATGCCCCTGAATG
** *
43069297 CACTTTGGTGCCCCTGATAGCACATTTGTGCTCCTGAATG
1 CACTTTGGTGCCCCTGATAGCACATTCATGCCCCTGAATG
* * * * * *
43069337 CGCTTCGGTGCCCTTGATAGCACATTCGTACCCCTGAAAG
1 CACTTTGGTGCCCCTGATAGCACATTCATGCCCCTGAATG
* * * * *
43069377 CACATTT-GTGCCCCTGATTGCACACTCATGCTCTTGATTG
1 CAC-TTTGGTGCCCCTGATAGCACATTCATGCCCCTGAATG
43069417 CACTTTGGTGCC
1 CACTTTGGTGCC
43069429 TTTGTTTTTG
Statistics
Matches: 105, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (40 bp):
CACTTTGGTGCCCCTGATAGCACATTCATGCCCCTGAATG
Found at i:43069400 original size:20 final size:20
Alignment explanation
Indices: 43069274--43069400 Score: 96
Period size: 20 Copynumber: 6.3 Consensus size: 20
43069264 GTGTCCATGT
**
43069274 TTGCACATTCATGCCCCTGA
1 TTGCACATTTGTGCCCCTGA
*
43069294 ATGCAC-TTTGGTGCCCCTGA
1 TTGCACATTT-GTGCCCCTGA
* *
43069314 TAGCACATTTGTGCTCCTGA
1 TTGCACATTTGTGCCCCTGA
* * * *
43069334 ATGCGC-TTCGGTGCCCTTGA
1 TTGCACATT-TGTGCCCCTGA
* * *
43069354 TAGCACATTCGTACCCCTGA
1 TTGCACATTTGTGCCCCTGA
**
43069374 AAGCACATTTGTGCCCCTGA
1 TTGCACATTTGTGCCCCTGA
43069394 TTGCACA
1 TTGCACA
43069401 CTCATGCTCT
Statistics
Matches: 80, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
19 4 0.05
20 71 0.89
21 5 0.06
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (20 bp):
TTGCACATTTGTGCCCCTGA
Found at i:43069413 original size:60 final size:60
Alignment explanation
Indices: 43069307--43069419 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
43069297 CACTTTGGTG
* * * * *
43069307 CCCCTGATAGCACATTTGTGCTCCTGAATGCGCTTCGGTGCCCTTGATAGCACATTCGTA
1 CCCCTGAAAGCACATTTGTGCCCCTGAATGCACCTCGATGCCCTTGATAGCACATTCGTA
* * *
43069367 CCCCTGAAAGCACATTTGTGCCCCTGATTGCACACTC-ATGCTCTTGATTGCAC
1 CCCCTGAAAGCACATTTGTGCCCCTGAATGCAC-CTCGATGCCCTTGATAGCAC
43069420 TTTGGTGCCT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
60 42 0.95
61 2 0.05
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.29
Consensus pattern (60 bp):
CCCCTGAAAGCACATTTGTGCCCCTGAATGCACCTCGATGCCCTTGATAGCACATTCGTA
Found at i:43072136 original size:8 final size:9
Alignment explanation
Indices: 43072104--43072351 Score: 126
Period size: 9 Copynumber: 26.0 Consensus size: 9
43072094 TATTTTCCAA
43072104 AAAAATTATT
1 AAAAATTA-T
43072114 AAAGAATTAT
1 AAA-AATTAT
43072124 AAAAATTAT
1 AAAAATTAT
* *
43072133 AAAAAAATAG
1 -AAAAATTAT
43072143 AAAAATTAT
1 AAAAATTAT
43072152 AAAAA-TATT
1 AAAAATTA-T
* *
43072161 AAAACTGAT
1 AAAAATTAT
**
43072170 ATAAGCTTAT
1 A-AAAATTAT
43072180 AAAAATTAT
1 AAAAATTAT
*
43072189 AAAAAATAAT
1 -AAAAATTAT
* *
43072199 AAGAACTCAT
1 AA-AAATTAT
*
43072209 AAATATTAT
1 AAAAATTAT
*
43072218 AAAAAATAT
1 AAAAATTAT
* *
43072227 AAAAAATCT
1 AAAAATTAT
43072236 AATAAATTAT
1 AA-AAATTAT
43072246 AAAAAATTAT
1 -AAAAATTAT
43072256 -AAAATTA-
1 AAAAATTAT
43072263 ATAAAATATATT
1 A-AAAAT-TA-T
43072275 AAAAATTTAT
1 AAAAA-TTAT
* *
43072285 AAAGAGTAT
1 AAAAATTAT
* *
43072294 AAAATTTCTTAA
1 AAAA---ATTAT
43072306 AAAAATTAT
1 AAAAATTAT
43072315 AAAAA-TAT
1 AAAAATTAT
* *
43072323 TAAAATAGAT
1 AAAAAT-TAT
43072333 AAAAACTTAT
1 AAAAA-TTAT
*
43072343 CAAAATTAT
1 AAAAATTAT
43072352 TACTGAATCA
Statistics
Matches: 183, Mismatches: 34, Indels: 43
0.70 0.13 0.17
Matches are distributed among these distances:
8 16 0.09
9 77 0.42
10 68 0.37
11 14 0.08
12 8 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:43072210 original size:29 final size:28
Alignment explanation
Indices: 43072103--43072259 Score: 122
Period size: 28 Copynumber: 5.5 Consensus size: 28
43072093 ATATTTTCCA
* *
43072103 AAAAAATTATTAAAGAATTATAAAAATTAT
1 AAAAAA-TA-TAAAAAATCATAAAAATTAT
*
43072133 AAAAAA-ATAGAAAAATTATAAAAA-TAT
1 AAAAAATATA-AAAAATCATAAAAATTAT
* * * ** *
43072160 TAAAACTGATATAAGCTTATAAAAATTAT
1 AAAAAAT-ATAAAAAATCATAAAAATTAT
* * *
43072189 AAAAAATAATAAGAACTCATAAATATTAT
1 AAAAAAT-ATAAAAAATCATAAAAATTAT
43072218 AAAAAATATAAAAAATC-TAATAAATTAT
1 AAAAAATATAAAAAATCATAA-AAATTAT
43072246 AAAAAATTATAAAA
1 AAAAAA-TATAAAA
43072260 TTAATAAAAT
Statistics
Matches: 104, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
27 12 0.12
28 45 0.43
29 41 0.39
30 6 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (28 bp):
AAAAAATATAAAAAATCATAAAAATTAT
Found at i:43072218 original size:38 final size:38
Alignment explanation
Indices: 43072143--43072233 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
43072133 AAAAAAATAG
* * *
43072143 AAAAATTAT-AAAAATATTAAAACTGATATAAGCTTAT
1 AAAAATTATAAAAAATAATAAAACTCATATAAGATTAT
*
43072180 AAAAATTATAAAAAATAATAAGAACTCATA-AATATTAT
1 AAAAATTATAAAAAATAATAA-AACTCATATAAGATTAT
*
43072218 AAAAAATATAAAAAAT
1 AAAAATTATAAAAAAT
43072234 CTAATAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
37 9 0.19
38 31 0.66
39 7 0.15
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (38 bp):
AAAAATTATAAAAAATAATAAAACTCATATAAGATTAT
Found at i:43072277 original size:29 final size:29
Alignment explanation
Indices: 43072209--43072350 Score: 107
Period size: 29 Copynumber: 4.9 Consensus size: 29
43072199 AAGAACTCAT
*
43072209 AAATAT-TATAAAAAATATAAAAAATCTAAT-
1 AAATATAT-TAAAAAAT-TATAAAAT-TAATA
43072239 AAAT-TA-TAAAAAATTATAAAATTAATA
1 AAATATATTAAAAAATTATAAAATTAATA
* *
43072266 AAATATATTAAAAATTTATAAAGAGT-ATA
1 AAATATATTAAAAAATTATAAA-ATTAATA
* * * *
43072295 AAATTTCTTAAAAAAATTATAAAAATATTA
1 AAATATATT-AAAAAATTATAAAATTAATA
* *
43072325 AAATAGA-TAAAAACTTATCAAAATTA
1 AAATATATTAAAAAATTAT-AAAATTA
43072351 TTACTGAATC
Statistics
Matches: 91, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
26 4 0.04
27 11 0.12
28 19 0.21
29 33 0.36
30 24 0.26
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (29 bp):
AAATATATTAAAAAATTATAAAATTAATA
Found at i:43072925 original size:21 final size:20
Alignment explanation
