Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_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: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 19
Found at i:2976 original size:29 final size:29
Alignment explanation
Indices: 2934--2990 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
2924 AGTATTGGCA
*
2934 GTAGGTCGCCATGCACTCCAGGCGACCTT
1 GTAGGCCGCCATGCACTCCAGGCGACCTT
* *
2963 GTAGGCCGCCATGCACTTCGGGCGACCT
1 GTAGGCCGCCATGCACTCCAGGCGACCT
2991 ACCCTTGCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (29 bp):
GTAGGCCGCCATGCACTCCAGGCGACCTT
Found at i:3025 original size:12 final size:12
Alignment explanation
Indices: 3008--3032 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2998 CTCAAACAGA
3008 GAGAATGAACGT
1 GAGAATGAACGT
3020 GAGAATGAACGT
1 GAGAATGAACGT
3032 G
1 G
3033 TTGCATGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGAATGAACGT
Found at i:3094 original size:29 final size:29
Alignment explanation
Indices: 3061--3116 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
3051 TCCCAACACA
* *
3061 TAGGTCGTCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
3090 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
3117 ACCCTCGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.12, C:0.36, G:0.30, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:3161 original size:33 final size:33
Alignment explanation
Indices: 3124--3213 Score: 112
Period size: 33 Copynumber: 2.7 Consensus size: 33
3114 CCTACCCTCG
*
3124 CTCGGCTT-CCCTCGGATTCCCTCGCATAGCTCT
1 CTCGG-TTGCCCTCGGATGCCCTCGCATAGCTCT
3157 CTCGGTTGCCCTCGGATGCCCTCGCATAGCTCGT
1 CTCGGTTGCCCTCGGATGCCCTCGCATAGCTC-T
* * *
3191 -TCGGATGGCCTCGGATGCTCTCG
1 CTCGGTTGCCCTCGGATGCCCTCG
3214 GATGGCCTCG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
32 2 0.04
33 48 0.94
34 1 0.02
ACGTcount: A:0.09, C:0.38, G:0.26, T:0.28
Consensus pattern (33 bp):
CTCGGTTGCCCTCGGATGCCCTCGCATAGCTCT
Found at i:3176 original size:10 final size:10
Alignment explanation
Indices: 3132--3254 Score: 75
Period size: 10 Copynumber: 11.3 Consensus size: 10
3122 CGCTCGGCTT
*
3132 CCCTCGGATT
1 CCCTCGGATG
*
3142 CCCTCGCATAG
1 CCCTCGGAT-G
*
3153 CTCTCTCGGTTG
1 C-C-CTCGGATG
3165 CCCTCGGATG
1 CCCTCGGATG
*
3175 CCCTCGCATAG
1 CCCTCGGAT-G
*
3186 CTCGTTCGGATG
1 C-C-CTCGGATG
*
3198 GCCTCGGATG
1 CCCTCGGATG
*
3208 CTCTCGGATG
1 CCCTCGGATG
*
3218 GCCTCGGATGG
1 CCCTCGGAT-G
3229 CCTCGGTCGGATG
1 CC-C--TCGGATG
*
3242 GCCTCGGATG
1 CCCTCGGATG
3252 CCC
1 CCC
3255 AGCGTGTTGG
Statistics
Matches: 86, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
10 54 0.63
11 7 0.08
12 7 0.08
13 12 0.14
14 6 0.07
ACGTcount: A:0.10, C:0.36, G:0.30, T:0.24
Consensus pattern (10 bp):
CCCTCGGATG
Found at i:3216 original size:20 final size:21
Alignment explanation
Indices: 3168--3252 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 21
3158 TCGGTTGCCC
* *
3168 TCGGATGCCCTCGCATAGCTCG
1 TCGGATGGCCTCGGAT-GCTCG
3190 TTCGGATGGCCTCGGATGCTC-
1 -TCGGATGGCCTCGGATGCTCG
3211 TCGGATGGCCTCGGATGGCCTCGG
1 TCGGATGGCCTCGGAT-G-CTC-G
3235 TCGGATGGCCTCGGATGC
1 TCGGATGGCCTCGGATGC
3253 CCAGCGTGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
20 16 0.29
21 1 0.02
22 8 0.14
23 15 0.27
24 16 0.29
ACGTcount: A:0.11, C:0.31, G:0.35, T:0.24
Consensus pattern (21 bp):
TCGGATGGCCTCGGATGCTCG
Found at i:3240 original size:14 final size:14
Alignment explanation
Indices: 3221--3248 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3211 TCGGATGGCC
3221 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
3235 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
3249 ATGCCCAGCG
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:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:3243 original size:24 final size:22
Alignment explanation
Indices: 3168--3251 Score: 100
Period size: 24 Copynumber: 3.8 Consensus size: 22
3158 TCGGTTGCCC
* * *
3168 TCGGATGCCCTCGCATAGCTCG
1 TCGGATGGCCTCGGATGGCTCG
3190 TTCGGATGGCCTCGGAT-GCTC-
1 -TCGGATGGCCTCGGATGGCTCG
3211 TCGGATGGCCTCGGATGGCCTCGG
1 TCGGATGGCCTCGGATGG-CTC-G
3235 TCGGATGGCCTCGGATG
1 TCGGATGGCCTCGGATG
3252 CCCAGCGTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.29
21 1 0.02
22 7 0.13
23 14 0.25
24 17 0.31
ACGTcount: A:0.11, C:0.30, G:0.36, T:0.24
Consensus pattern (22 bp):
TCGGATGGCCTCGGATGGCTCG
Found at i:3247 original size:44 final size:43
Alignment explanation
Indices: 3157--3254 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
3147 GCATAGCTCT
* *
3157 CTCGGTTGCCCTCGGATGCCCTCGCATAGCTCGTTCGGATGGC
1 CTCGGATGCCCTCGGATGCCCTCGCATAGCTCGGTCGGATGGC
* * * *
3200 CTCGGATGCTCTCGGATGGCCTCGGATGGCCTCGGTCGGATGGC
1 CTCGGATGCCCTCGGATGCCCTCGCATAG-CTCGGTCGGATGGC
3244 CTCGGATGCCC
1 CTCGGATGCCC
3255 AGCGTGTTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 24 0.51
44 23 0.49
ACGTcount: A:0.09, C:0.34, G:0.34, T:0.23
Consensus pattern (43 bp):
CTCGGATGCCCTCGGATGCCCTCGCATAGCTCGGTCGGATGGC
Found at i:14833 original size:30 final size:30
Alignment explanation
Indices: 14797--14871 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
14787 TGTTGGAGAG
14797 GAATGAGTGTCTGACATGGGTACTTCAATA
1 GAATGAGTGTCTGACATGGGTACTTCAATA
14827 GAATGAGTGTCTGACATGGGTACTTCAATA
1 GAATGAGTGTCTGACATGGGTACTTCAATA
* *
14857 AAATGGAGAGTCTGA
1 GAAT-GAGTGTCTGA
14872 GCAGCACCGT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
30 33 0.79
31 9 0.21
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (30 bp):
GAATGAGTGTCTGACATGGGTACTTCAATA
Found at i:15538 original size:10 final size:10
Alignment explanation
Indices: 15523--15648 Score: 63
Period size: 10 Copynumber: 11.2 Consensus size: 10
15513 AACACAAATG
15523 AACGAACATA
1 AACGAACATA
*
15533 AACGAATGGATCTA
1 AACGAA--CAT--A
15547 AACGAACATA
1 AACGAACATA
15557 AACGAATACAATA
1 AACG-A-AC-ATA
*
15570 AACGAACGTA
1 AACGAACATA
*
15580 AACGAACACA
1 AACGAACATA
*
15590 AATGAACGAATGGA
1 AACGAAC--AT--A
15604 AACGAACACAATA
1 AACG-A-AC-ATA
*
15617 AATGAACATA
1 AACGAACATA
* *
15627 AATGAACGTA
1 AACGAACATA
15637 AACGAACATA
1 AACGAACATA
15647 AA
1 AA
15649 TGAAAATAGA
Statistics
Matches: 91, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
10 49 0.54
11 5 0.05
12 9 0.10
13 11 0.12
14 11 0.12
15 4 0.04
16 2 0.02
ACGTcount: A:0.56, C:0.17, G:0.14, T:0.13
Consensus pattern (10 bp):
AACGAACATA
Found at i:15550 original size:24 final size:23
Alignment explanation
Indices: 15523--15648 Score: 96
Period size: 24 Copynumber: 5.5 Consensus size: 23
15513 AACACAAATG
** *
15523 AACGAACATAAACGAATGGATCTA
1 AACGAACATAAACGAATACA-ATA
15547 AACGAACATAAACGAATACAATA
1 AACGAACATAAACGAATACAATA
* * *
15570 AACGAACGTAAACGAACACAAATG
1 AACGAACATAAACGAATAC-AATA
*** *
15594 AACGAATGGAAACGAACACAATA
1 AACGAACATAAACGAATACAATA
* * *
15617 AATGAACATAAATG-A-AC-GTA
1 AACGAACATAAACGAATACAATA
15637 AACGAACATAAA
1 AACGAACATAAA
15649 TGAAAATAGA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
20 13 0.15
21 2 0.02
22 1 0.01
23 31 0.36
24 38 0.45
ACGTcount: A:0.56, C:0.17, G:0.14, T:0.13
Consensus pattern (23 bp):
AACGAACATAAACGAATACAATA
Found at i:15643 original size:20 final size:20
Alignment explanation
Indices: 15615--15652 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15605 ACGAACACAA
*
15615 TAAATGAACATAAATGAACG
1 TAAACGAACATAAATGAACG
15635 TAAACGAACATAAATGAA
1 TAAACGAACATAAATGAA
15653 AATAGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (20 bp):
TAAACGAACATAAATGAACG
Found at i:22556 original size:17 final size:19
Alignment explanation
Indices: 22523--22557 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
22513 TTAACATCTC
22523 GATTGCCCTCTTCAAACTA
1 GATTGCCCTCTTCAAACTA
22542 GATT-CCCTC-TCAAACT
1 GATTGCCCTCTTCAAACT
22558 GAACAAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (19 bp):
GATTGCCCTCTTCAAACTA
Found at i:22752 original size:14 final size:14
Alignment explanation
Indices: 22735--22761 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22725 TTCCCTTTTA
22735 ACTTTTCTCTCTCT
1 ACTTTTCTCTCTCT
22749 ACTTTTCTCTCTC
1 ACTTTTCTCTCTC
22762 CCATTCTCTC
