Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 182 of 290
Found at i:62258907 original size:14 final size:14
Alignment explanation
Indices: 62258888--62258917 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62258878 CTTAGCTAAA
62258888 TTTTAAGAAATTCT
1 TTTTAAGAAATTCT
62258902 TTTTAAGAAATTCT
1 TTTTAAGAAATTCT
62258916 TT
1 TT
62258918 GTAAATCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTTAAGAAATTCT
Found at i:62260871 original size:42 final size:42
Alignment explanation
Indices: 62260820--62260930 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 42
62260810 GTTGAGAGTA
**
62260820 CGTGTAAGACCATATATGGGATATGGAATCGATATGAGATTT
1 CGTGTAAGACCATATATGGGATATGGAATCGATATGAGATCC
* * * *
62260862 CGTGTAAGACCAT-TGCTGGGCTATTTGTATCGATATGAGATCC
1 CGTGTAAGACCATAT-ATGGGATA-TGGAATCGATATGAGATCC
* *
62260905 CATGTAAGACCATATTTGGGATATGG
1 CGTGTAAGACCATATATGGGATATGG
62260931 CATTGGTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.02
42 21 0.38
43 33 0.59
44 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCATATATGGGATATGGAATCGATATGAGATCC
Found at i:62262731 original size:86 final size:86
Alignment explanation
Indices: 62262586--62262758 Score: 319
Period size: 86 Copynumber: 2.0 Consensus size: 86
62262576 ACAATTCTTA
*
62262586 CCATACATATATACGCATATACCATTATTCATAAGGTTAACACAATAACATTGTCACAATGCTCA
1 CCATACATATATACACATATACCATTATTCATAAGGTTAACACAATAACATTGTCACAATGCTCA
62262651 TGAACTCACCATTCATGAATT
66 TGAACTCACCATTCATGAATT
* *
62262672 CCATACATATATACACGTATACCATTATTCATAAGGTTAACACAATAACATTGTCACAATGGTCA
1 CCATACATATATACACATATACCATTATTCATAAGGTTAACACAATAACATTGTCACAATGCTCA
62262737 TGAACTCACCATTCATGAATT
66 TGAACTCACCATTCATGAATT
62262758 C
1 C
62262759 TATAATCATT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (86 bp):
CCATACATATATACACATATACCATTATTCATAAGGTTAACACAATAACATTGTCACAATGCTCA
TGAACTCACCATTCATGAATT
Found at i:62266778 original size:29 final size:29
Alignment explanation
Indices: 62266742--62266850 Score: 98
Period size: 27 Copynumber: 3.9 Consensus size: 29
62266732 TGAATGCGAC
*
62266742 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
62266771 TGGGCCTAAAGGGCCATAT--AGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * * * *
62266798 TGGGACTAATAGGTCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
62266826 TGGGCTTAATGGGCCAGATACATGT
1 TGGGCCTAATGGGCCATATAAATGT
62266851 ATGTGAAATT
Statistics
Matches: 62, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
27 22 0.35
28 18 0.29
29 22 0.35
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:62266806 original size:27 final size:28
Alignment explanation
Indices: 62266742--62266806 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
62266732 TGAATGCGAC
* *
62266742 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAAAGGGCCATAT-AAGGTGATT
62266771 TGGGCCTAAAGGGCCATAT-AGGTGATT
1 TGGGCCTAAAGGGCCATATAAGGTGATT
*
62266798 TGGGACTAA
1 TGGGCCTAA
62266807 TAGGTCATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 15 0.45
29 18 0.55
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
TGGGCCTAAAGGGCCATATAAGGTGATT
Found at i:62272364 original size:46 final size:46
Alignment explanation
Indices: 62272314--62272494 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 46
62272304 TGGTTGAGCA
62272314 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62272360 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
62272405 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62272453 CCCGAGCTCGTTTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGA--AC---TCGTTGAGTTGAGTCCGAGTTCACTTATGG
62272495 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 32 0.30
47 28 0.26
48 3 0.03
50 4 0.04
51 30 0.28
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62274332 original size:19 final size:20
Alignment explanation
Indices: 62274295--62274332 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
62274285 CAATGATTCA
* *
62274295 ATGGACATGAAACTCTTGAC
1 ATGGACATGAAAATATTGAC
62274315 ATGG-CATGAAAATATTGA
1 ATGGACATGAAAATATTGA
62274333 TGTGATATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (20 bp):
ATGGACATGAAAATATTGAC
Found at i:62281973 original size:33 final size:33
Alignment explanation
Indices: 62281931--62281997 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
62281921 AACTAGTACA
62281931 GAAAATTTTGAATGAAGCTCATAGTGGTAACAT
1 GAAAATTTTGAATGAAGCTCATAGTGGTAACAT
62281964 GAAAATTTTGAATGAAGCTCATAGTGGTAACAT
1 GAAAATTTTGAATGAAGCTCATAGTGGTAACAT
62281997 G
1 G
62281998 TCTATTCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (33 bp):
GAAAATTTTGAATGAAGCTCATAGTGGTAACAT
Found at i:62285232 original size:27 final size:27
Alignment explanation
Indices: 62285202--62285425 Score: 227
Period size: 27 Copynumber: 8.3 Consensus size: 27
62285192 TACTTAAATG
* *
62285202 CCCTCGATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * *
62285229 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * *
62285256 CCCTCGATTTACAAAATCACCGTTTCA
1 CCCTCGATTTATAAAATTACCGTTTTA
** * *
62285283 CCCTTAATTTATAAAATTGCTGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * *
62285310 CCCTCGATTTAT-CAATTACCATTTCA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * *
62285336 CCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * *
62285363 CCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
*
62285390 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAAAATTACCGTTTTA
62285417 CCCTCGATT
1 CCCTCGATT
62285426 GTGAAATTAC
Statistics
Matches: 160, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
26 21 0.13
27 138 0.86
28 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCGTTTTA
Found at i:62285375 original size:107 final size:108
Alignment explanation
Indices: 62285202--62285425 Score: 299
Period size: 107 Copynumber: 2.1 Consensus size: 108
62285192 TACTTAAATG
* * *
62285202 CCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAAAATTACCATTTCACCCTCGATTTACAGAATTATCGTTTCACCCTCGATTTA
* * * * *
62285267 CAAAATCACCGTTTCACCCTTAATTTATAAAATTGCTGTTTTA
66 CAAAATCACCATTTCACCCTCAATTTACAAAATTACCGTTTTA
* * *
62285310 CCCTCGATTTAT-CAATTACCATTTCACCCTCGATTTACAGAATTA-CTGTTTTACCCTTGATTT
1 CCCTCGATTTATAAAATTACCATTTCACCCTCGATTTACAGAATTATC-GTTTCACCCTCGATTT
* * *
62285373 ACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTA
65 ACAAAATCACCATTTCACCCTCAATTTACAAAATTACCGTTTTA
62285417 CCCTCGATT
1 CCCTCGATT
62285426 GTGAAATTAC
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
106 1 0.01
107 89 0.88
108 11 0.11
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (108 bp):
CCCTCGATTTATAAAATTACCATTTCACCCTCGATTTACAGAATTATCGTTTCACCCTCGATTTA
CAAAATCACCATTTCACCCTCAATTTACAAAATTACCGTTTTA
Found at i:62285523 original size:28 final size:27
Alignment explanation
Indices: 62285424--62285608 Score: 142
Period size: 27 Copynumber: 6.8 Consensus size: 27
62285414 TTACCCTCGA
* *
62285424 TTGTGAAATTACCGAAATACCCCTA-T
1 TTGTAAAATTACCAAAATACCCCTAGT
** * *
62285450 AGGATAGAATTACCAAAACACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
*
62285478 TTATAAAATTACCAAAATACCCCTAGTT
1 TTGTAAAATTACCAAAATACCCCTAG-T
** * * *
62285506 TTGTAAAATTACTGAAATGCCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * * *
62285533 TTGTGAAATTACCGAAATA-CCTTCAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
62285560 TTGTAAAATTACCAAAATACCCCT-GAT
1 TTGTAAAATTACCAAAATACCCCTAG-T
** *
62285587 TTACAAAATTACAAAAATACCC
1 TTGTAAAATTACCAAAATACCC
62285609 TTGACTTTCT
Statistics
Matches: 122, Mismatches: 31, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
26 3 0.02
27 94 0.77
28 25 0.20
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:62285622 original size:109 final size:110
Alignment explanation
Indices: 62285424--62285664 Score: 258
Period size: 109 Copynumber: 2.2 Consensus size: 110
62285414 TTACCCTCGA
* * *
62285424 TTGTGAAATTACCGAAATACCCCTATAGGATAGAATTACCAAAACACCCCTAGTTTATAAAATTA
1 TTGTGAAATTACCGAAATACCCCAATAGGATAAAATTACCAAAACACCCCTAGTTTACAAAATTA
* * * *
62285489 CCAAAATACCCCTAGTTTTGTAAAA-TTACT-GAAATGCCACTGGT
66 CAAAAATACCCCTAGCTTTCTAAAAGTTA-TAGAAATACCACTGGT
* ** *
62285533 TTGTGAAATTACCGAAATACCTTCAATTTG-TAAAATTACCAAAATACCCCT-GATTTACAAAAT
1 TTGTGAAATTACCGAAATACC-CCAATAGGATAAAATTACCAAAACACCCCTAG-TTTACAAAAT
* *
62285596 TACAAAAATA-CCCTTGACTTTCTAAAAGTTATAGAAATACCATTGGT
64 TACAAAAATACCCCTAG-CTTTCTAAAAGTTATAGAAATACCACTGGT
*** *
62285643 TTACAAAATTACTGAAATACCC
1 TTGTGAAATTACCGAAATACCC
62285665 TTGGTTTGTA
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
108 6 0.06
109 67 0.61
110 36 0.33
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (110 bp):
TTGTGAAATTACCGAAATACCCCAATAGGATAAAATTACCAAAACACCCCTAGTTTACAAAATTA
CAAAAATACCCCTAGCTTTCTAAAAGTTATAGAAATACCACTGGT
Found at i:62285662 original size:27 final size:27
Alignment explanation
Indices: 62285564--62285671 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
62285554 TTCAATTTGT
** * *
62285564 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
** *
62285591 AAAATTACAAAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
62285618 TAAAAGTTA-TAGAAATACCATTGGTTTAC
1 -AAAA-TTACT-GAAATACCCTTGGTTTAC
62285647 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
62285672 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 38 0.57
28 15 0.22
29 14 0.21
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:62285684 original size:110 final size:109
Alignment explanation
Indices: 62285454--62285691 Score: 259
Period size: 110 Copynumber: 2.2 Consensus size: 109
62285444 CCCTATAGGA
* * * *
62285454 TAGAATTACCAAAACACCCCTAGTTTATAAAATTACCAAAATACCCCTAGTTTTGTAAAATTACT
1 TAGAATTACCAAAACACCCCTAGTTTACAAAATTACAAAAATACCCCTAGCTTTCTAAAATTACT
* ***
62285519 GAAATGCCACTGGTTTGTGAAATTACCGAAATACCTTCAATTTG
66 GAAATACCACTGGTTTACAAAATTACCGAAATACCTTCAATTTG
* * *
