Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_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: 3132588
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 15
Found at i:1139604 original size:22 final size:23
Alignment explanation
Indices: 1139579--1139622 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1139569 AATTATTTTA
1139579 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
1139601 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
1139623 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:1139627 original size:22 final size:22
Alignment explanation
Indices: 1139583--1139639 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
1139573 ATTTTATATA
* *
1139583 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
1139604 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
1139626 ATATTTTAAATATT
1 ATATTATAAATATT
1139640 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:1139891 original size:42 final size:42
Alignment explanation
Indices: 1139828--1139947 Score: 170
Period size: 42 Copynumber: 2.9 Consensus size: 42
1139818 ATGAATTACA
* * * *
1139828 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAGCGTT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
* *
1139870 TTTCGAAAAACAAATTACGTGAAACAAACACGGAAAAACATT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
*
1139912 TTCCGGAAAACGAATTACGTGAAACAAACAC-GAAAA
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAA
1139948 TTCAGGGAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
41 5 0.07
42 64 0.93
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.17
Consensus pattern (42 bp):
TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
Found at i:1143671 original size:18 final size:18
Alignment explanation
Indices: 1143644--1143794 Score: 134
Period size: 18 Copynumber: 8.6 Consensus size: 18
1143634 TGCATAACAT
*
1143644 AACCC-TTTTTAAAGTTGA
1 AACCCATTTTT-AAGTTGC
1143662 AACCCATTTTTAAGTTGC
1 AACCCATTTTTAAGTTGC
1143680 -ACCTCA-TTTTAAGTTGC
1 AACC-CATTTTTAAGTTGC
*
1143697 AACCTATTTTTAAGTTGC
1 AACCCATTTTTAAGTTGC
*
1143715 AACTCATTTTTAAGTTGC
1 AACCCATTTTTAAGTTGC
*
1143733 -ACACCA-TTTTAAATTGC
1 AAC-CCATTTTTAAGTTGC
* * *
1143750 AACCTATTTTGAAGTTGT
1 AACCCATTTTTAAGTTGC
* * *
1143768 GACCTA-TTTTAACTTGC
1 AACCCATTTTTAAGTTGC
*
1143785 AACTCATTTT
1 AACCCATTTT
1143795 CTGGTGATGG
Statistics
Matches: 108, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
17 40 0.37
18 63 0.58
19 5 0.05
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (18 bp):
AACCCATTTTTAAGTTGC
Found at i:1143706 original size:35 final size:35
Alignment explanation
Indices: 1143650--1143794 Score: 152
Period size: 35 Copynumber: 4.1 Consensus size: 35
1143640 ACATAACCCT
* * *
1143650 TTTTAAAGTTGAAACCCATTTTTAAGTTGCACCTCA
1 TTTTAAAGTTGCAACCTA-TTTTAAGTTGCAACTCA
1143686 TTTT-AAGTTGCAACCTATTTTTAAGTTGCAACTCA
1 TTTTAAAGTTGCAACCTA-TTTTAAGTTGCAACTCA
* *
1143721 TTTTTAAGTTGCACACC-ATTTTAAATTGCAAC-CTA
1 TTTTAAAGTTGCA-ACCTATTTTAAGTTGCAACTC-A
* ** *
1143756 TTTTGAAGTTGTGACCTATTTTAACTTGCAACTCA
1 TTTTAAAGTTGCAACCTATTTTAAGTTGCAACTCA
1143791 TTTT
1 TTTT
1143795 CTGGTGATGG
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
34 4 0.04
35 75 0.78
36 14 0.15
37 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (35 bp):
TTTTAAAGTTGCAACCTATTTTAAGTTGCAACTCA
Found at i:1143777 original size:53 final size:54
Alignment explanation
Indices: 1143650--1143766 Score: 175
Period size: 53 Copynumber: 2.2 Consensus size: 54
1143640 ACATAACCCT
* * * *
1143650 TTTTAAAGTTGAAACCCATTTTTAAGTTGCAC-CTCATTTTAAGTTGCAACCTA
1 TTTTGAAGTTGCAACTCATTTTTAAGTTGCACACTCATTTTAAATTGCAACCTA
*
1143703 TTTTTAAGTTGCAACTCATTTTTAAGTTGCACAC-CATTTTAAATTGCAACCTA
1 TTTTGAAGTTGCAACTCATTTTTAAGTTGCACACTCATTTTAAATTGCAACCTA
1143756 TTTTGAAGTTG
1 TTTTGAAGTTG
1143767 TGACCTATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 57 0.98
54 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (54 bp):
TTTTGAAGTTGCAACTCATTTTTAAGTTGCACACTCATTTTAAATTGCAACCTA
Found at i:1149031 original size:17 final size:17
Alignment explanation
Indices: 1149005--1149094 Score: 85
Period size: 18 Copynumber: 5.2 Consensus size: 17
1148995 CTAGTTACAC
*
1149005 CCCA-TTTAAGTTGCAC
1 CCCATTTTAAGTTGCAA
1149021 CCCATTTTAAGTTGCAA
1 CCCATTTTAAGTTGCAA
** *
1149038 CTAATTTTTAAGTTAC-A
1 CCCA-TTTTAAGTTGCAA
*
1149055 CCCAATTCTAAGTTGCAA
1 CCC-ATTTTAAGTTGCAA
*
1149073 CTCATTTTTAAGTTGCAA
1 CCCA-TTTTAAGTTGCAA
1149091 CCCA
1 CCCA
1149095 ATTTCTGGTG
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
16 4 0.07
17 25 0.43
18 29 0.50
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (17 bp):
CCCATTTTAAGTTGCAA
Found at i:1149057 original size:35 final size:35
Alignment explanation
Indices: 1149009--1149097 Score: 124
Period size: 35 Copynumber: 2.5 Consensus size: 35
1148999 TTACACCCCA
* * *
1149009 TTTAAGTTGCACCCCATTTTAAGTTGCAACTAATT
1 TTTAAGTTACACCCAATTCTAAGTTGCAACTAATT
*
1149044 TTTAAGTTACACCCAATTCTAAGTTGCAACTCATT
1 TTTAAGTTACACCCAATTCTAAGTTGCAACTAATT
*
1149079 TTTAAGTTGCAACCCAATT
1 TTTAAGTTAC-ACCCAATT
1149098 TCTGGTGAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 40 0.83
36 8 0.17
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.38
Consensus pattern (35 bp):
TTTAAGTTACACCCAATTCTAAGTTGCAACTAATT
Found at i:1150038 original size:19 final size:19
Alignment explanation
Indices: 1150014--1150050 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1150004 ATGACCAATA
*
1150014 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
1150033 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
1150051 GAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:1150098 original size:40 final size:42
Alignment explanation
Indices: 1150016--1150226 Score: 125
Period size: 41 Copynumber: 5.1 Consensus size: 42
1150006 GACCAATAAA
* * * * *
1150016 ATCGC-AATGCGA-TCTCTAAA-TCGCAACGCGATCTCGAGT
1 ATCGCAAATGCGAGTTTCCAAATTCGCAACGCGATTTTGACT
*
1150055 ATCGCAAAT-C-AGTTTCCAGATTCGCAACGCGATTTTGACT
1 ATCGCAAATGCGAGTTTCCAAATTCGCAACGCGATTTTGACT
* * * * *
1150095 ATCGC-ATTGCGATTTTCCAAATTCGCAATGCGAATATGACT
1 ATCGCAAATGCGAGTTTCCAAATTCGCAACGCGATTTTGACT
* * ** * *
1150136 ATCGC-AACGCGA-TAATAGAAAATCGCAACGCGATTCTGACT
1 ATCGCAAATGCGAGT-TTCCAAATTCGCAACGCGATTTTGACT
* * * * *
1150177 ATCGC-AACGCGACGATAATACAAAATCGCAACGCGATTCTGACT
1 ATCGCAAATGCGA-G-T-TTCCAAATTCGCAACGCGATTTTGACT
1150221 ATCGCA
1 ATCGCA
1150227 TCACGATAAT
Statistics
Matches: 140, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 13 0.09
40 26 0.19
41 67 0.48
44 33 0.24
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATCGCAAATGCGAGTTTCCAAATTCGCAACGCGATTTTGACT
Found at i:1150206 original size:44 final size:42
Alignment explanation
Indices: 1150076--1150255 Score: 204
Period size: 41 Copynumber: 4.3 Consensus size: 42
1150066 GTTTCCAGAT
* ** ** * *
1150076 TCGCAACGCGATTTTGACTATCGCATTG-CGATTTTCCAAAT
1 TCGCAACGCGATTCTGACTATCGCAACGACGATAATACAAAA
* * * *
1150117 TCGCAATGCGAATATGACTATCGCAACG-CGATAATAGAAAA
1 TCGCAACGCGATTCTGACTATCGCAACGACGATAATACAAAA
1150158 TCGCAACGCGATTCTGACTATCGCAACGCGACGATAATACAAAA
1 TCGCAACGCGATTCTGACTATCGCAA--CGACGATAATACAAAA
*
1150202 TCGCAACGCGATTCTGACTATCGCATC-ACGATAATACAAAA
1 TCGCAACGCGATTCTGACTATCGCAACGACGATAATACAAAA
*
1150243 TCGCAATGCGATT
1 TCGCAACGCGATT
1150256 TTCCAAATTT
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
41 80 0.67
42 1 0.01
43 2 0.02
44 37 0.31
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
TCGCAACGCGATTCTGACTATCGCAACGACGATAATACAAAA
Found at i:1150226 original size:20 final size:20
Alignment explanation
Indices: 1150076--1150188 Score: 84
Period size: 20 Copynumber: 5.5 Consensus size: 20
1150066 GTTTCCAGAT
*
1150076 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTATGACTA
** ** *
1150096 TCGCATTGCGATT-TTCCAAA
1 TCGCAACGCGATTATGAC-TA
* *
1150116 TTCGCAATGCGAATATGACTA
1 -TCGCAACGCGATTATGACTA
* **
1150137 TCGCAACGCGATAATAGAAAA
1 TCGCAACGCGATTAT-GACTA
*
1150158 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
1150178 TCGCAACGCGA
1 TCGCAACGCGA
1150189 CGATAATACA
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
19 2 0.03
20 38 0.54
21 28 0.40
22 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTATGACTA
Found at i:1150418 original size:6 final size:6
Alignment explanation
Indices: 1150407--1150448 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
1150397 GACACGTATT
1150407 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1150449 GGACGGGACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1150771 original size:19 final size:19
Alignment explanation
Indices: 1150747--1150855 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 19
1150737 TTATTTTTGA
1150747 TTTTTCACTATCACAACAC
1 TTTTTCACTATCACAACAC
*
1150766 TTTTTCACTATCGCAACAAGAC
1 TTTTTCACTAT--C-ACAACAC
* *
1150788 GTTTTTCAAACTCTCGCAACAC
1 -TTTTTC--ACTATCACAACAC
* * **
1150810 ATTTTAACTATTGCAACAC
1 TTTTTCACTATCACAACAC
* *
1150829 ATTTTAACTATCACAACAC
1 TTTTTCACTATCACAACAC
1150848 ATTTTTCA
1 -TTTTTCA
1150856 AAATCACTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
19 39 0.55
20 5 0.07
21 5 0.07
22 11 0.15
23 7 0.10
25 4 0.06
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.36
Consensus pattern (19 bp):
TTTTTCACTATCACAACAC
Found at i:1150887 original size:20 final size:21
Alignment explanation
Indices: 1150864--1150917 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
1150854 CAAAATCACT
*
1150864 TTGCGAATCT-TACAATCGCG
1 TTGCGAATCTGGACAATCGCG
* * *
1150884 TTGCAAATCTGGATATTCGCG
1 TTGCGAATCTGGACAATCGCG
*
1150905 TTGCGAATTTGGA
1 TTGCGAATCTGGA
1150918 AACTGAGTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
TTGCGAATCTGGACAATCGCG
Found at i:1151761 original size:33 final size:34
Alignment explanation
Indices: 1151736--1151840 Score: 142
Period size: 34 Copynumber: 3.1 Consensus size: 34
1151726 TTCTCCATTG
1151736 TTTTTTTGTTTTGAAAATTTGTCTTCTCTGTTGA
1 TTTTTTTGTTTTGAAAATTTGTCTTCTCTGTTGA
* *
1151770 TTTTTCTT-TTTTGAAAATTTATTTTCTCTGTTGA
1 TTTTT-TTGTTTTGAAAATTTGTCTTCTCTGTTGA
*
1151804 TAATTTTTGTTGTTGAAAATTTGTC-TCTCTGTTGA
1 T-TTTTTTGTT-TTGAAAATTTGTCTTCTCTGTTGA
1151839 TT
1 TT
1151841 AAATATTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
34 32 0.52
35 18 0.30
36 11 0.18
ACGTcount: A:0.17, C:0.09, G:0.13, T:0.61
Consensus pattern (34 bp):
TTTTTTTGTTTTGAAAATTTGTCTTCTCTGTTGA
Found at i:1151974 original size:20 final size:19
Alignment explanation
Indices: 1151951--1152009 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
1151941 GTTTTTTTTT
1151951 TTGAAAATTTATTTTCTCTG
1 TTGAAAATTT-TTTTCTCTG
*
1151971 TTG-ATA-TTTTTT-TC-G
1 TTGAAAATTTTTTTCTCTG
*
1151986 TTGAAAATTTGTCTTCTCTG
1 TTGAAAATTT-TTTTCTCTG
1152006 TTGA
1 TTGA
1152010 TTATATATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
15 4 0.13
16 4 0.13
17 6 0.19
18 5 0.16
19 4 0.13
20 8 0.26
ACGTcount: A:0.20, C:0.10, G:0.14, T:0.56
Consensus pattern (19 bp):
TTGAAAATTTTTTTCTCTG
Found at i:1151981 original size:35 final size:35
Alignment explanation
Indices: 1151942--1152010 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
1151932 TTCTCCATTG
** *
1151942 TTTTTTTTTTTGAAAATTTATTTTCTCTGTTGATA
1 TTTTTTTCGTTGAAAATTTATCTTCTCTGTTGATA
*
1151977 TTTTTTTCGTTGAAAATTTGTCTTCTCTGTTGAT
1 TTTTTTTCGTTGAAAATTTATCTTCTCTGTTGAT
1152011 TATATATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.17, C:0.09, G:0.12, T:0.62
Consensus pattern (35 bp):
TTTTTTTCGTTGAAAATTTATCTTCTCTGTTGATA
Found at i:1152638 original size:27 final size:27
Alignment explanation
Indices: 1152594--1152653 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
1152584 CTGCGCCGCG
*
1152594 CAGACCACGTACAAACATTAGGCTTCC
1 CAGACCACGCACAAACATTAGGCTTCC
* * *
1152621 CAGATCACGCACATACATTAGGCTTCG
1 CAGACCACGCACAAACATTAGGCTTCC
1152648 CAGACC
1 CAGACC
1152654 GTTTATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (27 bp):
CAGACCACGCACAAACATTAGGCTTCC
Found at i:1152823 original size:28 final size:28
Alignment explanation
Indices: 1152787--1152867 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
1152777 TATTAAAATA
** *
1152787 ATTTT-AAATAATTTAATAAGGTTATTT
1 ATTTTAAAATAATTTAATAAAATAATTT
*
1152814 ATTTTAAAATAATTTATTAAAATAATTT
1 ATTTTAAAATAATTTAATAAAATAATTT
*
1152842 ATTTTAAAATAAATTATTATAAAATA
1 ATTTTAAAAT-AATT-TAATAAAATA
1152868 TGGATTGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 5 0.11
28 28 0.62
29 4 0.09
30 8 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
ATTTTAAAATAATTTAATAAAATAATTT
Found at i:1152830 original size:15 final size:15
Alignment explanation
Indices: 1152810--1152867 Score: 84
Period size: 15 Copynumber: 4.0 Consensus size: 15
1152800 TAATAAGGTT
1152810 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1152825 ATTTA--TTAAAATA
1 ATTTATTTTAAAATA
1152838 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
1152853 AATTATTATAAAATA
1 ATTTATTTTAAAATA
1152868 TGGATTGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
13 13 0.33
15 26 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:1152888 original size:37 final size:34
Alignment explanation
Indices: 1152838--1152922 Score: 118
Period size: 33 Copynumber: 2.4 Consensus size: 34
1152828 TATTAAAATA
1152838 ATTTATTTTAAAATAAATTATTATAAAATATGGATTG
1 ATTTATTTTAAAATAAA-T-TTAT-AAATATGGATTG
* *
1152875 ATTTATTTTAAAAT-AATTTATTAGTATGGATTG
1 ATTTATTTTAAAATAAATTTATAAATATGGATTG
1152908 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1152923 TGGATTGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
33 24 0.53
34 4 0.09
35 1 0.02
36 2 0.04
37 14 0.31
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.49
Consensus pattern (34 bp):
ATTTATTTTAAAATAAATTTATAAATATGGATTG
Found at i:1152924 original size:22 final size:22
Alignment explanation
