Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 179 of 362
Found at i:59012051 original size:399 final size:400
Alignment explanation
Indices: 59011205--59012394 Score: 2073
Period size: 399 Copynumber: 3.0 Consensus size: 400
59011195 GAACAAATTG
* *
59011205 CTTAGTTATGTTTTGTTCTTCTAAATATTCAACTTGTTCATAAAAAAAAACAATACTTACATATA
1 CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAAACAATACTTACATACA
59011270 TATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAGAAGCTCACT
66 TATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAGAAGCTCACT
* *
59011335 TGTATTCAACTAATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATATCGATTCTAA
131 TGTATTCAACTGATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCTAA
* *
59011400 CATCTTCTTTTAGCTTGTTACCACACCTCCTAACCAAAGCCACGTTACAACCCTCTAAAAGACCT
196 CATCTTCTTTTAGCTTGTGACCACACCCCCTAACCAAAGCCACGTTACAACCCTCTAAAAGACCT
59011465 TTTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTTCAAGCAAGCTTATGGTA
261 TTTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTTCAAGCAAGCTTATGGTA
*
59011530 ATAACTTTTCAAATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTGAG
326 ATAACTTTTCAATTTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTGAG
59011595 TGAAACAATA
391 TGAAACAATA
* *
59011605 ATTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCAT-AAAAAAAACAATACTTACATGCA
1 CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAAACAATACTTACATACA
* * *
59011669 TATTAGTAGTAATTCGTCACTTTTGAGCTTGAGTGTCAATTCCATATTCTGAGAAAAAGCTCACT
66 TATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAGAAGCTCACT
* *
59011734 TGTATTTAACTGATGACTAGTTATTTTTCTAGCCAGGTAATTTTTCAATTCAATCTCGATTCTAA
131 TGTATTCAACTGATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCTAA
* *
59011799 CATCTTCTTTCAGCTTGTGACTACACCCCCTAA-CAAAGCCACGTTACAACCCTCTAAAAGACCT
196 CATCTTCTTTTAGCTTGTGACCACACCCCCTAACCAAAGCCACGTTACAACCCTCTAAAAGACCT
*
59011863 TTTTGATTGATGTATTAGCTCAATATATAGTGGTGGAGATTTGATTTTCCAA-CAAGCTTATGGT
261 TTTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTT-CAAGCAAGCTTATGGT
*
59011927 AATAAATTTTCAATTTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTGA
325 AATAACTTTTCAATTTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTGA
59011992 GTGAAACAATA
390 GTGAAACAATA
*
59012003 CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAAACAATATTTACATACA
1 CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAAACAATACTTACATACA
* *
59012068 TAGTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTTCATATTCTGAGAAGAAGCTCACT
66 TATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAGAAGCTCACT
* *
59012133 TATATTCAACTGATGGCTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCTAA
131 TGTATTCAACTGATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCTAA
* *
59012198 CATCTTATTTTAGCTTGTGACCACACCCCCTAACCAAAGCCACGTTACAACCTTCTAAAAGACCT
196 CATCTTCTTTTAGCTTGTGACCACACCCCCTAACCAAAGCCACGTTACAACCCTCTAAAAGACCT
* *
59012263 TTTTGATTGATGTATCAGCTCAATATATAGTGGTAGAAATTTGATTTTCAAGCAAGCTTATGGTA
261 TTTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTTCAAGCAAGCTTATGGTA
* *
59012328 ATAACTTTTC-ATATTGAATAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTAA
326 ATAACTTTTCAAT-TTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTGA
59012392 GTG
390 GTG
59012395 TATCTCTAGT
Statistics
Matches: 745, Mismatches: 40, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
398 204 0.27
399 353 0.47
400 188 0.25
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (400 bp):
CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAAACAATACTTACATACA
TATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAGAAGCTCACT
TGTATTCAACTGATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCTAA
CATCTTCTTTTAGCTTGTGACCACACCCCCTAACCAAAGCCACGTTACAACCCTCTAAAAGACCT
TTTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTTCAAGCAAGCTTATGGTA
ATAACTTTTCAATTTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTGAG
TGAAACAATA
Found at i:59013387 original size:14 final size:13
Alignment explanation
Indices: 59013367--59013398 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
59013357 AATATTTGAT
59013367 TTGTTCTTAATTA
1 TTGTTCTTAATTA
59013380 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
59013394 TTGTT
1 TTGTT
59013399 TTGATATTTC
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:59015342 original size:40 final size:40
