Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 141 of 292
Found at i:41861305 original size:17 final size:17
Alignment explanation
Indices: 41861272--41861309 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
41861262 AAGCCTATAA
41861272 CACAGCCCATGTGGGCC
1 CACAGCCCATGTGGGCC
*
41861289 CACATGCCCGTGT-GGCC
1 CACA-GCCCATGTGGGCC
41861306 CACA
1 CACA
41861310 AAACCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.18, C:0.42, G:0.26, T:0.13
Consensus pattern (17 bp):
CACAGCCCATGTGGGCC
Found at i:41865495 original size:40 final size:40
Alignment explanation
Indices: 41865459--41865650 Score: 314
Period size: 40 Copynumber: 4.8 Consensus size: 40
41865449 GGATATAGCT
*
41865459 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
41865499 GTTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
41865539 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
41865579 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
41865619 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
41865651 TTATCATCCG
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 140 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:41868225 original size:36 final size:37
Alignment explanation
Indices: 41868131--41868251 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
41868121 TATAAAAGAA
*
41868131 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
41868168 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
41868205 GTCTTACCC-GTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
41868241 GTCTCACCCGG
1 GTCTTACCCGG
41868252 AACATATTCC
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
36 35 0.43
37 46 0.57
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:41868408 original size:49 final size:49
Alignment explanation
Indices: 41868353--41868606 Score: 375
Period size: 49 Copynumber: 5.4 Consensus size: 49
41868343 TTTTACATTA
41868353 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
41868402 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACAT--
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
41868449 GCC--T----C--ATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
41868490 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
41868539 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
41868588 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
41868607 CATATATGTA
Statistics
Matches: 189, Mismatches: 6, Indels: 20
0.88 0.03 0.09
Matches are distributed among these distances:
39 34 0.18
41 4 0.02
43 1 0.01
45 1 0.01
47 4 0.02
49 145 0.77
ACGTcount: A:0.30, C:0.33, G:0.08, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:41868428 original size:88 final size:90
Alignment explanation
Indices: 41868347--41868606 Score: 355
Period size: 88 Copynumber: 2.8 Consensus size: 90
41868337 CATATATTTT
41868347 ACATT-AGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
1 ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
41868411 CCTCATCACATATACATACACTTTC
66 CCTCATCACATATACATACACTTTC
* * *
41868436 ACATTCA-CCA-CATGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
1 ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
41868499 CCTCATCACATATACATACACTTTC
66 CCTCATCACATATACATACACTTTC
* * *
41868524 ACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTGG
1 ACA-T--T--CA---GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGG
* *
41868589 CCATTCGGCCTTATCACA
58 CCATTAGGCCTCATCACA
41868607 CATATATGTA
Statistics
Matches: 149, Mismatches: 11, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
88 78 0.52
89 9 0.06
90 1 0.01
91 1 0.01
93 2 0.01
97 3 0.02
98 55 0.37
ACGTcount: A:0.30, C:0.33, G:0.08, T:0.29
Consensus pattern (90 bp):
ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
CCTCATCACATATACATACACTTTC
Found at i:41868458 original size:39 final size:39
Alignment explanation
Indices: 41868410--41868487 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
41868400 CGGCCATTAG
41868410 GCCTCATCACATATACATACACTTTCACATTCACCACAT
1 GCCTCATCACATATACATACACTTTCACATTCACCACAT
41868449 GCCTCATCACATATACATACACTTTCACATTCACCACAT
1 GCCTCATCACATATACATACACTTTCACATTCACCACAT
41868488 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.28
Consensus pattern (39 bp):
GCCTCATCACATATACATACACTTTCACATTCACCACAT
Found at i:41873691 original size:47 final size:47
Alignment explanation
Indices: 41873637--41873730 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
41873627 CTACATGGTG
41873637 TCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCA
1 TCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCA
41873684 TCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCA
1 TCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCA
41873731 CGTAGCTCTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (47 bp):
TCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCA
Found at i:41878588 original size:29 final size:29
Alignment explanation
Indices: 41878555--41878657 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
41878545 CCTTCGAGCT
** * *
41878555 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
41878584 TGCACATTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
41878613 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
41878642 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41878658 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:41878589 original size:58 final size:58
Alignment explanation
Indices: 41878526--41878657 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
41878516 AATTTAAGCC
* * * * * *
41878526 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
41878584 TGCACATTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
41878642 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41878658 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:41885520 original size:29 final size:29
Alignment explanation
Indices: 41885487--41885617 Score: 210
Period size: 29 Copynumber: 4.6 Consensus size: 29
41885477 CCTTCGAGCT
** * *
41885487 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
41885516 TGCACA-TTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
41885544 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
41885573 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
41885602 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41885618 ATCTCGTCAC
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 23 0.24
29 72 0.76
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:41885526 original size:86 final size:87
Alignment explanation
Indices: 41885429--41885617 Score: 213
Period size: 86 Copynumber: 2.2 Consensus size: 87
41885419 TACTCGATTT
* * * *
41885429 CGCACACTTAGTGCCACGCA-ATTT-AAGCCCGCACACATAGTGCCATACCCTTCGAGCTCGCAC
1 CGCACACTTAGTGCCA--CATATTTCAAGCACGCACACATAGTGCCATACACTTCCAGCACGCAC
* *
41885492 ACCCAGTGCCGTATTTTTCCAGCA
64 ACCCAGTGCCATATATTTCCAGCA
* * * * * *
41885516 TGCACA-TTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCACATATTTCAAGCACGCACACATAGTGCCATACACTTCCAGCACGCACAC
**
41885580 TTAGTGCCATATATTTCCAGCA
66 CCAGTGCCATATATTTCCAGCA
41885602 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41885618 ATCTCGTCAC
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
84 1 0.01
85 4 0.05
86 65 0.77
87 14 0.17
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACTTAGTGCCACATATTTCAAGCACGCACACATAGTGCCATACACTTCCAGCACGCACAC
CCAGTGCCATATATTTCCAGCA
Found at i:41885606 original size:58 final size:58
Alignment explanation
Indices: 41885458--41885617 Score: 214
Period size: 57 Copynumber: 2.8 Consensus size: 58
41885448 AATTTAAGCC
* *** * * ** * *
41885458 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
*
41885516 TGCACA-TTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
41885573 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
41885618 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 46 0.52
58 43 0.48
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
Found at i:41886987 original size:53 final size:53
Alignment explanation
Indices: 41886924--41887107 Score: 152
Period size: 53 Copynumber: 3.4 Consensus size: 53
41886914 TTCCTTTTTA
* * * * *
41886924 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
41886977 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
** * ** * * * * * * *
41887031 TAGTTTATTAATGCCATGTCTTGACATGGCCTTACATGAGTTCCTTGCCTTGTAA
1 -AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
* *
41887086 AACTTACCAATGCCATGCCTTG
1 AACTCACCATTGCCATGCCTTG
41887108 CCTTGGAAGG
Statistics
Matches: 102, Mismatches: 27, Indels: 3
0.77 0.20 0.02
Matches are distributed among these distances:
53 45 0.44
54 18 0.18
55 39 0.38
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:41887079 original size:55 final size:52
Alignment explanation
Indices: 41886936--41887107 Score: 146
Period size: 55 Copynumber: 3.2 Consensus size: 52
41886926 CTTACCATTT
* *
41886936 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGT-TCCTTGCCTTATGAACTCACCAATG
* * * * ** * **
41886989 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATTAATG
1 CCATGTCTTGACATGGTCTTACAT-GGTTCCTTGCCTTAT-G-AACTCACCAATG
* * * *
41887044 CCATGTCTTGACATGGCCTTACATGAGTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATG-GTTCCTTGCCTTAT-GAACTCACCAATG