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:0.07, C:0.37, G:0.00, T:0.56
Consensus pattern (14 bp):
ACTTTTCTCTCTCT
Found at i:28934 original size:14 final size:14
Alignment explanation
Indices: 28915--28959 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
28905 ATTAGGCTAA
28915 ACATAAATGAACGC
1 ACATAAATGAACGC
*
28929 ACAT--A--AACGA
1 ACATAAATGAACGC
28939 ACATAAATGAACGC
1 ACATAAATGAACGC
28953 ACATAAA
1 ACATAAA
28960 CGGACAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
10 8 0.32
12 2 0.08
14 15 0.60
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (14 bp):
ACATAAATGAACGC
Found at i:28946 original size:24 final size:24
Alignment explanation
Indices: 28914--28961 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
28904 GATTAGGCTA
28914 AACATAAATGAACGCACATAAACG
1 AACATAAATGAACGCACATAAACG
28938 AACATAAATGAACGCACATAAACG
1 AACATAAATGAACGCACATAAACG
28962 GACAAACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.21, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATAAATGAACGCACATAAACG
Found at i:28975 original size:24 final size:24
Alignment explanation
Indices: 28914--28975 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
28904 GATTAGGCTA
*
28914 AACATAAATGAACGCACATAAACG
1 AACATAAATAAACGCACATAAACG
*
28938 AACATAAATGAACGCACATAAACG
1 AACATAAATAAACGCACATAAACG
*
28962 GACA-AACATAAACG
1 AACATAA-ATAAACG
28976 AATATAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 2 0.06
24 33 0.94
ACGTcount: A:0.55, C:0.21, G:0.13, T:0.11
Consensus pattern (24 bp):
AACATAAATAAACGCACATAAACG
Found at i:37402 original size:193 final size:194
Alignment explanation
Indices: 37046--37432 Score: 719
Period size: 193 Copynumber: 2.0 Consensus size: 194
37036 GTAGTGAAAC
37046 GACAAAGTCCAAACTAAGGTGAAGACAAAAGCAAACTTTCTTCAAGGAGTATATCAATGCAAGAC
1 GACAAAGTCCAAACTAAGGTGAAGACAAAAGCAAACTTTCTTCAAGGAGTATATCAATGCAAGAC
37111 AACGAAGAAAGATCGAGAGCTAAACAAAGATACAAGGAGGCGAAGCCGGAACCAAGAAAATGGTG
66 AACGAAGAAAGATCGAGAGCTAAACAAAGATACAAGGAGGCGAAGCCGGAACCAAGAAAATGGTG
37176 GCTAAAGCAAATGATATGGCATACGAGGAAATGTACAAGAGATTAGACACC-AGGAAGGACAAA
131 GCTAAAGCAAATGATATGGCATACGAGGAAATGTACAAGAGATTAGACACCAAGGAAGGACAAA
37239 GACAAAGTCCAAACTAAGGTGAAGAC-AAAGCAAACTTTCTTCAAGGAGTATATACAATGCAATG
1 GACAAAGTCCAAACTAAGGTGAAGACAAAAGCAAACTTTCTTCAAGGAGTATAT-CAATGCAA-G
37303 ACAACGAAG-AAGATCGAGAGCTAAACAAAGATACAAGGAGGCGAAGCCGGAAGCCAAGAAAATG
64 ACAACGAAGAAAGATCGAGAGCTAAACAAAGATACAAGGAGGCGAAGCCGGAA-CCAAGAAAATG
37367 GTGGCTAAAGCAAATGATATGGCATACGA-GAAATGTACAAGAGATTAGACACCAAGGAAGGACA
128 GTGGCTAAAGCAAATGATATGGCATACGAGGAAATGTACAAGAGATTAGACACCAAGGAAGGACA
37431 AA
193 AA
37433 ACGACATCTT
Statistics
Matches: 190, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
192 27 0.14
193 101 0.53
194 62 0.33
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (194 bp):
GACAAAGTCCAAACTAAGGTGAAGACAAAAGCAAACTTTCTTCAAGGAGTATATCAATGCAAGAC
AACGAAGAAAGATCGAGAGCTAAACAAAGATACAAGGAGGCGAAGCCGGAACCAAGAAAATGGTG
GCTAAAGCAAATGATATGGCATACGAGGAAATGTACAAGAGATTAGACACCAAGGAAGGACAAA
Found at i:42324 original size:21 final size:21
Alignment explanation
Indices: 42300--42350 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
42290 TCTTTCGTTT
42300 TGATTATTTGTTCTTGAATTA
1 TGATTATTTGTTCTTGAATTA
42321 TGATTATTTGTTCTTGAATTA
1 TGATTATTTGTTCTTGAATTA
42342 T-ATATATTT
1 TGAT-TATTT
42351 TCGGATCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.59
Consensus pattern (21 bp):
TGATTATTTGTTCTTGAATTA
Found at i:56497 original size:18 final size:20
Alignment explanation
Indices: 56442--56499 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
56432 CACTGAATAT
56442 TTGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
* * *
56462 TTGTTCCAAAGAACCACT-A
1 TTGTCCCGAAGGACCACTGA
56481 -TGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
56500 CAATCCCTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 14 0.45
19 2 0.06
20 15 0.48
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (20 bp):
TTGTCCCGAAGGACCACTGA
Found at i:57141 original size:44 final size:45
Alignment explanation
Indices: 57091--57193 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 45
57081 GCACTAACTA
* * *
57091 TGCATCGGTACA-TAAATCCCATTCAATGTTTGTATTTT-AAGGGG
1 TGCATCGATACACT-AATCACATTCAATGTTTGTATTTTAAAGGAG
* * * *
57135 TGCATCGATACACTGATGACATTCGATGTTTTTATTTTAAAGGAG
1 TGCATCGATACACTAATCACATTCAATGTTTGTATTTTAAAGGAG
57180 TGCATCGATACACT
1 TGCATCGATACACT
57194 TGATGCATTG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 30 0.60
45 20 0.40
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (45 bp):
TGCATCGATACACTAATCACATTCAATGTTTGTATTTTAAAGGAG
Found at i:61051 original size:21 final size:21
Alignment explanation
Indices: 61025--61067 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
61015 GCATAGTAAT
61025 GATATAACTAGTCCATTCCCA
1 GATATAACTAGTCCATTCCCA
61046 GATATAACTAGTCCATTCCCA
1 GATATAACTAGTCCATTCCCA
61067 G
1 G
61068 TATCACCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (21 bp):
GATATAACTAGTCCATTCCCA
Found at i:63337 original size:18 final size:18
Alignment explanation
Indices: 63314--63386 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
63304 ATTGAATATT
63314 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
63332 TGTCCCGAAGGACCACAGA
1 TGTCCCGAAGGACCAC-TA
* *
63351 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
63370 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
63387 GACAATCTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 31 0.66
19 2 0.04
20 14 0.30
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.18
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:63369 original size:38 final size:38
Alignment explanation
Indices: 63313--63385 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
63303 CATTGAATAT
*
63313 TTGTCCCGAAGGACCACTATGTCCCGAAGGACCACAGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACAGA
*
63351 TTGTTCCGAAGAACCACTATGTCCCGAAGGACCAC
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCAC
63386 TGACAATCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.18
Consensus pattern (38 bp):
TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACAGA
Found at i:65053 original size:34 final size:33
Alignment explanation
Indices: 64972--65066 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
64962 GACGAGTTAG
*
64972 AAAATTCATCTTGGTTGGTGGCCAACTTATTGG
1 AAAATTCATCTTGGTTGGTGGCCAACTTATTGA
* * *
65005 AAATTTTATCTTGGTTGGTGGCCAGCTTATTGA
1 AAAATTCATCTTGGTTGGTGGCCAACTTATTGA
*
65038 AAAATTCATCTTTGGTAGGTGGCCAACTT
1 AAAATTCATC-TTGGTTGGTGGCCAACTT
65067 TGCACATGAG
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 37 0.70
34 16 0.30
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (33 bp):
AAAATTCATCTTGGTTGGTGGCCAACTTATTGA
Found at i:71255 original size:30 final size:30
Alignment explanation
Indices: 71219--71277 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
71209 TAGTTGGGCG
* *
71219 GGCGGATGTGGGGTGGGTGGATGCAGTGCA
1 GGCGGATGAGGGGCGGGTGGATGCAGTGCA
*
71249 GGCGGATGAGGGGCGGGTGGATGCGGTGC
1 GGCGGATGAGGGGCGGGTGGATGCAGTGC
71278 GGATGCGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.12, G:0.59, T:0.17
Consensus pattern (30 bp):
GGCGGATGAGGGGCGGGTGGATGCAGTGCA
Found at i:74721 original size:24 final size:23
Alignment explanation
Indices: 74693--74738 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
74683 TATAATATGA
74693 ATTTATAAAAGTTTATAGAAATAT
1 ATTTATAAAAGTTTAT-GAAATAT
*
74717 ATTTATAAAATTTTATGAAATA
1 ATTTATAAAAGTTTATGAAATA
74739 AATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (23 bp):
ATTTATAAAAGTTTATGAAATAT
Found at i:74746 original size:23 final size:24
Alignment explanation
Indices: 74696--74746 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
74686 AATATGAATT
* *
74696 TATAAAAGTTTATAGAAATATATT
1 TATAAAAGTTTATAGAAATAAATA
*
74720 TATAAAATTTTAT-GAAATAAATA
1 TATAAAAGTTTATAGAAATAAATA
74743 TATA
1 TATA
74747 TATTATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (24 bp):
TATAAAAGTTTATAGAAATAAATA
Found at i:83848 original size:18 final size:18
Alignment explanation
