Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004001.1 Hibiscus syriacus cultivar Beakdansim tig00008722_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: 178409
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:280 original size:16 final size:17
Alignment explanation
Indices: 255--294 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
245 AACGTCTTTT
*
255 AAAAACAATTTT-TAAG
1 AAAAATAATTTTATAAG
271 AAAAATAATTTTATAAG
1 AAAAATAATTTTATAAG
288 ACAAAAT
1 A-AAAAT
295 TTGGTCTACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 5 0.24
18 5 0.24
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (17 bp):
AAAAATAATTTTATAAG
Found at i:2984 original size:25 final size:25
Alignment explanation
Indices: 2920--3042 Score: 189
Period size: 25 Copynumber: 5.0 Consensus size: 25
2910 AGTTAGGGGA
*
2920 TTAGGG-TTGAAACCCTAAAT-TGTT
1 TTAGGGTTTGAAACCCT-AATCTGAT
2944 TTAGGG-TTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
2968 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
* *
2993 TTAGGGTTTGAAACCCTAAACTAAT
1 TTAGGGTTTGAAACCCTAATCTGAT
3018 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
3043 AGGTTGGTTC
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 3 0.03
24 25 0.27
25 64 0.70
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:3174 original size:3 final size:3
Alignment explanation
Indices: 3157--3215 Score: 54
Period size: 3 Copynumber: 20.0 Consensus size: 3
3147 ACAAAATTTG
3157 TAA T-A TAA TTAA TAA TAA TAA T-A TAA TAA TAA TAA TTAA TAA -AA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
*
3201 TTA -AA TAA TATA TAA
1 TAA TAA TAA TA-A TAA
3216 AAAGACCCGG
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
2 7 0.15
3 31 0.66
4 9 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:3188 original size:17 final size:17
Alignment explanation
Indices: 3157--3215 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 17
3147 ACAAAATTTG
3157 TAATATAATTAATAATAA
1 TAATATAA-TAATAATAA
3175 TAATATAATAATAATAA
1 TAATATAATAATAATAA
* *
3192 TTAATAAAATTA-AATAA
1 -TAATATAATAATAATAA
3209 T-ATATAA
1 TAATATAA
3216 AAAGACCCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.14
16 1 0.03
17 14 0.38
18 17 0.46
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAATATAATAATAATAA
Found at i:3192 original size:27 final size:26
Alignment explanation
Indices: 3157--3215 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 26
3147 ACAAAATTTG
3157 TAAT-ATAATTAATAATAA-TAATATAA
1 TAATAATAATTAATAA-AATTAA-ATAA
3183 TAATAATAATTAATAAAATTAAATAA
1 TAATAATAATTAATAAAATTAAATAA
3209 TATATAA
1 TA-ATAA
3216 AAAGACCCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
TAATAATAATTAATAAAATTAAATAA
Found at i:3216 original size:17 final size:15
Alignment explanation
Indices: 3167--3217 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 15
3157 TAATATAATT
3167 AATAATAATAATATAA
1 AATAATAAT-ATATAA
3183 TAATAATAAT-TAATAA
1 -AATAATAATAT-ATAA
3199 AATTAAATAATATATAA
1 AA-T-AATAATATATAA
3216 AA
1 AA
3218 AGACCCGGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.10
16 5 0.17
17 21 0.70
18 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATAATATATAA
Found at i:3428 original size:40 final size:40
Alignment explanation
Indices: 3363--3532 Score: 115
Period size: 40 Copynumber: 4.0 Consensus size: 40
3353 GTTGGTTGTT
* * * *
3363 GGGACGACACTGCTCCTACGTGATGAAGAAATCTGGTCAA
1 GGGATGACACGGCTCATACGCGATGAAGAAATCTGGTCAA
**
3403 GGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTCATCTTTAAGAA
1 GGGATGACACGGCTCATACGCGATGAAGAAATCTGG---TC------AA
* * * * * *
3452 GGGTGATAACTCGGTTCCTACGTGATGAGGAAATCTGGTCAA
1 -GG-GATGACACGGCTCATACGCGATGAAGAAATCTGGTCAA
**
3494 GGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTCA
1 GGGATGACACGGCTCATACGCGATGAAGAAATCTGGTCA
3533 TCTTTAAGAA
Statistics
Matches: 97, Mismatches: 22, Indels: 22
0.69 0.16 0.16
Matches are distributed among these distances:
40 59 0.61
41 2 0.02
42 2 0.02
43 2 0.02
48 2 0.02
49 2 0.02
50 2 0.02
51 26 0.27
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (40 bp):
GGGATGACACGGCTCATACGCGATGAAGAAATCTGGTCAA
Found at i:3531 original size:91 final size:86
Alignment explanation
Indices: 3376--3572 Score: 340
Period size: 91 Copynumber: 2.2 Consensus size: 86
3366 ACGACACTGC
*
3376 TCCTACGTGATGAAGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
1 TCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
3441 ATCTTTAAGAAGGGTGATAACTCGGT
66 ATCTTTAAGAAGGGTG---A-T-GGT
3467 TCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
1 TCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
3532 ATCTTTAAGAAGGGTGATGGT
66 ATCTTTAAGAAGGGTGATGGT
3553 TCCTACGTGATGAGGAAATC
1 TCCTACGTGATGAGGAAATC
3573 CGATTATCTA
Statistics
Matches: 105, Mismatches: 1, Indels: 5
0.95 0.01 0.05
Matches are distributed among these distances:
86 23 0.22
87 1 0.01
88 1 0.01
91 80 0.76
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (86 bp):
TCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
ATCTTTAAGAAGGGTGATGGT
Found at i:3759 original size:141 final size:136
Alignment explanation
Indices: 3467--3761 Score: 311
Period size: 141 Copynumber: 2.2 Consensus size: 136
3457 ATAACTCGGT
* * **
3467 TCCTACGTGATGAGGAAATCT-G--GTC-AA-GG--GATGACACGGCTCATACGCGATGAAGAGT
1 TCCTACGTGATGAGGAAGTCTGGTCGTCTAAGGGTAGATGACACGGCTCATACACGATGAAGAAC
* *
3525 TCTGGTCATCTTTAAGAAGGGTGATGGTTCCTACGTGATGAGGAAATCCGATTATCTAAGGTTGA
66 TCTGGCCATCTTTAAGAAGGGTGATGGTTCCTACGTGATGAGGAAAGCCGATTATCTAAGGTTGA
3590 CACGGC
131 CACGGC
* * *
3596 TCCTACGTGATGAGGAAGTCTGGTCGTCTAAGGGTAGATGACATGGTTCATACATGATGAAGAAC
1 TCCTACGTGATGAGGAAGTCTGGTCGTCTAAGGGTAGATGACACGGCTCATACACGATGAAGAAC
* ** * *
3661 TCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCCTAA
66 TCTGGCCATCTTTAAGAAGGGTG---A-T-GGTTCCTACGTGATGAGGAAAGCCGATTAT-CTAA
* *
3726 TGTTGACAC-TC
125 GGTTGACACGGC
*
3737 TCCTATGTGATGAGG-AGATCTGGTC
1 TCCTACGTGATGAGGAAG-TCTGGTC
3762 AGTTGATGTT
Statistics
Matches: 135, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
129 20 0.15
130 1 0.01
132 3 0.02
133 2 0.01
134 2 0.01
136 44 0.33
139 1 0.01
140 3 0.02
141 47 0.35
142 12 0.09
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (136 bp):
TCCTACGTGATGAGGAAGTCTGGTCGTCTAAGGGTAGATGACACGGCTCATACACGATGAAGAAC
TCTGGCCATCTTTAAGAAGGGTGATGGTTCCTACGTGATGAGGAAAGCCGATTATCTAAGGTTGA
CACGGC
Found at i:15721 original size:16 final size:16
Alignment explanation
Indices: 15696--15738 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
15686 AACGTCTTTT
15696 AAAAACAATTTT-TAAG
1 AAAAA-AATTTTATAAG
15712 AAAAATAATTTTATAAG
1 AAAAA-AATTTTATAAG
*
15729 ACAAAAATTT
1 AAAAAAATTT
15739 GGTCTACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
AAAAAAATTTTATAAG
Found at i:18424 original size:25 final size:25
Alignment explanation
Indices: 18386--18527 Score: 193
Period size: 25 Copynumber: 5.8 Consensus size: 25
18376 AGTTAGGGGA
*
18386 TTAGGG-TTGAAACCCTAAATTGTT
1 TTAGGGTTTGAAACCCTAAATTGAT
18410 TTAGGGTTTGAAACCCT-AATCTGAT
1 TTAGGGTTTGAAACCCTAAAT-TGAT
*
18435 TTAGGGTTTGAAACCCT-AGTCTGAT
1 TTAGGGTTTGAAACCCTAAAT-TGAT
*
18460 TTAGGGTTTG-AACCCTAATTTGAT
1 TTAGGGTTTGAAACCCTAAATTGAT
* *
18484 TTAGGGTTTGAAACCCTAAACTAAT
1 TTAGGGTTTGAAACCCTAAATTGAT
18509 TTAGGGTTTGAAACCCTAA
1 TTAGGGTTTGAAACCCTAA
18528 TCTGATGGGT
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
24 29 0.27
25 79 0.73
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAAATTGAT
Found at i:18475 original size:49 final size:50
Alignment explanation
Indices: 18386--18533 Score: 221
Period size: 49 Copynumber: 3.0 Consensus size: 50
18376 AGTTAGGGGA
*
18386 TTAGGG-TTGAAACCCTAAAT-TGTTTTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCT-AATCTGATTTAGGGTTTGAAACCCTAATCTGAT
* *
18435 TTAGGGTTTGAAACCCTAGTCTGATTTAGGGTTTG-AACCCTAATTTGAT
1 TTAGGGTTTGAAACCCTAATCTGATTTAGGGTTTGAAACCCTAATCTGAT
* *
18484 TTAGGGTTTGAAACCCTAAACTAATTTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGATTTAGGGTTTGAAACCCTAATCTGAT
18534 GGGTTGGTTC
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
49 53 0.60
50 36 0.40
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (50 bp):
TTAGGGTTTGAAACCCTAATCTGATTTAGGGTTTGAAACCCTAATCTGAT
Found at i:18476 original size:74 final size:74
Alignment explanation
Indices: 18386--18533 Score: 235
Period size: 74 Copynumber: 2.0 Consensus size: 74
18376 AGTTAGGGGA
* * *
18386 TTAGGGTTGAAACCCTAAATTGTTTTAGGGTTTGAAACCCTAATCTGATTTAGGGTTTGAAACCC
1 TTAGGGTTGAAACCCTAAATTGATTTAGGGTTTGAAACCCTAAACTAATTTAGGGTTTGAAACCC
*
18451 TAGTCTGAT
66 TAATCTGAT
*
18460 TTAGGGTTTG-AACCCTAATTTGATTTAGGGTTTGAAACCCTAAACTAATTTAGGGTTTGAAACC
1 TTAGGG-TTGAAACCCTAAATTGATTTAGGGTTTGAAACCCTAAACTAATTTAGGGTTTGAAACC
18524 CTAATCTGAT
65 CTAATCTGAT
18534 GGGTTGGTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
74 65 0.96
75 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (74 bp):
TTAGGGTTGAAACCCTAAATTGATTTAGGGTTTGAAACCCTAAACTAATTTAGGGTTTGAAACCC
TAATCTGAT
Found at i:21518 original size:30 final size:30
Alignment explanation
Indices: 21477--21538 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
21467 AATTATTTGT
* *
21477 CTCCGTAGGTCTCCAAGAGCACATGGCGAC
1 CTCCATAGGTCTCCAAGAGCACACGGCGAC
* *
21507 CTCCATAGGTCTCCAGGAGTACACGGCGAC
1 CTCCATAGGTCTCCAAGAGCACACGGCGAC
21537 CT
1 CT
21539 ATGGAGTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.18