Indices: 43072899--43073021 Score: 65
Period size: 20 Copynumber: 5.8 Consensus size: 20
43072889 ATTTTAAGGA
*
43072899 TTTAAATGATTTTGTATAAAT
1 TTTAAATAATTTT-TATAAAT
*
43072920 TTTAAATAATTTTTATAATT
1 TTTAAATAATTTTTATAAAT
43072940 TCCTATAATTTATTAGATTTTTAT--AT
1 T--T-TAA---A-TA-ATTTTTATAAAT
* *
43072966 TATATATAAATTTTTATAAAT
1 TTTAAAT-AATTTTTATAAAT
*
43072987 TTTAAAT-ATATTTTATTAAT
1 TTTAAATAAT-TTTTATAAAT
43073007 TTTATAA-AATTTTTA
1 TTTA-AATAATTTTTA
43073022 ATGATTTATT
Statistics
Matches: 80, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
19 11 0.14
20 27 0.34
21 23 0.29
22 1 0.01
23 5 0.06
26 3 0.04
27 2 0.03
28 8 0.10
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAATAATTTTTATAAAT
Found at i:43072939 original size:9 final size:9
Alignment explanation
Indices: 43072925--43073211 Score: 103
Period size: 9 Copynumber: 30.9 Consensus size: 9
43072915 TAAATTTTAA
43072925 ATAATTTTT
1 ATAATTTTT
*
43072934 ATAATTTCCT
1 ATAATTT-TT
43072944 ATAATTTATT
1 ATAATTT-TT
*
43072954 A-GATTTTT
1 ATAATTTTT
*
43072962 AT-ATTATAT
1 ATAATT-TTT
43072971 ATAAATTTTT
1 AT-AATTTTT
*
43072981 ATAAATTTT
1 ATAATTTTT
*
43072990 AAATATATTTT
1 ATA-AT-TTTT
43073001 ATTAATTTTAT
1 A-TAATTTT-T
*
43073012 AAAATTTTT
1 ATAATTTTT
*
43073021 AATGATTTATT
1 -ATAATTT-TT
*
43073032 A-GATTTTAT
1 ATAATTTT-T
* ***
43073041 AAAAAAATT
1 ATAATTTTT
*
43073050 ATAATATTT
1 ATAATTTTT
43073059 ATAATATTTT
1 ATAAT-TTTT
*
43073069 ATTATTTTT
1 ATAATTTTT
*
43073078 -TACAATTTT
1 ATA-ATTTTT
*
43073087 ATAAGTTTAT
1 ATAA-TTTTT
*
43073097 ATCAATTTTA
1 AT-AATTTTT
43073107 AT-ATTTTT
1 ATAATTTTT
43073115 ATTAA-TTTT
1 A-TAATTTTT
43073124 ATAAATATTTT
1 AT-AAT-TTTT
43073135 AATAATTTATT
1 -ATAATTT-TT
*
43073146 A-GATTTTT
1 ATAATTTTT
43073154 AT-A-TTTT
1 ATAATTTTT
*
43073161 ATAATAATTT
1 ATAAT-TTTT
43073171 ATAA-TTTT
1 ATAATTTTT
*
43073179 ATAA--TTA
1 ATAATTTTT
43073186 ATAATTTTT
1 ATAATTTTT
* *
43073195 ATAACTTCT
1 ATAATTTTT
43073204 ATAATTTT
1 ATAATTTT
43073212 CTGAACTTTT
Statistics
Matches: 209, Mismatches: 38, Indels: 62
0.68 0.12 0.20
Matches are distributed among these distances:
7 12 0.06
8 27 0.13
9 80 0.38
10 62 0.30
11 25 0.12
12 3 0.01
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (9 bp):
ATAATTTTT
Found at i:43072985 original size:10 final size:10
Alignment explanation
Indices: 43072907--43073021 Score: 50
Period size: 9 Copynumber: 11.7 Consensus size: 10
43072897 GATTTAAATG
43072907 ATTTTGTATAA
1 ATTTT-TATAA
*
43072918 A-TTTTAAATA
1 ATTTTTATA-A
43072928 ATTTTTAT-A
1 ATTTTTATAA
*
43072937 ATTTCCTAT-A
1 ATTT-TTATAA
* *
43072947 ATTTAT-TAG
1 ATTTTTATAA
43072956 ATTTTTAT--
1 ATTTTTATAA
*
43072964 ATTATATATAA
1 ATT-TTTATAA
43072975 ATTTTTATAA
1 ATTTTTATAA
43072985 A-TTTTA-AA
1 ATTTTTATAA
*
43072993 TATATTTTATTA
1 -AT-TTTTATAA
43073005 A-TTTTATAAA
1 ATTTTTAT-AA
43073015 ATTTTTA
1 ATTTTTA
43073022 ATGATTTATT
Statistics
Matches: 80, Mismatches: 10, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
8 6 0.08
9 30 0.38
10 23 0.29
11 20 0.25
12 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:43073209 original size:18 final size:16
Alignment explanation
Indices: 43073151--43073211 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 16
43073141 TTATTAGATT
43073151 TTTAT-ATTTTATAATAA
1 TTTATAATTTT-T-ATAA
43073168 TTTATAA-TTTTATAA
1 TTTATAATTTTTATAA
*
43073183 TTAATAATTTTTATAA
1 TTTATAATTTTTATAA
43073199 CTTCTATAATTTT
1 -TT-TATAATTTT
43073212 CTGAACTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
15 10 0.26
16 9 0.24
17 10 0.26
18 9 0.24
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATAATTTTTATAA
Found at i:43076931 original size:22 final size:23
Alignment explanation
Indices: 43076890--43076937 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
43076880 TTAATATGTC
*
43076890 AATGCAATATTTTCAGAAAACAA
1 AATGCAATATTTTCAGAAAAAAA
*
43076913 AATGCAGAT-TTTTCAAAAAAAAA
1 AATGCA-ATATTTTCAGAAAAAAA
43076936 AA
1 AA
43076938 AAACTTCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.25
Consensus pattern (23 bp):
AATGCAATATTTTCAGAAAAAAA
Found at i:43077687 original size:32 final size:32
Alignment explanation
Indices: 43077651--43077723 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
43077641 CTAGAAAATG
* *
43077651 GGCCCACACGACTTAAACAACCCAAATTGTGT
1 GGCCCACACGACCTAAACAACCCAAACTGTGT
* * *
43077683 GGCCCACATGGCCTAAACAACCCAGACTGTGT
1 GGCCCACACGACCTAAACAACCCAAACTGTGT
*
43077715 GGACCACAC
1 GGCCCACAC
43077724 AGTTTGGCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.15
Consensus pattern (32 bp):
GGCCCACACGACCTAAACAACCCAAACTGTGT
Found at i:43086158 original size:28 final size:28
Alignment explanation
Indices: 43086118--43086174 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
43086108 TAATTTTTTG
*
43086118 TAATAATTAATATC-ATATAAAAACTTAA
1 TAATAAATAATATCTA-ATAAAAACTTAA
* *
43086146 TAATAAATGATATCTAATTAAAACTTAA
1 TAATAAATAATATCTAATAAAAACTTAA
43086174 T
1 T
43086175 TTAAAGTAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (28 bp):
TAATAAATAATATCTAATAAAAACTTAA
Found at i:43087027 original size:14 final size:14
Alignment explanation
Indices: 43087004--43087036 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
43086994 ATTGTGGATT
43087004 TAAA-AATTAAAAA
1 TAAATAATTAAAAA
43087017 TAAATAATTAAAAA
1 TAAATAATTAAAAA
43087031 TAAATA
1 TAAATA
43087037 GAACACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAATAATTAAAAA
Found at i:43087630 original size:15 final size:17
Alignment explanation
Indices: 43087610--43087650 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
43087600 ACTATAAAAA
43087610 ATTTATTA-T-TAATAT
1 ATTTATTATTGTAATAT
*
43087625 ATTTATAATTGTAATAT
1 ATTTATTATTGTAATAT
43087642 ATATTATTA