Indices: 83825--83860 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
83815 TCCTTCTACT
83825 TCTTTCTAGTGTCATAGG
1 TCTTTCTAGTGTCATAGG
83843 TCTTTCTAGTGTCATAGG
1 TCTTTCTAGTGTCATAGG
83861 ATGAGTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (18 bp):
TCTTTCTAGTGTCATAGG
Found at i:89068 original size:2 final size:2
Alignment explanation
Indices: 89063--89087 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89053 TATATTTAAT
89063 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
89088 TATTTCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90525 original size:15 final size:15
Alignment explanation
Indices: 90507--90544 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
90497 AAATAGTTAT
*
90507 TATATTTTATATTAA
1 TATATTTTATATAAA
90522 TATA-TTTATATAAA
1 TATATTTTATATAAA
90536 TATTATTTT
1 TA-TATTTT
90545 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 11 0.55
15 6 0.30
16 3 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATATTTTATATAAA
Found at i:90580 original size:19 final size:18
Alignment explanation
Indices: 90524--90582 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
90514 TATATTAATA
90524 TATTTATATAAATATTATT
1 TATTTATAT-AATATTATT
* * *
90543 TTTTTAT-TAA-AATA-A
1 TATTTATATAATATTATT
90558 TATTTATATAATTATTATT
1 TATTTATATAA-TATTATT
90577 TATTTA
1 TATTTA
90583 GAATTATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 6 0.20
16 6 0.20
17 2 0.07
18 4 0.13
19 12 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTATATAATATTATT
Found at i:90745 original size:17 final size:16
Alignment explanation
Indices: 90723--90776 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
90713 TAATGTTAAT
90723 ATTTAAATTTATTTTTA
1 ATTTAAA-TTATTTTTA
* *
90740 ATTTAAAGTTATTATGA
1 ATTTAAA-TTATTTTTA
* *
90757 ATTTATATTAATTTTA
1 ATTTAAATTATTTTTA
90773 ATTT
1 ATTT
90777 TTTATAATGT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
ATTTAAATTATTTTTA
Found at i:92338 original size:21 final size:21
Alignment explanation
Indices: 92308--92352 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
92298 GCAGGGGTAC
* *
92308 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
*
92329 ATGCCAAGCCCACCAGTTCAT
1 ATGCCAAGCCCACCACTTCAT
92350 ATG
1 ATG
92353 TCATCTCCGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.40, G:0.13, T:0.22
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:92383 original size:21 final size:21
Alignment explanation
Indices: 92359--92431 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
92349 TATGTCATCT
* * *
92359 CCGCATGGTTATATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
92380 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
92401 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
92422 CCGCAGGGTT
1 CCGCAGGGTT
92432 TTATACCATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.18, C:0.33, G:0.26, T:0.23
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:93057 original size:34 final size:34
Alignment explanation
Indices: 92952--93058 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
92942 ATAAATGTTT
*
92952 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * *
92986 TAAAAATAAAAATAATATTATTCAAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * *
93020 TTAAAATATAAATTATAGTATTCGAAATTTAACA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
93054 TTAAA
1 TTAAA
93059 TTTCAACTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAAA
Found at i:93848 original size:128 final size:128
Alignment explanation
Indices: 93454--95208 Score: 3041
Period size: 128 Copynumber: 13.7 Consensus size: 128
93444 ACAATCCATC
* * *
93454 TAGTGTCCCCGAGGGACATGAATGACATAATAAGGCAATGATAACATATTCTCTGACAAAATAAA
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * *
93519 AGAAGGCGCCCCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAAGTATTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
93582 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
93647 AGAAGGCGC-CCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
93709 TAGTGTCCCCGAGAGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * *
93774 GGAAGGCGCGCCCCCGGGAATGCGTCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
93837 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
93902 AGAATGCGCGTCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
93965 TAATGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * *
94030 GGAAGGCGCGCCCCCAGGAACGCGTCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
94093 TAGTGTCCCCGAGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTTTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
94158 GGAAGGCGCGTCCCCGGGAACGCGCCTTTAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
94221 TAGTGTCCCAGAGGGACATGAGTGACATAATAGGGCATTGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
94286 AGAAGGCGCGCCCCCGGGAACGCGTCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
94349 TAGTGT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
94413 AGAA-G-GTGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
94474 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
94539 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
94602 TAGTATCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
94667 GGAAGGCGCGTCCCCGGGAACGCGCCTTTAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
94730 TAGTGTCTCCGAGGGACATAAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
94795 AGAAGGCGTGCCCCCGGGAGCGCGTCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
94858 TAGTGTCCCCGAGGGACATGAGTAACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* ** *
94923 AGAAGGCGCACCCCCGGGAACATGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
94986 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
95051 AGAAGGCGCGTCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGAACTTATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
95114 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
95179 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCA
95209 CGTGAATAGT
Statistics
Matches: 1540, Mismatches: 83, Indels: 8
0.94 0.05 0.00
Matches are distributed among these distances:
125 60 0.04
126 62 0.04
127 183 0.12
128 1235 0.80
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:95302 original size:8 final size:8
Alignment explanation
Indices: 95289--95329 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
95279 TCACAAGCTT
95289 TCAAATTC
1 TCAAATTC
95297 TCAAATTC
1 TCAAATTC
* *
95305 CCAAACTC
1 TCAAATTC
95313 -CAAATTC
1 TCAAATTC
95320 TCAAATTC
1 TCAAATTC
95328 TC
1 TC
95330 TGAAAATGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (8 bp):
TCAAATTC
Found at i:98776 original size:3 final size:3
Alignment explanation
Indices: 98768--98802 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
98758 TTACTAATTT
98768 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
98803 TTTATTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:105201 original size:60 final size:60
Alignment explanation
Indices: 105055--105201 Score: 154
Period size: 60 Copynumber: 2.5 Consensus size: 60
105045 ATTTCAGGGT
* * * *
105055 AAAATATAC-AAATGGTCCCTCAGCTATAGGGTGGTGCTTTGTTGAGCCCCTCAACTATTA
1 AAAAT-TACAAAATGATCACTCAACTATAGGGTGGTGCTTTATTGAGCCCCTCAACTATTA
* * * * * *
105115 AAAATTACAAAATGGTCATTCGACTATAGGGTGTTGCTTTATTGAGTCTCTCAACTATTA
1 AAAATTACAAAATGATCACTCAACTATAGGGTGGTGCTTTATTGAGCCCCTCAACTATTA
* *
105175 AAAGTTATAAAATGATCAC-CTAACTAT
1 AAAATTACAAAATGATCACTC-AACTAT
105202 TTAGTATGTT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
59 4 0.06
60 68 0.94
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (60 bp):
AAAATTACAAAATGATCACTCAACTATAGGGTGGTGCTTTATTGAGCCCCTCAACTATTA
Found at i:105901 original size:18 final size:19
Alignment explanation
Indices: 105861--105898 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
105851 TGATTCACGA
105861 AATGTAAGATTACCAGTGGG
1 AATGTAAGATTACCAG-GGG
105881 AATGTAAGATTACCAGGG
1 AATGTAAGATTACCAGGG
105899 AATAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (19 bp):
AATGTAAGATTACCAGGGG
