Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 40 of 311
Found at i:11279276 original size:19 final size:20
Alignment explanation
Indices: 11279223--11279276 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
11279213 TTTTAACACT
11279223 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
11279243 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
11279262 TTA-TATGTACATATT
1 ATATTATGTACATATT
11279277 GATGTAGTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 3 0.11
19 17 0.63
20 7 0.26
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:11279415 original size:16 final size:14
Alignment explanation
Indices: 11279396--11279429 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
11279386 TATTATTCTA
11279396 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
11279411 GATATTTTATATTTT
1 -ATATTTTATATTTT
11279426 ATAT
1 ATAT
11279430 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:11279424 original size:7 final size:8
Alignment explanation
Indices: 11279396--11279429 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
11279386 TATTATTCTA
11279396 ATATTTTG
1 ATATTTTG
11279404 ATATTTTG
1 ATATTTTG
11279412 ATATTTT-
1 ATATTTTG
11279419 ATATTTT-
1 ATATTTTG
11279426 ATAT
1 ATAT
11279430 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:11279431 original size:16 final size:15
Alignment explanation
Indices: 11279396--11279436 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
11279386 TATTATTCTA
11279396 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
11279412 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
11279428 ATATTTTAT
1 ATATTTTAT
11279437 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:11287839 original size:67 final size:70
Alignment explanation
Indices: 11287721--11287893 Score: 194
Period size: 67 Copynumber: 2.5 Consensus size: 70
11287711 CTTTCCAAGG
**
11287721 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTAATTT-
1 AAAATCAACTCATATTGCGAGAAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
11287783 T-TTT
66 TGTTT
** * *
11287787 CAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
1 -AAAATCAACTCATATTGCGAGAAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT
11287851 ATGTTT
65 ATGTTT
* ** * * *
11287857 TAAATTGACTCATATTGCGAGAGGTTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGATGAGTTGAGCCT
11287894 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
67 45 0.50
68 10 0.11
69 21 0.23
70 14 0.16
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
TGTTT
Found at i:11288038 original size:70 final size:69
Alignment explanation
Indices: 11287897--11288217 Score: 363
Period size: 67 Copynumber: 4.7 Consensus size: 69
11287887 TAAGCCTTTT
* *
11287897 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTT-AAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACACGCTGAGG
11287962 TATTTC
64 TATTTC
11287968 AATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACACGCTGAGGTA
1 AATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACACGCTGAGGT-
11288033 ATTTC
65 ATTTC
* * * *
11288038 AATTTCTGTTGTTAAAAACAACTCATATTG-TAGAG-G-TTTGAGCCTCA-GACACGCTTGAGGT
1 AATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACACGC-TGAGGT
*
11288099 ATTTTA
65 A-TTTC
* * * * *
11288105 AATTTTTGTTTTCAAAATCAACTCATATTGCGAGA-AGAGTTGAGCCTC-GGGCACGCCGAGGTA
1 AATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
11288168 TTTT
66 TTTC
* * * **
11288172 TAGTTATG-TTTT-AAATTGACTCATATTGCGAGAGGTGAGTT-AGCCT
1 AATTTCTGTTTTTAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCT
11288218 TTTAATTTTT
Statistics
Matches: 218, Mismatches: 23, Indels: 23
0.83 0.09 0.09
Matches are distributed among these distances:
65 19 0.09
66 16 0.07
67 58 0.27
68 11 0.05
69 48 0.22
70 54 0.25
71 12 0.06
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (69 bp):
AATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACACGCTGAGGTA
TTTC
Found at i:11288101 original size:136 final size:138
Alignment explanation
Indices: 11287897--11288167 Score: 381
Period size: 137 Copynumber: 2.0 Consensus size: 138
11287887 TAAGCCTTTT
* * *
11287897 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTGTTCAAAAACAACTCATATTGCTAGAGGT--GTTGAGCCTCAGGACACGCTGAGG
* * *
11287962 TA-TTTCAATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACACGC
64 TATTTTAAATTTCTGTTTTCAAAATCAACTCATATTGCGAGA-AGAGTTGAGCCTC-GGACACGC
*
11288026 TGAGGTAATTTC
127 CGAGGTAATTTC
11288038 AATTTCTGTTGTT-AAAAACAACTCATATTG-TAGAGGT-TTGAGCCTCA-GACACGCTTGAGGT
1 AATTTCTGTTGTTCAAAAACAACTCATATTGCTAGAGGTGTTGAGCCTCAGGACACGC-TGAGGT
* *
11288099 ATTTTAAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGAGTTGAGCCTCGGGCACGCCGA
65 ATTTTAAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAGAGTTGAGCCTCGGACACGCCGA
11288164 GGTA
130 GGTA
11288168 TTTTTAGTTA
Statistics
Matches: 119, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
135 20 0.17
136 29 0.24
137 36 0.30
139 7 0.06
140 16 0.13
141 11 0.09
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (138 bp):
AATTTCTGTTGTTCAAAAACAACTCATATTGCTAGAGGTGTTGAGCCTCAGGACACGCTGAGGTA
TTTTAAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAGAGTTGAGCCTCGGACACGCCGAG
GTAATTTC
Found at i:11288127 original size:67 final size:68
Alignment explanation
Indices: 11287893--11288171 Score: 320
Period size: 70 Copynumber: 4.1 Consensus size: 68
11287883 GAGTTAAGCC
*
11287893 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTCTG-TTTTCAAAATCAACTCATATTGCTAGAGGT---TTGAGCCTCAGGACACGC
11287957 TGAGGTA
62 TGAGGTA
* * *
11287964 -TTTCAATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACACGCTG
1 TTTTCAATTTCTGTTTTCAAAATCAACTCATATTGCTAGAG-G-TTTGAGCCTCAGGACACGCTG
11288028 AGGTA
64 AGGTA
* *
11288033 ATTTCAATTTCTGTTGTT-AAAAACAACTCATATTG-TAGAGGTTTGAGCCTCA-GACACGCTTG
1 TTTTCAATTTCTGTT-TTCAAAATCAACTCATATTGCTAGAGGTTTGAGCCTCAGGACACGC-TG
11288095 AGGTA
64 AGGTA
* * * * *
11288100 TTTTAAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGAG-TTGAGCCTC-GGGCACGCCG
1 TTTTCAATTTCTGTTTTCAAAATCAACTCATATTGCTAG-AG-GTTTGAGCCTCAGGACACGCTG
11288163 AGGTA
64 AGGTA
11288168 TTTT
1 TTTT
11288172 TAGTTATGTT
Statistics
Matches: 183, Mismatches: 14, Indels: 25
0.82 0.06 0.11
Matches are distributed among these distances:
66 9 0.05
67 45 0.25
68 13 0.07
69 46 0.25
70 60 0.33
71 10 0.05
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (68 bp):
TTTTCAATTTCTGTTTTCAAAATCAACTCATATTGCTAGAGGTTTGAGCCTCAGGACACGCTGAG
GTA
Found at i:11288348 original size:95 final size:102
Alignment explanation
Indices: 11288198--11288389 Score: 256
Period size: 95 Copynumber: 1.9 Consensus size: 102
11288188 TGACTCATAT
* *
11288198 TGCGAGAGGTGAGTTAGCCTTTTAATTTTTTTTTCAAAATCAACTCATATTGCGAG-TGAGTTGA
1 TGCGAGAGGTGAGTTAACC-TTTAATTTTGTTTT-AAAATCAACTCATATTGCGAGATGAG-TGA
*
11288262 G-CTC-GG-CACGCTGAGGT-ATTTTAATTTTCAAATAAA
63 GCCTCAGGACACGCTGAGGTAATTTCAATTTTCAAATAAA
11288298 TGCGAGA-GTGAGTTAACC-TTAATTTTGTTTT-AAATCAACTCATATTGCGAGAAATGAGTGAG
1 TGCGAGAGGTGAGTTAACCTTTAATTTTGTTTTAAAATCAACTCATATTGCGAG--ATGAGTGAG
11288360 CCTCAGGACACGCTGAGGTAATTTCAATTT
64 CCTCAGGACACGCTGAGGTAATTTCAATTT
11288390 CTGTTTTCAA
Statistics
Matches: 82, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
95 20 0.24
97 16 0.20
98 7 0.09
99 12 0.15
100 18 0.22
101 9 0.11
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (102 bp):
TGCGAGAGGTGAGTTAACCTTTAATTTTGTTTTAAAATCAACTCATATTGCGAGATGAGTGAGCC
TCAGGACACGCTGAGGTAATTTCAATTTTCAAATAAA
Found at i:11288442 original size:72 final size:70
Alignment explanation
Indices: 11288335--11288467 Score: 221
Period size: 72 Copynumber: 1.9 Consensus size: 70
11288325 TTTTAAATCA
*
11288335 ACTCATATTGCGAGAAATGAGTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 ACTCATATTGCGAGAAATGAGTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
11288400 AATTC
66 AATTC
* *
11288405 ACTCATATTGGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTT
1 ACTCATATT-GCGAGAAATGAG-TGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTT
11288468 AAAAAAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
70 9 0.16
71 12 0.21
72 37 0.64
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (70 bp):
ACTCATATTGCGAGAAATGAGTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
AATTC
Found at i:11288761 original size:73 final size:71
Alignment explanation
Indices: 11288666--11288894 Score: 209
Period size: 73 Copynumber: 3.1 Consensus size: 71
11288656 TGCTAGAGGT
11288666 GTTGAGCCTCACGGACTACCTGAGGTAATTTCAATTCTGTTGTTAATAAAAATCAACTCATATTG
1 GTTGAGCCTCA--GAC-ACCTGAGGTAATTTCAATTCTGTTGTTAATAAAAATCAACT-ATATTG
11288731 CGAGAAATGA
62 CGAGAAATGA
* * *
11288741 GTTGAGCCTCAGAACACCTGAGGTAATTTTAATT-T-TTGTT-TTCAAAATTCAACTTATATTGC
1 GTTGAGCCTCAG-ACACCTGAGGTAATTTCAATTCTGTTGTTAAT-AAAAATCAAC-TATATTGC
*
11288803 CAGAAAT-A
63 GAGAAATGA
