Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4658001
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 23
Found at i:3355837 original size:21 final size:20
Alignment explanation
Indices: 3355746--3355849 Score: 91
Period size: 21 Copynumber: 5.0 Consensus size: 20
3355736 GACTCACCTA
*
3355746 TCATCGTTCAAGAGGCCTCT
1 TCATCGTTCAAGAGGCCCCT
*
3355766 CCTATCGTTCAAGAGGCCCCT
1 TC-ATCGTTCAAGAGGCCCCT
** *
3355787 ATCATCCCTCAAGAGTCCCCT
1 -TCATCGTTCAAGAGGCCCCT
* *
3355808 CCCACCGTTCAAGAGGCCCCT
1 -TCATCGTTCAAGAGGCCCCT
* *
3355829 GTCATCGTTGAAGAGGTCCCT
1 -TCATCGTTCAAGAGGCCCCT
3355850 CCCAACATTC
Statistics
Matches: 65, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCCT
Found at i:3357268 original size:30 final size:30
Alignment explanation
Indices: 3357229--3357294 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
3357219 ATAAGAGTTG
3357229 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
*
3357259 ATTTTTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
3357289 ATTTGT
1 ATTTGT
3357295 GCTTGTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTCTT
Found at i:3357469 original size:20 final size:20
Alignment explanation
Indices: 3357444--3357701 Score: 203
Period size: 20 Copynumber: 13.8 Consensus size: 20
3357434 GCGATTTTCT
*
3357444 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
3357464 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
3357484 CGTTGCGATAGTC-ATTTTG
1 CGTTGCGATAGTCAAATTCG
*
3357503 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
3357517 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
3357537 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
3357557 CATTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
3357571 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
3357591 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
3357611 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
3357625 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* * *
3357645 CGTTGTGATAGTCATATTCA
1 CGTTGCGATAGTCAAATTCG
*
3357665 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
3357685 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
3357702 GAATGTGTAA
Statistics
Matches: 189, Mismatches: 31, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
14 30 0.16
16 3 0.02
17 1 0.01
18 2 0.01
19 16 0.08
20 137 0.72
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:3357563 original size:40 final size:40
Alignment explanation
Indices: 3357517--3357698 Score: 154
Period size: 34 Copynumber: 4.8 Consensus size: 40
3357507 GCGATTATCT
*
3357517 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCG
* * *
3357557 CATTGCGAT--T---A-TCTCGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCG
* ** * *
3357591 TGTTGCGATAGTCATTTTCGCATTGCG--A-T--TA-TCC
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCG
* * * *
3357625 CGTTGCGATATTCAAATTCACGTTGTGATAGTCATATTCA
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCG
*
3357665 CGTTGCGATAGTCATATTCGCGTTGCGATAGTCA
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCA
3357699 AATGAATGTG
Statistics
Matches: 107, Mismatches: 23, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
34 49 0.46
35 2 0.02
36 2 0.02
37 2 0.02
38 2 0.02
39 2 0.02
40 48 0.45
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (40 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCG
Found at i:3357585 original size:54 final size:54
Alignment explanation
Indices: 3357464--3357673 Score: 323
Period size: 54 Copynumber: 3.9 Consensus size: 54
3357454 GTCAAATTCC
* *
3357464 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTT-GCGTTGCGATTATCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCT
3357517 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCT
* *
3357571 CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCT
* * * * * *
3357625 CGTTGCGATATTCAAATTCACGTTGTGATAGTCATATTCACGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGAT
3357674 AGTCATATTC
Statistics
Matches: 145, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 37 0.26
54 108 0.74
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCT
Found at i:3357891 original size:12 final size:12
Alignment explanation
Indices: 3357876--3357906 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3357866 AAACCGGTTG
*
3357876 TGATTGGGATTT
1 TGATTGCGATTT
3357888 TGATTGCGATTT
1 TGATTGCGATTT
3357900 TGATTGC
1 TGATTGC
3357907 CTTTTGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.06, G:0.29, T:0.48
Consensus pattern (12 bp):
TGATTGCGATTT
Found at i:3359952 original size:14 final size:14
Alignment explanation
Indices: 3359933--3359969 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3359923 TCCCGTGGCA
3359933 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
3359947 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
3359961 TTCTTCTTC
1 TT-TTCTTC
3359970 TTCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:3360198 original size:24 final size:24
Alignment explanation
Indices: 3360171--3360217 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
3360161 CAAAATCCAA
3360171 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
3360195 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
3360218 AATACCGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:3361063 original size:20 final size:20
Alignment explanation
Indices: 3361038--3361078 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3361028 AGTGATGTGT
3361038 TAGTCAGAATCGCGCTGCGA
1 TAGTCAGAATCGCGCTGCGA
*
3361058 TAGTCAGAATCGCGTTGCGA
1 TAGTCAGAATCGCGCTGCGA
3361078 T
1 T
3361079 CACGTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (20 bp):
TAGTCAGAATCGCGCTGCGA
Found at i:3361092 original size:21 final size:21
Alignment explanation
Indices: 3361066--3361120 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
3361056 GATAGTCAGA
*
3361066 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCAAGTATT
* *
3361087 ATCGCGTTACGATCAAGTGTT
1 ATCGCGTTGCGATCAAGTATT
3361108 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
3361121 TTACATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (21 bp):
ATCGCGTTGCGATCAAGTATT
Found at i:3361137 original size:20 final size:20
Alignment explanation
Indices: 3361109--3361161 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
3361099 TCAAGTGTTA
*
3361109 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
3361129 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
3361149 TCGCATTGCGATT
1 TCGCATTGCGATT
3361162 ATCTAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:3365024 original size:27 final size:27
Alignment explanation
Indices: 3364994--3365062 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
3364984 GAAATCTTTT
3364994 ACAAATCATATCTCTATAGGAATGGTA
1 ACAAATCATATCTCTATAGGAATGGTA
3365021 ACAAATCATATCTCTATAGGAATGGTA
1 ACAAATCATATCTCTATAGGAATGGTA
3365048 AC-AATC--ATCTCTATA
1 ACAAATCATATCTCTATA
3365063 ATTCCTACAC
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
24 9 0.21
26 4 0.10
27 29 0.69
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (27 bp):
ACAAATCATATCTCTATAGGAATGGTA
Found at i:3368741 original size:15 final size:15
Alignment explanation
Indices: 3368718--3368747 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3368708 CTCTATAGGA
3368718 ATGGCAACAAATCAT
1 ATGGCAACAAATCAT
*
3368733 ATGGTAACAAATCAT
1 ATGGCAACAAATCAT
3368748 CTCTATAATT
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:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (15 bp):
ATGGCAACAAATCAT
Found at i:3374895 original size:106 final size:105
Alignment explanation
Indices: 3374710--3374921 Score: 415
Period size: 106 Copynumber: 2.0 Consensus size: 105
3374700 GTTTCACGCC
3374710 ATCTTTAATCAGTATTCAATGTGCGAGGGCTAGACGAGGAAAGCATTAAAAAAAGCTGATGTGAT
1 ATCTTTAATCAGTATTCAATGTGCGAGGGCTAGACGAGGAAAGCATTAAAAAAAGCTGATGTGAT
3374775 TGAATTTGTAGAGAAAACTAGTACCACTAATATGTATATAT
66 TGAATTTGTAGAG-AAACTAGTACCACTAATATGTATATAT
3374816 ATCTTTAATCAGTATTCAATGTGCGAGGGCTAGACGAGGAAAGCATTAAAAAAAGCTGATGTGAT
1 ATCTTTAATCAGTATTCAATGTGCGAGGGCTAGACGAGGAAAGCATTAAAAAAAGCTGATGTGAT
3374881 TGAATTTGTAGAGAAACTAGTACCACTAATATGTATATAT
66 TGAATTTGTAGAGAAACTAGTACCACTAATATGTATATAT
3374921 A
1 A
3374922 ATGATATTTT
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 28 0.26
106 78 0.74
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (105 bp):
ATCTTTAATCAGTATTCAATGTGCGAGGGCTAGACGAGGAAAGCATTAAAAAAAGCTGATGTGAT
TGAATTTGTAGAGAAACTAGTACCACTAATATGTATATAT
Found at i:3379986 original size:20 final size:20
Alignment explanation
Indices: 3379954--3379998 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3379944 ATTATTTTTA
3379954 TTTTT-AATAAAAATATTAT
1 TTTTTAAATAAAAATATTAT
*
3379973 TTTTTAAATTAAAATATTAT
1 TTTTTAAATAAAAATATTAT
3379993 TTTTTA
1 TTTTTA
3379999 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTAAATAAAAATATTAT
Found at i:3380034 original size:13 final size:13
Alignment explanation
Indices: 3380016--3380040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3380006 AAATAAAAAT
3380016 ATTAAAAAATATA
1 ATTAAAAAATATA
3380029 ATTAAAAAATAT
1 ATTAAAAAATAT
3380041 TTGGGTCCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAAAAAATATA
Found at i:3382531 original size:22 final size:24
Alignment explanation
Indices: 3382472--3382521 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3382462 ATATATATAT
3382472 ATATGAAGATATTAGTTTTTTTTC
1 ATATGAAGATATTAGTTTTTTTTC
3382496 ATATGAAGATATTAGTTTTTTTTC
1 ATATGAAGATATTAGTTTTTTTTC
3382520 AT
1 AT
3382522 TTGATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (24 bp):
ATATGAAGATATTAGTTTTTTTTC
Found at i:3384730 original size:15 final size:15
Alignment explanation
Indices: 3384698--3384729 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3384688 AATTCATATA
3384698 TTTAATTTTTAATTT
1 TTTAATTTTTAATTT
3384713 TTTAATTTTT-ATTT
1 TTTAATTTTTAATTT
3384727 TTT
1 TTT
3384730 TTATATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTAATTTTTAATTT
Found at i:3384775 original size:20 final size:18
Alignment explanation
Indices: 3384698--3384775 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 18
3384688 AATTCATATA
3384698 TTTAAT-TTTTA--ATTT
1 TTTAATATTTTATTATTT
3384713 TTTAAT-TTTTATT-TTT
1 TTTAATATTTTATTATTT
3384729 TTTATATATTCTTATTATTT
1 TTTA-ATATT-TTATTATTT
*
3384749 TCATAATATTTATATTATTT
1 T-TTAATATTT-TATTATTT
3384769 TATTAAT
1 T-TTAAT
3384776 GTATTATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
15 11 0.21
16 7 0.13
17 2 0.04
18 2 0.04
19 6 0.12
20 22 0.42
21 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAATATTTTATTATTT
Found at i:3384788 original size:8 final size:8
Alignment explanation
Indices: 3384728--3384788 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
3384718 TTTTTATTTT
3384728 TTTTATATA
1 TTTTAT-TA
3384737 TTCTTATTA
1 TT-TTATTA
3384746 TTTTCATAATA
1 TTTT-AT--TA
3384757 TTTATATTA
1 TTT-TATTA
3384766 TTTTATTA
1 TTTTATTA
* *
3384774 ATGTATTA
1 TTTTATTA
3384782 TTTTATT
1 TTTTATT
3384789 TTCAAGTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
8 18 0.42
9 13 0.30
10 4 0.09
11 7 0.16
12 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (8 bp):
TTTTATTA
Found at i:3395461 original size:16 final size:17
Alignment explanation
Indices: 3395411--3395462 Score: 74
Period size: 16 Copynumber: 3.2 Consensus size: 17
3395401 ATGCTTGAAG
*
3395411 AAAAAAATG-AAATAGA
1 AAAAAAAAGAAAATAGA
3395427 AAAAAAAAGAAAA-AGA
1 AAAAAAAAGAAAATAGA
3395443 AAAAAAAAGAAAATA-A
1 AAAAAAAAGAAAATAGA
3395459 AAAA
1 AAAA
3395463 GGAGGGTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 29 0.88
17 4 0.12
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.06
Consensus pattern (17 bp):
AAAAAAAAGAAAATAGA
Found at i:3395842 original size:19 final size:19
Alignment explanation
Indices: 3395793--3395866 Score: 87
Period size: 18 Copynumber: 3.8 Consensus size: 19
3395783 TATTTATTAA
3395793 TAAATTCTAAGTTTATTTTCTC
1 TAAATTC-AA-TTTATTTT-TC
*
3395815 TAAATTCAATTTATTTTTT
1 TAAATTCAATTTATTTTTC
*
3395834 TAGATTCAATTTA-TTTTC
1 TAAATTCAATTTATTTTTC
*
3395852 GAAATTCAATTTATT
1 TAAATTCAATTTATT
3395867 CTTTTATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
18 15 0.33
19 14 0.30
20 8 0.17
21 2 0.04
22 7 0.15
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.55
Consensus pattern (19 bp):
TAAATTCAATTTATTTTTC
Found at i:3396843 original size:22 final size:22
Alignment explanation
Indices: 3396789--3396846 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
3396779 CTACATCTAC
*
3396789 ATCTTCAAAGATGATAGATTCT
1 ATCTTCAAAGATGATAGATTAT
* * *
3396811 CTCTCCGAAGATGATAGATTAT
1 ATCTTCAAAGATGATAGATTAT
*
3396833 ATTTTCAAAGATGA
1 ATCTTCAAAGATGA
3396847 AAGCTTTATT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (22 bp):
ATCTTCAAAGATGATAGATTAT
Found at i:3397440 original size:91 final size:91
Alignment explanation
Indices: 3397285--3397465 Score: 321
Period size: 91 Copynumber: 2.0 Consensus size: 91
3397275 CAATGGATAC
3397285 GTGTATGCTGGTGGATGCGGATTGATGGTGTGTGGTGCAGCAAATGGAAATGCAGTGGCAATGAT