Found at i:106097 original size:35 final size:34
Alignment explanation
Indices: 106053--106124 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 34
106043 GTTGTAAAAT
*
106053 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATA-TTT-TTTAAAAAAATTAAAAT-ATAAA
* *
106090 ATTTATATATTTTTTACAAAATTTAAAATATAAA
1 ATTTATATATTTTTTAAAAAAATTAAAATATAAA
106124 A
1 A
106125 AGGTTTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 6 0.19
35 14 0.44
36 3 0.09
37 9 0.28
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (34 bp):
ATTTATATATTTTTTAAAAAAATTAAAATATAAA
Found at i:107375 original size:30 final size:30
Alignment explanation
Indices: 107341--107397 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
107331 CTAATATTTT
107341 AAATATCTATAATTAATTTTAAATAACAAA
1 AAATATCTATAATTAATTTTAAATAACAAA
107371 AAATATCTATAATTAATTTTAAATAAC
1 AAATATCTATAATTAATTTTAAATAAC
107398 CCTATTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATATCTATAATTAATTTTAAATAACAAA
Found at i:110824 original size:31 final size:31
Alignment explanation
Indices: 110659--110821 Score: 227
Period size: 31 Copynumber: 5.3 Consensus size: 31
110649 TTCAAAAGTG
* *
110659 ACAAATTGGTCACTAATGTTATCGATTTATA
1 ACAAAATGATCACTAATGTTATCGATTTATA
*
110690 ACAAAATGATCACTAATGTTATCGATTTCTA
1 ACAAAATGATCACTAATGTTATCGATTTATA
*
110721 ACAAAATGATCACTAATGTTATCGATTTCTA
1 ACAAAATGATCACTAATGTTATCGATTTATA
* *
110752 ACAAAATGATCACTAATGTTATCGGTTTGTA
1 ACAAAATGATCACTAATGTTATCGATTTATA
* * * *
110783 ATAAAATGGTCATTAATGTTATTGATTTATA
1 ACAAAATGATCACTAATGTTATCGATTTATA
*
110814 ATAAAATG
1 ACAAAATG
110822 GTCTCCACCA
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 121 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (31 bp):
ACAAAATGATCACTAATGTTATCGATTTATA
Found at i:110884 original size:30 final size:30
Alignment explanation
Indices: 110848--110909 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
110838 GTTAAGAAAA
110848 TGTTAATATTTAGTTTTATTCCTAAACTTG
1 TGTTAATATTTAGTTTTATTCCTAAACTTG
110878 TGTTAATATTTAGTTTTATTCCTAAACTTG
1 TGTTAATATTTAGTTTTATTCCTAAACTTG
110908 TG
1 TG
110910 CTAAAACGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.53
Consensus pattern (30 bp):
TGTTAATATTTAGTTTTATTCCTAAACTTG
Found at i:111296 original size:21 final size:21
Alignment explanation
Indices: 111223--111321 Score: 62
Period size: 20 Copynumber: 4.8 Consensus size: 21
111213 CAGTTTCCAG
111223 ATTCGCAATGCGATTCTGA-CT-
1 ATTCGCAATGCGATT-T-ACCTA
* * *
111244 A-TCGCATTGCGATTTCCCAA
1 ATTCGCAATGCGATTTACCTA
* ** *
111264 ATTCACGTTGCGATTTTCCTA
1 ATTCGCAATGCGATTTACCTA
* *
111285 ATTCGCAATGCGA-ATACGTA
1 ATTCGCAATGCGATTTACCTA
*
111305 AATCGCAATGCGATTTA
1 ATTCGCAATGCGATTTA
111322 GTAAATCGCA
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
19 2 0.03
20 29 0.49
21 28 0.47
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (21 bp):
ATTCGCAATGCGATTTACCTA
Found at i:111312 original size:20 final size:20
Alignment explanation
Indices: 111287--111332 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
111277 TTTTCCTAAT
111287 TCGCAATGCGA-ATACGTAAA
1 TCGCAATGCGATATA-GTAAA
*
111307 TCGCAATGCGATTTAGTAAA
1 TCGCAATGCGATATAGTAAA
111327 TCGCAA
1 TCGCAA
111333 CGAGATTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGATATAGTAAA
Found at i:111339 original size:20 final size:20
Alignment explanation
Indices: 111302--111339 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
111292 ATGCGAATAC
* *
111302 GTAAATCGCAATGCGATTTA
1 GTAAATCGCAACGAGATTTA
111322 GTAAATCGCAACGAGATT
1 GTAAATCGCAACGAGATT
111340 CTGACTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (20 bp):
GTAAATCGCAACGAGATTTA
Found at i:112215 original size:24 final size:24
Alignment explanation
Indices: 112188--112241 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
112178 GTATTCGAAA
112188 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
112212 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
112236 TTTGAT
1 TTTGAT
112242 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:114186 original size:19 final size:18
Alignment explanation
Indices: 114162--114257 Score: 73
Period size: 19 Copynumber: 5.6 Consensus size: 18
114152 ATGATTCAAG
114162 CGCAACGCGAAATGAAAAT
1 CGCAA-GCGAAATGAAAAT
*
114181 CGCAA-CG--A-GAGAAT
1 CGCAAGCGAAATGAAAAT
114195 CGCAATGCGAAATGAAAAT
1 CGCAA-GCGAAATGAAAAT
**
114214 CGCAA-CG--A-GGGAAT
1 CGCAAGCGAAATGAAAAT
114228 CGCAAAGCGAAATGAAAAT
1 CGC-AAGCGAAATGAAAAT
114247 CGCAACGCGAA
1 CGCAA-GCGAA
114258 TTTAGTTTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 22
0.68 0.07 0.25
Matches are distributed among these distances:
14 17 0.28
15 4 0.07
16 4 0.07
17 4 0.07
18 4 0.07
19 27 0.45
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.09
Consensus pattern (18 bp):
CGCAAGCGAAATGAAAAT
Found at i:114205 original size:33 final size:33
Alignment explanation
Indices: 114162--114253 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
114152 ATGATTCAAG
*
114162 CGCAACGCGAAATGAAAATCGCAACGAGAGAAT
1 CGCAAAGCGAAATGAAAATCGCAACGAGAGAAT
* *
114195 CGCAATGCGAAATGAAAATCGCAACGAGGGAAT
1 CGCAAAGCGAAATGAAAATCGCAACGAGAGAAT
114228 CGCAAAGCGAAATGAAAATCGCAACG
1 CGCAAAGCGAAATGAAAATCGCAACG
114254 CGAATTTAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
CGCAAAGCGAAATGAAAATCGCAACGAGAGAAT
Found at i:114435 original size:14 final size:14
Alignment explanation
Indices: 114416--114452 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
114406 CATCAATTAA
114416 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
114430 ACAAATCATCTTTT
1 ACAAATCAACTTTT
114444 ACAAATCAA
1 ACAAATCAA
114453 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:115885 original size:42 final size:42
Alignment explanation
Indices: 115800--115922 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 42
115790 GTGAATCGGG
* *
115800 CTCTTGAATGGTGGGAGAGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGAGACCTCTTCAACGATGACAGGGGC
* * *
115842 CTCTTGAACGGTGGGAGGAGA-CTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GAGACCTCTTCAACG-ATGACAGGGGC
* * * * * * *
115884 CTCTTCAACGATAGGAGTGAACTCTTGAAGGATGACAGG
1 CTCTTGAACGGTGGGAGAGACCTCTTCAACGATGACAGG
115923 CGAGCCGAGC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
41 7 0.11
42 50 0.77
43 8 0.12
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGAGACCTCTTCAACGATGACAGGGGC
Found at i:116359 original size:19 final size:19
Alignment explanation
Indices: 116319--116464 Score: 131
Period size: 19 Copynumber: 7.8 Consensus size: 19
116309 TCTGGAACTT
*
116319 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
116340 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
116359 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
* *
116379 AAAATCGCAATGCGAAACG
1 AAAATCGCAACGCGAAATG
*
116398 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATG
116417 AAAATCGCAA--CG--AT-
1 AAAATCGCAACGCGAAATG
* * *
116431 AGAATCGCAATGCGAAATT
1 AAAATCGCAACGCGAAATG
*
116450 AAAATCACAACGCGA
1 AAAATCGCAACGCGA
116465 TTATAGTTTC
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
14 9 0.09
15 2 0.02
16 2 0.02
17 2 0.02
18 2 0.02
19 58 0.56
20 17 0.17
21 11 0.11
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:116388 original size:39 final size:38
Alignment explanation
Indices: 116319--116428 Score: 130
Period size: 39 Copynumber: 2.8 Consensus size: 38
116309 TCTGGAACTT
* ** *
116319 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAAC--GAGAAATGAAAATCGCAACGCGAAACG
*
116359 AAAATCGCAACGAGAGAATGAAAATCGCAATGCGAAACG
1 AAAATCGCAACGAGA-AATGAAAATCGCAACGCGAAACG
* *
116398 AAAATCGCAACGCGAAATAAAAATCGCAACG
1 AAAATCGCAACGAGAAATGAAAATCGCAACG
116429 ATAGAATCGC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 17 0.28
39 33 0.54
40 11 0.18
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.12
Consensus pattern (38 bp):
AAAATCGCAACGAGAAATGAAAATCGCAACGCGAAACG
Found at i:116483 original size:19 final size:19
Alignment explanation
Indices: 116461--116545 Score: 102
Period size: 19 Copynumber: 4.4 Consensus size: 19
116451 AAATCACAAC
*