** * * * *
11288811 GTTGAGCCTCAGACAGTTGAGGTATTTTCAATTTCCTGTT-TCAAAAAAAAATCAACTTTAATTG
1 GTTGAGCCTCAGACACCTGAGGTAATTTCAA-TT-CTGTTGT-TAATAAAAATCAACTAT-ATTG
*
11288875 CGAG-AGTGA
62 CGAGAAATGA
11288884 GTTTGAGCCTC
1 G-TTGAGCCTC
11288895 GGTTCACATG
Statistics
Matches: 127, Mismatches: 15, Indels: 25
0.76 0.09 0.15
Matches are distributed among these distances:
69 15 0.12
70 16 0.13
71 27 0.21
72 8 0.06
73 39 0.31
74 11 0.09
75 11 0.09
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (71 bp):
GTTGAGCCTCAGACACCTGAGGTAATTTCAATTCTGTTGTTAATAAAAATCAACTATATTGCGAG
AAATGA
Found at i:11288793 original size:71 final size:70
Alignment explanation
Indices: 11288666--11288844 Score: 202
Period size: 71 Copynumber: 2.5 Consensus size: 70
11288656 TGCTAGAGGT
*
11288666 GTTGAGCCTCACGGACTACCTGAGGTAATTTCAATTCTGTTGTTAATAAAAATCAACTCATATTG
1 GTTGAGCCTCA--GAC-ACCTGAGGTAATTTTAATT-TGTTGTTAATAAAAATCAACTCATATTG
*
11288731 CGAGAAATGA
62 CCAGAAAT-A
* * *
11288741 GTTGAGCCTCAGAACACCTGAGGTAATTTTAATTT-TTGTT-TTCAAAATTCAACTTATATTGCC
1 GTTGAGCCTCAG-ACACCTGAGGTAATTTTAATTTGTTGTTAAT-AAAAATCAACTCATATTGCC
11288804 AGAAATA
64 AGAAATA
**
11288811 GTTGAGCCTCAGACAGTTGAGGT-ATTTTCAATTT
1 GTTGAGCCTCAGACACCTGAGGTAATTTT-AATTT
11288845 CCTGTTTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
68 5 0.05
69 14 0.15
70 14 0.15
71 28 0.30
72 1 0.01
73 19 0.20
74 2 0.02
75 11 0.12
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (70 bp):
GTTGAGCCTCAGACACCTGAGGTAATTTTAATTTGTTGTTAATAAAAATCAACTCATATTGCCAG
AAATA
Found at i:11290565 original size:85 final size:87
Alignment explanation
Indices: 11290395--11290569 Score: 212
Period size: 85 Copynumber: 2.0 Consensus size: 87
11290385 CACGCTGAGG
** * ***
11290395 TGGTTTTAATTTATGTTCATCAAAAATTTAGCTCATATTGCAAGAAAGGTGAGTTGAGCTTGCTC
1 TGGTTTTAATTTATGTTCATCAAAAATCGAGCTCATATTGC-AGAAAGGTGAGTTGAGCTCGAGA
*
11290460 CACGCTGAGGTATTTTCAATTTC
65 CACGCTGAGGTATATTCAATTTC
* ** *
11290483 TGGTTTTAATTTCTGTTTTTCAAAAATCGA-CTCATATTGC-GAGAGGTGAGTTGAGCCTCGAGA
1 TGGTTTTAATTTATGTTCATCAAAAATCGAGCTCATATTGCAGAAAGGTGAGTTGAG-CTCGAGA
11290546 CACGCTGAGGTA-ATTCAATTTC
65 CACGCTGAGGTATATTCAATTTC
11290568 TG
1 TG
11290570 TTGTCAAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
85 25 0.33
86 15 0.20
87 10 0.13
88 25 0.33
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (87 bp):
TGGTTTTAATTTATGTTCATCAAAAATCGAGCTCATATTGCAGAAAGGTGAGTTGAGCTCGAGAC
ACGCTGAGGTATATTCAATTTC
Found at i:11290655 original size:15 final size:15
Alignment explanation
Indices: 11290631--11290660 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11290621 ATGAGGTCTT
11290631 TTCAAATTTCTGTTC
1 TTCAAATTTCTGTTC
*
11290646 TTCAATTTTCTGTTC
1 TTCAAATTTCTGTTC
11290661 ATAAAAAAAA
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:0.17, C:0.20, G:0.07, T:0.57
Consensus pattern (15 bp):
TTCAAATTTCTGTTC
Found at i:11339159 original size:17 final size:17
Alignment explanation
Indices: 11339137--11339170 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11339127 GATATGATAC
11339137 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
11339154 TAAAATATATAAAAAAT
1 TAAAATATATAAAAAAT
11339171 CAGGGAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:11339483 original size:19 final size:19
Alignment explanation
Indices: 11339459--11339495 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11339449 AATCATATCT
11339459 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11339478 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11339496 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11339503 original size:17 final size:19
Alignment explanation
Indices: 11339462--11339503 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11339452 CATATCTTCT
*
11339462 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
11339481 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
11339498 AAGATT
1 AAGATT
11339504 ATATTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:11340050 original size:17 final size:15
Alignment explanation
Indices: 11340028--11340066 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
11340018 TTAATTATTA
11340028 AATATTACTTTAAATT
1 AATATTACTTT-AATT
11340044 AAGTATTA-TTTAATT
1 AA-TATTACTTTAATT
11340059 AATATTAC
1 AATATTAC
11340067 AGTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 6 0.29
16 5 0.24
17 5 0.24
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (15 bp):
AATATTACTTTAATT
Found at i:11344950 original size:26 final size:27
Alignment explanation
Indices: 11344906--11344981 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
11344896 TCAATTTAAT
* * *
11344906 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
11344932 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
11344960 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
11344982 ATCTATTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:11346460 original size:26 final size:26
Alignment explanation
Indices: 11346429--11346535 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
11346419 TGAAATGCCC
*
11346429 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11346455 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11346480 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11346506 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11346532 ATCA
1 ATCA
11346536 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 24 0.32
26 51 0.68
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11346499 original size:51 final size:52
Alignment explanation
Indices: 11346429--11346535 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
11346419 TGAAATGCCC
11346429 ATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
11346480 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
11346532 ATCA
1 ATCA
11346536 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 29 0.55
52 24 0.45
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:11352733 original size:50 final size:50
Alignment explanation
Indices: 11352678--11352778 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
11352668 TAAGTGTTAA
11352678 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
1 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
11352728 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
1 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
11352778 T
1 T
11352779 GTTTTTTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.64
Consensus pattern (50 bp):
TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
Found at i:11352767 original size:21 final size:19
Alignment explanation
Indices: 11352742--11352791 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
11352732 CCCCTTTCTA
11352742 TTTTAATTCTTGTGTTTGTT
1 TTTTAATTCTT-TGTTTGTT
* *
11352762 CTTTTATTTATTTGTTTGTT
1 -TTTTAATTCTTTGTTTGTT
11352782 TTTTATATTC
1 TTTTA-ATTC
11352792 ACTATTCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.12, C:0.06, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTTAATTCTTTGTTTGTT
Found at i:11353030 original size:3 final size:3
Alignment explanation
Indices: 11353006--11353165 Score: 82
Period size: 3 Copynumber: 52.7 Consensus size: 3
11352996 TCTATCGTCC
* * *
11353006 TTA TTA TAA TTA GTA TTA -TA TTA TTA TTA TTA CTT- TTA -TC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
11353049 TT- TAA TGTA TTA TT- TTC TTT TCTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * ** *
11353094 TTA TTA TTA TCA TCTA CATA ACA TTA TTA TTAA TGTA TTA TTT TTA TTA
1 TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA
*
11353143 TCT- TCTA TT- TTA TCA TTA TTA TT
1 T-TA T-TA TTA TTA TTA TTA TTA TT
11353166 CTTACTATCT
Statistics
Matches: 122, Mismatches: 20, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
2 10 0.08
3 96 0.79
4 15 0.12
5 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:11355406 original size:14 final size:14
Alignment explanation
Indices: 11355383--11355412 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11355373 ATAAACCCCG
11355383 AATCCAAAATCTTA
1 AATCCAAAATCTTA
*
11355397 AATCCCAAATCTTA
1 AATCCAAAATCTTA
11355411 AA
1 AA
11355413 CCGTAAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (14 bp):
AATCCAAAATCTTA
Found at i:11355554 original size:21 final size:21
Alignment explanation
Indices: 11355530--11355587 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
11355520 TAGGGTTCAA
*
11355530 GTTTG-GGATTCGAGGTTTAGG
1 GTTTGAGG-TTCGAGGTTTAAG
*
11355551 GTTTGAGGTTTGAGGTTTAAG
1 GTTTGAGGTTCGAGGTTTAAG
*
11355572 GTTT-AAGTTCG-GGTTT
1 GTTTGAGGTTCGAGGTTT
11355588 GAAGTTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.16
20 5 0.16
21 20 0.62
22 2 0.06
ACGTcount: A:0.16, C:0.03, G:0.38, T:0.43
Consensus pattern (21 bp):
GTTTGAGGTTCGAGGTTTAAG
Found at i:11356218 original size:90 final size:91
Alignment explanation