1 AT-TTATTA
43087651 AAATATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 1 0.05
17 8 0.38
18 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTATTATTGTAATAT
Found at i:43087715 original size:15 final size:16
Alignment explanation
Indices: 43087695--43087725 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43087685 TTGTTTAAAA
43087695 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
43087710 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
43087726 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:43087766 original size:14 final size:14
Alignment explanation
Indices: 43087720--43087777 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
43087710 TTTAAAATTT
43087720 ATTATTAAA-ATAAA
1 ATTATTAAATAT-AA
*
43087734 ATTATAAAATCGAATAA
1 ATTATTAAAT---ATAA
43087751 ATTATTAAATATAA
1 ATTATTAAATATAA
*
43087765 ATAATTAAATATA
1 ATTATTAAATATA
43087778 TATTTTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 24 0.65
17 11 0.30
18 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (14 bp):
ATTATTAAATATAA
Found at i:43087842 original size:6 final size:6
Alignment explanation
Indices: 43087831--43087856 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
43087821 TTAAATATTT
43087831 TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TT
43087857 TTATTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:43090620 original size:5 final size:5
Alignment explanation
Indices: 43090612--43090637 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
43090602 GAGATGGAGT
43090612 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
43090638 ATATTTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:43091185 original size:15 final size:16
Alignment explanation
Indices: 43091165--43091194 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43091155 GTGGAAAATA
43091165 AAAAGTTTG-GGGAAT
1 AAAAGTTTGAGGGAAT
43091180 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
43091195 AATAAATAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.23
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:43091229 original size:32 final size:33
Alignment explanation
Indices: 43091142--43091230 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 33
43091132 AATGGTGAAA
43091142 AGTAAAAGTTTGG-GTGGAAAATAAAAAGTTTGGGG
1 AGTAAAAGTTTGGAG-GGAAAATAAAAAG--TGGGG
* *
43091177 AATAAAAGTTT-GAGGGAAAATAAATAG-GGGG
1 AGTAAAAGTTTGGAGGGAAAATAAAAAGTGGGG
*
43091208 AGTAAAATTTTGGAGGGAAAATA
1 AGTAAAAGTTTGGAGGGAAAATA
43091231 TTAAAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 13 0.27
32 11 0.23
34 13 0.27
35 11 0.23
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (33 bp):
AGTAAAAGTTTGGAGGGAAAATAAAAAGTGGGG
Found at i:43091313 original size:31 final size:29
Alignment explanation
Indices: 43091278--43091339 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
43091268 GGGAGATGGG
*
43091278 ATGGGAAGAGAATAAAAGTTTTAGGGGATAA
1 ATGGG-AGAGAATAAAAATTTTAGGGGA-AA
* * *
43091309 ATGGGAGGGAGTAAAAATTTTGGGGGAAA
1 ATGGGAGAGAATAAAAATTTTAGGGGAAA
43091338 AT
1 AT
43091340 AAAAGGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 4 0.15
30 18 0.67
31 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (29 bp):
ATGGGAGAGAATAAAAATTTTAGGGGAAA
Found at i:43091567 original size:9 final size:9
Alignment explanation
Indices: 43091553--43091588 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
43091543 ATATTTTGAC
43091553 ATTCGAATT
1 ATTCGAATT
43091562 ATTCGAATT
1 ATTCGAATT
*
43091571 ATTCGAGTT
1 ATTCGAATT
43091580 ATTCGAATT
1 ATTCGAATT
43091589 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (9 bp):
ATTCGAATT
Found at i:43112745 original size:17 final size:16
Alignment explanation
Indices: 43112725--43112757 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
43112715 TATCCCTCAT
43112725 CTCTCATCTCATCATCC
1 CTCTCATCTC-TCATCC
43112742 CTCTCATCTCTCATCC
1 CTCTCATCTCTCATCC
43112758 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.48, G:0.00, T:0.36
Consensus pattern (16 bp):
CTCTCATCTCTCATCC
Found at i:43126605 original size:26 final size:28
Alignment explanation
Indices: 43126554--43126605 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
43126544 TACGTGTGTA
* *
43126554 TATATATATATTATAAAATGTGTATATG
1 TATATATAAATTATAAAATGTATATATG
43126582 TATATATAAATTAT-AAA-GTATATA
1 TATATATAAATTATAAAATGTATATA
43126606 AGAAATAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 3 0.14
28 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (28 bp):
TATATATAAATTATAAAATGTATATATG
Found at i:43132341 original size:13 final size:13
Alignment explanation
Indices: 43132325--43132387 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
43132315 TTCTTCATTA
*
43132325 CTTTTAAAAAGTA
1 CTTTTAAAAAGTG
*
43132338 CTTTTGAAAAGTG
1 CTTTTAAAAAGTG
* *
43132351 CTGTGAAAAAGTG
1 CTTTTAAAAAGTG
* *
43132364 CTTTTCAGAAGTG
1 CTTTTAAAAAGTG
43132377 CTTTTGAAAAA
1 CTTTT-AAAAA
43132388 TTTGAGTGTT
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
13 35 0.92
14 3 0.08
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (13 bp):
CTTTTAAAAAGTG
Found at i:43132367 original size:26 final size:27
Alignment explanation
Indices: 43132330--43132387 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
43132320 CATTACTTTT
*
43132330 AAAAAGTACTTTTGAAAAGTGC-TGTG
1 AAAAAGTACTTTTCAAAAGTGCTTGTG
* * *
43132356 AAAAAGTGCTTTTCAGAAGTGCTTTTG
1 AAAAAGTACTTTTCAAAAGTGCTTGTG
43132383 AAAAA
1 AAAAA
43132388 TTTGAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (27 bp):
AAAAAGTACTTTTCAAAAGTGCTTGTG
Found at i:43133705 original size:19 final size:19
Alignment explanation
Indices: 43133643--43133681 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