Consensus pattern (30 bp):
CTCCATAGGTCTCCAAGAGCACACGGCGAC
Found at i:25757 original size:15 final size:14
Alignment explanation
Indices: 25737--25776 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
25727 AAATTTGGGT
25737 TTTTTTTAAATATAA
1 TTTTTTTAAATA-AA
*
25752 TTTTTTTAAACAAA
1 TTTTTTTAAATAAA
*
25766 TTTTTTAAAAT
1 TTTTTTTAAAT
25777 TATCAGAACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTTTTAAATAAA
Found at i:25774 original size:13 final size:15
Alignment explanation
Indices: 25737--25771 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
25727 AAATTTGGGT
*
25737 TTTTTTTAAATATAA
1 TTTTTTTAAACATAA
25752 TTTTTTTAAACA-AA
1 TTTTTTTAAACATAA
25766 TTTTTT
1 TTTTTT
25772 AAAATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTTAAACATAA
Found at i:27549 original size:17 final size:17
Alignment explanation
Indices: 27529--27573 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
27519 ATTTTTTTTA
*
27529 ATTTTATCAATTAAATC
1 ATTTAATCAATTAAATC
* *
27546 ATTTAATTATTTAAATC
1 ATTTAATCAATTAAATC
27563 ATGTTAATCAA
1 AT-TTAATCAA
27574 GTCATGTGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (17 bp):
ATTTAATCAATTAAATC
Found at i:27611 original size:22 final size:23
Alignment explanation
Indices: 27583--27625 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
27573 AGTCATGTGT
**
27583 GTTATTTTTTTTAA-AATTTTAA
1 GTTATTTAATTTAATAATTTTAA
27605 GTTATTTAATTTAATAATTTT
1 GTTATTTAATTTAATAATTTT
27626 TTTATTCAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (23 bp):
GTTATTTAATTTAATAATTTTAA
Found at i:29051 original size:38 final size:39
Alignment explanation
Indices: 29008--29082 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
28998 TTACTTTTTG
29008 AAATTTAGTTTTTATATTAATTATAATT-TGTATATTAT
1 AAATTTAGTTTTTATATTAATTATAATTCTGTATATTAT
* * * *
29046 AAATTTGGTTTTTATGTTAATTCTAATTCTTTATATT
1 AAATTTAGTTTTTATATTAATTATAATTCTGTATATT
29083 CTTTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 25 0.78
39 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.59
Consensus pattern (39 bp):
AAATTTAGTTTTTATATTAATTATAATTCTGTATATTAT
Found at i:29918 original size:15 final size:15
Alignment explanation
Indices: 29898--29932 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
29888 GTATAGTATT
29898 TATAACCTATATATA
1 TATAACCTATATATA
29913 TATAACCTATATATA
1 TATAACCTATATATA
29928 TATAA
1 TATAA
29933 AAACTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (15 bp):
TATAACCTATATATA
Found at i:29927 original size:17 final size:17
Alignment explanation
Indices: 29905--29942 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
29895 ATTTATAACC
* *
29905 TATATATATATAACCTA
1 TATATATATAAAAACTA
29922 TATATATATAAAAACTA
1 TATATATATAAAAACTA
29939 TATA
1 TATA
29943 AAGTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (17 bp):
TATATATATAAAAACTA
Found at i:30027 original size:7 final size:7
Alignment explanation
Indices: 30017--30074 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
30007 TAGTTTATAG
30017 AAACCCT
1 AAACCCT
**
30024 AAACTTT
1 AAACCCT
30031 AAACCCT
1 AAACCCT
*
30038 AAACACT
1 AAACCCT
**
30045 AAACATT
1 AAACCCT
*
30052 AAATCCT
1 AAACCCT
*
30059 AAACCAT
1 AAACCCT
30066 AAACCCT
1 AAACCCT
30073 AA
1 AA
30075 TGTAAATGGA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:30034 original size:49 final size:48
Alignment explanation
Indices: 29933--30027 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
29923 ATATATATAA
** * **
29933 AAACTATATAAAGTAAATTATTTATATAGTTTATAGAAATACTATGCAT
1 AAACTATATAAAGTAAA-TAAATATATAGTTTATAGAAACACTAAACAT
*
29982 AAACTATATAAAGTAACA-AAATATATAGTTTATAGAAACCCTAAAC
1 AAACTATATAAAGTAA-ATAAATATATAGTTTATAGAAACACTAAAC
30028 TTTAAACCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
48 22 0.56
49 16 0.41
50 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (48 bp):
AAACTATATAAAGTAAATAAATATATAGTTTATAGAAACACTAAACAT
Found at i:30041 original size:21 final size:21
Alignment explanation
Indices: 30017--30069 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
30007 TAGTTTATAG
*
30017 AAACCCTAAACTTTAAACCCT
1 AAACCCTAAACATTAAACCCT
* *
30038 AAACACTAAACATTAAATCCT
1 AAACCCTAAACATTAAACCCT
*
30059 AAACCATAAAC
1 AAACCCTAAAC
30070 CCTAATGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCCTAAACATTAAACCCT
Found at i:30483 original size:8 final size:7
Alignment explanation
Indices: 30426--30486 Score: 54
Period size: 8 Copynumber: 8.1 Consensus size: 7
30416 CATGTATAGT
30426 ATATATA
1 ATATATA
30433 A-ACTAT-
1 ATA-TATA
30439 ATATATA
1 ATATATA
30446 TATATATA
1 -ATATATA
30454 TATATATA
1 -ATATATA
30462 TATATATA
1 -ATATATA
30470 TATATATA
1 -ATATATA
30478 ACTATATA
1 A-TATATA
30486 A
1 A
30487 AGTAAATTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
6 5 0.10
7 6 0.12
8 38 0.78
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATATA
Found at i:30485 original size:2 final size:2
Alignment explanation
Indices: 30420--30477 Score: 89
Period size: 2 Copynumber: 28.0 Consensus size: 2
30410 ATAAACCATG
*
30420 TA TA GTA TA TA TA AA CTA 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
30464 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
30478 ACTATATAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 49 0.94
3 3 0.06
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:30589 original size:21 final size:21
Alignment explanation
Indices: 30560--30610 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
30550 TAATTTATAA
**
30560 AAACCCTAAACTTTAAACCAT
1 AAACCCTAAACAATAAACCAT
*
30581 AAACACTAAACAATAAACCAT
1 AAACCCTAAACAATAAACCAT
30602 AAACCCTAA
1 AAACCCTAA
30611 TGTAAATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (21 bp):
AAACCCTAAACAATAAACCAT
Found at i:30883 original size:20 final size:20
Alignment explanation
Indices: 30869--31100 Score: 86
Period size: 20 Copynumber: 11.5 Consensus size: 20
30859 GTATAGTTTA
* *
30869 TATATAATTTATATATAAAC
1 TATATAGTTTATATATAATC
* * *
30889 TATGTAGTTTCTATATAGT-
1 TATATAGTTTATATATAATC
* *
30908 TCA-ATAGTTCATATATAAAC
1 T-ATATAGTTTATATATAATC
* *
30928 TATATAG--TAT-TATAGTT
1 TATATAGTTTATATATAATC
* * *
30945 TATACA-TTGTATATATAGTT
1 TATATAGTT-TATATATAATC
* *
30965 TATACATAATATATATATAA--
1 TAT--ATAGTTTATATATAATC
* *
30985 TGTATAGTTTATATATAATA
1 TATATAGTTTATATATAATC
* * * *
31005 TATAATAATATAAATATAAAC
1 TAT-ATAGTTTATATATAATC
*
31026 TATATAGTTTTTATATGTAATAC
1 TATATAG--TTTATATATAAT-C
* *
31049 -ATATACTTTATATATAAAC
1 TATATAGTTTATATATAATC
*
31068 TATATAGTTTATATTATATATA
1 TATATAGTTTATA-TATA-ATC
31090 TATATATGTTT
1 TATATA-GTTT
31101 TAATTTTTTT
Statistics
Matches: 154, Mismatches: 38, Indels: 37
0.67 0.17 0.16
Matches are distributed among these distances:
17 9 0.06
18 15 0.10
19 17 0.11
20 58 0.38
21 19 0.12
22 30 0.19
23 6 0.04
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (20 bp):
TATATAGTTTATATATAATC
Found at i:30961 original size:2 final size:2
Alignment explanation
Indices: 30954--31096 Score: 57
Period size: 2 Copynumber: 71.5 Consensus size: 2
30944 TTATACATTG
* * * *
30954 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA -A TG TA TA GTT TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
30996 TA TA TA -A TA TA TA -A TA -A TA TA AA TA TA AA CTA TA TA GTT TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * * *
31037 TA TA TG TA -A TA CA TA TA CTT TA TA TA TA AA CTA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA
31079 TA T- TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
31097 GTTTTAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 28
0.66 0.15 0.18
Matches are distributed among these distances:
1 7 0.07
2 89 0.86
3 7 0.07
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:30968 original size:11 final size:11
Alignment explanation
Indices: 30954--31022 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 11
30944 TTATACATTG
* *
30954 TATATATAGTT
1 TATATATAATA
*
30965 TATACATAATA
1 TATATATAATA
*
30976 TATATATAATG
1 TATATATAATA
*
30987 TATAGTTTATATA
1 TATA-TATA-ATA
31000 TAATATATAATA
1 T-ATATATAATA
31012 -ATATA-AATA
1 TATATATAATA
31021 TA
1 TA
31023 AACTATATAG
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
9 4 0.09
10 6 0.13
11 21 0.46
12 6 0.13
13 6 0.13
14 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (11 bp):
TATATATAATA
Found at i:30990 original size:29 final size:28
Alignment explanation
Indices: 30958--31013 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
30948 ACATTGTATA
30958 TATAGTTTATACATAATATATATATAATG
1 TATAGTTTATACATAATATATA-ATAATG
*
30987 TATAGTTTATATATAATATATAATAAT
1 TATAGTTTATACATAATATATAATAAT
31014 ATAAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (28 bp):
TATAGTTTATACATAATATATAATAATG
Found at i:31536 original size:209 final size:209
Alignment explanation
Indices: 31174--31854 Score: 1136
Period size: 209 Copynumber: 3.2 Consensus size: 209
31164 GATCTCTTTG
* *
31174 TGTTTAATTTATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTCCAAATTTTA
1 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTA
*
31239 TTTGCATATGAAATTGACCCATACTTATTATTTATTTCTATTTTTTAATTGGCCCATAACTTTTT
66 TTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTT
*
31304 TAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
131 AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
31369 TGACCCCTTTGTGT
196 TGACCCCTTTGTGT
*