Indices: 1152899--1152941 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1152889 AATTTATTAG
1152899 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1152921 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1152942 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1152964 original size:32 final size:30
Alignment explanation
Indices: 1152925--1153027 Score: 114
Period size: 32 Copynumber: 3.6 Consensus size: 30
1152915 TTAAAATATG
1152925 GATTGATTTATTTTAAATAATTTATTAGAAT
1 GATTGATTTATTTTAAATAATTTATTAG-AT
1152956 GAATTGATTTATTTT-AA-AA--TA-T-G--
1 G-ATTGATTTATTTTAAATAATTTATTAGAT
1152979 GATTGATTTATTTTAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTATTAG-AT
1153010 GGATTGATTTATTTTAAA
1 -GATTGATTTATTTTAAA
1153028 ATATGTATTG
Statistics
Matches: 61, Mismatches: 0, Indels: 21
0.74 0.00 0.26
Matches are distributed among these distances:
22 13 0.21
23 3 0.05
24 2 0.03
26 3 0.05
27 2 0.03
28 3 0.05
30 2 0.03
31 3 0.05
32 30 0.49
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (30 bp):
GATTGATTTATTTTAAATAATTTATTAGAT
Found at i:1152967 original size:54 final size:54
Alignment explanation
Indices: 1152855--1153759 Score: 407
Period size: 54 Copynumber: 16.8 Consensus size: 54
1152845 TTAAAATAAA
*
1152855 TTATTATAAAATATGGATTGATTTATTTTAAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTT-AAATAATTTATTAGTATGGATTGAT
* *
1152910 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGAATGAATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1152964 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *
1153018 TTATTTTAAAATATGTATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGAT
*
1153066 TTATTTTAAATAATTTATTAGTGTAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 TTATTTT--A-AA---A-TA-TG--GATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *
1153130 TTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATAGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGAT
** * * * ** * * *
1153178 TTATTTT-AAATAATTTATT-AGTATGAATTGATTTATTTTA-AAATATGGATTGAT
1 TTATTTTAAAAT-ATGGATTGA-T-TTATTTTAAATAATTTATTAGTATGGATTGAT
*** **
1153232 TTATTATTGTAGTTGTATATATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
1 TTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA-T
* * * * * * *
1153291 TTTTTTTAAAATATTGATTGATTTATTATT--GTAGTTGTA-TA-AATTGATTTATT
1 TTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TATTAGTATGGATTGA-T
* * * * * *
1153344 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATT--TAT--TTTAAA
1 TT--AT--TTTA-AAATATGGATTGATTTATTTT--AA-AT-AATTTATTAGTATGGATTGAT
* ** * * * * * *
1153403 TAATTTTTTAGTATGAATTTATTTATTTT-AA-AA--TA-T-GGATCGATTTA-
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* * * ** *
1153450 TTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 TTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *
1153505 TTATTTTAAAATATAGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGAT
** * * ** * *
1153553 TTATTTT-AAATAATTTATTAGCATATA-TTT-ATTTTTTTA-AAATATGGATTGAT
1 TTATTTTAAAAT-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *
1153606 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-
1 TTATTTT-AA-AA--TA-T-G---G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *** *
1153663 TTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1153718 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1153760 TTGTAGTTGT
Statistics
Matches: 649, Mismatches: 110, Indels: 183
0.69 0.12 0.19
Matches are distributed among these distances:
45 1 0.00
46 3 0.00
47 14 0.02
48 109 0.17
49 14 0.02
50 16 0.02
51 6 0.01
52 11 0.02
53 35 0.05
54 211 0.33
55 69 0.11
56 13 0.02
57 31 0.05
58 54 0.08
59 9 0.01
60 5 0.01
61 6 0.01
62 12 0.02
63 9 0.01
64 21 0.03
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
Found at i:1153075 original size:80 final size:79
Alignment explanation
Indices: 1152958--1153606 Score: 383
Period size: 80 Copynumber: 8.0 Consensus size: 79
1152948 ATTAGAATGA
* * **
1152958 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
1 ATTGA-TTATTGTATAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATT
1153023 TTAAAATATGTATTG
65 TTAAAATATGTATTG
* ** * *
1153038 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTGTAGATTGATTTATT
1 ATTGATTATTGTA-TAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATT
1153103 TTAAATAATTTAT-TAGTATG
65 TT-AA-AA--TATGTA-T-TG
* * * *
1153123 AATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATAGATTGATTTA
1 -ATTGA-TTATTGTATAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATAAATTGATTTA
1153181 TTTTAAATAATTTAT-TAGTATG
63 TTTT-AA-AA--TATGTA-T-TG
* * * *
1153203 AATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATATATTGATTTA
1 -ATTGA-TTATTGTATAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATAAATTGATTTA
*
1153261 TTTTAAATAATTTATTAGTATGG
63 TTTT-AA-AA--TA-T-GTATTG
* * * * * *
1153284 ATTGATTTTTTTTTAAAAT--ATTGATTGA-TTT--ATTATTGTAGTT-GTATAAATTGATTTAT
1 ATTGATTATTGTATAATATGGATTGATTTATTTTAAATAATT-TA-TTAGTATAAATTGATTTAT
*
1153343 TTTAAATAATTTATTAGTATGG
64 TTT-AA-AA--TA-T-GTATTG
* * * * * *
1153365 ATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTTTTAGTATGAATTTATTTATT
1 ATTGA-TTATTGTATAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATT
* *
1153430 TTAAAATATGGATCG
65 TTAAAATATGTATTG
* * ** *
1153445 ATTTATTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT
1 ATTGATTATTGTA-TAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATT
1153510 TTAAAATATAG-ATTG
65 TTAAAATAT-GTATTG
* ** * * *
1153525 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATATATTTATTT-TT
1 ATTGATTATTGTA-TAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATT
*
1153589 TTAAAATATGGATTG
65 TTAAAATATGTATTG
1153604 ATT
1 ATT
1153607 TATTTTAAAT
Statistics
Matches: 491, Mismatches: 51, Indels: 55
0.82 0.09 0.09
Matches are distributed among these distances:
77 8 0.02
78 5 0.01
79 42 0.09
80 287 0.58
81 55 0.11
82 17 0.03
83 4 0.01
84 16 0.03
85 9 0.02
86 36 0.07
87 12 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (79 bp):
ATTGATTATTGTATAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATTT
TAAAATATGTATTG
Found at i:1153083 original size:14 final size:14
Alignment explanation
Indices: 1153064--1153116 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
1153054 GTATGGATTG
1153064 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
1153078 ATTTATTAGTGTAGATTG
1 ATTTATT--T-TA-AATA
1153096 ATTTATTTTAAATA
1 ATTTATTTTAAATA
1153110 ATTTATT
1 ATTTATT
1153117 AGTATGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 16 0.52
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.29
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:1153100 original size:32 final size:31
Alignment explanation
Indices: 1153054--1153139 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 31
1153044 TATTGTAGTT
1153054 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
1153086 GTGTAGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
1153118 GTATGAATTGATTTATTTTAAA
1 GTATG-ATTGATTTATTTTAAA
1153140 ATATGGATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
31 1 0.02
32 49 0.98
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (31 bp):
GTATGATTGATTTATTTTAAATAATTTATTA
Found at i:1153337 original size:81 final size:80
Alignment explanation
Indices: 1153092--1153397 Score: 540
Period size: 80 Copynumber: 3.8 Consensus size: 80
1153082 ATTAGTGTAG
1153092 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
*
1153157 ATTGTAGTTGTATAG
66 ATTGTAGTTGTATAA
1153172 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
*
1153237 ATTGTAGTTGTATAT
66 ATTGTAGTTGTATAA
* * *
1153252 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTTTTTTTAAAATATTGATTGATTTAT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGA-TTTATTTTAAAATATGGATTGATTTAT
1153317 TATTGTAGTTGTATAA
65 TATTGTAGTTGTATAA
* *
1153333 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
1153398 TTAAATAATT
Statistics
Matches: 217, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
80 140 0.65
81 77 0.35
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (80 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
ATTGTAGTTGTATAA
Found at i:1153347 original size:161 final size:160
Alignment explanation
Indices: 1153092--1153397 Score: 549
Period size: 161 Copynumber: 1.9 Consensus size: 160
1153082 ATTAGTGTAG
1153092 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
*
1153157 ATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAAT
66 ATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAAT
*
1153222 ATGGATTGATTTATTATTGTAGTTGTATAT
131 ATGAATTGATTTATTATTGTAGTTGTATAT
* * *
1153252 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTTTTTTTAAAATATTGATTGATTTAT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGA-TTTATTTTAAAATATGGATTGATTTAT
*
1153317 TATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
65 TATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1153382 TATGAATTGATTTATT
130 TATGAATTGATTTATT
1153398 TTAAATAATT
Statistics
Matches: 139, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
160 36 0.26
161 103 0.74
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (160 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
ATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAAT
ATGAATTGATTTATTATTGTAGTTGTATAT
Found at i:1153373 original size:32 final size:31
Alignment explanation
Indices: 1153333--1153434 Score: 105
Period size: 32 Copynumber: 3.5 Consensus size: 31
1153323 AGTTGTATAA
1153333 ATTGATTTATTTTAAATAATTTATTAGTATGG
1 ATTGATTTATTTTAAATAATTTATTAGTAT-G
1153365 ATTGATTTATTTT-AA-AA--TA-T-G-A--
1 ATTGATTTATTTTAAATAATTTATTAGTATG
*
1153387 ATTGATTTATTTTAAATAATTTTTTAGTATG
1 ATTGATTTATTTTAAATAATTTATTAGTATG
*
1153418 AATTTATTTATTTTAAA
1 -ATTGATTTATTTTAAA
1153435 ATATGGATCG
Statistics
Matches: 58, Mismatches: 2, Indels: 20
0.73 0.03 0.25
Matches are distributed among these distances:
22 13 0.22
23 2 0.03
24 2 0.03
25 1 0.02
26 2 0.03
27 2 0.03
28 3 0.05
29 1 0.02
30 2 0.03
31 2 0.03
32 28 0.48
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (31 bp):
ATTGATTTATTTTAAATAATTTATTAGTATG
Found at i:1153385 original size:22 final size:22
Alignment explanation
Indices: 1153360--1153402 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1153350 AATTTATTAG
*
1153360 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
1153382 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
1153403 TAATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:1153429 original size:295 final size:290
Alignment explanation
Indices: 1153089--1153744 Score: 946
Period size: 295 Copynumber: 2.2 Consensus size: 290
1153079 TTTATTAGTG
1153089 TAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTT
1 TAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTT
* *
1153154 ATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAA
66 ATTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAA
* * * *
1153219 AATATGGATTGATTTATTATTGTAGTTGTATATATTGATTTATTTTAAATAATTTATTAGTATGG
131 AATATAGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGCATAG
* *
1153284 ATTGATTTTTTTTTAAAATATTGATTGATTTA-TT-AT-TGTAGTT-GTATAAATTGATTTATTT
196 ATT--TATTTTTTTAAAATATGGATTGATTTATTTAATATGTA-TTAGTATAAATTGATTTATTT
*
1153345 TAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATA
258 T-AA-AA--TA-TAG-ATGGATTGA-TTATTGTAGAAATA
* * *
1153384 T-GAATTGATTTATTTTAAATAATTTTTTAGTATGAATTTATTTATTTTAAAATATGGATCGATT
1 TAG-ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATT
1153448 TATTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTA
65 TATTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTA
*
1153513 AAATATAGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATA
130 AAATATAGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGCATA
* * *
1153578 TATTTATTTTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT
195 GATTTATTTTTTTAAAATATGGATTGATTTA-TTT-AAT-ATGTATTAGTATAAATTGATTTATT
* * ***
1153643 TTAAAATATAGATTGATTTATTATTGTAGTTGTA
257 TTAAAATATAGATGGATTGATTATTGTAGAAATA
*
1153677 TAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
1 TAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTT
1153742 ATT
66 ATT
1153745 TTAAATAATT
Statistics
Matches: 326, Mismatches: 25, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
292 7 0.02
293 96 0.29
294 5 0.02
295 189 0.58
297 4 0.01
298 4 0.01
299 21 0.06
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (290 bp):
TAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTT
ATTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAA
AATATAGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGCATAG
ATTTATTTTTTTAAAATATGGATTGATTTATTTAATATGTATTAGTATAAATTGATTTATTTTAA
AATATAGATGGATTGATTATTGTAGAAATA
Found at i:1153646 original size:133 final size:133
Alignment explanation
Indices: 1153333--1153759 Score: 546
Period size: 133 Copynumber: 3.2 Consensus size: 133
1153323 AGTTGTATAA
*
1153333 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT-GAATTGATTTAT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAG-ATTGATTTA-
** * * * * *
1153397 TTTAAATAAT-TTTTTAGTATGAATTTATTTATTTT-AA-AA--TA-T-GGATCGATTTATTATT
64 -TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGCATAGATTTATTTTT
* * * **
1153455 GTAGTAGTAAAG
123 TTA-AAATATGG
1153467 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATT
*
1153532 ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATATATTTATTTTTTTAAAATA
66 ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATAGATTTATTTTTTTAAAATA
1153597 TGG
131 TGG
1153600 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATT
* * * *
1153665 ATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
66 ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATAGATTTATTT-TTTTAAAAT