Alignment explanation
Indices: 59015287--59015364 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 40
59015277 TGCAGTACCT
* *
59015287 TATGGTGTGTAGGGAT-AGATGGGTCGATTTTATCCCCATA
1 TATGGTGTGCAGGGATGAG-TGGGTCAATTTTATCCCCATA
59015327 TATGGTGTGCAGGGATGAGTGGGTCAATTTTATCCCCA
1 TATGGTGTGCAGGGATGAGTGGGTCAATTTTATCCCCA
59015365 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 33 0.94
41 2 0.06
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGAGTGGGTCAATTTTATCCCCATA
Found at i:59019348 original size:14 final size:15
Alignment explanation
Indices: 59019329--59019363 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
59019319 CTATATAGTA
*
59019329 ATTAAATTCA-ATTT
1 ATTAAATTCACATAT
59019343 ATTAAATTCACATAT
1 ATTAAATTCACATAT
59019358 ATTAAA
1 ATTAAA
59019364 AAATCAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTAAATTCACATAT
Found at i:59021927 original size:20 final size:20
Alignment explanation
Indices: 59021875--59021928 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
59021865 ACAATAATTC
59021875 AAAA-AATTTTAAAATATTA
1 AAAATAATTTTAAAATATTA
* * *
59021894 AAAATAAATATAAATTATTA
1 AAAATAATTTTAAAATATTA
*
59021914 AAAATATTTTTAAAA
1 AAAATAATTTTAAAA
59021929 ATAAAATTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATAATTTTAAAATATTA
Found at i:59021930 original size:28 final size:28
Alignment explanation
Indices: 59021899--59021959 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 28
59021889 TATTAAAAAT
59021899 AAATATAAA-TTAT-TAAAAATATTTTTAA
1 AAATA-AAATTTATATAAAAAT-TTTTTAA
59021927 AAATAAAATTTATCAATAAAAATTTTTTAA
1 AAATAAAATTTAT--ATAAAAATTTTTTAA
59021957 AAA
1 AAA
59021960 ATTAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 3 0.10
28 9 0.31
30 10 0.34
31 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATAAAATTTATATAAAAATTTTTTAA
Found at i:59021932 original size:32 final size:30
Alignment explanation
Indices: 59021891--59021959 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
59021881 TTTTAAAATA
* *
59021891 TTAAAAATAAATATAAATTATTAAAAATATTT
1 TTAAAAATAAA-ATAAATCAATAAAAAT-TTT
**
59021923 TTAAAAATAAAATTTATCAATAAAAATTTT
1 TTAAAAATAAAATAAATCAATAAAAATTTT
59021953 TTAAAAA
1 TTAAAAA
59021960 ATTAAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 10 0.30
31 12 0.36
32 11 0.33
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
TTAAAAATAAAATAAATCAATAAAAATTTT
Found at i:59022905 original size:29 final size:29
Alignment explanation
Indices: 59022870--59022931 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
59022860 AAAACCAATT
59022870 CAATACCTTAATCTCATACCATACTATGC
1 CAATACCTTAATCTCATACCATACTATGC
59022899 CAATACCTTAATCTCATACCATACTATGC
1 CAATACCTTAATCTCATACCATACTATGC
59022928 CAAT
1 CAAT
59022932 TCATAATCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (29 bp):
CAATACCTTAATCTCATACCATACTATGC
Found at i:59024619 original size:28 final size:28
Alignment explanation
Indices: 59024586--59024656 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
59024576 ATATTAAGTC
* *
59024586 CGCACACTCAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
59024614 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
59024642 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59024657 GTACAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:59028838 original size:28 final size:26
Alignment explanation
Indices: 59028796--59028847 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
59028786 TTTCCCATGT
59028796 TTGATTGAAGCCAAAAATAAATAAAAAC
1 TTGATTGAAGCCAAAAA-AAA-AAAAAC
59028824 TTGATTGTAAG-CAAAAAAAAAAAA
1 TTGATTG-AAGCCAAAAAAAAAAAA
59028848 GATCGACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 4 0.17
27 3 0.13
28 13 0.57
29 3 0.13
ACGTcount: A:0.60, C:0.08, G:0.12, T:0.21
Consensus pattern (26 bp):
TTGATTGAAGCCAAAAAAAAAAAAAC
Found at i:59032475 original size:17 final size:17
Alignment explanation
Indices: 59032453--59032488 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
59032443 AACTCACTCA
59032453 CACAACACAATACAAGG
1 CACAACACAATACAAGG
59032470 CACAACACAATACAAGG
1 CACAACACAATACAAGG
59032487 CA
1 CA
59032489 GTACTCAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.31, G:0.11, T:0.06
Consensus pattern (17 bp):
CACAACACAATACAAGG
Found at i:59033597 original size:3 final size:3
Alignment explanation
Indices: 59033591--59033620 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
