Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006626.1 Hibiscus syriacus cultivar Beakdansim tig00016283_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: 53346
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Found at i:958 original size:8 final size:8
Alignment explanation
Indices: 947--1011 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
937 CCTTTTTCTC
947 TTTCATTT
1 TTTCATTT
955 TTTCA---
1 TTTCATTT
*
960 TTTCTTTT
1 TTTCATTT
968 TTTCA-TT
1 TTTCATTT
975 TTTCATTTTT
1 TTTCA--TTT
985 TTTCATTT
1 TTTCATTT
*
993 TTT-TTCTT
1 TTTCAT-TT
1001 TTTCATTT
1 TTTCATTT
1009 TTT
1 TTT
1012 TTTATCTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
5 4 0.09
7 8 0.18
8 25 0.56
9 1 0.02
10 7 0.16
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTCATTT
Found at i:963 original size:13 final size:14
Alignment explanation
Indices: 947--985 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
937 CCTTTTTCTC
947 TTTCATTTTTTCA-
1 TTTCATTTTTTCAT
*
960 TTTCTTTTTTTCATT
1 TTTCATTTTTTCA-T
975 TTTCATTTTTT
1 TTTCATTTTTT
986 TTCATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
15 10 0.45
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCATTTTTTCAT
Found at i:978 original size:20 final size:20
Alignment explanation
Indices: 947--1003 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 20
937 CCTTTTTCTC
947 TTTCATTTTTTCATTTCTTTT
1 TTTCA-TTTTTCATTTCTTTT
968 TTTCATTTTTCA--T-TTTT
1 TTTCATTTTTCATTTCTTTT
985 TTTCATTTTT--TTTCTTTT
1 TTTCATTTTTCATTTCTTTT
1003 T
1 T
1004 CATTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 15 0.45
18 6 0.18
20 7 0.21
21 5 0.15
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCATTTTTCATTTCTTTT
Found at i:1011 original size:16 final size:15
Alignment explanation
Indices: 952--1014 Score: 76
Period size: 16 Copynumber: 4.1 Consensus size: 15
942 TTCTCTTTCA
*
952 TTTTTTCA--TTTCT
1 TTTTTTCATTTTTTT
965 TTTTTTCATTTTTCATT
1 TTTTTTCATTTTT--TT
982 TTTTTTCATTTTTTT
1 TTTTTTCATTTTTTT
997 TCTTTTTCATTTTTTT
1 T-TTTTTCATTTTTTT
1013 TT
1 TT
1015 ATCTTTTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
13 8 0.18
15 7 0.16
16 15 0.34
17 14 0.32
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTCATTTTTTT
Found at i:1013 original size:10 final size:10
Alignment explanation
Indices: 952--1003 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
942 TTCTCTTTCA
952 TTTTTTCATT
1 TTTTTTCATT
962 TCTTTTT--TT
1 T-TTTTTCATT
*
971 CATTTTTCATT
1 -TTTTTTCATT
982 TTTTTTCATT
1 TTTTTTCATT
992 TTTTTTC-TT
1 TTTTTTCATT
1001 TTT
1 TTT
1004 CATTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 12 0.33
10 17 0.47
11 7 0.19
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:1021 original size:27 final size:27
Alignment explanation
Indices: 939--1021 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
929 CAAACCCTCC
* *
939 TTTTTCTCTTTCATTTTTTCATT-TCTT
1 TTTTTCTTTTTCATTTTTT-TTTATCTT
*
966 TTTTTCATTTTTCATTTTTTTTCAT-TT
1 TTTTTC-TTTTTCATTTTTTTTTATCTT
993 TTTTTCTTTTTCATTTTTTTTTATCTT
1 TTTTTCTTTTTCATTTTTTTTTATCTT
1020 TT
1 TT
1022 ATTTGTTCCC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 17 0.35
27 19 0.39
28 13 0.27
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTTTCTTTTTCATTTTTTTTTATCTT
Found at i:1025 original size:17 final size:18
Alignment explanation
Indices: 939--1021 Score: 73
Period size: 21 Copynumber: 4.6 Consensus size: 18
929 CAAACCCTCC
*
939 TTTTTCTCTTTCATTTTT
1 TTTTTCTTTTTCATTTTT
*
957 TCATTTCTTTTTTTCATTTTT
1 T--TTT-TCTTTTTCATTTTT
**
978 CATTT-TTTTTCA--TTT
1 TTTTTCTTTTTCATTTTT
993 TTTTTCTTTTTCATTTTT
1 TTTTTCTTTTTCATTTTT
1011 TTTTATCTTTT
1 TTTT-TCTTTT
1022 ATTTGTTCCC
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
15 6 0.12
16 7 0.13
17 7 0.13
18 9 0.17
19 8 0.15
20 3 0.06
21 12 0.23
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTTCATTTTT
Found at i:12766 original size:24 final size:24
Alignment explanation
Indices: 12739--12784 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
12729 AATGGAACAT
12739 TATACTTATTAAATAAATGATAAC
1 TATACTTATTAAATAAATGATAAC
12763 TATACTTATTAAATAAATGATA
1 TATACTTATTAAATAAATGATA
12785 TAAAGAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
TATACTTATTAAATAAATGATAAC
Found at i:13022 original size:2 final size:2
Alignment explanation
Indices: 13015--13044 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13005 GACACATTAA
13015 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
13045 GAACAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13295 original size:102 final size:102
Alignment explanation
Indices: 13169--13384 Score: 369
Period size: 102 Copynumber: 2.1 Consensus size: 102
13159 CATTAAACAA
* *
13169 ATATATGTATATGAACAAAGAATCAGTTTCCAAGACATGTTAAACAAATATATATATATATGAAC
1 ATATATATATATGAACAAAAAATCAGTTTCCAAGACATGTTAAACAAATATATATATATATGAAC
** *
13234 AAAAAATCAGTTTCCAAGACATGTTAAACAAATATAT
66 AAAAAATCAGTTTCCAAGACACATTAAACAAATAAAT