1153730 ATGG
130 ATGG
1153734 ATTGATTTATTTTAAATAATTTATTA
1 ATTGATTTATTTTAAATAATTTATTA
1153760 TTGTAGTTGT
Statistics
Matches: 265, Mismatches: 19, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
128 18 0.07
129 5 0.02
130 4 0.02
132 4 0.02
133 120 0.45
134 113 0.43
135 1 0.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (133 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATT
ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATAGATTTATTTTTTTAAAATA
TGG
Found at i:1153663 original size:213 final size:214
Alignment explanation
Indices: 1153171--1153744 Score: 970
Period size: 213 Copynumber: 2.7 Consensus size: 214
1153161 TAGTTGTATA
1153171 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
* *
1153236 TATTGTAGTTGTATATATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTTTTTTTAAA
66 TATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA-TTTATTTTAAA
* * *
1153301 ATATTGATTGATTTATTATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGTATGGA
130 ATATAGATTGATTTATTATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGCATAGA
1153366 TTGATTTATTTTAAAATATG
195 TTGATTTATTTTAAAATATG
* * * *
1153386 AATTGATTTATTTTAAATAATTTTTTAGTATGAATTTATTTATTTTAAAATATGGATCGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
* * *
1153451 TATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
66 TATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
** *
1153516 TATAGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATATAT
131 TATAGATTGATTTATTATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGCATAGAT
*
1153581 TTATTT-TTTTAAAATATG
196 TGATTTATTTTAAAATATG
*
1153599 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
1153664 TATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
66 TATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
1153729 TATGGATTGATTTATT
131 TATAGATTGATTTATT
1153745 TTAAATAATT
Statistics
Matches: 334, Mismatches: 25, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
213 149 0.45
214 75 0.22
215 110 0.33
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (214 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
TATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
TATAGATTGATTTATTATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGCATAGAT
TGATTTATTTTAAAATATG
Found at i:1153732 original size:22 final size:22
Alignment explanation
Indices: 1153707--1153749 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1153697 AATTTATTAG
1153707 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1153729 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1153750 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1153809 original size:31 final size:31
Alignment explanation
Indices: 1153774--1153832 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1153764 AGTTGTATGG
* *
1153774 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
1153805 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
1153833 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:1154283 original size:22 final size:22
Alignment explanation
Indices: 1154256--1154321 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
1154246 CAATTTGGTA
*
1154256 TGTCTTTTGGCATGTTTTCGT-
1 TGTCTTTTGACATGTTTTCGTC
*
1154277 TCGTCTTTTGACACG-TTTCGTC
1 T-GTCTTTTGACATGTTTTCGTC
* *
1154299 TGTCTTTTGATATGTTTTGGTC
1 TGTCTTTTGACATGTTTTCGTC
1154321 T
1 T
1154322 TTTTTATTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 18 0.49
22 19 0.51
ACGTcount: A:0.08, C:0.17, G:0.21, T:0.55
Consensus pattern (22 bp):
TGTCTTTTGACATGTTTTCGTC
Found at i:1154315 original size:21 final size:20
Alignment explanation
Indices: 1154256--1154315 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
1154246 CAATTTGGTA
*
1154256 TGTCTTTTGGCATGTTTTCGT
1 TGTCTTTTGACATG-TTTCGT
*
1154277 TCGTCTTTTGACACGTTTCGT
1 T-GTCTTTTGACATGTTTCGT
*
1154298 CTGTCTTTTGATATGTTT
1 -TGTCTTTTGACATGTTT
1154316 TGGTCTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.08, C:0.17, G:0.20, T:0.55
Consensus pattern (20 bp):
TGTCTTTTGACATGTTTCGT
Found at i:1155011 original size:9 final size:8
Alignment explanation
Indices: 1154989--1155020 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
1154979 ATATTATGTC
1154989 ATTTGTTTT
1 ATTT-TTTT
1154998 ATTTTTTT
1 ATTTTTTT
1155006 ATTTTTTT
1 ATTTTTTT
1155014 ATTTTTT
1 ATTTTTT
1155021 CAATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 19 0.83
9 4 0.17
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:1155027 original size:16 final size:16
Alignment explanation
Indices: 1154994--1155027 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1154984 ATGTCATTTG
* *
1154994 TTTTATTTTTTTATTT
1 TTTTATTTTTTCAATT
1155010 TTTTATTTTTTCAATT
1 TTTTATTTTTTCAATT
1155026 TT
1 TT
1155028 AAATAAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTATTTTTTCAATT
Found at i:1159058 original size:119 final size:118
Alignment explanation
Indices: 1158909--1159140 Score: 349
Period size: 119 Copynumber: 2.0 Consensus size: 118
1158899 TTTCAACTAA
*
1158909 TAAACTCACGGGGATCAAAAAATTTCCAAGAAAACACTAATCATGTCATTAACAATCATGCATCC
1 TAAACTCACGGGGATCAAAAAATTTCCAAGAAAACACTAATCATGCCATTAACAATCATGCATCC
*
1158974 AAATTCAAATTAAAGTGTGTTCAAAAACT-AGCATAGTATTCAAGAAAATTTCT
66 AAATTCAAATAAAAGTGTGTTCAAAAACTCA-CATAGTATTCAAGAAAATTTCT
* * * * * *
1159027 TAAACTCATGGGATATCAGAAAATTTTCAAGAAAACACTAATCATGCCATTAATAATCATGCTTC
1 TAAACTCACGGG-GATCAAAAAATTTCCAAGAAAACACTAATCATGCCATTAACAATCATGCATC
* *
1159092 CTAATTCAAATAAAAGTGTGTTCAAAAACTCACTTAGTATTCAAGAAAA
65 CAAATTCAAATAAAAGTGTGTTCAAAAACTCACATAGTATTCAAGAAAA
1159141 ATTCAACAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
118 11 0.11
119 90 0.88
120 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (118 bp):
TAAACTCACGGGGATCAAAAAATTTCCAAGAAAACACTAATCATGCCATTAACAATCATGCATCC
AAATTCAAATAAAAGTGTGTTCAAAAACTCACATAGTATTCAAGAAAATTTCT
Found at i:1163775 original size:35 final size:34
Alignment explanation
Indices: 1163690--1163776 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1163680 ATTTGGTATT
*
1163690 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
1163724 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
1163762 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1163777 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:1164010 original size:15 final size:15
Alignment explanation
Indices: 1163990--1164040 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
1163980 ACTCCTCGCT
*
1163990 GTCATCATCATCGTC
1 GTCATCATCGTCGTC
1164005 GTCATCATCGTCGTC
1 GTCATCATCGTCGTC
* * *
1164020 ATCATCGTCGCCGTC
1 GTCATCATCGTCGTC
1164035 GTCATC
1 GTCATC
1164041 CTGAGCAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.16, C:0.35, G:0.18, T:0.31
Consensus pattern (15 bp):
GTCATCATCGTCGTC
Found at i:1164011 original size:12 final size:12
Alignment explanation
Indices: 1163994--1164029 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
1163984 CTCGCTGTCA
1163994 TCATCATCGTCG
1 TCATCATCGTCG
1164006 TCATCATCGTCG
1 TCATCATCGTCG
1164018 TCATCATCGTCG
1 TCATCATCGTCG
1164030 CCGTCGTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (12 bp):
TCATCATCGTCG
Found at i:1166129 original size:18 final size:17
Alignment explanation
Indices: 1166097--1166142 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
1166087 GAATTATATT
1166097 AGTAAAATATTAAATAA
1 AGTAAAATATTAAATAA
1166114 AGTAAAATACTTAAATAA
1 AGTAAAATA-TTAAATAA
*
1166132 ATTAAATATAT
1 AGTAAA-ATAT
1166143 AATATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 14 0.54
19 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
AGTAAAATATTAAATAA
Found at i:1166515 original size:29 final size:30
Alignment explanation
Indices: 1166469--1166547 Score: 119
Period size: 29 Copynumber: 2.7 Consensus size: 30
1166459 TACTTCTACG
1166469 GGTGTTAGATC-GAGAAATATAATCTGACC
1 GGTGTTAGATCAGAGAAATATAATCTGACC
1166498 GGTGTTAGATCAGA-AAATATAATCTGACC
1 GGTGTTAGATCAGAGAAATATAATCTGACC
* *
1166527 GGTGTTAAATCA-ATAAATATA
1 GGTGTTAGATCAGAGAAATATA
1166548 CCGATTACCA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 1 0.02
29 44 0.94
30 2 0.04
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.29
Consensus pattern (30 bp):
GGTGTTAGATCAGAGAAATATAATCTGACC
Found at i:1166920 original size:20 final size:20
Alignment explanation
Indices: 1166876--1166921 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
1166866 CTAATATACC
*
1166876 TAAAAAATTAAAAAAATTAA
1 TAAAAAAATAAAAAAATTAA
*
1166896 AAAAAAAATAAATAAAA-TAA
1 TAAAAAAATAAA-AAAATTAA
1166916 TAAAAA
1 TAAAAA
1166922 TAGATTGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAAAATAAAAAAATTAA
Found at i:1169502 original size:169 final size:172
Alignment explanation
Indices: 1169208--1169552 Score: 626
Period size: 169 Copynumber: 2.0 Consensus size: 172
1169198 CGTTTTCTGT
1169208 AGAATTGGAGATCCATCCACGTAGAATAGCTTGTACATGAGAAATGCATGAAAAATATTTTCTGC
1 AGAATTGGAGATCCATCCACGTAGAATAGCTTGTACATGAGAAATGCATGAAAAATATTTTCTGC
1169273 AAAAGCCAAGGTCTTGTATTACAAACGTAGCTGATTTGGGAGTATTTTCCAAATATACTGGTTGA
66 AAAAGCCAAGGTCTTGTATTACAAACGTAGCTGATTTGGGAGTATTTTCCAAATATACTGGTTGA
1169338 GGTCGTTTC-TAAT-AATAAT-AAAATGTCATTTATTTAAAA
131 GGTCGTTTCTTAATAAATAATAAAAATGTCATTTATTTAAAA
1169377 AGAATTGGAGATCCATCCACGTAGAATAGCTTGTACATGAGAAATGCATGAAAAATATTTTCTGC
1 AGAATTGGAGATCCATCCACGTAGAATAGCTTGTACATGAGAAATGCATGAAAAATATTTTCTGC
1169442 AAAAGCCAAGGTCTTGTATTAC-AACGTAGCTGATTTGGGAGTATTTTCCAAATAATACTGGTTG
66 AAAAGCCAAGGTCTTGTATTACAAACGTAGCTGATTTGGGAGTATTTTCCAAAT-ATACTGGTTG
1169506 AGGTCGTTTCTTTAATAAAATAATAAAAAATGTCATTTATTTAAAA
130 AGGTCGTTTC-TTAAT-AAATAAT-AAAAATGTCATTTATTTAAAA
1169552 A
1 A
1169553 ACACTAAGGA
Statistics
Matches: 169, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
168 31 0.18
169 107 0.63
171 4 0.02
173 6 0.04
175 21 0.12
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (172 bp):
AGAATTGGAGATCCATCCACGTAGAATAGCTTGTACATGAGAAATGCATGAAAAATATTTTCTGC
AAAAGCCAAGGTCTTGTATTACAAACGTAGCTGATTTGGGAGTATTTTCCAAATATACTGGTTGA
GGTCGTTTCTTAATAAATAATAAAAATGTCATTTATTTAAAA
Found at i:1170267 original size:25 final size:25
Alignment explanation
Indices: 1170221--1170268 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1170211 ATCAGGAAAC
*
1170221 AAAAAAATAGAGGGATAGGGGGTTT
1 AAAAAAATAGAGGGATACGGGGTTT
*
1170246 AAAAAAATTGAGGGACT-CGGGGT
1 AAAAAAATAGAGGGA-TACGGGGT
1170269 CGAGAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.42, C:0.04, G:0.35, T:0.19
Consensus pattern (25 bp):
AAAAAAATAGAGGGATACGGGGTTT
Found at i:1176741 original size:38 final size:38
Alignment explanation
Indices: 1176637--1176745 Score: 123
Period size: 38 Copynumber: 2.9 Consensus size: 38
1176627 ACAAAGTGTC
* *
1176637 GTCTCACTAGAGACAA--TTTTCTTAAAAACAAATTTT
1 GTCTCGCTTGAGACAACTTTTTCTTAAAAACAAATTTT
** *
1176673 GTCTCGCTTGAGACAACTTTCACTAAAAAACAAATTTT
1 GTCTCGCTTGAGACAACTTTTTCTTAAAAACAAATTTT
* ** *
1176711 GTCTCGCTTGCGACATTTTTTTCTTTAAAACAAAT
1 GTCTCGCTTGAGACAACTTTTTCTTAAAAACAAAT
1176746 CCTGAAATTA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 14 0.24
38 45 0.76
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (38 bp):
GTCTCGCTTGAGACAACTTTTTCTTAAAAACAAATTTT
Found at i:1176964 original size:28 final size:28
Alignment explanation
Indices: 1176911--1176998 Score: 81
Period size: 32 Copynumber: 3.0 Consensus size: 28
1176901 GAAACGCATC
* * *
1176911 ATCTTTGAGTCTGCTTT-TCTTGAAACAA
1 ATCTTTGAGTATG-TTTCCCTTAAAACAA
1176939 ATCTTTGAGTATGTTTCCCTTAAAACACA
1 ATCTTTGAGTATGTTTCCCTTAAAACA-A
1176968 ACCCTCTTTGAG-ATTGTTTCCCTTAAAACAA
1 A---TCTTTGAGTA-TGTTTCCCTTAAAACAA
1176999 GTTTTGTGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.06
28 20 0.39
29 2 0.04
31 2 0.04
32 24 0.47
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (28 bp):
ATCTTTGAGTATGTTTCCCTTAAAACAA
Found at i:1177084 original size:30 final size:30
Alignment explanation
Indices: 1177050--1177122 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
1177040 TTTGAGGCTA
1177050 TTTCTCTTGAAACAAA-AGTCTTTGAG-TCAG
1 TTTCTCTTGAAACAAACA-TCTTTGAGATC-G
* * *
1177080 TTTCTCCTAAAACAAACATTTTTGAGATCG
1 TTTCTCTTGAAACAAACATCTTTGAGATCG
*
1177110 TTTCCCTTGAAAC
1 TTTCTCTTGAAAC
1177123 GAATTTTGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 32 0.91
31 3 0.09
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (30 bp):
TTTCTCTTGAAACAAACATCTTTGAGATCG
Found at i:1177104 original size:126 final size:127
Alignment explanation
Indices: 1176844--1177155 Score: 388
Period size: 126 Copynumber: 2.5 Consensus size: 127
1176834 CTTAAGAAAT
* * * *
1176844 CATCTTTGAG-TCGTTTCCCTTGAAACGAATTTTGTCTCTTTTGAGACAGTTGCTTTTGAAACGC
1 CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAACAC
* *
1176908 ATCATCTTTGAGTCTGCTTTTCTTGAAACAAATCTTTGAGTATGTTTCCCTTAAAACACAAC
66 ATCATCTTTGAGGCTGATTTTCTTGAAACAAATCTTTGAGTATGTTTCCCTTAAAACACAAC
* * * * *
1176970 CCTCTTTGAGATTGTTTCCCTTAAAAC-AAGTTTTGTGTCCCTTGAGACAATTTCTTTTGAAACA
1 CATCTTTGAGATCGTTTCCCTTGAAACGAA-TTTTGTCTCTCTTGAGACAATTTCTTTTGAAACA
*
1177034 CCT-ATCTTTGAGGCT-ATTTCTCTTGAAACAAAAGTCTTTGAGTCA-GTTTCTCC-TAAAACA-
65 CATCATCTTTGAGGCTGATTT-TCTTGAAAC-AAA-TCTTTGAGT-ATGTTTC-CCTTAAAACAC
1177094 AA-
125 AAC
* *
1177096 CATTTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATATCTTTTGA
1 CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGA
1177156 TAAAAAAATC
Statistics
Matches: 159, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
125 3 0.02
126 81 0.51
127 51 0.32
128 21 0.13
129 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (127 bp):
CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAACAC
ATCATCTTTGAGGCTGATTTTCTTGAAACAAATCTTTGAGTATGTTTCCCTTAAAACACAAC
Found at i:1177180 original size:126 final size:126
Alignment explanation
Indices: 1176844--1177191 Score: 374