31383 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATGCAATTTAGTCCTCCAAATTTTA
1 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTA
31448 TTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTT
66 TTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTT
*
31513 AAATGGGTATAATTTATTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
131 AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
*
31578 TGATCCCTTTGTGT
196 TGACCCCTTTGTGT
*
31592 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTATA
1 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTA
* * *
31657 TTTGCATCTGAAATTGAGCCATACTTATTACTTATTTATA-TTTTTAA-TGGCCCATAACTTTTT
66 TTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTT
* *
31720 AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAA-TTAAAATTGTTTCAATT
131 AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
31784 TGATCCCTCATTAATGTGTGT
196 TGA-CCC-C--T--T-TGTGT
*
31805 TGTTTAATTTATTTAAATTTTGT-TTTGTAATTTCATATTTGTTCAATTTA
1 TGTTTAATTTATTTAAATTTT-TATTTGTAATTTCATATTTATTCAATTTA
31855 ATTCTTAAAT
Statistics
Matches: 447, Mismatches: 17, Indels: 12
0.94 0.04 0.03
Matches are distributed among these distances:
206 18 0.04
207 64 0.14
208 8 0.02
209 302 0.68
210 1 0.00
212 1 0.00
213 52 0.12
214 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (209 bp):
TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTA
TTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTT
AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
TGACCCCTTTGTGT
Found at i:38453 original size:15 final size:14
Alignment explanation
Indices: 38433--38472 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
38423 AAATTTGGGT
38433 TTTTTTTAAATATAA
1 TTTTTTTAAATA-AA
*
38448 TTTTTTTAAACAAA
1 TTTTTTTAAATAAA
*
38462 TTTTTTAAAAT
1 TTTTTTTAAAT
38473 TATCAGAACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTTTTAAATAAA
Found at i:38470 original size:13 final size:15
Alignment explanation
Indices: 38433--38467 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
38423 AAATTTGGGT
*
38433 TTTTTTTAAATATAA
1 TTTTTTTAAACATAA
38448 TTTTTTTAAACA-AA
1 TTTTTTTAAACATAA
38462 TTTTTT
1 TTTTTT
38468 AAAATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTTAAACATAA
Found at i:40244 original size:17 final size:17
Alignment explanation
Indices: 40224--40268 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
40214 ATTTTTTTTA
*
40224 ATTTTATCAATTAAATC
1 ATTTAATCAATTAAATC
* *
40241 ATTTAATTATTTAAATC
1 ATTTAATCAATTAAATC
40258 ATGTTAATCAA
1 AT-TTAATCAA
40269 GTCATGTGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (17 bp):
ATTTAATCAATTAAATC
Found at i:41767 original size:38 final size:39
Alignment explanation
Indices: 41702--41776 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
41692 TTACTTTTTG
*
41702 AAATTTAGTTTTTATATTCATTATAATT-TGTATATTAT
1 AAATTTAGTTTTTATATTAATTATAATTCTGTATATTAT
* * * *
41740 AAATTTGGTTTTTATGTTAATTCTAATTCTTTATATT
1 AAATTTAGTTTTTATATTAATTATAATTCTGTATATT
41777 CTTTATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 24 0.77
39 7 0.23
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.59
Consensus pattern (39 bp):
AAATTTAGTTTTTATATTAATTATAATTCTGTATATTAT
Found at i:42439 original size:16 final size:15
Alignment explanation
Indices: 42413--42442 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
42403 ATTTATATTA
42413 ATATAGTATGTATAT
1 ATATAGTATGTATAT
42428 ATATATGTATGTATA
1 ATATA-GTATGTATA
42443 ACTAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (15 bp):
ATATAGTATGTATAT
Found at i:42647 original size:2 final size:2
Alignment explanation
Indices: 42607--42638 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
42597 ATTTATAAAC
42607 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
42639 AACTATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:42664 original size:35 final size:36
Alignment explanation
Indices: 42591--42672 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 36
42581 ATAAACCATG
* * *
42591 TATAGTATTTATAAACTATATATATATATATATATA
1 TATAGTATATATAAACTATATAAATAAATATATATA
*
42627 TATA-TATATATAAACTATATAAAGTAAAT-TATTTA
1 TATAGTATATATAAACTATATAAA-TAAATATATATA
*
42662 TATAGTTTATA
1 TATAGTATATA
42673 GAAATACTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
35 26 0.67
36 13 0.33
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (36 bp):
TATAGTATATATAAACTATATAAATAAATATATATA
Found at i:42664 original size:49 final size:49
Alignment explanation
Indices: 42602--42724 Score: 128
Period size: 49 Copynumber: 2.5 Consensus size: 49
42592 ATAGTATTTA
* * *
42602 TAAACTATATATATA-TATATATATATATA-TATATATAAACTATATAAAG
1 TAAACTATATATATAGT-T-TATAGAAATACTATACATAAACTATATAAAG
* * *
42651 TAAATTATTTATATAGTTTATAGAAATACTATGCATAAACTATATAAAG
1 TAAACTATATATATAGTTTATAGAAATACTATACATAAACTATATAAAG
*
42700 T-AA-TAAAATATATAGTTTATAGAAA
1 TAAACT-ATATATATAGTTTATAGAAA
42725 CCCTAAACTT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
47 1 0.02
48 28 0.44
49 33 0.52
50 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (49 bp):
TAAACTATATATATAGTTTATAGAAATACTATACATAAACTATATAAAG
Found at i:42732 original size:7 final size:7
Alignment explanation
Indices: 42722--42779 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
42712 TAGTTTATAG
42722 AAACCCT
1 AAACCCT
**
42729 AAACTTT
1 AAACCCT
42736 AAACCCT
1 AAACCCT
42743 AAACCCT
1 AAACCCT
**
42750 AAACATT
1 AAACCCT
*
42757 AAATCCT
1 AAACCCT
*
42764 AAACCAT
1 AAACCCT
42771 AAACCCT
1 AAACCCT
42778 AA
1 AA
42780 TGTAAATGGA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:42739 original size:49 final size:49
Alignment explanation
Indices: 42636--42732 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 49
42626 ATATATATAT
* ** * **
42636 ATAAACTATATAAAGTAAATTATTTATATAGTTTATAGAAATACTATGC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
*
42685 ATAAACTATATAAAGT-AATAAAATATATAGTTTATAGAAACCCTAAAC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
42733 TTTAAACCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 25 0.61
49 16 0.39
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
Found at i:42746 original size:21 final size:21
Alignment explanation
Indices: 42722--42774 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
42712 TAGTTTATAG
*
42722 AAACCCTAAACTTTAAACCCT
1 AAACCCTAAACATTAAACCCT
*
42743 AAACCCTAAACATTAAATCCT
1 AAACCCTAAACATTAAACCCT
*
42764 AAACCATAAAC
1 AAACCCTAAAC
42775 CCTAATGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCCTAAACATTAAACCCT
Found at i:43169 original size:2 final size:2
Alignment explanation
Indices: 43123--43161 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
43113 ATAAACCATG
43123 TA TA GTA 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
43162 ACTATATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:43273 original size:21 final size:21
Alignment explanation
Indices: 43244--43294 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
43234 TAATTTATAA
**
43244 AAACCCTAAACTTTAAACCAT
1 AAACCCTAAACAATAAACCAT
*
43265 AAACACTAAACAATAAACCAT
1 AAACCCTAAACAATAAACCAT
43286 AAACCCTAA
1 AAACCCTAA
43295 TGTAAATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (21 bp):
AAACCCTAAACAATAAACCAT
Found at i:43567 original size:20 final size:20
Alignment explanation
Indices: 43553--43776 Score: 76
Period size: 20 Copynumber: 11.3 Consensus size: 20
43543 GTATAGTTTA
* *
43553 TATATAATTTATATATAAAC
1 TATATAGTTTATATATAATC
* * *
43573 TATGTAGTTTCTATATAGT-
1 TATATAGTTTATATATAATC
* *
43592 TCA-ATAGTTCATATATAAAC
1 T-ATATAGTTTATATATAATC
43612 TATATAG--TATATAGT--T-
1 TATATAGTTTATATA-TAATC
* * *
43628 TATACA-TTGTATATATAGTT
1 TATATAGTT-TATATATAATC
* * *
43648 TATACA-TAATATATATAATG
1 TATATAGT-TTATATATAATC
*
43668 T--ATAGTTTATATATAATA
1 TATATAGTTTATATATAATC
* * * *
43686 TATAATAATATAAATATAAAC
1 TAT-ATAGTTTATATATAATC
*
43707 TATATAGTTTTTATATGTAATAC
1 TATATAG--TTTATATATAAT-C
* *
43730 -ATATACTTTATATATAAAC
1 TATATAGTTTATATATAATC
*
43749 TATATAGTTTATATTATATATA
1 TATATAGTTTATA-TATA-ATC
43771 TATATA
1 TATATA
43777 TTATAGTTGT
Statistics
Matches: 148, Mismatches: 35, Indels: 40
0.66 0.16 0.18
Matches are distributed among these distances:
16 5 0.03
17 1 0.01
18 24 0.16
19 17 0.11
20 61 0.41
21 19 0.13
22 20 0.14
23 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (20 bp):
TATATAGTTTATATATAATC
Found at i:43642 original size:2 final size:2
Alignment explanation
Indices: 43637--43781 Score: 54
Period size: 2 Copynumber: 73.0 Consensus size: 2
43627 TTATACATTG
* * * *
43637 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA -A TG TA TA GTT TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
43679 TA TA -A TA TA TA -A TA -A TA TA AA TA TA AA CTA TA TA GTT TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * * * *
43720 TA TG TA -A TA CA TA TA CTT TA TA TA TA AA CTA TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA
43762 T- TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
43782 GTTGTTTTAA
Statistics
Matches: 104, Mismatches: 24, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
1 8 0.08
2 89 0.86
3 7 0.07
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:43671 original size:27 final size:28
Alignment explanation
Indices: 43641--43694 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
43631 ACATTGTATA
43641 TATAGTTTATACATAATATAT-ATAATG
1 TATAGTTTATACATAATATATAATAATG
*