13271 ATATATATATATGAACAAAAAATCAGTTTCCAAGACATGTTAAACAAATATATATATATATGAAC
1 ATATATATATATGAACAAAAAATCAGTTTCCAAGACATGTTAAACAAATATATATATATATGAAC
*
13336 AAAAAATCAGTTTCCAAGACACATTAAATAAATAAAT
66 AAAAAATCAGTTTCCAAGACACATTAAACAAATAAAT
*
13373 AAATATATATAT
1 ATATATATATAT
13385 ATATATATAT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 107 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (102 bp):
ATATATATATATGAACAAAAAATCAGTTTCCAAGACATGTTAAACAAATATATATATATATGAAC
AAAAAATCAGTTTCCAAGACACATTAAACAAATAAAT
Found at i:13382 original size:2 final size:2
Alignment explanation
Indices: 13375--13413 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13365 AAATAAATAA
13375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13414 CACGTTTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13383 original size:53 final size:49
Alignment explanation
Indices: 13161--13380 Score: 327
Period size: 49 Copynumber: 4.4 Consensus size: 49
13151 CTAAGACACA
* *
13161 TTAAAC-AA-ATATATGTATATGAACAAAGAATCAGTTTCCAAGACATG
1 TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
13208 TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
1 TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
13257 TTAAACAAATATATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
1 TTAAAC--A-A-ATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
**
13310 TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACACA
1 TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
* * *
13359 TTAAATAAATAAATAAATATAT
1 TTAAACAAATATATATATATAT
13381 ATATATATAT
Statistics
Matches: 160, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
47 6 0.04
48 2 0.01
49 101 0.63
50 1 0.01
51 2 0.01
52 1 0.01
53 47 0.29
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.29
Consensus pattern (49 bp):
TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
Found at i:13979 original size:15 final size:15
Alignment explanation
Indices: 13959--13991 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
13949 TAGTGTGACT
13959 AAAATATAAATA-TTA
1 AAAATA-AAATACTTA
13974 AAAATAAAATACTTA
1 AAAATAAAATACTTA
13989 AAA
1 AAA
13992 CAAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAAATACTTA
Found at i:15343 original size:3 final size:3
Alignment explanation
Indices: 15337--15394 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
15327 TAAATACACT
*
15337 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
15385 T-T TAA TAA TA
1 TAA TAA TAA TA
15395 TTTTTTAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:15699 original size:105 final size:105
Alignment explanation
Indices: 15565--15799 Score: 445
Period size: 105 Copynumber: 2.2 Consensus size: 105
15555 TCTCGTGGAT
*
15565 GAGTTCTTCTCATTATGAACTCTTTTGGAAACGTTGATCCAAATCCTTTTGCGGTGGACTTAGAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAACGTTGATCCAAATCCTTTTGCGGTGGACTTAGAA
15630 AGAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGAC
66 AGAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGAC
*
15670 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATCCAAATCCTTTTGCGGTGGACTTAGAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAACGTTGATCCAAATCCTTTTGCGGTGGACTTAGAA
15735 AGAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGAC
66 AGAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGAC
15775 GAGTTCTTCTCATTATGAACT-TTCT
1 GAGTTCTTCTCATTATGAACTCTTCT
15800 CCTTTAGGAC
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
104 4 0.03
105 124 0.97
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (105 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAACGTTGATCCAAATCCTTTTGCGGTGGACTTAGAA
AGAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGAC
Found at i:15792 original size:35 final size:35
Alignment explanation
Indices: 15746--15830 Score: 170
Period size: 35 Copynumber: 2.4 Consensus size: 35
15736 GAACATGTTT
15746 TTCTCATTATGAACTTTCTCCTTTAGGACGAGTTC
1 TTCTCATTATGAACTTTCTCCTTTAGGACGAGTTC
15781 TTCTCATTATGAACTTTCTCCTTTAGGACGAGTTC
1 TTCTCATTATGAACTTTCTCCTTTAGGACGAGTTC
15816 TTCTCATTATGAACT
1 TTCTCATTATGAACT
15831 CTTCACTGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (35 bp):
TTCTCATTATGAACTTTCTCCTTTAGGACGAGTTC
Found at i:15987 original size:136 final size:136
Alignment explanation
Indices: 15779--16115 Score: 540
Period size: 136 Copynumber: 2.5 Consensus size: 136
15769 TAGGACGAGT
* * * *
15779 TCTTCTCATTATGAAC-T-TTCT-CCT-T-TAGGACGAGTTCTTCTCATTATGAACTCTTCACTG
1 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
** * * *
15839 GAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTATGAATCGAGTGATAGGTCGA
66 GAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGATAGGTCGA
15904 ACAAGC
131 ACAAGC
15910 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
1 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
* *
15975 GAAATACTGATCCTTCAAGCAAGGTGTCACTGATTCAAAATGTCGTGAATCGAGTGATAGGTCGA
66 GAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGATAGGTCGA
16040 ACAAGC
131 ACAAGC
16046 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
1 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
16111 GAAAT
66 GAAAT
16116 GCTGGTTCAC
Statistics
Matches: 190, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
131 16 0.08
132 1 0.01
133 4 0.02
134 3 0.02
135 1 0.01
136 165 0.87
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (136 bp):
TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
GAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGATAGGTCGA
ACAAGC
Found at i:16867 original size:107 final size:107
Alignment explanation
Indices: 16654--16871 Score: 296
Period size: 107 Copynumber: 2.0 Consensus size: 107
16644 TCTCTATCGT
** * *
16654 TTCAGGGAGTAAAAACTCGAACAATCTTCTTCCTACGGGTCTGCTCTTTTTTTCTTCAGGGAGTA
1 TTCAGGGAGTAAAAACTCGAACAATAATCTTCCTACGGGTCTGCTCTCTATTTCTTCAGGGAGTA
** * *
16719 GAACTCGAACAATCTTCTTCATACGGGCTCGCTATCTCTTTC
66 GAACTCGAACAATAATCTTCATACGAGCTCGCTATCCCTTTC
* *
16761 TTCAGGGAGT-AGAACTCGAACAATAATCTTCTTACGGG-CTCGCTCTCTATTTCTTCAGGGAGT
1 TTCAGGGAGTAAAAACTCGAACAATAATCTTCCTACGGGTCT-GCTCTCTATTTCTTCAGGGAGT
* *
16824 AAGAACTCGAACAATAATCTTCTTACGAGCTCGCTCTCCCTTTC
65 -AGAACTCGAACAATAATCTTCATACGAGCTCGCTATCCCTTTC
16868 TTCA
1 TTCA
16872 AGAAAATAGA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
105 2 0.02
106 44 0.45
107 51 0.53
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (107 bp):
TTCAGGGAGTAAAAACTCGAACAATAATCTTCCTACGGGTCTGCTCTCTATTTCTTCAGGGAGTA
GAACTCGAACAATAATCTTCATACGAGCTCGCTATCCCTTTC
Found at i:16885 original size:54 final size:53
Alignment explanation
Indices: 16654--16871 Score: 285
Period size: 53 Copynumber: 4.1 Consensus size: 53
16644 TCTCTATCGT
* ** * * *
16654 TTCAGGGAGTAAAAACTCGAACAATCTTCTTCCTACGGG-TCTGCTCTTTTTTTC
1 TTCAGGGAGT-AGAACTCGAACAATAATCTTCTTACGGGCTC-GCTCTCTCTTTC
** * *
16708 TTCAGGGAGTAGAACTCGAACAATCTTCTTCATACGGGCTCGCTATCTCTTTC
1 TTCAGGGAGTAGAACTCGAACAATAATCTTCTTACGGGCTCGCTCTCTCTTTC
*
16761 TTCAGGGAGTAGAACTCGAACAATAATCTTCTTACGGGCTCGCTCTCTATTTC
1 TTCAGGGAGTAGAACTCGAACAATAATCTTCTTACGGGCTCGCTCTCTCTTTC
* *
16814 TTCAGGGAGTAAGAACTCGAACAATAATCTTCTTACGAGCTCGCTCTCCCTTTC
1 TTCAGGGAGT-AGAACTCGAACAATAATCTTCTTACGGGCTCGCTCTCTCTTTC
16868 TTCA
1 TTCA
16872 AGAAAATAGA
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
53 93 0.62
54 56 0.38
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (53 bp):
TTCAGGGAGTAGAACTCGAACAATAATCTTCTTACGGGCTCGCTCTCTCTTTC
Found at i:16973 original size:55 final size:54
Alignment explanation
Indices: 16882--18727 Score: 2316
Period size: 53 Copynumber: 34.3 Consensus size: 54
16872 AGAAAATAGA
** * * *
16882 ACTCAA-ACATCTTCAACAATCGTATATGCTCTCTATTTCTTCAGAGAGTATAAG
1 ACTCAACA-ATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * ** * * *
16936 ACTCGAATC-ATCTTAAACAAACTTGTTTGCCCCCTATTTATTCAAAGAGTATAAG
1 ACTC-AA-CAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
16991 A-TCCACAATCTTCATCGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* ** **
17044 AC-CCACAATCTTCAACGGTCGCGTCTGCCCATTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
17097 AC-CAACAATCTTCATCAATCGCATCTGCCCCCTATTTCTTCATAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
17150 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
** *
17205 ACTCGAACAATCTTCAATGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
** * *
17260 ACTCGAACAATCTTCAATGATTGCGTATGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
17315 ACTCAAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
17370 AC-CCACAATCTTCATCGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
17423 AC-CCACAATCTTCAACGATCGTGTTTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
17476 AC-CAACAATCTTCATCAATCACGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
** * *
17529 ACTCGAACAATCTTCAATGATTGCGTCTGCCCCTTATTTCTTCAGAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
17584 AC-CCACAATCTTCATCAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
** * * *
17637 ACTCTAACAATCTTCAATGATTGCATTTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
17692 AC-CCACAATCTTCATCAATCGCATCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * **
17745 ACTCGAACAATCTTCAACGATTGTGT-TTTCCCCTATTTCTTCAGAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
17799 AC-CCACAATCTTCATCAATCGCGTTTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
17852 AC-CCACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
17905 AC-CAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* ** *
17958 ACTCGAACAATCTTCAACGATTACGTCTGCCCCCTATTTCTTCAAAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
18013 AC-CCACAATCTTCATCAATCGC-TCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* ** * * * *
18065 ACTCGAACAATCTTAAATGATTGCGTCTGTCCCCTATTTCTTCAGAGAATAAAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
18120 AC-CCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
18173 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * * *
18228 AC-CCACAATCTTTATCAATCGTGTTTGCCCCTTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
** * *
18281 ACTCGAACAATCTTCAATGATTGCGTCTGCCCCCTATTTCTTCAAAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* **
18336 AC-CCACAATCTTCATTAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
18389 ACTTGAACAACCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 AC-TCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
18444 AC-CCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
** * *
18497 ACTCGAA-ATATCTTCAATGATCACGTCTGCCCCCTATTTCTTCAGAGAGTAAAAG
1 ACTC-AACA-ATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
18552 AC-CCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * *
18605 AC-CCACAATATTTATCAATCGCGTCTGCCCCCTATTTCTTTAGAGAGTATAAG
1 ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
18658 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
18713 ACTCGAACAATCTTC
1 ACTC-AACAATCTTC
18728 TTTTGCTTCA
Statistics
Matches: 1574, Mismatches: 187, Indels: 61
0.86 0.10 0.03
Matches are distributed among these distances:
52 48 0.03
53 792 0.50
54 66 0.04
55 668 0.42
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (54 bp):
ACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:17026 original size:108 final size:108
Alignment explanation
Indices: 16914--18727 Score: 2581
Period size: 108 Copynumber: 16.8 Consensus size: 108
16904 TATATGCTCT
* * * * ** * *
16914 CTATTTCTTCAGAGAGTATAAGACTCGA-ATCATCTTAAACAAACTTGTTTGCCCCCTATTTATT
1 CTATTTCTTCAGAGAGTATAAGAC-CCACA--ATCTTCATCAATCGCGTCTGCCCCCTATTTCTT
* * *
16978 CAAAGAGTATAAGA-TC-CACAATCTTCATCGATCGCGTCTGCCCC
63 CAGAGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
* ** **
17022 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGGTCGCGTCTGCCCATTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
* * *
17087 AGAGTATAAGAC-C-AACAATCTTCATCAATCGCATCTGCCCC
66 AGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
* * * * *
17128 CTATTTCTTCATAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTC
1 CTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTC
17193 AGAGAGTATAAGACTCGAACAATCTTCAAT-GATTGCGTCTGCCCC
64 AGAGAGTATAAGACTCGAACAATCTTC-ATCGATTGCGTCTGCCCC
* * * *
17238 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAT-GATTGCGTATGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTC-ATCAATCGCGTCTGCCCCCTATTTCTT
* * *
17302 CAGAGAGTATAAGACTCAAACAATCTTCAACGATCGCGTCTGCCCC
63 CAGAGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
*
17348 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCGATCGCGTCTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
* * * * *
17413 AGAGTATAAGAC-C-CACAATCTTCAACGATCGTGTTTGCCCC
66 AGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
* *
17454 CTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCAATCACGTCTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
17519 AGAGTATAAGACTCGAACAATCTTCAAT-GATTGCGTCTGCCCC
66 AGAGTATAAGACTCGAACAATCTTC-ATCGATTGCGTCTGCCCC
* *
17562 TTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATTGCGTCTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
* * *
17627 AGAGTATAAGACTCTAACAATCTTCAAT-GATTGCATTTGCCCC
66 AGAGTATAAGACTCGAACAATCTTC-ATCGATTGCGTCTGCCCC
*
17670 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCATCTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
* * **
17735 AGAGTATAAGACTCGAACAATCTTCAACGATTGTGT-TTTCCC
66 AGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
*
17777 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTTTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
* * *
17842 AGAGTATAAGAC-C-CACAATCTTCAACGATCGCGTCTGCCCC
66 AGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
*
17883 CTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
* *
17948 AGAGTATAAGACTCGAACAATCTTCAACGATTACGTCTGCCCC
66 AGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
*
17991 CTATTTCTTCAAAGAGTATAAGACCCACAATCTTCATCAATCGC-TCTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
* *
18055 AGAGTATAAGACTCGAACAATCTTAAAT-GATTGCGTCTGTCCC
66 AGAGTATAAGACTCGAACAATCTT-CATCGATTGCGTCTGCCCC
* *
18098 CTATTTCTTCAGAGAATAAAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
*
18163 AGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCC
66 AGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
* * * *
18206 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTTATCAATCGTGTTTGCCCCTTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
18271 AGAGTATAAGACTCGAACAATCTTCAAT-GATTGCGTCTGCCCC
66 AGAGTATAAGACTCGAACAATCTTC-ATCGATTGCGTCTGCCCC
* *
18314 CTATTTCTTCAAAGAGTATAAGACCCACAATCTTCATTAATCGCGTCTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
* * *
18379 AGAGTATAAGACTTGAACAACCTTCAACGATTGCGTCTGCCCC
66 AGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
18422 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
**
18487 AGAGTATAAGACTCGAA-ATATCTTCAAT-GATCACGTCTGCCCC