Period size: 126 Copynumber: 2.8 Consensus size: 126
1176834 CTTAAGAAAT
* * *
1176844 CATCTTTGAG-TCGTTTCCCTTGAAACGAATTTTGTCTCTTTTGAGACAGTTGCTTTTGAAACGC
1 CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATT-CTTTTGAAAC-A
**
1176908 ATCATCTTTGAGTCTGCTTT-TCTTGAAAC-AAATCTTTGAGTATGTTTCCCTTAAAACACAAC
64 AAAATCTTTGAGTCTG-TTTCTCTTGAAACAAAATCTTTGAGTATGTTTCCCTTAAAACACAAC
* * * * *
1176970 CCTCTTTGAGATTGTTTCCCTTAAAAC-AAGTTTTGTGTCCCTTGAGACAATTTCTTTTGAAACA
1 CATCTTTGAGATCGTTTCCCTTGAAACGAA-TTTTGTCTCTCTTGAGACAA-TTCTTTTGAAACA
*** * *
1177034 CCTATCTTTGAGGCTATTTCTCTTGAAACAAAAGTCTTTGAGTCA-GTTTCTCC-TAAAACA-AA
64 AAAATCTTTGAGTCTGTTTCTCTTGAAACAAAA-TCTTTGAGT-ATGTTTC-CCTTAAAACACAA
1177096 -
126 C
*
1177096 CATTTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATATCTTTTGATAA-A
1 CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAAT-TCTTTTGA-AACA
*
1177160 AAAATCTTTGAGTTTGTTTCT-TTGGAAACAAA
64 AAAATCTTTGAGTCTGTTTCTCTT-GAAACAAA
1177192 GTTTTGTCTC
Statistics
Matches: 185, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
125 6 0.03
126 104 0.56
127 49 0.26
128 23 0.12
129 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (126 bp):
CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTCTTTTGAAACAAA
AATCTTTGAGTCTGTTTCTCTTGAAACAAAATCTTTGAGTATGTTTCCCTTAAAACACAAC
Found at i:1177213 original size:67 final size:67
Alignment explanation
Indices: 1177088--1177261 Score: 192
Period size: 67 Copynumber: 2.6 Consensus size: 67
1177078 AGTTTCTCCT
* * * *
1177088 AAAACAAACATTTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATATCTTT
1 AAAAAAAACATCTTTGAG-TCGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATATCTTT
1177153 T-G
65 TAG
* * * * *
1177155 ATAAAAAA-ATCTTTGAGTTTGTTTCT-TTGGAAACAAAGTTTTGTCTCTTTTGCGACAATTTCT
1 AAAAAAAACATCTTTGAG-TCGTTTCTCTT-GAAACAAA-TTTTGTCTCTCTTGAGACAATATCT
1177218 TTTAAG
63 TTT-AG
1177224 AAAAAAAATCATCTTTGAGTCGTTTCTCTTGAAACAAA
1 AAAAAAAA-CATCTTTGAGTCGTTTCTCTTGAAACAAA
1177262 AGTCTTGGAA
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
65 2 0.02
66 21 0.24
67 31 0.35
69 8 0.09
70 15 0.17
71 11 0.12
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (67 bp):
AAAAAAAACATCTTTGAGTCGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATATCTTTT
AG
Found at i:1177621 original size:131 final size:130
Alignment explanation
Indices: 1177382--1177801 Score: 481
Period size: 131 Copynumber: 3.2 Consensus size: 130
1177372 TGAAACCATT
* *
1177382 ACCCCTAGATAACCAGCCGTCATCATCACGTAGGAACCGTGCTATCA-TCCTTAAAGATGGCT-T
1 ACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATTCC-TAAAGATGG-TAT
* * * ** * *
1177445 GCCGTCGTCATCACGTAGGAACCATGTCATCCCCTAACCAGACCTCCTCATCACT-TAGGAGTCG
64 GTCGTCCTCATCACGTAGGAA-CGTGTCATCCATTGACCAGACCTCCTCATCA-TATAGGAGCCG
1177509 TGTC
127 TGTC
* * *
1177513 ACCCTTAGATAATCAGCCGTCCTCATCACGTAGGGACCGTGTTATCATTCCTAAAGATGGTATGT
1 ACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATTCCTAAAGATGGTATGT
* *
1177578 CATCCTCATCACGTAGGAATCGTGTCATCCATTGATCAGACCTCCTCATCATATAGGAGCCGTGT
66 CGTCCTCATCACGTAGGAA-CGTGTCATCCATTGACCAGACCTCCTCATCATATAGGAGCCGTGT
1177643 C
130 C
* * *** * * * * **
1177644 AACCTTAGATAA-CATGTTATCTTCATCACGTAGGTACCATGTTATTATTCCTAAAGATGACATG
1 ACCCCTAGATAACCA-GCCGTCCTCATCACGTAGGAACCGTGTTATCATTCCTAAAGATGGTATG
* *
1177708 TCGTCCTCATCACGTAGGAACTGTGT-ACTCCATCGACCAGACCTCCTCATCATGTAGGAGCCGT
65 TCGTCCTCATCACGTAGGAAC-GTGTCA-TCCATTGACCAGACCTCCTCATCATATAGGAGCCGT
1177772 GTC
128 GTC
*
1177775 ACCCCTAGATAACCAACCGTCCTCATC
1 ACCCCTAGATAACCAGCCGTCCTCATC
1177802 GCATAGAAAC
Statistics
Matches: 246, Mismatches: 36, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
130 6 0.02
131 235 0.96
132 5 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (130 bp):
ACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATTCCTAAAGATGGTATGT
CGTCCTCATCACGTAGGAACGTGTCATCCATTGACCAGACCTCCTCATCATATAGGAGCCGTGTC
Found at i:1177817 original size:131 final size:129
Alignment explanation
Indices: 1177382--1177917 Score: 429
Period size: 131 Copynumber: 4.1 Consensus size: 129
1177372 TGAAACCATT
* * * * * * *
1177382 ACCCCTAGATAACCAGCCGTCATCATCACGTAGGAACCGTGCTATCA-TCCTTAAAGATGGCTTG
1 ACCCTTAGATAA-CAGCCGTCCTCATCACGTAGGAACCATGTTATTATTCC-TAAAGATGACATG
* * ** * * *
1177446 CCGTCGTCATCACGTAGGAACCATGT-CATCC-CCTAACCAGACCTCCTCATCACT-TAGGAGTC
64 TC-TCCTCATCACGTAGGAACTGTGTAC-TCCATC-GACCAGACCTCCTCATCA-TGTAGGAGCC
1177508 GTGTC
125 GTGTC
* * * **
1177513 ACCCTTAGATAATCAGCCGTCCTCATCACGTAGGGACCGTGTTATCATTCCTAAAGATGGTATGT
1 ACCCTTAGATAA-CAGCCGTCCTCATCACGTAGGAACCATGTTATTATTCCTAAAGATGACATGT
* * *
1177578 CATCCTCATCACGTAGGAA-TCGTGT-CATCCATTGATCAGACCTCCTCATCATATAGGAGCCGT
65 C-TCCTCATCACGTAGGAACT-GTGTAC-TCCATCGACCAGACCTCCTCATCATGTAGGAGCCGT
1177641 GTC
127 GTC
* *** * *
1177644 AACCTTAGATAACATGTTATCTTCATCACGTAGGTACCATGTTATTATTCCTAAAGATGACATGT
1 ACCCTTAGATAACA-GCCGTCCTCATCACGTAGGAACCATGTTATTATTCCTAAAGATGACATGT
1177709 CGTCCTCATCACGTAGGAACTGTGTACTCCATCGACCAGACCTCCTCATCATGTAGGAGCCGTGT
65 C-TCCTCATCACGTAGGAACTGTGTACTCCATCGACCAGACCTCCTCATCATGTAGGAGCCGTGT
1177774 C
129 C
* * * * * * * *
1177775 ACCCCTAGATAACCAACCGTCCTCATCGCATAGAAACAATGTTATTGCTCTTCCTAAAGATGGCC
1 ACCCTTAGATAA-CAGCCGTCCTCATCACGTAGGAACCATGTTA-T--TATTCCTAAAGAT-GAC
*** * * * * * * * * *
1177840 AAAACTCTTCATCACGTATGAGCCGTGTTA-TCCACCGACTATATCTCCTCATCACGTAGGAGCC
61 ATGTCTCCTCATCACGTAGGAACTGTG-TACTCCATCGACCAGACCTCCTCATCATGTAGGAGCC
1177904 GTGTC
125 GTGTC
1177909 ACCCTTAGA
1 ACCCTTAGA
1177918 CGACCAGAAC
Statistics
Matches: 334, Mismatches: 58, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
130 3 0.01
131 245 0.73
132 8 0.02
134 72 0.22
135 6 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (129 bp):
ACCCTTAGATAACAGCCGTCCTCATCACGTAGGAACCATGTTATTATTCCTAAAGATGACATGTC
TCCTCATCACGTAGGAACTGTGTACTCCATCGACCAGACCTCCTCATCATGTAGGAGCCGTGTC
Found at i:1178633 original size:23 final size:24
Alignment explanation
Indices: 1178595--1178652 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
1178585 AGAGATATCA
1178595 AAAAAGAATAGAGGGA-TAGGGGTT
1 AAAAA-AATAGAGGGACTAGGGGTT
* * *
1178619 TAAAAAATCGAGGGACTCGGGGTT
1 AAAAAAATAGAGGGACTAGGGGTT
1178643 AAGAAAAATA
1 AA-AAAAATA
1178653 TAAAAAGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 9 0.33
24 12 0.44
25 6 0.22
ACGTcount: A:0.47, C:0.05, G:0.31, T:0.17
Consensus pattern (24 bp):
AAAAAAATAGAGGGACTAGGGGTT
Found at i:1180203 original size:5 final size:5
Alignment explanation
Indices: 1180193--1180229 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
1180183 TTCTTTTCAC
1180193 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TCTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA T
1180230 GGAAAATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:1183148 original size:45 final size:45
Alignment explanation
Indices: 1183088--1183185 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
1183078 CATTCCAGCA
1183088 CTCCACGTTACAAATTCCA-TAAGCTTCCAGCACTGCCAGCA-TCTC
1 CTCCACGTTACAAATTCCAGT-AGCTTCCAGCACTGCCAGCAGTC-C
**
1183133 CTCCACGTTGTAAATTCCAGTAGCTTCCAGCACTGCCAGCAGTCC
1 CTCCACGTTACAAATTCCAGTAGCTTCCAGCACTGCCAGCAGTCC
1183178 CTCCACGT
1 CTCCACGT
1183186 CCCCGTTCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
45 46 0.94
46 3 0.06
ACGTcount: A:0.23, C:0.38, G:0.14, T:0.24
Consensus pattern (45 bp):
CTCCACGTTACAAATTCCAGTAGCTTCCAGCACTGCCAGCAGTCC
Found at i:1183941 original size:63 final size:64
Alignment explanation
Indices: 1183846--1183981 Score: 150
Period size: 63 Copynumber: 2.1 Consensus size: 64
1183836 AAAATTTCAT
* * ** * * ** *
1183846 TTTAGCCACTAAAATCAATTTTTATATGTTTTAATTCTA-TCTTTTAATTTTGTTTTA-CTATAA
1 TTTAGTCACTAAAATAAATTTCCATATATTTTAATTC-AGTATTCGAATTTTATTTTATCTATAA
* *
1183909 TTTAGTCACTACAATAAATTTCCATATATTTTAATTCAGTATTCGAATTTTATTTTATTTATAA
1 TTTAGTCACTAAAATAAATTTCCATATATTTTAATTCAGTATTCGAATTTTATTTTATCTATAA
1183973 TTTAGTCAC
1 TTTAGTCAC
1183982 CGTATATATA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
62 1 0.02
63 45 0.75
64 14 0.23
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (64 bp):
TTTAGTCACTAAAATAAATTTCCATATATTTTAATTCAGTATTCGAATTTTATTTTATCTATAA
Found at i:1184246 original size:11 final size:11
Alignment explanation
Indices: 1184230--1184254 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1184220 TCCTTTAAAT
1184230 TTTAATTATTA
1 TTTAATTATTA
1184241 TTTAATTATTA
1 TTTAATTATTA
1184252 TTT
1 TTT
1184255 TATTTTAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:1184421 original size:159 final size:158
Alignment explanation
Indices: 1184244--1184548 Score: 341
Period size: 159 Copynumber: 1.9 Consensus size: 158
1184234 ATTATTATTT
* **
1184244 AATTATTATTTTATTTTAGTCATA-TCAATATATATTATTT-GATTAATTTTAT-AAATTAATAA
1 AATTATTATTTTAATTTAGTCATATTCAA-AT-TATTATTTAGA--AAAATTATCAAATTAATAA
* **
1184306 TATTTATTTATTTTTAAATATTAAGAA-AGGGCGGTCTTAAAATAACTAGATGTCATATTCTGGT
62 TATTTATTTATTTTTAAATATTAAGAATAGGGCGGTCTTAAAACAACTAGATGTCATATTCTCAT
*
1184370 A-TTTTAAATAAATAAATATTTTGATTATAAA
127 ATTTTTAAATAAACAAATATTTTGATTATAAA
** * * * **
1184401 AATTATATATATTTAATTTAGTTTTATTTAAATTATTTTTTAGGAAAAATTATCATATTTTTAAT
1 AATTAT-TAT-TTTAATTTAGTCATATTCAAATTATTATTTA-GAAAAATTATCAAATTAATAAT
* * * * *
1184466 ATTTATTTATTTTTTAATATTAAGAATGGGGCTGTCTTAAAGCAACTAGATGTCATTTTCTCATA
63 ATTTATTTATTTTTAAATATTAAGAATAGGGCGGTCTTAAAACAACTAGATGTCATATTCTCATA
1184531 TTTTTAAATAAACAAATA
128 TTTTTAAATAAACAAATA
1184549 CTTTATTTAT
Statistics
Matches: 121, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
157 6 0.05
158 16 0.13
159 47 0.39
160 36 0.30
161 16 0.13
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (158 bp):
AATTATTATTTTAATTTAGTCATATTCAAATTATTATTTAGAAAAATTATCAAATTAATAATATT
TATTTATTTTTAAATATTAAGAATAGGGCGGTCTTAAAACAACTAGATGTCATATTCTCATATTT
TTAAATAAACAAATATTTTGATTATAAA
Found at i:1187984 original size:72 final size:72
Alignment explanation
Indices: 1187867--1188003 Score: 222
Period size: 72 Copynumber: 1.9 Consensus size: 72
1187857 ATATACAATA
* * * *
1187867 AAGCTTGAGTTATTCCCCTAAAGCAATTGGTTAATCGCCCCGGCTTTATGGATAATATTCAGCTA
1 AAGCTAGAGTTATCCCCCTAAAGAAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCTA
1187932 GCCTGTT
66 GCCTGTT
1187939 AAGCTAGAGTTA-CCCCTCTAAAGAAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCT
1 AAGCTAGAGTTATCCCC-CTAAAGAAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCT
1188003 A
65 A
1188004 ACTTGTTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 3 0.05
72 57 0.95
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (72 bp):
AAGCTAGAGTTATCCCCCTAAAGAAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCTA
GCCTGTT
Found at i:1189626 original size:16 final size:18
Alignment explanation
Indices: 1189601--1189634 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1189591 AATGAGACAG
1189601 AAATGTGTGAAG-AATGA
1 AAATGTGTGAAGCAATGA
1189618 AAATG-GTGAAGCAATGA
1 AAATGTGTGAAGCAATGA
1189635 CAGTAGAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.47, C:0.03, G:0.29, T:0.21
Consensus pattern (18 bp):
AAATGTGTGAAGCAATGA
Found at i:1189934 original size:55 final size:54
Alignment explanation
Indices: 1189798--1190013 Score: 292
Period size: 54 Copynumber: 4.0 Consensus size: 54
1189788 TGATTGAGAA
* *
1189798 ATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATG-TTTACCAAC
1 ATCTGGGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
*
1189851 ATCTAGGG-AGAAGCCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGAAAC
1 ATCT-GGGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACG-AAC
* * * * *
1189906 ATCTGGGTAGAAGCCATAGGAAAAGATGAATGTGTTGTTAAATGCTTTACGAAC
1 ATCTGGGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
* * * *
1189960 ATATGTGCAGAAACCACAGGAAATGATGAATGTGTTGTCAAATGTTTTATGAAC
1 ATCTGGGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
1190014 CATTGATTAT
Statistics
Matches: 142, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
53 38 0.27
54 59 0.42
55 45 0.32
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (54 bp):
ATCTGGGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
Found at i:1190003 original size:109 final size:108
Alignment explanation
Indices: 1189798--1190008 Score: 316
Period size: 109 Copynumber: 1.9 Consensus size: 108
1189788 TGATTGAGAA
* * *
1189798 ATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTACCAACATCTAGGGAGAA
1 ATCTGGGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTACCAACATATAGGCAGAA
*
1189863 GCCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGAAAC
66 ACCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGAAAC
* * * *
1189906 ATCTGGGTAGAAGCCATAGGAAAAGATGAATGTGTTGTTAAATGCTTTACGAACATAT-GTGCAG
1 ATCTGGGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATG-TTTACCAACATATAG-GCAG
*
1189970 AAACCACAGGAAATGATGAATGTGTTGTCAAATGTTTTA
64 AAACCACAAGAAATGATGAATGTGTTGTCAAATGTTTTA
1190009 TGAACCATTG
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
108 41 0.45
109 51 0.55
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.27
Consensus pattern (108 bp):
ATCTGGGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTACCAACATATAGGCAGAA
ACCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGAAAC
Found at i:1191226 original size:73 final size:73
Alignment explanation
Indices: 1191104--1191364 Score: 423
Period size: 73 Copynumber: 3.6 Consensus size: 73
1191094 GGATGTTTTC
* *
1191104 AAATATCAATTTATCTCAATTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
1191169 TTCACTTG
66 TTCACTTG
* ** * * *
1191177 AAATAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAATTTGTTTATCTCTAGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
1191242 TTCACTTG
66 TTCACTTG
* *
1191250 AAATAGCAATTTATCTCACTTGAGAGTGTTTTTCTTAAAACAAACTCTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
*
1191315 TTCACTCG
66 TTCACTTG