62285563 TAAAATTACCAAAATACCCCT-GATTTACAAAATTACAAAAATA-CCCTTGACTTTCTAAAAGTT
1 TAGAATTACCAAAACACCCCTAG-TTTACAAAATTACAAAAATACCCCTAG-CTTTCTAAAA-TT
* * **
62285626 A-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTT-GGTTTG
63 ACT-GAAATACCACTGGTTTACAAAATTACCGAAATA-CCTTCAATTTG
*
62285673 TAGATTTACCAAAACACCC
1 TAGAATTACCAAAACACCC
62285692 TTGTAGGATG
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
108 6 0.06
109 46 0.43
110 50 0.47
111 4 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (109 bp):
TAGAATTACCAAAACACCCCTAGTTTACAAAATTACAAAAATACCCCTAGCTTTCTAAAATTACT
GAAATACCACTGGTTTACAAAATTACCGAAATACCTTCAATTTG
Found at i:62285755 original size:27 final size:27
Alignment explanation
Indices: 62285712--62285785 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
62285702 AAATGACTAA
*
62285712 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
62285739 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
62285766 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
62285786 TAACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:62286632 original size:25 final size:25
Alignment explanation
Indices: 62286599--62286665 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
62286589 AGGAAGTGCT
*
62286599 AAAAGGGCTCTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
62286624 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
62286649 GAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
62286666 ATTATTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:62286681 original size:24 final size:24
Alignment explanation
Indices: 62286599--62286681 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
62286589 AGGAAGTGCT
* * *
62286599 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGATTATC
*
62286623 AAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGATTATC
*
62286648 AGAAAGGGCTTTGCCCCA-ATTATT
1 A-AAAGGGCTTTGCCCCAGATTATC
62286672 AAAAGAGGCT
1 AAAAG-GGCT
62286682 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGATTATC
Found at i:62286915 original size:31 final size:31
Alignment explanation
Indices: 62286880--62286963 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
62286870 CATTTACAGT
62286880 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
62286911 AAAGGCTTCGGCCCAGTGGTATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
62286942 AAAGGCTTCGACCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
62286964 TCAAGACTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:62289260 original size:27 final size:27
Alignment explanation
Indices: 62289230--62289454 Score: 272
Period size: 27 Copynumber: 8.3 Consensus size: 27
62289220 TACTGAAATG
** *
62289230 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
62289257 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
62289284 CCCTCGATTTACAAAATTATCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
*
62289311 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
62289338 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
62289365 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
62289392 CCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
62289419 TCCTC-AGTTTATAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
62289446 CCCTCGATT
1 CCCTCGATT
62289455 GTGAAATTAC
Statistics
Matches: 177, Mismatches: 19, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 175 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:62289345 original size:81 final size:81
Alignment explanation
Indices: 62289230--62289454 Score: 317
Period size: 81 Copynumber: 2.8 Consensus size: 81
62289220 TACTGAAATG
** * *
62289230 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
* *
62289295 CAAAATTATCGTTTCA
66 CAAAATTACCATTTCA
* *
62289311 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
* *
62289376 CAGAATTACCATTTTA
66 CAAAATTACCATTTCA
* * *
62289392 CCCTTGATTTACAAAATTACCATTTTATCCTC-AGTTTATAAAATTACCGTTTTACCCTCGATT
1 CCCTCGATTTACAAAATTACCATTTTACCCTCGA-TTTATAGAATTACCGTTTTACCCTCGATT
62289455 GTGAAATTAC
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
80 1 0.01
81 127 0.99
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
CAAAATTACCATTTCA
Found at i:62289476 original size:27 final size:26
Alignment explanation
Indices: 62289446--62289636 Score: 122
Period size: 27 Copynumber: 7.1 Consensus size: 26
62289436 TACCGTTTTA
* **
62289446 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
62289473 CCCTG-TAGGATAGAATTACCAAAATAC
1 CCCTGAT-TG-TAAAATTACCAAAATAC
*
62289500 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
**
62289527 CCCT-ATTTTGTAAAATTACTGAAATAC
1 CCCTGA--TTGTAAAATTACCAAAATAC
* * * *
62289554 CACTGGCTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTAAAATTACCAAAATAC
*
62289580 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCAAAATAC
62289608 CCCTGATT-TACAAAATTA-CAGAAATAC
1 CCCTGATTGT--AAAATTACCA-AAATAC
62289635 CC
1 CC
62289637 TTGACTTTCT
Statistics
Matches: 130, Mismatches: 21, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
25 2 0.02
26 9 0.07
27 112 0.86
28 6 0.05
29 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:62289573 original size:81 final size:81
Alignment explanation
Indices: 62289486--62289635 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
62289476 TGTAGGATAG
* ** *
62289486 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCT-ATTTTGTAAAATTACTGA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACAGA
62289549 AATACCACTGGCTTGTGA
64 AATACCACTGGCTTGTGA
*
62289567 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
62289632 TACC
66 TACC
62289636 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
81 60 0.97
82 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
TACCACTGGCTTGTGA
Found at i:62289637 original size:54 final size:55
Alignment explanation
Indices: 62289486--62289637 Score: 168
Period size: 54 Copynumber: 2.8 Consensus size: 55
62289476 TGTAGGATAG
*
62289486 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCA-AAATACCC-CTATTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTA-CAGAAATACCCTCTAATTTGTAA
** * ** * *
62289540 AATTACTGAAATACCACTGGCTTGTGAAATTACCGAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACAGAAATACCCTCTAATTTGTAA
**
62289594 AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCT
1 AATTACCAAAATACCCCTGATTTGTAAAATTACAGAAATACCCT
62289638 TGACTTTCTA
Statistics
Matches: 78, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
53 1 0.01
54 76 0.97
55 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (55 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACAGAAATACCCTCTAATTTGTAA
Found at i:62289699 original size:27 final size:27
Alignment explanation
Indices: 62289614--62289699 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
62289604 ATACCCCTGA
* * *
62289614 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCATTG-G
*
62289642 TTT-CTAAAAATTA-TAGAAATACCATTAG
1 TTTAC--AAAATTACT-GAAATACCATTGG
*
62289670 TTTACAAAATTACTGAAATACCTTTGG
1 TTTACAAAATTACTGAAATACCATTGG
62289697 TTT
1 TTT
62289700 CTAGCTTTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
27 22 0.47
28 7 0.15
29 18 0.38
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:62289783 original size:27 final size:27
Alignment explanation
Indices: 62289740--62289813 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
62289730 AAATGACTAA
*
62289740 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
62289767 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
62289794 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
62289814 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:62289817 original size:27 final size:27
Alignment explanation
Indices: 62289753--62289817 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
62289743 ACCCCTAATA
*
62289753 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
62289780 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
62289807 GGTAAAATGAC
1 GGTAAAATGAC
62289818 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:62290679 original size:25 final size:24
Alignment explanation
Indices: 62290627--62290695 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
62290617 AGGAAGTGCT
* *
62290627 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCT-TTCCCCAGTTTACAG
62290652 AAAAGGGCTTTCCCCAGTTTATCAG
1 AAAAGGGCTTTCCCCAGTTTA-CAG
62290677 -AAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTT-CCCCAGTT
62290696 GTTAAAAGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 21 0.52
25 19 0.47
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTCCCCAGTTTACAG
Found at i:62290902 original size:42 final size:42
Alignment explanation
Indices: 62290843--62290976 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
62290833 TAGTCTCCCT
62290843 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
62290885 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* * *
62290927 AATTGGGCTTGCATACATCCATTGACATTACATGTGATTTTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
62290969 AAATGGGC
1 AAATGGGC
62290977 CTAAGGGCCA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:62291035 original size:31 final size:31
Alignment explanation
Indices: 62291000--62291114 Score: 169
Period size: 31 Copynumber: 3.7 Consensus size: 31
62290990 CGTTTACAGT
*
62291000 AAAGGCTTCGGCCCAGTGATGTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
62291031 AAAGGTTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
62291062 AAAGGCTTCGGCCCAGTGGTATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
62291093 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
62291115 TCAAGACTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 4 0.05
31 71 0.95
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:62295011 original size:40 final size:39
Alignment explanation