Indices: 11356034--11356265 Score: 322
Period size: 90 Copynumber: 2.5 Consensus size: 91
11356024 GTACTTTTAT
* * * *
11356034 AAAATGTCCAATGTGATACTTGAACTATCAATTTATGTATTATTTGGTACTTGTACTTTCATAAA
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATTTGGTACCTGTACTTTCATAAA
* *
11356099 ATGTCTAATACGGTACCTATACTTTG
66 ATGTCCAATACAGTACCTATACTTTG
*
11356125 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATT-TTTGGTACCTGTAGTTTCATAAA
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATTTGGTACCTGTACTTTCATAAA
** *
11356189 ATGTCCAATGTAGTACTTATACTTTG
66 ATGTCCAATACAGTACCTATACTTTG
* * * *
11356215 AAAATGTTCAATGTGGCACATGAACTATTAATCTGTGTATTATTATGGTAC
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATT-TGGTAC
11356266 TTGGAGTTAA
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
90 79 0.63
91 40 0.32
92 6 0.05
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (91 bp):
AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATTTGGTACCTGTACTTTCATAAA
ATGTCCAATACAGTACCTATACTTTG
Found at i:11359484 original size:28 final size:28
Alignment explanation
Indices: 11359451--11359507 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
11359441 CATCTTTCAT
11359451 ATGAGGTAGCCTCATTGGTAATTCAACA
1 ATGAGGTAGCCTCATTGGTAATTCAACA
11359479 ATGAGGTAGCCTCATTGGTAATTCAACA
1 ATGAGGTAGCCTCATTGGTAATTCAACA
11359507 A
1 A
11359508 GTTTCACATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (28 bp):
ATGAGGTAGCCTCATTGGTAATTCAACA
Found at i:11362242 original size:21 final size:22
Alignment explanation
Indices: 11362208--11362250 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
11362198 ATTAATCTAC
*
11362208 TTTGTTTTACTTATTTGTTTAT
1 TTTGTTTTACTTATTTATTTAT
*
11362230 TTTG-TTTAGTTATTTATTTAT
1 TTTGTTTTACTTATTTATTTAT
11362251 AATTAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTGTTTTACTTATTTATTTAT
Found at i:11363503 original size:131 final size:129
Alignment explanation
Indices: 11363277--11363519 Score: 305
Period size: 130 Copynumber: 1.9 Consensus size: 129
11363267 GAAAACTGGC
* *
11363277 AATATTTCGTATTTAGGAAATTCGAGAAATCGTACCCTAACTTACAGGGTCTCGATTTTCTCATT
1 AATATTCCGTATTTAGGAAACTCGAGAAATCGTACCCTAACTTACAGGGTCTCGATTTTCTCATT
* *
11363342 AAACCTAAATAGTCGAATATCACTTCAAATTTCAAAATACATGA-ATTTTAAACAAAAATAAAGG
66 AAACCTAAATAATCGAATATCACTTCAAA-TT-AAAACACATGAGATTTTAAACAAAAATAAAGG
11363406 T
129 T
* *
11363407 AATATTCCGTATTTA-GAAACTCGAGAAAGTCGTGCCCTAGCTTAC-GGGTCTCGATTCTTTCTC
1 AATATTCCGTATTTAGGAAACTCGAGAAA-TCGTACCCTAACTTACAGGGTCTCGA-T-TTTCTC
* ** **
11363470 GTTGGATTTAAATAATCGAATATC-CTTCTAAATTAAAACACATGAGATTT
63 ATTAAACCTAAATAATCGAATATCACTTC-AAATTAAAACACATGAGATTT
11363520 CAAAAATAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
129 31 0.32
130 39 0.40
131 27 0.28
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (129 bp):
AATATTCCGTATTTAGGAAACTCGAGAAATCGTACCCTAACTTACAGGGTCTCGATTTTCTCATT
AAACCTAAATAATCGAATATCACTTCAAATTAAAACACATGAGATTTTAAACAAAAATAAAGGT
Found at i:11364716 original size:21 final size:21
Alignment explanation
Indices: 11364691--11364731 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11364681 TTTTTTTTAT
*
11364691 TAAATTTAATTATAAA-ATATG
1 TAAATATAA-TATAAATATATG
11364712 TAAATATAATATAAATATAT
1 TAAATATAATATAAATATAT
11364732 AATTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATATAATATAAATATATG
Found at i:11367414 original size:14 final size:14
Alignment explanation
Indices: 11367395--11367423 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11367385 AGGTCAACAG
11367395 AATGCTTGAAATTT
1 AATGCTTGAAATTT
11367409 AATGCTTGAAATTT
1 AATGCTTGAAATTT
11367423 A
1 A
11367424 TATTTCTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (14 bp):
AATGCTTGAAATTT
Found at i:11368680 original size:26 final size:26
Alignment explanation
Indices: 11368651--11368704 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11368641 TCACCAACAT
11368651 TGATCAAAACTCAAAAACAACTTCCA
1 TGATCAAAACTCAAAAACAACTTCCA
11368677 TGATCAAAACTCAAAAACAACTTCCA
1 TGATCAAAACTCAAAAACAACTTCCA
11368703 TG
1 TG
11368705 CCTATAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.48, C:0.26, G:0.06, T:0.20
Consensus pattern (26 bp):
TGATCAAAACTCAAAAACAACTTCCA
Found at i:11374145 original size:22 final size:21
Alignment explanation
Indices: 11374123--11374162 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11374113 CTAAATTATA
*
11374123 AATGTTTTTAATATTTAAAAT
1 AATGTTTTTAATAATTAAAAT
* *
11374144 AATTTTTTTTATAATTAAA
1 AATGTTTTTAATAATTAAA
11374163 TGATTATGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
AATGTTTTTAATAATTAAAAT
Found at i:11374376 original size:31 final size:31
Alignment explanation
Indices: 11374341--11374399 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
11374331 TATTTGAATT
*
11374341 AATTAAGTTATTCGGATCAACTCGAATAAAA
1 AATTAAGTTATTCAGATCAACTCGAATAAAA
* * *
11374372 AATTAAGTTTTTCAGTTTAACTCGAATA
1 AATTAAGTTATTCAGATCAACTCGAATA
11374400 TGAATTACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (31 bp):
AATTAAGTTATTCAGATCAACTCGAATAAAA
Found at i:11383529 original size:19 final size:19
Alignment explanation
Indices: 11383505--11383542 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11383495 GAGATTTTGA
11383505 TAAGAAGTACTTTGATGAC
1 TAAGAAGTACTTTGATGAC
11383524 TAAGAAGTACTTTGATGAC
1 TAAGAAGTACTTTGATGAC
11383543 ATTTCCCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
TAAGAAGTACTTTGATGAC
Found at i:11384539 original size:104 final size:104
Alignment explanation
Indices: 11384401--11384610 Score: 420
Period size: 104 Copynumber: 2.0 Consensus size: 104
11384391 TTGGGGTGGA
11384401 TTACCACCAAAGGCTTCATGATATTGTACTTGTAGATATTATTTGATTTGTTGAATGGAATTGCC
1 TTACCACCAAAGGCTTCATGATATTGTACTTGTAGATATTATTTGATTTGTTGAATGGAATTGCC
11384466 CTTTGTGACCTATATTTAAAAAAAATCATTTGCTAAATT
66 CTTTGTGACCTATATTTAAAAAAAATCATTTGCTAAATT
11384505 TTACCACCAAAGGCTTCATGATATTGTACTTGTAGATATTATTTGATTTGTTGAATGGAATTGCC
1 TTACCACCAAAGGCTTCATGATATTGTACTTGTAGATATTATTTGATTTGTTGAATGGAATTGCC
11384570 CTTTGTGACCTATATTTAAAAAAAATCATTTGCTAAATT
66 CTTTGTGACCTATATTTAAAAAAAATCATTTGCTAAATT
11384609 TT
1 TT
11384611 CGATTGAACA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (104 bp):
TTACCACCAAAGGCTTCATGATATTGTACTTGTAGATATTATTTGATTTGTTGAATGGAATTGCC
CTTTGTGACCTATATTTAAAAAAAATCATTTGCTAAATT
Found at i:11389060 original size:21 final size:21
Alignment explanation
Indices: 11389035--11389075 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11389025 ATGTGTTATG
11389035 AAAATTTTGATGCCATGGAAA
1 AAAATTTTGATGCCATGGAAA
11389056 AAAATTTTGATGCCATGGAA
1 AAAATTTTGATGCCATGGAA
11389076 TGGCTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
AAAATTTTGATGCCATGGAAA
Found at i:11393490 original size:46 final size:45
Alignment explanation
Indices: 11393423--11393543 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 45
11393413 TGTGTGCTAT
11393423 TGTAAGACATGTCT-AGGACATGCATCGACCT-CGAGATGTAAGCCAG
1 TGTAAGACATGTCTGA-GACATGCATCGACCTACGAGATGT--GCCAG
** *
11393469 TGTAAGACATGTCTGAGACATGCATCG-GTTACGAGATGTGTCAG
1 TGTAAGACATGTCTGAGACATGCATCGACCTACGAGATGTGCCAG
*
11393513 TGTAAGACCATGTCTGGGACATGGCATCGAC
1 TGTAAGA-CATGTCTGAGACAT-GCATCGAC
11393544 ATAGATAAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
44 11 0.17
45 14 0.22
46 39 0.60
47 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGAGACATGCATCGACCTACGAGATGTGCCAG
Found at i:11394862 original size:20 final size:21
Alignment explanation
Indices: 11394823--11394862 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11394813 GTTGTAATGA
*
11394823 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
11394844 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
11394863 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:11395557 original size:21 final size:22
Alignment explanation
Indices: 11395502--11395575 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 22
11395492 ATATATAAAT
* *
11395502 ATATTAT-TTAATTAGACTATA
1 ATATTATATTAATTACATTATA
* * *
11395523 TTATTAT-TTTATTACATTGTA
1 ATATTATATTAATTACATTATA
*
11395544 AT-TTATATTAATTATATTATA
1 ATATTATATTAATTACATTATA
11395565 ATATTATATTA
1 ATATTATATTA
11395576 TAAAATAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
20 4 0.10
21 30 0.71
22 8 0.19
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (22 bp):
ATATTATATTAATTACATTATA
Found at i:11395572 original size:13 final size:13
Alignment explanation
Indices: 11395554--11395578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11395544 ATTTATATTA
11395554 ATTATATTATAAT
1 ATTATATTATAAT
11395567 ATTATATTATAA
1 ATTATATTATAA
11395579 AATAAATCAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATATTATAAT
Found at i:11396594 original size:20 final size:18
Alignment explanation
Indices: 11396569--11396607 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11396559 TTGTGACTGA