116461 GCGATTATAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
116480 GCGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
116499 GCGATTTTCGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
116518 GCGATTTTCA-TTCTCTCGTT
1 GCGATTTT-AGTT-TCGCGTT
116538 GCGATTTT
1 GCGATTTT
116546 CATTTCAACC
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
19 43 0.74
20 15 0.26
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:116503 original size:38 final size:39
Alignment explanation
Indices: 116461--116543 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 39
116451 AAATCACAAC
116461 GCGATTATAGTTTCGCGTTGCGATTTTCATT-TCGCGTT
1 GCGATTATAGTTTCGCGTTGCGATTTTCATTCTCGCGTT
* * *
116499 GCGATTTTCGTTTCGCGTTGCGATTTTCATTCTCTCGTT
1 GCGATTATAGTTTCGCGTTGCGATTTTCATTCTCGCGTT
116538 GCGATT
1 GCGATT
116544 TTCATTTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 29 0.71
39 12 0.29
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (39 bp):
GCGATTATAGTTTCGCGTTGCGATTTTCATTCTCGCGTT
Found at i:116539 original size:20 final size:19
Alignment explanation
Indices: 116471--116551 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
116461 GCGATTATAG
116471 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
116490 TTTCGCGTTGCGATTTTCG
1 TTTCGCGTTGCGATTTTCA
116509 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
116528 TTCTCTCGTTGCGATTTTCA
1 TT-TCGCGTTGCGATTTTCA
116548 TTTC
1 TTTC
116552 AACCAAAAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
19 40 0.69
20 18 0.31
ACGTcount: A:0.09, C:0.22, G:0.20, T:0.49
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:116753 original size:94 final size:94
Alignment explanation
Indices: 116642--117006 Score: 494
Period size: 94 Copynumber: 4.1 Consensus size: 94
116632 ATGGATTGCA
* *
116642 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
116706 TTAGCAGAATTGACAGCAAACGAACAAAT
66 TTAGCAGAATTGACAGCAACCGAACAAAT
*
116735 TTACTTTCAACCAAAAGACAAAACAAAGACAAATATTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
116800 TTAGCAGAATTGACAACAACCGAACAAAT
66 TTAGCAGAATTGACAGCAACCGAACAAAT
*
116829 TTACTTTCAA-C------C---A-AAAGATAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
116883 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGACAGCAACCGAACAAAT
*
116912 TTA-TTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * *
116972 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGACAGCAACCGAACAAAT
117002 TTACT
1 TTACT
117007 AAGCAATCTA
Statistics
Matches: 245, Mismatches: 13, Indels: 30
0.85 0.05 0.10
Matches are distributed among these distances:
82 6 0.02
83 69 0.28
84 1 0.00
87 1 0.00
89 1 0.00
90 40 0.16
91 1 0.00
92 1 0.00
93 5 0.02
94 120 0.49
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGACAGCAACCGAACAAAT
Found at i:116903 original size:83 final size:82
Alignment explanation
Indices: 116759--116932 Score: 294
Period size: 83 Copynumber: 2.1 Consensus size: 82
116749 AAGACAAAAC
*
116759 AAAGACAAATATTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAACAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAACAACCGAA
116824 CAAATTTACTTTCAACCA
66 CAAATTTA-TTTCAACCA
* * *
116842 AAAGATAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAACAACCGAA
*
116907 TAAATTTATTTCAACCA
66 CAAATTTATTTCAACCA
116924 AAAGACAAA
1 AAAGACAAA
116933 ACAAAAGACA
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 17 0.20
83 68 0.80
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (82 bp):
AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAACAACCGAA
CAAATTTATTTCAACCA
Found at i:118750 original size:19 final size:19
Alignment explanation
Indices: 118699--118758 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
118689 TTTTTTGGTT
118699 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
118718 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
* *
118738 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
118757 GA
1 GA
118759 TTTTGGTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:118806 original size:33 final size:33
Alignment explanation
Indices: 118769--118834 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
118759 TTTTGGTTTT
118769 GCGTTGCGATTATCTCGTTACGATTTTCATTTC
1 GCGTTGCGATTATCTCGTTACGATTTTCATTTC
* *
118802 GCGTTGCGATTCTCTCGTTGCGATTTTCATTTC
1 GCGTTGCGATTATCTCGTTACGATTTTCATTTC
118835 TCTCGTTGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (33 bp):
GCGTTGCGATTATCTCGTTACGATTTTCATTTC
Found at i:118837 original size:21 final size:20
Alignment explanation
Indices: 118818--118889 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
118808 CGATTCTCTC
118818 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
118838 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
118859 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
118879 GTTGCGATTTT
1 GTTGCGATTTT
118890 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:119463 original size:20 final size:20
Alignment explanation
Indices: 119440--119533 Score: 143
Period size: 20 Copynumber: 4.7 Consensus size: 20
119430 TGATAGTCAG
119440 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
119460 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
119480 AATTCGCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGT
* *
119501 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
119521 ATTCGCATTGCGA
1 ATTCGCATTGCGA
119534 ATTAGGAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 47 0.72
21 18 0.28
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:119547 original size:41 final size:41
Alignment explanation
Indices: 119440--119533 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 41
119430 TGATAGTCAG
* *
119440 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCTA
* *
119481 ATTCGCATTGCGATTTACGTAATCGCGTTGCGATTTACGT-
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCTA
119521 ATTCGCATTGCGA
1 ATTCGCATTGCGA
119534 ATTAGGAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 13 0.27
41 36 0.73
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCTA
Found at i:119554 original size:21 final size:21
Alignment explanation
Indices: 119530--119575 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
119520 TATTCGCATT
119530 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
119551 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
119572 GCGA
1 GCGA
119576 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:120651 original size:31 final size:31
Alignment explanation
Indices: 120615--120700 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
120605 AAAGTAACTA
* *
120615 TTTTGTTATAAATTAATATCGTTAAGACCAT
1 TTTTGTTATAAATCAATAACGTTAAGACCAT
120646 TTTTGTTATAAATCAATAACGTTAAGACCAT
1 TTTTGTTATAAATCAATAACGTTAAGACCAT
* *
120677 TTTTGTTATAAATCGATAATGTTA
1 TTTTGTTATAAATCAATAACGTTA
120701 GTGATCAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (31 bp):
TTTTGTTATAAATCAATAACGTTAAGACCAT
Found at i:126303 original size:25 final size:26
Alignment explanation
Indices: 126258--126310 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
126248 CTTCCCCTAC
*
126258 TTGAAATGGATTCCCAACAAAA-CAT
1 TTGAAATGAATTCCCAACAAAAGCAT
*
126283 TTGAAATGAATAT-CCAGCAAAAGCAT
1 TTGAAATGAAT-TCCCAACAAAAGCAT
126309 TT
1 TT
126311 CAGGAGGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (26 bp):
TTGAAATGAATTCCCAACAAAAGCAT
Found at i:128397 original size:38 final size:39
Alignment explanation
Indices: 128312--128397 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 39
128302 ATTGAACCCT
* *
128312 AAAATGTATCGAAGAATATAATATTTTTGATGAGCAACCG
1 AAAATGTTTCGAAGAATATAATATTTTT-ATGAGCAACCA
* * **
128352 AAAATGTTTTGAAGAATGTAATATTTTT-TGTTCAACCA
1 AAAATGTTTCGAAGAATATAATATTTTTATGAGCAACCA
128390 AAAATGTT
1 AAAATGTT
128398 AAGGAAAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
38 15 0.38
40 25 0.62
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (39 bp):
AAAATGTTTCGAAGAATATAATATTTTTATGAGCAACCA
Found at i:128955 original size:23 final size:24
Alignment explanation
Indices: 128913--128959 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