43668 TATAGTTTATATATAATATATAATAAT
1 TATAGTTTATACATAATATATAATAAT
43695 ATAAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (28 bp):
TATAGTTTATACATAATATATAATAATG
Found at i:44218 original size:209 final size:209
Alignment explanation
Indices: 43849--44549 Score: 1188
Period size: 209 Copynumber: 3.3 Consensus size: 209
43839 TATTTTTCAT
* * *
43849 ATTTGATCTCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATT
1 ATTTGACCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATT
*
43914 TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTATTTATTTCTATTTTTTAA
66 TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
*
43979 TTGGCCCATAACTTTTTTAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
131 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
44044 TTAAAATTATTTCG
196 TTAAAATTATTTCG
*
44058 ATTTGACCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTGCAATT
1 ATTTGACCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATT
44123 TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
66 TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
*
44188 TTGGCCCATAACTTTTTAAATGGGTATAATTTATTACTTTTTTGTATTAATTTCAACCTCACAAT
131 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
44253 TTAAAATTATTTCG
196 TTAAAATTATTTCG
* *
44267 ATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATT
1 ATTTGACCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATT
* * * *
44332 TAGTCCTCCAAATTATATTTGCATCTGAAATTGAGCCATACTTATTACTTATTTATATTTTTTAA
66 TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
44397 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
131 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
* *
44462 TTAAAATTGTTTCA
196 TTAAAATTATTTCG
44476 ATTTGATCCCTCATTAATGTGTGTTGTTTAATTTATTTAAATTTTGT-TTTGTAATTTCATATTT
1 ATTTGA-CCC-C--T--T-TGTGTTGTTTAATTTATTTAAATTTT-TATTTGTAATTTCATATTT
44540 GTTCAATTTA
58 GTTCAATTTA
44550 ATTCTTAAAT
Statistics
Matches: 465, Mismatches: 19, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
209 407 0.88
210 2 0.00
211 1 0.00
213 1 0.00
215 1 0.00
216 52 0.11
217 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.52
Consensus pattern (209 bp):
ATTTGACCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATT
TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
TTAAAATTATTTCG
Found at i:55172 original size:36 final size:36
Alignment explanation
Indices: 55083--55156 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
55073 TTGGAGGACT
*
55083 AAATTCAATGAAAATTAAATATAGAGGCTTAATTGA
1 AAATTGAATGAAAATTAAATATAGAGGCTTAATTGA
55119 AAATTGAATGAAAATTAAATATAGAGGCTTAATTGA
1 AAATTGAATGAAAATTAAATATAGAGGCTTAATTGA
55155 AA
1 AA
55157 TATTTTCTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (36 bp):
AAATTGAATGAAAATTAAATATAGAGGCTTAATTGA
Found at i:56689 original size:18 final size:18
Alignment explanation
Indices: 56666--56705 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
56656 GTCATATCAC
*
56666 TCAATTTAATGAGTCGTA
1 TCAATTTAATGAGTCATA
56684 TCAATTTAATGAGTCATA
1 TCAATTTAATGAGTCATA
56702 TCAA
1 TCAA
56706 CATTTTGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
TCAATTTAATGAGTCATA
Found at i:59239 original size:21 final size:21
Alignment explanation
Indices: 59215--59254 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
59205 TTTATTTTAT
59215 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
59236 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
59255 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:59302 original size:33 final size:33
Alignment explanation
Indices: 59249--59347 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
59239 TTTGTTTCAA
59249 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
59281 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
59314 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
59347 T
1 T
59348 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:59376 original size:13 final size:13
Alignment explanation
Indices: 59333--59387 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
59323 TTGGAAGTAT
59333 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
59346 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
59360 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
59373 TTAAGTATTTGAA
1 TTAAGTATTTCAA
59386 TT
1 TT
59388 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:59609 original size:21 final size:21
Alignment explanation
Indices: 59583--59639 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
59573 TAGAGCGTGG
* *
59583 GGGAATTGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
59604 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
59625 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
59640 AAGTGTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:59844 original size:17 final size:17
Alignment explanation
Indices: 59824--59856 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59814 GTTTTTTTAT
*
59824 AACCGGTTTTTTAAAAA
1 AACCGATTTTTTAAAAA
59841 AACCGATTTTTTAAAA
1 AACCGATTTTTTAAAA
59857 CCGAAACCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (17 bp):
AACCGATTTTTTAAAAA
Found at i:59976 original size:15 final size:17
Alignment explanation
Indices: 59950--59981 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
59940 TTCTATGGGA
59950 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
59966 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
59982 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:60083 original size:16 final size:16
Alignment explanation
Indices: 60062--60092 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
60052 TTTTATATTG
60062 TTACATGAGACGAAAC
1 TTACATGAGACGAAAC
60078 TTACATGAGACGAAA
1 TTACATGAGACGAAA
60093 TGGATCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (16 bp):
TTACATGAGACGAAAC
Found at i:71750 original size:2 final size:2
Alignment explanation
Indices: 71743--71782 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
71733 TTTGTTTATG
71743 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
71783 CTATTTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72105 original size:16 final size:18
Alignment explanation
Indices: 72072--72105 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
72062 GAATATATAA
72072 GTAATTAGTACTAAATTT
1 GTAATTAGTACTAAATTT
72090 GTAATTA-TAC-AAATTT
1 GTAATTAGTACTAAATTT
72106 TATTAACTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (18 bp):
GTAATTAGTACTAAATTT
Found at i:73098 original size:31 final size:31
Alignment explanation
Indices: 73062--73120 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
73052 AACTTAAAAG
* *
73062 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
73093 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
73121 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:73192 original size:18 final size:18
Alignment explanation
Indices: 73170--73365 Score: 69
Period size: 18 Copynumber: 12.1 Consensus size: 18
73160 CCATATTTTA
73170 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
73188 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
73202 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
73220 AACT--A-CAA-T-A-AT
1 AAATAAATCAATTCATAC
* * **
73232 AAATCAATCCATGTTTTA-
1 AAATAAATCAAT-TCATAC
* *
73250 AAATAAATGAATCCATAC
1 AAATAAATCAATTCATAC
*
73268 AAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
*
73282 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
* *
73300 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
73314 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
73332 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
*
73346 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
73364 AA
1 AA
73366 CTACAATAAT
Statistics
Matches: 125, Mismatches: 29, Indels: 48
0.62 0.14 0.24
Matches are distributed among these distances:
12 4 0.03
13 1 0.01
14 31 0.25
15 23 0.18
16 1 0.01
17 21 0.17
18 43 0.34
19 1 0.01
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (18 bp):
AAATAAATCAATTCATAC
Found at i:73195 original size:22 final size:21
Alignment explanation
Indices: 73147--73195 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
73137 ATAAATTATT
**
73147 TAAATAAATCAATCCATATTT
1 TAAATAAATCAATCCATATAA
*
73168 TAAAATAAATCAATTCATACTAA
1 T-AAATAAATCAATCCATA-TAA
73191 TAAAT
1 TAAAT
73196 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.87
23 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAATAAATCAATCCATATAA
Found at i:73238 original size:80 final size:80
Alignment explanation
Indices: 73147--73874 Score: 701
Period size: 80 Copynumber: 8.9 Consensus size: 80
73137 ATAAATTATT
73147 TAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
1 TAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
* *
73212 ATTCATACAACTACAA
66 ATCCATACAA-TAAAA
* * * *
73228 T-AATAAATCAATCCATGTTTTAAAATAAATGAATCCATACAAATAAATTATTTAAAATAAATCA
1 TAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
73292 ATCCATACTAATAAATTA
66 ATCCATAC-AATAAA--A
* *
73310 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A
1 --T-AAATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATTCATACTAA-TAAATTA
***
73372 --T--AATAAATCAATCCATATTTTAAAA
52 TTTAAAATAAATCAATCCATACAATAAAA
* ** *
73397 TAAATCAATTGATACTAATAAATTATTAAAATAAATCAA-TC---C--AT--A-T-TTTAAAATA
1 TAAATAAATCAAT-C-CAT--ATT-TTAAAATAAATCAATTCATACTAATAAATTATTTAAAATA