11396569 TATTAAATTGAATGAAAATG
1 TATTAAATTG--TGAAAATG
*
11396589 TATTAAGTTGTGAAAATG
1 TATTAAATTGTGAAAATG
11396607 T
1 T
11396608 GTGAATTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (18 bp):
TATTAAATTGTGAAAATG
Found at i:11396618 original size:17 final size:18
Alignment explanation
Indices: 11396581--11396619 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11396571 TTAAATTGAA
*
11396581 TGAAAATGTATTAAGTTG
1 TGAAAATGTATGAAGTTG
*
11396599 TGAAAATGTGTGAA-TTG
1 TGAAAATGTATGAAGTTG
11396616 TGAA
1 TGAA
11396620 TTAAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (18 bp):
TGAAAATGTATGAAGTTG
Found at i:11398236 original size:25 final size:25
Alignment explanation
Indices: 11398208--11398277 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
11398198 CTCTTTTAAT
* *
11398208 AACTGGGGTAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
11398233 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
11398258 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
11398278 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:11398329 original size:16 final size:16
Alignment explanation
Indices: 11398308--11398338 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11398298 AACCCAACCC
*
11398308 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
11398324 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
11398339 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:11399116 original size:27 final size:27
Alignment explanation
Indices: 11399086--11399150 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
11399076 GGGCATATTC
11399086 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
11399113 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
11399140 GTCTTTTTACC
1 GTCATTTTACC
11399151 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:11399317 original size:27 final size:27
Alignment explanation
Indices: 11399184--11399390 Score: 118
Period size: 27 Copynumber: 7.6 Consensus size: 27
11399174 CATCCTATAA
* * * * *
11399184 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
* ** * *
11399211 GGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
* * * *
11399238 TGGTATTTCT-ATAATTTTTAGAAAGTCAA
1 GGGTATTT-TGGTAA-TTTTACAAA-TCAG
* **
11399267 GGGTGTTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAATCAG
*
11399294 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
* *
11399320 AGGGTATTTCGGTAATTTCACAAA-CTAG
1 -GGGTATTTTGGTAATTTTACAAATC-AG
* *
11399348 TGGTATTTTGGTAATTTTATAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
11399375 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
11399391 CTACCCTATA
Statistics
Matches: 144, Mismatches: 29, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
26 2 0.01
27 112 0.78
28 16 0.11
29 14 0.10
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:11399441 original size:26 final size:27
Alignment explanation
Indices: 11399412--11399509 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
11399402 GGGTATTTCA
11399412 GTAATTTCAT-AATCGAGGGTAAAACG
1 GTAATTTCATAAATCGAGGGTAAAACG
** **
11399438 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTCATAAATCGAGGGTAAAACG
* * * *
11399465 ATAA-TTCTGTAAATCAAGGGTAAAACA
1 GTAATTTC-ATAAATCGAGGGTAAAACG
11399492 GTAA-TTCTATAAATCGAG
1 GTAATTTC-ATAAATCGAG
11399510 CGTACTTTGG
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 10 0.17
27 49 0.83
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (27 bp):
GTAATTTCATAAATCGAGGGTAAAACG
Found at i:11399452 original size:27 final size:27
Alignment explanation
Indices: 11399422--11399509 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
11399412 GTAATTTCAT
* *
11399422 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
11399449 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
11399476 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
11399503 AATCGAG
1 AATCGAG
11399510 CGTACTTTGG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:11403236 original size:12 final size:12
Alignment explanation
Indices: 11403219--11403245 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11403209 TATGTTTCTT
11403219 AGTCAACAAGAA
1 AGTCAACAAGAA
11403231 AGTCAACAAGAA
1 AGTCAACAAGAA
11403243 AGT
1 AGT
11403246 TTAGTTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.11
Consensus pattern (12 bp):
AGTCAACAAGAA
Found at i:11403298 original size:17 final size:18
Alignment explanation
Indices: 11403278--11403311 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11403268 TTGTTTAGAT
11403278 TAATT-AGAGTTTTATTA
1 TAATTGAGAGTTTTATTA
11403295 TAATTGAGAGTTTTATT
1 TAATTGAGAGTTTTATT
11403312 TGGATGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (18 bp):
TAATTGAGAGTTTTATTA
Found at i:11408370 original size:13 final size:13
Alignment explanation
Indices: 11408352--11408376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11408342 TTTTATTATT
11408352 TTTAAAAAATAAA
1 TTTAAAAAATAAA
11408365 TTTAAAAAATAA
1 TTTAAAAAATAA
11408377 TATATTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAAAAAATAAA
Found at i:11421457 original size:23 final size:23
Alignment explanation
Indices: 11421326--11421474 Score: 108
Period size: 23 Copynumber: 6.3 Consensus size: 23
11421316 TCATGGTCGA
* *
11421326 TAAGCTCTTACTGAGCTGATAAACAG
1 TAAGCTC-TAATGAGCTG--AATCAG
* *
11421352 TAAGCTCTACTGAGCTGAAAAT-GG
1 TAAGCTCTAATGAGCTG--AATCAG
11421376 TAAGCTC-AATTGAGCTGAA-CAG
1 TAAGCTCTAA-TGAGCTGAATCAG
** * *
11421398 TAAGCTCTTTTGAGCTGGATCGG
1 TAAGCTCTAATGAGCTGAATCAG
**
11421421 TAAGCTCTTTTGAGCTGAATCAG
1 TAAGCTCTAATGAGCTGAATCAG
*
11421444 TAAGCTCCAATGAGCTGAAAT-AG
1 TAAGCTCTAATGAGCTG-AATCAG
11421467 TAAGCTCT
1 TAAGCTCT
11421475 TACGAGCTAT
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
22 18 0.17
23 47 0.46
24 18 0.17
25 13 0.13
26 7 0.07
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (23 bp):
TAAGCTCTAATGAGCTGAATCAG
Found at i:11421474 original size:46 final size:45
Alignment explanation
Indices: 11421347--11421475 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 45
11421337 TGAGCTGATA
* **
11421347 AACAGTAAGCTCTACTGAGCTGAAAATGGTAAGCTCAATTGAGCTG
1 AACAGTAAGCTCTAATGAGCTG-AAATGGTAAGCTCTTTTGAGCTG
** *
11421393 AACAGTAAGCTCTTTTGAGCTG-GATCGGTAAGCTCTTTTGAGCTG
1 AACAGTAAGCTCTAATGAGCTGAAAT-GGTAAGCTCTTTTGAGCTG
* *
11421438 AATCAGTAAGCTCCAATGAGCTGAAATAGTAAGCTCTT
1 AA-CAGTAAGCTCTAATGAGCTGAAATGGTAAGCTCTT
11421476 ACGAGCTATG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
44 2 0.03
45 19 0.27
46 47 0.67
47 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
AACAGTAAGCTCTAATGAGCTGAAATGGTAAGCTCTTTTGAGCTG
Found at i:11421482 original size:46 final size:45
Alignment explanation
Indices: 11421326--11421482 Score: 140
Period size: 46 Copynumber: 3.4 Consensus size: 45
11421316 TCATGGTCGA
*
11421326 TAAGCTCTTACTGAGCTGATAAACAGTAAGCTCTACTGAGCTGAAAATGG
1 TAAGCTCTTAC-GAGCTG---AACAGTAAGCTCTAATGAGCTG-AAATGG
** *
11421376 TAAGCTCAATT--GAGCTGAACAGTAAGCTCTTTTGAGCTG-GATCGG
1 TAAGCTC--TTACGAGCTGAACAGTAAGCTCTAATGAGCTGAAAT-GG
** * *
11421421 TAAGCTCTTTTGAGCTGAATCAGTAAGCTCCAATGAGCTGAAATAG
1 TAAGCTCTTACGAGCTGAA-CAGTAAGCTCTAATGAGCTGAAATGG
11421467 TAAGCTCTTACGAGCT
1 TAAGCTCTTACGAGCT
11421483 ATGGTGAGTC
Statistics
Matches: 90, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 17 0.19
46 52 0.58
47 2 0.02
49 6 0.07
50 7 0.08
52 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
TAAGCTCTTACGAGCTGAACAGTAAGCTCTAATGAGCTGAAATGG
Found at i:11425344 original size:25 final size:25
Alignment explanation
Indices: 11425276--11425361 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
11425266 ATACATGTAT
* *
11425276 GCTCATACGAGCTATGAATCGGTAA
1 GCTCATACGAGCTATAAATCGGGAA
* * **
11425301 GCTCATATGAGTTGCAAATCGGGAA
1 GCTCATACGAGCTATAAATCGGGAA
*
11425326 GCTCATACGAGCTATAAATTGGGAA
1 GCTCATACGAGCTATAAATCGGGAA
*
11425351 GCTTATACGAG
1 GCTCATACGAG
11425362 TTGTGGTGTG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCGGGAA
Found at i:11428996 original size:16 final size:17
Alignment explanation
Indices: 11428962--11429002 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
11428952 AAAACTTGAC
*
11428962 ATAAATAATCTATATAA
1 ATAAATAATCTATAAAA
11428979 ATAAATAAT-TATAAAA
1 ATAAATAATCTATAAAA
*
11428995 ATATATAA
1 ATAAATAA
11429003 ATTGTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAAATAATCTATAAAA
Found at i:11429418 original size:12 final size:12
Alignment explanation
Indices: 11429403--11429432 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11429393 AACTTACAAA
11429403 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
11429415 AAAAAGAAAAAG
1 AAAAAAAAAAAG
11429427 AAAAAA
1 AAAAAA
11429433 CAACCCACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:11431805 original size:30 final size:30
Alignment explanation