128903 CTCTTACTTA
* *
128913 TATATTCTATCATTTTTTTAATTT
1 TATATTCTATAATTTATTTAATTT
128937 TATATT-TATAATTTATTTAATTT
1 TATATTCTATAATTTATTTAATTT
128960 ATTTTGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (24 bp):
TATATTCTATAATTTATTTAATTT
Found at i:131340 original size:29 final size:30
Alignment explanation
Indices: 131278--131369 Score: 109
Period size: 29 Copynumber: 3.1 Consensus size: 30
131268 TTGTCGCATT
* *
131278 TGGTACCTGTA-TTTATCAAAATATCTTATA
1 TGGTACCTGTACTTTA-CAAAATATCTAATG
131308 TGGTACCTGTACTTTA-AAAATATCTAATG
1 TGGTACCTGTACTTTACAAAATATCTAATG
*
131337 TGGTACCTCTACTTTGACAAAATAT-TCAATG
1 TGGTACCTGTACTTT-ACAAAATATCT-AATG
131368 TG
1 TG
131370 ATACTTAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
29 25 0.45
30 13 0.24
31 17 0.31
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (30 bp):
TGGTACCTGTACTTTACAAAATATCTAATG
Found at i:143141 original size:14 final size:14
Alignment explanation
Indices: 143122--143153 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
143112 TTAATAAAAA
143122 TATTATTGTATATT
1 TATTATTGTATATT
143136 TATTATTGTATATT
1 TATTATTGTATATT
143150 TATT
1 TATT
143154 TAATTATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (14 bp):
TATTATTGTATATT
Found at i:149498 original size:18 final size:19
Alignment explanation
Indices: 149467--149502 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
149457 AATTCAAATT
149467 TATATAATTGTAATTATAA
1 TATATAATTGTAATTATAA
149486 TATATAA-TGTAATTATA
1 TATATAATTGTAATTATA
149503 TATTAAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
TATATAATTGTAATTATAA
Found at i:152411 original size:72 final size:72
Alignment explanation
Indices: 152291--152461 Score: 227
Period size: 72 Copynumber: 2.3 Consensus size: 72
152281 TTAAACTCAA
* * * *
152291 ATTTAGGATAATATTTTAAACATTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTA-
1 ATTTAGGATATTATTTT--ATATTTTATCTTATCTTTGTATTTTAGTTTAAATAGG-TTTAGTAT
152355 TTTAATTAAG
63 TTTAATTAAG
*
152365 TTTTAGGATATTATTTTATATTTTATCTTATCTTTGTATTTTAGTTTAAATAGGTTTAGTATTTT
1 ATTTAGGATATTATTTTATATTTTATCTTATCTTTGTATTTTAGTTTAAATAGGTTTAGTATTTT
*
152430 AATTAGG
66 AATTAAG
* * *
152437 ATTTAGAATATTATATTATTTTTTA
1 ATTTAGGATATTATTTTATATTTTA
152462 GGTATTTTAG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
71 7 0.08
72 64 0.74
74 15 0.17
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (72 bp):
ATTTAGGATATTATTTTATATTTTATCTTATCTTTGTATTTTAGTTTAAATAGGTTTAGTATTTT
AATTAAG
Found at i:153107 original size:21 final size:22
Alignment explanation
Indices: 153083--153123 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
153073 CTTTATTTTG
153083 TTTATTTAATTATT-TTTTTCT
1 TTTATTTAATTATTATTTTTCT
*
153104 TTTATTTAATTCTTATTTTT
1 TTTATTTAATTATTATTTTT
153124 TAACCACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTAATTATTATTTTTCT
Found at i:155081 original size:15 final size:15
Alignment explanation
Indices: 155061--155089 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
155051 CAGCAGAAAA
155061 GACGCACATCAGGAT
1 GACGCACATCAGGAT
155076 GACGCACATCAGGA
1 GACGCACATCAGGA
155090 AATAAGAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.28, T:0.10
Consensus pattern (15 bp):
GACGCACATCAGGAT
Found at i:159303 original size:31 final size:31
Alignment explanation
Indices: 159265--159374 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
159255 GGGTCGAGGG
159265 TTACCTATGTTCTTCGGGACATACGGACTGT
1 TTACCTATGTTCTTCGGGACATACGGACTGT
159296 TTACCTATGTTCTTCGGGACATACGGACTGT
1 TTACCTATGTTCTTCGGGACATACGGACTGT
* *
159327 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATACGGACTGT
*
159358 TTACCTAGGTTCTTCGG
1 TTACCTATGTTCTTCGG
159375 AATCTATGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATACGGACTGT
Found at i:163625 original size:31 final size:31
Alignment explanation
Indices: 163587--163696 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
163577 GGGTCGAGGG
163587 TTACCTATGTTCTTCGGGACATACGGACTGT
1 TTACCTATGTTCTTCGGGACATACGGACTGT
163618 TTACCTATGTTCTTCGGGACATACGGACTGT
1 TTACCTATGTTCTTCGGGACATACGGACTGT
* *
163649 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATACGGACTGT
*
163680 TTACCTAGGTTCTTCGG
1 TTACCTATGTTCTTCGG
163697 AATCTATGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATACGGACTGT
Found at i:167108 original size:73 final size:74
Alignment explanation
Indices: 166991--167130 Score: 210
Period size: 73 Copynumber: 1.9 Consensus size: 74
166981 AACAATATAT
* * * * *
166991 TTTATATTTGTATTTTAGTTTAAATAGATTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTT
1 TTTATATTTGAATTTTAGTTTAAATAGAGTTTTAGTATTTTAATTAAGATTTAGAATATTATATT
167056 ATATTTATC
66 ATATTTATC
* *
167065 TTTATCTTTGAATTTTAGTTTAAATAG-GTTTTAGTATTTTAATTAGGATTTAGAATATTATATT
1 TTTATATTTGAATTTTAGTTTAAATAGAGTTTTAGTATTTTAATTAAGATTTAGAATATTATATT
167129 AT
66 AT
167131 TTTTTAGGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 34 0.58
74 25 0.42
ACGTcount: A:0.31, C:0.01, G:0.11, T:0.57
Consensus pattern (74 bp):
TTTATATTTGAATTTTAGTTTAAATAGAGTTTTAGTATTTTAATTAAGATTTAGAATATTATATT
ATATTTATC
Found at i:167111 original size:19 final size:19
Alignment explanation
Indices: 167083--167145 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
167073 TGAATTTTAG
*
167083 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
167102 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
167121 ATTATATTATTTTTTAGGTAT
1 TTTA-ATTAGGTTTTA-GTAT
167142 TTTA
1 TTTA
167146 GTTTAAATAG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 8 0.24
21 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:167793 original size:22 final size:22
Alignment explanation
Indices: 167768--167809 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
167758 CTTTAATTTG
*
167768 TTTATTTAATTATTGTTTTTCT
1 TTTATTTAATTATTATTTTTCT
*
167790 TTTATTTAATTCTTATTTTT
1 TTTATTTAATTATTATTTTT
167810 TAACCCCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTATTTAATTATTATTTTTCT
Found at i:168063 original size:20 final size:21
Alignment explanation
Indices: 168038--168089 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
168028 TTTTCCCAAT
*
168038 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
168058 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
168079 TCGCAATGCGA
1 TCGCAATGCGA
168090 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:168106 original size:20 final size:20
Alignment explanation
Indices: 168078--168211 Score: 144
Period size: 20 Copynumber: 6.7 Consensus size: 20
168068 AATTGGGAAA
168078 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
168098 ATCGTAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
168118 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
168138 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
168159 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
168179 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
168199 TTCGCAACGCGAT
1 ATCGCAATGCGAT
168212 TTACATAGCG
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 82 0.83
21 13 0.13
22 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:168767 original size:19 final size:19
Alignment explanation
Indices: 168729--168795 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
168719 TTCGAGAATG
168729 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
168749 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
168768 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
168787 AAAATCGCA
1 AAAATCGCA
168796 TTGTGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:168837 original size:20 final size:19
Alignment explanation
Indices: 168800--168956 Score: 118
Period size: 20 Copynumber: 8.6 Consensus size: 19
168790 ATCGCATTGT
168800 GATTTTCATTTCGCGTTGC
1 GATTTTCATTTCGCGTTGC
*
168819 GATTTTTATTTCGCGGTTGC
1 GATTTTCATTTCGC-GTTGC
168839 GATTTTCATTTCGCGTTGC
1 GATTTTCATTTCGCGTTGC
* *
168858 GATTGTC---T-G-GTCGC
1 GATTTTCATTTCGCGTTGC
**
168872 GATAGTCATTTCGCGTTGC
1 GATTTTCATTTCGCGTTGC
*
168891 GA--TTC---TCTCGTTGC
1 GATTTTCATTTCGCGTTGC
** *
168905 GATAGTCATTTCCTCGTTGC