*
41887098 CCATGCCTTG
1 CCATGTCTTG
41887108 CCTTGGAAGG
Statistics
Matches: 91, Mismatches: 24, Indels: 7
0.75 0.20 0.06
Matches are distributed among these distances:
53 32 0.35
54 21 0.23
55 38 0.42
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (52 bp):
CCATGTCTTGACATGGTCTTACATGGTTCCTTGCCTTATGAACTCACCAATG
Found at i:41892810 original size:21 final size:21
Alignment explanation
Indices: 41892786--41892855 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
41892776 TGATCTAAAC
41892786 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* *
41892807 TCA-TGACTTATGTGACATCTGA-T
1 TCATTGA-GT-TGTG--GTCTGAGT
41892830 CTCATTGAGTTGTGGTCTGAGT
1 -TCATTGAGTTGTGGTCTGAGT
41892852 TCAT
1 TCAT
41892856 GATGTATGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
20 3 0.08
21 13 0.34
22 5 0.13
23 5 0.13
24 9 0.24
25 3 0.08
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.41
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:41901697 original size:55 final size:53
Alignment explanation
Indices: 41901510--41901761 Score: 212
Period size: 55 Copynumber: 4.8 Consensus size: 53
41901500 TGGGTACCTT
* * * *
41901510 ACCATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTC
* * *
41901559 ACCATTCCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
* * * *
41901612 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AACTC
* * * *
41901667 ATCAGTGCCATGTCTTAACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTC
* * * * *
41901721 ACAAATTTCCATGCCTTGGCATTGTCTTACATGGTATCCTT
1 ACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
41901762 AAGCCCTAAT
Statistics
Matches: 165, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 34 0.21
50 1 0.01
52 2 0.01
53 47 0.28
54 8 0.05
55 71 0.43
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
Found at i:41907809 original size:18 final size:18
Alignment explanation
Indices: 41907786--41907822 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
41907776 TAACCCATGG
41907786 TTTAAATTCATGAATTAT
1 TTTAAATTCATGAATTAT
41907804 TTTAAATTCATGAATTAT
1 TTTAAATTCATGAATTAT
41907822 T
1 T
41907823 GAACATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTAAATTCATGAATTAT
Found at i:41909741 original size:27 final size:27
Alignment explanation
Indices: 41909131--41909740 Score: 737
Period size: 27 Copynumber: 22.6 Consensus size: 27
41909121 AAAGTACTCC
41909131 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
41909158 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
41909185 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
41909212 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
41909239 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
41909266 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
41909293 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
41909320 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
41909347 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
41909374 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
41909401 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
41909428 CGATTTATC-GAATTACCGTTTTACCCT
1 CGATTTA-CAGAATTACCGTTTTACCCT
** * *
41909455 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
41909482 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
41909509 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
41909536 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
41909562 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
41909590 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
41909617 CGGTTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
41909644 CGATTTACAGTATTTCCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
41909671 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
41909698 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
41909725 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
41909741 TAAAATACCC
Statistics
Matches: 510, Mismatches: 61, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.01
27 499 0.98
28 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:41911009 original size:25 final size:25
Alignment explanation
Indices: 41910981--41911028 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41910971 TTATACCATG
* * *
41910981 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
41911006 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
41911029 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:41911131 original size:20 final size:20
Alignment explanation
Indices: 41911071--41911131 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
41911061 ATAAATATGG
*
41911071 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
41911091 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
41911111 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
41911131 T
1 T
41911132 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:41911208 original size:24 final size:24
Alignment explanation
Indices: 41911181--41911323 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
41911171 GAGGAAGTGA
41911181 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41911205 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41911229 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
41911252 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
41911276 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
41911300 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41911324 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:41911274 original size:47 final size:47
Alignment explanation
Indices: 41911181--41911323 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
41911171 GAGGAAGTGA
41911181 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
41911229 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
41911276 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
41911324 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:41911297 original size:71 final size:72
Alignment explanation
Indices: 41911181--41911324 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
41911171 GAGGAAGTGA
*
41911181 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
41911244 CCAGTTAT
65 CCAGTTAT
** * *
41911252 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
41911317 CAGTTAT
66 CAGTTAT
41911324 A
1 A
41911325 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:41911550 original size:31 final size:31
Alignment explanation
Indices: 41911515--41911578 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41911505 CGTTTACAGT
*
41911515 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
41911546 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
41911577 AA
1 AA
41911579 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:41913469 original size:29 final size:29
Alignment explanation
Indices: 41913436--41913538 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
41913426 CCTCCGAACT
** * *
41913436 CGCACACCCAGTGCCATATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
41913465 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
41913494 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
41913523 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41913539 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:41917793 original size:40 final size:40
Alignment explanation
Indices: 41917739--41918068 Score: 491
Period size: 40 Copynumber: 8.3 Consensus size: 40
41917729 ATTGAGAGTT
* *
41917739 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * *
41917779 TTATATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * *
41917818 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * *
41917858 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
41917898 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
41917938 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGCGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * *
41917978 ATATATCCGGGCTAAGTTCTGAAGAGTACTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
41918018 ATATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
41918058 ATATATCCGGG
1 ATATATCCGGG
41918069 TTAAACCTCG
Statistics
Matches: 270, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
39 35 0.13
40 235 0.87
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:41918209 original size:57 final size:57
Alignment explanation
Indices: 41918100--41918234 Score: 141
Period size: 57 Copynumber: 2.4 Consensus size: 57
41918090 GCTAGAATTA
* *
41918100 TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTACCAAATCAGTAGT
* ** * * *
41918157 TGAGGCACTAG-GTGTGCGAGTTCTTTAATCGAGCGCTATGTGTACGAAATCAGTCAG-
1 TGAGGCACT-GTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTACCAAATCAGT-AGT
*
41918214 TG-GGCACTGTGTATGCGAAGT
1 TGAGGCACTGTGTGTGC-AAGT
41918235 GTGTTTCATG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
55 1 0.02
56 11 0.17
57 49 0.77
58 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (57 bp):
TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTACCAAATCAGTAGT
Found at i:41921710 original size:47 final size:47
Alignment explanation
Indices: 41921656--41921991 Score: 467
Period size: 47 Copynumber: 7.1 Consensus size: 47
41921646 TTAGGATTTT