Indices: 11431749--11431805 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11431739 TTCTTATATT
*
11431749 TTTTTAAAATAATTTATTTAATTTTCTTAA
1 TTTTTAAAATAATATATTTAATTTTCTTAA
11431779 TTTTTAAAA-AATAT-TTTATATCTTTCT
1 TTTTTAAAATAATATATTTA-AT-TTTCT
11431806 AACCAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 6 0.25
30 14 0.58
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTAAAATAATATATTTAATTTTCTTAA
Found at i:11436108 original size:19 final size:19
Alignment explanation
Indices: 11436054--11436111 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
11436044 AAATTAGATA
11436054 AATAATTATTTATATAAAT
1 AATAATTATTTATATAAAT
* *
11436073 AAT-ATTAAATTAGATAAAT
1 AATAATT-ATTTATATAAAT
**
11436092 TTTAATTATTTATATAAAT
1 AATAATTATTTATATAAAT
11436111 A
1 A
11436112 CTTTTTTTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 3 0.10
19 24 0.80
20 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AATAATTATTTATATAAAT
Found at i:11437074 original size:26 final size:26
Alignment explanation
Indices: 11437044--11437099 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
11437034 TGTTCTATTT
*
11437044 ATTATTTATTTCATAA-AATTTTTATA
1 ATTATTTA-TTAATAATAATTTTTATA
*
11437070 ATTATTTATTAATAATGATTTTTATA
1 ATTATTTATTAATAATAATTTTTATA
11437096 ATTA
1 ATTA
11437100 ATTTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTATTTATTAATAATAATTTTTATA
Found at i:11437104 original size:12 final size:12
Alignment explanation
Indices: 11437061--11437108 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
11437051 ATTTCATAAA
11437061 ATTTTTATAATT
1 ATTTTTATAATT
*
11437073 ATTTATTAATAATG
1 ATTT-TT-ATAATT
11437087 ATTTTTATAATT
1 ATTTTTATAATT
*
11437099 AATTTTATAA
1 ATTTTTATAA
11437109 AATTGAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 18 0.58
13 4 0.13
14 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
ATTTTTATAATT
Found at i:11437165 original size:18 final size:17
Alignment explanation
Indices: 11437121--11437167 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
11437111 TTGAAATTAG
*
11437121 ATAAATTTAA-TATTTT
1 ATAAATTAAATTATTTT
11437137 ATAAATTTTAAATTATTTAT
1 ATAAA--TTAAATTATTT-T
11437157 ATAAATTAAAT
1 ATAAATTAAAT
11437168 ACAATGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
18 10 0.38
19 5 0.19
20 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATAAATTAAATTATTTT
Found at i:11441361 original size:38 final size:38
Alignment explanation
Indices: 11441310--11441386 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
11441300 CGTGATTTAA
11441310 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
1 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
11441348 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
1 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
11441386 T
1 T
11441387 GTGGTTTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (38 bp):
TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
Found at i:11442075 original size:12 final size:12
Alignment explanation
Indices: 11442044--11442081 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11442034 ATTTACTTTT
11442044 ATTTTTAA-AAA
1 ATTTTTAATAAA
*
11442055 ATCTATTAATAAA
1 AT-TTTTAATAAA
11442068 ATTTTTAATAAA
1 ATTTTTAATAAA
11442080 AT
1 AT
11442082 ACAATTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 16 0.70
13 5 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTTTTAATAAA
Found at i:11442095 original size:25 final size:24
Alignment explanation
Indices: 11442044--11442093 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
11442034 ATTTACTTTT
*
11442044 ATTTTTAAAAAATCTATTAATAAA
1 ATTTTTAAAAAATCAATTAATAAA
*
11442068 ATTTTTAATAAAATACAATTCATAAA
1 ATTTTTAA-AAAAT-CAATTAATAAA
11442094 TTAAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 5 0.23
26 9 0.41
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTTTAAAAAATCAATTAATAAA
Found at i:11448055 original size:18 final size:18
Alignment explanation
Indices: 11448032--11448066 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11448022 AATCAGTAAT
* *
11448032 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
11448050 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
11448067 TTCAACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:11448114 original size:45 final size:45
Alignment explanation
Indices: 11448050--11448156 Score: 171
Period size: 45 Copynumber: 2.4 Consensus size: 45
11448040 GTAGCAGTAG
*
11448050 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAA
* *
11448095 CAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
11448140 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
11448157 ACAGTAGTCG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:11448146 original size:51 final size:50
Alignment explanation
Indices: 11448038--11448171 Score: 154
Period size: 45 Copynumber: 2.7 Consensus size: 50
11448028 TAATCAGTAA
* *
11448038 CGGTAGCAGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
1 CGGTA-CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAAT
*
11448089 C--T---GTAACAGTAACGGTAACAGTATTCGACACACAAAGTG-TCGAAT
1 CGGTACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCT-GAAT
* *
11448134 CGGTAACAGTAACAGTAACAGTAACAGTAGTCGGCACA
1 CGGT-ACAGTAACAGTAACAGTAACAGTATTCGACACA
11448172 TAAGTGCCTG
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
44 1 0.01
45 39 0.56
47 1 0.01
49 1 0.01
51 28 0.40
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (50 bp):
CGGTACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAAT
Found at i:11448147 original size:6 final size:6
Alignment explanation
Indices: 11448136--11448162 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11448126 TGTCGAATCG
11448136 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
11448163 GTCGGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:11448949 original size:17 final size:17
Alignment explanation
Indices: 11448927--11448971 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
11448917 GCTTAGTTTA
11448927 CAATTCAATCCTTTATT
1 CAATTCAATCCTTTATT
11448944 CAATTCAATCCTTTATT
1 CAATTCAATCCTTTATT
11448961 CAATTCTAATC
1 CAATTC-AATC
11448972 AAAATTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.44
Consensus pattern (17 bp):
CAATTCAATCCTTTATT
Found at i:11449573 original size:26 final size:26
Alignment explanation
Indices: 11449544--11449615 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
11449534 TTAATTTATT
11449544 TTTAATAATAAT-AATAATAATCATAA
1 TTTAATAATAATAAATAATAAT-ATAA
* *
11449570 TTTAATAAT-ATAAATTATAATTTAA
1 TTTAATAATAATAAATAATAATATAA
**
11449595 TAGAATAATAATAAATAATAA
1 TTTAATAATAATAAATAATAA
11449616 ATATCTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 12 0.31
26 27 0.69
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (26 bp):
TTTAATAATAATAAATAATAATATAA
Found at i:11449575 original size:20 final size:20
Alignment explanation
Indices: 11449552--11449606 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
11449542 TTTTTAATAA
11449552 TAATAATAATAATCATAATT
1 TAATAATAATAATCATAATT
*
11449572 TAATAAT-ATAAATTATAATT
1 TAATAATAAT-AATCATAATT
11449592 TAATAGAATAATAAT
1 TAAT--AATAATAAT
11449607 AAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 20 0.67
22 6 0.20
23 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATAATAATAATCATAATT
Found at i:11454996 original size:20 final size:20
Alignment explanation
Indices: 11454971--11455027 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
11454961 TTTATTTATT
11454971 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
11454991 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
11455011 TTTAATAGAATAATAAT
1 TTTAAT--AATAATAAT
11455028 AAATAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 22 0.69
22 6 0.19
23 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:11457297 original size:5 final size:5
Alignment explanation
Indices: 11457287--11457311 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11457277 GACATTATTT
11457287 ATTAA ATTAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA
11457312 TTTTCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:11462520 original size:27 final size:25
Alignment explanation
Indices: 11462471--11462524 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
11462461 GCTAATACCT
11462471 ATATATGCGTCGATTTTGTTATATA
1 ATATATGCGTCGATTTTGTTATATA
* *
11462496 ATATATGTGTGGATTTTGTTATAT-
1 ATATATGCGTCGATTTTGTTATATA
11462520 ATATA
1 ATATA
11462525 AAATATATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.50
Consensus pattern (25 bp):
ATATATGCGTCGATTTTGTTATATA
Found at i:11463231 original size:23 final size:23
Alignment explanation
Indices: 11463187--11463231 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11463177 TACAATTATT
* *
11463187 TATGTGAACTATGTCATGAATGA
1 TATGTAAACTATGTCATAAATGA