Indices: 62294947--62295318 Score: 440
Period size: 40 Copynumber: 9.3 Consensus size: 39
62294937 TCTTCGAAAT
* *
62294947 TTAG-CCGGATATAACTACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
*
62294986 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
62295026 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
62295066 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
62295106 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
62295146 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
62295186 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
62295226 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
62295266 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
*
62295306 TTAACCCGGATAT
1 TTAGCCCGGATAT
62295319 CATTCAAATG
Statistics
Matches: 280, Mismatches: 45, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
39 14 0.05
40 253 0.90
41 13 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:62295074 original size:80 final size:80
Alignment explanation
Indices: 62294966--62295314 Score: 662
Period size: 80 Copynumber: 4.4 Consensus size: 80
62294956 TATAACTACA
* * * *
62294966 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
62295031 CCGGATAAAATCACT
66 CCGGATAAAATCACT
62295046 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
62295111 CCGGATAAAATCACT
66 CCGGATAAAATCACT
62295126 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
62295191 CCGGATAAAATCACT
66 CCGGATAAAATCACT
62295206 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
62295271 CCGGATAAAATCACT
66 CCGGATAAAATCACT
62295286 AGCACAATTGCCTTCGGGTCTTAACCCGG
1 AGCACAATTGCCTTCGGGTCTTAACCCGG
62295315 ATATCATTCA
Statistics
Matches: 265, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 265 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATAAAATCACT
Found at i:62299380 original size:56 final size:54
Alignment explanation
Indices: 62299313--62299468 Score: 188
Period size: 56 Copynumber: 2.8 Consensus size: 54
62299303 ACATAGCACA
* *
62299313 CCTCTCAACAGGGCTACATATGAGCACCCGGACCTAGCATGCATCAC-ATTACCATG
1 CCTCTCAACAGGGCTACATA--AGCTCCCGGACCTAGCATGTATCACAATTA-CATG
** *
62299369 CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGGGTGTACCACATAATTACATG
1 CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTATCAC--AATTACATG
* * *
62299425 CCTCTCAACGGGGCTACACAAGCTCCCGGACCTAACATGTATCA
1 CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTATCA
62299469 TGTCATCAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
54 20 0.23
56 62 0.72
57 4 0.05
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (54 bp):
CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTATCACAATTACATG
Found at i:62307853 original size:39 final size:39
Alignment explanation
Indices: 62307809--62307961 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
62307799 GTGCTGAGAT
* * *
62307809 TGTATCCGGGTTAGAGTCTCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
*
62307848 TGTATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
*
62307887 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTAGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
* * *
62307926 TGTGTCCGGGCTAAAGACCAGCAGGCTTCGTGCTGG
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
62307962 TGCTGGTAAT
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 104 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
Found at i:62314730 original size:3 final size:3
Alignment explanation
Indices: 62314722--62314806 Score: 170
Period size: 3 Copynumber: 28.3 Consensus size: 3
62314712 AGTGTACTTN
62314722 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
62314770 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
62314807 TTATTATTAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:62314811 original size:3 final size:3
Alignment explanation
Indices: 62314805--62314874 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
62314795 ATAATAATAA
62314805 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62314853 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
62314875 TTAGATGAAG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:62317434 original size:13 final size:14
Alignment explanation
Indices: 62317398--62317435 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
62317388 TTCTTTAAAC
*
62317398 TTTCATCTCTTTTT
1 TTTCATCTCTTTTG
62317412 TTTCATTCTCTTTTG
1 TTTCA-TCTCTTTTG
62317427 TTTC-TCTCT
1 TTTCATCTCT
62317436 CTGTTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 5 0.23
14 5 0.23
15 12 0.55
ACGTcount: A:0.05, C:0.24, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTCATCTCTTTTG
Found at i:62319155 original size:17 final size:18
Alignment explanation
Indices: 62319133--62319168 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
62319123 CCATCCCAAA
*
62319133 TCCTTTTTTTTC-TCTTC
1 TCCTTTTTTGTCTTCTTC
62319150 TCCTTTTTTGTCTTCTTC
1 TCCTTTTTTGTCTTCTTC
62319168 T
1 T
62319169 TTTTCTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (18 bp):
TCCTTTTTTGTCTTCTTC
Found at i:62319171 original size:14 final size:15
Alignment explanation
Indices: 62319138--62319172 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
62319128 CCAAATCCTT
62319138 TTTTTTCTCTTCTCC
1 TTTTTTCTCTTCTCC
* *
62319153 TTTTTTGTCTTCTTC
1 TTTTTTCTCTTCTCC
62319168 TTTTT
1 TTTTT
62319173 CTTCTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTTTCTCTTCTCC
Found at i:62339374 original size:49 final size:49
Alignment explanation
Indices: 62339166--62339397 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
62339156 CTAGTATGCA
* **
62339166 TAGTAGCCTACACTTAGTACTACACGTGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * * * * *
62339215 TAGTAGCCTGCACTTAGTACTAAACACGTGACTTAATCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGAC-CAATTATCCGGTACACG
* * * * * *
62339265 TAGTAGCCTACACTTAGTACTACAAACGTGATCAAAGTTATCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
*
62339316 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
62339365 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
62339398 TCACAATAGA
Statistics
Matches: 154, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 70 0.45
50 46 0.30
51 38 0.25
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:62344472 original size:42 final size:43
Alignment explanation
Indices: 62344342--62344579 Score: 188
Period size: 43 Copynumber: 5.7 Consensus size: 43
62344332 GACATCTGTC
* * * *
62344342 TGAGATATCGTGTAAGACCGTGTCTGAGACACAAGC--C---T
1 TGAGATTTCGTGTAAGACCATGTCTGGGACATAAGCATCGTAT
* * * **
62344380 TGAGATTTACGTATAAGACCATGTATGGCACATCGGCATCGTAT
1 TGAGATTT-CGTGTAAGACCATGTCTGGGACATAAGCATCGTAT
* * *
62344424 T-TGATTTCGTGTAAGACCGTGTCTGGGACATAAGCCTCG-AT
1 TGAGATTTCGTGTAAGACCATGTCTGGGACATAAGCATCGTAT
**
62344465 TGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTAT
1 TGAGATTT-CGTGTAAGACCATGTCTGGGACATAAGCATCGTAT
* * * * *
62344509 T-TGATTTCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATAT
1 TGAGATTTCGTGTAAGACCATGTCTGGGACATAAGCATCG-TAT
* * *
62344552 TGA-ATTACATGTAAGACCATGTCCGGGA
1 TGAGATTTCGTGTAAGACCATGTCTGGGA
62344580 TGTCGGTATT
Statistics
Matches: 157, Mismatches: 32, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
38 7 0.04
39 20 0.13
41 4 0.03
42 58 0.37
43 63 0.40
44 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
TGAGATTTCGTGTAAGACCATGTCTGGGACATAAGCATCGTAT
Found at i:62344490 original size:43 final size:43
Alignment explanation
Indices: 62344379--62344579 Score: 203
Period size: 43 Copynumber: 4.7 Consensus size: 43
62344369 GACACAAGCC
* * * *
62344379 TTGAGATTTACGTATAAGACCATGTATGGCACATCGGCATCGTA
1 TTGAGATTT-CGTGTAAGACCATGTCTGGGACATAGGCATCGTA
* * * *
62344423 TT-TGATTTCGTGTAAGACCGTGTCTGGGACATAAGCCTCG-A
1 TTGAGATTTCGTGTAAGACCATGTCTGGGACATAGGCATCGTA
*
62344464 TTGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTA
1 TTGAGATTT-CGTGTAAGACCATGTCTGGGACATAGGCATCGTA
* * * *
62344508 TT-TGATTTCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATA
1 TTGAGATTTCGTGTAAGACCATGTCTGGGACATAGGCATCG-TA
* * *
62344551 TTGA-ATTACATGTAAGACCATGTCCGGGA
1 TTGAGATTTCGTGTAAGACCATGTCTGGGA
62344580 TGTCGGTATT
Statistics
Matches: 129, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
41 3 0.02
42 58 0.45
43 63 0.49
44 5 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TTGAGATTTCGTGTAAGACCATGTCTGGGACATAGGCATCGTA
Found at i:62344498 original size:85 final size:85
Alignment explanation
Indices: 62344349--62344579 Score: 294
Period size: 85 Copynumber: 2.8 Consensus size: 85
62344339 GTCTGAGATA
* * * *
62344349 TCGTGTAAGACCGTGTCTGAGACACAAG-C-C--TTGAGATTTACGTATAAGACCATGTATGGCA
1 TCGTGTAAGACCGTGTCTGGGACACAAGCCTCGATTGAGATTTACGTGTAAGACCATGTCTGGGA
62344410 CATCGGCATCGTATTTGATT
66 CATCGGCATCGTATTTGATT
*
62344430 TCGTGTAAGACCGTGTCTGGGACATAAGCCTCGATTGAGATTTACGTGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCGTGTCTGGGACACAAGCCTCGATTGAGATTTACGTGTAAGACCATGTCTGGGA
62344495 CATCGGCATCGTATTTGATT
66 CATCGGCATCGTATTTGATT
* * * * * * *
62344515 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGA-A-TTACATGTAAGACCATGTCCGG
1 TCGTGTAAGACCGTGTCTGGGACACAAGCCTCG--ATTGAGATTTACGTGTAAGACCATGTCTGG
62344578 GA
64 GA
62344580 TGTCGGTATT
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
81 26 0.20
82 1 0.01
83 1 0.01
85 98 0.74
86 1 0.01
87 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (85 bp):
TCGTGTAAGACCGTGTCTGGGACACAAGCCTCGATTGAGATTTACGTGTAAGACCATGTCTGGGA
CATCGGCATCGTATTTGATT
Found at i:62344580 original size:43 final size:42
Alignment explanation
Indices: 62344386--62344580 Score: 160
Period size: 42 Copynumber: 4.6 Consensus size: 42
62344376 GCCTTGAGAT
* * * * **
62344386 TTACGTATAAGACCATGTATGGCACATCGGCATCGTATTTGA
1 TTACGTGTAAGACCATGTCTGGGATAGAGGCATCGTATTTGA
* * * * * * *