66 AGAGTATAAGACTCGAACA-ATCTTC-ATCGATTGCGTCTGCCCC
*
18530 CTATTTCTTCAGAGAGTAAAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
1 CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
* * * * *
18595 AGAGTATAAGAC-C-CACAATATTTATCAATCGCGTCTGCCCC
66 AGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
* * * *
18636 CTATTTCTTTAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTC
1 CTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTC
18701 AGAGAGTATAAGACTCGAACAATCTTC
64 AGAGAGTATAAGACTCGAACAATCTTC
18728 TTTTGCTTCA
Statistics
Matches: 1555, Mismatches: 121, Indels: 58
0.90 0.07 0.03
Matches are distributed among these distances:
105 20 0.01
106 304 0.20
107 192 0.12
108 876 0.56
109 7 0.00
110 153 0.10
111 3 0.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (108 bp):
CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAG
AGAGTATAAGACTCGAACAATCTTCATCGATTGCGTCTGCCCC
Found at i:21325 original size:20 final size:19
Alignment explanation
Indices: 21297--21336 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
21287 TTTTATTCTC
21297 TCTTATTTCCAATTTTCTTT
1 TCTTATTTCCAATTTT-TTT
* *
21317 TCTTTTTTCCTATTTTTTT
1 TCTTATTTCCAATTTTTTT
21336 T
1 T
21337 ACATTGCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTTATTTCCAATTTTTTT
Found at i:24409 original size:45 final size:45
Alignment explanation
Indices: 24324--24413 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
24314 CACAAAAAAT
* *
24324 CCTAACCACATGGTATCTAATTCACATGCTTGCTTGAAAAATAAA
1 CCTAACCACATGATATCTAATTCACATACTTGCTTGAAAAATAAA
* * * *
24369 CCTAACCACATGATCTCTAGTTCGCATACTT-TTTGCAAAAATAAA
1 CCTAACCACATGATATCTAATTCACATACTTGCTTG-AAAAATAAA
24414 TAAATTCGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 3 0.08
45 35 0.92
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (45 bp):
CCTAACCACATGATATCTAATTCACATACTTGCTTGAAAAATAAA
Found at i:29140 original size:27 final size:28
Alignment explanation
Indices: 29078--29174 Score: 82
Period size: 27 Copynumber: 3.6 Consensus size: 28
29068 TACGTTTATG
29078 ATTATTATTTTTATTTAATTAAGTACATA
1 ATTATTA-TTTTATTTAATTAAGTACATA
** *
29107 ATT-TTATTTTATTTGTTTAAGTA-ATT
1 ATTATTATTTTATTTAATTAAGTACATA
29133 ATTATTA--TTATTT-ATTAA-TACGA-A
1 ATTATTATTTTATTTAATTAAGTAC-ATA
29157 ATTAATTATTTTTATTTA
1 ATT-ATTA-TTTTATTTA
29175 TTTCATAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
23 2 0.04
24 7 0.13
25 11 0.20
26 5 0.09
27 18 0.33
28 9 0.16
29 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (28 bp):
ATTATTATTTTATTTAATTAAGTACATA
Found at i:29880 original size:2 final size:2
Alignment explanation
Indices: 29832--29861 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29822 TGTTTACCAA
29832 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
29862 TAAATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29983 original size:24 final size:24
Alignment explanation
Indices: 29956--30001 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
29946 ATATTCTTTA
29956 TATCATTTATTTAATAAGTATAGT
1 TATCATTTATTTAATAAGTATAGT
29980 TATCATTTATTTAATAAGTATA
1 TATCATTTATTTAATAAGTATA
30002 ATGTTCCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (24 bp):
TATCATTTATTTAATAAGTATAGT
Found at i:31480 original size:14 final size:14
Alignment explanation
Indices: 31461--31487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31451 AATGGTGAAG
31461 ATGGGGCTTTCAAC
1 ATGGGGCTTTCAAC
31475 ATGGGGCTTTCAA
1 ATGGGGCTTTCAA
31488 ACAGCTCAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (14 bp):
ATGGGGCTTTCAAC
Found at i:33204 original size:20 final size:20
Alignment explanation
Indices: 33179--33294 Score: 67
Period size: 21 Copynumber: 5.7 Consensus size: 20
33169 TGACCAACAA
33179 AATCGCAATGCGATTTCCAG
1 AATCGCAATGCGATTTCCAG
*
33199 AATCGCAAAT-C-AGTTCCCAG
1 AATCGC-AATGCGA-TTTCCAG
* **
33219 AATCGCAACGCGATTATGAAG
1 AATCGCAATGCGATT-TCCAG
* * *
33240 AATCGTAATGCGATAGTACA-
1 AATCGCAATGCGAT-TTCCAG
* *
33260 AATTCGCATTGCGATTTTCTAG
1 AA-TCGCAATGCGA-TTTCCAG
*
33282 AATCGCAACGCGA
1 AATCGCAATGCGA
33295 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 17
0.67 0.16 0.16
Matches are distributed among these distances:
19 3 0.04
20 24 0.34
21 40 0.57
22 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (20 bp):
AATCGCAATGCGATTTCCAG
Found at i:33371 original size:20 final size:21
Alignment explanation
Indices: 33333--33527 Score: 124
Period size: 20 Copynumber: 9.6 Consensus size: 21
33323 GCGAACATAT
33333 AAATCGCAACGCG-ATTCTG-A
1 AAATCGCAACGCGTA-TCTGTA
** *
33353 CTATCGCAACGGGTATCTGTA
1 AAATCGCAACGCGTATCTGTA
*
33374 AAATCGCAACGCGTATCCGT-
1 AAATCGCAACGCGTATCTGTA
* *
33394 AAATCGCAACGAGAATAC-GT-
1 AAATCGCAACGCGTAT-CTGTA
*
33414 AAATCACAACGCGTATCTGT-
1 AAATCGCAACGCGTATCTGTA
* *
33434 AAATCGCAACGAGAATAC-GT-
1 AAATCGCAACGCGTAT-CTGTA
* * *
33454 AAATCGCAATGTGTATCCGT-
1 AAATCGCAACGCGTATCTGTA
* **
33474 AAATCGCAACGAC-AATAAGTA
1 AAATCGCAACG-CGTATCTGTA
* *
33495 AAATCGCAACGTGTATCCGT-