1 GTGTATGCTGGTGGATGCGGATTGATGGTGTGTGGTGCAGCAAATGGAAATGCAGTGGCAATGAT
3397350 GGATGCTTAATATTGAGTATGGTGAT
66 GGATGCTTAATATTGAGTATGGTGAT
*
3397376 GTGTATG-TGGTGGATGCGGATTGATGGTGTGATGGTGCAGTAAATGGAAAATGC-GTGGCAATG
1 GTGTATGCTGGTGGATGCGGATTGATGGTGTG-TGGTGCAGCAAATGG-AAATGCAGTGGCAATG
3397439 ATGGATGCTTAATATTGAGTATGGTGA
64 ATGGATGCTTAATATTGAGTATGGTGA
3397466 AATGTTGAGG
Statistics
Matches: 87, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
90 24 0.28
91 57 0.66
92 6 0.07
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.31
Consensus pattern (91 bp):
GTGTATGCTGGTGGATGCGGATTGATGGTGTGTGGTGCAGCAAATGGAAATGCAGTGGCAATGAT
GGATGCTTAATATTGAGTATGGTGAT
Found at i:3401283 original size:19 final size:19
Alignment explanation
Indices: 3401261--3401303 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
3401251 GAGAAAAGGT
3401261 AAAAGTTAAAATGAAAGAG
1 AAAAGTTAAAATGAAAGAG
* * *
3401280 AAAAATTATAATGAAAGAT
1 AAAAGTTAAAATGAAAGAG
3401299 AAAAG
1 AAAAG
3401304 AAAAAGTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (19 bp):
AAAAGTTAAAATGAAAGAG
Found at i:3407637 original size:17 final size:16
Alignment explanation
Indices: 3407615--3407648 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
3407605 TAAAAACAGT
3407615 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
3407632 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
3407648 A
1 A
3407649 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:3409201 original size:113 final size:113
Alignment explanation
Indices: 3408999--3409395 Score: 600
Period size: 113 Copynumber: 3.5 Consensus size: 113
3408989 GGAAGTTAAC
*
3408999 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTT
1 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTA
* * * *
3409064 AATTCATCACCCGATGAATTAGCATTGCCAGAGAAAGTTCATAATTAG
66 AATTCATCACTCGATGGATCAGCATTGCCAGAGAAAGTTCATAATGAG
* * * *
3409112 AAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAATAAGAAGAACTTGTTTAACCTTTTGCTCA
1 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTA
* *
3409177 AATCCATCACTTGATGGATCAGCATTGCCA-AGTAAAGTTCATAATGAG
66 AATTCATCACTCGATGGATCAGCATTGCCAGAG-AAAGTTCATAATGAG
*
3409225 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTA
1 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTA
* * * * * *
3409290 AATTCATTACTCAATGGATCAACTTTTCCAGAGAAAGTTCGTAATGAG
66 AATTCATCACTCGATGGATCAGCATTGCCAGAGAAAGTTCATAATGAG
*
3409338 AAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
1 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
3409396 GTTTGATTCT
Statistics
Matches: 256, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
112 43 0.17
113 211 0.82
114 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (113 bp):
AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTA
AATTCATCACTCGATGGATCAGCATTGCCAGAGAAAGTTCATAATGAG
Found at i:3415323 original size:52 final size:52
Alignment explanation
Indices: 3415245--3415349 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
3415235 CTTCTTCTAG
3415245 TCCGAACCTGCCAACTTTAACACAAGGACCAAGAGCTTGTTGAGATGGGGTC
1 TCCGAACCTGCCAACTTTAACACAAGGACCAAGAGCTTGTTGAGATGGGGTC
*
3415297 TCCGAACCTGCCAACTTTAACACAAGGACCTAGAGCTTGTTGAGATGGGGTC
1 TCCGAACCTGCCAACTTTAACACAAGGACCAAGAGCTTGTTGAGATGGGGTC
3415349 T
1 T
3415350 TTCTTCTCCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (52 bp):
TCCGAACCTGCCAACTTTAACACAAGGACCAAGAGCTTGTTGAGATGGGGTC
Found at i:3416839 original size:21 final size:22
Alignment explanation
Indices: 3416815--3416864 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
3416805 CTAAGATTAT
3416815 TTTTTTTATTAAAAATAAGC-C
1 TTTTTTTATTAAAAATAAGCAC
*
3416836 TTTTTTTATTAAAACTAAGCAC
1 TTTTTTTATTAAAAATAAGCAC
3416858 TTTTTTT
1 TTTTTTT
3416865 TTGCGAGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTTTTTATTAAAAATAAGCAC
Found at i:3417695 original size:12 final size:12
Alignment explanation
Indices: 3417678--3417705 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3417668 ACGTCCTATT
3417678 CGAACCAAACAC
1 CGAACCAAACAC
3417690 CGAACCAAACAC
1 CGAACCAAACAC
3417702 CGAA
1 CGAA
3417706 GAAAAAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.39, G:0.11, T:0.00
Consensus pattern (12 bp):
CGAACCAAACAC
Found at i:3418496 original size:30 final size:30
Alignment explanation
Indices: 3418462--3418711 Score: 225
Period size: 30 Copynumber: 8.4 Consensus size: 30
3418452 GCCATTTGAA
* * *
3418462 TTTCTATTTTTACTGTTTAAGTCCTTTAAG
1 TTTCTATTTTTGCTATTTTAGTCCTTTAAG
* *
3418492 TTTCTATTTTTGTTATTTTAGTCCTTTAAC
1 TTTCTATTTTTGCTATTTTAGTCCTTTAAG
* * * * *
3418522 TTTATGTTTTTGTTATTTTAGTCCCTTGAG
1 TTTCTATTTTTGCTATTTTAGTCCTTTAAG
* * * *
3418552 TTTATGTTTTTTCCTATTTTAGTCCTTTAAA
1 TTTCT-ATTTTTGCTATTTTAGTCCTTTAAG
* * ** *
3418583 TGTATGCTTTTGCTA-TTTAGTCCCTTAAG
1 TTTCTATTTTTGCTATTTTAGTCCTTTAAG
*
3418612 TTTCTATTTTTGCTATTTTAGTCCCTTAAG
1 TTTCTATTTTTGCTATTTTAGTCCTTTAAG
* * * *
3418642 TTTCTATTTTTTCTA-TTTGGACCTTTAAA
1 TTTCTATTTTTGCTATTTTAGTCCTTTAAG
* * * *
3418671 TTTCTGTTTGTACTATTTTGGTCCTTTAAG
1 TTTCTATTTTTGCTATTTTAGTCCTTTAAG
3418701 TTTCTATTTTT
1 TTTCTATTTTT
3418712 CCATTCTGGT
Statistics
Matches: 179, Mismatches: 38, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
29 45 0.25
30 111 0.62
31 23 0.13
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.59
Consensus pattern (30 bp):
TTTCTATTTTTGCTATTTTAGTCCTTTAAG
Found at i:3418580 original size:61 final size:59
Alignment explanation
Indices: 3418481--3418640 Score: 185
Period size: 61 Copynumber: 2.7 Consensus size: 59
3418471 TTACTGTTTA
* * ** * * * *
3418481 AGTCCTTTAAGTTTCTATTTTTGTTATTTTAGTCCTTTAACTTTATGTTTTTGTTATTTT
1 AGTCCCTTAAGTTTATATTTTTCCTATTTTAGTCCTTTAAATGTATGCTTTTGCTA-TTT
* *
3418541 AGTCCCTTGAGTTTATGTTTTTTCCTATTTTAGTCCTTTAAATGTATGCTTTTGCTATTT
1 AGTCCCTTAAGTTTAT-ATTTTTCCTATTTTAGTCCTTTAAATGTATGCTTTTGCTATTT
* * *
3418601 AGTCCCTTAAGTTTCTATTTTTGCTATTTTAGTCCCTTAA
1 AGTCCCTTAAGTTTATATTTTTCCTATTTTAGTCCTTTAA
3418641 GTTTCTATTT
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
59 21 0.25
60 30 0.36
61 33 0.39
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.57
Consensus pattern (59 bp):
AGTCCCTTAAGTTTATATTTTTCCTATTTTAGTCCTTTAAATGTATGCTTTTGCTATTT
Found at i:3418658 original size:59 final size:59
Alignment explanation
Indices: 3418462--3418711 Score: 223
Period size: 59 Copynumber: 4.2 Consensus size: 59
3418452 GCCATTTGAA
* * * * *
3418462 TTTCTATTTTTACTGTTTAAGTCCTTTAAGTTTCTATTTTTGTTATTTTAGTCCTTTAAC
1 TTTCTATTTTTTCTATTT-AGTCCCTTAAGTTTCTATTTTTGCTATTTTAGTCCTTTAAG
* * * * * * *
3418522 TTTATGTTTTTGT-TATTTTAGTCCCTTGAGTTTATGTTTTTTCCTATTTTAGTCCTTTAAA
1 TTTCTATTTTT-TCTA-TTTAGTCCCTTAAGTTTCT-ATTTTTGCTATTTTAGTCCTTTAAG
* * ** * *
3418583 TGTATGCTTTTGCTATTTAGTCCCTTAAGTTTCTATTTTTGCTATTTTAGTCCCTTAAG
1 TTTCTATTTTTTCTATTTAGTCCCTTAAGTTTCTATTTTTGCTATTTTAGTCCTTTAAG
* * * * * * * *
3418642 TTTCTATTTTTTCTATTTGGACCTTTAAATTTCTGTTTGTACTATTTTGGTCCTTTAAG
1 TTTCTATTTTTTCTATTTAGTCCCTTAAGTTTCTATTTTTGCTATTTTAGTCCTTTAAG
3418701 TTTCTATTTTT
1 TTTCTATTTTT
3418712 CCATTCTGGT
Statistics
Matches: 152, Mismatches: 34, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
59 77 0.51
60 40 0.26
61 35 0.23
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.59
Consensus pattern (59 bp):
TTTCTATTTTTTCTATTTAGTCCCTTAAGTTTCTATTTTTGCTATTTTAGTCCTTTAAG
Found at i:3420271 original size:7 final size:7
Alignment explanation
Indices: 3420259--3420285 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
3420249 ATAAACATAA
3420259 TTATCTT
1 TTATCTT
3420266 TTATCTT
1 TTATCTT
3420273 TTATCTT
1 TTATCTT
3420280 TTATCT
1 TTATCT
3420286 GTATTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATCTT
Found at i:3433212 original size:17 final size:18
Alignment explanation
Indices: 3433171--3433217 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
3433161 GTTTATGAGA
3433171 GAATTGGAATCTGTGAAG
1 GAATTGGAATCTGTGAAG
* *
3433189 AAATTGGAATCTGT-CAG
1 GAATTGGAATCTGTGAAG
3433206 GAATTGGAATCT
1 GAATTGGAATCT
3433218 AATTCCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (18 bp):
GAATTGGAATCTGTGAAG
Found at i:3433855 original size:37 final size:37
Alignment explanation
Indices: 3433814--3433884 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
3433804 ACCCTACCCA
3433814 ACCCGAATATCACACTTAAAAAACCCAACCCGACTCG
1 ACCCGAATATCACACTTAAAAAACCCAACCCGACTCG
* *
3433851 ACCCGAATATCACACTTAAAAAATCCGACCCGAC
1 ACCCGAATATCACACTTAAAAAACCCAACCCGAC
3433885 CCGAACAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.41, C:0.37, G:0.08, T:0.14
Consensus pattern (37 bp):
ACCCGAATATCACACTTAAAAAACCCAACCCGACTCG
Found at i:3433879 original size:32 final size:34
Alignment explanation
Indices: 3433804--3433889 Score: 95
Period size: 37 Copynumber: 2.5 Consensus size: 34
3433794 CCCGAACCCG
* *
3433804 ACCCTACCCAACCCGAATATCACACTTAAAAAACCCA
1 ACCCGACCCGACCCGAATATCACACTT-AAAAA--CA
*
3433841 ACCCGACTCGACCCGAATATCACACTT-AAAA-A
1 ACCCGACCCGACCCGAATATCACACTTAAAAACA
*
3433873 ATCCGACCCGACCCGAA
1 ACCCGACCCGACCCGAA
3433890 CAAAATAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
32 16 0.36
35 4 0.09
37 24 0.55
ACGTcount: A:0.40, C:0.40, G:0.08, T:0.13
Consensus pattern (34 bp):
ACCCGACCCGACCCGAATATCACACTTAAAAACA
Found at i:3441126 original size:55 final size:55
Alignment explanation
Indices: 3441055--3441369 Score: 374
Period size: 55 Copynumber: 5.8 Consensus size: 55
3441045 TGATAAGTCT
* * * * *
3441055 GCTCCCTATTTCTTCAGGGAGTATA-AGACTCGATCAATCTTCAATAAACGGGTTC
1 GCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAACGGGTTC
* * *
3441110 GCTCCCTA-TCCGTTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGAG-TC
1 GCTCTCTATTCC-TTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAACGGGTTC
*
3441164 TGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCC
1 -GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTTC
3441220 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTTC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTTC
* ** ** *
3441275 GCTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCTGCCTATGGGTTC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTTC
* * *
3441330 GCTCCCTCTTGCTTCA-AG-G-AGTAGAACTCGAACAATCTTC
1 GCTCTCTATTCCTTCAGAGAGTA-TAGAACTCGAACAATCTTC
3441370 TGGTGTGATT
Statistics
Matches: 235, Mismatches: 17, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
52 1 0.00
53 20 0.09
54 7 0.03
55 201 0.86
56 6 0.03
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (55 bp):
GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTTC
Found at i:3441818 original size:42 final size:41
Alignment explanation
Indices: 3441743--3441829 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 41
3441733 TCCGAGAAGG
* * *
3441743 CTTA-AAATGGCCCGAATGACTTATCATCTTGCTCGAAAGA
1 CTTACAAATGACCCGAAGGACTTATCATCATGCTCGAAAGA
*
3441783 CTTACAAATGACCCGAAGGATTTCATCATCATGCTCGAAAGA
1 CTTACAAATGACCCGAAGGACTT-ATCATCATGCTCGAAAGA
3441825 CTTAC
1 CTTAC
3441830 TGATGGATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 4 0.10
41 15 0.37
42 22 0.54
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (41 bp):
CTTACAAATGACCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:3442057 original size:42 final size:42
Alignment explanation
Indices: 3442009--3442105 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
3441999 TTACAAATTA
*
3442009 CCCTAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCTAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGG
*
3442051 CCCTAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGG
1 CCCTAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGG
* *
3442093 CCCGAAAGATTTA
1 CCCTAAGGATTTA
3442106 CTAAGTGCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (42 bp):
CCCTAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGG
Found at i:3442070 original size:135 final size:135
Alignment explanation
Indices: 3441824--3442085 Score: 402
Period size: 135 Copynumber: 1.9 Consensus size: 135
3441814 TGCTCGAAAG
* *
3441824 ACTTACTGATGGATTTTCTTTACTACTCTTCGATGAAGGCTTACAAATTACCCGAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCGATGAAGGCTTACAAATTACCCGAAGGATTTAAT
* * *
3441889 CATCATGCTTGAAAGACTTACTGATAGCCTGAAGAACTTCATCATCATGCTCGAAAGACTTACTG
66 CATCATGCTCGAAAGACTTACTGATAGCCTGAAGAACTTAAGCATCATGCTCGAAAGACTTACTG
3441954 TTGGC
131 TTGGC
* *
3441959 ACTTACTGATGGGTTTGCTTCACTACTCTTCCG-TGAAGGCTTACAAATTACCCTAAGGATTTAA
1 ACTTACTGATGGATTTGCTTCACTACTCTT-CGATGAAGGCTTACAAATTACCCGAAGGATTTAA
* * *
3442023 TCATCATGCTCGAAAGACTTACTGATGGCCCT-AAGGATTTAAGCATCATGCTCGAAAGACTTA
65 TCATCATGCTCGAAAGACTTACTGATAG-CCTGAAGAACTTAAGCATCATGCTCGAAAGACTTA
3442086 TTGATGGCCC
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
135 110 0.96
136 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (135 bp):
ACTTACTGATGGATTTGCTTCACTACTCTTCGATGAAGGCTTACAAATTACCCGAAGGATTTAAT
CATCATGCTCGAAAGACTTACTGATAGCCTGAAGAACTTAAGCATCATGCTCGAAAGACTTACTG
TTGGC
Found at i:3457587 original size:23 final size:23
Alignment explanation
Indices: 3457557--3457610 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
3457547 AAAGATAACT
3457557 CTCA-ACCTCTTAACATTGAACG
1 CTCATACCTCTTAACATTGAACG
*