62344428 TTTCGTGTAAGACCGTGTCTGGGACATAAGCCTCG-ATTGAGA
1 TTACGTGTAAGACCATGTCTGGGATAGAGGCATCGTATT-TGA
* **
62344470 TTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGA
1 -TTACGTGTAAGACCATGTCTGGGATAGAGGCATCGTATTTGA
* *
62344513 TTTCGTGTAAGACCCTGTCTGGGATAGAGGCATCG-ATATTGAA
1 TTACGTGTAAGACCATGTCTGGGATAGAGGCATCGTAT-TTG-A
* *
62344556 TTACATGTAAGACCATGTCCGGGAT
1 TTACGTGTAAGACCATGTCTGGGAT
62344581 GTCGGTATTG
Statistics
Matches: 124, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
41 5 0.04
42 62 0.50
43 54 0.44
44 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGATAGAGGCATCGTATTTGA
Found at i:62353007 original size:26 final size:25
Alignment explanation
Indices: 62352957--62353010 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
62352947 TTTTTAAATC
*
62352957 ATAAAAGTAAAAAAAAATTCCTTAAA
1 ATAAAAGTAAAAAAAAAAT-CTTAAA
62352983 ATAAAAGTAAAAGAATAAAAT-TTAAA
1 ATAAAAGTAAAA-AA-AAAATCTTAAA
62353009 AT
1 AT
62353011 CACTAAGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 19 0.76
27 2 0.08
28 4 0.16
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (25 bp):
ATAAAAGTAAAAAAAAAATCTTAAA
Found at i:62357683 original size:24 final size:25
Alignment explanation
Indices: 62357618--62357710 Score: 98
Period size: 25 Copynumber: 3.7 Consensus size: 25
62357608 CTCGTGTGAG
**
62357618 CATATAAACGGGAAGCTCATTTGAGC
1 CATAT-AACGGGAAGCTCATAAGAGC
*
62357644 TATATAACGGGAAGCTCATAAGAGC
1 CATATAACGGGAAGCTCATAAGAGC
* * *
62357669 CATA-ATCGGGAAGCTCGTGAGAGC
1 CATATAACGGGAAGCTCATAAGAGC
* *
62357693 CATATATCAGGAAGCTCA
1 CATATAACGGGAAGCTCA
62357711 AGAGATCCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
24 21 0.37
25 32 0.56
26 4 0.07
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (25 bp):
CATATAACGGGAAGCTCATAAGAGC
Found at i:62357727 original size:23 final size:25
Alignment explanation
Indices: 62357653--62357741 Score: 78
Period size: 24 Copynumber: 3.6 Consensus size: 25
62357643 CTATATAACG
*
62357653 GGAAGCTCATA-AGAGCCATA-ATCG
1 GGAAGCTCA-AGAGAGCCATATATCA
**
62357677 GGAAGCTCGTGAGAGCCATATATCA
1 GGAAGCTCAAGAGAGCCATATATCA
*
62357702 GGAAGCTCAAGAGATCCA-ATAT-A
1 GGAAGCTCAAGAGAGCCATATATCA
* *
62357725 GGAGTGCTCATGAGAGC
1 GGA-AGCTCAAGAGAGC
62357742 TAATAAAGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
23 4 0.08
24 31 0.58
25 18 0.34
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (25 bp):
GGAAGCTCAAGAGAGCCATATATCA
Found at i:62362521 original size:26 final size:26
Alignment explanation
Indices: 62362491--62362546 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
62362481 TGAAATTCCC
62362491 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
62362517 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
62362543 ATCA
1 ATCA
62362547 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:62362674 original size:67 final size:67
Alignment explanation
Indices: 62362596--62362721 Score: 243
Period size: 67 Copynumber: 1.9 Consensus size: 67
62362586 GCTCATATTG
*
62362596 TCTACAACAACATGATGGCTGGCCACTTCATGTAAAATGGGAGGTTTGTCATGCAAATCACATTT
1 TCTACAACAACACGATGGCTGGCCACTTCATGTAAAATGGGAGGTTTGTCATGCAAATCACATTT
62362661 TT
66 TT
62362663 TCTACAACAACACGATGGCTGGCCACTTCATGTAAAATGGGAGGTTTGTCATGCAAATC
1 TCTACAACAACACGATGGCTGGCCACTTCATGTAAAATGGGAGGTTTGTCATGCAAATC
62362722 CTCCTATTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (67 bp):
TCTACAACAACACGATGGCTGGCCACTTCATGTAAAATGGGAGGTTTGTCATGCAAATCACATTT
TT
Found at i:62362989 original size:71 final size:71
Alignment explanation
Indices: 62362872--62363010 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 71
62362862 TATCTTAAGC
*
62362872 TTGGGCCTTCTAGAAACCCACTAACATAATTAAACCTATGCAAACATTCACAAAATTCTCGAAAA
1 TTGGGCCTTCTAGAAACCCACTAACATAATTAAACCTATGCAAACATTCACAAAATTCCCGAAAA
62362937 TTGGGG
66 TTGGGG
* *
62362943 TTGGGCCTTCTAGAAACCCACTAACATAATTAAACCTATGCCAACATTCACAGAATTCCCGAAAA
1 TTGGGCCTTCTAGAAACCCACTAACATAATTAAACCTATGCAAACATTCACAAAATTCCCGAAAA
62363008 TTG
66 TTG
62363011 AGGCGTTGCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.25
Consensus pattern (71 bp):
TTGGGCCTTCTAGAAACCCACTAACATAATTAAACCTATGCAAACATTCACAAAATTCCCGAAAA
TTGGGG
Found at i:62363122 original size:22 final size:23
Alignment explanation
Indices: 62363097--62363148 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
62363087 CAGGTTAATG
* *
62363097 ACACGGGCA-TGTCACATCAGTC
1 ACACGGGCAGTGTCACATAAGCC
62363119 ACACGGG-AGTGTCACATAAGCC
1 ACACGGGCAGTGTCACATAAGCC
62363141 ACACGGGC
1 ACACGGGC
62363149 GTATGGTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (23 bp):
ACACGGGCAGTGTCACATAAGCC
Found at i:62365722 original size:50 final size:50
Alignment explanation
Indices: 62365668--62365767 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
62365658 CGGGATATTA
62365668 TCAGCTAAAGGGAAAAGAGAGTGATGTACCGAAGACAACATTCTGTACAC
1 TCAGCTAAAGGGAAAAGAGAGTGATGTACCGAAGACAACATTCTGTACAC
*
62365718 TCAGCTAAAGGTAAAAGAGAGTGATGTACCGAAGACAACATTCTGTACAC
1 TCAGCTAAAGGGAAAAGAGAGTGATGTACCGAAGACAACATTCTGTACAC
62365768 AGTATGGACA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (50 bp):
TCAGCTAAAGGGAAAAGAGAGTGATGTACCGAAGACAACATTCTGTACAC
Found at i:62368921 original size:68 final size:68
Alignment explanation
Indices: 62368836--62368969 Score: 241
Period size: 68 Copynumber: 2.0 Consensus size: 68
62368826 CGTAAGTCCA
*
62368836 AAAATCTCGTTTGAACTTAGGAATAGATAAGGATACAAGTGACATGTCACTAGGATAGCTATGTA
1 AAAATCCCGTTTGAACTTAGGAATAGATAAGGATACAAGTGACATGTCACTAGGATAGCTATGTA
62368901 AAG
66 AAG
* *
62368904 AAAATCCCGTTTGAACTTAGGAATAGGTAAGGATACAAGTGGCATGTCACTAGGATAGCTATGTA
1 AAAATCCCGTTTGAACTTAGGAATAGATAAGGATACAAGTGACATGTCACTAGGATAGCTATGTA
62368969 A
66 A
62368970 GTATGAGCTC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (68 bp):
AAAATCCCGTTTGAACTTAGGAATAGATAAGGATACAAGTGACATGTCACTAGGATAGCTATGTA
AAG
Found at i:62368970 original size:36 final size:36
Alignment explanation
Indices: 62368863--62368970 Score: 84
Period size: 36 Copynumber: 3.1 Consensus size: 36
62368853 TAGGAATAGA
62368863 TAAGGATACAAGTGACATGTCACTAGGATAGCTATG
1 TAAGGATACAAGTGACATGTCACTAGGATAGCTATG
* ** * * * *
62368899 TAAAGA-A-AA-TCCCGTTTGAACTTAGGA-A--TAGG
1 TAAGGATACAAGTGACATGT-CAC-TAGGATAGCTATG
*
62368931 TAAGGATACAAGTGGCATGTCACTAGGATAGCTATG
1 TAAGGATACAAGTGACATGTCACTAGGATAGCTATG
62368967 TAAG
1 TAAG
62368971 TATGAGCTCG
Statistics
Matches: 50, Mismatches: 14, Indels: 16
0.62 0.17 0.20
Matches are distributed among these distances:
32 8 0.16
33 10 0.20
34 10 0.20
35 10 0.20
36 12 0.24
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (36 bp):
TAAGGATACAAGTGACATGTCACTAGGATAGCTATG
Found at i:62369131 original size:56 final size:55
Alignment explanation
Indices: 62368991--62369148 Score: 169
Period size: 56 Copynumber: 2.8 Consensus size: 55
62368981 TTTGATGAAA
* *
62368991 TGATACATGCTAGGTCC-GGTAGCTTGTGTAGCCCTATTGAGAGGCATGTAATTATG
1 TGATACATGCTAGGTCCGGGT-GCTTATGTAGCCCTATTGAGAGGCAGGTAA-TATG
* * * **
62369047 TGGTACATGCTACGTCTGGAAGCTTATGTAGCCCTATTGAGAGGCACGGT-A-ATG
1 TGATACATGCTAGGTCCGGGTGCTTATGTAGCCCTATTGAGAGGCA-GGTAATATG
* *
62369101 TGATGCATGCTAGGTCCGGGTGCTCATATGTAGCCCTGTTGAGAGGCA
1 TGATACATGCTAGGTCCGGGTGCT--TATGTAGCCCTATTGAGAGGCA
62369149 TGCTATGTCA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
54 21 0.25
56 60 0.71
57 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (55 bp):
TGATACATGCTAGGTCCGGGTGCTTATGTAGCCCTATTGAGAGGCAGGTAATATG
Found at i:62369334 original size:69 final size:68
Alignment explanation
Indices: 62369222--62369358 Score: 220
Period size: 69 Copynumber: 2.0 Consensus size: 68
62369212 ATGTTCAGCA
* * *
62369222 GGTAATGTATACGAGGTTCGAACGTAAGCTAAGTAAAATGCATATGTGTACAGGGGAGCAAAGGT
1 GGTAATGTATACGAGGTTCCAACGTAAACTAAGTAAAAAGCATATGTGTACAGGGGAGCAAAGGT
62369287 ATG
66 ATG
* *
62369290 NGGTAATGTATATGAGGTTCCAACGTAAACTAAGTAAAAAGCATATGTGTATAGGGGAGCAAAGG
1 -GGTAATGTATACGAGGTTCCAACGTAAACTAAGTAAAAAGCATATGTGTACAGGGGAGCAAAGG
62369355 TATG
65 TATG
62369359 TGTTTAATCT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.24
Consensus pattern (68 bp):
GGTAATGTATACGAGGTTCCAACGTAAACTAAGTAAAAAGCATATGTGTACAGGGGAGCAAAGGT
ATG
Found at i:62372285 original size:59 final size:59
Alignment explanation
Indices: 62372204--62372322 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
62372194 TATTTTGGGT
62372204 ATGGACTGGTTGATCTTCATGGTGCTATAGTGGACTGTAGACGGAAAGTTATTGAAATA
1 ATGGACTGGTTGATCTTCATGGTGCTATAGTGGACTGTAGACGGAAAGTTATTGAAATA
*
62372263 ATGGACTGGTTGCTCTTCATGGTGCTATAGTGGACTGTAGACGGAAAGTTATTGAAATA
1 ATGGACTGGTTGATCTTCATGGTGCTATAGTGGACTGTAGACGGAAAGTTATTGAAATA
62372322 A
1 A
62372323 GACATGGAAG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (59 bp):
ATGGACTGGTTGATCTTCATGGTGCTATAGTGGACTGTAGACGGAAAGTTATTGAAATA
Found at i:62373031 original size:55 final size:55
Alignment explanation
Indices: 62372965--62373074 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
62372955 GTTTGGATTA
*
62372965 ACAAATGCTCCAGCCGTATTTATAGATTTAATGAATAGAATTTTTTGGCCTTATT
1 ACAAATCCTCCAGCCGTATTTATAGATTTAATGAATAGAATTTTTTGGCCTTATT
62373020 ACAAATCCTCCAGCCGTATTTATAGATTTAATGAATAGAATTTTTTGGCCTTATT
1 ACAAATCCTCCAGCCGTATTTATAGATTTAATGAATAGAATTTTTTGGCCTTATT
62373075 TGGATAAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (55 bp):
ACAAATCCTCCAGCCGTATTTATAGATTTAATGAATAGAATTTTTTGGCCTTATT
Found at i:62376350 original size:15 final size:15
Alignment explanation
Indices: 62376330--62376359 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62376320 CAATGTATGA
62376330 AGTTATGTAACGCCC
1 AGTTATGTAACGCCC
*
62376345 AGTTATGTAATGCCC
1 AGTTATGTAACGCCC
62376360 CAAATTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (15 bp):
AGTTATGTAACGCCC
Found at i:62376393 original size:7 final size:7
Alignment explanation
Indices: 62376381--62376406 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
62376371 CCTAGATGAA