1 GATTTTCATTT-CGCGTTGC
* *
168925 GATTCTCATTATCTCGTTGC
1 GATTTTCATT-TCGCGTTGC
168945 GATTTTCATTTC
1 GATTTTCATTTC
168957 AACCAAAAGA
Statistics
Matches: 113, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.18
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 33 0.29
20 51 0.45
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
GATTTTCATTTCGCGTTGC
Found at i:168881 original size:33 final size:33
Alignment explanation
Indices: 168844--168931 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
168834 GTTGCGATTT
* *
168844 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
168877 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
168910 TCATTTCCTCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
168932 ATTATCTCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 36 0.72
34 14 0.28
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:171036 original size:42 final size:42
Alignment explanation
Indices: 170958--171048 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 42
170948 CCGACTCGCA
* * * *
170958 TATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCC
1 TATCATCCCTCAAGAGTCCACTCCCACCGCTCAAGAGGCCCC
* * * *
171000 TATCATTCCTCGAGAGTCCCCTCCCACCGCTCAAGAGGCCAC
1 TATCATCCCTCAAGAGTCCACTCCCACCGCTCAAGAGGCCCC
*
171042 TGTCATC
1 TATCATC
171049 GTTGAAGAGG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.23
Consensus pattern (42 bp):
TATCATCCCTCAAGAGTCCACTCCCACCGCTCAAGAGGCCCC
Found at i:172404 original size:14 final size:14
Alignment explanation
Indices: 172385--172420 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
172375 ATTGTTTAAT
172385 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
172399 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
172413 TGATTTGT
1 TGATTTGT
172421 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:172601 original size:19 final size:19
Alignment explanation
Indices: 172579--172729 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
172569 CGAAATTAAA
172579 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
172598 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
172613 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
172631 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
172645 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
172664 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
172679 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
172697 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
172716 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
172730 GGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:172625 original size:33 final size:32
Alignment explanation
Indices: 172583--172709 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
172573 ATTAAATTCG
172583 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
172616 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
172649 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
172682 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
172710 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:172666 original size:66 final size:66
Alignment explanation
Indices: 172576--172708 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
172566 ACGCGAAATT
*
172576 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
172641 G
66 G
*
172642 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
172707 G
66 G
172708 A
1 A
172709 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:175017 original size:12 final size:12
Alignment explanation
Indices: 175000--175024 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
174990 TCTTCGGGGA
175000 CTTTTTCTTCTT
1 CTTTTTCTTCTT
175012 CTTTTTCTTCTT
1 CTTTTTCTTCTT
175024 C
1 C
175025 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:175233 original size:24 final size:24
Alignment explanation
Indices: 175199--175252 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
175189 CTGAAACATC
* *
175199 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
175223 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
175247 ATCAAA
1 ATCAAA
175253 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:178053 original size:20 final size:19
Alignment explanation
Indices: 178018--178084 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
178008 GAAACTTAAA
178018 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
178037 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
178057 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
178076 ATCGCAACG
1 ATCGCAACG
178085 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:178151 original size:14 final size:14
Alignment explanation
Indices: 178132--178221 Score: 81
Period size: 14 Copynumber: 5.9 Consensus size: 14
178122 TTTCATTTCG
178132 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
178146 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
178162 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
178178 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
178194 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
178210 CGTTTCGATTTT
1 CGTTGCGATTTT
178222 CATTTCGCAT
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
14 29 0.46
16 16 0.25
18 18 0.29
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:178162 original size:32 final size:33
Alignment explanation
Indices: 178115--178237 Score: 214
Period size: 32 Copynumber: 3.8 Consensus size: 33
178105 ACAAATCGCA
*
178115 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
178148 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
178180 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
178212 TTTCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
178238 AGCCATTTCC
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
32 62 0.71
33 25 0.29
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:178256 original size:20 final size:19
Alignment explanation
Indices: 178222--178276 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
178212 TTTCGATTTT
*
178222 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
178241 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
178261 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
178277 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:178784 original size:18 final size:18
Alignment explanation
Indices: 178758--178802 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
178748 GTCGATCAGA
*
178758 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
178776 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
178794 TGATGGCTC
1 TGATGGCTC
178803 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:180147 original size:20 final size:20
Alignment explanation
Indices: 180122--180159 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
180112 AATAGTTTCT
180122 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
180142 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
180160 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:180441 original size:20 final size:21
Alignment explanation
Indices: 180416--180464 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
180406 TCTGAGAGAT
180416 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* *
180436 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
*
180458 AGAGATG
1 GGAGATG
180465 GGTGAGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:180450 original size:22 final size:22
Alignment explanation
Indices: 180423--180466 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
180413 GATGGAGATA
*
180423 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
*
180445 GACGGATTTCGTCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
180467 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:180683 original size:20 final size:20
Alignment explanation
Indices: 180654--180747 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
180644 GATTATGTAT
*
180654 TATCGTGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
180674 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