** * *
41921656 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * *
41921703 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GAGATAAGGCCGAATGGCCA
* * *
41921754 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * *
41921801 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
41921848 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
41921895 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * * *
41921942 ATGTGATGAATGTGATA-ATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGA-ACATGCATATATGAGATAAGGCCGAATGGCCA
41921989 ATG
1 ATG
41921992 CGAAATGTGT
Statistics
Matches: 269, Mismatches: 15, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
47 220 0.82
48 1 0.00
49 11 0.04
51 37 0.14
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:41921781 original size:23 final size:23
Alignment explanation
Indices: 41921754--41921828 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
41921744 CGAATGGCCA
41921754 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
41921777 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
41921801 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
41921824 ATGTG
1 ATGTG
41921829 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:41922027 original size:46 final size:46
Alignment explanation
Indices: 41921930--41922100 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
41921920 ATGAGATAAG
* * * *
41921930 GCCGAATGGCCAATGTGATGAATGTG-ATAATG-TATATATGTGGTAAG
1 GCCGAATGGCTAATGTGA--AATGTGTATGA-GATAGATATGTGGTAAA
* *
41921977 GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGGTAAA
1 GCCGAATGGCTAATGTGAAATGTGTATGAGATAGATATGTGGTAAA
* *
41922023 GCCGAATGGCTAATGTGAAACGTGTATGAGATGGATATGTGGTAAA
1 GCCGAATGGCTAATGTGAAATGTGTATGAGATAGATATGTGGTAAA
* * *
41922069 GCCAAATGGCTAATGTGAGATATGTATGAGAT
1 GCCGAATGGCTAATGTGAAATGTGTATGAGAT
41922101 GTGTATATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
45 7 0.06
46 85 0.79
47 16 0.15
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (46 bp):
GCCGAATGGCTAATGTGAAATGTGTATGAGATAGATATGTGGTAAA
Found at i:41924881 original size:16 final size:16
Alignment explanation
Indices: 41924862--41924892 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41924852 CTTCTTCACT
41924862 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
41924878 TACTTACTTACTTAA
1 TACTCACTTACTTAA
41924893 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:41924898 original size:20 final size:20
Alignment explanation
Indices: 41924859--41924898 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41924849 AAACTTCTTC
* *
41924859 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
41924879 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
41924899 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:41925259 original size:108 final size:110
Alignment explanation
Indices: 41925115--41925315 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
41925105 ATCCTTTTGA
*
41925115 AACTTACCATTGCCATGTCTCGACATAGTCTTACATGGTATCCTTGCCTTATG-AAC-TCACCAA
1 AACTTACCAATGCCATGTCTCGACATAGTCTTACATGGTATCCTTGCCTTA-GAAACTTCACCAA
41925178 -TGCCATGCCTTGACATGGTCTTACATGGGACCTTTACCTTATAGT
65 TTGCCATGCCTTGACATGGTCTTACATGGGACCTTTACCTTATAGT
* * * *
41925223 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACTTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATAGTCTTACATGGTATCCTTGCCTTAGAAACTTCACCAAT
* *
41925288 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGACATGGTCTTACATGG
41925316 TATCTTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.60
109 6 0.07
110 26 0.31
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATAGTCTTACATGGTATCCTTGCCTTAGAAACTTCACCAAT
TGCCATGCCTTGACATGGTCTTACATGGGACCTTTACCTTATAGT
Found at i:41925316 original size:55 final size:54
Alignment explanation
Indices: 41925068--41925319 Score: 263
Period size: 55 Copynumber: 4.8 Consensus size: 54
41925058 ACACGCGTAC
* * *
41925068 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
41925117 CTTACC-ATTGCCATGTCTCGACATAGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
41925170 CTCACCAA-TGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTACCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* *
41925225 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
41925278 CTTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATC
1 C-TTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATC
41925320 TTTAAACCCT
Statistics
Matches: 169, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
49 38 0.22
52 4 0.02
53 43 0.25
54 11 0.07
55 71 0.42
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:41927427 original size:37 final size:36
Alignment explanation
Indices: 41927377--41927463 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
41927367 TACGAAGTCT
41927377 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
41927413 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
41927450 TCACCCGGAACATA
1 T-ACCCGG-ACATA
41927464 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:41927666 original size:53 final size:51
Alignment explanation
Indices: 41927512--41927703 Score: 307
Period size: 49 Copynumber: 3.8 Consensus size: 51
41927502 ATTCACATTA
* * * *
41927512 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACGTCG
1 GCCATTAGGCCTTATCACATATATATATACATTTTCACATTCATCACGTCG
41927563 GCCATTAGGCCTTATCAC--ATATATATACATTTTCACATTCATCACGTCG
1 GCCATTAGGCCTTATCACATATATATATACATTTTCACATTCATCACGTCG
*
41927612 GCCATTAGGCCTTATCACATATATATATATACATTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCAC--ATATATATATACATTTTCACATTCATCACGTCG
41927665 GCCATTAGGCCTTATCACATATATATATACATTTTCACA
1 GCCATTAGGCCTTATCACATATATATATACATTTTCACA
41927704 AATTTTGATA
Statistics
Matches: 132, Mismatches: 5, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
49 48 0.36
51 36 0.27
53 48 0.36
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (51 bp):
GCCATTAGGCCTTATCACATATATATATACATTTTCACATTCATCACGTCG
Found at i:41932301 original size:40 final size:39
Alignment explanation
Indices: 41932257--41932382 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
41932247 GGGACTCAAC
*
41932257 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
41932297 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
41932337 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
41932377 CCGGAT
1 CCGGAT
41932383 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:41932341 original size:80 final size:80
Alignment explanation
Indices: 41932196--41932382 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
41932186 GCTACACATT
* * *
41932196 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
41932260 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
41932276 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
41932339 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
41932357 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
41932383 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:41939927 original size:8 final size:8
Alignment explanation
Indices: 41939914--41939939 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
41939904 AAATCTATAG
41939914 ACAGAGAA
1 ACAGAGAA
41939922 ACAGAGAA
1 ACAGAGAA
41939930 ACAGAGAA
1 ACAGAGAA
41939938 AC
1 AC
41939940 GGAGTAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.15, G:0.23, T:0.00
Consensus pattern (8 bp):
ACAGAGAA
Found at i:41940390 original size:40 final size:39
Alignment explanation
Indices: 41940346--41940471 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
41940336 GGGACTCAAC
*
41940346 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
41940386 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
41940426 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
41940466 CCGGAT
1 CCGGAT
41940472 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:41940430 original size:80 final size:80
Alignment explanation
Indices: 41940285--41940471 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
41940275 GCTACACATT
* * *
41940285 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
41940349 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
41940365 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
41940428 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
41940446 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
41940472 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:41944327 original size:40 final size:40
Alignment explanation
Indices: 41944267--41944430 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
41944257 CGGGATTTAA
* ** *
41944267 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
41944307 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
41944347 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
41944387 CCGGACATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
41944427 CCGG
1 CCGG
41944431 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:41944414 original size:80 final size:80
Alignment explanation
Indices: 41944253--41944430 Score: 198
Period size: 80 Copynumber: 2.2 Consensus size: 80
41944243 AAGTCACGTA
* * * ** **
41944253 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACATAA
* *
41944317 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