1191323 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
1191365 TTTCAAGAAT
Statistics
Matches: 171, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 171 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (73 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
TTCACTTG
Found at i:1191443 original size:39 final size:39
Alignment explanation
Indices: 1191400--1191668 Score: 335
Period size: 39 Copynumber: 6.9 Consensus size: 39
1191390 AGAATGTGTT
* * *
1191400 TGAAGAGGAATAAAAAGTTCTTAGTATGAAGAACTCATC
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
* * * *
1191439 TGAAGTGGAAGAAGAAGTTCATAATCTGAAGAACTCGTC
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
*
1191478 TGAAGAGGAAGAAGAAA-TTCATAGTCTGAAGAACTCGTC
1 TGAAGAGGAAGAA-AAAGTTCATAGTCTGAAGAACTCATC
* * *
1191517 TGAAGAGGAA-AAAGGAGTTCATAATCTGAAGAACTCGTC
1 TGAAGAGGAAGAAA-AAGTTCATAGTCTGAAGAACTCATC
* * * *
1191556 TGAAGAGCAAGAAGAAGTTCAAAGTCTGAAGAACTCATA
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
** *
1191595 TGAAGAGGAAGAATGAGTTCATAATCTGAAGAACTCATC
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
*
1191634 TAAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACT
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACT
1191669 TATTCAACCT
Statistics
Matches: 197, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
37 1 0.01
38 3 0.02
39 189 0.96
40 4 0.02
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.22
Consensus pattern (39 bp):
TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
Found at i:1191508 original size:78 final size:77
Alignment explanation
Indices: 1191369--1191668 Score: 397
Period size: 78 Copynumber: 3.8 Consensus size: 77
1191359 AAAACATTTC
* * * * * *
1191369 AAGAATGAGTTCATAATTTGAAGAA-TGTGTTTGAAGAGGAATAAAAAGTTCTTAGTATGAAGAA
1 AAGAA-GAGTTCATAATCTGAAGAACT-CGTCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAA
*
1191433 CTCATCTGAAGTGG
64 CTCATCTGAAGAGG
1191447 AAGAAGAAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAGAAA-TTCATAGTCTGAAGAA
1 AAGAAG-AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAA-AAAGTTCATAGTCTGAAGAA
*
1191511 CTCGTCTGAAGAGG
64 CTCATCTGAAGAGG
* * * *
1191525 AAAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGCAAGAAGAAGTTCAAAGTCTGAAGAAC
1 AAGAA-GAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
*
1191590 TCATATGAAGAGG
65 TCATCTGAAGAGG
* *
1191603 AAGAATGAGTTCATAATCTGAAGAACTCATCTAAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
1 AAGAA-GAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
1191668 T
65 T
1191669 TATTCAACCT
Statistics
Matches: 196, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
77 3 0.02
78 188 0.96
79 5 0.03
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (77 bp):
AAGAAGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACT
CATCTGAAGAGG
Found at i:1191575 original size:117 final size:117
Alignment explanation
Indices: 1191369--1191668 Score: 365
Period size: 117 Copynumber: 2.6 Consensus size: 117
1191359 AAAACATTTC
* * ** * * * *
1191369 AAGAATGAGTTCATAATTTGAAGAA-TGTGTTTGAAGAGGAATAAAAAGTTCTTAGTATGAAGAA
1 AAGAATGAATTCATAATCTGAAGAACT-CATCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAA
* * * *
1191433 CTCATCTGAAGTGGAAGAAGAAGTTCATAA-TCTGAAGAACTCGTCTGAAGAGG
65 CTCATCTGAAGAGCAAGAAGAAGTTCA-AAGTCTGAAGAACTCATATGAAGAGG
* * * *
1191486 AAGAA-GAAATTCATAGTCTGAAGAACTCGTCTGAAGAGGAA-AAAGGAGTTCATAATCTGAAGA
1 AAGAATG-AATTCATAATCTGAAGAACTCATCTGAAGAGGAAGAAA-AAGTTCATAGTCTGAAGA
*
1191549 ACTCGTCTGAAGAGCAAGAAGAAGTTCAAAGTCTGAAGAACTCATATGAAGAGG
64 ACTCATCTGAAGAGCAAGAAGAAGTTCAAAGTCTGAAGAACTCATATGAAGAGG
* *
1191603 AAGAATGAGTTCATAATCTGAAGAACTCATCTAAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
1 AAGAATGAATTCATAATCTGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
1191668 T
66 T
1191669 TATTCAACCT
Statistics
Matches: 157, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
116 6 0.04
117 146 0.93
118 5 0.03
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (117 bp):
AAGAATGAATTCATAATCTGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
TCATCTGAAGAGCAAGAAGAAGTTCAAAGTCTGAAGAACTCATATGAAGAGG
Found at i:1192037 original size:45 final size:45
Alignment explanation
Indices: 1191965--1192062 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
1191955 ATTCCAGCAG
*
1191965 CTCCACGTTACAAATTCCATCATCTTCCAACACTGCCAGAAGCCC
1 CTCCACGTTACAAATTCCATCAGCTTCCAACACTGCCAGAAGCCC
* * * * *
1192010 CTCCACGTTGCAAATTCCAGT-AGCTTCCAGCACTGCTAGCAGTCC
1 CTCCACGTTACAAATTCCA-TCAGCTTCCAACACTGCCAGAAGCCC
1192055 CTCCACGT
1 CTCCACGT
1192063 CCCCGTTTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 45 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.39, G:0.13, T:0.23
Consensus pattern (45 bp):
CTCCACGTTACAAATTCCATCAGCTTCCAACACTGCCAGAAGCCC
Found at i:1192798 original size:63 final size:64
Alignment explanation
Indices: 1192714--1192850 Score: 181
Period size: 63 Copynumber: 2.2 Consensus size: 64
1192704 AAAATTTCAT
* * * * *
1192714 TTTAGCCACTAAAATCAATTTTTATATATTTTAATTCTATCT-TT-TAATTTTGTTTTA-TTATA
1 TTTAGTCACTAAAATAAATTTTCATATATTTTAATTC-AT-TATTCAAATTTTATTTTATTTATA
1192776 A
64 A
*
1192777 TTTAGTCACTACAATAAATTTTCATATATTTTAATTCATTATTCAAATTTTATTTTATTTATAA
1 TTTAGTCACTAAAATAAATTTTCATATATTTTAATTCATTATTCAAATTTTATTTTATTTATAA
1192841 TTTAGTCACT
1 TTTAGTCACT
1192851 GTATATATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
61 1 0.02
62 4 0.06
63 44 0.68
64 16 0.25
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (64 bp):
TTTAGTCACTAAAATAAATTTTCATATATTTTAATTCATTATTCAAATTTTATTTTATTTATAA
Found at i:1196557 original size:3 final size:3
Alignment explanation
Indices: 1196538--1196589 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
1196528 GATCTGTTTG
*
1196538 TAA TAA TAT TAA TTAA TAA TAA TAA TAA TAA -AA -AA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1196582 AAA TAA TA
1 TAA TAA TA
1196590 CAATAACAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1196559 original size:16 final size:16
Alignment explanation
Indices: 1196538--1196589 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
1196528 GATCTGTTTG
* *
1196538 TAATAATATTAATTAA
1 TAATAATAATAATAAA
1196554 TAATAATAATAATAAA
1 TAATAATAATAATAAA
*
1196570 AAATAATAATAA-AAA
1 TAATAATAATAATAAA
1196585 TAATA
1 TAATA
1196590 CAATAACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 7 0.22
16 25 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATAATAATAATAAA
Found at i:1199910 original size:17 final size:17
Alignment explanation
Indices: 1199888--1199920 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1199878 ATTTCATTAC
*
1199888 ATTATTTTTTTTTTAAA
1 ATTATTTGTTTTTTAAA
1199905 ATTATTTGTTTTTTAA
1 ATTATTTGTTTTTTAA
1199921 CCTAAGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
ATTATTTGTTTTTTAAA
Found at i:1204586 original size:13 final size:13
Alignment explanation
Indices: 1204568--1204592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1204558 TCCCACATTG
1204568 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
1204581 TTTTCTTTTTTT
1 TTTTCTTTTTTT
1204593 AACACTGCTA
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:1211277 original size:19 final size:19
Alignment explanation
Indices: 1211253--1211298 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1211243 CAAAATAAAC
*
1211253 TATAAATAATGGATTTGCT
1 TATAAAGAATGGATTTGCT
*
1211272 TATAAAGACTGGATTTGCT
1 TATAAAGAATGGATTTGCT
1211291 TATAAAGA
1 TATAAAGA
1211299 CTTTAGACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (19 bp):
TATAAAGAATGGATTTGCT
Found at i:1211299 original size:19 final size:19
Alignment explanation
Indices: 1211262--1211300 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1211252 CTATAAATAA
1211262 TGGATTTGCTTATAAAGAC
1 TGGATTTGCTTATAAAGAC
1211281 TGGATTTGCTTATAAAGAC
1 TGGATTTGCTTATAAAGAC
1211300 T
1 T
1211301 TTAGACTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (19 bp):
TGGATTTGCTTATAAAGAC
Found at i:1213010 original size:10 final size:9
Alignment explanation
Indices: 1212990--1213020 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1212980 TTTATTTTCC
*
1212990 TTTTTGCTT
1 TTTTTTCTT
1212999 TTTTTTCTT
1 TTTTTTCTT
1213008 TTTTTTCTT
1 TTTTTTCTT
1213017 TTTT
1 TTTT
1213021 AACACTGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:1237333 original size:14 final size:14
Alignment explanation
Indices: 1237314--1237341 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1237304 ATGTCGAATG
1237314 ACTATAAGTGATAT
1 ACTATAAGTGATAT
1237328 ACTATAAGTGATAT
1 ACTATAAGTGATAT
1237342 CTTAGATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
ACTATAAGTGATAT
Found at i:1239237 original size:19 final size:17
Alignment explanation
Indices: 1239187--1239238 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
1239177 AGAATAAAAA
1239187 ATAAATAAATAAATAAATG
1 ATAAATAAA-AAAT-AATG
*
1239206 ATAAAT-AAGAATAATG
1 ATAAATAAAAAATAATG
1239222 ATAATAATAAAAAATAA
1 AT-A-AATAAAAAATAA
1239239 ATTAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 6 0.21
17 4 0.14
18 5 0.18
19 13 0.46
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (17 bp):
ATAAATAAAAAATAATG
Found at i:1240193 original size:188 final size:181
Alignment explanation
Indices: 1239858--1240228 Score: 663
Period size: 188 Copynumber: 2.0 Consensus size: 181
1239848 AGGGGCGTAG
1239858 ATCTAAAAAGAAATTTTCAAATGCCCCCTATTCGGTCATCGGCTTTCGCGCTTTACATCCAAGAG
1 ATCTAAAAAGAAATTTTCAAATGCCCCCTATTCGGTCATCGGCTTTCGCGCTTTACATCCAAGAG
1239923 ACGACATGCATAAGAAATAATAAAAGGTGAGCCGTTTACCTTATATTTTCTTAATAATCGCAAAA
66 ACGACATGCATAAGAAATAATAAAAGGTGAGCCGTTTACCTTATATTTTCTTAATAATCGCAAAA
1239988 AAATGCTTTGAATCACTGCTCGTACTTGCTCGGAAA-TTCTGCTTTCATTTC
131 AAATGCTTTGAATCACTGCTCGTACTTGCTC-GAAATTTCTGCTTTCATTTC
1240039 ATCTAAAAAGAAATTTTCAAATGCCCCCTATTCCGGTCATCGGCTTTCGGCGCTTTACATCCAAG
1 ATCTAAAAAGAAATTTTCAAATGCCCCCTATT-CGGTCATCGGCTTTC-GCGCTTTACATCCAAG
1240104 AGACGACATGCATAACGAAATAATAAAAGGTGAGCCGTTTTACCTTATATTTCTTCTTTAATAAT
64 AGACGACATGCATAA-GAAATAATAAAAGGTGAGCCG-TTTACCTTATA-TT-TTC-TTAATAAT
1240169 CGCAAAAAAATGCTTTGAATCACTGCTCGTACTTGCTCGAAATTTCTGCTTTCATTTC
124 CGCAAAAAAATGCTTTGAATCACTGCTCGTACTTGCTCGAAATTTCTGCTTTCATTTC
1240227 AT
1 AT
1240229 ATCCACTGTT
Statistics
Matches: 182, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
181 32 0.18
182 15 0.08
183 31 0.17
184 21 0.12
185 11 0.06
186 2 0.01
187 7 0.04
188 63 0.35
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (181 bp):
ATCTAAAAAGAAATTTTCAAATGCCCCCTATTCGGTCATCGGCTTTCGCGCTTTACATCCAAGAG
ACGACATGCATAAGAAATAATAAAAGGTGAGCCGTTTACCTTATATTTTCTTAATAATCGCAAAA
AAATGCTTTGAATCACTGCTCGTACTTGCTCGAAATTTCTGCTTTCATTTC
Found at i:1241139 original size:170 final size:170
Alignment explanation
Indices: 1240845--1241191 Score: 511
Period size: 170 Copynumber: 2.0 Consensus size: 170
1240835 GGGTCCCTTC
* *
1240845 GTTGTGAAGTTGAACTTGCGGTGTCTGGAGTCCAATATCCTTTGAAATTGGTTCTGAAATTGGGA
1 GTTGTGAAGTTGAACTTGCGGTGTCTGGAGTCCAATATCCTTCG--ATTGGGTCTGAAATTGGGA
* *
1240910 AAATGTTCGTTGACAAACAGCGGTCCCTTCATCGTGAAGTTGAACTTGCTTTGTCTGGAGTCCAA
64 AAATGTTCGTTGACAAACAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAA
*
1240975 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
129 TATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
*
1241017 GTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-TTGTGAAGT-TGAAATTGGG
1 GTTGTGAAGTTGAACTTGCGGTGTCTGGAGTCCAATATCCTTCGATTG-G--GTCTGAAATTGGG
* * * * * * *
1241080 -AAGTTTTTGTTGACAACCAGTGGTCCCTTCGTTGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
63 AAAATGTTCGTTGACAAACAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
1241144 ATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
128 ATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
1241187 GTTGT
1 GTTGT
1241192 TGTTGACAAC
Statistics
Matches: 159, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
169 3 0.02
170 103 0.65
171 10 0.06
172 43 0.27
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (170 bp):
GTTGTGAAGTTGAACTTGCGGTGTCTGGAGTCCAATATCCTTCGATTGGGTCTGAAATTGGGAAA
ATGTTCGTTGACAAACAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATA
TCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
Found at i:1241252 original size:105 final size:105
Alignment explanation
Indices: 1241071--1241602 Score: 893
Period size: 105 Copynumber: 5.1 Consensus size: 105
1241061 TTGTGAAGTT
* * * *
1241071 GAAATTGGGAAGTTTTTGTTGACAACCAGTGGTCCCTTCGTTGTGAAGTTGAACTTACGTTGTCT
1 GAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
1241136 GGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCT
66 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
* * *
1241176 GAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCT
1 GAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
1241241 AGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCT
66 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
*
1241281 GAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 GAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
1241346 AGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCC
66 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
1241386 GAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 GAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
1241451 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCCCC
66 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
* *
1241491 GAAATTGAGAAGTTATTGTTGACAACCAGCTGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 GAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1241556 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
66 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
1241596 GAAATTG
1 GAAATTG
1241603 TCGTTGACAA
Statistics