59033581 TTATTAATAC
59033591 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
59033621 GATTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:59033628 original size:3 final size:3
Alignment explanation
Indices: 59033622--59033679 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
59033612 CATCATCATG
59033622 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
59033670 ATT ATT ATT A
1 ATT ATT ATT A
59033680 ATTTTTTACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:59039639 original size:17 final size:17
Alignment explanation
Indices: 59039617--59039656 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
59039607 TTTTAAAATT
59039617 TATTTTCAAT-TTTTTAA
1 TATTTT-AATATTTTTAA
*
59039634 TATTTTAATATTTTTAG
1 TATTTTAATATTTTTAA
59039651 TATTTT
1 TATTTT
59039657 GATGTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TATTTTAATATTTTTAA
Found at i:59040007 original size:22 final size:21
Alignment explanation
Indices: 59039981--59040023 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
59039971 TATCTTTTTT
59039981 ATATTAAAATT-TAATAATAATA
1 ATATT-AAATTATAAT-ATAATA
59040003 ATATTAAATTATAATATAATA
1 ATATTAAATTATAATATAATA
59040024 GTTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATTAAATTATAATATAATA
Found at i:59040391 original size:21 final size:20
Alignment explanation
Indices: 59040358--59040400 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
59040348 TTAATATGGT
59040358 ATTTGTACTTTGAAATATTCA
1 ATTTGTACTTTGAAATA-TCA
*
59040379 ATTTGATAC-TTGAACTATCA
1 ATTTG-TACTTTGAAATATCA
59040399 AT
1 AT
59040401 ATGTGCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (20 bp):
ATTTGTACTTTGAAATATCA
Found at i:59040606 original size:20 final size:20
Alignment explanation
Indices: 59040581--59040631 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
59040571 TAATATTGCG
59040581 AGAAATCTAAA-TAAAATAAA
1 AGAAAT-TAAATTAAAATAAA
*
59040601 AGAAATTAAATTAAATTAAAA
1 AGAAATTAAATTAAAAT-AAA
*
59040622 AGTAATTAAA
1 AGAAATTAAA
59040632 CATATGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 4 0.15
20 11 0.41
21 12 0.44
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AGAAATTAAATTAAAATAAA
Found at i:59041076 original size:29 final size:29
Alignment explanation
Indices: 59041041--59041097 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
59041031 CCGCATTAAA
* *
59041041 CATTTTCAAGGTACAAGTATCACATTGGG
1 CATTTTCAAAGTACAAGTACCACATTGGG
* *
59041070 CATTTTCAAAGTATAAGTACCATATTGG
1 CATTTTCAAAGTACAAGTACCACATTGG
59041098 AAATATTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (29 bp):
CATTTTCAAAGTACAAGTACCACATTGGG
Found at i:59042254 original size:3 final size:3
Alignment explanation
Indices: 59042246--59042277 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
59042236 ATAAGAAGCA
59042246 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
59042278 TTCTAGAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:59043995 original size:40 final size:42
Alignment explanation
Indices: 59043951--59044053 Score: 138
Period size: 40 Copynumber: 2.5 Consensus size: 42
59043941 ACTTGATATA
59043951 TGATTCGCATGTTAAGCATGCTCACTGTACTGA-T-TAAATC
1 TGATTCGCATGTTAAGCATGCTCACTGTACTGATTATAAATC
* * * * * *
59043991 TGATTCGGATGTTAAACATACTGACTGTATTGATTATAAATT
1 TGATTCGCATGTTAAGCATGCTCACTGTACTGATTATAAATC
59044033 TGATTCGCATGTTAAGCATGC
1 TGATTCGCATGTTAAGCATGC
59044054 CAACTGAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 28 0.54
41 1 0.02
42 23 0.44
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (42 bp):
TGATTCGCATGTTAAGCATGCTCACTGTACTGATTATAAATC
Found at i:59044964 original size:14 final size:14
Alignment explanation
Indices: 59044945--59044985 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
59044935 CTACGACATT
59044945 TTCAAAGTAAAATG
1 TTCAAAGTAAAATG
59044959 TTCAAAGT--AA-G
1 TTCAAAGTAAAATG
59044970 TTCAAAGTAAAATG
1 TTCAAAGTAAAATG
59044984 TT
1 TT
59044986 TTCTTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 9 0.38
12 2 0.08
13 2 0.08
14 11 0.46
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (14 bp):
TTCAAAGTAAAATG
Found at i:59045421 original size:15 final size:15
Alignment explanation
Indices: 59045401--59045454 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
59045391 TCTTATATAC
*
59045401 TGAAACTTTAGATTG
1 TGAAACTATAGATTG
* *
59045416 TGAAACTATAGACTA
1 TGAAACTATAGATTG