43133633 TCAGTGGAGA
*
43133643 AGAGGAACAAAGAACTAGC
1 AGAGGAACAAAGAACCAGC
43133662 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
43133681 A
1 A
43133682 CCAGCAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.18, G:0.26, T:0.03
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:43134094 original size:19 final size:18
Alignment explanation
Indices: 43134057--43134099 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
43134047 AAGTATTTAT
*
43134057 AGTAAAAATAATAACCAAA
1 AGTAATAATAATAACC-AA
43134076 AGTAATAATGAATAA-CAA
1 AGTAATAAT-AATAACCAA
43134094 AGTAAT
1 AGTAAT
43134100 TAAAAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.21
Consensus pattern (18 bp):
AGTAATAATAATAACCAA
Found at i:43140232 original size:22 final size:23
Alignment explanation
Indices: 43140190--43140232 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
43140180 TCTTAACAAA
43140190 AAAATTATTTATTCATATAAAAG
1 AAAATTATTTATTCATATAAAAG
43140213 AAAATATATTT-TT-ATATAAA
1 AAAAT-TATTTATTCATATAAA
43140233 GAATAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATTATTTATTCATATAAAAG
Found at i:43142018 original size:24 final size:24
Alignment explanation
Indices: 43141977--43142068 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
43141967 AATAGGAAAT
* *
43141977 GAGTTACAAGAAGATGAAATATGAA
1 GAGTTA-AGGAAGATGAAAGATGAA
*
43142002 GAGTTAAGGAAGATGAAAGGTGAA
1 GAGTTAAGGAAGATGAAAGATGAA
* *
43142026 -AGGTTGAGGAAGATGAAAGGTGAA
1 GA-GTTAAGGAAGATGAAAGATGAA
* *
43142050 -ATGTGAAGAAAGATGAAAG
1 GA-GTTAAGGAAGATGAAAG
43142069 GTTGAACATC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
23 1 0.02
24 51 0.88
25 6 0.10
ACGTcount: A:0.48, C:0.01, G:0.34, T:0.17
Consensus pattern (24 bp):
GAGTTAAGGAAGATGAAAGATGAA
Found at i:43142069 original size:24 final size:24
Alignment explanation
Indices: 43142011--43142070 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
43142001 AGAGTTAAGG
*
43142011 AAGATGAAAGGTGAAAGGTTGAGG
1 AAGATGAAAGGTGAAAGGTTGAGA
*
43142035 AAGATGAAAGGTGAAATG-TGAAGA
1 AAGATGAAAGGTGAAAGGTTG-AGA
43142059 AAGATGAAAGGT
1 AAGATGAAAGGT
43142071 TGAACATCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.47, C:0.00, G:0.37, T:0.17
Consensus pattern (24 bp):
AAGATGAAAGGTGAAAGGTTGAGA
Found at i:43142333 original size:89 final size:88
Alignment explanation
Indices: 43142183--43142346 Score: 240
Period size: 89 Copynumber: 1.9 Consensus size: 88
43142173 TTTCTTTTTA
* * ** *
43142183 CACTCATTTGGGTACTTGAACTTTCAAAATACATCAAAAAGGCCCTCAAACCTTTTCAAAAAAAG
1 CACTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGGCCCTCAAACC-TTAAAAAAAAAA
*
43142248 TAATTAAGCCCCTACTTTTTTTCG
65 CAATTAAGCCCCTACTTTTTTTCG
*
43142272 CACTCAATTGGGTACTTGAACTTTCAAAATGCAGTAAAAAAGGCCCTCAAA-CTTAAAAAAAAAA
1 CACTCAATTGGGTACTTGAACTTTCAAAATACA-TAAAAAAGGCCCTCAAACCTTAAAAAAAAAA
43142336 CAATTAAGCCC
65 CAATTAAGCCC
43142347 TTGCTTTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
88 19 0.28
89 32 0.48
90 16 0.24
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.27
Consensus pattern (88 bp):
CACTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGGCCCTCAAACCTTAAAAAAAAAAC
AATTAAGCCCCTACTTTTTTTCG
Found at i:43142400 original size:39 final size:40
Alignment explanation
Indices: 43142357--43142440 Score: 91
Period size: 39 Copynumber: 2.1 Consensus size: 40
43142347 TTGCTTTTAT
* * *
43142357 TAAAAGTTAGAAAAAAATTA-GAAAAAATCGTAAAATA-TA
1 TAAAAATT-GAAAAAAATTATAAAAAAATCGTAAAAAATTA
* **
43142396 TAAAAATTGTAAAATTTTATAAAAAAATCGTAAAAAATTA
1 TAAAAATTGAAAAAAATTATAAAAAAATCGTAAAAAATTA
43142436 TAAAA
1 TAAAA
43142441 TATATAGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
38 8 0.22
39 22 0.59
40 7 0.19
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (40 bp):
TAAAAATTGAAAAAAATTATAAAAAAATCGTAAAAAATTA
Found at i:43142401 original size:10 final size:10
Alignment explanation
Indices: 43142388--43142468 Score: 53
Period size: 10 Copynumber: 8.3 Consensus size: 10
43142378 AAAAAATCGT
43142388 AAAATATATA
1 AAAATATATA
*
43142398 AAAAT-TGTA
1 AAAATATATA
* *
43142407 AAATTTTATA
1 AAAATATATA
* *
43142417 AAAAAATCGTA
1 AAAATAT-ATA
43142428 AAAA-AT-TA
1 AAAATATATA
43142436 TAAAATATATA
1 -AAAATATATA
* *
43142447 GAAATATAAA
1 AAAATATATA
43142457 AAAAT-TATA
1 AAAATATATA
43142466 AAA
1 AAA
43142469 TTTTATAAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
8 2 0.04
9 17 0.31
10 28 0.51
11 8 0.15
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (10 bp):
AAAATATATA
Found at i:43142414 original size:59 final size:59
Alignment explanation
Indices: 43142364--43142477 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 59
43142354 TATTAAAAGT
* * *
43142364 TAGAAAAAAATTAGAAAAAATCGTA-AAATATATAAAAATTGTAAAATTTTATAAAAAAA
1 TAGAAAAAAATTAGAAAAAAT-ATAGAAATATAAAAAAATTATAAAATTTTATAAAAAAA
* * * *
43142423 TCGTAAAAAATTATAAAATATATAGAAATATAAAAAAATTATAAAATTTTATAAA
1 TAGAAAAAAATTAGAAAAAATATAGAAATATAAAAAAATTATAAAATTTTATAAA
43142478 GTTGTAAGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 2 0.04
59 45 0.96
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (59 bp):
TAGAAAAAAATTAGAAAAAATATAGAAATATAAAAAAATTATAAAATTTTATAAAAAAA
Found at i:43142421 original size:21 final size:21
Alignment explanation
Indices: 43142392--43142477 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
43142382 AATCGTAAAA
* *
43142392 TATATAAAAATTGTAAAATTT
1 TATAAAAAAATTATAAAATTT
** **
43142413 TATAAAAAAATCGTAAAAAAT
1 TATAAAAAAATTATAAAATTT
*
43142434 TAT-AAAATA-TATAGAAA---
1 TATAAAAAAATTATA-AAATTT
43142451 TATAAAAAAATTATAAAATTT
1 TATAAAAAAATTATAAAATTT
43142472 TATAAA
1 TATAAA
43142478 GTTGTAAGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
17 3 0.06
18 8 0.16