73452 AATCAATCCATACTAATAAATTA
61 AATCAATCCATAC-AATAAA--A
*
73475 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 --T-AAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
*
73540 TCAATCCATACAACTACAA
63 TCAATCCATACAA-TAAAA
73559 T-AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
1 TAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
* *
73623 ATTCATACAAATACAA
66 ATCCATAC-AATAAAA
* *
73639 T-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACCAATAAATTATTTAAAATAAATCA
1 TAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
*
73703 ATTCATACTAATAAATTA
66 ATCCATAC-AATAAA--A
* *
73721 TTTAAAATAAATCAATCTATATTTTAAAACAAATCAATAT-ATACTAATAAATTATTTAAAATAA
1 --T-AAATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAAAATAA
* *
73785 ATCAATTCATACAACTACAA
62 ATCAATCCATACAA-TAAAA
*
73805 T-AATAAATCAATCCATATTTTAAAAT-AATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 TAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
73868 ATCCATA
66 ATCCATA
73875 TTTAAAATAA
Statistics
Matches: 553, Mismatches: 42, Indels: 106
0.79 0.06 0.15
Matches are distributed among these distances:
71 1 0.00
73 2 0.00
74 1 0.00
75 17 0.03
76 18 0.03
77 4 0.01
78 3 0.01
79 58 0.10
80 249 0.45
81 14 0.03
82 6 0.01
83 1 0.00
84 14 0.03
85 6 0.01
86 104 0.19
87 3 0.01
89 4 0.01
90 17 0.03
92 3 0.01
94 1 0.00
95 3 0.01
96 24 0.04
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
TAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
ATCCATACAATAAAA
Found at i:73285 original size:14 final size:14
Alignment explanation
Indices: 73268--73353 Score: 55
Period size: 14 Copynumber: 5.6 Consensus size: 14
73258 GAATCCATAC
73268 AAATAAATTATTTA
1 AAATAAATTATTTA
* *
73282 AAATAAATCAATCCATA
1 AAATAAAT-TAT--TTA
*
73299 CTAATAAATTATTTA
1 -AAATAAATTATTTA
*
73314 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
73331 CTAATAAATTATTTA
1 -AAATAAATTATTTA
73346 AAATAAAT
1 AAATAAAT
73354 CAATCCATAC
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
14 22 0.41
15 9 0.17
17 9 0.17
18 14 0.26
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:73287 original size:32 final size:32
Alignment explanation
Indices: 73246--73874 Score: 334
Period size: 32 Copynumber: 22.7 Consensus size: 32
73236 CAATCCATGT
*
73246 TTTAAAATAAATGAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
73278 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
73310 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
73342 TTTAAAATAAATCAATCCATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
73372 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
** *
73390 TTTAAAATAAATCAATTGATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
73422 -TTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
73443 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
73475 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
73497 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
73529 TTTAAAATAAATCAATCCATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
73559 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
73577 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
73609 TTTAAAATAAATCAATTCATACAAATACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
73639 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
73657 TTTAAAATAAATCAATCCATACCAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
73689 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
73721 TTTAAAATAAATCAAT-C-T----AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* ** *
73743 TTTAAAACAAATCAATATATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* * *
73775 TTTAAAATAAATCAATTCATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
73805 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
73823 TTTAAAAT-AATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
73854 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
73875 TTTAAAATAA
Statistics
Matches: 478, Mismatches: 31, Indels: 176
0.70 0.05 0.26
Matches are distributed among these distances:
20 4 0.01
21 11 0.02
22 97 0.20
23 5 0.01
24 3 0.01
25 4 0.01
26 70 0.15
27 1 0.00
28 11 0.02
30 8 0.02
31 28 0.06
32 236 0.49
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:73447 original size:22 final size:22
Alignment explanation
Indices: 73422--73463 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
73412 TAATAAATTA
73422 TTAAAATAAATCAATCCATATT
1 TTAAAATAAATCAATCCATATT
73444 TTAAAATAAATCAATCCATA
1 TTAAAATAAATCAATCCATA
73464 CTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAAATAAATCAATCCATATT
Found at i:73472 original size:22 final size:22
Alignment explanation
Indices: 73423--73471 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
73413 AATAAATTAT
**
73423 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
73445 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
73468 TAAA
1 TAAA
73472 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:73501 original size:22 final size:22
Alignment explanation
Indices: 73475--73517 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
73465 TAATAAATTA
73475 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
73497 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
73518 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:73504 original size:54 final size:54
Alignment explanation
Indices: 73373--73917 Score: 447
Period size: 54 Copynumber: 10.1 Consensus size: 54
73363 CAACTACAAT
**
73373 AATAAATCAATCCATATTTTAAAATAAATCAATTGATACTAATAAATTA-TTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
73426 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
73480 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** * * * *
73534 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCAT
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--CT--AATAAAT-TATTTAA
* * * * *
73597 ACT-AATAAAT---TA-TTTAAAATAAATCAATTCATACAAATACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
73640 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACCAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** ** *
73694 AATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATA-TTTTAAAACAAAT-C
1 AATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** * *
73756 AATATATACTAATAAAT-TATTTAAAATAAATCAATTCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
73806 AATAAATCAATCCATATTTTAAAAT-AATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
73859 AATAAATCAATCCATA-TTTAAAAT-AATCAATCCATACTAATAAATTATTTTA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
73911 AATAAAT
1 AATAAAT
73918 TATTTTAAAA
Statistics
Matches: 403, Mismatches: 46, Indels: 87
0.75 0.09 0.16
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
47 18 0.04
48 41 0.10
49 3 0.01
50 12 0.03
51 2 0.00
52 43 0.11
53 64 0.16
54 119 0.30
55 8 0.02
56 1 0.00
57 4 0.01
58 19 0.05
59 1 0.00
60 3 0.01
62 20 0.05
63 15 0.04
64 22 0.05
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:73526 original size:22 final size:22
Alignment explanation
Indices: 73477--73525 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
73467 ATAAATTATT
**
73477 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
73499 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
73522 TAAA
1 TAAA
73526 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:73603 original size:18 final size:18
Alignment explanation
Indices: 73581--73718 Score: 65
Period size: 18 Copynumber: 8.4 Consensus size: 18
73571 CCATATTTTA
73581 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
73599 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
73613 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
*
73631 AAAT--A-CAA-T-A-AT
1 AAATAAATCAATTCATAC
* *
73643 AAATCAATCCATATT-TTA-
1 AAATAAAT-CA-ATTCATAC
*
73661 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
* *
73679 CAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
73693 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
*
73711 TAATAAAT
1 AAATAAAT
73719 TATTTAAAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 34
0.64 0.11 0.25
Matches are distributed among these distances:
12 5 0.06
13 1 0.01
14 16 0.18
15 13 0.15
16 5 0.06
17 14 0.16
18 33 0.38
19 1 0.01
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATCAATTCATAC
Found at i:73686 original size:22 final size:21
Alignment explanation
Indices: 73633--73686 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
73623 ATTCATACAA
73633 ATACAAT-AATAAATCAATCC
1 ATACAATAAATAAATCAATCC
***
73653 ATATTTTAAAATAAATCAATCC
1 ATACAAT-AAATAAATCAATCC
73675 ATACCAATAAAT
1 ATA-CAATAAAT
73687 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
20 4 0.16
22 20 0.80
23 1 0.04
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.30
Consensus pattern (21 bp):
ATACAATAAATAAATCAATCC
Found at i:73699 original size:14 final size:14
Alignment explanation
Indices: 73680--73732 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
73670 AATCCATACC
73680 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
73694 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
73712 AATAAATTATTTAA
1 AATAAATTATTTAA
73726 AATAAAT
1 AATAAAT
73733 CAATCTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:73747 original size:22 final size:22
Alignment explanation
Indices: 73721--73763 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