3457579 CTCATACCTCTTGACATTGAACG
1 CTCATACCTCTTAACATTGAACG
3457602 CTCATACCT
1 CTCATACCT
3457611 TTGGCATCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.30
Consensus pattern (23 bp):
CTCATACCTCTTAACATTGAACG
Found at i:3459626 original size:78 final size:77
Alignment explanation
Indices: 3459391--3459670 Score: 323
Period size: 77 Copynumber: 3.6 Consensus size: 77
3459381 AATTGCACTT
* * * *
3459391 AAAATTGTCATGGTTCACTGAGAAATAAGTTGTGATATGGAATGTTAATATTTTTATTAATAAAA
1 AAAAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATAGTTTTATTAATAAAA
*
3459456 T-ATGTTACGCCAA
66 TGA-GTTGCG-CAA
* * * ** * *
3459469 AGAAA-GTCATAGTTCACTCAGAAATAGGTTGCAATTTGAAATGTTAATAGTTTTATTAATAAAA
1 AAAAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATAGTTTTATTAATAAAA
*
3459533 TGAGTTGCGCCA
66 TGAGTTGCGCAA
* *
3459545 AAAAATATCATGGTTCACTAAGAAATAGGATGTGATATGGAATGTTTAATAGTTTTATTAATAAA
1 AAAAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATG-TTAATAGTTTTATTAATAAA
* * *
3459610 ATGGGGTGCGTAA
65 ATGAGTTGCGCAA
** *
3459623 AAAAATGTCATGGTTCACTAAGATCTAGGTTGTGAT-TGCAATGTTAAT
1 AAAAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAAT
3459671 GTAACACCCT
Statistics
Matches: 169, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
76 11 0.07
77 93 0.55
78 65 0.38
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (77 bp):
AAAAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATAGTTTTATTAATAAAA
TGAGTTGCGCAA
Found at i:3462042 original size:14 final size:14
Alignment explanation
Indices: 3462010--3462036 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3462000 TTTTTTAAAT
3462010 AAAAATATTATTTA
1 AAAAATATTATTTA
3462024 AAAAATATTATTT
1 AAAAATATTATTT
3462037 TTAAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAATATTATTTA
Found at i:3462154 original size:13 final size:14
Alignment explanation
Indices: 3462136--3462171 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
3462126 ATTTTTTTAA
3462136 ATTTAAAAATA-TT
1 ATTTAAAAATATTT
3462149 ATTTAAAAATATTT
1 ATTTAAAAATATTT
*
3462163 TTTTAAAAA
1 ATTTAAAAA
3462172 AATATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTAAAAATATTT
Found at i:3462914 original size:20 final size:19
Alignment explanation
Indices: 3462891--3462937 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
3462881 CGATATATCA
3462891 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
3462911 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
3462931 GGTAAAA
1 GGTAAAA
3462938 CGTTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:3463108 original size:180 final size:182
Alignment explanation
Indices: 3462679--3463150 Score: 723
Period size: 180 Copynumber: 2.6 Consensus size: 182
3462669 GATCCAAATT
* * * **
3462679 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
3462744 AAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
3462809 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
*
3462861 AAAAATGTATCGATCCAAAACGATATATCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
3462926 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
3462990 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATAC-TTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
* * * *
3463041 AAAAATATATCGATCTACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
***
3463106 AAACCGGTAAAACGATAGTAGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
3463151 CGTAAGTACG
Statistics
Matches: 266, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
180 105 0.39
181 61 0.23
182 100 0.38
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
Found at i:3463122 original size:17 final size:19
Alignment explanation
Indices: 3463082--3463122 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
3463072 GTAAAAATAT
*
3463082 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
3463102 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
3463119 GATA
1 GATA
3463123 GTAGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:3465364 original size:21 final size:21
Alignment explanation
Indices: 3465338--3465402 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
3465328 AAGACAATCA
* *
3465338 AGAGTCGAATAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
*
3465359 AGAGTCAAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
3465380 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
3465401 AG
1 AG
3465403 GCATAAGGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.43, C:0.11, G:0.28, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:3465473 original size:33 final size:33
Alignment explanation
Indices: 3465436--3465501 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3465426 AAATAGATAG
*
3465436 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
3465469 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
3465502 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:3467314 original size:19 final size:19
Alignment explanation
Indices: 3467290--3467338 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3467280 AATGTAGGGT
3467290 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
3467309 TAATTTTGTATATGATTTA
1 TAATTTTGTATAAGATTTA
3467328 TAATTTTGTAT
1 TAATTTTGTAT
3467339 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3467349 original size:18 final size:19
Alignment explanation
Indices: 3467290--3467350 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
3467280 AATGTAGGGT
* *
3467290 TAATTTTGTATAAGATTTA
1 TAATTTTGTATATGATATA
*
3467309 TAATTTTGTATATGATTTA
1 TAATTTTGTATATGATATA
*
3467328 TAATTTTGTATGTGA-ATA
1 TAATTTTGTATATGATATA
3467346 TAATT
1 TAATT
3467351 ATGAATGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 7 0.18
19 32 0.82
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATATGATATA
Found at i:3467919 original size:200 final size:200
Alignment explanation
Indices: 3467576--3468025 Score: 828
Period size: 200 Copynumber: 2.2 Consensus size: 200
3467566 TACAATATGA
3467576 CAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAA
1 CAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAA
* *
3467641 ACCCAAAAGTGTAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTTATGA
66 ACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
3467706 GAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATG
131 GAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATG
3467771 AATGG
196 AATGG
* *
3467776 CAAACAGGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCATAAACATCGAA
1 CAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAA
* *
3467841 ACCCATAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
66 ACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
*
3467906 GAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATG
131 GAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATG
3467971 AATGG
196 AATGG
*
3467976 AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGAT
1 CAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGAT
3468026 GATTCAGCGG
Statistics
Matches: 240, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 240 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (200 bp):
CAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAA
ACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
GAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATG
AATGG
Found at i:3468974 original size:183 final size:182
Alignment explanation
Indices: 3468631--3469036 Score: 652
Period size: 183 Copynumber: 2.2 Consensus size: 182
3468621 CAAAGTTTTC
*
3468631 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
3468696 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTATCGATT--AAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
* * *
3468761 TAATCGATATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TAACCGATATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
3468815 ACACTTTTTAATATTATGTTGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
3468880 CAAAAAGTATCGACATT-TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTATCG--ATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
3468944 TAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TAACCGATATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
3468998 ACACTTTTTAATTTTGTGTCAGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
3469037 TATAATGTAC
Statistics
Matches: 205, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
183 129 0.63
184 73 0.36
186 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (182 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTATCGATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGATATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:3469123 original size:120 final size:120
Alignment explanation
Indices: 3468910--3469156 Score: 440
Period size: 120 Copynumber: 2.1 Consensus size: 120
3468900 ACATCGGAAC
3468910 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
3468975 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCAGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCAGTACTTTATGT
* * *
3469030 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGATTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
* *
3469095 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCAGTACTTTATGT
3469150 CCAGAAT
1 CCAGAAT
3469157 GAAAGAAAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCAGTACTTTATGT
Found at i:3469278 original size:303 final size:303
Alignment explanation
Indices: 3468731--3469320 Score: 1054
Period size: 303 Copynumber: 1.9 Consensus size: 303
3468721 CGGAACCCAT
* * *
3468731 AATTATAATGTAATAGATAATTTTGTAATATAATCGATATAAATATACTGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGATTTTATGAGCGAAT
* *
3468796 AGGTCTACAACCTATATCGACACTTTTTAATATTATGTTGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTATGTCGGTACTTTATGTCCAGAATGAAAGAA
3468861 AAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTA
3468926 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACC
*
3468991 TATATCGACACTTTTTAATTTTGTGTCAGTACTTTATGTCCAG
261 TATATCGACACTTTTTAATATTGTGTCAGTACTTTATGTCCAG
* * * *
3469034 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGATTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGATTTTATGAGCGAAT
* *
3469099 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGAAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTATGTCGGTACTTTATGTCCAGAATGAAAGAA
*
3469164 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
3469229 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACC
3469294 TATATCGACACTTTTTAATATTGTGTC
261 TATATCGACACTTTTTAATATTGTGTC
3469321 GCTAATTTTA
Statistics
Matches: 273, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
303 273 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (303 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGATTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTATGTCGGTACTTTATGTCCAGAATGAAAGAA
AAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCAGTACTTTATGTCCAG
Found at i:3472764 original size:23 final size:23
Alignment explanation
Indices: 3472738--3472782 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3472728 TCCCGTTAAA
**
3472738 TATCTATTTTATTATATAAGCGC
1 TATCTATTACATTATATAAGCGC
3472761 TATCTATTACATTATATAAGCG
1 TATCTATTACATTATATAAGCG
3472783 TTACCTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (23 bp):
TATCTATTACATTATATAAGCGC
Found at i:3472798 original size:23 final size:23
Alignment explanation
Indices: 3472748--3472792 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3472738 TATCTATTTT
* *
3472748 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
3472771 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
3472793 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:3472810 original size:87 final size:87
Alignment explanation
Indices: 3472664--3472913 Score: 455
Period size: 87 Copynumber: 2.9 Consensus size: 87
3472654 AAATAGGTCA
* *
3472664 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
*
3472729 CCCGTTAAATATCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
3472751 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
3472816 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
3472838 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
* *
3472903 TCGGTTAAATA
66 CCCGTTAAATA
3472914 ATATAACATA
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 158 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:3472885 original size:23 final size:23
Alignment explanation
Indices: 3472835--3472879 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3472825 TACCTATTTT
* *
3472835 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
3472858 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
3472880 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:3478810 original size:16 final size:17
Alignment explanation
Indices: 3478789--3478824 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
3478779 TTAATAGTAT
3478789 TTTAAAATTAAATT-AA
1 TTTAAAATTAAATTGAA
*
3478805 TTTAAATTTAAATTGAA
1 TTTAAAATTAAATTGAA
3478822 TTT
1 TTT
3478825 TTTTCATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAAAATTAAATTGAA
Found at i:3479453 original size:43 final size:43
Alignment explanation
Indices: 3479406--3479543 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
3479396 ATAGGTCAAG
* * * *
3479406 ATCTATCGTGGCGTTTTTGGAACAAACGTCACAAAAGGTTGAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCACAAAAGGTAGAT
* * * * **
3479449 ATCTATTGCGACGTTTTTGGAATAAACGCCGCAAAAGAAAGAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCACAAAAGGTAGAT
* * * *
3479492 ATATATAGGGGCG-TTTTGGAACAAACGCCACAAAATGTCGAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCACAAAAGGTAGAT
3479534 ATCTATAGCG
1 ATCTATAGCG
3479544 TTGATATCTA
Statistics
Matches: 74, Mismatches: 21, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
42 31 0.42
43 43 0.58
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (43 bp):
ATCTATAGCGGCGTTTTTGGAACAAACGCCACAAAAGGTAGAT
Found at i:3482483 original size:82 final size:83
Alignment explanation
Indices: 3482294--3482601 Score: 325
Period size: 82 Copynumber: 3.7 Consensus size: 83
3482284 CCTGTTGTGG
* * *
3482294 CGTTTGTATAAAAACGCCTCCAAAGTAT-TAATCTTTTGCGGTGTTTATTGAACAAAATGCCACT
1 CGTTTGTATAAAAACGCCGCTAAAGT-TCTAATCTATTGCGGTGTTTATTGAA-AAAATGCCACT
* *
3482358 ATGGGTGAACCCTATTGCTA
64 ATAGGTGAACCCTATTGCGA
* * *** * *
3482378 CATTTGTATAAAATCATTGCTAAAGTTCTAATCTATTACGGTGTTTATTG-AAAAACGCCACTAT
1 CGTTTGTATAAAAACGCCGCTAAAGTTCTAATCTATTGCGGTGTTTATTGAAAAAATGCCACTAT
3482442 AGGTGAACCCTATTGCGA
66 AGGTGAACCCTATTGCGA
* * * * *
3482460 CGTTTGTAAAAAAACGCCACTAAAGTACTAATCTATTGTGATGTTTATTGAAAAAATGCCACTAT
1 CGTTTGTATAAAAACGCCGCTAAAGTTCTAATCTATTGCGGTGTTTATTGAAAAAATGCCACTAT
* * *
3482525 AGATGGA-CCTATCGCGA
66 AGGTGAACCCTATTGCGA
* * * * * * * *
3482542 CGTTTGTGTAGAAACGCCGCTAAAGTACTACTCTGTTGCGGCGCTTATAGAAAAAATGCC
1 CGTTTGTATAAAAACGCCGCTAAAGTTCTAATCTATTGCGGTGTTTATTGAAAAAATGCC
3482602 GCTAAAGTTA
Statistics
Matches: 184, Mismatches: 38, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
82 125 0.68
83 20 0.11
84 39 0.21
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (83 bp):
CGTTTGTATAAAAACGCCGCTAAAGTTCTAATCTATTGCGGTGTTTATTGAAAAAATGCCACTAT
AGGTGAACCCTATTGCGA
Found at i:3482496 original size:41 final size:41
Alignment explanation
Indices: 3482451--3482609 Score: 97
Period size: 41 Copynumber: 3.9 Consensus size: 41
3482441 TAGGTGAACC
3482451 CTATTGCGACGTTTGTAAAAAAACGCCACTAAAGTACTAAT
1 CTATTGCGACGTTTGTAAAAAAACGCCACTAAAGTACTAAT
* * * * * * * *
3482492 CTATTGTGATGTTTATTGAAAAAATGCCACTATAG-A-TGGAC
1 CTATTGCGACGTTT-GTAAAAAAACGCCACTAAAGTACT-AAT
* ** * * *
3482533 CTATCGCGACGTTTGTGTAGAAACGCCGCTAAAGTACTACT
1 CTATTGCGACGTTTGTAAAAAAACGCCACTAAAGTACTAAT
* * * * * *
3482574 CTGTTGCGGCGCTTATAGAAAAAATGCCGCTAAAGT
1 CTATTGCGACGTTTGTA-AAAAAACGCCACTAAAGT
3482610 TACCATTTGG
Statistics
Matches: 84, Mismatches: 29, Indels: 9
0.69 0.24 0.07
Matches are distributed among these distances:
40 15 0.18
41 37 0.44
42 32 0.38
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (41 bp):
CTATTGCGACGTTTGTAAAAAAACGCCACTAAAGTACTAAT
Found at i:3482874 original size:13 final size:13
Alignment explanation
Indices: 3482856--3482899 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
3482846 TTTTATTTTC
*
3482856 AAAATAAAATATT
1 AAAATAATATATT
*
3482869 AAAATAGTATATT
1 AAAATAATATATT
*
3482882 AATATTAATATATT
1 AA-AATAATATATT
3482896 AAAA
1 AAAA
3482900 GATAATTGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAATAATATATT
Found at i:3489966 original size:20 final size:20
Alignment explanation
Indices: 3489932--3489977 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
3489922 TAGTGGCAGA
*
3489932 GAAGC-TACTATGTGGCTTG
1 GAAGCTTACTAGGTGGCTTG
3489951 GAAGCTTACTAGGTGGCTTG
1 GAAGCTTACTAGGTGGCTTG
*
3489971 AAAGCTT
1 GAAGCTT
3489978 GTCAGGCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (20 bp):
GAAGCTTACTAGGTGGCTTG
Found at i:3507152 original size:43 final size:43
Alignment explanation
Indices: 3507090--3507394 Score: 341
Period size: 43 Copynumber: 7.1 Consensus size: 43
3507080 GCGGCAATGG
* * *
3507090 CGCCGCAAAAGGTCGAGATCTGTAGCGGCATTTTTGGA-ACAAA
1 CGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGTATACAAA
* *
3507133 CGCCGCAAGAA-GTCAAGATCTATAGCGGTGTTTTTGCA-ACAAA
1 CGCCGCAA-AAGGTC-AGATCTATAGCGGCGTTTTTGTATACAAA
* * * * *
3507176 TGCCACAAAATGTCATATCTATAGCGGCGTTTTTGAATACAAA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAA
* *
3507219 CGCCGCAAAAGGTCAGATCTATAGTGGC-ATTTTGTATACAAA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAA
* * * *
3507261 TGCCACAAAAAGTCAGATCTATAGCGGTGTTTTTGTATACAAA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAA
* * * *
3507304 CGCTGCAAAAGGTCAGATCTATAACGGCGTTTTTGGACACAAA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAA
* * *
3507347 CACCGCAAAAGGCCATATCTATAGCGGCGTTTTT-TATACAAA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAA
3507389 CGCCGC
1 CGCCGC
3507395 TAATTTCAAT
Statistics
Matches: 219, Mismatches: 39, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
42 68 0.31
43 149 0.68
44 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (43 bp):
CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAA
Found at i:3507239 original size:85 final size:85
Alignment explanation
Indices: 3507107--3507394 Score: 332
Period size: 85 Copynumber: 3.4 Consensus size: 85
3507097 AAAGGTCGAG
* * *
3507107 ATCTGTAGCGGCATTTTTGGA-ACAAACGCCGCAAGAA-GTCAAGATCTATAGCGGTGTTTTTGC
1 ATCTATAGCGGCGTTTTTGTATACAAACGCCGCAA-AAGGTC-AGATCTATAGCGG-GTTTTTGC
*
3507170 A-ACAAATGCCACAAAATGTCAT
63 ACACAAATGCCACAAAAAGTCAT
* * ** * *
3507192 ATCTATAGCGGCGTTTTTGAATACAAACGCCGCAAAAGGTCAGATCTATAGTGGCATTTTGTATA
1 ATCTATAGCGGCGTTTTTGTATACAAACGCCGCAAAAGGTCAGATCTATAGCGGGTTTTTGCACA
*
3507257 CAAATGCCACAAAAAGTCAG
66 CAAATGCCACAAAAAGTCAT
* * * *
3507277 ATCTATAGCGGTGTTTTTGTATACAAACGCTGCAAAAGGTCAGATCTATAACGGCGTTTTTGGAC
1 ATCTATAGCGGCGTTTTTGTATACAAACGCCGCAAAAGGTCAGATCTATAGCGG-GTTTTTGCAC
** * * *
3507342 ACAAACACCGCAAAAGGCCAT
65 ACAAATGCCACAAAAAGTCAT
3507363 ATCTATAGCGGCGTTTTT-TATACAAACGCCGC
1 ATCTATAGCGGCGTTTTTGTATACAAACGCCGC
3507395 TAATTTCAAT
Statistics
Matches: 173, Mismatches: 26, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
84 6 0.03
85 113 0.65
86 54 0.31
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (85 bp):
ATCTATAGCGGCGTTTTTGTATACAAACGCCGCAAAAGGTCAGATCTATAGCGGGTTTTTGCACA
CAAATGCCACAAAAAGTCAT
Found at i:3507274 original size:128 final size:128
Alignment explanation
Indices: 3507090--3507392 Score: 385
Period size: 128 Copynumber: 2.4 Consensus size: 128
3507080 GCGGCAATGG
* * * *
3507090 CGCCGCAAAAGGTCGAGATCTGTAGCGGCATTTTTGGA-ACAAACGCCGCAAGAAGTCAAGATCT
1 CGCCGCAAAAGGTC-AGATCTATAGCGGCA-TTTTGTATACAAACGCCACAAAAAGTC-AGATCT
* * * * *
3507154 ATAGCGGTGTTTTTGCA-ACAAATGCCACAAAATGTCATATCTATAGCGGCGTTTTTGAATACAA
63 ATAGCGGTGTTTTTGCATACAAACGCCACAAAAGGTCAGATCTATAACGGCGTTTTTGAACACAA
3507218 A
128 A
* *
3507219 CGCCGCAAAAGGTCAGATCTATAGTGGCATTTTGTATACAAATGCCACAAAAAGTCAGATCTATA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCATTTTGTATACAAACGCCACAAAAAGTCAGATCTATA
* ** *
3507284 GCGGTGTTTTTGTATACAAACGCTGCAAAAGGTCAGATCTATAACGGCGTTTTTGGACACAAA
66 GCGGTGTTTTTGCATACAAACGCCACAAAAGGTCAGATCTATAACGGCGTTTTTGAACACAAA
* * * * *
3507347 CACCGCAAAAGGCCATATCTATAGCGGCGTTTTTTATACAAACGCC
1 CGCCGCAAAAGGTCAGATCTATAGCGGCATTTTGTATACAAACGCC
3507393 GCTAATTTCA
Statistics
Matches: 150, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
127 28 0.19
128 108 0.72
129 14 0.09
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (128 bp):
CGCCGCAAAAGGTCAGATCTATAGCGGCATTTTGTATACAAACGCCACAAAAAGTCAGATCTATA
GCGGTGTTTTTGCATACAAACGCCACAAAAGGTCAGATCTATAACGGCGTTTTTGAACACAAA
Found at i:3511227 original size:41 final size:41
Alignment explanation
Indices: 3511173--3511459 Score: 301
Period size: 41 Copynumber: 7.0 Consensus size: 41
3511163 GTTTGTAAAC
* * * * *
3511173 ACAAGTGTATAGCGGCATTTGAATAAAAACGTCACTAAAGT
1 ACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGT
* *
3511214 ACGAGTCTTTAGCGGCGTTTGTATAAAAACGTCACTAAAGT
1 ACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGT
* * * * *
3511255 ACGAGTCTTTAGCGGCCTTTGTATAAAAATGACACTAAATT
1 ACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGT
* * * *
3511296 ACAAG-CTTTTAGCGGCCTTTGTAAACACAAACGCCATTATAGT
1 ACAAGTC-TTTAGCGGCGTTTGTATA-A-AAACGCCACTAAAGT
* * * *
3511339 ACAAGTGTATAACGGCGTTTGTATAAAAATGCCACTAAAGT
1 ACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGT
* *
3511380 ACAATTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGT
1 ACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGT
* * *
3511421 ACGAGTC--TAGCGGTGTTTGTATAAAAACACCACTAAAGT
1 ACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGT
3511460 CCTACTCTTT
Statistics
Matches: 210, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
39 30 0.14
40 1 0.00
41 148 0.70
42 2 0.01
43 29 0.14
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (41 bp):
ACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGT
Found at i:3512614 original size:20 final size:20
Alignment explanation
Indices: 3512578--3512621 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3512568 TTAGAGAATA
*
3512578 TGAT-GCTTAATTTAACTGT
1 TGATCGCTTAATTCAACTGT
* *
3512597 TGATCGCTTCATTCAACTTT
1 TGATCGCTTAATTCAACTGT
3512617 TGATC
1 TGATC
3512622 TTACATTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (20 bp):
TGATCGCTTAATTCAACTGT
Found at i:3516680 original size:13 final size:12
Alignment explanation
Indices: 3516663--3516692 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
3516653 TTTTCACGTC
3516663 TTTTTTTTCTTT
1 TTTTTTTTCTTT
3516675 TATTTTTTTCTTT
1 T-TTTTTTTCTTT
3516688 TTTTT
1 TTTTT
3516693 CGAACAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:3524845 original size:20 final size:20
Alignment explanation
Indices: 3524820--3524860 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
3524810 GCCATTAGTT
3524820 ACTTAGAATTATGAAAAATG
1 ACTTAGAATTATGAAAAATG
3524840 ACTTAGAATTATGAAAAATG
1 ACTTAGAATTATGAAAAATG
3524860 A
1 A
3524861 TTACAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (20 bp):
ACTTAGAATTATGAAAAATG
Found at i:3525886 original size:21 final size:21
Alignment explanation
Indices: 3525842--3525885 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
3525832 ACAAGTTATG
*
3525842 AATAACATATATATCTATAAA
1 AATAACATATATATCCATAAA
3525863 AATAACATATATATCACATAAA
1 AATAACATATATATC-CATAAA
3525885 A
1 A
3525886 TTATACGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAACATATATATCCATAAA
Found at i:3526390 original size:24 final size:24
Alignment explanation
Indices: 3526358--3526406 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3526348 ACTGTCAATA
3526358 TCATTCTATTTTGATCTTTATGTT
1 TCATTCTATTTTGATCTTTATGTT
3526382 TCATTCTATTTTGATCTTTATGTT
1 TCATTCTATTTTGATCTTTATGTT
3526406 T
1 T
3526407 ACATGTCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.63
Consensus pattern (24 bp):
TCATTCTATTTTGATCTTTATGTT
Found at i:3527967 original size:54 final size:55
Alignment explanation
Indices: 3527882--3527987 Score: 187
Period size: 54 Copynumber: 1.9 Consensus size: 55
3527872 TAACACAAAG
* *
3527882 GTGCTTAATCAATTTTAAAGCACAGATGTGCCAAACTTTAGAT-TAAGCACATAT
1 GTGCTCAATCAATTTTAAAGCACAGAGGTGCCAAACTTTAGATATAAGCACATAT
3527936 GTGCTCAATCAATTTTAAAGCACAGAGGTGCCAAACTTTAGATATAAGCACA
1 GTGCTCAATCAATTTTAAAGCACAGAGGTGCCAAACTTTAGATATAAGCACA
3527988 GAGGTGCCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 41 0.84
55 8 0.16
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (55 bp):
GTGCTCAATCAATTTTAAAGCACAGAGGTGCCAAACTTTAGATATAAGCACATAT
Found at i:3527986 original size:28 final size:28
Alignment explanation
Indices: 3527899--3528022 Score: 150
Period size: 28 Copynumber: 4.5 Consensus size: 28
3527889 ATCAATTTTA
3527899 AAGCACAGATGTGCCAAACTTTAGAT-T
1 AAGCACAGATGTGCCAAACTTTAGATAT
* *
3527926 AAGCACATATGTGCTCAATCAATTT---TA-
1 AAGCACAGATGTGC-CAA--ACTTTAGATAT
*
3527953 AAGCACAGAGGTGCCAAACTTTAGATAT
1 AAGCACAGATGTGCCAAACTTTAGATAT
*
3527981 AAGCACAGAGGTGCCAAACTTTAGATAT
1 AAGCACAGATGTGCCAAACTTTAGATAT
3528009 AAGCACAGATGTGC
1 AAGCACAGATGTGC
3528023 TCAATCATTA
Statistics
Matches: 83, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.05
26 3 0.04
27 28 0.34
28 44 0.53
30 4 0.05
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (28 bp):
AAGCACAGATGTGCCAAACTTTAGATAT
Found at i:3528155 original size:110 final size:109
Alignment explanation
Indices: 3528012--3528268 Score: 275
Period size: 110 Copynumber: 2.3 Consensus size: 109
3528002 TAGATATAAG
* * * * * *
3528012 CACAGATGTGCTCAATCATTACAA-CATAAAGAGGTAT-TAGATTCTAGACTTAAGCACAGAGGT
1 CACAGAGGTGCTCAATCATTACAAGC--ACAGAGGT-TCCAGATTCTAGACTGAAGCAAAAAGGT
** * * *
3528075 GCTCAGTCATTTCTAACTACACAGAGGTGTCAATTTTTTTATTGAAA
63 GCAAAGTCATTTCTAACTACACAAAGGTGTCAATTTGTTGATTGAAA
*
3528122 CACATAGGTGCTCAATCATTACCAAGCACAGAGGTTCCAGATTCTAGACTGAAGCAAAAAGGTGC
1 CACAGAGGTGCTCAATCATTA-CAAGCACAGAGGTTCCAGATTCTAGACTGAAGCAAAAAGGTGC
* * * *
3528187 AAAGTCATTTTTAACTGCATAAAGGTGTCAGTTTGTTGATTGAAA
65 AAAGTCATTTCTAACTACACAAAGGTGTCAATTTGTTGATTGAAA
* *
3528232 TACAGAGGTGCTCAATCGTTAATTCAAGCACAGAGGT