19 6 0.12
20 8 0.16
21 26 0.51
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (21 bp):
TATAAAAAAATTATAAAATTT
Found at i:43142500 original size:59 final size:57
Alignment explanation
Indices: 43142389--43142515 Score: 139
Period size: 59 Copynumber: 2.2 Consensus size: 57
43142379 AAAAATCGTA
* * *
43142389 AAATATATAAAAATTGTAAAATTTTATAAAAAAATCGTAAAAAATTATAAAATATATAG
1 AAATATAAAAAAATTATAAAATTTTAT--AAAAATCGTAAAAAATTATAAAATATAAAG
* * * *
43142448 AAATATAAAAAAATTATAAAATTTTAT-AAAGTTGTAAGAAAGTTATACAAAATGTAAAG
1 AAATATAAAAAAATTATAAAATTTTATAAAAATCGTAA-AAAATTAT--AAAATATAAAG
43142507 AAATATAAA
1 AAATATAAA
43142516 TTTCGTAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 8 0.14
57 7 0.12
59 43 0.74
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (57 bp):
AAATATAAAAAAATTATAAAATTTTATAAAAATCGTAAAAAATTATAAAATATAAAG
Found at i:43157271 original size:12 final size:14
Alignment explanation
Indices: 43157237--43157275 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
43157227 TATTTTACAT
*
43157237 TTCAATTCATCATA
1 TTCAATTTATCATA
43157251 TTCAATTTATCA-A
1 TTCAATTTATCATA
43157264 TT-AATTTATCAT
1 TTCAATTTATCAT
43157276 TTTCTTCACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 9 0.39
13 3 0.13
14 11 0.48
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (14 bp):
TTCAATTTATCATA
Found at i:43160516 original size:2 final size:2
Alignment explanation
Indices: 43160503--43160535 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
43160493 CCTTAACATT
*
43160503 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
43160536 TATCTTTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:43162284 original size:28 final size:28
Alignment explanation
Indices: 43162229--43162286 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
43162219 CAGAAAAGTG
** * *
43162229 AGAAAGTCCACCAAGAGCTATTGTAAGA
1 AGAAAGTCCACCAAGAAATAATGGAAGA
*
43162257 AGAAAGTCCACCAGGAAATAATGGAAGA
1 AGAAAGTCCACCAAGAAATAATGGAAGA
43162285 AG
1 AG
43162287 TAGAAGTCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.14
Consensus pattern (28 bp):
AGAAAGTCCACCAAGAAATAATGGAAGA
Found at i:43165795 original size:138 final size:137
Alignment explanation
Indices: 43165539--43165847 Score: 424
Period size: 138 Copynumber: 2.2 Consensus size: 137
43165529 ATGTCATTAG
* * * * * *
43165539 GGTTACCATGTTTTGGATGCTGGTCTTGAATGTCCTATCAGTGGCTGAGTTTCAGATGTATTGCG
1 GGTTACCATGTTTCGGGTGTTGGTCTTGAATGTCCTATCAGTGGCTAAGTTTCACACGTATTGCG
* * *
43165604 AATACTTGACAGATTGTGTGAGTAACATCGTGTAGCTTACATTCCGATCGACAGCTTGTGTGAGT
66 AATACTTGACAGATTGTGTGAGCAACACCGTGTAGCTTACATTCCGATCGACAGCTTGTGTGAGC
43165669 AGAACTA
131 AGAACTA
* ** *
43165676 GGTTATCATGTTTCGGGTGTTGGTCTTGAATGTCCTATTGGTGGCTAAGTTTCAACACGTGTTGC
1 GGTTACCATGTTTCGGGTGTTGGTCTTGAATGTCCTATCAGTGGCTAAGTTTC-ACACGTATTGC
*
43165741 -ATATACTTGACAGCTTGTGTGAGCAACACCGTGTAGCTTACATTCCGA-CGGACAGCTTGTGTG
65 GA-ATACTTGACAGATTGTGTGAGCAACACCGTGTAGCTTACATTCCGATC-GACAGCTTGTGTG
*
43165804 AGCAGACCTA
128 AGCAGAACTA
**
43165814 GGTTACCATGTTTCAAGTGTTGGTCTTGAATGTC
1 GGTTACCATGTTTCGGGTGTTGGTCTTGAATGTC
43165848 TTACCGATGG
Statistics
Matches: 151, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
137 48 0.32
138 103 0.68
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (137 bp):
GGTTACCATGTTTCGGGTGTTGGTCTTGAATGTCCTATCAGTGGCTAAGTTTCACACGTATTGCG
AATACTTGACAGATTGTGTGAGCAACACCGTGTAGCTTACATTCCGATCGACAGCTTGTGTGAGC
AGAACTA
Found at i:43165885 original size:138 final size:137
Alignment explanation
Indices: 43165605--43165943 Score: 385
Period size: 138 Copynumber: 2.5 Consensus size: 137
43165595 TGTATTGCGA
* * *
43165605 ATACTTGACAGATTGTGTGAGTAACATCGTGTAGCTTACATTCCGATCGACAGCTTGTGTGAGTA
1 ATACTTGACAGCTTGTGTGAGCAACATCGTGTAGCTTACATTCCGA-CGACAGCTTGTGTGAGCA
* ** ** * * *
43165670 GAACTAGGTTATCATGTTTCGGGTGTTGGTCTTGAATGTCCTATTGGTGGCTAAGTTTCAACACG
65 GAACTAGGTTACCATGTTTCAAGTGTTGGTCTTGAATGTCCTACCGATGGATAAGTCTCAACACG
*
43165735 TGTTGCAT
130 TGTTGCAG
*
43165743 ATACTTGACAGCTTGTGTGAGCAACACCGTGTAGCTTACATTCCGACGGACAGCTTGTGTGAGCA
1 ATACTTGACAGCTTGTGTGAGCAACATCGTGTAGCTTACATTCCGAC-GACAGCTTGTGTGAGCA
* * * *
43165808 GACCTAGGTTACCATGTTTCAAGTGTTGGTCTTGAATGTCTTACCGATGGATGAGGTCT-AGCA-
65 GAACTAGGTTACCATGTTTCAAGTGTTGGTCTTGAATGTCCTACCGATGGAT-AAGTCTCAACAC
* **
43165871 TTAGTTGTGG
129 GT-GTTGCAG
* * * * * *
43165881 ATACTCGATAGCTTGTGTGAGCAACATCGTCTAGCTTACATTTCAACCGATAGCTTGTGTGAG
1 ATACTTGACAGCTTGTGTGAGCAACATCGTGTAGCTTACATTCCGA-CGACAGCTTGTGTGAG
43165944 TTGACCCATT
Statistics
Matches: 170, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
137 2 0.01
138 163 0.96
139 5 0.03
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (137 bp):
ATACTTGACAGCTTGTGTGAGCAACATCGTGTAGCTTACATTCCGACGACAGCTTGTGTGAGCAG
AACTAGGTTACCATGTTTCAAGTGTTGGTCTTGAATGTCCTACCGATGGATAAGTCTCAACACGT
GTTGCAG
Found at i:43168083 original size:22 final size:22
Alignment explanation
Indices: 43168055--43168097 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
43168045 TATAAGGGAC
43168055 AATATGTATCATATTGATTGAA
1 AATATGTATCATATTGATTGAA
43168077 AATATGTATCATATTGATTGA
1 AATATGTATCATATTGATTGA
43168098 CTTTGCTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (22 bp):
AATATGTATCATATTGATTGAA
Found at i:43168880 original size:12 final size:12
Alignment explanation
Indices: 43168851--43168882 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
43168841 TTAGTTTAGC
43168851 CTTA-GTTTTCT
1 CTTAGGTTTTCT
43168862 C-TAGGTTTTCT
1 CTTAGGTTTTCT
43168873 CTTAGGTTTT
1 CTTAGGTTTT
43168883 TTATACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 9 0.47
12 8 0.42
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.59
Consensus pattern (12 bp):
CTTAGGTTTTCT