73711 TAATAAATTA
* *
73721 TTTAAAATAAATCAATCTATAT
1 TTTAAAACAAATCAATATATAT
73743 TTTAAAACAAATCAATATATA
1 TTTAAAACAAATCAATATATA
73764 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAACAAATCAATATATAT
Found at i:73851 original size:21 final size:21
Alignment explanation
Indices: 73810--73850 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
73800 TACAATAATA
**
73810 AATCAATCCATATTTTAAAAT
1 AATCAATCCATATAATAAAAT
73831 AATCAATCCATACTAATAAA
1 AATCAATCCATA-TAATAAA
73851 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (21 bp):
AATCAATCCATATAATAAAAT
Found at i:73878 original size:21 final size:20
Alignment explanation
Indices: 73852--73894 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
73842 ACTAATAAAT
73852 TATTTAAAATAAATCAATCCA
1 TATTTAAAAT-AATCAATCCA
73873 TATTTAAAATAATCAATCCA
1 TATTTAAAATAATCAATCCA
73893 TA
1 TA
73895 CTAATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (20 bp):
TATTTAAAATAATCAATCCA
Found at i:73885 original size:52 final size:53
Alignment explanation
Indices: 73806--73917 Score: 208
Period size: 52 Copynumber: 2.1 Consensus size: 53
73796 CAACTACAAT
73806 AATAAATCAATCCATATTTTAAAATAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAATCAATCCATACTAATAAATTATTTAA
*
73859 AATAAATCAATCCATA-TTTAAAATAATCAATCCATACTAATAAATTATTTTA
1 AATAAATCAATCCATATTTTAAAATAATCAATCCATACTAATAAATTATTTAA
73911 AATAAAT
1 AATAAAT
73918 TATTTTAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 42 0.72
53 16 0.28
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (53 bp):
AATAAATCAATCCATATTTTAAAATAATCAATCCATACTAATAAATTATTTAA
Found at i:73930 original size:15 final size:15
Alignment explanation
Indices: 73897--74029 Score: 151
Period size: 15 Copynumber: 8.5 Consensus size: 15
73887 AATCCATACT
73897 AATAAATTATTTT-A
1 AATAAATTATTTTAA
73911 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
73926 AATAAATCAATACATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
73948 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
73963 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
73978 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
73993 AATAATTTATTTTAA
1 AATAAATTATTTTAA
74008 AATAAATTATTTTAA
1 AATAAATTATTTTAA
74023 AATAAAT
1 AATAAAT
74030 AACCTTATTA
Statistics
Matches: 103, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
14 13 0.13
15 73 0.71
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.10
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:73981 original size:67 final size:67
Alignment explanation
Indices: 73845--73997 Score: 186
Period size: 67 Copynumber: 2.3 Consensus size: 67
73835 AATCCATACT
* *
73845 AATAAATTA-TTTAAAATAAATCAATCCATATTTAAAATAATCAATCCATACTAATAAATTATTT
1 AATAAATTATTTTAAAATAAATCAATACATATTTAAAATAATCAATCCATACAAATAAATTATTT
73909 TA
66 TA
* ** ** *
73911 AATAAATTATTTTAAAATAAATCAATACATATTTTATAATAATTTAT-TTTA-AAATAATTTATT
1 AATAAATTATTTTAAAATAAATCAATACATA-TTTAAAATAATCAATCCATACAAATAAATTATT
73974 TTAA
65 TT-A
*
73978 AATAAATTATTTTATAATAA
1 AATAAATTATTTTAAAATAA
73998 TTTATTTTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
66 21 0.28
67 42 0.56
68 12 0.16
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATACATATTTAAAATAATCAATCCATACAAATAAATTATTT
TA
Found at i:74004 original size:45 final size:45
Alignment explanation
Indices: 73940--74029 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
73930 AATCAATACA
*
73940 TATTTTATAATAATTTATTTTAAAATAATTTATTTTAAAATAAAT
1 TATTTTATAATAATTTATTTTAAAATAAATTATTTTAAAATAAAT
73985 TATTTTATAATAATTTATTTTAAAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAATTTATTTTAAAATAAATTATTTTAAAATAAAT
74030 AACCTTATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (45 bp):
TATTTTATAATAATTTATTTTAAAATAAATTATTTTAAAATAAAT
Found at i:75842 original size:20 final size:21
Alignment explanation
Indices: 75819--75867 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
75809 CTTTACATTA
75819 TATTTTTATTGA-A-TTTTATT
1 TATTTTTATT-ACATTTTTATT
75839 TATTTTTATTACATTTTTATT
1 TATTTTTATTACATTTTTATT
75860 TATTTTTA
1 TATTTTTA
75868 AAAAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.04
20 11 0.41
21 15 0.56
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TATTTTTATTACATTTTTATT
Found at i:75864 original size:10 final size:10
Alignment explanation
Indices: 75819--75867 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
75809 CTTTACATTA
75819 TATTTTTATT
1 TATTTTTATT
* *
75829 GAATTTTATT
1 TATTTTTATT
75839 TATTTTTATT
1 TATTTTTATT
*
75849 ACATTTTTATT
1 -TATTTTTATT
75860 TATTTTTA
1 TATTTTTA
75868 AAAAAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
TATTTTTATT
Found at i:76911 original size:31 final size:27
Alignment explanation
Indices: 76857--76917 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 27
76847 TTTATCATTA
*
76857 ATTTATTATTTAATTTTTATTTTAATC
1 ATTTATTATTTAATTTATATTTTAATC
76884 ATTTATTATTATAATTATAATACTTTTAATC
1 ATTTATTATT-TAATT-T-ATA-TTTTAATC
76915 ATT
1 ATT
76918 AAAACGTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 10 0.34
28 5 0.17
29 1 0.03
30 2 0.07
31 11 0.38
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (27 bp):
ATTTATTATTTAATTTATATTTTAATC
Found at i:77135 original size:62 final size:62
Alignment explanation
Indices: 77038--77161 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
77028 ACTTCCGTGA
77038 AAGACATCTGGCAATCAAAAAATTAAAAATAAAGATAAAATGCAATGCATGTATATATAAAT
1 AAGACATCTGGCAATCAAAAAATTAAAAATAAAGATAAAATGCAATGCATGTATATATAAAT
* *
77100 AAGACATCTGGCAATCATAAAATTAAAAATAAAGATAAAATGTAATGCATGTATATATAAAT
1 AAGACATCTGGCAATCAAAAAATTAAAAATAAAGATAAAATGCAATGCATGTATATATAAAT
77162 GCATAGTTGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (62 bp):
AAGACATCTGGCAATCAAAAAATTAAAAATAAAGATAAAATGCAATGCATGTATATATAAAT
Found at i:77659 original size:6 final size:6
Alignment explanation
Indices: 77648--77678 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
77638 CTGTACTGTT
77648 ATCTCC ATCTCC ATCTCC ATCTCC ATCTCC A
1 ATCTCC ATCTCC ATCTCC ATCTCC ATCTCC A
77679 ATTGCCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.32
Consensus pattern (6 bp):
ATCTCC
Found at i:81931 original size:618 final size:610
Alignment explanation
Indices: 80763--81994 Score: 2383
Period size: 618 Copynumber: 2.0 Consensus size: 610
80753 TTGGATGAGA
80763 TAAGACTTAGAATGCAATTTAACTACCGACTACTACTAACATACAGCAATTAACAATAAATAAAC
1 TAAGACTTAGAATGCAATTTAACTACCGACTACTACTAACATACAGCAATTAACAATAAATAAAC
80828 TACTAGTCTTTACACTATTCCAATCTACATATAACCATAAAAAAGTAAACAAAAATCTCTCAGTT
66 TACTAGTCTTTACACTATTCCAATCTACATATAACCATAAAAAAGTAAACAAAAATCTCTCAGTT
80893 AAACATCAATCACACTTATACTTGATGAAGCATATTCATTATTGCCATATCAACTATCAACTAGA
131 AAACATCAATCACACTTATACTTGATGAAGCATATTCATTATTGCCATATCAACTATCAACTAGA
80958 CCTATATCTTCACCCATATTGTTGTCATAATGTCCTGGAATTTTTTTTAAGTTCTAAACCAAAAA
196 CCTATATCTTCACCCATATTGTTGTCATAATGTCCTGGAATTTTTTTTAAGTTCTAAACCAAAAA
81023 GCACGCAATTAGGGGTGTAGCAACTTGCTGGTAAAATCAAATATCACGACGGTTATATTTATTAA
261 GCACGCAATTAGGGGTGTAGCAACTTGCTGGTAAAATCAAATATCACGACGGTTATATTTATTAA
81088 AATAATTAAGGACATAACAGGAACTCATGAATGGCCTAAGAAAAATTAAGTTCCAAAAATGAAGA
326 AATAATTAAGGACATAACAGGAACTCATGAATGGCCTAAGAAAAATTAAGTTCCAAAAATGAAGA
81153 GAATATACAAAGTGTAGATGAATATTTATCTTTAAAAAAAAGGAGAAAGCAGAAGAAAACATTTT
391 GAATATACAAAGTGTAGATGAATATTTATCTTTAAAAAAAAGGAGAAAGCAGAAGAAAACATTTT
81218 GAAATTAGCCATAATGGTAAAGTAAAAAATTAGAATAACAATTAAAAACAAGTGTAAGACTATTA
456 GAAATTAGCCATAATGGTAAAGTAAAAAATTAGAATAACAATTAAAAACAAGTGTAAGACTATTA
81283 GTAAGAGATAATAACAGTGTAAGTTTGGGAAGAAATGAGAACCCATTATCTTATGAAACTCCTCA
521 GTAAGAGATAATAACAGTGTAAGTTTGGGAAGAAATGAGAACCCATTATCTTATGAAACTCCTCA
81348 GTTCCAAGCTAAGAACAAGAATAGT
586 GTTCCAAGCTAAGAACAAGAATAGT
*
81373 TAAGACTTAGAATGCAATTTAACTACTGACTACTACTAACATACAGCAATTAACAATAAATAAAC
1 TAAGACTTAGAATGCAATTTAACTACCGACTACTACTAACATACAGCAATTAACAATAAATAAAC
81438 TACTAGTCTTTACACTATTCCAATCTACATATAACCATAAAAAAAGGTAAACAAAAATCTCTCAG
66 TACTAGTCTTTACACTATTCCAATCTACATATAACCAT-AAAAAA-GTAAACAAAAATCTCTCAG
81503 TTAAACATCAATCACACTTATAACTTGATGAAGCATATTCATTATTGCCATATCAACTATCAACT
129 TTAAACATCAATCACACTTAT-ACTTGATGAAGCATATTCATTATTGCCATATCAACTATCAACT
81568 AGACCTATATATCTTCACCCATATTGTTGTCATAATGTCCTGGAATTTTTTTTAAGTTCTAAACC
193 AGACC--TATATCTTCACCCATATTGTTGTCATAATGTCCTGGAATTTTTTTTAAGTTCTAAACC
81633 AAAAAGCAACGCAATTAGGGGTGTAGCAACTTGCTGGTAAAATCAAATATCACGACGGTTATTAT
256 AAAAAGC-ACGCAATTAGGGGTGTAGCAACTTGCTGGTAAAATCAAATATCACGACGGTTA-TAT
81698 TTATTAAAATAAATTAAGGACATAACAGGAACTCATGAATGGCCTAAGAAAAATTAAGTTCCAAA
319 TTATTAAAAT-AATTAAGGACATAACAGGAACTCATGAATGGCCTAAGAAAAATTAAGTTCCAAA
81763 AATGAAGAGAATATACAAAGTGTAGATGAATATTTATCTTTAAAAAAAAGGAGAAAGCAGAAGAA
383 AATGAAGAGAATATACAAAGTGTAGATGAATATTTATCTTTAAAAAAAAGGAGAAAGCAGAAGAA
81828 AACATTTTGAAATTAGCCATAATGGTAAAGTAAAAAATTAGAATAACAATTAAAAACAAGTGTAA
448 AACATTTTGAAATTAGCCATAATGGTAAAGTAAAAAATTAGAATAACAATTAAAAACAAGTGTAA
81893 GACTATTAGTAAGAGATAATAACAGTGTAAGTTTGGGAAGAAATGAGAACCCATTATCTTATGAA
513 GACTATTAGTAAGAGATAATAACAGTGTAAGTTTGGGAAGAAATGAGAACCCATTATCTTATGAA
81958 ACTCCTCAGTTCCAAGCTAAGAACAAGAATAGT
578 ACTCCTCAGTTCCAAGCTAAGAACAAGAATAGT
81991 TAAG
1 TAAG
81995 CAGCAAGGGC
Statistics
Matches: 613, Mismatches: 1, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
610 102 0.17
611 6 0.01
612 40 0.07
613 48 0.08
615 65 0.11
616 53 0.09
617 13 0.02
618 286 0.47
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (610 bp):