1 CACAGAGGTGCTCAATCATT-A--CAAGCACAGAGGT
3528269 GCTATGAATT
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
109 1 0.01
110 103 0.84
111 4 0.03
112 14 0.11
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (109 bp):
CACAGAGGTGCTCAATCATTACAAGCACAGAGGTTCCAGATTCTAGACTGAAGCAAAAAGGTGCA
AAGTCATTTCTAACTACACAAAGGTGTCAATTTGTTGATTGAAA
Found at i:3528264 original size:28 final size:24
Alignment explanation
Indices: 3528233--3528297 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 24
3528223 TGATTGAAAT
3528233 ACAGAGGTGCTCAATCGTTAATTCAAGC
1 ACAGAGGTGCTCAAT-G--AATTCAA-C
3528261 ACAGAGGTGCT--ATGAATTCAAC
1 ACAGAGGTGCTCAATGAATTCAAC
*
3528283 ACAGTGGTGCTCAAT
1 ACAGAGGTGCTCAAT
3528298 TATTTTCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 11 0.32
23 7 0.21
24 2 0.06
25 1 0.03
26 2 0.06
28 11 0.32
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (24 bp):
ACAGAGGTGCTCAATGAATTCAAC
Found at i:3534187 original size:72 final size:72
Alignment explanation
Indices: 3534070--3534210 Score: 255
Period size: 72 Copynumber: 2.0 Consensus size: 72
3534060 CGTTTCTAGT
3534070 AGTATAGCATCAAAGGTAACTCACTCTCGACTCAACTATACCATATGTAAGTCATTTAGATGAAA
1 AGTATAGCATCAAAGGTAACTCACTCTCGACTCAACTATACCATATGTAAGTCATTTAGATGAAA
3534135 TGTAAGC
66 TGTAAGC
* * *
3534142 AGTATAGCATCAAATGTAACTCACTCTTGACTCAACTATACCATATGTAAGTCATTTAGATTAAA
1 AGTATAGCATCAAAGGTAACTCACTCTCGACTCAACTATACCATATGTAAGTCATTTAGATGAAA
3534207 TGTA
66 TGTA
3534211 GTAGGTTTGT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (72 bp):
AGTATAGCATCAAAGGTAACTCACTCTCGACTCAACTATACCATATGTAAGTCATTTAGATGAAA
TGTAAGC
Found at i:3534581 original size:64 final size:65
Alignment explanation
Indices: 3534507--3534662 Score: 217
Period size: 65 Copynumber: 2.4 Consensus size: 65
3534497 ACACCCTATT
*
3534507 TCGAATGCATTTTGTGTACCGATGCACAG-CCATGCATCGATGCACTCTTGAAT-TTATTGAAAC
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTT-TTGAAAC
3534570 A
65 A
** *
3534571 TCGAATGCATTTTACGTACCGATGCACAGACCATGCATCGATGCACTCCTGGATCTTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTTTTGAAACA
* * * *
3534636 TCGAATGTAATTAGTGTATCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
3534663 CCCTAGTGTA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 27 0.34
65 51 0.64
66 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTTTTGAAACA
Found at i:3540471 original size:21 final size:21
Alignment explanation
Indices: 3540447--3540528 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 21
3540437 ATGCATCCCT
3540447 TGAATGTGCATCGATACACTA
1 TGAATGTGCATCGATACACTA
*
3540468 TGAATGTGCACCGATGTATTC-CT-
1 TGAATGTGCATCGA--TA--CACTA
*
3540491 TGAATGTACATCGATACACTA
1 TGAATGTGCATCGATACACTA
* *
3540512 TGCA-GTGCATCGTTACA
1 TGAATGTGCATCGATACA
3540529 GTCGTCAGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
19 1 0.02
20 13 0.27
21 18 0.37
23 14 0.29
24 2 0.04
25 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (21 bp):
TGAATGTGCATCGATACACTA
Found at i:3540495 original size:44 final size:44
Alignment explanation
Indices: 3540410--3540513 Score: 156
Period size: 44 Copynumber: 2.4 Consensus size: 44
3540400 TTGTGCAAAA
*
3540410 TGCATCGATACACTA-GAAAGTGTACCGATGCATCCCTTGAATG
1 TGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAATG
* * *
3540453 TGCATCGATACACTATGAATGTGCACCGATGTATTCCTTGAATG
1 TGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAATG
*
3540497 TACATCGATACACTATG
1 TGCATCGATACACTATG
3540514 CAGTGCATCG
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 15 0.27
44 40 0.73
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAATG
Found at i:3541007 original size:13 final size:13
Alignment explanation
Indices: 3540989--3541028 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
3540979 CTCCATATTG
3540989 ATTTTCAAACATT
1 ATTTTCAAACATT
3541002 ATTTTCAAACA-T
1 ATTTTCAAACATT
3541014 AGTTTTCAAA-ATT
1 A-TTTTCAAACATT
3541027 AT
1 AT
3541029 CCATTAGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (13 bp):
ATTTTCAAACATT
Found at i:3543238 original size:65 final size:64
Alignment explanation
Indices: 3543113--3543248 Score: 211
Period size: 65 Copynumber: 2.1 Consensus size: 64
3543103 ACACCCTATT
*
3543113 TCGAATGCATTTTGTGTACCGATGCACAACCATGCATCGATGCACTCTTGAATTTATTGAAACA
1 TCGAATGCATTTTATGTACCGATGCACAACCATGCATCGATGCACTCTTGAATTTATTGAAACA
* **
3543177 TTGAATGCATTTTATGTACCGATGCACATACCATGCATCGATGCACTCTTGGCTCTT-TTGAAAC
1 TCGAATGCATTTTATGTACCGATGCACA-ACCATGCATCGATGCACTCTTGAAT-TTATTGAAAC
3543241 A
64 A
3543242 TCGAATG
1 TCGAATG
3543249 TAATTAGTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
64 26 0.40
65 37 0.57
66 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTATGTACCGATGCACAACCATGCATCGATGCACTCTTGAATTTATTGAAACA
Found at i:3543265 original size:65 final size:65
Alignment explanation
Indices: 3543113--3543267 Score: 201
Period size: 65 Copynumber: 2.4 Consensus size: 65
3543103 ACACCCTATT
*
3543113 TCGAATGCAT-TTTGTGTACCGATGCACAACCATGCATCGATGCACTCTTGAATTTATTGAAACA
1 TCGAATGCATATTAGTGTACCGATGCACAACCATGCATCGATGCACTCTTGAATTTATTGAAACA
* * **
3543177 TTGAATGCATTTTA-TGTACCGATGCACATACCATGCATCGATGCACTCTTGGCTCTT-TTGAAA
1 TCGAATGCATATTAGTGTACCGATGCACA-ACCATGCATCGATGCACTCTTGAAT-TTATTGAAA
3543240 CA
64 CA
* *
3543242 TCGAATGTA-ATTAGTGTATCGATGCA
1 TCGAATGCATATTAGTGTACCGATGCA
3543268 GCCCTAGTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 26 0.33
65 51 0.65
66 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (65 bp):
TCGAATGCATATTAGTGTACCGATGCACAACCATGCATCGATGCACTCTTGAATTTATTGAAACA
Found at i:3546079 original size:182 final size:181
Alignment explanation
Indices: 3545824--3546416 Score: 826
Period size: 182 Copynumber: 3.3 Consensus size: 181
3545814 AGGTAAAAAT
* *
3545824 ATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
1 ATGACAAAACCGGTAAAGCACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
* *
3545889 CACTTTTGGAATTTAAAAGAGAATCAGTAATAGCGTCTATAAATTGTTGATACTTTATAAAAATG
66 CACTTTTGGAATTTAAAAGAGAATCAGTAATAGCGTCTATAAAGTGTCGATACTTTATAAAAATG
* * *
3545954 TATCGATCCATAATAGTATAAAAGGTAAAAATATGACAAAATCAATATGGAA
131 TATCGATCCATAATA-TATAAAAGGTAAAAATATGACAAAATCAGTCTCGAA
* * *
3546006 ATGACAAAACCGGTAAACCACTACCGGATATGTTGAAAGTGTCGAAACTTTAATATAAGTATCGA
1 ATGACAAAACCGGTAAAGCACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
* *
3546071 CACTTTTGGAATTTAAAAGGGAATCAGTAATAGCCTCTATAAAGTGTCGATACTTTATAAAAATG
66 CACTTTTGGAATTTAAAAGAGAATCAGTAATAGCGTCTATAAAGTGTCGATACTTTATAAAAATG
* *
3546136 TATCGATCCATAATAATATAACAGGTAAAAATATGACAAAATTAGTCTCGAA
131 TATCGATCCATAAT-ATATAAAAGGTAAAAATATGACAAAATCAGTCTCGAA
* * * * *
3546188 ATGACAAAACCGATAAAG-AGCTACTAGATATATTGAAAGTGTTGATACTTTAATATAAGTATCA
1 ATGACAAAACCGGTAAAGCA-CTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCG
* * * *
3546252 ACACTTTTGGAATTTAAAAGAGAAACAGTAATAGTGCCTATAAAGTGTCAATACTTTATAAAAAT
65 ACACTTTTGGAATTTAAAAGAGAATCAGTAATAGCGTCTATAAAGTGTCGATACTTTATAAAAAT
** * * *
3546317 GTATTAATCCAT-A-A-AT-AAAGG-CAATATATGACAAAATCGGTCTCGAA
130 GTATCGATCCATAATATATAAAAGGTAAAAATATGACAAAATCAGTCTCGAA
*
3546364 ATGAC-AAACCGGT-AAGCACTACCAGATATTTTGAAAGTG-CTGATACTTTAATA
1 ATGACAAAACCGGTAAAGCACTACCAGATATGTTGAAAGTGTC-GATACTTTAATA
3546417 AGTATGCGTA
Statistics
Matches: 370, Mismatches: 37, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
174 34 0.09
175 8 0.02
176 27 0.07
177 4 0.01
178 2 0.01
179 1 0.00
181 2 0.01
182 291 0.79
183 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (181 bp):
ATGACAAAACCGGTAAAGCACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
CACTTTTGGAATTTAAAAGAGAATCAGTAATAGCGTCTATAAAGTGTCGATACTTTATAAAAATG
TATCGATCCATAATATATAAAAGGTAAAAATATGACAAAATCAGTCTCGAA
Found at i:3548447 original size:18 final size:18
Alignment explanation
Indices: 3548426--3548480 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
3548416 AGGTAGAGGC
*
3548426 GGCAGAGGAGGAAGTGGA
1 GGCAGTGGAGGAAGTGGA
* *
3548444 GGCAGTGGATGCAGTGGA
1 GGCAGTGGAGGAAGTGGA
*
3548462 GGCAGTGGAGGAAGAGGA
1 GGCAGTGGAGGAAGTGGA
3548480 G
1 G
3548481 AAGGAAGAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.07, G:0.55, T:0.09
Consensus pattern (18 bp):
GGCAGTGGAGGAAGTGGA
Found at i:3548480 original size:9 final size:9
Alignment explanation
Indices: 3548426--3548472 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
3548416 AGGTAGAGGC
*
3548426 GGCAGAGGA
1 GGCAGTGGA
*
3548435 GGAAGTGGA
1 GGCAGTGGA
3548444 GGCAGTGGA
1 GGCAGTGGA
*
3548453 TGCAGTGGA
1 GGCAGTGGA
3548462 GGCAGTGGA
1 GGCAGTGGA
3548471 GG
1 GG
3548473 AAGAGGAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.26, C:0.09, G:0.55, T:0.11
Consensus pattern (9 bp):
GGCAGTGGA
Found at i:3549120 original size:128 final size:126
Alignment explanation
Indices: 3548887--3549207 Score: 335
Period size: 128 Copynumber: 2.5 Consensus size: 126
3548877 TTTAAAGTAT
** * *** * *
3548887 TAGGTAAATTTACAATGTAAGTGGTAAAAATACACTTTTTTAAATGACAAAATTAGTAAACATAA
1 TAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTT-AATGAGAAAA-TAGTCAACATAA
* * * * * *
3548952 TGTGTCGATATTTTTTAAAATTGTATCGATCCCAACAACATAGGAACCGATAATTA-TAATGTAA
64 AGTGTCAATATTTATTAAAA-TGTATCGATCACAAAAACATAGAAACCGATAATTAGT-ATGTAA
* *
3549016 TAGGTAAATTTACAATGTAACCGGTAGAAATATACCAGTTTAATTAGAAAATAGGTCAACATAAA
1 TAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTTAATGAGAAAATA-GTCAACATAAA
*
3549081 GTGTCAATACATTTATTAAAA-GTATCGATCACAAAAACATTGAAACCGATAATTAGTATGTAA
65 GTGTCAAT--ATTTATTAAAATGTATCGATCACAAAAACATAGAAACCGATAATTAGTATGTAA
* * * *
3549144 TACGTAAATTTACAATGTAACGGGTATAAAA-ATA-CATGTTTTATGAGAAAATATGTCTACATA
1 TAGGTAAATTTACAATGTAACCGGTA-AAAATATACCA-GTTTAATGAGAAAATA-GTCAACATA
3549207 A
63 A
3549208 TGTATCGACA
Statistics
Matches: 162, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
127 4 0.02
128 110 0.68
129 38 0.23
130 10 0.06
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (126 bp):
TAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTTAATGAGAAAATAGTCAACATAAAG
TGTCAATATTTATTAAAATGTATCGATCACAAAAACATAGAAACCGATAATTAGTATGTAA
Found at i:3549603 original size:199 final size:199
Alignment explanation
Indices: 3549075--3550635 Score: 2045
Period size: 199 Copynumber: 7.8 Consensus size: 199
3549065 AATAGGTCAA
* * * * **
3549075 CATAAAGTGTCAATACATTTATTAAA-AGTATCGATCACAAAAACATTGAAACCGATAATTAGTA
1 CATAAAGTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAA
* * * * ** *
3549139 TGTAATACGTAAATTTACAATGTAACGGGTATAAAAATACATGTTTTATGAGAAAATATGTCTAC
64 TGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTAC
* * * * * *
3549204 ATAATGTATCG-ACATATTTTAAATTTGTCTCGATACTTTTTGTCCAGAATAAATGACAAACTAG
129 ATAAAGTATCGAACA-CTTTTAAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAG
3549268 GTGCACG
193 GTGCACG
* * * * * * *
3549275 CATAAAGTGTCGATACATTTATTAAA-AGAATCAATCCTAAAAATATCAAAACCGATAATTATAA
1 CATAAAGTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAA
* * *
3549339 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAC
64 TGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTAC
* * *
3549404 ATAATGTATCGAA-ACTTTCTAAATATGTGTCGATACATTTTGTCCAAAATGAATGCCAAACTAG
129 ATAAAGTATCGAACACTTT-TAAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAG
3549468 GTGCACG
193 GTGCACG
* * *
3549475 CATAAAGTGTCGATACATTTTAAATTATATCGATCCCAAAAACATCAAAACCGATAATTACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATG
* *
3549540 TAACAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAAGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
** * *
3549605 AAAGTATCGACACAAATTTAAA-AAGTGTCGATACTTTTTGTCCAGAATGAATGTCAAACTAGGT
131 AAAGTATCGA-ACACTTTTAAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGT
3549669 GCACG
195 GCACG
* * **
3549674 CATAAAGTGTCGATACATTTAAAATTGTATCAATCCCAAAAATATTAAAACCGATAATTACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATG
* * **
3549739 TAATGGGTAAATTTACAATGTACCCGGTAGAAATATATTGGTTTTATGAGAAAATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
* * * * * *
3549804 AAAGTAT-TAACACAAATTTAAA-ATGTGTCGGTACGTTTTGACCAGAATGAATGTCAAACTAGG
131 AAAGTATCGAACAC--TTTTAAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGG
*
3549867 TACACG
194 TGCACG
* *
3549873 CATAAAGTGTTGATACATTTAAAATTGTATCGATCTCAAAAACATCGAAACCG-TAATTACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATG
* * * * *
3549937 T-ATAGGTAAATTTAGAATCTAACTGGTAGAAATATACC--ATTTATAAGAAAATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
** * *
3549999 AAAGTATCGACACAAATTTAAA-AAGTGTCGATACTTTTTGACCAGAATGAATGCCAAACTAGGT
131 AAAGTATCGA-ACACTTTTAAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGT
*
3550063 GTACG
195 GCACG
* *
3550068 CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAATATTGAAACCGATAATTACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATG
*
3550133 TAATAGGTAAATTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
*
3550198 AAAGTATCG-ACACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGT
131 AAAGTATCGAACACTTT-TAAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGT
3550262 GCACG
195 GCACG
* * *
3550267 CATAAAATGTCGATACATTTTAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATG
* **