62376381 TTGGGCT
1 TTGGGCT
62376388 TTGGGCT
1 TTGGGCT
62376395 TTGGGCT
1 TTGGGCT
62376402 TTGGG
1 TTGGG
62376407 TCTCATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.46, T:0.42
Consensus pattern (7 bp):
TTGGGCT
Found at i:62385395 original size:55 final size:55
Alignment explanation
Indices: 62385308--62385413 Score: 194
Period size: 55 Copynumber: 1.9 Consensus size: 55
62385298 ACTATGAACG
*
62385308 AAAGTTTGTAAGGCTTAGCCGGTACGCTCGAGAATGCATTTCTTCAGAAGCAACC
1 AAAGTTTGTAAGGCTTAGCCGGTACGCGCGAGAATGCATTTCTTCAGAAGCAACC
*
62385363 AAAGTTTGTAAGGCTTAGTCGGTACGCGCGAGAATGCATTTCTTCAGAAGC
1 AAAGTTTGTAAGGCTTAGCCGGTACGCGCGAGAATGCATTTCTTCAGAAGC
62385414 TGTGATGTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (55 bp):
AAAGTTTGTAAGGCTTAGCCGGTACGCGCGAGAATGCATTTCTTCAGAAGCAACC
Found at i:62388579 original size:83 final size:83
Alignment explanation
Indices: 62388436--62388596 Score: 268
Period size: 83 Copynumber: 1.9 Consensus size: 83
62388426 GCTCATTTCC
* *
62388436 TCCCCGTACGTACGGATTTTTCATTGGATAAACTAGCTGAATTGTACGTTTATCAAATTGTGAGA
1 TCCCCGTACGTACGGATTTTTCATTGGATAAACTAACTGAATTGTACGTTTATCAAATTGTAAGA
62388501 TTACACGGGGTACCTTTA
66 TTACACGGGGTACCTTTA
* * * *
62388519 TCCCCGTACGTATGGATTTTTCATTGGATAAACTAACTGAATTGTATGTTTCTCAGATTGTAAGA
1 TCCCCGTACGTACGGATTTTTCATTGGATAAACTAACTGAATTGTACGTTTATCAAATTGTAAGA
62388584 TTACACGGGGTAC
66 TTACACGGGGTAC
62388597 TTGGATAAAC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 72 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (83 bp):
TCCCCGTACGTACGGATTTTTCATTGGATAAACTAACTGAATTGTACGTTTATCAAATTGTAAGA
TTACACGGGGTACCTTTA
Found at i:62392153 original size:109 final size:109
Alignment explanation
Indices: 62391962--62392180 Score: 429
Period size: 109 Copynumber: 2.0 Consensus size: 109
62391952 CCCTACAAGG
62391962 ACCTCCAAAAGTGACTTAAAAATTTAGCATCTCGATCCAACACAATCGTACGGGGAATGCCATGG
1 ACCTCCAAAAGTGACTTAAAAATTTAGCATCTCGATCCAACACAATCGTACGGGGAATGCCATGG
62392027 AGTCTGACGATGTCCCTAAAAAACAAATTTGCAACATGAACAGC
66 AGTCTGACGATGTCCCTAAAAAACAAATTTGCAACATGAACAGC
*
62392071 ACCTCCAAAAGTGCCTTAAAAATTTAGCATCTCGATCCAACACAATCGTACGGGGAATGCCATGG
1 ACCTCCAAAAGTGACTTAAAAATTTAGCATCTCGATCCAACACAATCGTACGGGGAATGCCATGG
62392136 AGTCTGACGATGTCCCTAAAAAACAAATTTGCAACATGAACAGC
66 AGTCTGACGATGTCCCTAAAAAACAAATTTGCAACATGAACAGC
62392180 A
1 A
62392181 TCATCAGTCT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.21
Consensus pattern (109 bp):
ACCTCCAAAAGTGACTTAAAAATTTAGCATCTCGATCCAACACAATCGTACGGGGAATGCCATGG
AGTCTGACGATGTCCCTAAAAAACAAATTTGCAACATGAACAGC
Found at i:62393019 original size:58 final size:58
Alignment explanation
Indices: 62392929--62393043 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
62392919 CGTACATCTC
*
62392929 TTTATCATACACTGGGTAGTTGAGTACAGCTCTGCTGATTTTCTCGCTAAAATAAGCT
1 TTTATCATACACTGGATAGTTGAGTACAGCTCTGCTGATTTTCTCGCTAAAATAAGCT
62392987 TTTATCATACACTGGATAGTTGAGTACAGCTCTGCTGATTTTCTCGCTAAAATAAGC
1 TTTATCATACACTGGATAGTTGAGTACAGCTCTGCTGATTTTCTCGCTAAAATAAGC
62393044 CACAGGGCGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (58 bp):
TTTATCATACACTGGATAGTTGAGTACAGCTCTGCTGATTTTCTCGCTAAAATAAGCT
Found at i:62400154 original size:6 final size:6
Alignment explanation
Indices: 62400143--62400174 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
62400133 TCTGTACCTG
62400143 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
62400175 CCTTACGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:62400180 original size:18 final size:18
Alignment explanation
Indices: 62400143--62400180 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
62400133 TCTGTACCTG
**
62400143 ACTGTTACTGTTACTGTT
1 ACTGTTACTGTTACCCTT
62400161 ACTGTTACTGTTACCCTT
1 ACTGTTACTGTTACCCTT
62400179 AC
1 AC
62400181 GGTGTATTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (18 bp):
ACTGTTACTGTTACCCTT
Found at i:62404383 original size:22 final size:22
Alignment explanation
Indices: 62404358--62404405 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
62404348 TGGCATGGGT
* *
62404358 GTGTCACATTATCCACACGGGC
1 GTGTCACATCAGCCACACGGGC
62404380 GTGTCACATCAGCCACACGGGC
1 GTGTCACATCAGCCACACGGGC
62404402 GTGT
1 GTGT
62404406 GGTACTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.31, G:0.27, T:0.21
Consensus pattern (22 bp):
GTGTCACATCAGCCACACGGGC
Found at i:62406897 original size:79 final size:78
Alignment explanation
Indices: 62406795--62407017 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
62406785 GCTCCTCGTT
* *
62406795 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
62406860 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
62406875 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
62406938 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
62406953 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
62407016 GA
63 GA
62407018 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:62406912 original size:39 final size:40
Alignment explanation
Indices: 62406795--62407017 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
62406785 GCTCCTCGTT
* *
62406795 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
62406835 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62406875 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62406914 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
62406953 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
62406994 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62407018 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:62414816 original size:40 final size:40
Alignment explanation
Indices: 62414772--62415033 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
62414762 GCTCCTCGTT
* *
62414772 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
62414812 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62414852 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62414891 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62414930 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
62414969 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
62415010 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62415034 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:62423281 original size:12 final size:12
Alignment explanation
Indices: 62423264--62423295 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
62423254 ACTATACCTC
62423264 ATTTGATTTCTA
1 ATTTGATTTCTA
62423276 ATTTGATTTCTA
1 ATTTGATTTCTA
62423288 ATTTGATT
1 ATTTGATT
62423296 GATCCAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.06, G:0.09, T:0.59
Consensus pattern (12 bp):
ATTTGATTTCTA
Found at i:62423365 original size:15 final size:15
Alignment explanation
Indices: 62423345--62423373 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62423335 TATATTCTAA
62423345 CTATGATTAAAATAG
1 CTATGATTAAAATAG
62423360 CTATGATTAAAATA
1 CTATGATTAAAATA
62423374 ATAAGAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (15 bp):
CTATGATTAAAATAG
Found at i:62432277 original size:40 final size:40
Alignment explanation
Indices: 62432177--62432348 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
62432167 GCTCCTCGTT
* * *
62432177 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
62432217 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
62432256 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
62432296 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
62432336 CAAATGCCTTCGG
1 CAAATGCCTTCGG
62432349 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:62436416 original size:3 final size:3
Alignment explanation
Indices: 62436394--62436456 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
62436384 CAAACCTTAG
* * *
62436394 ATT ATT CATT ATT TTT ATT ATT ATT CA-T ATT ATT CTC ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
* *
62436440 AGT ATT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT AT
62436457 ATCCCATTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
2 1 0.02
3 42 0.89
4 4 0.09
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:62438794 original size:44 final size:43
Alignment explanation
Indices: 62438740--62438945 Score: 181
Period size: 44 Copynumber: 4.8 Consensus size: 43
62438730 CTAATATGTG
* *
62438740 TTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATGA
1 TTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGA-TTATGA
* * * * *
62438784 TTTTCATGTAAGACCACATCCGGAATGTTGGCATTGACTTATGA
1 TTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGA-TTATGA
* * * *
62438828 TTTACGTGTAAGACCACGTCCGGAACGTTGGCATCGTATT-TGA
1 TTTTCATGTAAGACCACGTCTGGGACGTTGGCATCG-ATTATGA
* *
62438871 -TTTCATGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGA
1 TTTTCATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TATGA
* *
62438914 --TTAATGTAAGACCACGTTTGGGACGTTGGCAT
1 TTTTCATGTAAGACCACGTCTGGGACGTTGGCAT
62438946 TGTACGAGCT
Statistics
Matches: 136, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
41 4 0.03
42 53 0.39
43 8 0.06
44 70 0.51
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATTATGA
Found at i:62440581 original size:24 final size:24
Alignment explanation
Indices: 62440530--62440577 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
62440520 AATAAAATGT
**
62440530 ATAATAATATAAATAATATAACGA
1 ATAATAATATAAATAATATAAAAA
*
62440554 ATAATTATATAAATAA-ATAAAAA
1 ATAATAATATAAATAATATAAAAA
62440577 A
1 A
62440578 ATAAGATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
ATAATAATATAAATAATATAAAAA
Found at i:62442737 original size:44 final size:44
Alignment explanation
Indices: 62442192--62442736 Score: 768
Period size: 44 Copynumber: 12.4 Consensus size: 44
62442182 ACTCAAGAAC
* * * *
62442192 GCCAAATCTGTTATCTCCGATCTGCTCCCTGATAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
62442236 GCCAAATCTCCTATCTTTGATTTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