*
11463210 TATGTAAACTATGTTATAAATG
1 TATGTAAACTATGTCATAAATG
11463232 CAATTTATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
TATGTAAACTATGTCATAAATGA
Found at i:11463792 original size:17 final size:17
Alignment explanation
Indices: 11463759--11463808 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
11463749 TATGATGTGC
* *
11463759 TATGAATGAATTATTA-
1 TATGAATGAACTGTTAT
11463775 TATTGAATGAACTGTTAT
1 TA-TGAATGAACTGTTAT
*
11463793 TATGCATGAACTGTTA
1 TATGAATGAACTGTTA
11463809 CTTTATACGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 2 0.07
17 25 0.86
18 2 0.07
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (17 bp):
TATGAATGAACTGTTAT
Found at i:11463820 original size:17 final size:17
Alignment explanation
Indices: 11463800--11463835 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11463790 TATTATGCAT
11463800 GAACTGTTACTTTATAC
1 GAACTGTTACTTTATAC
*
11463817 GAACTGTTATTTTATAC
1 GAACTGTTACTTTATAC
11463834 GA
1 GA
11463836 TCTGCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (17 bp):
GAACTGTTACTTTATAC
Found at i:11463850 original size:18 final size:17
Alignment explanation
Indices: 11463800--11463855 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
11463790 TATTATGCAT
11463800 GAACTGTTACTT-TATAC
1 GAACTGTTA-TTCTATAC
*
11463817 GAACTGTTATTTTATAC
1 GAACTGTTATTCTATAC
* *
11463834 GATCTGCTTATTCTATAT
1 GAACTG-TTATTCTATAC
11463852 GAAC
1 GAAC
11463856 CATTTAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 2 0.06
17 19 0.58
18 12 0.36
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (17 bp):
GAACTGTTATTCTATAC
Found at i:11474579 original size:75 final size:74
Alignment explanation
Indices: 11474347--11474582 Score: 199
Period size: 75 Copynumber: 3.1 Consensus size: 74
11474337 TGTGTGTATC
* * * * * * ****
11474347 ATTGTGACCTTTTATTTATTTGCCACAACTGACCTTACACTTTCATTGTCGACAATTTGGCCACA
1 ATTGTGACCATTTATTT-TTTTCCACAATTGA-C-TACAATTTCAATGTTGACAATTCAATCACA
*
11474412 AAAAACTCGAATA
63 AAATA-TCGAATA
*
11474425 ATTGTGATCATTTAGTTTTTTTCCACAATTGACTACAATTTCAATGTTGACAATTCAATCACAAA
1 ATTGTGACCATTTA-TTTTTTTCCACAATTGACTACAATTTCAATGTTGACAATTCAATCACAAA
* *
11474490 ATTTCGAATG
65 ATATCGAATA
* * * **
11474500 ATTGTGACCA-TT-TTTTTTTCATCACAATTGACTATAATTTCAGTGTTGACCATTCTGTTCACA
1 ATTGTGACCATTTATTTTTTTC--CACAATTGACTACAATTTCAATGTTGACAATTC-AATCACA
11474563 AAATAAT-GAATA
63 AAAT-ATCGAATA
11474575 ATTGTGAC
1 ATTGTGAC
11474583 AATTACTTTC
Statistics
Matches: 131, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
72 8 0.06
74 32 0.24
75 36 0.27
76 27 0.21
77 1 0.01
78 24 0.18
79 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (74 bp):
ATTGTGACCATTTATTTTTTTCCACAATTGACTACAATTTCAATGTTGACAATTCAATCACAAAA
TATCGAATA
Found at i:11474729 original size:15 final size:12
Alignment explanation
Indices: 11474694--11474725 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11474684 ACAAATAAAA
11474694 TAGTTGTTAAGG
1 TAGTTGTTAAGG
11474706 TAGTTGTTAAGG
1 TAGTTGTTAAGG
*
11474718 TATTTGTT
1 TAGTTGTT
11474726 GTTAGCAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (12 bp):
TAGTTGTTAAGG
Found at i:11474944 original size:2 final size:2
Alignment explanation
Indices: 11474937--11474966 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11474927 TGAACCTACT
11474937 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11474967 TTCTGTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11484543 original size:13 final size:13
Alignment explanation
Indices: 11484525--11484549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11484515 ATTTTCTCCA
11484525 AAATGAAAATGAT
1 AAATGAAAATGAT
11484538 AAATGAAAATGA
1 AAATGAAAATGA
11484550 CTTGGAAATG
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:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (13 bp):
AAATGAAAATGAT
Found at i:11486830 original size:37 final size:37
Alignment explanation
Indices: 11486765--11487084 Score: 365
Period size: 37 Copynumber: 8.7 Consensus size: 37
11486755 AGTACACAAG
* * * *
11486765 TAATCCAATCGA-AACACGCCGAACGCTCATAAGAGC
1 TAATCCAACCGATAACATGCCAAATGCTCATAAGAGC
* *
11486801 TAATCTAACCAATAACATGCCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACATGCCAAATGCTCATAAGAGC
* *
11486838 TAATCCAACCGGTAACATGCCCAATGCTCATAAGAGC
1 TAATCCAACCGATAACATGCCAAATGCTCATAAGAGC
* * * *
11486875 TAATCCAATCGATAATACGCCAAGTGCTCATAAGAGC
1 TAATCCAACCGATAACATGCCAAATGCTCATAAGAGC
* * *
11486912 AAATCCAACCGACAACACGCCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACATGCCAAATGCTCATAAGAGC
* * ** *
11486949 TAATCCAACTGACAACATGTAAAATGATCATAAGAGC
1 TAATCCAACCGATAACATGCCAAATGCTCATAAGAGC
* * * * * *
11486986 TAATTCAACTGACAACACGCCAAATGCTTATAAGAGT
1 TAATCCAACCGATAACATGCCAAATGCTCATAAGAGC
* *
11487023 TAATCTAACAGATAACATGCCAAATGCTCA-AAGAGC
1 TAATCCAACCGATAACATGCCAAATGCTCATAAGAGC
*
11487059 TAATCCAACCGATAACAAGCCAAATG
1 TAATCCAACCGATAACATGCCAAATG
11487085 TTCCTGAGAG
Statistics
Matches: 239, Mismatches: 44, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
36 37 0.15
37 202 0.85
ACGTcount: A:0.42, C:0.26, G:0.14, T:0.19
Consensus pattern (37 bp):
TAATCCAACCGATAACATGCCAAATGCTCATAAGAGC
Found at i:11488482 original size:9 final size:9
Alignment explanation
Indices: 11488450--11488482 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
11488440 AAAAGTATGT
11488450 TTCATTTTC
1 TTCATTTTC
11488459 TTC-TTTTC
1 TTCATTTTC
11488467 ATTCATTTTC
1 -TTCATTTTC
11488477 TTCATT
1 TTCATT
11488483 GCTCCAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 12 0.55
10 5 0.23
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (9 bp):
TTCATTTTC
Found at i:11490604 original size:17 final size:17
Alignment explanation
Indices: 11490578--11490611 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11490568 TCTTTTCTTT
*
11490578 TAGGCCTTATGAATAGA
1 TAGGCATTATGAATAGA
*
11490595 TAGGCATTATGAGTAGA
1 TAGGCATTATGAATAGA
11490612 ATAACTGTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (17 bp):
TAGGCATTATGAATAGA
Found at i:11493885 original size:7 final size:7
Alignment explanation
Indices: 11493873--11493907 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
11493863 CAGTGATGAA
11493873 TTCCATC
1 TTCCATC
11493880 TTCCATC
1 TTCCATC
11493887 TTCCATC
1 TTCCATC
11493894 TTCCATC
1 TTCCATC
11493901 TTCCATC
1 TTCCATC
11493908 ATGCCATGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (7 bp):
TTCCATC
Found at i:11498294 original size:26 final size:26
Alignment explanation
Indices: 11498258--11498309 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11498248 TTCTTGGAGA
11498258 AAGTTCGATGTATGCTATCCAATGCT
1 AAGTTCGATGTATGCTATCCAATGCT
11498284 AAGTTCGATGTATGCTATCCAATGCT
1 AAGTTCGATGTATGCTATCCAATGCT
11498310 GGATTAGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
AAGTTCGATGTATGCTATCCAATGCT
Found at i:11509282 original size:49 final size:49
Alignment explanation
Indices: 11509068--11509381 Score: 247
Period size: 49 Copynumber: 6.5 Consensus size: 49
11509058 TCTGTGTGCT
* *
11509068 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGAT-AGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAG-TGAGAGCC
* * ** * *
11509117 AGTGTAAGACTTGTTTGGGACACAGCATCGGCCTCAAGATATGT-A-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CTC-AGATAAGTGAGAGCC
* * * * **
11509166 AGTGTAAGACCTATCTGGGACATGGCATCGGCT-TG--AGGTG-TA-TT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
* * *
11509210 AGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
* * ** * *
11509259 AGTGTAAGACCTGTCTAGGACATGGCATCGGTTTTGATGTA-TGTA-AGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGAT-AAGTG-AGAGCC
* *
11509308 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGAT--GTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
* *
11509355 AGTGTAAGACCATGTTTGGAACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
11509382 GTCAGCATCA
Statistics
Matches: 211, Mismatches: 39, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
44 35 0.17
45 2 0.01
46 2 0.01
47 20 0.09
48 16 0.08
49 126 0.60
50 5 0.02
51 4 0.02
52 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
Found at i:11509325 original size:142 final size:142
Alignment explanation
Indices: 11509067--11509337 Score: 377
Period size: 142 Copynumber: 1.9 Consensus size: 142
11509057 ATCTGTGTGC
* * * * *
11509067 TAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATGAGAGCCAGTGTAAGACTTGTT
1 TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAGATGAGAGCCAGTGTAAGACCTGTC
*
11509132 TGGGACACAGCATCGGCCTCAAGATATGTAAGCTAGTGTAAGACCTATCTGGGACATGGCATCGG
66 TAGGACACAGCATCGGCCTCAAGATATGTAAGCTAGTGTAAGACCTATCTGGGACATGGCATCGG
11509197 CTTGAGGTGTAT
131 CTTGAGGTGTAT
11509209 TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATA-AGTGAGAGCCAGTGTAAGACCTGT
1 TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAGA-TGAGAGCCAGTGTAAGACCTGT