Found at i:43171900 original size:14 final size:14
Alignment explanation
Indices: 43171881--43171910 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43171871 CCTCTCTTGG
43171881 GTACGATCCTCGGA
1 GTACGATCCTCGGA
43171895 GTACGATCCTCGGA
1 GTACGATCCTCGGA
43171909 GT
1 GT
43171911 TGTAAAACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (14 bp):
GTACGATCCTCGGA
Found at i:43198772 original size:12 final size:12
Alignment explanation
Indices: 43198755--43198785 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
43198745 GAACATTAGA
*
43198755 TCATTTTGTCAT
1 TCATTTTGTCAC
43198767 TCATTTTGTCAC
1 TCATTTTGTCAC
43198779 TCATTTT
1 TCATTTT
43198786 TCCATGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.19, G:0.06, T:0.58
Consensus pattern (12 bp):
TCATTTTGTCAC
Found at i:43207030 original size:50 final size:51
Alignment explanation
Indices: 43206976--43207118 Score: 182
Period size: 50 Copynumber: 2.8 Consensus size: 51
43206966 CATTGAGGTT
* *
43206976 ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGG-AACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGTAACCGAG
* * *
43207026 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGTCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGTAACCGAG
** * * *
43207076 ATGAGAACTCCCACGTAAGACCATATCTGGGATATGGTATTGG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGG
43207119 CAGTACAAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 3 0.04
50 74 0.93
51 3 0.04
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (51 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGTAACCGAG
Found at i:43214619 original size:50 final size:50
Alignment explanation
Indices: 43214565--43214680 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 50
43214555 ACCGTGTTTG
** * *
43214565 GGACATGGCATTGGCACCGAGATGAGAGGTCCCCCATAAGACCATGTCTA
1 GGACATGGCATTGGCACCGAGATGAGAACTCCCACATAAGACCATATCTA
* * * ** *
43214615 GGACATGACATAGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
1 GGACATGGCATTGGCACCGAGATGAGAACTCCCACATAAGACCATATCTA
*
43214665 GGATATGGCATTGGCA
1 GGACATGGCATTGGCA
43214681 GTACTAGAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (50 bp):
GGACATGGCATTGGCACCGAGATGAGAACTCCCACATAAGACCATATCTA
Found at i:43217356 original size:15 final size:15
Alignment explanation
Indices: 43217336--43217368 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
43217326 GGCATGGACA
43217336 TATTTTTATGTG-TTT
1 TATTTTTAT-TGCTTT
43217351 TATTTTTATTGCTTT
1 TATTTTTATTGCTTT
43217366 TAT
1 TAT
43217369 GTTATTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (15 bp):
TATTTTTATTGCTTT
Found at i:43222643 original size:43 final size:42
Alignment explanation
Indices: 43222498--43222739 Score: 211
Period size: 42 Copynumber: 5.7 Consensus size: 42
43222488 TTATATGGAA
* * * **
43222498 AAACACCGCTATAGAACATGACTTTTAGCGGTGC-TTCCTTAC
1 AAACGCCGCTA-AAAACATGACCTTTAGCGGTGCTTTCCCCAC
** * * * *
43222540 AAATACCGCTATAGAACATGACCTTTACCGGTGC-TGCCGCAC
1 AAACGCCGCTA-AAAACATGACCTTTAGCGGTGCTTTCCCCAC
* *
43222582 AAA-GACCTCTAAAGAACATGACCTTTAGCGGTGCTTACCCCAC
1 AAACG-CCGCTAAA-AACATGACCTTTAGCGGTGCTTTCCCCAC
* * * *
43222625 AAACGCTGCTAGAAAACATTACCTTTATCGGCGCTTTCCCCAC
1 AAACGCCGCTA-AAAACATGACCTTTAGCGGTGCTTTCCCCAC
* * * **
43222668 AAATGCCGCTAAAAACATGACCTCTAGCAGCACTTTCCCCAC
1 AAACGCCGCTAAAAACATGACCTTTAGCGGTGCTTTCCCCAC
43222710 AAACGCCGCTAAAGAACATGACCTTTAGCG
1 AAACGCCGCTAAA-AACATGACCTTTAGCG
43222740 ACATTTTTCC
Statistics
Matches: 166, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 101 0.61
43 61 0.37
44 3 0.02
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (42 bp):
AAACGCCGCTAAAAACATGACCTTTAGCGGTGCTTTCCCCAC
Found at i:43222686 original size:85 final size:82
Alignment explanation
Indices: 43222502--43222736 Score: 220
Period size: 85 Copynumber: 2.8 Consensus size: 82
43222492 ATGGAAAAAC
* * ** ** *
43222502 ACCGCTATAGAACATGACTTTTAGCGGTGCTTCCTTACAAATACCGCTATAGAACATGACCTTTA
1 ACCGCTA-AAAACATGACCTTTAGCGGTGCTTCCCCACAAACGCCGCTA-AAAACATGACCTTTA
* *
43222567 CCGGTGCTGCCGCACAAAG
64 CCGGCGCTGCCCCACAAAG
* * *
43222586 ACCTCTAAAGAACATGACCTTTAGCGGTGCTTACCCCACAAACGCTGCTAGAAAACATTACCTTT
1 ACCGCTAAA-AACATGACCTTTAGCGGTGCTT-CCCCACAAACGCCGCTA-AAAACATGACCTTT
* *
43222651 ATCGGCGCTTTCCCCACAAATG
63 ACCGGCGC-TGCCCCACAAA-G
* * **
43222673 -CCGCTAAAAACATGACCTCTAGCAGCACTTTCCCCACAAACGCCGCTAAAGAACATGACCTTTA
1 ACCGCTAAAAACATGACCTTTAGCGGTGC-TTCCCCACAAACGCCGCTAAA-AACATGACCTTTA
43222737 GCGACATTTT
Statistics
Matches: 123, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
83 1 0.01
84 29 0.24
85 74 0.60
86 18 0.15
87 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (82 bp):
ACCGCTAAAAACATGACCTTTAGCGGTGCTTCCCCACAAACGCCGCTAAAAACATGACCTTTACC
GGCGCTGCCCCACAAAG
Found at i:43222757 original size:43 final size:43
Alignment explanation
Indices: 43222590--43222766 Score: 180
Period size: 43 Copynumber: 4.1 Consensus size: 43
43222580 ACAAAGACCT
*** * *
43222590 CTAAAGAACATGACCTTTAGCGGTGCTTACCCCACAAACGCTG
1 CTAAAGAACATGACCTTTAGCGACACTTTCCCCACAAACGCCG
* * * * *
43222633 CTAGAA-AACATTACCTTTATCGGCGCTTTCCCCACAAATGCCG
1 CTA-AAGAACATGACCTTTAGCGACACTTTCCCCACAAACGCCG
*
43222676 CTAAA-AACATGACCTCTAGC-AGCACTTTCCCCACAAACGCCG
1 CTAAAGAACATGACCTTTAGCGA-CACTTTCCCCACAAACGCCG
* * * *
43222718 CTAAAGAACATGACCTTTAGCGACATTTTTCCCAAAAACGCCA
1 CTAAAGAACATGACCTTTAGCGACACTTTCCCCACAAACGCCG
43222761 CTAAAG
1 CTAAAG
43222767 GTCATGTTCT
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 37 0.33
43 73 0.65
44 3 0.03
ACGTcount: A:0.33, C:0.32, G:0.14, T:0.21
Consensus pattern (43 bp):
CTAAAGAACATGACCTTTAGCGACACTTTCCCCACAAACGCCG
Found at i:43222765 original size:85 final size:86
Alignment explanation
Indices: 43222590--43222766 Score: 196