1 AAATCGCAACGCGTATCTGTA
33515 AAATCGCAACGCG
1 AAATCGCAACGCG
33528 ATTTTTAAAG
Statistics
Matches: 138, Mismatches: 28, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.01
20 101 0.73
21 35 0.25
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
AAATCGCAACGCGTATCTGTA
Found at i:33428 original size:40 final size:40
Alignment explanation
Indices: 33374--33525 Score: 232
Period size: 40 Copynumber: 3.8 Consensus size: 40
33364 GGTATCTGTA
33374 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
* *
33414 AAATCACAACGCGTATCTGTAAATCGCAACGAGAATACGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
* * * *
33454 AAATCGCAATGTGTATCCGTAAATCGCAACGACAATAAGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
*
33494 AAAATCGCAACGTGTATCCGTAAATCGCAACG
1 -AAATCGCAACGCGTATCCGTAAATCGCAACG
33526 CGATTTTTAA
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 72 0.71
41 30 0.29
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
Found at i:33475 original size:60 final size:61
Alignment explanation
Indices: 33359--33525 Score: 176
Period size: 60 Copynumber: 2.8 Consensus size: 61
33349 CTGACTATCG
* * * *
33359 CAACGGGTATCTGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCA
1 CAACGCGTATCTGTAAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAAATCA
* * * * *
33420 CAACGCGTATCTGT-AAATCGCAACGAGAATACGTAAATCGCAATGTGTATCCGTAAATCG
1 CAACGCGTATCTGTAAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAAATCA
* ** * * *
33480 CAACGAC-AATAAGTAAAATCGCAACGTGTATCCGTAAATCGCAACG
1 CAACG-CGTATCTGTAAAATCGCAACGAGAATACGTAAATCGCAACG
33526 CGATTTTTAA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
60 47 0.53
61 41 0.47
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (61 bp):
CAACGCGTATCTGTAAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAAATCA
Found at i:34110 original size:20 final size:20
Alignment explanation
Indices: 34085--34180 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
34075 TTCTAAACTT
*
34085 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
*
34105 AAAATCACAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
34125 ACTATCGCAACGA-GAGAATG
1 AAAATCGCAAC-ACGAAAATG
** *
34145 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
34164 AAAATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
34181 CCAAAATCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
19 16 0.25
20 46 0.73
21 1 0.02
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:34186 original size:19 final size:19
Alignment explanation
Indices: 34148--34188 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
34138 GAGAATGACT
**
34148 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAACCAAA
34167 ATCGCAACGCGAAACCAAA
1 ATCGCAACGCGAAACCAAA
34186 ATC
1 ATC
34189 ACATTGCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (19 bp):
ATCGCAACGCGAAACCAAA
Found at i:34259 original size:39 final size:38
Alignment explanation
Indices: 34192--34265 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 38
34182 CAAAATCACA
**
34192 TTGCGATTTTCATTTCGCGTTGCGATTTTAATTTCGCG
1 TTGCGATAGTCATTTCGCGTTGCGATTTTAATTTCGCG
* *
34230 TTGCGATAGTCATTCTCTCGTTGCGATTTTCATTTC
1 TTGCGATAGTCATT-TCGCGTTGCGATTTTAATTTC
34266 AACCAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 12 0.39
39 19 0.61
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (38 bp):
TTGCGATAGTCATTTCGCGTTGCGATTTTAATTTCGCG
Found at i:34262 original size:20 final size:19
Alignment explanation
Indices: 34192--34265 Score: 103
Period size: 19 Copynumber: 3.8 Consensus size: 19
34182 CAAAATCACA
34192 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
34211 TTGCGATTTTAATTTCGCG
1 TTGCGATTTTCATTTCGCG
** *
34230 TTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATT-TCGCG
34250 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
34266 AACCAAAAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 31 0.66
20 16 0.34
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:36106 original size:94 final size:94
Alignment explanation
Indices: 35945--36324 Score: 647
Period size: 94 Copynumber: 4.1 Consensus size: 94
35935 TAGATTGCTT
* * *
35945 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
36010 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
36039 AGTAAATTTATTCGATTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
36104 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
36133 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
36198 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
36227 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
36292 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
36320 AGTAA
1 AGTAA
36325 TGCAATCCAT
Statistics
Matches: 274, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
93 26 0.09
94 248 0.91
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:36470 original size:19 final size:19
Alignment explanation
Indices: 36442--36495 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