180694 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
180715 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
180735 TATCGCATTGCGA
1 TATCGCGTTGCGA
180748 TTTTCCCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.72
21 12 0.20
22 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:180748 original size:20 final size:19
Alignment explanation
Indices: 180634--180748 Score: 77
Period size: 20 Copynumber: 5.7 Consensus size: 19
180624 CGCTTTGAAA
*
180634 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
** *
180655 ATCGTGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* *
180675 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGT-AGT
* * * *
180695 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
180716 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGT-AGT
180736 ATCGCATTGCGAT
1 ATCGCATTGCGAT
180749 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.07
20 47 0.62
21 22 0.29
22 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:180766 original size:21 final size:21
Alignment explanation
Indices: 180737--180829 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
180727 ATAGTCAGTA
180737 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
180758 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
180778 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
180799 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
180819 TCGCATTGCGA
1 TCGCATTGCGA
180830 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:180767 original size:41 final size:41
Alignment explanation
Indices: 180676--180810 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
180666 AAAGTCAGTA
* * * ** *
180676 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
180716 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
180758 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
180799 TCGCGTTGCGAT
1 TCGCGTTGCGAT
180811 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:180811 original size:41 final size:41
Alignment explanation
Indices: 180737--180829 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
180727 ATAGTCAGTA
180737 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
180778 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
180819 TCGCATTGCGA
1 TCGCATTGCGA
180830 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:185490 original size:20 final size:20
Alignment explanation
Indices: 185462--185500 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
185452 TTTTCAAGAA
185462 TTATCTTTAGGAATTATCTC
1 TTATCTTTAGGAATTATCTC
*
185482 TTATTTTTAGGAATTATCT
1 TTATCTTTAGGAATTATCT
185501 TTTCATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (20 bp):
TTATCTTTAGGAATTATCTC
Found at i:192479 original size:16 final size:16
Alignment explanation
Indices: 192458--192490 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
192448 CACTATTCAT
*
192458 GTGAATAGTGAATTTC
1 GTGAATAGTGAAATTC
192474 GTGAATAGTGAAATTC
1 GTGAATAGTGAAATTC
192490 G
1 G
192491 GTCGGCGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (16 bp):
GTGAATAGTGAAATTC
Found at i:197338 original size:3 final size:3
Alignment explanation
Indices: 197330--197354 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
197320 TTGATTTCTT
197330 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
197355 GTTTGATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:203850 original size:19 final size:18
Alignment explanation
Indices: 203826--203872 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
203816 TAATTCTAAC
203826 CAATTAAAA-ATATCCACAT
1 CAATTAAAAGATAT-CA-AT
203845 CAATTACAAAGATATCAAT
1 CAATTA-AAAGATATCAAT
*
203864 TAATTAAAA
1 CAATTAAAA
203873 TGTTGCTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 13 0.52
20 5 0.20
21 4 0.16
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.28
Consensus pattern (18 bp):
CAATTAAAAGATATCAAT
Found at i:204558 original size:20 final size:20
Alignment explanation
Indices: 204509--204561 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
204499 CGCGTTGCAT
* * *
204509 TTCGCGTTGAGATTTTTCAT
1 TTCGCGTTGCGATTTTCCAG
204529 TTCGCGTTGCGATTTTCCAG
1 TTCGCGTTGCGATTTTCCAG
204549 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
204562 AGTTGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.11, C:0.21, G:0.25, T:0.43
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCCAG
Found at i:204699 original size:6 final size:6
Alignment explanation
Indices: 204688--204716 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
204678 GAAGACACGT
204688 ACGACC ACGACC ACGACC ACGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC
204717 CGAGACGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.31, C:0.52, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:205344 original size:22 final size:22
Alignment explanation
Indices: 205316--205368 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
205306 AATTTATAAA
205316 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
205338 ATCGCAACAACAACTGTATACT
1 ATCGCAACGACAACTGTAGACT
205360 ATCGCAACG
1 ATCGCAACG
205369 CGATTTTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:210548 original size:19 final size:19
Alignment explanation
Indices: 210521--210589 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
210511 TAAAATTATT
210521 ATATATTTTAAATATTTAA
1 ATATATTTTAAATATTTAA
* *
210540 ATATTTTTTATTATAATTTTATA
1 ATATATTTTA-AAT-A-TTTA-A
*
210563 ATATATTTTAAATTTTTAA
1 ATATATTTTAAATATTTAA
210582 ATAT-TTTT
1 ATATATTTT
210590 CAATTAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 4 0.10
19 14 0.34
20 6 0.15
21 1 0.02
22 6 0.15
23 10 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATATTTTAAATATTTAA
Found at i:210575 original size:42 final size:43
Alignment explanation
Indices: 210516--210610 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 43
210506 AAATTTAAAA
* * *
210516 TTATTATATATTTTAAATATTTAAATATTTTT-TATTATAATT
1 TTATAATATATTTTAAATATTTAAATATTTTTCAATTAAAATT
*
210558 TTATAATATATTTTAAATTTTTAAATATTTTTCAATTAAAATT
1 TTATAATATATTTTAAATATTTAAATATTTTTCAATTAAAATT
210601 TTATAA-ATAT
1 TTATAATATAT
210611 CTCTTTTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 34 0.71
43 14 0.29
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (43 bp):
TTATAATATATTTTAAATATTTAAATATTTTTCAATTAAAATT
Found at i:210594 original size:18 final size:20
Alignment explanation
Indices: 210516--210594 Score: 65
Period size: 19 Copynumber: 4.0 Consensus size: 20
210506 AAATTTAAAA
* *
210516 TTATTATATATTTTAAATAT
1 TTATAATATATTTTAAATTT
* *
210536 TTA-AATATTTTTTATTATAATT
1 TTATAATATATTTTA--A-ATTT
210558 TTATAATATATTTTAAATTT
1 TTATAATATATTTTAAATTT
*
210578 TTA-AATAT-TTTTCAATT
1 TTATAATATATTTTAAATT
210595 AAAATTTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
18 8 0.17
19 14 0.29
20 9 0.19
21 2 0.04
22 5 0.10
23 10 0.21
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATAATATATTTTAAATTT
Found at i:215387 original size:21 final size:21
Alignment explanation
Indices: 215363--215403 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
215353 TATATATCGG
*
215363 GTTGGGTAAAATCTTATTTTA
1 GTTGGATAAAATCTTATTTTA
215384 GTTGGATAAAATCTTATTTT
1 GTTGGATAAAATCTTATTTT
215404 GGTCGAGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.49
Consensus pattern (21 bp):
GTTGGATAAAATCTTATTTTA
Found at i:215711 original size:13 final size:13
Alignment explanation
Indices: 215693--215717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
215683 CGGCGTTACA
215693 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
215706 TTTTTTCTTTTT
1 TTTTTTCTTTTT
215718 GCCAAGAGGA
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:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:220725 original size:13 final size:13
Alignment explanation
Indices: 220707--220731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
220697 ATTAATTAAT
220707 TAAAAATTTTATA
1 TAAAAATTTTATA
220720 TAAAAATTTTAT
1 TAAAAATTTTAT
220732 TTTATAATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAAAATTTTATA
Done.