Period size: 85 Copynumber: 2.1 Consensus size: 86
43222580 ACAAAGACCT
* * ** * * *
43222590 CTAAAGAACATGACCTTTAGCGGTGCTTACCCCACAAACGCTGCTAGAAAACATTACCTTTATCG
1 CTAAAGAACATGACCTCTAGCAGCACTTACCCCACAAACGCCGCTAGAAAACATGACCTTTAGCG
* * * * *
43222655 GCGCTTTCCCCACAAATGCCG
66 ACACTTTCCCCAAAAACGCCA
*
43222676 CTAAA-AACATGACCTCTAGCAGCACTTTCCCCACAAACGCCGCTA-AAGAACATGACCTTTAGC
1 CTAAAGAACATGACCTCTAGCAGCACTTACCCCACAAACGCCGCTAGAA-AACATGACCTTTAGC
* *
43222739 GACATTTTTCCCAAAAACGCCA
65 GACACTTTCCCCAAAAACGCCA
43222761 CTAAAG
1 CTAAAG
43222767 GTCATGTTCT
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
84 2 0.03
85 67 0.91
86 5 0.07
ACGTcount: A:0.33, C:0.32, G:0.14, T:0.21
Consensus pattern (86 bp):
CTAAAGAACATGACCTCTAGCAGCACTTACCCCACAAACGCCGCTAGAAAACATGACCTTTAGCG
ACACTTTCCCCAAAAACGCCA
Found at i:43232077 original size:9 final size:9
Alignment explanation
Indices: 43232026--43232091 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
43232016 ATCCAAAGTT
43232026 TTATGTAAG
1 TTATGTAAG
*
43232035 TTATGATATG
1 TTATG-TAAG
* * *
43232045 ATATAT-AT
1 TTATGTAAG
43232053 TTATGT-A-
1 TTATGTAAG
*
43232060 TTATATAAG
1 TTATGTAAG
43232069 TTATGTAAG
1 TTATGTAAG
43232078 TTATGTAAG
1 TTATGTAAG
43232087 TTATG
1 TTATG
43232092 ATCCAAAGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
7 5 0.11
8 6 0.13
9 28 0.62
10 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:43232164 original size:13 final size:13
Alignment explanation
Indices: 43232146--43232171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43232136 GATTATCATT
43232146 TTTAAATTTTAAC
1 TTTAAATTTTAAC
43232159 TTTAAATTTTAAC
1 TTTAAATTTTAAC
43232172 CCTTTAATTA
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAAATTTTAAC
Found at i:43232828 original size:20 final size:21
Alignment explanation
Indices: 43232803--43232846 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
43232793 AAGTTATCTT
43232803 AAATTTTAAAAT-AAAAATAA
1 AAATTTTAAAATCAAAAATAA
* *
43232823 AAA-TTTAGAATCAAAACTAA
1 AAATTTTAAAATCAAAAATAA
43232843 AAAT
1 AAAT
43232847 AAATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTTTAAAATCAAAAATAA
Found at i:43232858 original size:20 final size:19
Alignment explanation
Indices: 43232812--43232859 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
43232802 TAAATTTTAA
**
43232812 AATAAAAATAAAAATTTAG
1 AATAAAAATAAAAATAAAG
* *
43232831 AATCAAAACTAAAAATAAAT
1 AAT-AAAAATAAAAATAAAG
43232851 AATAAAAAT
1 AATAAAAAT
43232860 TGGATTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:43234517 original size:26 final size:26
Alignment explanation
Indices: 43234488--43234542 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
43234478 AACACACCAA
*
43234488 TATCGCAGCAAAGCTGCAAGTAATAG
1 TATCGCAGCAAAGCTGCAAGTAACAG
* *
43234514 TATCGCAGCAAAGTTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCAAGTAACAG
43234540 TAT
1 TAT
43234543 ATGTGGCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCAAGTAACAG
Found at i:43234703 original size:27 final size:26
Alignment explanation
Indices: 43234684--43234907 Score: 207
Period size: 27 Copynumber: 8.3 Consensus size: 26
43234674 GGGTATAACA
* *
43234684 GTCATTTTACCCCATGGGGGAATTTC
1 GTCATTTTACCCTATGGGGGTATTTC
* *
43234710 GGTCATTTTACTCTATAGGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
*
43234737 GATCATTTTACCCTATGGGGGTATTTTG
1 G-TCATTTTACCCTATGGGGGTA-TTTC
* * *
43234765 GTCATTTTACCCTACGAGGTTATTTC
1 GTCATTTTACCCTATGGGGGTATTTC
* *
43234791 GGTCATTTTACCCTATAGGGGTATTTTG
1 -GTCATTTTACCCTATGGGGGTA-TTTC
* * *
43234819 GTCATTTTATCTTA-CGGGGTATTTC
1 GTCATTTTACCCTATGGGGGTATTTC
* * *
43234844 ATTCATTTTACCCTATAGGGGTATTTTG
1 -GTCATTTTACCCTATGGGGGTA-TTTC
* *
43234872 GTCATTTTACCCTATGGAGGTATTTTG
1 GTCATTTTACCCTATGGGGGTA-TTTC
43234899 GTCATTTTA
1 GTCATTTTA
43234908 TTAACCTTAC
Statistics
Matches: 162, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.02
26 21 0.13
27 128 0.79
28 10 0.06
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGGTATTTC
Found at i:43234729 original size:54 final size:54
Alignment explanation
Indices: 43234671--43234907 Score: 268
Period size: 54 Copynumber: 4.4 Consensus size: 54
43234661 TTTAATCTCC
** * * * * *
43234671 TAGGGGTATAACAGTCATTTTACCCCATGGGGGAATTTCGGTCATTTTACTCTA
1 TAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTA
*
43234725 TAGGGGTATTTC-GATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTA
1 TAGGGGTATTTCAG-TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTA
* * * *
43234779 -CGAGGTTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTA-TCT-
1 TAG-GGGTATTTCAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTA
*
43234831 TACGGGGTATTTCATTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTA
1 TA-GGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTA
**
43234886 T-GGAGGTATTTTGGTCATTTTA
1 TAGG-GGTATTTCAGTCATTTTA
43234908 TTAACCTTAC
Statistics
Matches: 157, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
53 49 0.31
54 106 0.68
55 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.43
Consensus pattern (54 bp):
TAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTA
Found at i:43234865 original size:107 final size:108
Alignment explanation
Indices: 43234684--43234907 Score: 330
Period size: 107 Copynumber: 2.1 Consensus size: 108
43234674 GGGTATAACA
*
43234684 GTCATTTTACCCCATGGGGGAATTTCGGTCATTTTACTCTATAGGGGTATTTCGATCATTTTACC
1 GTCATTTTACCCCATAGGGGAATTTCGGTCATTTTACTCTATAGGGGTATTTCGATCATTTTACC
*
43234749 CTATGGGGGTATTTTGGTCATTTTACCCTA-CGAGGTTATTTCG
66 CTATAGGGGTATTTTGGTCATTTTACCCTATCGAGG-TATTTCG
* * *
43234792 GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTA-TCT-TACGGGGTATTTC-ATTCATTTTA