*
62442280 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
*
62442324 GCCAAATCTG-TGATCTTCGATCTGTTCTCTGACAATACAGAGAT
1 GCCAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
62442368 ACCAAATCTGCTATCTCCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
62442412 GCCAAATCTGCTATCTTTGATCTGCTCTGTGACAATACAGAGAA
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
62442456 GTCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
62442500 GCCAAATCTGCTATCTTCGATCTGCTTTCTGACAATATAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
62442544 GCCAAATTTGCTATCTTCGATCTGCTCTCTGATAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
62442588 GCCAAATTTGCTATCTTCTATCTGCTCTCTGACAATACAGATAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
62442632 GCCAAATTTTCTATCTTCGATCTACTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * * *
62442676 GCCAAATATGCTATCTTTGATCTGCTCTCTGATAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
62442720 ACCAAATATGCTATCTT
1 GCCAAATCTGCTATCTT
62442737 TAATCTACAT
Statistics
Matches: 448, Mismatches: 51, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
43 1 0.00
44 446 1.00
45 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
Found at i:62462404 original size:30 final size:30
Alignment explanation
Indices: 62462368--62462427 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
62462358 TTCCCGAGCC
*
62462368 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
62462398 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
62462428 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:62465205 original size:44 final size:43
Alignment explanation
Indices: 62465155--62465315 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 43
62465145 TATGTGTTTT
*
62465155 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATTGA-TTATGATTTA
* *
62465199 CGTGTAAGACCACGTCCGGGACATTGCCATTGTATT-TGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATTG-ATTATGATTTA
*
62465241 CGTGTAAGACC-CTGTCTGGGACAGTGGCATTGA-TAGTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATTGATTA--TGATTTA
* * * *
62465284 CATGTAAGACCACGTCTCGGACGTTGACATTG
1 CGTGTAAGACCACGTCTGGGACATTGGCATTG
62465316 TACGAGCTTT
Statistics
Matches: 99, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 29 0.29
43 34 0.34
44 32 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATTGATTATGATTTA
Found at i:62470642 original size:5 final size:5
Alignment explanation
Indices: 62470634--62470690 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
62470624 TTAAATTTTC
* * * *
62470634 TCGAA TCGAG TCGAG T-GAGA TGGAA TTCGAA TCGAA TTGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGA-A TCGAA T-CGAA TCGAA TCGAA TCGAA TCGAA
62470685 TCGAA T
1 TCGAA T
62470691 ATATTTGTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
4 2 0.05
5 36 0.82
6 6 0.14
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (5 bp):
TCGAA
Found at i:62482989 original size:31 final size:31
Alignment explanation
Indices: 62482954--62483133 Score: 245
Period size: 31 Copynumber: 5.8 Consensus size: 31
62482944 CTTGTCACTT
* *
62482954 GTAGCCGAAGCTACAACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
62482985 GTAGCTGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
62483016 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
62483047 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
62483078 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
62483109 GTAGCCGGAA-CTACCACTTTTCACT
1 GTAGCC-GAAGCTACCACTTTTCACT
62483134 TGTCATTTGT
Statistics
Matches: 134, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
31 132 0.99
32 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:62483072 original size:93 final size:93
Alignment explanation
Indices: 62482954--62483133 Score: 270
Period size: 93 Copynumber: 1.9 Consensus size: 93
62482944 CTTGTCACTT
* *** *
62482954 GTAGCCGAAGCTACAACTATTCACTGATCAGGTAGCTGGAGCTACCATTTTTCACTGATCAGGTA
1 GTAGCAGAAGCTACAACTATTCACTGATCAGGTAGCAAAAGCTACCACTTTTCACTGATCAGGTA
* * *
62483019 GTCGGAGCTACCATTTTTCACTGATCAG
66 GCCGGAACTACCACTTTTCACTGATCAG
* *
62483047 GTAGCAGAAGCTACCACTTTTCACTGATCAGGTAGCAAAAGCTACCACTTTTCACTGATCAGGTA
1 GTAGCAGAAGCTACAACTATTCACTGATCAGGTAGCAAAAGCTACCACTTTTCACTGATCAGGTA
62483112 GCCGGAACTACCACTTTTCACT
66 GCCGGAACTACCACTTTTCACT
62483134 TGTCATTTGT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (93 bp):
GTAGCAGAAGCTACAACTATTCACTGATCAGGTAGCAAAAGCTACCACTTTTCACTGATCAGGTA
GCCGGAACTACCACTTTTCACTGATCAG
Found at i:62483205 original size:50 final size:50
Alignment explanation
Indices: 62483124--62483935 Score: 1579
Period size: 50 Copynumber: 16.2 Consensus size: 50
62483114 CGGAACTACC
* * *
62483124 ACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTT-TCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483175 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483225 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483275 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483325 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483375 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483425 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483475 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483525 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483575 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483625 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483675 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483725 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483775 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483825 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
*
62483875 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATC
1 ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
62483925 ACTTATCACTT
1 ACTTATCACTT
62483936 ATTGCCGTGG
Statistics
Matches: 757, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
50 747 0.99
51 10 0.01
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (50 bp):
ACTTATCACTTTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATT
Found at i:62485009 original size:30 final size:30
Alignment explanation
Indices: 62484969--62485027 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
62484959 AATTCATACG
* *
62484969 ATTCAGTCCTTTCTCAATTAACCCCTCAAA
1 ATTCAATCCTTACTCAATTAACCCCTCAAA
62484999 ATTCAATCCTTACTCAATTAACCCCTCAA
1 ATTCAATCCTTACTCAATTAACCCCTCAA
62485028 TTAAGATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.34, G:0.02, T:0.32
Consensus pattern (30 bp):
ATTCAATCCTTACTCAATTAACCCCTCAAA
Found at i:62485045 original size:30 final size:29
Alignment explanation
Indices: 62484977--62485049 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 29
62484967 CGATTCAGTC
*
62484977 CTTTCTCAATTAACCCCTCAAAATTCAAT
1 CTTTCTCAATTAACCCCTCAAAAATCAAT
*
62485006 CCTTACTCAATTAACCCCTCAATTAAGAT-AAT
1 -CTTTCTCAATTAACCCCTCAA--AA-ATCAAT
62485038 -TTTCTCAATTAA
1 CTTTCTCAATTAA
62485050 TACTTTTCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 31 0.84
32 5 0.14
33 1 0.03
ACGTcount: A:0.36, C:0.27, G:0.01, T:0.36
Consensus pattern (29 bp):
CTTTCTCAATTAACCCCTCAAAAATCAAT
Found at i:62485242 original size:21 final size:23
Alignment explanation
Indices: 62485205--62485248 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
62485195 TATAAAGCAC
62485205 TAATTCCATGCCAAATAATCATA
1 TAATTCCATGCCAAATAATCATA
*
62485228 TAATTCCA-G-CAAATATTCATA
1 TAATTCCATGCCAAATAATCATA
62485249 GAAACTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 1 0.05
23 8 0.40
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (23 bp):
TAATTCCATGCCAAATAATCATA
Found at i:62485390 original size:80 final size:80
Alignment explanation
Indices: 62485257--62485416 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
62485247 TAGAAACTTT
*
62485257 CAATTTCTTTCATAGAATCAAAAACTAATGAATTTAACAAGTGGACCTAGTTGTAAAAGTCCCAA
1 CAATTTCTTTCATAGAATCAAAAACTAATGAATTTAACAAGTGGACCTAGTTGTAAAAGTCACAA
62485322 AAACACAAAAAATTC
66 AAACACAAAAAATTC
62485337 CAATTTCTTTCATAGAATCAAAAACTAATGAATTTAACAAGTGGACCTAGTTGTAAAAGTCACAA
1 CAATTTCTTTCATAGAATCAAAAACTAATGAATTTAACAAGTGGACCTAGTTGTAAAAGTCACAA
*
62485402 AAGCACAAAAAATTC
66 AAACACAAAAAATTC
62485417 AAGAATAATC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (80 bp):
CAATTTCTTTCATAGAATCAAAAACTAATGAATTTAACAAGTGGACCTAGTTGTAAAAGTCACAA
AAACACAAAAAATTC
Found at i:62488250 original size:50 final size:51
Alignment explanation
Indices: 62488160--62488281 Score: 165
Period size: 50 Copynumber: 2.4 Consensus size: 51
62488150 CAGGTAGCAA
* * * * *
62488160 AAGCTACCACTTTTCACTTGTCATTTGTCCTTGATTAGATAAGTGTACCCG
1 AAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTACCCG
* *
62488211 AAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTACCCG
*
62488261 AAGCTATCACTTATCTCTTGT
1 AAGCTATCACTTATCACTTGT
62488282 TGCCATGGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 44 0.72
51 17 0.28
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTACCCG
Found at i:62502875 original size:38 final size:38
Alignment explanation
Indices: 62502824--62502902 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
62502814 ATATCCCTCT
*
62502824 ACATAGATTGTGGTATGTCCAACATCAGCCTTTATAGA
1 ACATAGATTGTGGTATATCCAACATCAGCCTTTATAGA
62502862 ACATAGATTGTGGTATATCCAACATCAGCCTTTATAGA
1 ACATAGATTGTGGTATATCCAACATCAGCCTTTATAGA
62502900 ACA
1 ACA
62502903 ACCAGTTACG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATAGATTGTGGTATATCCAACATCAGCCTTTATAGA
Found at i:62508433 original size:40 final size:40
Alignment explanation
Indices: 62508378--62508599 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
62508368 TATTCGGATG
*
62508378 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