TAAGACTTAGAATGCAATTTAACTACCGACTACTACTAACATACAGCAATTAACAATAAATAAAC
TACTAGTCTTTACACTATTCCAATCTACATATAACCATAAAAAAGTAAACAAAAATCTCTCAGTT
AAACATCAATCACACTTATACTTGATGAAGCATATTCATTATTGCCATATCAACTATCAACTAGA
CCTATATCTTCACCCATATTGTTGTCATAATGTCCTGGAATTTTTTTTAAGTTCTAAACCAAAAA
GCACGCAATTAGGGGTGTAGCAACTTGCTGGTAAAATCAAATATCACGACGGTTATATTTATTAA
AATAATTAAGGACATAACAGGAACTCATGAATGGCCTAAGAAAAATTAAGTTCCAAAAATGAAGA
GAATATACAAAGTGTAGATGAATATTTATCTTTAAAAAAAAGGAGAAAGCAGAAGAAAACATTTT
GAAATTAGCCATAATGGTAAAGTAAAAAATTAGAATAACAATTAAAAACAAGTGTAAGACTATTA
GTAAGAGATAATAACAGTGTAAGTTTGGGAAGAAATGAGAACCCATTATCTTATGAAACTCCTCA
GTTCCAAGCTAAGAACAAGAATAGT
Found at i:82483 original size:21 final size:22
Alignment explanation
Indices: 82441--82487 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
82431 AATTTTTTTT
**
82441 AAATCAACAATTTTTTATAAAA
1 AAATCAACAATTTTAGATAAAA
*
82463 AAATCAACACTTTTAGA-AAAA
1 AAATCAACAATTTTAGATAAAA
82484 AAAT
1 AAAT
82488 TCAGGAGTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (22 bp):
AAATCAACAATTTTAGATAAAA
Found at i:86028 original size:188 final size:190
Alignment explanation
Indices: 85710--86090 Score: 748
Period size: 189 Copynumber: 2.0 Consensus size: 190
85700 GTTTGCAACC
85710 GGTGGAAATAATCCATTGAGGCATATTTATTTGTTATAATTTATTGCCTATCAAAATGTTATGTT
1 GGTGGAAATAATCCATTGAGGCATATTTATTTGTTATAATTTATTGCCTATCAAAATGTTATGTT
85775 TTGCCTTTGTTTCATAAAATACAGTGATCACAAGCCAACTTTTGATGAAAAGTTGAGCAAAGTG-
66 TTGCCTTTGTTTCATAAAATACAGTGATCACAAGCCAACTTTTGATGAAAAGTTGAGCAAAGTGA
85839 AACTTTGGTGCTACAGAACAAGGCATCAAAATTAATACACATAATTGTGTTTTTGTTCCG
131 AACTTTGGTGCTACAGAACAAGGCATCAAAATTAATACACATAATTGTGTTTTTGTTCCG
85899 GGTGGAAATAATCCATTGAGGCATATTTATTTGTTATAA-TTATTGCCTATCAAAATGTTATGTT
1 GGTGGAAATAATCCATTGAGGCATATTTATTTGTTATAATTTATTGCCTATCAAAATGTTATGTT
85963 TTGCCTTTGTTTCATAAAATACAGTGATCACAAGCCAACTTTTGATGAAAAGTTGAGCAAAGTGA
66 TTGCCTTTGTTTCATAAAATACAGTGATCACAAGCCAACTTTTGATGAAAAGTTGAGCAAAGTGA
86028 AACTTTGGTGCTACAGAACAAGGCATCAAAATTAATACACATAATTGTGTTTTTGTTCCG
131 AACTTTGGTGCTACAGAACAAGGCATCAAAATTAATACACATAATTGTGTTTTTGTTCCG
86088 GGT
1 GGT
86091 TTTATTAAAT
Statistics
Matches: 191, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
188 89 0.47
189 102 0.53
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (190 bp):
GGTGGAAATAATCCATTGAGGCATATTTATTTGTTATAATTTATTGCCTATCAAAATGTTATGTT
TTGCCTTTGTTTCATAAAATACAGTGATCACAAGCCAACTTTTGATGAAAAGTTGAGCAAAGTGA
AACTTTGGTGCTACAGAACAAGGCATCAAAATTAATACACATAATTGTGTTTTTGTTCCG
Found at i:89160 original size:2 final size:2
Alignment explanation
Indices: 89153--89185 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
89143 GGGAAACGAA
89153 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 A
89186 AGGAAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93452 original size:15 final size:15
Alignment explanation
Indices: 93432--93461 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93422 GGTTCAAGGA
93432 TTGTGGGATTCCCAT
1 TTGTGGGATTCCCAT
93447 TTGTGGGATTCCCAT
1 TTGTGGGATTCCCAT
93462 GGGATAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (15 bp):
TTGTGGGATTCCCAT
Found at i:96133 original size:20 final size:20
Alignment explanation
Indices: 96108--96155 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
96098 GTCAGAGTGT
*
96108 GGCGGCGGACGGCTGACGGC
1 GGCGGCGGACGGCGGACGGC
* *
96128 GGCGGCAGACGGCGGGCGGC
1 GGCGGCGGACGGCGGACGGC
*
96148 GGCAGCGG
1 GGCGGCGG
96156 CCAGCAGGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.10, C:0.29, G:0.58, T:0.02
Consensus pattern (20 bp):
GGCGGCGGACGGCGGACGGC
Found at i:96145 original size:17 final size:16
Alignment explanation
Indices: 96125--96156 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
96115 GACGGCTGAC
96125 GGCGGCGGCAGACGGCG
1 GGCGGCGGCAG-CGGCG
96142 GGCGGCGGCAGCGGC
1 GGCGGCGGCAGCGGC
96157 CAGCAGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.31, G:0.59, T:0.00
Consensus pattern (16 bp):
GGCGGCGGCAGCGGCG
Found at i:96368 original size:37 final size:37
Alignment explanation
Indices: 96292--96368 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
96282 TTTTTATATT
*
96292 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
96329 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
96366 TTT
1 TTT
96369 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:101323 original size:43 final size:43
Alignment explanation
Indices: 101269--101574 Score: 185
Period size: 43 Copynumber: 7.2 Consensus size: 43
101259 TGTGAAATAA
* *
101269 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCATTTTTAAAAC
1 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCGTTTTTTAAAC
** * * *
101312 AAACGTAGCAAAAGGT-TAGATCTATAGCGGCGTTTTTTGAAC
1 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCGTTTTTTAAAC
* * *
101354 AAACGCCGCCAAAAGGTCAA-ATCTATAGCAGCGTTTTTGTATAC
1 AAACGCCG-CAAAAAGTCAAGATCTATAGCGGCGTTTTT-TAAAC
* * * **
101398 AAACGCCGCAAAAAGTC-AGATCTGTAGCTGTGTTTTTGGAAC
1 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCGTTTTTTAAAC
** * * ** * *
101440 AAATACCGCAAAATA-TC-AGGTCTATAGCAGTATTTTTGGATAC
1 AAACGCCGCAAAA-AGTCAAGATCTATAGCGGCGTTTTT-TAAAC
* * * * * *
101483 AAACGTCGCAAAAGGT-TAGATCTGTAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCGTTTTT-TAAAC
* * * * * * **
101526 AAACGTCGTAAAAGGTC-ATATCTGTAGCAGCGTTTTTGGAAC
1 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCGTTTTTTAAAC
101568 AAACGCC
1 AAACGCC
101575 ACTAATTACC
Statistics
Matches: 211, Mismatches: 43, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
42 69 0.33
43 130 0.62
44 12 0.06
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (43 bp):
AAACGCCGCAAAAAGTCAAGATCTATAGCGGCGTTTTTTAAAC
Found at i:101434 original size:85 final size:85
Alignment explanation
Indices: 101269--101574 Score: 328
Period size: 85 Copynumber: 3.6 Consensus size: 85
101259 TGTGAAATAA
* * * * **
101269 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCATTTTT-AAAACAAACGTAGCAAAAGGTTAGAT
1 AAACGCCGCAAAAGGTCAA-ATCTATAGCAGCATTTTTGGATACAAACGCCGCAAAAGGTTAGAT
* *
101333 CTATAGCGGCGTTTTTTGAAC
65 CTGTAGCGGCGTTTTTGGAAC
* * * *
101354 AAACGCCGCCAAAAGGTCAAATCTATAGCAGCGTTTTTGTATACAAACGCCGCAAAAAGTCAGAT
1 AAACGCCG-CAAAAGGTCAAATCTATAGCAGCATTTTTGGATACAAACGCCGCAAAAGGTTAGAT
* *
101419 CTGTAGCTGTGTTTTTGGAAC
65 CTGTAGCGGCGTTTTTGGAAC
** ** ** * *
101440 AAATACCGCAAAATATCAGGTCTATAGCAGTATTTTTGGATACAAACGTCGCAAAAGGTTAGATC
1 AAACGCCGCAAAAGGTCAAATCTATAGCAGCATTTTTGGATACAAACGCCGCAAAAGGTTAGATC
101505 TGTAGCGGCGTTTTTGGATAC
66 TGTAGCGGCGTTTTTGGA-AC
* * * * *
101526 AAACGTCGTAAAAGGTCATATCTGTAGCAGCGTTTTTGGA-ACAAACGCC
1 AAACGCCGCAAAAGGTCAAATCTATAGCAGCATTTTTGGATACAAACGCC
101575 ACTAATTACC
Statistics
Matches: 179, Mismatches: 39, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
85 95 0.53
86 84 0.47
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (85 bp):
AAACGCCGCAAAAGGTCAAATCTATAGCAGCATTTTTGGATACAAACGCCGCAAAAGGTTAGATC
TGTAGCGGCGTTTTTGGAAC
Found at i:105396 original size:41 final size:41
Alignment explanation
Indices: 105322--105634 Score: 263
Period size: 41 Copynumber: 7.6 Consensus size: 41
105312 TTTAGCGGTG
*
105322 TTTGTAAAAAAACGCCACTAAA-TA-AGAGTCTATAGCGGCA
1 TTTGTATAAAAACGCCACTAAAGTACA-AGTCTATAGCGGCA
** **
105362 TTTGTATAAAAACGCCACTAAAGTACAAACCTATAGCGGTG
1 TTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCA
* * *
105403 TTTGTAAACAAAAACGCCACTAAAGTACGAGTCTATAGCGACA
1 TTTGT--ATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCA
* * * *
105446 TTTGTATAAAAACGCCACTCAAGTACCAGTCTTTTGCGGCA
1 TTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCA
* * *
105487 TCTGTATAGAAACGCCACTAAAGTACTAGT-TAATAGCGGCA
1 TTTGTATAAAAACGCCACTAAAGTACAAGTCT-ATAGCGGCA
* * *** * * * *
105528 TTTGTATAAAAATGCTACTAAAGTGGTACTCTATCGCTGCGT
1 TTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGC-A
* * * ** * * *
105570 TTTATATAAAAATGACACTAAAGTATGAGTATATAGTGGCG
1 TTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCA
*
105611 TTTGTATAAAAACGCCGCTAAAGT
1 TTTGTATAAAAACGCCACTAAAGT
105635 TATCATTTTG
Statistics
Matches: 216, Mismatches: 50, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
40 22 0.10
41 129 0.60
42 31 0.14
43 34 0.16
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (41 bp):
TTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCA
Found at i:105448 original size:84 final size:82
Alignment explanation
Indices: 105314--105634 Score: 299
Period size: 83 Copynumber: 3.9 Consensus size: 82
105304 TATGAGTTTT
*
105314 TAGCGGTGTTTGTAAAAAAACGCCACTAAA-TAAGAGTCTATAGCGGCATTTGTATAAAAACGCC
1 TAGCGGTGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCC
105378 ACTAAAGTACAAACCTA
66 ACTAAAGTACAAACCTA
*
105395 TAGCGGTGTTTGTAAACAAAAACGCCACTAAAGTACGAGTCTATAGCGACATTTGTATAAAAACG
1 TAGCGGTGTTTGT-AA-AAAAACGCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACG
* * ** *
105460 CCACTCAAGTACCAGTCTT
64 CCACTAAAGTACAAACCTA
* ** * * * * *
105479 TTGCGGCATCTGTATAGAAACGCCACTAAAGTACTAGT-TAATAGCGGCATTTGTATAAAAATGC
1 TAGCGGTGTTTGTAAAAAAACGCCACTAAAGTACGAGTCT-ATAGCGGCATTTGTATAAAAACGC
* ***
105543 TACTAAAGT-GGTACTCTA
65 CACTAAAGTACAAAC-CTA
* * * * * * * * *
105561 TCGCTGCGT-TTTATATAAAAATGACACTAAAGTATGAGTATATAGTGGCGTTTGTATAAAAACG
1 TAGC-G-GTGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACG
*
105625 CCGCTAAAGT
64 CCACTAAAGT
105635 TATCATTTTG
Statistics