Matches: 408, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 408 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (105 bp):
GAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
Found at i:1241267 original size:275 final size:265
Alignment explanation
Indices: 1240809--1241296 Score: 753
Period size: 275 Copynumber: 1.8 Consensus size: 265
1240799 GAACTCTGAG
*
1240809 ATTGAGAAGTTGTTGTTGACAACCAGGGGTCCCTTCGTTGTGAAGTTGAACTTGCGGTGTCTGGA
1 ATTGAGAAGTTGTTGTTGACAACCAGGGGTCCCTTCGTTGTGAAGTTGAACTTACGGTGTCTGGA
*
1240874 GTCCAATATCCTTTGAAATTGGTTCTGAAATTGGGAAAATGTTCGTTGACAAACAGCGGTCCCTT
66 GTCCAATATCCTTTGAAATTGGCTCTGAAATTGGGAAAATGTTCGTTGACAAACAGCGGTCCCTT
* * *
1240939 CATCGTGAAGTTGAACTTGCTTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT
131 CATCGTGAAGTTGAACTTACGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT
1241004 CTGAAATTGGGAAGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
196 CTGAAATTGGGAAGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1241069 TTGAA
261 TTGAA
* * * *
1241074 ATTGGGAAGTTTTTGTTGACAACCAGTGGTCCCTTCGTTGTGAAGTTGAACTTACGTTGTCTGGA
1 ATTGAGAAGTTGTTGTTGACAACCAGGGGTCCCTTCGTTGTGAAGTTGAACTTACGGTGTCTGGA
** *
1241139 GTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT-GTTGACAACC
66 GTCCAATAT-C--C----T----TTGAAATTGGCTCTGAAATTGGGAAAATGTTCGTTGACAAAC
*
1241203 AGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTAGAGTCCAATATCTTTCGCTGTGAAGT
120 AGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGT
1241268 TGAAATTGGCTCTGAAATTGGGAAGTTGT
185 TGAAATTGGCTCTGAAATTGGGAAGTTGT
1241297 TGTTGACAAC
Statistics
Matches: 199, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
265 69 0.35
266 1 0.01
268 1 0.01
272 1 0.01
275 99 0.50
276 28 0.14
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (265 bp):
ATTGAGAAGTTGTTGTTGACAACCAGGGGTCCCTTCGTTGTGAAGTTGAACTTACGGTGTCTGGA
GTCCAATATCCTTTGAAATTGGCTCTGAAATTGGGAAAATGTTCGTTGACAAACAGCGGTCCCTT
CATCGTGAAGTTGAACTTACGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT
CTGAAATTGGGAAGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAA
Found at i:1253074 original size:2 final size:2
Alignment explanation
Indices: 1253067--1253110 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1253057 AGTATACATA
1253067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1253109 AT
1 AT
1253111 GTAAAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1253196 original size:19 final size:17
Alignment explanation
Indices: 1253146--1253197 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
1253136 AGAATAAAAT
1253146 ATAAATAAATAAATAAATG
1 ATAAATAAA-AAAT-AATG
*
1253165 ATAAAT-AAGAATAATG
1 ATAAATAAAAAATAATG
1253181 ATAATAATAAAAAATAA
1 AT-A-AATAAAAAATAA
1253198 ATTAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 6 0.21
17 4 0.14
18 5 0.18
19 13 0.46
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (17 bp):
ATAAATAAAAAATAATG
Found at i:1254844 original size:105 final size:105
Alignment explanation
Indices: 1254658--1255414 Score: 1127
Period size: 105 Copynumber: 7.2 Consensus size: 105
1254648 CCAATATCCT
* * ** * *
1254658 TTGAAATTAGTTCTGAAATTGGGAAAATGTTCGTTGACAAACAGCGGTCCCTTCGTCGTGAACTT
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTT-GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* * *
1254723 GAACTTGCTTTCTCTGGAGTCCAATATCCTTCGGTGTGAAG
65 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
*
1254764 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1254829 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* * *
1254869 TTGAAATTGTCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1254934 AACTTACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* *
1254974 TTGAAATTGGCTCTGAAATTAGGAAGTTGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * * *
1255039 AACTTACGTTGTCTAGAGTCCAATATCTTTCGCTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* *
1255079 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTAACAACCAGCGGTCCCTTCGTCGTAAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * *
1255144 AACTTGCATTGTCTAGAGTCCAATATCCTTCGTTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* * * * *
1255184 TTAAAATTGGCCCTGAAATAGGGTAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1255249 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* * * * ** * *
1255289 TTGAAATTAGCCCCGAAATTGGGAAGTTATTGTTGACAACCAGCTATCCCTTTGTCGTGAAATTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
1255354 AACTTGCGTTATCTGGAGTCCAATATCCTTCGTTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
*
1255394 TTGAAATTGGCTCCGAAATTG
1 TTGAAATTGGCTCTGAAATTG
1255415 TAGTTGACAA
Statistics
Matches: 596, Mismatches: 55, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
105 569 0.95
106 27 0.05
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (105 bp):
TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
Found at i:1255086 original size:315 final size:313
Alignment explanation
Indices: 1254546--1255414 Score: 1195
Period size: 315 Copynumber: 2.8 Consensus size: 313
1254536 CATGAGCATG
* * * *
1254546 ATATCCTTCGTCGTGAAGTTGAAATCGAACACTGAGATTGGGAAGTTGTTGCTGACAACCAGC-G
1 ATATCCTTCGT-GTGAAGTTGAAATTG-AC-CCGAAATTGGGAAGTTGTTGTTGACAACCAGCGG
* *
1254610 TCCCTTCGTTGTGAAGTTAAACTTGCGGTGTCTGGAGTCCAATAT-C--C----T----TTGAAA
63 TCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAA
* ** * *
1254664 TTAGTTCTGAAATTGGGAAAATGTTCGTTGACAAACAGCGGTCCCTTCGTCGTGAACTTGAACTT
128 TTAGCTCTGAAATTGGGAAGTTGTT-GTTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAACTT
* * *
1254729 GCTTTCTCTGGAGTCCAATATCCTTCGGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGT
192 GCGTTATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGT
* * * *
1254794 TGTTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
257 TGTTAACAACCAACGGTCCCTTCGTCGTAAAGTTGAACTTGCATTGTCTAGAGTCCA
*
1254851 ATATCCTTCGCTGTGAAGTTGAAATTGTCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
1 ATATCCTTCG-TGTGAAGTTGAAATTGAC-CCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
*
1254916 CCCTTCGTTGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAAT
64 CCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAAT
* * * * *
1254981 TGGCTCTGAAATTAGGAAGTTGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTAC
129 TAGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAACTTGC
* * *
1255046 GTTGTCTAGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
194 GTTATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
*
1255111 TTAACAACCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCATTGTCTAGAGTCCA
259 TTAACAACCAACGGTCCCTTCGTCGTAAAGTTGAACTTGCATTGTCTAGAGTCCA
* * * * *
1255166 ATATCCTTCGTTGTGAAGTTAAAATTGGCCCTGAAATAGGGTAGTTATTGTTGACAACCAGCGGT
1 ATATCCTTCG-TGTGAAGTTGAAATTGACCC-GAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
*
1255231 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAAT
64 CCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAAT
* * * ** *
1255296 TAGCCCCGAAATTGGGAAGTTATTGTTGACAACCAGCTATCCCTTTGTCGTGAAATTGAACTTGC
129 TAGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAACTTGC
* *
1255361 GTTATCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTG
194 GTTATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
1255415 TAGTTGACAA
Statistics
Matches: 498, Mismatches: 52, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
304 30 0.06
305 67 0.13
306 2 0.00
308 1 0.00
312 1 0.00
314 2 0.00
315 369 0.74
316 26 0.05
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (313 bp):
ATATCCTTCGTGTGAAGTTGAAATTGACCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCC
CTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTA
GCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAACTTGCGT
TATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTT
AACAACCAACGGTCCCTTCGTCGTAAAGTTGAACTTGCATTGTCTAGAGTCCA
Found at i:1256522 original size:105 final size:105
Alignment explanation
Indices: 1256332--1257088 Score: 1138
Period size: 105 Copynumber: 7.2 Consensus size: 105
1256322 CCAATATCCT
* * ** *
1256332 TTGAAATTAGTTCTGAAATTGGGAAAATGTTCGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTT
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTT-GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* * * *
1256397 GAACTTGCTTTTTCTGGAGTCCAATATCCTTCGGTGTGAAG
65 GAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAG
* *
1256438 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGTCCCTTCGTCATGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1256503 AACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTATGAAG
66 AACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAG
* * ** *
1256543 TTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACTAATGGTCCCTTTGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * *
1256608 AACTTGCGTTGTTTGGAGTCCAATATCCTTCGTTGTGAAG
66 AACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAG
* *
1256648 TTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * *
1256713 AACTTACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
66 AACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAG
* * *
1256753 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGAAAACCAGCGGTCCCTTTGTCGTGAAATTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * *
1256818 AACTTACGTTGTCTAGAGTCCAATATCTTTCGATGTGAAG
66 AACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAG
1256858 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * *
1256923 AACTTGCGTTGTCTAGATTCCAATATTCTTCGCTATGAAG
66 AACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAG
* * *
1256963 TTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAATTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1257028 AACTTGCATTGTCT-GTAGTCCAATATCCTTCGCTGTGAAG
66 AACTTGCGTTGTCTAG-AGTCCAATATCCTTCGCTGTGAAG
*
1257068 TTGAAATTGGCTCCGAAATTG
1 TTGAAATTGGCTCTGAAATTG
1257089 TAGTTGACAA
Statistics
Matches: 594, Mismatches: 56, Indels: 3
0.91 0.09 0.00
Matches are distributed among these distances:
104 1 0.00
105 566 0.95
106 27 0.05
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (105 bp):
TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAG
Found at i:1256755 original size:315 final size:312
Alignment explanation
Indices: 1256219--1257088 Score: 1211
Period size: 315 Copynumber: 2.8 Consensus size: 312
1256209 CATGAGAATG
* * * *
1256219 ATATCCTTCGTCGTGAAGTTGAAATCGAACACTGAGATTGGGAAGTTGTTGTTGACAACCAACGG
1 ATATCCTTCGT-GTGAAGTTGAAATTG-GCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGG
* * * * * *
1256284 TCCCTTCGTTGTGAAGTTAAACTTACGGTGTCTGGAGTCCAATATC--C-TTTGAAATT--AGTT
64 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCTTCGTTTGAAGTTGAAATT
** *
1256344 --CT--GAAATTGGGAAAATGTTCGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
129 GGCTCCGAAATTGGGAAGTTGTT-GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
1256405 TTTTTCTGGAGTCCAATATCCTTCGGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
193 ATTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
* * *
1256470 TTGACAACCAACGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTAGAGTCCA
258 TTGAAAACCAACGGTCCCTTCGTCATGAAATTGAACTTACGTTGTCTAGAGTCCA
* * * *
1256525 ATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACTAATGGT
1 ATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGT
* *
1256590 CCCTTTGTCGTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
65 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT-CTTCGTT-TGAAGTTGAAAT
* *
1256655 TGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTAC
128 TGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
1256720 GTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
193 ATTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
* * *
1256785 TTGAAAACCAGCGGTCCCTTTGTCGTGAAATTGAACTTACGTTGTCTAGAGTCCA
258 TTGAAAACCAACGGTCCCTTCGTCATGAAATTGAACTTACGTTGTCTAGAGTCCA
* *
1256840 ATATCTTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
1 ATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGT
* * *
1256905 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGATTCCAATATTCTTCGCTATGAAGTTGAAAT
65 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA-TCTTCG-TTTGAAGTTGAAAT
* *
1256970 TGGC-CCTGAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAACTTG
128 TGGCTCC-GAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
* * *
1257034 CATTGTCTGTAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTG
192 CATTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTG
1257089 TAGTTGACAA
Statistics
Matches: 499, Mismatches: 50, Indels: 21
0.88 0.09 0.04
Matches are distributed among these distances:
305 70 0.14
306 24 0.05
307 1 0.00
308 1 0.00
309 2 0.00
310 6 0.01
312 3 0.01
314 4 0.01
315 371 0.74
316 17 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (312 bp):
ATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGTC
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCTTCGTTTGAAGTTGAAATTGG
CTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATT
GTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTG
AAAACCAACGGTCCCTTCGTCATGAAATTGAACTTACGTTGTCTAGAGTCCA
Found at i:1258192 original size:105 final size:105
Alignment explanation
Indices: 1258006--1258972 Score: 1423
Period size: 105 Copynumber: 9.2 Consensus size: 105
1257996 CCAATATCCT
* * * * *
1258006 TTGAAATTAGTTCTGAAATTGGGAAAATT-TTCGTTGACAAACAGCGATCCCTTCGTCGTGAAGT
1 TTGAAATTGGCTCTGAAATTGGG-AAGTTGTT-GTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * *
1258070 TGAACTTGCTTTTTCTGGAGTCCAATATCCTTCGGTGTGAAG
64 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* *
1258112 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGTCCCTTCGTCATGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