62508418 ATATCCAGGCTAAGTCCCGAAGGCCTTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
62508458 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
62508498 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
62508538 GTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
62508578 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
62508600 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 150 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:62515674 original size:8 final size:8
Alignment explanation
Indices: 62515651--62515686 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
62515641 CTTTTATACT
62515651 TAATAAATA
1 TAATAAA-A
62515660 TTAATAAAA
1 -TAATAAAA
62515669 TAATAAAA
1 TAATAAAA
62515677 TAATAAAA
1 TAATAAAA
62515685 TA
1 TA
62515687 TCTTATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
9 1 0.04
10 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TAATAAAA
Found at i:62523966 original size:9 final size:9
Alignment explanation
Indices: 62523952--62523976 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
62523942 AAGTGAAACG
62523952 ACACATTTA
1 ACACATTTA
62523961 ACACATTTA
1 ACACATTTA
62523970 ACACATT
1 ACACATT
62523977 CCTCAGGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (9 bp):
ACACATTTA
Found at i:62542707 original size:27 final size:27
Alignment explanation
Indices: 62542677--62542854 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
62542667 ATATTGAGTC
* * * *
62542677 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
62542704 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
62542731 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
62542759 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
62542786 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
62542813 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
62542840 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62542855 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:62542816 original size:82 final size:81
Alignment explanation
Indices: 62542698--62542853 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62542688 TGCTATATAA
* *
62542698 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
62542763 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
62542780 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
62542844 CACTTAGTGC
65 CACTTAGTGC
62542854 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:62550955 original size:27 final size:27
Alignment explanation
Indices: 62550925--62551102 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
62550915 ATATTGAGCC
* *
62550925 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
62550952 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
62550979 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
62551007 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
62551034 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
62551061 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
62551088 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62551103 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:62551064 original size:82 final size:81
Alignment explanation
Indices: 62550945--62551101 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 81
62550935 GTGCTATATA
* *
62550945 ATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGC
62551010 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * **
62551027 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGC
1 ATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGC
62551091 ACACTTAGTGC
65 ACACTTAGTGC
62551102 TGTACAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 53 0.78
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
CACTTAGTGCCGCATG
Found at i:62553716 original size:135 final size:139
Alignment explanation
Indices: 62553535--62553948 Score: 628
Period size: 138 Copynumber: 3.0 Consensus size: 139
62553525 TTGAGAAAGG
*
62553535 AATTATA-TTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTA
1 AATTATATTTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTA
* * *
62553599 ATATAATTTTTTATATTAATAAATTTGGT-AAA-ATA-A-AATTAATAATTTGTATGAATCAAAT
66 ATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
62553660 TCATATATT
131 TCATATATT
* * * ***
62553669 AATTATATTTTTTTTCAAATGAATATTAATTTCCATGTCTTTTATATTTTGATTGAAATTAATTA
1 AATTATATTTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTA
62553734 ATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
66 ATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
62553799 TCATATATT
131 TCATATATT
* *
62553808 AATTA-ATTTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCAATATTAATCT
1 AATTATATTTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAAT-T
**
62553872 -ATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTCCATG-ATCAAA
65 AATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAA
*
62553935 TTTATATATT
130 TTCATATATT
62553945 AATT
1 AATT
62553949 TTATCTATAT
Statistics
Matches: 254, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
134 7 0.03
135 78 0.31
136 3 0.01
137 22 0.09
138 105 0.41
139 39 0.15
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (139 bp):
AATTATATTTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTA
ATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
TCATATATT
Found at i:62561080 original size:20 final size:20
Alignment explanation
Indices: 62561055--62561101 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
62561045 AACAAGGGTC
*
62561055 ACACGCCCGTGTAGTTTGGG
1 ACACGCCCGTATAGTTTGGG
*
62561075 ACACGCCCGTATGGTTTGGG
1 ACACGCCCGTATAGTTTGGG
62561095 ACACGCC
1 ACACGCC
62561102 AATGTGGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.30, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTATAGTTTGGG
Found at i:62573806 original size:29 final size:29
Alignment explanation
Indices: 62573764--62573864 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
62573754 CATGAAATTG
62573764 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
62573793 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
62573822 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
62573850 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
62573865 ACTTACTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:62575710 original size:24 final size:24
Alignment explanation
Indices: 62575683--62575732 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
62575673 TTATATTTTT
*
62575683 TAAA-ATTTATAATTTTTTTAAAAA
1 TAAATATTT-TAAATTTTTTAAAAA
*
62575707 TAAATATTTTAAATTTTTTATAAA
1 TAAATATTTTAAATTTTTTAAAAA
62575731 TA
1 TA
62575733 TTTTGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAATATTTTAAATTTTTTAAAAA
Found at i:62575731 original size:20 final size:19
Alignment explanation
Indices: 62575654--62575743 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 19
62575644 TATTATTTTA
* *
62575654 TTAAATTTTTGATATATTT
1 TTAAATTTTTTATAAATTT
*
62575673 TTATATTTTTTA-AAATTT
1 TTAAATTTTTTATAAATTT
* *
62575691 ATAATTTTTTTAAAAATAAATATT
1 TTAAATTTTTT----ATAAAT-TT
62575715 TTAAATTTTTTATAAATATT
1 TTAAATTTTTTATAAAT-TT
*
62575735 TTGAATTTT
1 TTAAATTTT
62575744 AAAAATTATT
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 13 0.23
19 10 0.18
20 17 0.30
22 1 0.02
23 4 0.07
24 11 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTAAATTTTTTATAAATTT
Found at i:62579106 original size:39 final size:39
Alignment explanation
Indices: 62578971--62579089 Score: 220
Period size: 39 Copynumber: 3.1 Consensus size: 39
62578961 TGTGAATATA
62578971 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
62579010 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
62579049 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
62579088 TA
1 TA
62579090 CGTGCTGGAC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:62585180 original size:27 final size:27
Alignment explanation
Indices: 62585149--62585326 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
62585139 TAAATTGTAC
62585149 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
62585176 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62585202 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
62585230 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
62585258 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62585285 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
62585312 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62585327 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:62585263 original size:82 final size:81
Alignment explanation
Indices: 62585150--62585305 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62585140 AAATTGTACA
* *
62585150 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
62585214 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
62585231 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
62585296 TGCGAGTTGA
65 TGCGAATTGA
62585306 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:62585317 original size:82 final size:81
Alignment explanation
Indices: 62585146--62585326 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
62585136 GATTAAATTG
* *
62585146 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
62585211 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
62585227 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
62585291 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62585309 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62585327 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:62591333 original size:22 final size:22
Alignment explanation
Indices: 62591306--62591360 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
62591296 ATATTAATTA
*
62591306 TCAATAAAATTTTATAGGTATT
1 TCAATAAAATTTTATAGGTAGT
*
62591328 TCAATAAAATGTTATAGGTAGT
1 TCAATAAAATTTTATAGGTAGT