3550332 TAATAGGTAAATTTACAATGTAACCGGTATACGTATACCGGTTTTATGAGAAAATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
* * * * * *
3550397 AATGTATC-AACGCTTTCTATATTTGTGTCGATACGTTTTGTCCAGAATAAATGCCAAACTAGGT
131 AAAGTATCGAACACTTT-TAAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGT
3550461 GCACG
195 GCACG
* * * *
3550466 CATGAAGTGTCGATACATTTAAAATTTTATCGATCCCAAAACCATCGAAACTGATAATTACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATG
* * *
3550531 TAATAGGTAAATTTACAATGTAACCGTTATAAATATATCGGTTTTATGAGAAAATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
** *
3550596 ATTGTATC-AACACTTTCTAAATTTGTGTCGATACCTTTTT
131 AAAGTATCGAACACTTT-TAAATATGTGTCGATA-CTTTTT
3550636 TAAATTGCGC
Statistics
Matches: 1216, Mismatches: 128, Indels: 34
0.88 0.09 0.02
Matches are distributed among these distances:
195 126 0.10
196 13 0.01
197 74 0.06
198 20 0.02
199 779 0.64
200 200 0.16
201 4 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (199 bp):
CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATG
TAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
AAAGTATCGAACACTTTTAAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGTG
CACG
Found at i:3550258 original size:593 final size:592
Alignment explanation
Indices: 3549075--3550596 Score: 2090
Period size: 593 Copynumber: 2.6 Consensus size: 592
3549065 AATAGGTCAA
* * * **
3549075 CATAAAGTGTCAATACATTTATTAAA-AGTATCGATCACAAAAACATTGAAACCGATAATTAGTA
1 CATAAAGTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATTGAAACCGATAATTACAA
* * * *
3549139 TGTAATACGTAAATTTACAATGTAACGGGTATAAAAATACAT-GTTTTATGAGAAAATATGTCTA
64 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATA-ATGGTTTTATGAGAAAATAGGTCTA
* * * *
3549203 CATAATGTATCGACATATTTTAAATTTGTCTCGATACTTTTTGTCCAGAATAAATGACAAACTAG
128 CATAATGTATCAACACATTTTAAA-TTGTGTCGATACGTTTTGTCCAGAATAAATGACAAACTAG
* * * * *
3549268 GTGCACGCATAAAGTGTCGATACATTTATTAAA-AGAATCAATCCTAAAAATATCAAAACCGATA
192 GTGCACGCATAAAGTGTCGATACATTTA--AAATTGTATCGATCC-AAAAACATCGAAACCGATA
* *
3549332 ATTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAGAATA
254 ATTACAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACC--TTTTATGAGAAAATA
* ** * *
3549397 GGTCTACATAATGTATCGAAACTTTCTAAATATGTGTCGATACATTTTGTCCAAAATGAATGCCA
317 GGTCTACATAAAGTATCGAAAAATTCTAAATAAGTGTCGATACATTTTGACCAAAATGAATGCCA
*
3549462 AACTAGGTGCACGCATAAAGTGTCGATACATTTTAAATTATATCGATCCCAAAAACATCAAAACC
382 AACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTATATCGATCCCAAAAACATCAAAACC
*
3549527 GATAATTACAATGTAACAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTTATGAGAA
447 GATAATTACAATGTAACAGGTAAATTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAA
3549592 AATAAGTCTACATAAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAAT
512 AATAAGTCTACATAAAGTATCGACAC-AATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAAT
*
3549657 GTCAAACTAGGTGCACG
576 GCCAAACTAGGTGCACG
* * *
3549674 CATAAAGTGTCGATACATTTAAAATTGTATCAATCCCAAAAATATTAAAACCGATAATTACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTACAATG
* * * *
3549739 TAATGGGTAAATTTACAATGTACCCGGTAGAAATATATTGGTTTTATGAGAAAATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTATAAATATAATGGTTTTATGAGAAAATAGGTCTACAT
* * * * * * * * *
3549804 AAAGTATTAACACAAATTTAAAATGTGTCGGTACGTTTTGACCAGAATGAATGTCAAACTAGGTA
131 AATGTATCAACAC-ATTTTAAATTGTGTCGATACGTTTTGTCCAGAATAAATGACAAACTAGGTG
*
3549869 CACGCATAAAGTGTTGATACATTTAAAATTGTATCGATCTCAAAAACATCGAAACCG-TAATTAC
195 CACGCATAAAGTGTCGATACATTTAAAATTGTATCGATC-CAAAAACATCGAAACCGATAATTAC
* * * * *
3549933 AATGT-ATAGGTAAATTTAGAATCTAACTGGTAGAAATATACCATTTATAAGAAAATAGGTCTAC
259 AATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCTTTTATGAGAAAATAGGTCTAC
* *
3549997 ATAAAGTATCGACACAAATT-TAAA-AAGTGTCGATACTTTTTGACCAGAATGAATGCCAAACTA
324 ATAAAGTATCGA-A-AAATTCTAAATAAGTGTCGATACATTTTGACCAAAATGAATGCCAAACTA
* * * **
3550060 GGTGTACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAATATTGAAACCGATAA
387 GGTGCACGCATAAAGTGTCGATACATTTAAAATTATATCGATCCCAAAAACATCAAAACCGATAA
* *
3550125 TTACAATGTAATAGGTAAATTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATAG
452 TTACAATGTAACAGGTAAATTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATAA
* **
3550190 GTCTACATAAAGTATCGACAC-TTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCA
517 GTCTACATAAAGTATCGACACAATT-TAAA-AAGTGTCGATACTTTTTGTCCAGAATGAATGCCA
3550254 AACTAGGTGCACG
580 AACTAGGTGCACG
* *
3550267 CATAAAATGTCGATACATTTTAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTACAATG
** **
3550332 TAATAGGTAAATTTACAATGTAACCGGTATACGTATACCGGTTTTATGAGAAAATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTATAAATATAATGGTTTTATGAGAAAATAGGTCTACAT
* * *
3550397 AATGTATCAACGC-TTTCTATATTTGTGTCGATACGTTTTGTCCAGAATAAATGCCAAACTAGGT
131 AATGTATCAACACATTT-TA-AATTGTGTCGATACGTTTTGTCCAGAATAAATGACAAACTAGGT
* * * *
3550461 GCACGCATGAAGTGTCGATACATTTAAAATTTTATCGATCCCAAAACCATCGAAACTGATAATTA
194 GCACGCATAAAGTGTCGATACATTTAAAATTGTATCGAT-CCAAAAACATCGAAACCGATAATTA
* * *
3550526 CAATGTAATAGGTAAATTTACAATGTAACCGTTATAAATATATCGGTTTTATGAGAAAATAGGTC
258 CAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATA-C-CTTTTATGAGAAAATAGGTC
3550591 TACATA
321 TACATA
3550597 TTGTATCAAC
Statistics
Matches: 809, Mismatches: 98, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
591 4 0.00
592 6 0.01
593 467 0.58
594 18 0.02
595 67 0.08
596 15 0.02
597 48 0.06
598 157 0.19
599 27 0.03
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (592 bp):
CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTACAATG
TAATAGGTAAATTTACAATGTAACCGGTATAAATATAATGGTTTTATGAGAAAATAGGTCTACAT
AATGTATCAACACATTTTAAATTGTGTCGATACGTTTTGTCCAGAATAAATGACAAACTAGGTGC
ACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAACATCGAAACCGATAATTACAA
TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCTTTTATGAGAAAATAGGTCTACAT
AAAGTATCGAAAAATTCTAAATAAGTGTCGATACATTTTGACCAAAATGAATGCCAAACTAGGTG
CACGCATAAAGTGTCGATACATTTAAAATTATATCGATCCCAAAAACATCAAAACCGATAATTAC
AATGTAACAGGTAAATTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATAAGTCT
ACATAAAGTATCGACACAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAG
GTGCACG
Found at i:3550983 original size:18 final size:17
Alignment explanation
Indices: 3550929--3550987 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
3550919 GTTGTTCAAA
3550929 CTTCTTCTCAACCAA-G
1 CTTCTTCTCAACCAACG
*
3550945 C-TCTTCTCAATGACAAC-
1 CTTCTTCTCAA--CCAACG
3550962 CTTCTTCTCAACCAATCG
1 CTTCTTCTCAACCAA-CG
3550980 CTTCTTCT
1 CTTCTTCT
3550988 GAGCAAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 9 0.26
16 4 0.11
17 5 0.14
18 17 0.49
ACGTcount: A:0.22, C:0.37, G:0.05, T:0.36
Consensus pattern (17 bp):
CTTCTTCTCAACCAACG
Found at i:3553410 original size:199 final size:199
Alignment explanation
Indices: 3552998--3554645 Score: 2190
Period size: 199 Copynumber: 8.2 Consensus size: 199
3552988 ATCTATAATT
* *
3552998 TTTAAAATTGTATCGATCCTAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTATA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
* ** * * *
3553063 ATATAACTGGTAGAAATATACC-G-CCTATGAGAAAACAGGTCTACATAATGTATCGTCACTTTC
66 ATATAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
* *
3553126 TAAATTTGTATCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCATGCATAAAGTGTCGA
131 TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
3553191 TACA
196 TACA
3553195 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
* * *
3553260 ATGTAA-CGGTAGAAATATACCAGTATTATGAGAAAATAGGCCTACATAATGTATCGACACTTTA
66 ATATAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
* * * * *
3553324 TAAATTTGTGTCGATACTTTTTTTTCCAGAATGAATACCCAACGAGGTACACGCATAAAGTATTG
131 TAAATTTGTGTCGATAC-TTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCG
3553389 ATACA
195 ATACA
* * *
3553394 TTTAAAATTTTATCGATCTCAAAAACATCAAAACCTATAATTATAATGTAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
* * ** *
3553459 ATGTAACCGGTAAAAATATA-TTGATTTTAGGAGAAAATAGGTCTACATAATGTATCGACACTTT
66 ATATAACCGGTAGAAATATACCAG-TTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTT
* * **
3553523 ATAAATTTGTGTCGATACTTTTTATCCAGAATGAATTCCCAATAAGGTGCACGCATAAAGTGTCG
130 ATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCG
3553588 ATACA
195 ATACA
* *
3553593 TTTAAAATTATATCGATCCCAAAAGCATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
* * *
3553658 ATATAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTATACATAATGTATCGATACTTTC
66 ATATAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
* *
3553723 TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAACGAGGTGCACACATAAAGTGTCGA
131 TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
3553788 TACA
196 TACA
* * * *
3553792 TTTAAAATTGTATCGGTCACAAAAACATTGAAACCTATAATTATAATGTAATAGGTAAATTTAAA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
* * *
3553857 ATATAACCGGTAGAAATATACCAATTTTATGAGAAAATAGGCCTACATAATGTATCGACACTTTC
66 ATATAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
* *
3553922 TAAATTTGTGGCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGTACGCATAAAGTGTCGA
131 TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
3553987 TACA
196 TACA
*
3553991 TTTAAAATTGTATCGATCCCAAAAATATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
* * *
3554056 ATGTAACCGGTAAATTTACAATGTAATCGGTAGAAATATACCGGTTTTAGGAGAAAATAAGTCTA
66 A--T-A----T--A---AC--------CGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTA
* * *
3554121 TATAATGTATCGACACTTTATAAATTTGTGTCAATACTTTTTTTCCAGAATGAATGCCCAACGAG
111 CATAATGTATCGACACTTTATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAG
3554186 GTGCACGCATAAAGTGTCGATACA
176 GTGCACGCATAAAGTGTCGATACA
* *
3554210 TTTAAAATTGTATCGATCACAAAAGCATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
* * * *
3554275 ATATAACCGGTA-AAATATACCGGTTTTATGAGAAAATAAGTCTACATATTGTATCGACACTTTT
66 ATATAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
* * * * * *
3554339 TAAATTTTTGTCGATA----TTGTCCAAAATGAATGCCCAACAAAGTGCACGCATAAAATGTCAA
131 TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
3554400 TACA
196 TACA
* * *
3554404 TTTAAAATTGTATCGATCCCAAAAATATCGAAACCGATAATTATAATGTAATATGTAACA-TTAC
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAA-ATTTAC
* * * ** * *
3554468 AATGTAACCGGTAGAAATATACCAG-TTAATTAGAAAATAAATCAACATAATGTATCGATACTTT
65 AATATAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTT
* * * * * * * * *
3554532 TTAAA-TTGTGTCGATATTTTTTGTCCAGAATGAATGTCAAACGAGATCCACGCGTAAACTATCG
130 ATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCG
3554596 ATACA
195 ATACA
* *
3554601 TTTATTAAA-AGTATCGATCCCAAAAACATC-AAAACTCATAATTAT
1 TTTA--AAATTGTATCGATCCCAAAAACATCGAAACCT-ATAATTAT
3554646 GTTATATAAG
Statistics
Matches: 1291, Mismatches: 125, Indels: 69
0.87 0.08 0.05
Matches are distributed among these distances:
193 10 0.01
194 150 0.12
195 11 0.01
196 14 0.01
197 115 0.09
198 139 0.11
199 593 0.46
200 68 0.05
201 1 0.00
202 1 0.00
206 1 0.00
207 2 0.00
208 1 0.00
210 1 0.00
211 2 0.00
212 1 0.00
216 1 0.00
217 1 0.00
219 179 0.14
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (199 bp):
TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
ATATAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
TACA
Found at i:3554060 original size:20 final size:20
Alignment explanation
Indices: 3554035--3554087 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
3554025 CTATAATTAT
*
3554035 AATGTAATAGGTAAATTTAC
1 AATGTAATCGGTAAATTTAC
*
3554055 AATGTAACCGGTAAATTTAC
1 AATGTAATCGGTAAATTTAC
3554075 AATGTAATCGGTA
1 AATGTAATCGGTA
3554088 GAAATATACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (20 bp):
AATGTAATCGGTAAATTTAC
Found at i:3554215 original size:219 final size:219
Alignment explanation
Indices: 3553836--3554288 Score: 726
Period size: 219 Copynumber: 2.1 Consensus size: 219
3553826 CTATAATTAT
** * *
3553836 AATGTAATAGGTAAATTTAAAATATAACCGGTAGAAATATACCAATTTTATGAGAAAATAGGCCT
1 AATGTAACCGGTAAATTTAAAATATAACCGGTAGAAATATACCAATTTTAGGAGAAAATAAGCCT
* *
3553901 ACATAATGTATCGACACTTTCTAAATTTGTGGCGATACTTTTTGTCCAGAATGAATGCCCAACGA
66 ACATAATGTATCGACACTTTATAAATTTGTGGCAATACTTTTTGTCCAGAATGAATGCCCAACGA
* * *
3553966 GGTGTACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAATATCGAAACCTATAA
131 GGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCACAAAAACATCGAAACCTATAA
3554031 TTATAATGTAATAGGTAAATTTAC
196 TTATAATGTAATAGGTAAATTTAC
* * * ** *
3554055 AATGTAACCGGTAAATTTACAATGTAATCGGTAGAAATATACCGGTTTTAGGAGAAAATAAGTCT
1 AATGTAACCGGTAAATTTAAAATATAACCGGTAGAAATATACCAATTTTAGGAGAAAATAAGCCT
* * *
3554120 ATATAATGTATCGACACTTTATAAATTTGTGTCAATACTTTTTTTCCAGAATGAATGCCCAACGA
66 ACATAATGTATCGACACTTTATAAATTTGTGGCAATACTTTTTGTCCAGAATGAATGCCCAACGA
*
3554185 GGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCACAAAAGCATCGAAACCTATAA
131 GGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCACAAAAACATCGAAACCTATAA
3554250 TTATAATGTAATAGGTAAATTTAC
196 TTATAATGTAATAGGTAAATTTAC
*
3554274 AATATAACCGGTAAA
1 AATGTAACCGGTAAA
3554289 ATATACCGGT
Statistics
Matches: 214, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
219 214 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (219 bp):