1258177 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTATGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* ** *
1258217 TTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACCAATGGTCCCTTTGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
1258282 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTCTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* *
1258322 TTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1258387 AACTTACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* * *
1258427 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGTGGTCCCTTTGTCGTGAAATTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * *
1258492 AACTTACGTTGTCTAGAGTCCAATATCTTTCGATGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* *
1258532 TTGAAATTGGCTCTGAAATTAGGAAGTTGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * * *
1258597 AACTTACGTTGTCTAGAGTCCAATATCTTTCGCTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* *
1258637 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTAACAACCAGCGGTCCCTTCGTCGTAAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * *
1258702 AACTTGCATTGTCTAGAGTCCAATATCCTTCGTTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* * * * *
1258742 TTAAAATTGGCCCTGAAATAGGGTAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1258807 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
* * * * ** * *
1258847 TTGAAATTAGCCCCGAAATTGGGAAGTTATTGTTGACAACCAGCTATCCCTTTGTCGTGAAATTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
1258912 AACTTGCGTTATCTGGAGTCCAATATCCTTCGCTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
*
1258952 TTGAAATTGGCTCCGAAATTG
1 TTGAAATTGGCTCTGAAATTG
1258973 TAGTTGACAA
Statistics
Matches: 790, Mismatches: 70, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
105 767 0.97
106 23 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (105 bp):
TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
Found at i:1258432 original size:315 final size:315
Alignment explanation
Indices: 1257893--1258972 Score: 1502
Period size: 315 Copynumber: 3.5 Consensus size: 315
1257883 CATGAGCATG
* * * * *
1257893 ATATCCTTCG-TCGTGAAGTTGAAATCGAACACTGAGATTGGGAAGTTGTTGTTGACAACCAGCG
1 ATATCCTTCGAT-GTGAAGTTGAAATTG-GCTCTGAAATTAGGAAGTTGTTGTTGACAACCAGCG
* * * *
1257957 GTCCCTTCGTTGTGAAGTTAAACTTACGGTGTCTGGAGTCCAATATCC-T---T-TGAAATT--A
64 GTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAA
* * * *
1258015 GTT--CT--GAAATTGGGAAAATT-TTCGTTGACAAACAGCGATCCCTTCGTCGTGAAGTTGAAC
129 ATTGGCTCCGAAATTGGG-AAGTTGTT-GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* * *
1258075 TTGCTTTTTCTGGAGTCCAATATCCTTCGGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT
192 TTGCATTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT
* *
1258140 GTTGTTGACAACCAACGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCA
257 GTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * **
1258199 ATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACCAATGGT
1 ATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACCAGCGGT
* * * *
1258264 CCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTCTGAAGTTGAAAT
66 CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
* *
1258329 TGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTAC
131 TGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
1258394 GTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
196 ATTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
* * * * *
1258459 TTGACAACCAGTGGTCCCTTTGTCGTGAAATTGAACTTACGTTGTCTAGAGTCCA
261 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1258514 ATATCTTTCGATGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTATTGACAACCAGCGGT
1 ATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACCAGCGGT
* *
1258579 CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTAGAGTCCAATATCTTTCGCTGTGAAGTTGAAAT
66 CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
* * *
1258644 TGGCTCTGAAATTGGGAAGTTGTTGTTAACAACCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGC
131 TGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * * * * * *
1258709 ATTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCCCTGAAATAGGGTAGTTATTG
196 ATTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
1258774 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
261 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * * **
1258829 ATATCCTTCGATGTGAAGTTGAAATTAGCCCCGAAATTGGGAAGTTATTGTTGACAACCAGCTAT
1 ATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACCAGCGGT
* * * *
1258894 CCCTTTGTCGTGAAATTGAACTTGCGTTATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
66 CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
1258959 TGGCTCCGAAATTG
131 TGGCTCCGAAATTG
1258973 TAGTTGACAA
Statistics
Matches: 685, Mismatches: 76, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
305 73 0.11
306 24 0.04
307 1 0.00
309 1 0.00
310 6 0.01
312 3 0.00
314 2 0.00
315 564 0.82
316 11 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (315 bp):
ATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
TGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
ATTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
Found at i:1260080 original size:105 final size:105
Alignment explanation
Indices: 1259890--1260646 Score: 1145
Period size: 105 Copynumber: 7.2 Consensus size: 105
1259880 CCAATATCCT
* * ** *
1259890 TTGAAATTAGTTCTGAAATTGGGAAAATGTTCGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTT
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTT-GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* * *
1259955 GAACTTGCTTTTTCTGGAGTCCAATATCCTTCGGTGTGAAG
65 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* *
1259996 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGTCCCTTCGTCATGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
1260061 AACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTATGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* * ** *
1260101 TTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACTAATGGTCCCTTTGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
1260166 AACTTGCGTTGTTTGGAGTCCAATATCCTTCGTTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* *
1260206 TTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
1260271 AACTTACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* * *
1260311 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGAAAACCAGCGGTCCCTTTGTCGTGAAATTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * * *
1260376 AACTTACGTTGTCTAGAGTCCAATATCTTTCGATGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
1260416 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * * *
1260481 AACTTGCGTTGTCTAGATTCCAATATTCTTCGCTATGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* * * *
1260521 TTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAACCAGCGGCCCCTTCGTCGTGAAATTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1260586 AACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
*
1260626 TTGAAATTGGCTCCGAAATTG
1 TTGAAATTGGCTCTGAAATTG
1260647 TAGTTGACAA
Statistics
Matches: 593, Mismatches: 58, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
105 566 0.95
106 27 0.05
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (105 bp):
TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
Found at i:1260313 original size:315 final size:312
Alignment explanation
Indices: 1259777--1260646 Score: 1211
Period size: 315 Copynumber: 2.8 Consensus size: 312
1259767 CATGAGAATG
* * * *
1259777 ATATCCTTCGTCGTGAAGTTGAAATCGAACACTGAGATTGGGAAGTTGTTGTTGACAACCAACGG
1 ATATCCTTCGT-GTGAAGTTGAAATTG-GCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGG
* * * * * *
1259842 TCCCTTCGTTGTGAAGTTAAACTTACGGTGTCTGGAGTCCAATATC--C-TTTGAAATT--AGTT
64 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCTTCGTTTGAAGTTGAAATT
** *
1259902 --CT--GAAATTGGGAAAATGTTCGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
129 GGCTCCGAAATTGGGAAGTTGTT-GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
1259963 TTTTTCTGGAGTCCAATATCCTTCGGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
193 ATTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
* * *
1260028 TTGACAACCAACGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTAGAGTCCA
258 TTGAAAACCAACGGTCCCTTCGTCATGAAATTGAACTTACGTTGTCTAGAGTCCA
* * * *
1260083 ATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACTAATGGT
1 ATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGT
* *
1260148 CCCTTTGTCGTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
65 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT-CTTCGTT-TGAAGTTGAAAT
* *
1260213 TGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTAC
128 TGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
1260278 GTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
193 ATTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
* * *
1260343 TTGAAAACCAGCGGTCCCTTTGTCGTGAAATTGAACTTACGTTGTCTAGAGTCCA
258 TTGAAAACCAACGGTCCCTTCGTCATGAAATTGAACTTACGTTGTCTAGAGTCCA
* *
1260398 ATATCTTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
1 ATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGT
* * *
1260463 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGATTCCAATATTCTTCGCTATGAAGTTGAAAT
65 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA-TCTTCG-TTTGAAGTTGAAAT
* * *
1260528 TGGC-CCTGAAATTGGGAAGTTATTGTTGACAACCAGCGGCCCCTTCGTCGTGAAATTGAACTTG
128 TGGCTCC-GAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
* *
1260592 CATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTG
192 CATTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTG
1260647 TAGTTGACAA
Statistics
Matches: 499, Mismatches: 50, Indels: 21
0.88 0.09 0.04
Matches are distributed among these distances:
305 70 0.14
306 24 0.05
307 1 0.00
308 1 0.00
309 2 0.00
310 6 0.01
312 3 0.01
314 4 0.01
315 371 0.74
316 17 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (312 bp):
ATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGTC
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCTTCGTTTGAAGTTGAAATTGG
CTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATT
GTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTG
AAAACCAACGGTCCCTTCGTCATGAAATTGAACTTACGTTGTCTAGAGTCCA
Found at i:1261750 original size:105 final size:105
Alignment explanation
Indices: 1261564--1262422 Score: 1312
Period size: 105 Copynumber: 8.2 Consensus size: 105
1261554 CCAATATCCT
* * * * *
1261564 TTGAAATTAGTTCTGAAATTGGGAAAATT-TTCGTTGACAAACAGCGATCCCTTCGTCGTGAAGT
1 TTGAAATTGGCTCTGAAATTGGG-AAGTTGTT-GTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * *
1261628 TGAACTTGCTTTTTCTGGAGTCCAATATCCTTCGGTGTGAAG
64 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* *
1261670 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAACGGTCCCTTCGTCATGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1261735 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTATGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* ** *
1261775 TTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACCAATGGTCCCTTTGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
1261840 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTCTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* *
1261880 TTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
1261945 AACTTACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* *
1261985 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTTGTCGTGAAATTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * * *
1262050 AACTTACGTTGTCTAGAGTCCAATATCTTTCGATGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
*
1262090 TTGAAATTGGCTCTGAAATTGGGAA---GCTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
1262152 AACTTGCATTGTCTAGAGTCCAATATCCTTCGCTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* * *
1262192 TTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCTTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1262257 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* * * * * *
1262297 TTGAAATTAGCCCCGAAATTGGGAAGTTATTGTTGACAACCAGCTGTCCCTTCGTCGTGAAATTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1262362 AACTTGCGTTGTCTGGAGTCCAATATCCTTCACTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
1262402 TTGAAATTGGCTCTGAAATTG
1 TTGAAATTGGCTCTGAAATTG
1262423 TCGTTGACAA
Statistics
Matches: 695, Mismatches: 54, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
102 94 0.14
105 578 0.83
106 23 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
Found at i:1262211 original size:417 final size:417
Alignment explanation
Indices: 1261451--1262422 Score: 1405
Period size: 417 Copynumber: 2.3 Consensus size: 417
1261441 CATGAGCATG
* * * *
1261451 ATATCCTTCGTCGTGAAGTTGAAATCGAACACTGAGATTGGGAAGTTGTTGTTGACAACCAGCGG
1 ATATCCTTCGTC-TGAAGTTGAAATTG-GCACCGAAATTGGGAAGTTGTTGTTGACAACCAGCGG
* *
1261516 TCCCTTCGTTGTGAAGTTAAACTTACGGTGTCTGGAGTCCAATAT-C--C---T----TTGAAAT
64 TCCCTTCGTTGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCATGTGAAGTTGAAAT
* * * *
1261571 TAGTTCTGAAATTGGGAAAATTTTCGTTGACAAACAGCGATCCCTTCGTCGTGAAGTTGAACTTG
129 TGGCTCTGAAATTGGGAAAATTTTCGTTGACAAACAGCGATCCCTTCGTCGTGAAATTGAACTTA
* * * * *
1261636 CTTTTTCTGGAGTCCAATATCCTTCGGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
194 CGTTGTCTAGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAA--TGCT
* *
1261701 GTTGACAACCAACGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
257 GTTGACAACCAACGGTCCCTTCGTCATGAAGTTGAACTTGCATTGTCTAGAGTCCAATATCCTTC
* * *
1261766 GCTATGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGACAACCAATGGTCCCTT-TGT
322 GCTATGAAGTTGAAATTGGCCCTGAAATTAGGAAGTTATTGTTGACAACCAACGGTCCCTTCT-T
1261830 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