Matches: 194, Mismatches: 38, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
81 14 0.07
82 57 0.29
83 68 0.35
84 55 0.28
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (82 bp):
TAGCGGTGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCC
ACTAAAGTACAAACCTA
Found at i:107854 original size:21 final size:21
Alignment explanation
Indices: 107830--107870 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
107820 AATGTTAAAA
* *
107830 AAATATTAATGTTTTAAGTAG
1 AAATAATAATATTTTAAGTAG
107851 AAATAATAATATTTTAAGTA
1 AAATAATAATATTTTAAGTA
107871 ATTTTTTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (21 bp):
AAATAATAATATTTTAAGTAG
Found at i:113909 original size:26 final size:26
Alignment explanation
Indices: 113880--113934 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 26
113870 TGAAGGGATG
113880 TACTGATAC-CTTATAGTGTGTACCGA
1 TACTGATACTC-TATAGTGTGTACCGA
113906 TACTGATACTCTATAGTGTGTACCGA
1 TACTGATACTCTATAGTGTGTACCGA
113932 TAC
1 TAC
113935 ACTTCAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (26 bp):
TACTGATACTCTATAGTGTGTACCGA
Found at i:114512 original size:15 final size:15
Alignment explanation
Indices: 114492--114521 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114482 GTGAATGATA
*
114492 TGATAAGAAGCTATG
1 TGATAAGAAGATATG
114507 TGATAAGAAGATATG
1 TGATAAGAAGATATG
114522 AGTTTATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.27, T:0.27
Consensus pattern (15 bp):
TGATAAGAAGATATG
Found at i:119393 original size:23 final size:23
Alignment explanation
Indices: 119362--119453 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
119352 CACCACAGCT
* *
119362 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
*
119385 CATAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
* *
119408 CGTAGAATTGCACCGGAGTACCG
1 CGTAGAATTGCACCGGAGTGCCA
*
119431 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
119454 TTTAATAATG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCA
Found at i:119640 original size:103 final size:103
Alignment explanation
Indices: 119469--119681 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
119459 TAATGTCCAT
* * *
119469 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCAACA
*
119534 GACTTCACACATGTTCCAAAGAATACATATATGTCTCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
119572 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCAACA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCAACA
119637 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
119675 AAGGACC
1 AAGGACC
119682 GCGTAGACCC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCAACA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:121078 original size:22 final size:21
Alignment explanation
Indices: 121053--121112 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
121043 TTCGCTTGAG
121053 GGGTATCGATTCCCCATTGAAT
1 GGGTATCGATTCCCC-TTGAAT
121075 GGGTATCGATT-CCCTTGAAT
1 GGGTATCGATTCCCCTTGAAT
* *
121095 GGGTACCGACTCCCCTTG
1 GGGTATCGATTCCCCTTG
121113 CCCAGAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 15 0.43
21 9 0.26
22 11 0.31
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (21 bp):
GGGTATCGATTCCCCTTGAAT
Found at i:123570 original size:85 final size:84
Alignment explanation
Indices: 123470--123637 Score: 214
Period size: 85 Copynumber: 2.0 Consensus size: 84
123460 ACATACAATC
* * *
123470 ATGACACACAAATGTGTGTCATCTT-TTCTAATGACGTGTGCTTCAATGACACGA-AATGTAAGT
1 ATGACACACAAATGTGTGTCATCTTATT-T-ATGACGGGGGCTTCAATGACAC-ACAATGCAAGT
*
123533 CATAAATGCGTGTCATAAATTT
63 CATAAATGCATGTCATAAATTT
* * **
123555 ATGACACACAAATGTGTGTCGTCTTCATTTATGACGGGGGCTTCAATGACGCACAATGCGCGTCA
1 ATGACACACAAATGTGTGTCATCTT-ATTTATGACGGGGGCTTCAATGACACACAATGCAAGTCA
123620 TAAATGCATGTCATAAAT
65 TAAATGCATGTCATAAAT
123638 GCGCATCATA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 1 0.01
85 68 0.94
86 1 0.01
87 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (84 bp):
ATGACACACAAATGTGTGTCATCTTATTTATGACGGGGGCTTCAATGACACACAATGCAAGTCAT
AAATGCATGTCATAAATTT
Found at i:123646 original size:13 final size:13
Alignment explanation
Indices: 123609--123647 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
123599 AATGACGCAC
123609 AATGCGCGTCATA
1 AATGCGCGTCATA
**
123622 AATGCATGTCATA
1 AATGCGCGTCATA
*
123635 AATGCGCATCATA
1 AATGCGCGTCATA
123648 GATTTATAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:125685 original size:3 final size:3
Alignment explanation
Indices: 125677--125742 Score: 71
Period size: 3 Copynumber: 21.0 Consensus size: 3
125667 ATATTTATTA
* *
125677 AAT AAT AAT AAT ATAT ATAT AA- ATAT AAAT AAT AAT AAT AAT ATT TAT
1 AAT AAT AAT AAT A-AT A-AT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT
125725 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
125743 TTAAGTAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 1 0.02
3 44 0.80
4 9 0.16
5 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:125705 original size:27 final size:27
Alignment explanation
Indices: 125675--125742 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
125665 TAATATTTAT
125675 TAAATAATAATAAT-ATATATATAAATA
1 TAAATAATAATAATAATATATAT-AATA
*
125702 TAAATAATAATAATAATATTTATAATA
1 TAAATAATAATAATAATATATATAATA
125729 -ATAATAATAATAAT
1 TA-AATAATAATAAT
125743 TTAAGTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
26 1 0.03
27 30 0.79
28 7 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATAATAATAATAATATATATAATA
Found at i:125707 original size:24 final size:21
Alignment explanation
Indices: 125678--125741 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 21
125668 TATTTATTAA
125678 ATAATAATAATATATATATAAAT
1 ATAATAATAATA-ATA-ATAAAT
**
125701 ATAAATAATAATAATAATATTT
1 AT-AATAATAATAATAATAAAT
125723 ATAATAATAATAATAATAA
1 ATAATAATAATAATAATAA
125742 TTTAAGTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 16 0.43
22 6 0.16
23 5 0.14
24 10 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATAATAATAATAATAAAT
Found at i:125742 original size:24 final size:24
Alignment explanation
Indices: 125665--125742 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
125655 TTTGGGTTTG
*
125665 TAATATTTATTA-AATAATAATAA
1 TAATATTTATAATAATAATAATAA
* *
125688 TATATATATAAATATAAATAATAATAA
1 TA-ATATTTATA-AT-AATAATAATAA
125715 TAATATTTATAATAATAATAATAA
1 TAATATTTATAATAATAATAATAA
125739 TAAT
1 TAAT
125743 TTAAGTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.04
24 21 0.46
25 3 0.07
26 7 0.15
27 13 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TAATATTTATAATAATAATAATAA
Found at i:143558 original size:50 final size:50
Alignment explanation
Indices: 143500--143608 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
143490 TTAGTAGGAA
* * * *
143500 AGCGCGCCCCCTACACCGCGCTATATGCTGATTTGGTGCCACGTGGGTAT
1 AGCGCGCCCCCTACACCGCGATATACGCTGATCTGGCGCCACGTGGGTAT
* *
143550 AGCGCGCCCCCTACCCCGCGATATACGGTGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTACACCGCGATATACGCTGATCTGGCGCCACGTGGGTAT
143600 AGCGC-CCCC
1 AGCGCGCCCC
143609 TGATCTACGC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 4 0.08
50 49 0.92
ACGTcount: A:0.16, C:0.37, G:0.28, T:0.19
Consensus pattern (50 bp):
AGCGCGCCCCCTACACCGCGATATACGCTGATCTGGCGCCACGTGGGTAT
Found at i:146166 original size:49 final size:49
Alignment explanation
Indices: 146073--146181 Score: 137
Period size: 49 Copynumber: 2.2 Consensus size: 49
146063 CGCGGATCAG
* * * * *
146073 GGGGCGCGCTATACCCACGTGGCGCCAGATCACCGTATATCGCGGGGTA
1 GGGGCGCGCTATACCCACGTGACGCCAAATCAACATATAACGCGGGGTA
* * *
146122 GGGGCGCGTTATACCCACGTGACGCCAAATCAACATATAACGCGGTGCA
1 GGGGCGCGCTATACCCACGTGACGCCAAATCAACATATAACGCGGGGTA
146171 GGGGGCGCGCT
1 -GGGGCGCGCT
146182 TTCCTGCTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 41 0.82
50 9 0.18
ACGTcount: A:0.21, C:0.29, G:0.34, T:0.16
Consensus pattern (49 bp):
GGGGCGCGCTATACCCACGTGACGCCAAATCAACATATAACGCGGGGTA
Found at i:156310 original size:35 final size:35
Alignment explanation
Indices: 156267--156336 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
156257 GAAAAAACAC
156267 ATATGAGTTCAATACCATTTCATTCATGAAAAGGT
1 ATATGAGTTCAATACCATTTCATTCATGAAAAGGT
*
156302 ATATGAGTTCAATACCATTTCATTCGTGAAAAGGT
1 ATATGAGTTCAATACCATTTCATTCATGAAAAGGT
156337 GGAAGAAGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (35 bp):
ATATGAGTTCAATACCATTTCATTCATGAAAAGGT
Found at i:159777 original size:22 final size:21
Alignment explanation
Indices: 159731--159797 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
159721 TTAATAAATG
* *
159731 TTTATAATTTTATTTTTTATGA
1 TTTATAA-TTTATTTTGTATAA
159753 TTTATAATTTATTATTGTATAA
1 TTTATAATTTATT-TTGTATAA
*
159775 TTTCTAA--TATTTT-T-TAA
1 TTTATAATTTATTTTGTATAA
159792 TTTATA
1 TTTATA
159798 GTTACTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 8 0.20
18 1 0.03
19 2 0.05
20 4 0.10
21 6 0.15
22 19 0.47
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (21 bp):
TTTATAATTTATTTTGTATAA
Found at i:171589 original size:21 final size:21
Alignment explanation
Indices: 171565--171630 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
171555 TCAGGAATTA
*
171565 CAGTGGTTGTAGGATTTTCAG
1 CAGTGGTTGTAGGAATTTCAG
* *
171586 CAGTTGTTGTAGGAATTTCAA
1 CAGTGGTTGTAGGAATTTCAG
* * *
171607 CAATGGCTATAGGAATTTCAG
1 CAGTGGTTGTAGGAATTTCAG
171628 CAG
1 CAG
171631 GTTTTGTAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (21 bp):
CAGTGGTTGTAGGAATTTCAG
Done.