41944332 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGACATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGACATA
* *
41944396 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
41944412 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
41944431 GTATCATTCA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 11 0.14
80 68 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACATAA
TAACTAGCACAAATG
Found at i:41958588 original size:27 final size:26
Alignment explanation
Indices: 41958558--41958769 Score: 169
Period size: 27 Copynumber: 7.9 Consensus size: 26
41958548 TACCCTATAT
*
41958558 GGGTATTTCGATAAATTTACACAACAA
1 GGGTATTTCGATAATTTTACA-AACAA
* * *
41958585 GGGTATTTAGGTAATTTTACAAACTAG
1 GGGTATTTCGATAATTTTACAAAC-AA
* ****
41958612 GGGTATTTCAATAATTTTACAATTTG
1 GGGTATTTCGATAATTTTACAAACAA
*
41958638 GGGTTATTTC-AGTAATTTTACAAATAA
1 GGG-TATTTCGA-TAATTTTACAAACAA
*
41958665 GGGGTATTTCGGTAATTTTACAAACAGA
1 -GGGTATTTCGATAATTTTACAAACA-A
* *
41958693 GGGTATTTCGGTAATTTTACAATA-GA
1 GGGTATTTCGATAATTTTACAA-ACAA
* * *
41958719 GGGCATTTTGGTAATTTTACAAATC-A
1 GGGTATTTCGATAATTTTACAAA-CAA
*
41958745 GATGTATTTCGATAATTTTACAAAC
1 G-GGTATTTCGATAATTTTACAAAC
41958770 TGGGGTCTTA
Statistics
Matches: 153, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.01
26 32 0.21
27 115 0.75
28 5 0.03
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (26 bp):
GGGTATTTCGATAATTTTACAAACAA
Found at i:41958602 original size:54 final size:52
Alignment explanation
Indices: 41958558--41958768 Score: 194
Period size: 54 Copynumber: 3.9 Consensus size: 52
41958548 TACCCTATAT
*
41958558 GGGTATTTCGATAAATTTACACAACAAGGGTATTTAGGTAATTTTACAAACTAG
1 GGGTATTTCGATAATTTTACA-AACAAGGGTATTTAGGTAATTTTACAAA-TAG
* ****
41958612 GGGTATTTCAATAATTTTACAATTTGGGGTTATTTCA-GTAATTTTACAAATAAG
1 GGGTATTTCGATAATTTTACAAACAAGGG-TATTT-AGGTAATTTTACAAAT-AG
* *
41958666 GGGTATTTCGGTAATTTTACAAACAGAGGGTATTTCGGTAATTTTAC-AATAG
1 GGGTATTTCGATAATTTTACAAACA-AGGGTATTTAGGTAATTTTACAAATAG
* * * * * *
41958718 AGGGCATTTTGGTAATTTTACAAATC-AGATGTATTTCGATAATTTTACAAA
1 -GGGTATTTCGATAATTTTACAAA-CAAG-GGTATTTAGGTAATTTTACAAA
41958769 CTGGGGTCTT
Statistics
Matches: 131, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
52 4 0.03
53 46 0.35
54 77 0.59
55 4 0.03
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (52 bp):
GGGTATTTCGATAATTTTACAAACAAGGGTATTTAGGTAATTTTACAAATAG
Found at i:41969354 original size:39 final size:38
Alignment explanation
Indices: 41969285--41969502 Score: 229
Period size: 39 Copynumber: 5.6 Consensus size: 38
41969275 ACAAAGCATG
* * * *
41969285 CGGGGCTTTAAGCCCGAATATAATACCAGCACAAAGCCTA
1 CGGGGC-TT-AGCCCGGATATAACACCAGCACAATGCCTT
* *
41969325 CGGGACTTTAGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGGC-TTAGCCCGGATATAACACCAGCAC-AATGCCTT
* * *
41969365 CGGGGCTTAGCTCGGATATAACACCAGCATGAATGCATT
1 CGGGGCTTAGCCCGGATATAACACCAGCA-CAATGCCTT
* **
41969404 CGGGGCTTATCCCGGATATAACATGAGCACGAATGCCTT
1 CGGGGCTTAGCCCGGATATAACACCAGCAC-AATGCCTT
* *
41969443 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCATT
1 CGGGGCTTAGCCCGGATATAACACCAGCAC-AATGCCTT
* *
41969482 CTGGACTTAGCCCGGATATAA
1 CGGGGCTTAGCCCGGATATAA
41969503 TTCTCCATTT
Statistics
Matches: 152, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
39 133 0.88
40 19 0.12
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
CGGGGCTTAGCCCGGATATAACACCAGCACAATGCCTT
Found at i:41969421 original size:78 final size:78
Alignment explanation
Indices: 41969295--41969502 Score: 274
Period size: 78 Copynumber: 2.7 Consensus size: 78
41969285 CGGGGCTTTA
* * * * * *
41969295 AGCCCGAATATAATACCAGCAC-AAAGCCTACGGGACTTTAGCCTGGATATAACACCAGCACGAA
1 AGCCCGGATATAACACCAGCACGAATGCATTCGGGAC-TTAGCCCGGATATAACACCAGCACGAA
*
41969359 TGCCTTCGGGGCTT
65 TGCCTTCGGGACTT
* * * * **
41969373 AGCTCGGATATAACACCAGCATGAATGCATTCGGGGCTTATCCCGGATATAACATGAGCACGAAT
1 AGCCCGGATATAACACCAGCACGAATGCATTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
41969438 GCCTTCGGGACTT
66 GCCTTCGGGACTT
*
41969451 AGCCCGGATATAACACCAGCACGAATGCATTCTGGACTTAGCCCGGATATAA
1 AGCCCGGATATAACACCAGCACGAATGCATTCGGGACTTAGCCCGGATATAA
41969503 TTCTCCATTT
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
78 101 0.91
79 10 0.09
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (78 bp):
AGCCCGGATATAACACCAGCACGAATGCATTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
GCCTTCGGGACTT
Found at i:41972649 original size:80 final size:80
Alignment explanation
Indices: 41972565--41972713 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
41972555 TATGGTAACC
* * * *
41972565 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
41972629 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
41972645 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
41972710 CCGG
66 CCGG
41972714 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:41972655 original size:40 final size:38
Alignment explanation
Indices: 41972606--41972713 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
41972596 ATCACGATTT
*
41972606 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
41972646 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
41972686 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
41972714 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:41980766 original size:80 final size:80
Alignment explanation
Indices: 41980682--41980830 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
41980672 TATGGTAACC
* * * *
41980682 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
41980746 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
41980762 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
41980827 CCGG
66 CCGG
41980831 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:41980772 original size:40 final size:38
Alignment explanation
Indices: 41980723--41980830 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
41980713 ATCACGATTT
*
41980723 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
41980763 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
41980803 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
41980831 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:41984707 original size:40 final size:41
Alignment explanation
Indices: 41984647--41984867 Score: 298
Period size: 40 Copynumber: 5.6 Consensus size: 41
41984637 TATTCGAATG
*
41984647 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
41984687 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
41984727 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
41984767 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
41984807 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
41984847 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
41984868 ATACTTGGGT
Statistics
Matches: 162, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 142 0.88
41 5 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:41985135 original size:22 final size:22
Alignment explanation
Indices: 41985095--41985136 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
41985085 GAATGTGCAT
*
41985095 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
41985117 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
41985137 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:41992962 original size:40 final size:41
Alignment explanation
Indices: 41992902--41993122 Score: 298
Period size: 40 Copynumber: 5.6 Consensus size: 41
41992892 TATTCGAATG
*
41992902 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
41992942 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
41992982 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
41993022 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
41993062 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
41993102 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
41993123 ATACTTGGGT
Statistics
Matches: 162, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 142 0.88
41 5 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:41993389 original size:22 final size:22
Alignment explanation
Indices: 41993349--41993390 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
41993339 GAATGTGCAT
*
41993349 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
41993371 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
41993391 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:41995872 original size:55 final size:55
Alignment explanation
Indices: 41995813--41995925 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 55
41995803 CAACAAGAGA
*
41995813 GTGCGACACACCCGTACCT-TGAAACCGTGGGCGAACCTGTCAAATTAGCACAGGC
1 GTGCGACACACCCGTACCTAT-AAACCGTGGGCGAACCTGTCAAATTAACACAGGC
** * * * *
41995868 GTGCGGTACGCCCGTGCCTATCACCCGTGGGCGAACCTGTCAAATTAACACAGGC
1 GTGCGACACACCCGTACCTATAAACCGTGGGCGAACCTGTCAAATTAACACAGGC
41995923 GTG
1 GTG
41995926 GACCTATGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 49 0.98
56 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (55 bp):
GTGCGACACACCCGTACCTATAAACCGTGGGCGAACCTGTCAAATTAACACAGGC
Found at i:41997929 original size:40 final size:40
Alignment explanation
Indices: 41997872--41998014 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 40
41997862 ATGATACCCA
* * *
41997872 GGCTAAG-TCCGAAGGCATTTATGCTAGTGATTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATATCCG
* * * *
41997911 GGCTAAGACCCAAAGGCATTCGTGCGAGTTG-TTATATCCA
1 GGCTAAGACCCGAAGGCATTTGTGCAAG-TGATTATATCCG
* ** *
41997951 GGCTAAGACCCGAA-GCATTTGTGCAAGTTACCAAATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATATCCG
* *
41997990 GGTTAAGACCCGAAGGCAATTGTGC
1 GGCTAAGACCCGAAGGCATTTGTGC
41998015 TTGTGGTATA
Statistics
Matches: 84, Mismatches: 16, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 36 0.43
40 45 0.54
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATATCCG
Found at i:42006498 original size:27 final size:28
Alignment explanation
Indices: 42006443--42006498 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
42006433 TGACGAGATC
42006443 GGCACTAAGTGTGTGCGCTGGAAATATAT
1 GGCACTAAG-GTGTGCGCTGGAAATATAT
42006472 GGCACTAA-GTGTGCAGCTGGAAA-ATAT
1 GGCACTAAGGTGTGC-GCTGGAAATATAT
42006499 TTACGGCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 10 0.38
28 8 0.31
29 8 0.31
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (28 bp):
GGCACTAAGGTGTGCGCTGGAAATATAT
Found at i:42011660 original size:35 final size:35
Alignment explanation
Indices: 42011614--42011763 Score: 131
Period size: 35 Copynumber: 4.3 Consensus size: 35
42011604 CCGTACGACT
* * *
42011614 TATATATCATTTATAGGGTGTCACCCTGAAGGACC
1 TATATACCATTTATACGGTGTCACCCTGAAAGACC
* * *
42011649 TATATACCATTTATATGGTGTCACCATGAAAGACT
1 TATATACCATTTATACGGTGTCACCCTGAAAGACC
* * * *
42011684 TACATACTATTTACACGGTGTC-GCCTCGAAAGACC
1 TATATACCATTTATACGGTGTCACCCT-GAAAGACC
** * * * * *
42011719 TATATGTCGTTTACACAGTGTCGCCCTGAAGGACC
1 TATATACCATTTATACGGTGTCACCCTGAAAGACC
42011754 TATATACCAT
1 TATATACCAT
42011764 CATCAGGGTG
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
34 2 0.02
35 85 0.94
36 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (35 bp):
TATATACCATTTATACGGTGTCACCCTGAAAGACC
Found at i:42015156 original size:23 final size:23
Alignment explanation
Indices: 42015126--42015171 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
42015116 TATATTTTGA
*
42015126 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTAAATAT
42015149 GTTCGTATATAACTAGTAAATAT
1 GTTCGTATATAACTAGTAAATAT
42015172 CTAATATCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (23 bp):
GTTCGTATATAACTAGTAAATAT
Found at i:42015356 original size:13 final size:13
Alignment explanation
Indices: 42015338--42015367 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
42015328 AACATAGGGA
*
42015338 TTAAGCTTGGATG
1 TTAAGCTTAGATG
42015351 TTAAGCTTAGATG
1 TTAAGCTTAGATG
42015364 TTAA
1 TTAA
42015368 ATAGTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (13 bp):
TTAAGCTTAGATG
Found at i:42018333 original size:6 final size:6
Alignment explanation
Indices: 42018324--42018367 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
42018314 ATCGTTTAAG
42018324 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
42018368 GCATATGACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:42021347 original size:21 final size:20
Alignment explanation
Indices: 42021323--42021363 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
42021313 ACTTGTATAA
42021323 CTATCATCAAACATTCAAAAT
1 CTATCATCAAACA-TCAAAAT
42021344 CTATCATCAAACATCAAAAT
1 CTATCATCAAACATCAAAAT
42021364 ACTCATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (20 bp):
CTATCATCAAACATCAAAAT
Found at i:42026463 original size:42 final size:40
Alignment explanation
Indices: 42026372--42026507 Score: 107
Period size: 40 Copynumber: 3.3 Consensus size: 40
42026362 TATGTTTGGC
* * *
42026372 ACTTAGTGTGCGTTTTGAGATAGCTTTGGCTATATAAAGC
1 ACTTAGTGTGCGATTGGAGATAGCTTTGGCTATATAAAGA
* *
42026412 ACTTGGTGTGCGAATTGGA-ATAGCTTTGGCTATATATATGGA
1 ACTTAGTGTGCG-ATTGGAGATAGCTTTGGCTATATA-A-AGA
* * ** *
42026454 ACTTAGTGTGTGAGGTT-GAGAAAGCTTCAGCTATGA-AAAGC
1 ACTTAGTGTGCGA--TTGGAGATAGCTTTGGCTAT-ATAAAGA
42026495 ACTTAGTGTGCGA
1 ACTTAGTGTGCGA
42026508 GATTATAATA
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
40 28 0.37
41 19 0.25
42 14 0.18
43 14 0.18
44 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (40 bp):
ACTTAGTGTGCGATTGGAGATAGCTTTGGCTATATAAAGA
Found at i:42026541 original size:83 final size:80
Alignment explanation
Indices: 42026361--42026548 Score: 198
Period size: 83 Copynumber: 2.3 Consensus size: 80
42026351 GACAAATCGA
** * ** *
42026361 CTATGTTTGGCACTTAGTGTGCGTTTTGAGATAGCTTTGGCTATATAAAGCACTTGGTGTGCGAA
1 CTATGTTTGGCACTTAGTGTGCGGGTTGAGAAAGCTTCAGCTATATAAAGCACTTAGTGTGCGAA
* * *
42026426 TTGGAATAGCTTTGG
66 TTAGAATAGATTTCG
* * *
42026441 CTATATATATGGAACTTAGTGTGTGAGGTTGAGAAAGCTTCAGCTATGA-AAAGCACTTAGTGTG
1 CTATGT-T-TGGCACTTAGTGTGCG-GGTTGAGAAAGCTTCAGCTAT-ATAAAGCACTTAGTGTG
*
42026505 CGAGATTATAATAGATTTCG
62 CGA-ATTAGAATAGATTTCG
42026525 CTATGCTTTGGCACTTAGTGTGCG
1 CTATG-TTTGGCACTTAGTGTGCG
42026549 AGATATTGAG
Statistics
Matches: 86, Mismatches: 16, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
80 5 0.06
81 1 0.01
82 14 0.16
83 47 0.55
84 18 0.21
85 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (80 bp):
CTATGTTTGGCACTTAGTGTGCGGGTTGAGAAAGCTTCAGCTATATAAAGCACTTAGTGTGCGAA
TTAGAATAGATTTCG
Found at i:42030972 original size:48 final size:48
Alignment explanation
Indices: 42030901--42031074 Score: 226
Period size: 48 Copynumber: 3.6 Consensus size: 48
42030891 TATGTGTGCT
42030901 AGTGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCC
* * *
42030949 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTCTGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCC
* * ** * *
42030997 AGTGTAAGACCATGTCTGGGACATGGCATCTACCTTGA-CATGTGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACC-ACATTATGAGAGCC
*
42031045 AATGTAAGACCATGTCT-GAGACATGGCATC
1 AGTGTAAGACCATGTCTAG-GACATGGCATC
42031075 TACAATTTAC
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.01
48 109 0.98
49 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCC
Found at i:42031068 original size:96 final size:96
Alignment explanation
Indices: 42030898--42031074 Score: 259
Period size: 96 Copynumber: 1.8 Consensus size: 96
42030888 TGATATGTGT
* *
42030898 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCACATCATGAGAGCCAATGTAAGACCATG
42030963 TCTAGGACATGGCATCGGCCACATTCTGAGA
66 TCTAGGACATGGCATCGGCCACATTCTGAGA
* * ** *
42030994 GCTAGTGTAAGACCATGTCTGGGACATGGCATCTACCTTGA-CATGTGAGCCAATGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACC-ACATCATGAGAGCCAATGTAAGACCAT
42031058 GTCT-GAGACATGGCATC
65 GTCTAG-GACATGGCATC
42031075 TACAATTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
95 1 0.01
96 70 0.97
97 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCACATCATGAGAGCCAATGTAAGACCATG
TCTAGGACATGGCATCGGCCACATTCTGAGA
Found at i:42051347 original size:40 final size:39
Alignment explanation
Indices: 42051182--42051365 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
42051172 AAATTGAATG
* * *
42051182 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
42051222 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
42051262 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
42051302 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
42051341 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
42051366 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:42051390 original size:80 final size:81
Alignment explanation
Indices: 42051222--42051410 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
42051212 GCTGGAAATT
* * * *
42051222 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
42051287 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
42051303 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
42051366 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
42051382 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
42051411 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:42059890 original size:11 final size:11
Alignment explanation
Indices: 42059874--42059903 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
42059864 TAACATTAAG
42059874 AATATATATAT
1 AATATATATAT
*
42059885 AATATAAATAT
1 AATATATATAT
42059896 AATATATA
1 AATATATA
42059904 CAATATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:42059900 original size:20 final size:20
Alignment explanation
Indices: 42059877--42059916 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
42059867 CATTAAGAAT
*
42059877 ATATATATAATATAAATATA
1 ATATATACAATATAAATATA
*
42059897 ATATATACAATATACATATA
1 ATATATACAATATAAATATA
42059917 TGATAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATATACAATATAAATATA
Found at i:42060717 original size:15 final size:14
Alignment explanation
Indices: 42060699--42060740 Score: 75
Period size: 15 Copynumber: 2.9 Consensus size: 14
42060689 TTCTTTTTTC
42060699 TTTTTTTTTGGGGG
1 TTTTTTTTTGGGGG
42060713 TTTTTTTTTGGGGGG
1 TTTTTTTTT-GGGGG
42060728 TTTTTTTTTGGGG
1 TTTTTTTTTGGGG
42060741 TAAGTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (14 bp):
TTTTTTTTTGGGGG
Found at i:42060755 original size:38 final size:38
Alignment explanation
Indices: 42060713--42060791 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
42060703 TTTTTGGGGG
*
42060713 TTTTTTTTTGGGGGGTTTTTTTTTGGGGTAAGTTTTTT
1 TTTTTTTTTCGGGGGTTTTTTTTTGGGGTAAGTTTTTT
*** * * *
42060751 TTTTTTTTTCTTTGTTTTTTTTTTGGGTTAGGTTTTTT
1 TTTTTTTTTCGGGGGTTTTTTTTTGGGGTAAGTTTTTT