386 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1261862 ATATCCTTCGTTCTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
1 ATATCCTTCG-TCTGAAGTTGAAATTGGCACCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
1261927 CCCTTCGTTGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAAT
65 CCCTTCGTTGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC-ATGTGAAGTTGAAAT
* * * *
1261992 TGGCTCTGAAATTGGG-AAGTTGTT-GTTGACAACCAGCGGTCCCTTTGTCGTGAAATTGAACTT
129 TGGCTCTGAAATTGGGAAAATT-TTCGTTGACAAACAGCGATCCCTTCGTCGTGAAATTGAACTT
*
1262055 ACGTTGTCTAGAGTCCAATATCTTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-GCTG
193 ACGTTGTCTAGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAATGCTG
* *
1262119 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTAGAGTCCAATATCCTTCG
258 TTGACAACCAACGGTCCCTTCGTCATGAAGTTGAACTTGCATTGTCTAGAGTCCAATATCCTTCG
* * *
1262184 CTGTGAAGTTGAAATTGGCCCTGAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCTTCG
323 CTATGAAGTTGAAATTGGCCCTGAAATTAGGAAGTTATTGTTGACAACCAACGGTCCCTTCTTCG
1262249 TGAAGTTGAACTTGCGTTGTCTGGAGTCCA
388 TGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * *
1262279 ATATCCTTCGCTGTGAAGTTGAAATTAGCCCCGAAATTGGGAAGTTATTGTTGACAACCAGCTGT
1 ATATCCTTCG-TCTGAAGTTGAAATTGGCACCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
* * *
1262344 CCCTTCGTCGTGAAATTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTGAAAT
65 CCCTTCGTTGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCA-TGTGAAGTTGAAAT
1262409 TGGCTCTGAAATTG
129 TGGCTCTGAAATTG
1262423 TCGTTGACAA
Statistics
Matches: 506, Mismatches: 40, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
410 76 0.15
411 24 0.05
412 2 0.00
413 1 0.00
416 1 0.00
417 285 0.56
418 1 0.00
420 93 0.18
421 23 0.05
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (417 bp):
ATATCCTTCGTCTGAAGTTGAAATTGGCACCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTC
CCTTCGTTGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCATGTGAAGTTGAAATTG
GCTCTGAAATTGGGAAAATTTTCGTTGACAAACAGCGATCCCTTCGTCGTGAAATTGAACTTACG
TTGTCTAGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAATGCTGTTG
ACAACCAACGGTCCCTTCGTCATGAAGTTGAACTTGCATTGTCTAGAGTCCAATATCCTTCGCTA
TGAAGTTGAAATTGGCCCTGAAATTAGGAAGTTATTGTTGACAACCAACGGTCCCTTCTTCGTGA
AGTTGAACTTGCGTTGTCTGGAGTCCA
Found at i:1274465 original size:12 final size:11
Alignment explanation
Indices: 1274448--1274478 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
1274438 TCTTTTATTT
1274448 CCTTTTTTAAG
1 CCTTTTTTAAG
1274459 CCTTTTTTAAG
1 CCTTTTTTAAG
1274470 CCTTTTTTA
1 CCTTTTTTA
1274479 TTTTCAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.19, G:0.06, T:0.58
Consensus pattern (11 bp):
CCTTTTTTAAG
Found at i:1275488 original size:28 final size:27
Alignment explanation
Indices: 1275408--1275488 Score: 62
Period size: 28 Copynumber: 3.1 Consensus size: 27
1275398 TAAATAAACT
*
1275408 TTATATTTTTTTTATTATAAATCTAAAA
1 TTATA-TTTTTTTATTATAAATCTAATA
** * **
1275436 TTAT-TTCCTTTATT-T-TA-CTTGTA
1 TTATATTTTTTTATTATAAATCTAATA
1275459 TTATATTATTTTTATTATAAATCTAATA
1 TTATATT-TTTTTATTATAAATCTAATA
1275487 TT
1 TT
1275489 TTTATAACAA
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
23 7 0.19
24 3 0.08
25 7 0.19
26 9 0.24
27 1 0.03
28 10 0.27
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (27 bp):
TTATATTTTTTTATTATAAATCTAATA
Found at i:1275605 original size:19 final size:20
Alignment explanation
Indices: 1275581--1275630 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 20
1275571 AACTTTCTAT
1275581 TATTTTATTATAAA-TATAA
1 TATTTTATTATAAATTATAA
* *
1275600 TATTTT-TAATAAATTATCA
1 TATTTTATTATAAATTATAA
1275619 -ATTTTATT-TAAA
1 TATTTTATTATAAA
1275631 CTAATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTTTATTATAAATTATAA
Found at i:1275752 original size:32 final size:32
Alignment explanation
Indices: 1275710--1275834 Score: 142
Period size: 32 Copynumber: 3.9 Consensus size: 32
1275700 CTCAGGTCGA
* * * * *
1275710 GTTAAATTCGGTTCGGGATGTTTTTTGATCGG
1 GTTAATTTCGGTTCGGGTTGCTTTTGGTTCGG
* * *
1275742 GTTAATTTCGGTTCGTGTTGCTTTCGGTTCGA
1 GTTAATTTCGGTTCGGGTTGCTTTTGGTTCGG
*
1275774 GTTAATTTCGGTCCGGGTTGCTTTTGGTTCGG
1 GTTAATTTCGGTTCGGGTTGCTTTTGGTTCGG
* * *
1275806 GTTAATTTCAGTTCTGGTTGATTTTGGTT
1 GTTAATTTCGGTTCGGGTTGCTTTTGGTT
1275835 TCGCTAAATT
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.11, C:0.12, G:0.30, T:0.47
Consensus pattern (32 bp):
GTTAATTTCGGTTCGGGTTGCTTTTGGTTCGG
Found at i:1275808 original size:16 final size:16
Alignment explanation
Indices: 1275738--1275834 Score: 86
Period size: 16 Copynumber: 6.1 Consensus size: 16
1275728 TGTTTTTTGA
*
1275738 TCGGGTTAATTTCGGT
1 TCGGGTTGATTTCGGT
* *
1275754 TCGTGTTGCTTTCGGT
1 TCGGGTTGATTTCGGT
* *
1275770 TCGAGTTAATTTCGGT
1 TCGGGTTGATTTCGGT
* * *
1275786 CCGGGTTGCTTTTGGT
1 TCGGGTTGATTTCGGT
* *
1275802 TCGGGTTAATTTCAGT
1 TCGGGTTGATTTCGGT
* *
1275818 TCTGGTTGATTTTGGT
1 TCGGGTTGATTTCGGT
1275834 T
1 T
1275835 TCGCTAAATT
Statistics
Matches: 61, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 61 1.00
ACGTcount: A:0.09, C:0.13, G:0.30, T:0.47
Consensus pattern (16 bp):
TCGGGTTGATTTCGGT
Found at i:1279455 original size:199 final size:202
Alignment explanation
Indices: 1279115--1279518 Score: 769
Period size: 199 Copynumber: 2.0 Consensus size: 202
1279105 AAATTAATTT
1279115 CTGTGCAAGGGTGTATCGATACCCATTCAACAGGTACTGATACCTCAAGAGTAAATTCATGAAGA
1 CTGTGCAAGGGTGTATCGATACCCATTCAACAGGTACTGATACCTCAAGAGTAAATTCATGAAGA
1279180 TATTCAAAGTGTACCGATACATAGGTGGTGTATCGATACCCCCTTGAAAAGAAGAATTTCGAATG
66 TATTCAAAGTGTACCGATACATAGGTGGTGTATCGATACCCCCTTGAAAAGAAGAATTTCGAATG
1279245 TAATTTGTGTACCGATACATAGGCA-GTATCGATACCTTAGTAAAAAA-GTATCGATACTC-TAG
131 TAATTTGTGTACCGATACATAGGCAGGTATCGATACCTTAGTAAAAAATGTATCGATACTCATAG
1279307 TGTGTAC
196 TGTGTAC
1279314 CTGTGCAAGGGTGTATCGATACCCATTCAACAGGTACTGATACCTCAAGAGTAAATTCATGAAGA
1 CTGTGCAAGGGTGTATCGATACCCATTCAACAGGTACTGATACCTCAAGAGTAAATTCATGAAGA
1279379 TATTCAAAGTGTACCGATACATAGGTGGTGTATCGATACCCCCTTGAAAAGAAGAATTTCGAATG
66 TATTCAAAGTGTACCGATACATAGGTGGTGTATCGATACCCCCTTGAAAAGAAGAATTTCGAATG
1279444 TAATTTGTGTACCGATACATAGGCAGTGTATCGATACCTTAGTAAAAAATGTATCGATACTCTAT
131 TAATTTGTGTACCGATACATAGGCAG-GTATCGATACCTTAGTAAAAAATGTATCGATACTC-AT
1279509 AGTGTGTAC
194 AGTGTGTAC
1279518 C
1 C
1279519 GATACACTTC
Statistics
Matches: 200, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
199 155 0.77
201 22 0.11
202 12 0.06
204 11 0.05
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (202 bp):
CTGTGCAAGGGTGTATCGATACCCATTCAACAGGTACTGATACCTCAAGAGTAAATTCATGAAGA
TATTCAAAGTGTACCGATACATAGGTGGTGTATCGATACCCCCTTGAAAAGAAGAATTTCGAATG
TAATTTGTGTACCGATACATAGGCAGGTATCGATACCTTAGTAAAAAATGTATCGATACTCATAG
TGTGTAC
Found at i:1281761 original size:18 final size:18
Alignment explanation
Indices: 1281734--1281785 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
1281724 TGTGTTCTAT
*
1281734 GTGGTACTTCGGGACATA
1 GTGGTCCTTCGGGACATA
1281752 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
1281770 GTGATCCTACGGGACA
1 GTGGTCCTTCGGGACA
1281786 AATTTTATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:1282810 original size:13 final size:16
Alignment explanation
Indices: 1282777--1282814 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 16
1282767 TATAGATAAT
1282777 TAGAATAAATATAACA
1 TAGAATAAATATAACA
1282793 TAGAATAAAT-T-A-A
1 TAGAATAAATATAACA
1282806 TAGAATAAA
1 TAGAATAAA
1282815 ATAGAATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 1 0.05
15 1 0.05
16 10 0.45
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (16 bp):
TAGAATAAATATAACA
Found at i:1282926 original size:19 final size:18
Alignment explanation
Indices: 1282898--1282937 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
1282888 CTATTTTTAT
*
1282898 AATTATTTTTATTATTAG
1 AATTATTTTTATAATTAG
1282916 AATTCATTTTTATAATTAG
1 AATT-ATTTTTATAATTAG
1282935 AAT
1 AAT
1282938 ATAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
AATTATTTTTATAATTAG
Found at i:1283526 original size:22 final size:22
Alignment explanation
Indices: 1283492--1283548 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
1283482 TATTTGCACC
1283492 AATTTAATT-TTTATATATATTA
1 AATTT-ATTATTTATATATATTA
** * *
1283514 TGTTTATTATTTATTTATTTTA
1 AATTTATTATTTATATATATTA
1283536 AATTTATTATTTA
1 AATTTATTATTTA
1283549 ATGTTATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
AATTTATTATTTATATATATTA
Found at i:1285264 original size:22 final size:22
Alignment explanation
Indices: 1285230--1285286 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
1285220 TATTTGCACC
1285230 AATTTAATT-TTTATATATATTA
1 AATTT-ATTATTTATATATATTA
** * *
1285252 TGTTTATTATTTATTTATTTTA
1 AATTTATTATTTATATATATTA
1285274 AATTTATTATTTA
1 AATTTATTATTTA
1285287 ATGTTATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
AATTTATTATTTATATATATTA
Found at i:1289216 original size:42 final size:43
Alignment explanation
Indices: 1289170--1289281 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 43
1289160 CAATAGGTTA
* *
1289170 TGATGTTTAGCGGCGTTTTTCTCACAAACG-CGTAGTAGGTGT
1 TGATGTTTTGCGGCGTTTTTCTCACAAACGTCGCAGTAGGTGT
* * *
1289212 TGATGTTTTGTGGCG-TTTTCCCATAAACGTCGCAGTAGGTGT
1 TGATGTTTTGCGGCGTTTTTCTCACAAACGTCGCAGTAGGTGT
**
1289254 TGATGTTTTGCGGATTTTTTCTCACAAA
1 TGATGTTTTGCGGCGTTTTTCTCACAAA
1289282 TGCCGGTAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 12 0.21
42 36 0.62
43 10 0.17
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (43 bp):
TGATGTTTTGCGGCGTTTTTCTCACAAACGTCGCAGTAGGTGT
Found at i:1289775 original size:21 final size:21
Alignment explanation
Indices: 1289730--1289778 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1289720 TGCTACCTGC
*
1289730 TGCTTCCGCTGCTGCTCTAGT
1 TGCTTCCGCTGCTGCTCTACT
*
1289751 TGCTTCTGCTGCTGCTCT-CT
1 TGCTTCCGCTGCTGCTCTACT
1289771 ATGCTTCC
1 -TGCTTCC
1289779 CTTGCTTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.04, C:0.35, G:0.20, T:0.41
Consensus pattern (21 bp):
TGCTTCCGCTGCTGCTCTACT
Found at i:1296062 original size:7 final size:7
Alignment explanation
Indices: 1296052--1296090 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
1296042 ATTTTTTTCA
1296052 TTTAGAT
1 TTTAGAT
1296059 TTTAGAT
1 TTTAGAT
1296066 TTTAGAT
1 TTTAGAT
1296073 TTT-GAAT
1 TTTAG-AT
*
1296080 TTTAAAT
1 TTTAGAT
1296087 TTTA
1 TTTA
1296091 TTTTAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 1 0.03
7 28 0.97
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (7 bp):
TTTAGAT
Found at i:1297331 original size:34 final size:34
Alignment explanation
Indices: 1297283--1297353 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
1297273 CAATCTAAAT
*
1297283 AGGCGTTTAAGCTTTGATAACATGTTTATAAACA
1 AGGCCTTTAAGCTTTGATAACATGTTTATAAACA
1297317 AGGCCTTTAAGCTTTGATAACATGTTTATAAACA
1 AGGCCTTTAAGCTTTGATAACATGTTTATAAACA
1297351 AGG
1 AGG
1297354 TAGAGTGCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (34 bp):
AGGCCTTTAAGCTTTGATAACATGTTTATAAACA
Found at i:1304095 original size:34 final size:34
Alignment explanation
Indices: 1304052--1304123 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
1304042 AATAAATGAA
*
1304052 TGATCCAAGAGAAGAACATCTGGAGACAGTTAAT
1 TGATCCAAGAGAAGAACATCTAGAGACAGTTAAT
1304086 TGATCCAAGAGAAGAACATCTAGAGACAGTTAAT
1 TGATCCAAGAGAAGAACATCTAGAGACAGTTAAT
1304120 TGAT
1 TGAT
1304124 TTTCAGAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (34 bp):
TGATCCAAGAGAAGAACATCTAGAGACAGTTAAT
Found at i:1307329 original size:14 final size:15
Alignment explanation
Indices: 1307310--1307339 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1307300 AATATCATTC
1307310 AACC-AAATCAAACA
1 AACCAAAATCAAACA
1307324 AACCAAAATCAAACA
1 AACCAAAATCAAACA
1307339 A
1 A
1307340 TTAAATCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.27, G:0.00, T:0.07
Consensus pattern (15 bp):
AACCAAAATCAAACA
Found at i:1318645 original size:31 final size:31
Alignment explanation
Indices: 1318610--1318671 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
1318600 TTGATGAAGC
*
1318610 GTCCCGGGTTTTATCAGTCTTGGGTTGATTT
1 GTCCCGGGTTTCATCAGTCTTGGGTTGATTT
1318641 GTCCCGGGTTTCATCAGTCTTGGGTTGATTT
1 GTCCCGGGTTTCATCAGTCTTGGGTTGATTT
1318672 AACCATGTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.10, C:0.18, G:0.29, T:0.44
Consensus pattern (31 bp):
GTCCCGGGTTTCATCAGTCTTGGGTTGATTT
Found at i:1327523 original size:21 final size:21
Alignment explanation
Indices: 1327489--1327528 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1327479 TAAAGCGTCT
*
1327489 AATAATAACATTTTCGGTAGA
1 AATAATAACATTTTAGGTAGA
**
1327510 AATAATAATGTTTTAGGTA
1 AATAATAACATTTTAGGTA
1327529 ATTTTTATCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (21 bp):
AATAATAACATTTTAGGTAGA
Found at i:1336551 original size:37 final size:37
Alignment explanation
Indices: 1336496--1336574 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
1336486 TGTATTATAG
*
1336496 TCTTATGAGGAGAGCGACAGCAAAGAACTAGGCACTT
1 TCTTTTGAGGAGAGCGACAGCAAAGAACTAGGCACTT
1336533 TCTTTTGAGGAGAGCGACAGCAAAGAACTAGGCACTT
1 TCTTTTGAGGAGAGCGACAGCAAAGAACTAGGCACTT
1336570 TCTTT
1 TCTTT
1336575 AGTCAGTGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (37 bp):
TCTTTTGAGGAGAGCGACAGCAAAGAACTAGGCACTT
Found at i:1337824 original size:36 final size:37
Alignment explanation
Indices: 1337763--1337832 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 37
1337753 TCCACCGCCT
*
1337763 TTTTAAATGTTTATTTTTTCCTCTCGAGTGCCGCGTA
1 TTTTAAATATTTATTTTTTCCTCTCGAGTGCCGCGTA
*
1337800 TTTTAAATATTTA-TTTTTCCTCTCGTGTGCCGC
1 TTTTAAATATTTATTTTTTCCTCTCGAGTGCCGC
1337833 AGACCTTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 19 0.61
37 12 0.39
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.50
Consensus pattern (37 bp):
TTTTAAATATTTATTTTTTCCTCTCGAGTGCCGCGTA
Done.