AATGTAACCGGTAAATTTAAAATATAACCGGTAGAAATATACCAATTTTAGGAGAAAATAAGCCT
ACATAATGTATCGACACTTTATAAATTTGTGGCAATACTTTTTGTCCAGAATGAATGCCCAACGA
GGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCACAAAAACATCGAAACCTATAA
TTATAATGTAATAGGTAAATTTAC
Found at i:3554894 original size:23 final size:23
Alignment explanation
Indices: 3554862--3554909 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
3554852 GTAATTAACT
* *
3554862 TATTTTATTATATAAATGCTATC
1 TATTTCATTATATAAATGATATC
3554885 TATTTCATTATATAAATGATATC
1 TATTTCATTATATAAATGATATC
3554908 TA
1 TA
3554910 ATATGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (23 bp):
TATTTCATTATATAAATGATATC
Found at i:3554937 original size:87 final size:87
Alignment explanation
Indices: 3554765--3554930 Score: 228
Period size: 87 Copynumber: 1.9 Consensus size: 87
3554755 AACAAATTAA
* * *
3554765 GTAATTAACATATTTTATTATATAAACGCTAACTATTACGTTATATAAGCGTTACTTAATATGTT
1 GTAATTAACATATTTTATTATATAAACGCTAACTATTACATTATATAAACGATACTTAATATGTT
*
3554830 ATTGTGCTTAATAATGTTTCAT
66 ATTGTACTTAATAATGTTTCAT
* * * * *
3554852 GTAATTAACTTATTTTATTATATAAATGCTATCTATTTCATTATATAAATGATA-TCTAATATGT
1 GTAATTAACATATTTTATTATATAAACGCTAACTATTACATTATATAAACGATACT-TAATATGT
3554916 TATTGTACTT-ATAAT
65 TATTGTACTTAATAAT
3554931 ATTTTCAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
86 6 0.09
87 63 0.91
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (87 bp):
GTAATTAACATATTTTATTATATAAACGCTAACTATTACATTATATAAACGATACTTAATATGTT
ATTGTACTTAATAATGTTTCAT
Found at i:3557864 original size:7 final size:7
Alignment explanation
Indices: 3557852--3557879 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3557842 GCATGTAGTA
3557852 TTTTAAC
1 TTTTAAC
3557859 TTTTAAC
1 TTTTAAC
3557866 TTTTAAC
1 TTTTAAC
3557873 TTTTAAC
1 TTTTAAC
3557880 CTTGCTTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTTAAC
Found at i:3558347 original size:24 final size:26
Alignment explanation
Indices: 3558305--3558352 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
3558295 GAACTCAAAA
*
3558305 AAAATTTAGAAGCTCGATTGAAGTCT
1 AAAATTTAGAAGCTCGATTAAAGTCT
*
3558331 AAAATTT-G-AGCTTGATTAAAGT
1 AAAATTTAGAAGCTCGATTAAAGT
3558353 GAAAGAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 1 0.05
26 7 0.35
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (26 bp):
AAAATTTAGAAGCTCGATTAAAGTCT
Found at i:3558787 original size:24 final size:24
Alignment explanation
Indices: 3558756--3558804 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3558746 ACTTGTGATA
3558756 TAAAAATTATTTTTTATTAAATAT
1 TAAAAATTATTTTTTATTAAATAT
3558780 TAAAAATTATTTTTTATTAAATAT
1 TAAAAATTATTTTTTATTAAATAT
3558804 T
1 T
3558805 TTTAGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TAAAAATTATTTTTTATTAAATAT
Found at i:3560569 original size:23 final size:24
Alignment explanation
Indices: 3560525--3560570 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3560515 TATTTTATAA
*
3560525 AATTTAATTGTTTAAAATATTTAC
1 AATTAAATTGTTTAAAATATTTAC
3560549 AATTAAATT-TTTGAAAA-ATTTA
1 AATTAAATTGTTT-AAAATATTTA
3560571 TCTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
AATTAAATTGTTTAAAATATTTAC
Found at i:3561572 original size:41 final size:42
Alignment explanation
Indices: 3561513--3561655 Score: 177
Period size: 41 Copynumber: 3.5 Consensus size: 42
3561503 TTTTGCAGCG
*
3561513 TTTTTATACAAACACCGCAATATGTGTAATA-TATAGTGGCGT
1 TTTTTA-ACAAACGCCGCAATATGTGTAATACTATAGTGGCGT
* * * *
3561555 TTTTTAACAAACGCCGCAAAATAT-TTATACTTTAGTGGCGT
1 TTTTTAACAAACGCCGCAATATGTGTAATACTATAGTGGCGT
* *
3561596 TTTTGT-ACAAACGCCGCAATAGGTGTAA-ACTACAGTGGCGT
1 TTTT-TAACAAACGCCGCAATATGTGTAATACTATAGTGGCGT
3561637 TTTTTAACAAACGCCGCAA
1 TTTTTAACAAACGCCGCAA
3561656 AATATTTGTA
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
40 5 0.06
41 72 0.84
42 9 0.10
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (42 bp):
TTTTTAACAAACGCCGCAATATGTGTAATACTATAGTGGCGT
Found at i:3561605 original size:82 final size:82
Alignment explanation
Indices: 3561510--3561662 Score: 254
Period size: 82 Copynumber: 1.9 Consensus size: 82
3561500 GACTTTTGCA
* *
3561510 GCGTTTTTATACAAACACCGCAATATGTGTAATA-TATAGTGGCGTTTTTTAACAAACGCCGCAA
1 GCGTTTTTATACAAACACCGCAATAGGTGTAA-ACTACAGTGGCGTTTTTTAACAAACGCCGCAA
3561574 AATATTTATACTTTAGTG
65 AATATTTATACTTTAGTG
* *
3561592 GCGTTTTTGTACAAACGCCGCAATAGGTGTAAACTACAGTGGCGTTTTTTAACAAACGCCGCAAA
1 GCGTTTTTATACAAACACCGCAATAGGTGTAAACTACAGTGGCGTTTTTTAACAAACGCCGCAAA
3561657 ATATTT
66 ATATTT
3561663 GTAGTTTAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
81 1 0.02
82 65 0.98
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (82 bp):
GCGTTTTTATACAAACACCGCAATAGGTGTAAACTACAGTGGCGTTTTTTAACAAACGCCGCAAA
ATATTTATACTTTAGTG
Found at i:3561679 original size:41 final size:41
Alignment explanation
Indices: 3561513--3561671 Score: 130
Period size: 41 Copynumber: 3.9 Consensus size: 41
3561503 TTTTGCAGCG
* * *
3561513 TTTTTATACAAACACCGC--AATATGTGTAATATATAGTGGCGT
1 TTTTTA-ACAAACGCCGCAAAATATTTGTAAT-T-TAATGGCGT
* * *
3561555 TTTTTAACAAACGCCGCAAAATATTTATACTTTAGTGGCGT
1 TTTTTAACAAACGCCGCAAAATATTTGTAATTTAATGGCGT
** **
3561596 TTTTGT-ACAAACGCCGC--AATAGGTGTAAACTACAGTGGCGT
1 TTTT-TAACAAACGCCGCAAAATATTTGTAATTTA-A-TGGCGT
*
3561637 TTTTTAACAAACGCCGCAAAATATTTGTAGTTTAA
1 TTTTTAACAAACGCCGCAAAATATTTGTAATTTAA
3561672 CGACGTTTCT
Statistics
Matches: 93, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
39 9 0.10
40 1 0.01
41 55 0.59
42 9 0.10
43 19 0.20
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (41 bp):
TTTTTAACAAACGCCGCAAAATATTTGTAATTTAATGGCGT
Found at i:3561679 original size:82 final size:82
Alignment explanation
Indices: 3561511--3561679 Score: 241
Period size: 82 Copynumber: 2.1 Consensus size: 82
3561501 ACTTTTGCAG
* *
3561511 CGTTTTTATACAAACACCGCAATATGTGTAATATATAGTGGCGTTTTTTAACAAACGCCGCAAAA
1 CGTTTTTATACAAACACCGCAATAGGTGTAATATACAGTGGCGTTTTTTAACAAACGCCGCAAAA
** *
3561576 TATTTATACTTTAGTGG
66 TATTTATACTTTAACGA
* *
3561593 CGTTTTTGTACAAACGCCGCAATAGGTGTAA-ACTACAGTGGCGTTTTTTAACAAACGCCGCAAA
1 CGTTTTTATACAAACACCGCAATAGGTGTAATA-TACAGTGGCGTTTTTTAACAAACGCCGCAAA
* *
3561657 ATATTTGTAGTTTAACGA
65 ATATTTATACTTTAACGA
3561675 CGTTT
1 CGTTT
3561680 CTTTTTAAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 1 0.01
82 76 0.99
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (82 bp):
CGTTTTTATACAAACACCGCAATAGGTGTAATATACAGTGGCGTTTTTTAACAAACGCCGCAAAA
TATTTATACTTTAACGA
Found at i:3564701 original size:21 final size:20
Alignment explanation
Indices: 3564660--3564702 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
3564650 TCATTAGTCT
3564660 ATTTATGTTTCTTAACATCA
1 ATTTATGTTTCTTAACATCA
*
3564680 ATTT-TGTTTTTTATACTATCA
1 ATTTATGTTTCTTA-AC-ATCA
3564701 AT
1 AT
3564703 ATTACTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 6 0.30
21 6 0.30
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTTATGTTTCTTAACATCA
Found at i:3565878 original size:43 final size:43
Alignment explanation
Indices: 3565823--3566204 Score: 611
Period size: 43 Copynumber: 8.9 Consensus size: 43
3565813 TTTGTATAAA
*
3565823 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTTGTCCC
* * * *
3565866 AAAAACGTCGCTATAAATCTCAACCTATTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTTGTCCC
*
3565909 AAAAACGTCGCTATAGATCTCGACCTATTGCGGCGTTTGTCCC
1 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTTGTCCC
* * *
3565952 AAAAACGCCGCTATATATCTCGACCTATTGAGGCATTTGTCCC
1 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTTGTCCC
* *
3565995 AAAAACGCCGCTATAGATCTCAACCTATTGAGGCGTTTGTCCC
1 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTTGTCCC
* *
3566038 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCATTTCTCCC
1 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTTGTCCC
*
3566081 AAAAACGCCGCTATAGATCTCGACCTATTGCGGTGTTTGTCCC
1 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTTGTCCC
* *
3566124 TAAAACGCCGCTATAGATCTCGAACTATTGCGGCGTTTGTCCC
1 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTTGTCCC
*
3566167 AAAAACGCCGCTATAGATCTCAACCTATTGCGGCGTTT
1 AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTT
3566205 TTGTTCACAA
Statistics
Matches: 313, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 313 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
AAAAACGCCGCTATAGATCTCGACCTATTGCGGCGTTTGTCCC
Found at i:3569246 original size:13 final size:13
Alignment explanation
Indices: 3569228--3569403 Score: 63
Period size: 13 Copynumber: 12.8 Consensus size: 13
3569218 ATATAATTAT
3569228 TATAAACTATATA
1 TATAAACTATATA
* *
3569241 TATAAATTATATT
1 TATAAACTATATA
***
3569254 TATGTGC-ACTATA
1 TATAAACTA-TATA
*
3569267 TATAAACTATGTA
1 TATAAACTATATA
* *
3569280 TATAAAATTATAAAA
1 TAT-AAACTAT-ATA
* *
3569295 TATATA-TTTATA
1 TATAAACTATATA
3569307 TTATAAACTATATAA
1 -TATAAACTATAT-A
3569322 TTATTATAAGCTATATA
1 -TA-TA-AA-CTATATA
* *
3569339 TATAAATTATGTTTA
1 TATAAACTA--TATA
* *
3569354 TGTGAAC--TATA
1 TATAAACTATATA
*
3569365 TATAAACTATGTA
1 TATAAACTATATA
*
3569378 TATAAATTATATA
1 TATAAACTATATA
3569391 TGTATAAACTATA
1 --TATAAACTATA
3569404 AAAAGTATAT
Statistics
Matches: 116, Mismatches: 31, Indels: 30
0.66 0.18 0.17
Matches are distributed among these distances:
11 8 0.07
12 3 0.03
13 50 0.43
14 15 0.13
15 27 0.23
16 4 0.03
17 3 0.03
18 6 0.05
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (13 bp):
TATAAACTATATA
Found at i:3569292 original size:21 final size:20
Alignment explanation
Indices: 3569267--3569348 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
3569257 GTGCACTATA
*
3569267 TATAAACTATGTATATAAAAT
1 TATAAACTATATAT-TAAAAT
* * *
3569288 TATAAAATATATATTTATAT
1 TATAAACTATATATTAAAAT
3569308 TATAAACTATATAATT---AT
1 TATAAACTATAT-ATTAAAAT
*
3569326 TATAAGCTATATA-TATAAAT
1 TATAAACTATATATTA-AAAT
3569346 TAT
1 TAT
3569349 GTTTATGTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.02
17 1 0.02
18 13 0.26
20 20 0.40
21 15 0.30
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (20 bp):
TATAAACTATATATTAAAAT
Found at i:3569311 original size:98 final size:97
Alignment explanation
Indices: 3569199--3569388 Score: 344
Period size: 98 Copynumber: 1.9 Consensus size: 97
3569189 ATATCTAAAC
*
3569199 TATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTATGTGCACT
1 TATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTATGTGAACT
3569264 ATATATAAACTATGTATATAAAATTATAAAATA
66 ATATATAAACTATGTATAT-AAATTATAAAATA
* *
3569297 TATATTTATATTATAAACTATATAATTATTATAAGCTATATATATAAATTATGTTTATGTGAACT
1 TATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTATGTGAACT
3569362 ATATATAAACTATGTATATAAATTATA
66 ATATATAAACTATGTATATAAATTATA
3569389 TATGTATAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
97 8 0.09
98 81 0.91
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (97 bp):
TATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTATGTGAACT
ATATATAAACTATGTATATAAATTATAAAATA
Found at i:3569326 original size:18 final size:20
Alignment explanation
Indices: 3569194--3569348 Score: 128
Period size: 18 Copynumber: 8.1 Consensus size: 20
3569184 AAATTATATC
3569194 TAAACTATAT-T-TATATTA
1 TAAACTATATATATATATTA
3569212 TAAACTATATA-AT-TATTA
1 TAAACTATATATATATATTA
*
3569230 TAAACTATATATATAAATTA
1 TAAACTATATATATATATTA
** * **
3569250 T-ATTTATGTGCACTATA-TA
1 TAAACTATATATA-TATATTA
* *
3569269 TAAACTATGTATATAAAATTA
1 TAAACTATATATAT-ATATTA
* *
3569290 TAAAATATATATTTATATTA
1 TAAACTATATATATATATTA
3569310 TAAACTATATA-AT-TATTA
1 TAAACTATATATATATATTA
* *
3569328 TAAGCTATATATATAAATTA
1 TAAACTATATATATATATTA
3569348 T
1 T
3569349 GTTTATGTGA
Statistics
Matches: 107, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
18 41 0.38
19 16 0.15
20 37 0.35
21 13 0.12
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (20 bp):
TAAACTATATATATATATTA
Found at i:3569381 original size:15 final size:15
Alignment explanation
Indices: 3569171--3569244 Score: 55
Period size: 18 Copynumber: 4.7 Consensus size: 15
3569161 AAAAATATAA
3569171 TATATATAATATAAA-
1 TATATAT-ATATAAAC
*
3569186 -AT-TATATCTAAAC
1 TATATATATATAAAC
3569199 TATATTTATATTATAAAC
1 TATA--TATA-TATAAAC
3569217 TATATAATTATTATAAAC
1 TATAT-A-TA-TATAAAC
3569235 TATATATATA
1 TATATATATA
3569245 AATTATATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
12 6 0.12
13 3 0.06
14 4 0.08
15 2 0.04
16 3 0.06
17 6 0.12
18 25 0.51
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:3569401 original size:39 final size:39
Alignment explanation
Indices: 3569263--3569403 Score: 107
Period size: 39 Copynumber: 3.8 Consensus size: 39
3569253 TTATGTGCAC
* *
3569263 TATATATAAACTATGTATATA-AAA-T-TATA-AAA-TA
1 TATATATAAATTATATATATATAAACTATATATAAACTA
* * * * *
3569297 TATATTTATATTATAAACTATAT-AATTAT-TATAAGCTA
1 TATATATAAATTATATA-TATATAAACTATATATAAACTA
* * * *
3569335 TATATATAAATTATGTTTATGTGAACTATATATAAACTA
1 TATATATAAATTATATATATATAAACTATATATAAACTA
* *
3569374 TGTATATAAATTATATATGTATAAACTATA
1 TATATATAAATTATATATATATAAACTATA
3569404 AAAAGTATAT
Statistics
Matches: 79, Mismatches: 20, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
34 12 0.15
35 6 0.08
36 3 0.04
37 7 0.09
38 19 0.24
39 32 0.41
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (39 bp):