1 GTCATTTTACCCCATAGGGGAATTTCGGTCATTTTACTCTATA-GGGGTATTTCGA-TCATTTTA
* *
43234854 CCCTATAGGGGTATTTTGGTCATTTTACCCTATGGAGGTATTTTG
64 CCCTATAGGGGTATTTTGGTCATTTTACCCTATCGAGGTATTTCG
43234899 GTCATTTTA
1 GTCATTTTA
43234908 TTAACCTTAC
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
106 3 0.03
107 67 0.63
108 36 0.34
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (108 bp):
GTCATTTTACCCCATAGGGGAATTTCGGTCATTTTACTCTATAGGGGTATTTCGATCATTTTACC
CTATAGGGGTATTTTGGTCATTTTACCCTATCGAGGTATTTCG
Found at i:43242370 original size:27 final size:27
Alignment explanation
Indices: 43242350--43242572 Score: 263
Period size: 27 Copynumber: 8.3 Consensus size: 27
43242340 GGGTATAATA
*
43242350 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTTG
* *
43242377 ATCATTTTATCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTTG
* *
43242404 GTCATTTTAACCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTTG
* * *
43242431 GTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTTG
* * *
43242458 ATCATTCTACCCTA-CAGGGGTATTTTG
1 GTCATTTTACCCTATGA-GGGTATTTTG
* *
43242485 GTCATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTTG
* *
43242512 GTCATTTTACCCTACG-GAGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTTG
**
43242538 GTCATTTTACCCTATG-GGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTTG
43242564 GTCATTTTA
1 GTCATTTTA
43242573 TTGACTTCAC
Statistics
Matches: 167, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
26 40 0.24
27 127 0.76
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTTG
Found at i:43242458 original size:81 final size:82
Alignment explanation
Indices: 43242350--43242572 Score: 303
Period size: 81 Copynumber: 2.8 Consensus size: 82
43242340 GGGTATAATA
* *
43242350 GTCATTTTACCCTATGAGGGTATTTCGATCATTTTATCCTATGAGGGTATTTTGGTCATTTTAAC
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGGTCATTTTAAC
43242415 C-TATGGGGGTATTTTG
66 CTTATGGGGGTATTTTG
* * *
43242431 GTTATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTA-CAGGGGTATTTTGGTCATTTT-A
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGA-GGGTATTTTGGTCATTTTAA
43242494 CCTTATGGGGGTATTTTG
65 CCTTATGGGGGTATTTTG
* * * * **
43242512 GTCATTTTACCCTA-CGGAGTATTTTGGTCATTTTACCCTATG-GGGTATTTCAGTCATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGGTCATTTTA
43242573 TTGACTTCAC
Statistics
Matches: 124, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
79 16 0.13
80 25 0.20
81 83 0.67
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.44
Consensus pattern (82 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGGTCATTTTAAC
CTTATGGGGGTATTTTG
Found at i:43246410 original size:25 final size:25
Alignment explanation
Indices: 43246382--43246460 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
43246372 GTAATGACCG
43246382 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
43246407 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
43246429 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
43246454 ATGTGAT
1 ATGTGAT
43246461 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:43246432 original size:47 final size:47
Alignment explanation
Indices: 43246373--43246933 Score: 977
Period size: 47 Copynumber: 11.9 Consensus size: 47
43246363 TAGTATGGCG
*
43246373 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43246420 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43246467 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
43246516 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43246562 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
43246610 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43246657 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43246704 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43246751 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43246798 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
43246845 TAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
43246890 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43246934 TCCCGAAGGG
Statistics
Matches: 496, Mismatches: 11, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
45 37 0.07
46 46 0.09
47 320 0.65
48 46 0.09
49 47 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:43247108 original size:37 final size:37
Alignment explanation
Indices: 43247052--43247130 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43247042 CCGAGCTCTA
* * *
43247052 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43247089 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43247126 AAGAC
1 AAGAC
43247131 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43248400 original size:40 final size:40
Alignment explanation
Indices: 43248344--43248689 Score: 507
Period size: 40 Copynumber: 8.7 Consensus size: 40
43248334 GAGAATTGAG
*
43248344 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
43248384 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
43248424 AGTGATATACCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
43248464 AGTGATATATCCAGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
43248504 AGTGATATA-CTCGGGCTAAGTCCCAAGGAGCATTCGTGCT
1 AGTGATATATC-CGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
43248544 AGTGATGTATCCGGGCTAAGTCCCAAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
43248584 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * * *
43248624 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAGGAGCATTCGTGCT
* * *
43248664 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
43248690 AGAGTAATCA
Statistics
Matches: 280, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
39 2 0.01
40 275 0.98
41 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Done.