62591350 TCAATAAAATT
1 TCAATAAAATT
62591361 AATCATGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (22 bp):
TCAATAAAATTTTATAGGTAGT
Found at i:62592758 original size:20 final size:20
Alignment explanation
Indices: 62592733--62592770 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62592723 CCAAATTATT
* *
62592733 TCTAAAACTTTACTAAAATA
1 TCTAAAAATTTACCAAAATA
62592753 TCTAAAAATTTACCAAAA
1 TCTAAAAATTTACCAAAA
62592771 CAAATCCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (20 bp):
TCTAAAAATTTACCAAAATA
Found at i:62593398 original size:16 final size:17
Alignment explanation
Indices: 62593377--62593409 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62593367 GCTTCCTTAA
62593377 AATGTG-ATATATAGAC
1 AATGTGCATATATAGAC
*
62593393 AATGTGCATCTATAGAC
1 AATGTGCATATATAGAC
62593410 TCATGAGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (17 bp):
AATGTGCATATATAGAC
Found at i:62595697 original size:8 final size:8
Alignment explanation
Indices: 62595684--62595708 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
62595674 TAAAAATTTG
62595684 AAATAATA
1 AAATAATA
62595692 AAATAATA
1 AAATAATA
62595700 AAATAATA
1 AAATAATA
62595708 A
1 A
62595709 GAGCTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:62600103 original size:8 final size:8
Alignment explanation
Indices: 62600090--62600114 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
62600080 TAAAAATTTG
62600090 AAATAATA
1 AAATAATA
62600098 AAATAATA
1 AAATAATA
62600106 AAATAATA
1 AAATAATA
62600114 A
1 A
62600115 GAGCTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:62602593 original size:42 final size:43
Alignment explanation
Indices: 62602487--62602645 Score: 155
Period size: 42 Copynumber: 3.7 Consensus size: 43
62602477 TCTGAGATAT
** * *
62602487 CGTGTAAGACTGTGTCTGGGACA-CAGGCCTCGAT-TTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATC-GGCATCGATACTGA-A-TTA
*
62602531 CGTGTAAGACCATGTCTGGGACATCGGCTTC-ATATCTGAATT-
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATA-CTGAATTA
* * **
62602573 CGTGTAAGACCCTGTTTGGGACAGAGGCATCGATACTGAATTA
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATACTGAATTA
* *
62602616 CATGTAAGACCATGTCTAGGACATCGGCAT
1 CGTGTAAGACCATGTCTGGGACATCGGCAT
62602646 TGTACCCGTT
Statistics
Matches: 95, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 33 0.35
43 31 0.33
44 27 0.28
45 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATCGGCATCGATACTGAATTA
Found at i:62602641 original size:85 final size:88
Alignment explanation
Indices: 62602476--62602643 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 88
62602466 GTTGTTATCG
** * * *
62602476 ATCTGAGATATCGTGTAAGACTGTGTCTGGGACACAGGCCTCGATTTGAGATTTACGTGTAAGAC
1 ATCTGAGATATCGTGTAAGACCCTGTCTGGGACACAGGCATCGATCTGAGATTTACATGTAAGAC
*
62602541 CATGTCTGGGACATCGGCTTCAT
66 CATGTCTAGGACATCGGCTTCAT
* *
62602564 ATCTGA-AT-TCGTGTAAGACCCTGTTTGGGACAGAGGCATCGATACTGA-A-TTACATGTAAGA
1 ATCTGAGATATCGTGTAAGACCCTGTCTGGGACACAGGCATCGAT-CTGAGATTTACATGTAAGA
62602625 CCATGTCTAGGACATCGGC
65 CCATGTCTAGGACATCGGC
62602644 ATTGTACCCG
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
85 29 0.41
86 31 0.44
87 5 0.07
88 6 0.08
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (88 bp):
ATCTGAGATATCGTGTAAGACCCTGTCTGGGACACAGGCATCGATCTGAGATTTACATGTAAGAC
CATGTCTAGGACATCGGCTTCAT
Found at i:62608958 original size:51 final size:51
Alignment explanation
Indices: 62608890--62609174 Score: 260
Period size: 51 Copynumber: 5.7 Consensus size: 51
62608880 TGTGAGGTCG
* *
62608890 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGAAAACTG-TGATCA
1 CATGTGTAGTACTAAATGCAGGCTACTACGCGTACTCG-AAACTGTTGATCA
* * * * * *** *
62608941 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGATG-TCA
1 CATGTGTAGTACTAAATGCAGGCTACTACGCGTACTCGAAACTGTTGATCA
** * * * **
62608991 TTTGTGTAGTACTAAATGCAGGCTACTACGTGTAC-C-AGACTGTTGGTTG
1 CATGTGTAGTACTAAATGCAGGCTACTACGCGTACTCGAAACTGTTGATCA
*
62609040 CATGTGTAGTACTAAATGCAGGCTACTATGCGTACTCGAAAACTG-TGATCA
1 CATGTGTAGTACTAAATGCAGGCTACTACGCGTACTCG-AAACTGTTGATCA
* * * * * **
62609091 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AGACTGTTGGTTG
1 CATGTGTAGTACTAAATGCAGGCTACTACGCGTACTCGAAACTGTTGATCA
*
62609140 CATGTGTAGTACTAAATGCAGGCTACTATGCGTAC
1 CATGTGTAGTACTAAATGCAGGCTACTACGCGTAC
62609175 CAGATAGCTT
Statistics
Matches: 189, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
48 10 0.05
49 66 0.35
50 39 0.21
51 69 0.37
52 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
CATGTGTAGTACTAAATGCAGGCTACTACGCGTACTCGAAACTGTTGATCA
Found at i:62609059 original size:49 final size:48
Alignment explanation
Indices: 62608889--62609178 Score: 260
Period size: 49 Copynumber: 5.8 Consensus size: 48
62608879 TTGTGAGGTC
* * * * *
62608889 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGAAAACTGTGATC
1 GCATGTGTAGTACTAAATGCAGGCTACTACGCGTAC-C--AGACTGTGGTT
* * * * ** *
62608940 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TG-GTGAT
1 GCATGTGTAGTACTAAATGCAGGCTACTACGCGTACCAGACTGTG-GTT
*
62608987 GTCATTTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGACTGTTGGTT
1 G-CA--TGTGTAGTACTAAATGCAGGCTACTACGCGTACCAGACTG-TGGTT
* * * *
62609039 GCATGTGTAGTACTAAATGCAGGCTACTATGCGTACTCGAAAACTGTGATC
1 GCATGTGTAGTACTAAATGCAGGCTACTACGCGTAC-C--AGACTGTGGTT
* * * *
62609090 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTT
1 GCATGTGTAGTACTAAATGCAGGCTACTACGCGTACCAGACTG-TGGTT
*
62609139 GCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGA
1 GCATGTGTAGTACTAAATGCAGGCTACTACGCGTACCAGA
62609179 TAGCTTCGGC
Statistics
Matches: 194, Mismatches: 34, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
46 1 0.01
47 2 0.01
48 8 0.04
49 69 0.36
50 36 0.19
51 69 0.36
52 8 0.04
53 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (48 bp):
GCATGTGTAGTACTAAATGCAGGCTACTACGCGTACCAGACTGTGGTT
Found at i:62609118 original size:100 final size:100
Alignment explanation
Indices: 62608993--62609174 Score: 355
Period size: 100 Copynumber: 1.8 Consensus size: 100
62608983 TGATGTCATT
62608993 TGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGACTGTTGGTTGCATGTGTAGTACTAAATG
1 TGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGACTGTTGGTTGCATGTGTAGTACTAAATG
62609058 CAGGCTACTATGCGTACTCGAAAACTGTGATCACG
66 CAGGCTACTATGCGTACTCGAAAACTGTGATCACG
*
62609093 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTTGCATGTGTAGTACTAAATG
1 TGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGACTGTTGGTTGCATGTGTAGTACTAAATG
62609158 CAGGCTACTATGCGTAC
66 CAGGCTACTATGCGTAC
62609175 CAGATAGCTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGACTGTTGGTTGCATGTGTAGTACTAAATG
CAGGCTACTATGCGTACTCGAAAACTGTGATCACG
Found at i:62609868 original size:25 final size:24
Alignment explanation
Indices: 62609834--62609881 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
62609824 ACTAATTGGC
62609834 TAAACCAAAAATTCTGAAAATTTT
1 TAAACCAAAAATTCTGAAAATTTT
*
62609858 TAAACCAAAAATTCTGGAAATTTT
1 TAAACCAAAAATTCTGAAAATTTT
62609882 ATGGGAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (24 bp):
TAAACCAAAAATTCTGAAAATTTT
Found at i:62612005 original size:15 final size:15
Alignment explanation
Indices: 62611985--62612049 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
62611975 GTATCTTGGG
62611985 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
62612000 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
62612015 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
* *
62612030 TTTCTTCATTC-GGT
1 TTTCTTTATTCTGGA
62612044 TTTCTT
1 TTTCTT
62612050 GTTATCTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 12 0.29
15 26 0.62
16 4 0.10
ACGTcount: A:0.09, C:0.15, G:0.14, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:62612017 original size:30 final size:31
Alignment explanation
Indices: 62611981--62612049 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
62611971 TATCGTATCT
*
62611981 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTCATTC
62612011 TGGGTTT-TTCTATCTTGGATTTCTTCATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTCATTC
*
62612041 -GGTTTTCTT
1 TGGGTTTCTT
62612050 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.09, C:0.14, G:0.17, T:0.59
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTCATTC
Found at i:62614362 original size:65 final size:65
Alignment explanation
Indices: 62614287--62614416 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
62614277 TGGTGAGGTC
*
62614287 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTATAGTACTAA
1 ACGTGTGTAGTACTAAATGTAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTATAGTACTAA
*
62614352 ACGTGTGTAGTACTAAATGTAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTGTAGTACTAA
1 ACGTGTGTAGTACTAAATGTAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTATAGTACTAA
62614417 GTGCAGGCTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (65 bp):
ACGTGTGTAGTACTAAATGTAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTATAGTACTAA
Found at i:62617768 original size:12 final size:12
Alignment explanation
Indices: 62617747--62617787 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
62617737 AGAAAAGAGC
*
62617747 GAAAAGGTGTGT
1 GAAAAAGTGTGT
62617759 GAAAAAGTGTGT
1 GAAAAAGTGTGT
*
62617771 GAAAAAGTGAGT
1 GAAAAAGTGTGT
62617783 GAAAA
1 GAAAA
62617788 GAAACGAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (12 bp):
GAAAAAGTGTGT
Found at i:62623091 original size:16 final size:16
Alignment explanation
Indices: 62623070--62623101 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62623060 ACTGTAACAC
62623070 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
62623086 CCCAAAAGTCCCGAAA
1 CCCAAAAATCCCGAAA
62623102 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.38, G:0.09, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Done.