TATATATAAATTATATATATATAAACTATATATAAACTA
Found at i:3572278 original size:164 final size:162
Alignment explanation
Indices: 3571841--3573090 Score: 1148
Period size: 164 Copynumber: 7.6 Consensus size: 162
3571831 CTAAATGTAA
* * * * * * *
3571841 TCGAACTCGGAGGTCTTCGGTTAGTAGATAGCCCTTCTCA-ACTTAAGCTATACTGCAAATGATG
1 TCGAACTCGAAGGTCTTTGG-T-GCAGATAACCCTTCT-AGACTTAAGTTATGCTGCAAATGATA
* * * * *
3571905 TGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTCTGGCGACAGACAACCCTT-TCAGTCTTG
63 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT-TTG-G-CAGATAACCCTTCT-AGACTTA
** * * *
3571969 AGTTATGCTATAAATGATATGCCTTAGAGTTGAGCGTAA
124 AGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
* * * * ** *
3572008 TCAAACTCAAAGGTCTTT--TGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGC
1 TCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGC
* *
3572071 CGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAG
66 C-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC---T-TTGGCAGATAACCCTTCTAGACTTAAG
*
3572135 TTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
126 TTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
* * * *
3572172 TCGAACTCGAAGGTCTTTGGTGACATATAACCCTTCTAG-CATTGAGTTATGTTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTG-CAGATAACCCTTCTAGAC-TTAAGTTATGCTGCAAATGATAT
* * * * ** * * *
3572236 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
64 G-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGTT
* *
3572301 ATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
128 ATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
* * * *
3572336 TCGAACTCGAAGGTCTTT-G-GCAGATAGCCCTTCTCGACTTAAGTTATGCTACAAATGATGTGC
1 TCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGC
* * *
3572399 CGTT-GAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTAT
66 C-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGTTAT
* *
3572463 GCTACAAATGAT-GGCCGTT-GAGCTGAGCGTAG
130 GCTGCAAATGATATGCC-TTGGAGCTGAGCGTAG
* * * * * * *
3572495 TTGAACTCAAAGGTTTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATAT
1 TCGAACTCGAAGG-TCTTTGGT-GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * * *
3572560 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTGACAAATAACCCTTCTAGCCTTGAG
64 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-G-G-CAGATAACCCTTCTAGACTTAAG
* * * * * *
3572625 TTATGCTGTAAATGATATACCCTCGAAGCTGAGTGTAA
126 TTATGCTGCAAATGATAT-GCCTTGGAGCTGAGCGTAG
** * * * * * *
3572663 TCGAACTCGGGGGTATTT-G-GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGTGC
1 TCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGC
* * * *
3572726 CTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCTCA-AATTAAGTTAT
66 CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCT-AGACTTAAGTTAT
* * *
3572790 GTTGCAAATGATGTGCCATT-GAGCTGAGCATAG
130 GCTGCAAATGATATGCC-TTGGAGCTGAGCGTAG
* ** * * *
3572823 TCAAACTTAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATAT
1 TCGAACTCGAAGGTC-TTTGGT-GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * *
3572888 GCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
64 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-G-G-CAGATAACCCTTCTAGACTTAAG
* * * * * *
3572953 TTATGCTGTAAATGATATGCCCTCGAAGTTGAGTGTAA
126 TTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
* ** * * * *
3572991 TCAAACTCGGGGGTCTTT-G-GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 TCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGC
*
3573054 CTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGG
66 CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
3573091 TTGGCAAATA
Statistics
Matches: 883, Mismatches: 162, Indels: 81
0.78 0.14 0.07
Matches are distributed among these distances:
159 27 0.03
160 91 0.10
161 67 0.08
162 7 0.01
163 138 0.16
164 355 0.40
165 5 0.01
166 40 0.05
167 87 0.10
168 66 0.07
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (162 bp):
TCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGC
CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGTTATG
CTGCAAATGATATGCCTTGGAGCTGAGCGTAG
Found at i:3572626 original size:407 final size:406
Alignment explanation
Indices: 3571776--3572973 Score: 1632
Period size: 407 Copynumber: 2.9 Consensus size: 406
3571766 AACAATTTAT
* * * * * * *
3571776 TGACAGATAGCCCTTCTTGCCTTGAGTTATGTTGTAAATTTGGTTTG-CCTCTG-AGCTAAATGT
1 TGACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAA--TGATATGCCCTC-GAAGCTGAGTGT
* * * * *
3571839 AATCGAACTCGGAGGTCTTCGGTTAGTAGATAGCCCTTCTCAACTTAAGCTATACTGCAAATGAT
63 AATCGAACTCGGGGGTC-T---TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
* * * * *
3571904 GTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTCTGGCGACAGACAACCCTT-TCAGTCTT
124 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT-TTG-G-CAGATAGCCCTTCTC-GACTT
* * * * * * *
3571968 GAGTTATGCTATAAATGATATGCCTTAGAGTTGAGCGTAATCAAACTCAAAGGTCTTTTGCAGAT
185 AAGTTATGCTACAAATGATGTGCCTT-GAGCTGAGCATAGTCAAACTCAAAGGTCTTTGGCAGAT
* *
3572033 AGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAA
249 AACCCTTCTCGACTTAAGCTATGCTGCAAATGATG-GCCGTTGAGCTGAGCGTAGTCGAACTCAA
*
3572098 AGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGC
313 AGGTTTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGC
*
3572163 TGAGCGTAGTCGAACTCGAAGGTCTTTGG
378 TGAGCGTAGTCGAACTCGAAGGTATTTGG
* *
3572192 TGACATATAACCCTTCTAGCATTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
1 TGACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
*
3572257 CGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTT
66 CGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
3572322 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTA
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTA
* *
3572387 CAAATGATGTGCCGTTGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCG
196 CAAATGATGTGCC-TTGAGCTGAGCATAGTCAAACTCAAAGGTCTTTGGCAGATAACCCTTCTCG
* *
3572452 ACTTAAGCTATGCTACAAATGATGGCCGTTGAGCTGAGCGTAGTTGAACTCAAAGGTTTTTTGTT
260 ACTTAAGCTATGCTGCAAATGATGGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTTGTT
*
3572517 GGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCG
325 GGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
3572582 AACTCGAAGGTATTTGG
390 AACTCGAAGGTATTTGG
* *
3572599 TGACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATACCCTCGAAGCTGAGTGTAAT
1 TGACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
* *
3572664 CGAACTCGGGGGTATTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGTGCCTT
66 CGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* * * * * *
3572729 GGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCTCAAATTAAGTTATGTTG
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTA
* *
3572794 CAAATGATGTGCCATTGAGCTGAGCATAGTCAAACTTAAAGGTCTTTTGTTGGCAGACAACCCTT
196 CAAATGATGTGCC-TTGAGCTGAGCATAGTCAAACTCAAAGGTC---T-TTGGCAGATAACCCTT
* * * * *
3572859 CTAGACTTAAGTTGTGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGG-TC
256 CTCGACTTAAGCTATGCTGCAAATGAT-GGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTTT
* * * * * * *
3572922 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCC
319 TTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC
3572974 CTCGAAGTTG
Statistics
Matches: 704, Mismatches: 68, Indels: 25
0.88 0.09 0.03
Matches are distributed among these distances:
407 341 0.48
408 99 0.14
409 5 0.01
410 3 0.00
411 159 0.23
412 28 0.04
414 7 0.01
415 28 0.04
416 34 0.05
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (406 bp):
TGACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
CGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTA
CAAATGATGTGCCTTGAGCTGAGCATAGTCAAACTCAAAGGTCTTTGGCAGATAACCCTTCTCGA
CTTAAGCTATGCTGCAAATGATGGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTTGTTG
GCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
ACTCGAAGGTATTTGG
Found at i:3573091 original size:328 final size:327
Alignment explanation
Indices: 3571893--3573090 Score: 1511
Period size: 328 Copynumber: 3.7 Consensus size: 327
3571883 TTAAGCTATA
* * * * *
3571893 CTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTCTGGCGACAGACAACCC
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCC
* * * * * *
3571958 TT-TCAGTCTTGAGTTATGCTATAAATGATATGCCTTAG-AGTTGAGCGTAATCAAACTCAAAGG
66 TTCT-AGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCAAACTCGAAGG
* *
3572021 TCTTTTGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGT
130 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGT
* * *
3572086 AGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCT-AGACTTAAGTTGTGCTGCAAATGA
195 AGTCGAACTCGAAGGTC---T-TTGGCAGATAACCCTTCTCA-ACTTAAGTTATGCTGCAAATGA
* * * * * *
3572150 TATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACATATAACCCTTCTAG-CA
255 TGTGCCTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGAC-
* *
3572213 TTGAGTTATG
318 TTAAGTTGTG
* * * * * * ** *
3572223 TTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-G-CAGATAGCC
1 CTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACC
* * * * * * * * * * *
3572285 CTTCTCGACTTAAGCTATGTTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
65 CTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCAAACTCGAAGG
* * *
3572349 TCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCGTTGAGCTGAGCAT
130 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGT
* * *
3572414 AGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATG-GC
195 AGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCAACTTAAGTTATGCTGCAAATGATGTGC
* *
3572478 CGTTGAGCTGAGCGTAGTTGAACTCAAAGGTTTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
260 C-TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
3572543 TGTG
324 TGTG
* * *
3572547 CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTGACAAATAACCC
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCC
* * * **
3572612 TTCTAGCCTTGAGTTATGCTGTAAATGATATACCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
66 TTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCAAACTCGAAGGT
* *
3572677 ATTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGTGCC-TTGGAGCTGAGCGT
131 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGT
* * * * *
3572741 AATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCTCAAATTAAGTTATGTTGCAAATGATGTGC
195 AGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCAACTTAAGTTATGCTGCAAATGATGTGC
* * *
3572806 CATTGAGCTGAGCATAGTCAAACTTAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
260 C-TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
3572871 TGTG
324 TGTG
*
3572875 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCC
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCC
* * **
3572940 TTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGTTGAGTGTAATCAAACTCGGGGGT
66 TTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCAAACTCGAAGGT
*
3573005 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGTGT
131 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGT
3573069 AGTCGAACTCGAAGGTCTTTGG
195 AGTCGAACTCGAAGGTCTTTGG
3573091 TTGGCAAATA
Statistics
Matches: 751, Mismatches: 104, Indels: 28
0.85 0.12 0.03
Matches are distributed among these distances:
323 57 0.08
324 79 0.11
325 3 0.00
326 34 0.05
327 139 0.19
328 397 0.53
329 2 0.00
330 12 0.02
331 28 0.04
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (327 bp):
CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCC
TTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCAAACTCGAAGGT
CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTA
GTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCAACTTAAGTTATGCTGCAAATGATGTGCC
TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTG
TG
Found at i:3577309 original size:5 final size:5
Alignment explanation
Indices: 3577299--3577328 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
3577289 GCTAGTGATG
3577299 AAAAT AAAAT AAAAT AAAAT AAAAT GAAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAA
3577329 GAGTTAGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:3578440 original size:16 final size:16
Alignment explanation
Indices: 3578414--3578453 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
3578404 AAAATCATAA
*
3578414 AAAATAAAAAAACGAAAC
1 AAAATAAAATAA--AAAC
3578432 AAAATAAAATAAAAAC
1 AAAATAAAATAAAAAC
3578448 AAAATA
1 AAAATA
3578454 TTTAAAACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
18 11 0.52
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAATAAAATAAAAAC
Found at i:3579665 original size:40 final size:40
Alignment explanation
Indices: 3579621--3579716 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
3579611 ACAATAGTTA
* *
3579621 ATATATGTAACTTATAGTGTGTATACATATAATGTAAACT
1 ATATATGTAACTTATAGTATATATACATATAATGTAAACT
* *
3579661 ATATATGTGACTTATAGTATATATACATGTAATGTAAACT
1 ATATATGTAACTTATAGTATATATACATATAATGTAAACT
3579701 ATATATGTAACTTATA
1 ATATATGTAACTTATA
3579717 TGTAAGTACA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (40 bp):
ATATATGTAACTTATAGTATATATACATATAATGTAAACT
Done.