42060789 TTT
1 TTT
42060792 GGGGGGGCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.04, C:0.01, G:0.22, T:0.73
Consensus pattern (38 bp):
TTTTTTTTTCGGGGGTTTTTTTTTGGGGTAAGTTTTTT
Found at i:42061805 original size:74 final size:74
Alignment explanation
Indices: 42061705--42061982 Score: 377
Period size: 74 Copynumber: 3.8 Consensus size: 74
42061695 AAGATAGAAT
* * * *
42061705 TTGAAAATACCTTAGCGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATT
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
42061770 TAATGGGAA
66 TAATGGGAA
* *
42061779 TTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATT
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
42061844 TAATGGGAA
66 TAATGGGAA
* * *
42061853 TTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA--
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
*
42061916 AACAT--GAA
66 TA-ATGGGAA
* * ***
42061924 TTGAAATTACC-CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
42061983 CTTGGAAACA
Statistics
Matches: 188, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
70 41 0.22
71 14 0.07
72 1 0.01
73 2 0.01
74 130 0.69
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (74 bp):
TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
TAATGGGAA
Found at i:42061895 original size:148 final size:144
Alignment explanation
Indices: 42061705--42062299 Score: 481
Period size: 158 Copynumber: 3.9 Consensus size: 144
42061695 AAGATAGAAT
* *
42061705 TTGAAAATACCTTAGCGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATT
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGA--
* * * *
42061770 TA-ATGGGAATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTG
64 AACAT--GAATTGAAATTACC-CAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
42061834 ATTTTAGATTTAATGGGAA
126 ATTTTAGATTTAATGGGAA
* * * * *
42061853 TTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
* ***
42061918 CATGAATTGAAATTACCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
66 CATGAATTGAAATTACCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
** * *
42061983 CTTGGAAACATGAACTAAAAAGCAGAAA
129 -TT------A-G-A-TTTAATG--GGAA
** * * *
42062011 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
* * ***
42062076 CATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
66 CATGAATTGAAATTACC-CAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
** * *
42062141 TCTTGGAAACATGAATAAAAAGCAGAAA
128 T-TT------A-G-ATTTAATG--GGAA
** * * *
42062169 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
* * *** *
42062234 CATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
66 CATGAATTGAAATTACC-CAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
42062299 T
130 T
42062300 CTTGGAAAAC
Statistics
Matches: 406, Mismatches: 25, Indels: 25
0.89 0.05 0.05
Matches are distributed among these distances:
144 37 0.09
145 14 0.03
146 3 0.01
147 4 0.01
148 56 0.14
153 1 0.00
154 1 0.00
155 3 0.01
156 6 0.01
158 219 0.54
159 62 0.15
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (144 bp):
TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
CATGAATTGAAATTACCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
AGATTTAATGGGAA
Found at i:42062124 original size:71 final size:71
Alignment explanation
Indices: 42062008--42062141 Score: 223
Period size: 71 Copynumber: 1.9 Consensus size: 71
42061998 TAAAAAGCAG
* *
42062008 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
42062073 AAACAT
66 AAACAT
* * *
42062079 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
42062142 CTTGGAAACA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAACAT
Found at i:42062160 original size:158 final size:159
Alignment explanation
Indices: 42061851--42062390 Score: 985
Period size: 158 Copynumber: 3.4 Consensus size: 159
42061841 ATTTAATGGG
* ** *
42061851 AATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
42061916 AACATGAATTGAAATTACC-CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
42061980 TTTCTTGGAAACATGAACTAAAAAGCAGA
131 TTTCTTGGAAACATGAACTAAAAAGCAGA
42062009 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
42062074 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
42062139 TTTCTTGGAAACATGAA-TAAAAAGCAGA
131 TTTCTTGGAAACATGAACTAAAAAGCAGA
42062167 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
42062232 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
42062297 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGG-AAACATGAACTAAAAAGCAGA
*
42062327 AATTGGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
42062391 GAAAAAAACA
Statistics
Matches: 372, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
158 227 0.61
159 71 0.19
160 74 0.20
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (159 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTCTTGGAAACATGAACTAAAAAGCAGA
Found at i:42062282 original size:71 final size:71
Alignment explanation
Indices: 42062166--42062299 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
42062156 TAAAAAGCAG
* * *
42062166 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
42062231 AAACAT
66 AAACAT
* * *
42062237 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
42062300 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:42073957 original size:20 final size:20
Alignment explanation
Indices: 42073928--42073973 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
42073918 AATAACATTA
*
42073928 AAATAT-ATATATATAATAT
1 AAATATAATATATACAATAT
42073947 AAATATAATATATACAATAT
1 AAATATAATATATACAATAT
*
42073967 ACATATA
1 AAATATA
42073974 TGATAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATAATATATACAATAT
Found at i:42074805 original size:17 final size:17
Alignment explanation
Indices: 42074767--42074810 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
42074757 TTTTCTTCTT
*
42074767 TTTTTTTTTGGGGTTAG
1 TTTTTTTTTGGGGTAAG
*
42074784 GTTTTTTTTGGGGTAAG
1 TTTTTTTTTGGGGTAAG
42074801 TTTTTCTTTT
1 TTTTT-TTTT
42074811 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.07, C:0.02, G:0.25, T:0.66
Consensus pattern (17 bp):
TTTTTTTTTGGGGTAAG
Found at i:42075808 original size:40 final size:39
Alignment explanation
Indices: 42075643--42075826 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
42075633 AAATTGAATG
* * *
42075643 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
42075683 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
42075723 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
42075763 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
42075802 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
42075827 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:42075851 original size:80 final size:81
Alignment explanation
Indices: 42075683--42075871 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
42075673 GCTGGAAATT
* * * *
42075683 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
42075748 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
42075764 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
42075827 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
42075843 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
42075872 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:42077540 original size:21 final size:20
Alignment explanation
Indices: 42077514--42077554 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
42077504 ACTTGTATAA
42077514 CTATCATCAAACATTCAAAAT
1 CTATCATCAAACA-TCAAAAT
42077535 CTATCATCAAACATCAAAAT
1 CTATCATCAAACATCAAAAT
42077555 ACTCATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (20 bp):
CTATCATCAAACATCAAAAT
Found at i:42080337 original size:93 final size:93
Alignment explanation
Indices: 42080229--42080401 Score: 269
Period size: 93 Copynumber: 1.9 Consensus size: 93
42080219 CGCCCATAAG
* *
42080229 CGAACTCGGACTCAACTCAATGA-TCTC-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACT
1 CGAACTCGGACTCAACTCAACGAGT-TCAGAG-GTTCGCATCCATAAGTGAACTCGGACTCAACT
*
42080292 CAACGAGCTCGGATGCCTAGTTACATCTCA
64 CAACGAGCTCAGATGCCTAGTTACATCTCA
42080322 CGAACTCGGACTCAACTCAACGAGTTCAGAGGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCAGAGGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
42080387 ATGAGTTCAGATGCC
66 ACGAGCTCAGATGCC
42080402 CAAATATCTG
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
93 70 0.96
94 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCAGAGGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCA
Found at i:42080393 original size:46 final size:47
Alignment explanation
Indices: 42080222--42080397 Score: 177
Period size: 46 Copynumber: 3.8 Consensus size: 47
42080212 TGTAACCCGC
* *
42080222 CCATAAGCGAACTCGGACTCAACTCAATGA-TCTC-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGT-TCAGAGCGTTCGCAT
* * * *
42080268 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGA-G-C--GTTCGCAT
*
42080318 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGAG-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGAGCGTTCGCAT
* *
42080361 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCAGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGA
42080398 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 1 0.01
45 2 0.02
46 59 0.55
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGAGCGTTCGCAT
Found at i:42087094 original size:36 final size:36
Alignment explanation
Indices: 42087020--42087127 Score: 103
Period size: 36 Copynumber: 3.0 Consensus size: 36
42087010 CAATCAGTAA
* * * * * *
42087020 TATTCATTAACAATCAGTCAATCAG-AACAATTATT
1 TATTCAATAACAATCAGTTATTGAGTAACAATCAAT
* *
42087055 TATTCAGTAACAGTCAGTTATTCG-GTAACAATCAAT
1 TATTCAATAACAATCAGTTATT-GAGTAACAATCAAT
* *
42087091 TATTCAATAATAATCAGTTATTGAGTATCAATCAAT
1 TATTCAATAACAATCAGTTATTGAGTAACAATCAAT
42087127 T
1 T
42087128 GATCGGTTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
35 20 0.34
36 39 0.66
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (36 bp):
TATTCAATAACAATCAGTTATTGAGTAACAATCAAT
Found at i:42087199 original size:19 final size:19
Alignment explanation
Indices: 42087054--42087206 Score: 73
Period size: 18 Copynumber: 7.9 Consensus size: 19
42087044 GAACAATTAT
* *
42087054 TTATTCAGTAACAGTC-AG
1 TTATTCAGTAACAATCAAA
*
42087072 TTATTCGGTAACAATC-AA
1 TTATTCAGTAACAATCAAA
* * *
42087090 TTATTCAATAATAATC-AG
1 TTATTCAGTAACAATCAAA
* *
42087108 TTATTGAGTATCAATCAATTGA
1 TTATTCAGTAACAATCAA---A
* *
42087130 TCGGTTATCCAGTAACAGTC-AA
1 ----TTATTCAGTAACAATCAAA
* *
42087152 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCAAA
* *
42087171 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
*
42087189 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
42087207 TCTTTTCAGT
Statistics
Matches: 98, Mismatches: 27, Indels: 19
0.68 0.19 0.13
Matches are distributed among these distances:
18 68 0.69
19 16 0.16
22 1 0.01
25 1 0.01
26 12 0.12
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:42087379 original size:53 final size:53
Alignment explanation
Indices: 42087317--42087442 Score: 180
Period size: 53 Copynumber: 2.4 Consensus size: 53
42087307 CCGAAGCTGG
* * *
42087317 AACAGTAACAGTAACAGTATGGTACACAGAGTACCTCATTAGAATAAATCCGG
1 AACAGTAACAGTAACAGTATGGTACACAGAGTACCTCATCAGAACAAATCCGA
** * *
42087370 AATGGTAACAATAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCGA
1 AACAGTAACAGTAACAGTATGGTACACAGAGTACCTCATCAGAACAAATCCGA
*
42087423 AACAGTAACAGTAACGGTAT
1 AACAGTAACAGTAACAGTAT
42087443 CAGTAACAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTATGGTACACAGAGTACCTCATCAGAACAAATCCGA
Found at i:42090529 original size:24 final size:24
Alignment explanation
Indices: 42090497--42090607 Score: 134
Period size: 24 Copynumber: 4.6 Consensus size: 24
42090487 TATCTCAAAT
*
42090497 GCACTATGTGTGCAATTTATTATA
1 GCACTATGTGTGCAATTTACTATA
* *
42090521 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCAATTTACTATA
* *
42090545 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCAATTTACTATA
** *
42090569 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGC-AATTTACTATA
42090593 GCACTATGTGTGCAA
1 GCACTATGTGTGCAA
42090608 CGTTTGGTTG
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
23 2 0.03
24 71 0.91
25 5 0.06
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCAATTTACTATA
Found at i:42096114 original size:30 final size:30
Alignment explanation
Indices: 42096080--42096139 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
42096070 TTTTAATGCA
42096080 AACTCATGCTAGCTGAATATTCATGGCATT
1 AACTCATGCTAGCTGAATATTCATGGCATT
42096110 AACTCATGCTAGCTGAATATTCATGGCATT
1 AACTCATGCTAGCTGAATATTCATGGCATT
42096140 CATTACAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (30 bp):
AACTCATGCTAGCTGAATATTCATGGCATT
Found at i:42099458 original size:41 final size:40
Alignment explanation
Indices: 42099413--42099542 Score: 161
Period size: 41 Copynumber: 3.2 Consensus size: 40
42099403 TTTCTAAATC
* *
42099413 AATGAAAAGCTTGAAAAGAAAGTGATCCGAAAAGGATAACA
1 AATGAAAAG-TTGAAAAGGAAGTTATCCGAAAAGGATAACA
* * *
42099454 AATGAAATGTTGACAAGGAAGTTATCCGAAAAGAATAACA
1 AATGAAAAGTTGAAAAGGAAGTTATCCGAAAAGGATAACA
* * * *
42099494 AATGAAAATGTTAAAAAGGATGTTATTCGAAAAGGATAACG
1 AATGAAAA-GTTGAAAAGGAAGTTATCCGAAAAGGATAACA
42099535 AATGAAAA
1 AATGAAAA
42099543 AGAAGTGTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
40 34 0.45
41 42 0.55
ACGTcount: A:0.52, C:0.08, G:0.21, T:0.19
Consensus pattern (40 bp):
AATGAAAAGTTGAAAAGGAAGTTATCCGAAAAGGATAACA
Found at i:42102373 original size:39 final size:39
Alignment explanation
Indices: 42102319--42102471 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
42102309 GAATGTTCGA
*
42102319 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
42102358 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
42102397 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
42102436 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
42102472 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:42102496 original size:40 final size:39
Alignment explanation
Indices: 42102320--42102490 Score: 243
Period size: 39 Copynumber: 4.4 Consensus size: 39
42102310 AATGTTCGAG
* *
42102320 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42102359 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42102398 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
42102437 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** *
42102477 CCATAACCGGGCTA
1 TGATATCCGGGCTA
42102491 TGTCCCAAAG
Statistics
Matches: 118, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 88 0.75
40 30 0.25
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:42105116 original size:46 final size:46
Alignment explanation
Indices: 42104935--42105116 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
42104925 TTTGACATGA
* * * * * * *
42104935 TGCCATAGTGTCTTTCAACTATGGTGTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
42104981 TGCCATGGTATCTTTCAACCATGGCCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
42105027 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
42105073 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
42105117 AGAGCACACT
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 117 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:42105250 original size:27 final size:27
Alignment explanation
Indices: 42105212--42105267 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
42105202 TCGGGATTAC
42105212 CAGTCCTGGCTAAATCCCCTGCAACGA
1 CAGTCCTGGCTAAATCCCCTGCAACGA
42105239 CAGTCCTGGCTAAATCCCCTGCAACGA
1 CAGTCCTGGCTAAATCCCCTGCAACGA
42105266 CA
1 CA
42105268 ATTACTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.38, G:0.18, T:0.18
Consensus pattern (27 bp):
CAGTCCTGGCTAAATCCCCTGCAACGA
Found at i:42107068 original size:20 final size:20
Alignment explanation
Indices: 42107043--42107080 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
42107033 TTCTCTCTCC
42107043 TCCAACTTCGAT-TTCTTGAA
1 TCCAACTT-GATATTCTTGAA
42107063 TCCAACTTGATATTCTTG
1 TCCAACTTGATATTCTTG
42107081 TTCCCCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (20 bp):
TCCAACTTGATATTCTTGAA
Found at i:42109150 original size:13 final size:13
Alignment explanation
Indices: 42109132--42109165 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
42109122 TGCAGACTTT
42109132 ACACGCCCTGGGC
1 ACACGCCCTGGGC
42109145 ACACGCCCTGGGC
1 ACACGCCCTGGGC
42109158 ACACGCCC
1 ACACGCCC
42109166 GTGCCTGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.18, C:0.50, G:0.26, T:0.06
Consensus pattern (13 bp):
ACACGCCCTGGGC
Found at i:42109580 original size:2 final size:2
Alignment explanation
Indices: 42109573--42109601 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42109563 CATCATATGC
42109573 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42109602 CTTAAACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42115220 original size:2 final size:2
Alignment explanation
Indices: 42115215--42115249 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
42115205 ACTATATACT
42115215 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42115250 CAAAATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42115907 original size:25 final size:25
Alignment explanation
Indices: 42115878--42115986 Score: 89
Period size: 25 Copynumber: 4.4 Consensus size: 25
42115868 GCCCTCTCTC
*
42115878 GAGCCATATAACAAGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
* * * *
42115903 GAGCCATGTAACGGGAAGCTTATCT
1 GAGCCATATAACAGGAAGCTCATGT
** * **
42115928 G-GACTGTATAACGGGAAGCTCATAA
1 GAG-CCATATAACAGGAAGCTCATGT
*
42115953 GAGCCATAT-TCAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
42115977 GAGCCA-ATAA
1 GAGCCATATAA
42115987 TGGGTAGCTC
Statistics
Matches: 63, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
23 2 0.03
24 18 0.29
25 42 0.67
26 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:42117884 original size:27 final size:28
Alignment explanation
Indices: 42117828--42117897 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
42117818 AAATTTGTAC
42117828 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
42117856 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
42117883 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
42117898 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:42117908 original size:27 final size:27
Alignment explanation
Indices: 42117828--42117909 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
42117818 AAATTTGTAC
* *
42117828 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
42117856 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