36432 GCAACGAGAG
* *
36442 AATCGCAACGAGAAATGAA
1 AATCGCAACGCGAAACGAA
*
36461 AATCGAAACGCGAAACGAA
1 AATCGCAACGCGAAACGAA
36480 AATCGCAACGCGAAAC
1 AATCGCAACGCGAAAC
36496 TATAATCGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.50, C:0.22, G:0.20, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACGAA
Found at i:36502 original size:19 final size:19
Alignment explanation
Indices: 36442--36504 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
36432 GCAACGAGAG
*
36442 AATCGCAACGAGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
* *
36461 AATCGAAACGCGAAACGAA
1 AATCGCAACGCGAAACTAA
*
36480 AATCGCAACGCGAAACTAT
1 AATCGCAACGCGAAACTAA
36499 AATCGC
1 AATCGC
36505 GTTGCGATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:36591 original size:20 final size:20
Alignment explanation
Indices: 36539--36597 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
36529 GATTCTCTCG
**
36539 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
36559 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
36579 TTGCGATAGTCATTTTCGC
1 TTGCGATAGTCATTTTCGC
36598 GTTGTGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:37180 original size:21 final size:21
Alignment explanation
Indices: 37089--37193 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
37079 GACTCACCTG
* *
37089 TCATCGTTTAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
37111 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
37131 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
37152 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
37173 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
37194 CCAACATTCT
Statistics
Matches: 62, Mismatches: 20, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 3 0.05
21 58 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:37186 original size:42 final size:42
Alignment explanation
Indices: 37086--37196 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
37076 CCCGACTCAC
* * * * *
37086 CTGTCATCGTTTAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
37128 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
37170 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
37197 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:38540 original size:13 final size:13
Alignment explanation
Indices: 38493--38545 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
38483 TTGATTGTTT
38493 AATTGATTTGTAA
1 AATTGATTTGTAA
*
38506 AAGATGATTTGTAA
1 AA-TTGATTTGTAA
**
38520 ATATTGATTTGTTT
1 A-ATTGATTTGTAA
*
38534 AATTGATGTGTA
1 AATTGATTTGTA
38546 CATAATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 11 0.34
14 20 0.62
15 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (13 bp):
AATTGATTTGTAA
Found at i:38721 original size:34 final size:33
Alignment explanation
Indices: 38633--38728 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
38623 AAAACAGACT
* ** *
38633 ATCGCAACGCGGAAATGACTATCGCAACAAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
38667 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
38700 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
38729 CAGGGTCTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:38791 original size:24 final size:24
Alignment explanation
Indices: 38757--38834 Score: 122
Period size: 24 Copynumber: 3.2 Consensus size: 24
38747 CTGAAAAATA
*
38757 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAGTATTGACCAAG
*
38781 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAGTATTGACCAAG
38805 ATCAAAGTCC-AGGTATTGACCAAG
1 ATCAAAGTCCGA-GTATTGACCAAG
38829 ATCAAA
1 ATCAAA
38835 TTTCGAATAC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (24 bp):
ATCAAAGTCCGAGTATTGACCAAG
Found at i:39717 original size:20 final size:19
Alignment explanation
Indices: 39688--39981 Score: 209
Period size: 20 Copynumber: 14.6 Consensus size: 19
39678 GTCAGAATCT
*
39688 CGTTGTGATTTACAGATTCG
1 CGTTGCGATTTAC-GATTCG
*
39708 CATTGCGATTTACGTATTCG
1 CGTTGCGATTTACG-ATTCG
* *
39728 CATTGCGATTTACGTAATCG
1 CGTTGCGATTTACG-ATTCG
* *
39748 CATTGCGATTTACGGATACG
1 CGTTGCGATTTAC-GATTCG
39768 CGTTGCGATTTTACGTATT-G
1 CGTTGCGA-TTTACG-ATTCG
*
39788 TCGTTGCGATTTACGGATACG
1 -CGTTGCGATTTAC-GATTCG
* *
39809 CGTTGCGATTTACATATTCT
1 CGTTGCGATTTAC-GATTCG
*
39829 CGTTGCGATTTACAGATACG
1 CGTTGCGATTTAC-GATTCG
* *
39849 CGTTACGA-TTACGTATTCT
1 CGTTGCGATTTACG-ATTCG
*
39868 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTAC-GATTCG
39888 CGTTGCGATTTTACGTATT-G
1 CGTTGCGA-TTTACG-ATTCG
* *
39908 TCGTTACGATTTACGGATACG
1 -CGTTGCGATTTAC-GATTCG
* *
39929 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTAC-GATTCG
* *
39950 CGTTGCGATAGT-CAGAATCG
1 CGTTGCGAT-TTAC-GATTCG
39970 CGTTGCGATTTA
1 CGTTGCGATTTA
39982 TATGTTCGCG
Statistics
Matches: 224, Mismatches: 32, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
18 1 0.00
19 16 0.07
20 152 0.68
21 55 0.25
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATTTACGATTCG
Found at i:39795 original size:41 final size:40
Alignment explanation
Indices: 39688--39958 Score: 339
Period size: 41 Copynumber: 6.7 Consensus size: 40
39678 GTCAGAATCT
* * * * *
39688 CGTTGTGATTTACAG-ATTCGCATTGCGATTTACGTATTCG
1 CGTTGCGATTTAC-GTATTCTCGTTGCGATTTACGGATACG
* * * *
39728 CATTGCGATTTACGTAATCGCATTGCGATTTACGGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
*
39768 CGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACG
1 CGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACG
* *
39809 CGTTGCGATTTACATATTCTCGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
*
39849 CGTTACGA-TTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
* *
39888 CGTTGCGATTTTACGTATTGTCGTTACGATTTACGGATACG
1 CGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACG
* *
39929 CGTTGCGATTTTACGGATACTCGTTGCGAT
1 CGTTGCGA-TTTACGTATTCTCGTTGCGAT
39959 AGTCAGAATC
Statistics
Matches: 204, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.18
40 76 0.37
41 91 0.45
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
Found at i:39898 original size:120 final size:121
Alignment explanation
Indices: 39688--39958 Score: 393
Period size: 120 Copynumber: 2.2 Consensus size: 121
39678 GTCAGAATCT
* * * * *
39688 CGTTGTGATTTACAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTG
1 CGTTGCGATTTACAGATTCTCGTTGCGATTTACGTATACGCATTACGATTTACGTAATCGCATTG
*
39753 CGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACG
66 CGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTACGATTTACGGATACG
* * * * *
39809 CGTTGCGATTTACATATTCTCGTTGCGATTTACAG-ATACGCGTTACGA-TTACGTATTCTCGTT
1 CGTTGCGATTTACAGATTCTCGTTGCGATTTAC-GTATACGCATTACGATTTACGTAATCGCATT
39872 GCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTACGATTTACGGATACG
65 GCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTACGATTTACGGATACG
* *
39929 CGTTGCGATTTTACGGATACTCGTTGCGAT
1 CGTTGCGA-TTTACAGATTCTCGTTGCGAT
39959 AGTCAGAATC
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
120 76 0.57
121 57 0.43
122 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (121 bp):
CGTTGCGATTTACAGATTCTCGTTGCGATTTACGTATACGCATTACGATTTACGTAATCGCATTG
CGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTACGATTTACGGATACG
Found at i:39920 original size:161 final size:160
Alignment explanation
Indices: 39710--40019 Score: 401
Period size: 161 Copynumber: 1.9 Consensus size: 160
39700 CAGATTCGCA
* * *
39710 TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACGGATACGCGTTGCG
1 TTGCGATTTACGGATACGCATTGCGATTTACGTAATCGCATTACGATTTACGGATACGCGTTGCG
* ** * * * *
39775 ATTTTACGTATTGTCGTTGCGAT--TTACGGATACGCGTTGCGATTTACATATTCTCGTTGCGAT
66 ATTTTACGGATACTCGTTGCGATAGTCA-GAAT-CGCGTTGCGATTTACATATTCGCGATGCGAT
39838 TTACAGATACGCGTTACGATTACGTATTCTCG
129 TTACAGATACGCGTTACGATTACGTATTCTCG
* * *
39870 TTGCGATTTACGGATACGCGTTGCGATTTTACGT-ATTGTCGTTACGATTTACGGATACGCGTTG
1 TTGCGATTTACGGATACGCATTGCGA-TTTACGTAATCG-CATTACGATTTACGGATACGCGTTG
* *
39934 CGATTTTACGGATACTCGTTGCGATAGTCAGAATCGCGTTGCGATTTATATGTTCGCGATGCGAT
64 CGATTTTACGGATACTCGTTGCGATAGTCAGAATCGCGTTGCGATTTACATATTCGCGATGCGAT
* * *
39999 TTTCATATTCGCGTTACGATT
129 TTACAGATACGCGTTACGATT
40020 CTGGAAAATC
Statistics
Matches: 128, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
160 26 0.20
161 97 0.76
162 3 0.02
163 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (160 bp):
TTGCGATTTACGGATACGCATTGCGATTTACGTAATCGCATTACGATTTACGGATACGCGTTGCG
ATTTTACGGATACTCGTTGCGATAGTCAGAATCGCGTTGCGATTTACATATTCGCGATGCGATTT
ACAGATACGCGTTACGATTACGTATTCTCG
Found at i:39990 original size:20 final size:20
Alignment explanation
Indices: 39967--40019 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
39957 ATAGTCAGAA
*
39967 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
39987 TCGCGATGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
40007 TCGCGTTACGATT
1 TCGCGTTGCGATT
40020 CTGGAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:46692 original size:2 final size:2
Alignment explanation
Indices: 46685--46737 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
46675 GAATCAACTT
46685 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46727 TA TA TA T- TA TA
1 TA TA TA TA TA TA
46738 CCTACAAATC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47717 original size:30 final size:32
Alignment explanation
Indices: 47664--47775 Score: 140
Period size: 32 Copynumber: 3.6 Consensus size: 32
47654 CCTAAACCCG
*
47664 AACCCGACCCAACCCGAATATCACAC-TAAAA
1 AACCCGACCCGACCCGAATATCACACTTAAAA
47695 AACCCCGACCCGA-CCG-ATATCACACTTAAAA
1 AA-CCCGACCCGACCCGAATATCACACTTAAAA
**** *
47726 AAAAAAACCCGACCCGAAAATCACACTTAAAA
1 AACCCGACCCGACCCGAATATCACACTTAAAA
47758 AACCCGACCCGACCCGAA
1 AACCCGACCCGACCCGAA
47776 CAAATAAAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
30 15 0.22
31 15 0.22
32 37 0.55
ACGTcount: A:0.45, C:0.38, G:0.09, T:0.09
Consensus pattern (32 bp):
AACCCGACCCGACCCGAATATCACACTTAAAA
Done.