** ** * * *
11509273 CTAGGACATGGCATCGGTTTTGATG-TATGTAAG-TCAGTGTAAGACCTGTCTGGGACATGGCAT
65 CTAGGACACAGCATCGG-CCTCAAGATATGTAAGCT-AGTGTAAGACCTATCTGGGACATGGCAT
11509336 CG
128 CG
11509338 ACTTAGATGT
Statistics
Matches: 113, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
141 2 0.02
142 108 0.96
143 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (142 bp):
TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAGATGAGAGCCAGTGTAAGACCTGTC
TAGGACACAGCATCGGCCTCAAGATATGTAAGCTAGTGTAAGACCTATCTGGGACATGGCATCGG
CTTGAGGTGTAT
Found at i:11509334 original size:98 final size:95
Alignment explanation
Indices: 11509068--11509381 Score: 309
Period size: 98 Copynumber: 3.3 Consensus size: 95
11509058 TCTGTGTGCT
** * * *
11509068 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATG-AGAGCCAGTGTAAGACTTGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-ATTGAT-GATGTA-AGTCAGTGTAAGACCTGTC
** * *
11509132 TGGGACACAGCATCGGCCTCAAGATA-TGTA-AGCT
63 TGGGACATGGCATC-GACTC-AGATAGTG-AGAGCC
* * * * *
11509166 AGTGTAAGACCTATCTGGGACATGGCATCGGCTTGA-GGTGT-A-TTAGTGTAAGACCTATCTGG
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGATTGATGATGTAAGTCAGTGTAAGACCTGTCTGG
*
11509228 GACATGGCATCGACACAGATAAGTGAGAGCC
66 GACATGGCATCGACTCAGAT-AGTGAGAGCC
* *
11509259 AGTGTAAGACCTGTCTAGGACATGGCATCGGTTTTGATGTATGTAAGTCAGTGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-ATTGATG-ATGTAAGTCAGTGTAAGACCTGTCT
*
11509324 GGGACATGGCATCGACTTAGAT-GTGAGAGCC
64 GGGACATGGCATCGACTCAGATAGTGAGAGCC
* *
11509355 AGTGTAAGACCATGTTTGGAACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
11509382 GTCAGCATCA
Statistics
Matches: 180, Mismatches: 26, Indels: 21
0.79 0.11 0.09
Matches are distributed among these distances:
91 4 0.02
92 5 0.03
93 58 0.32
94 5 0.03
95 4 0.02
96 23 0.13
97 15 0.08
98 66 0.37
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (95 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGATTGATGATGTAAGTCAGTGTAAGACCTGTCTGG
GACATGGCATCGACTCAGATAGTGAGAGCC
Found at i:11510634 original size:21 final size:22
Alignment explanation
Indices: 11510593--11510634 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11510583 GTTAAGAAGG
11510593 CCACACAGGCATGTCGCCCCTT
1 CCACACAGGCATGTCGCCCCTT
* *
11510615 CCACACGGGCGTGT-GCCCCT
1 CCACACAGGCATGTCGCCCCT
11510635 ATTTCACGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.14, C:0.45, G:0.24, T:0.17
Consensus pattern (22 bp):
CCACACAGGCATGTCGCCCCTT
Found at i:11513464 original size:8 final size:8
Alignment explanation
Indices: 11513444--11513486 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
11513434 GGTATTCTAC
11513444 TTTTTC-T
1 TTTTTCTT
11513451 TTTTTCTT
1 TTTTTCTT
*
11513459 TGTTTCTT
1 TTTTTCTT
11513467 TTTTTCTT
1 TTTTTCTT
11513475 TTTTTCTT
1 TTTTTCTT
11513483 TTTT
1 TTTT
11513487 AGAATCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:11516239 original size:59 final size:57
Alignment explanation
Indices: 11516173--11516361 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
11516163 ATTTTATTAA
11516173 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
11516232 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
11516293 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
11516352 ATCATATATT
1 ATCATATATT
11516362 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:11516270 original size:66 final size:64
Alignment explanation
Indices: 11516200--11516398 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
11516190 AAATATATTT
*
11516200 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
11516265 G
64 G
* * * * **
11516266 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
11516320 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
11516385 G
64 G
*
11516386 AATATTGATTATT
1 AATATTAATTATT
11516399 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:11516292 original size:120 final size:120
Alignment explanation
Indices: 11516162--11516459 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
11516152 AATTATTTTA
* * *
11516162 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
11516226 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
11516282 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
11516347 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
11516402 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
11516460 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:11516302 original size:61 final size:61
Alignment explanation
Indices: 11516235--11516422 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
11516225 TTATAGTATC
*
11516235 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
11516296 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
11516354 C
61 T
*
11516355 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
11516416 CTATATT
1 ATATATT
11516423 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:11516322 original size:15 final size:15
Alignment explanation
Indices: 11516287--11516338 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
11516277 TTAAGAATTT
*
11516287 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11516301 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11516315 TATTTAATAATAAT-
1 TATTTAATTATAATA
11516329 TATGTTAATT
1 TAT-TTAATT
11516339 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11516694 original size:16 final size:16
Alignment explanation
Indices: 11516673--11516740 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
11516663 GATTTGCTAT
11516673 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11516689 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
11516705 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
11516721 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11516737 TACA
1 TACA
11516741 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11519561 original size:21 final size:20
Alignment explanation
Indices: 11519537--11519576 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
11519527 AAACAAAGTC
11519537 AAAGAAAGAAGAAAA-AAATAT
1 AAAGAAA-AA-AAAAGAAATAT
11519558 AAAGAAAAAAAAAGAAATA
1 AAAGAAAAAAAAAGAAATA
11519577 AGAGGAACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (20 bp):
AAAGAAAAAAAAAGAAATAT
Found at i:11520999 original size:24 final size:23
Alignment explanation
Indices: 11520970--11521023 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
11520960 TAATTATATA
11520970 AAAATAATAATCAAAATTTTG-TTT
1 AAAATAA-AAT-AAAATTTTGCTTT
*
11520994 AAAATAAAATAAAGTTTTGTCTTT
1 AAAATAAAATAAAATTTTG-CTTT
11521018 AAAATA
1 AAAATA
11521024 TTAAAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 8 0.30
23 3 0.11
24 16 0.59
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (23 bp):
AAAATAAAATAAAATTTTGCTTT
Found at i:11523162 original size:18 final size:20
Alignment explanation
Indices: 11523120--11523156 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11523110 ATATTTTATG
*
11523120 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
11523139 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
11523157 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:11525377 original size:46 final size:46
Alignment explanation
Indices: 11525321--11525639 Score: 392
Period size: 46 Copynumber: 7.0 Consensus size: 46
11525311 AGTGTGCTCT
*
11525321 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
11525367 CT-ATTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
11525413 CTGATATGAAACGTGTAAAACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
11525458 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ***
11525504 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
11525550 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** * *
11525596 ATGACA-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
11525640 TCATGTCAAA
Statistics
Matches: 245, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
45 45 0.18
46 199 0.81
47 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:11525573 original size:137 final size:137
Alignment explanation
Indices: 11525321--11525593 Score: 388
Period size: 137 Copynumber: 2.0 Consensus size: 137
11525311 AGTGTGCTCT
* * * * ***
11525321 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAACCTATTATGAAATGTGTAAG
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGAGGAAATAAATAAG
* * **
11525386 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAAACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
11525451 ATGGCAC
131 ATGGCAC
11525458 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA-C-ATGACGGGAAATAAATA
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGA--GGAAATAAATA
* * *
11525521 AGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATA
64 AGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGATA
11525586 CCATGGCA
129 CCATGGCA