42117883 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
42117910 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:42125646 original size:27 final size:28
Alignment explanation
Indices: 42125590--42125659 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
42125580 AAATTTGTAC
42125590 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
42125618 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
42125645 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
42125660 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:42125670 original size:27 final size:27
Alignment explanation
Indices: 42125590--42125671 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
42125580 AAATTTGTAC
* *
42125590 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
42125618 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
42125645 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
42125672 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:42127336 original size:5 final size:5
Alignment explanation
Indices: 42127307--42127345 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
42127297 AAATTTAACA
* *
42127307 TCAAT TGAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
42127346 CATCTTTGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (5 bp):
TCAAT
Found at i:42140157 original size:13 final size:12
Alignment explanation
Indices: 42140141--42140191 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
42140131 CTTTTAAATT
42140141 TTTTTTTTATAAA
1 TTTTTTTTAT-AA
* *
42140154 TTTTGTCTATAA
1 TTTTTTTTATAA
*
42140166 -TTTTTTTATGA
1 TTTTTTTTATAA
42140177 TTTTTTTTA-AA
1 TTTTTTTTATAA
42140188 TTTT
1 TTTT
42140192 AAAAGGGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 13 0.42
12 10 0.32
13 8 0.26
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (12 bp):
TTTTTTTTATAA
Found at i:42143580 original size:17 final size:17
Alignment explanation
Indices: 42143544--42143586 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
42143534 ATTTCATGTA
*
42143544 TTATTA-TTAATATATT
1 TTATTATTTAATATATG
*
42143560 TTATTATTTATTATATG
1 TTATTATTTAATATATG
42143577 TTATT-TTTAA
1 TTATTATTTAA
42143587 ACATATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATTATTTAATATATG
Found at i:42144102 original size:19 final size:20
Alignment explanation
Indices: 42144071--42144112 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
42144061 AAAAAAATTG
42144071 TATTTTAATAATAATATA-A
1 TATTTTAATAATAATATATA
42144090 TATTATTAA-AATAATATATA
1 TATT-TTAATAATAATATATA
42144110 TAT
1 TAT
42144113 ACTTATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTTTAATAATAATATATA
Found at i:42144118 original size:23 final size:22
Alignment explanation
Indices: 42144077--42144121 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
42144067 ATTGTATTTT
42144077 AATAATAATATAATATTATTAA
1 AATAATAATATAATATTATTAA
42144099 AATAAT-ATATATATACTTATTAA
1 AATAATAATATA-ATA-TTATTAA
42144122 TCAATTAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAATAATATAATATTATTAA
Found at i:42145333 original size:30 final size:31
Alignment explanation
Indices: 42145299--42145357 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
42145289 TAGTGATTTA
*
42145299 AATAAAAA-TTTCGAATAATTTAACGACTTC
1 AATAAAAACTTTCAAATAATTTAACGACTTC
* *
42145329 AATAAAAACTTTTAAATAATTTAATGACT
1 AATAAAAACTTTCAAATAATTTAACGACT
42145358 ATTTTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (31 bp):
AATAAAAACTTTCAAATAATTTAACGACTTC
Found at i:42147719 original size:23 final size:21
Alignment explanation
Indices: 42147679--42147722 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
42147669 TTCAATTCTT
*
42147679 TTATTTTATTTTATATTTTAA
1 TTATTTTATTTTAAATTTTAA
42147700 TTATTTTATATTTAAAATTTTAA
1 TTATTTTAT-TTT-AAATTTTAA
42147723 AAATTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 3 0.15
23 8 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATTTTATTTTAAATTTTAA
Found at i:42148884 original size:24 final size:24
Alignment explanation
Indices: 42148852--42148909 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
42148842 ATTTAATTTT
42148852 AAAAAATTATTTTTATGCATGTTA
1 AAAAAATTATTTTTATGCATGTTA
42148876 AAAAAATTATTTTTATGCATGTTA
1 AAAAAATTATTTTTATGCATGTTA
*
42148900 TAAAAATTAT
1 AAAAAATTAT
42148910 ATTAGGAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (24 bp):
AAAAAATTATTTTTATGCATGTTA
Found at i:42157842 original size:36 final size:36
Alignment explanation
Indices: 42157802--42157915 Score: 104
Period size: 36 Copynumber: 3.1 Consensus size: 36
42157792 ATTAAATGTG
*
42157802 TGTGCCCAACACTAGCCGGATAACCCAAAAAAGATT
1 TGTGCCCAACACTAGTCGGATAACCCAAAAAAGATT
** * ** *
42157838 TGTGCCCAGTACTAGTCGGATAAACTGACGATATTAA-ATA
1 TGTGCCCAACACTAGTCGGAT-AAC---CCA-AAAAAGATT
*
42157878 TGTGCCCAACACTAGTCGGATAACCCGAAAAAGATT
1 TGTGCCCAACACTAGTCGGATAACCCAAAAAAGATT
42157914 TG
1 TG
42157916 CACCAAGCGC
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
35 3 0.05
36 23 0.40
37 3 0.05
39 3 0.05
40 23 0.40
41 3 0.05
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (36 bp):
TGTGCCCAACACTAGTCGGATAACCCAAAAAAGATT
Found at i:42157898 original size:76 final size:76
Alignment explanation
Indices: 42157802--42157969 Score: 210
Period size: 76 Copynumber: 2.2 Consensus size: 76
42157792 ATTAAATGTG
* ** * * * * *
42157802 TGTGCCCAACACTAGCCGGATAACCCAAAAAAGATTTGTGCCCAGTACTAGTCGGATAAACTGAC
1 TGTGCCCAACACTAGTCGGATAACCCAAAAAAGATTTGCACCAAGCACTAATCGAATAAACTAAC
*
42157867 GATATTAAATA
66 AATATTAAATA
* *
42157878 TGTGCCCAACACTAGTCGGATAACCCGAAAAAGATTTGCACCAAGCGCTAATCGAATAAACTAAC
1 TGTGCCCAACACTAGTCGGATAACCCAAAAAAGATTTGCACCAAGCACTAATCGAATAAACTAAC
*
42157943 AATATTAAATG
66 AATATTAAATA
* *
42157954 TGTTCCCAACATTAGT
1 TGTGCCCAACACTAGT
42157970 TAGAAAAACC
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (76 bp):
TGTGCCCAACACTAGTCGGATAACCCAAAAAAGATTTGCACCAAGCACTAATCGAATAAACTAAC
AATATTAAATA
Found at i:42161991 original size:50 final size:52
Alignment explanation
Indices: 42161881--42162001 Score: 183
Period size: 50 Copynumber: 2.4 Consensus size: 52
42161871 ATGAACAAAT
* * *
42161881 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
* *
42161933 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTTACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
42161983 GAGTTACATAATGCATGAC
1 GAGTTACATAATGCATGAC
42162002 TTTACTAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 29 0.46
51 11 0.17
52 23 0.37
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:42162079 original size:39 final size:39
Alignment explanation
Indices: 42162017--42162105 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
42162007 TAAATGCAGA
*
42162017 ACACATATTAATGATGTTCAAACTATGACATAATTAAAG
1 ACACATACTAATGATGTTCAAACTATGACATAATTAAAG
*
42162056 ACTCATACTAATGATGTTCAAACTATGACATAATTAAAG
1 ACACATACTAATGATGTTCAAACTATGACATAATTAAAG
*
42162095 ACACAAACTAA
1 ACACATACTAA
42162106 AATAACTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (39 bp):
ACACATACTAATGATGTTCAAACTATGACATAATTAAAG
Found at i:42170873 original size:20 final size:21
Alignment explanation
Indices: 42170848--42170891 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
42170838 TAACTTTAAG
42170848 AAAATGGATCAATTTTCT-GA
1 AAAATGGATCAATTTTCTAGA
**
42170868 AAAATGGATTGATTTTCTAGA
1 AAAATGGATCAATTTTCTAGA
42170889 AAA
1 AAA
42170892 TAACTTGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (21 bp):
AAAATGGATCAATTTTCTAGA
Found at i:42173567 original size:136 final size:137
Alignment explanation
Indices: 42173323--42173608 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
42173313 CATTGGGCCT
** * *
42173323 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
42173388 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
42173452 CATATGC
131 CATATGC
42173459 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
42173524 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
42173589 CATATGC
131 CATATGC
42173596 AAGCCCATTTGGG
1 AAGCCCATTTGGG
42173609 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:42175453 original size:26 final size:25
Alignment explanation
Indices: 42175395--42175502 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 25
42175385 CATGAAATTC
42175395 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
42175420 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
* *
42175446 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
42175472 TTATCATGGAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
42175497 TTATCA
1 TTATCA
42175503 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 31 0.40
26 47 0.60
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:42179496 original size:136 final size:137
Alignment explanation
Indices: 42179252--42179537 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
42179242 CATTGGGCCT
** * *
42179252 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
42179317 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
42179381 CATATGC
131 CATATGC
42179388 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
42179453 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
42179518 CATATGC
131 CATATGC
42179525 AAGCCCATTTGGG
1 AAGCCCATTTGGG
42179538 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Done.