11525594 ACATGACAGA
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
135 3 0.03
136 1 0.01
137 116 0.97
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (137 bp):
CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGAGGAAATAAATAAG
ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
ATGGCAC
Found at i:11525655 original size:137 final size:136
Alignment explanation
Indices: 11525382--11525666 Score: 358
Period size: 137 Copynumber: 2.1 Consensus size: 136
11525372 ATGAAATGTG
* * **
11525382 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAAACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGA
* * * ** * *
11525447 TACCATGGCACCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
66 TACCATGGCACATGACATGAAACGAGTAAGACCATAATTGAAAGACACCATGGCAACATGAC-GA
11525512 AAATAAA
130 AAATAAA
* * *
11525519 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGA
* * * *
11525584 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCATCATGTC-
66 TACCATGGC-ACATGACATG-AAACGAGTAAGACCATAATTGAAAGACACCATGGCAACATGACG
11525647 AAAGATAAA
129 AAA-ATAAA
11525656 TAAGACCATGG
1 TAAGACCATGG
11525667 ATGGGAGACG
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
136 2 0.02
137 84 0.66
138 41 0.32
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGA
TACCATGGCACATGACATGAAACGAGTAAGACCATAATTGAAAGACACCATGGCAACATGACGAA
AATAAA
Found at i:11525662 original size:183 final size:182
Alignment explanation
Indices: 11525336--11525666 Score: 409
Period size: 183 Copynumber: 1.8 Consensus size: 182
11525326 ATGAAATGTG
* * **
11525336 TAAGACCATGGTTGAAAGATACGATGGCAACCTATTATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTATCATGAAATGAATAAGACCATGGTTGAAAGA
* * * * ** * * *
11525401 TACCATGGCAGCCTGATATGAAACGTGTAAAACCATGGTTGAAAGATACCATGGCACCTGATATG
66 TACCATGGCAACATGACATGAAACGAGTAAAACCATAATTGAAAGACACCATGGCA-CTCATATC
*
11525466 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAA
130 AAACGTATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAA
*
11525519 TAAGACCATGGTTGAAAGATACCATGGCAACGTGA-CATGAAATGAATAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCT-ATCATGAAATGAATAAGACCATGGTTGAAAG
* * * *
11525583 ATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCA-TCATGT
65 ATACCATGGCAACATGACATG-AAACGAGTAAAACCATAATTGAAAGACACCATGGCACTCATAT
11525646 CAAA-GATAAATAAGACCATGG
129 CAAACG-T--ATAAGACCATGG
11525667 ATGGGAGACG
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
180 1 0.01
181 8 0.06
182 1 0.01
183 113 0.91
184 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (182 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTATCATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAACGAGTAAAACCATAATTGAAAGACACCATGGCACTCATATCA
AACGTATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAA
Found at i:11527465 original size:24 final size:24
Alignment explanation
Indices: 11527444--11527497 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
11527434 AAATAAAACG
11527444 AAAAAGAAGATAGAAAAGAAAAAGA
1 AAAAAGAA-ATAGAAAAGAAAAAGA
*
11527469 AAAAAGAAATAGAAAA-AAGAAATA
1 AAAAAGAAATAGAAAAGAA-AAAGA
11527493 AAAAA
1 AAAAA
11527498 ATTGAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.07
24 17 0.63
25 8 0.30
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (24 bp):
AAAAAGAAATAGAAAAGAAAAAGA
Found at i:11527466 original size:18 final size:18
Alignment explanation
Indices: 11527438--11527490 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
11527428 CAAAATAAAT
* *
11527438 AAAACGAAAAAGAAGATAG
1 AAAA-GAAAAAGAAAAAAG
11527457 AAAAGAAAAAGAAAAAAG
1 AAAAGAAAAAGAAAAAAG
11527475 AAATAGAAAAAAGAAA
1 AAA-AG-AAAAAGAAA
11527491 TAAAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 15 0.50
19 6 0.20
20 9 0.30
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAAAG
Found at i:11527485 original size:25 final size:25
Alignment explanation
Indices: 11527444--11527498 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
11527434 AAATAAAACG
11527444 AAAAAGAAGATAG-AAAAGAAAAAGA
1 AAAAAGAAGATAGAAAAAGAAAAA-A
*
11527469 AAAAAGAA-ATAGAAAAAAGAAATAA
1 AAAAAGAAGATAG-AAAAAGAAAAAA
11527494 AAAAA
1 AAAAA
11527499 TTGAAGAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 4 0.15
25 14 0.52
26 9 0.33
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (25 bp):
AAAAAGAAGATAGAAAAAGAAAAAA
Found at i:11527491 original size:13 final size:13
Alignment explanation
Indices: 11527444--11527498 Score: 71
Period size: 13 Copynumber: 4.4 Consensus size: 13
11527434 AAATAAAACG
11527444 AAAAAGAAGATAG-
1 AAAAAGAA-ATAGA
*
11527457 -AAAAGAAAAAGA
1 AAAAAGAAATAGA
11527469 AAAAAGAAATAGA
1 AAAAAGAAATAGA
11527482 AAAAAGAAATA-A
1 AAAAAGAAATAGA
11527494 AAAAA
1 AAAAA
11527499 TTGAAGAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
11 3 0.08
12 13 0.34
13 22 0.58
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (13 bp):
AAAAAGAAATAGA
Found at i:11536569 original size:46 final size:46
Alignment explanation
Indices: 11536509--11536828 Score: 453
Period size: 46 Copynumber: 7.0 Consensus size: 46
11536499 TTTGACATGA
* * * * * *
11536509 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
11536555 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11536601 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11536647 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATAAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11536693 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATAAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *
11536739 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
11536785 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCGTATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11536829 AGAGCACACT
Statistics
Matches: 248, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 244 0.98
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11538970 original size:3 final size:3
Alignment explanation
Indices: 11538956--11539004 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
11538946 TTTTATACTA
*
11538956 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11538999 AA- AAT A
1 AAT AAT A
11539005 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11538978 original size:11 final size:11
Alignment explanation
Indices: 11538962--11539000 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
11538952 ACTAAATAAT
11538962 TAATAATAAAA
1 TAATAATAAAA
*
11538973 TAATAATGAAA
1 TAATAATAAAA
11538984 TAATAATAAAA
1 TAATAATAAAA
11538995 TAATAA
1 TAATAA
11539001 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:11538987 original size:19 final size:19
Alignment explanation
Indices: 11538963--11539004 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11538953 CTAAATAATT
*
11538963 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
11538982 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
11539001 AATA
1 AATA
11539005 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:11539027 original size:20 final size:21
Alignment explanation
Indices: 11538974--11539049 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
11538964 ATAATAAAAT
* *
11538974 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
11538993 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
11539014 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
11539035 TAATCATAAAATATC
1 -AATAATAAAATATC
11539050 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:11546134 original size:14 final size:13
Alignment explanation
Indices: 11546114--11546145 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
11546104 AATATTTAAC
11546114 TTGTTCTTAATTA
1 TTGTTCTTAATTA
11546127 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
11546141 TTGTT
1 TTGTT
11546146 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:11546909 original size:29 final size:27
Alignment explanation
Indices: 11546848--11546913 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
11546838 TTTACAAGGA
*
11546848 AAGAGAGGTTGGTGGATAAAAGTTATG
1 AAGAGAGGTTGGTGGATAAAAGTGATG
*
11546875 AAGAGAGGTTGGTGGATTAGAAGTGGAT-
1 AAGAGAGGTTGGTGGA-TAAAAGT-GATG
11546903 AGAGAGAGGTT
1 A-AGAGAGGTT
11546914 TTTTAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.47
28 7 0.21
29 11 0.32
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (27 bp):
AAGAGAGGTTGGTGGATAAAAGTGATG
Found at i:11547793 original size:22 final size:22
Alignment explanation
Indices: 11547746--11547793 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
11547736 ATAATATAGA
*
11547746 TTTAATAAATGCAGAAAAAATCT
1 TTTAATAAAT-CAGAAAAAATAT
11547769 TTTAATAAAT-AGAAAGAAATAT
1 TTTAATAAATCAGAAA-AAATAT
11547791 TTT
1 TTT
11547794 GAATTGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 8 0.35
23 10 0.43
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (22 bp):
TTTAATAAATCAGAAAAAATAT
Done.