*
59045431 TGAAACTATAGATAG
1 TGAAACTATAGATTG
59045446 TGAAACTAT
1 TGAAACTAT
59045455 GACTAAACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (15 bp):
TGAAACTATAGATTG
Found at i:59045435 original size:30 final size:29
Alignment explanation
Indices: 59045401--59045459 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
59045391 TCTTATATAC
* *
59045401 TGAAACTTTAGATTGTGAAACTATAGACTA
1 TGAAACTATAGATAGTGAAACTAT-GACTA
59045431 TGAAACTATAGATAGTGAAACTATGACTA
1 TGAAACTATAGATAGTGAAACTATGACTA
59045460 AACTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (29 bp):
TGAAACTATAGATAGTGAAACTATGACTA
Found at i:59052582 original size:52 final size:51
Alignment explanation
Indices: 59052524--59052673 Score: 140
Period size: 52 Copynumber: 2.9 Consensus size: 51
59052514 GACGGAAAAG
* *
59052524 ATGTGATATGTGCTTCCATATAAGACCATAGCTGGGCTATGGCATAGATACA
1 ATGTGATATGTG-TTCCGTATAAGACCATAGATGGGCTATGGCATAGATACA
* * * * * **
59052576 ATGTGAT-TCGAGTTCCCGTATAAGACCATAGTTGGGCTATGGTATCGGTGTA
1 ATGTGATAT-GTGTT-CCGTATAAGACCATAGATGGGCTATGGCATAGATACA
* * *
59052628 ATGCGATAATGTGATTCCGTATAAGACCATATATGGGATATGGCAT
1 ATGTGAT-ATGTG-TTCCGTATAAGACCATAGATGGGCTATGGCAT
59052674 CGGTATGTTA
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
51 3 0.04
52 45 0.57
53 28 0.35
54 3 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (51 bp):
ATGTGATATGTGTTCCGTATAAGACCATAGATGGGCTATGGCATAGATACA
Found at i:59054363 original size:33 final size:33
Alignment explanation
Indices: 59054325--59054454 Score: 179
Period size: 33 Copynumber: 3.9 Consensus size: 33
59054315 GGATGAGTGG
*
59054325 GAGTGTTTGGTTGCTAGAGAGGAGCTGGAATGT
1 GAGTGTTTGGTTGCTAGATAGGAGCTGGAATGT
* * *
59054358 GAGTGTTTGGTTGTTGGATAGAAGCTGGAATGT
1 GAGTGTTTGGTTGCTAGATAGGAGCTGGAATGT
*
59054391 GAGTGTTTGGTTGCTAGATAGGAGATGGAATGT
1 GAGTGTTTGGTTGCTAGATAGGAGCTGGAATGT
* * * *
59054424 AAGTGTTTGGTTGCTGGACAGGAGCTAGAAT
1 GAGTGTTTGGTTGCTAGATAGGAGCTGGAAT
59054455 TTCAAGAAGA
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.23, C:0.05, G:0.39, T:0.32
Consensus pattern (33 bp):
GAGTGTTTGGTTGCTAGATAGGAGCTGGAATGT
Found at i:59060523 original size:32 final size:32
Alignment explanation
Indices: 59060482--59060547 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
59060472 ATCCCAAGAA
59060482 TCAAACTTAGGATCTCCTTCTTTAGGTCTACT
1 TCAAACTTAGGATCTCCTTCTTTAGGTCTACT
*
59060514 TCAAACTTAGGATCTTCTTCTTTAGGTCTACT
1 TCAAACTTAGGATCTCCTTCTTTAGGTCTACT
59060546 TC
1 TC
59060548 TGAGTAAGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (32 bp):
TCAAACTTAGGATCTCCTTCTTTAGGTCTACT
Found at i:59067594 original size:3 final size:3
Alignment explanation
Indices: 59067586--59067611 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59067576 TATTGTTTAC
59067586 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
59067612 CCGAGTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:59073211 original size:24 final size:25
Alignment explanation
Indices: 59073165--59073211 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
59073155 TACAGGGACC
59073165 AATTTTAACAGTAAAAATAAATTAA
1 AATTTTAACAGTAAAAATAAATTAA
* *
59073190 AATTTTAATAG-AAAAATTAATT
1 AATTTTAACAGTAAAAATAAATT
59073212 TATTCTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTTTAACAGTAAAAATAAATTAA
Found at i:59079250 original size:5 final size:5
Alignment explanation
Indices: 59079240--59079271 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
59079230 AGAGAAATTC
59079240 AAAA- AAAA- AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
59079272 TGATGTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:59082502 original size:40 final size:40
Alignment explanation
Indices: 59082439--59082753 Score: 497
Period size: 40 Copynumber: 7.9 Consensus size: 40
59082429 CTCACCGATG
*
59082439 ATCCGGGCTAAG-CCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
59082478 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
59082518 ATTCGGGCTAAGTCCCGAAAAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
59082558 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
59082598 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
59082638 ATCCGGGCTAAGTCTCGAATAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
** *
59082678 ATCAAGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
59082718 ATCCGGGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
59082754 ATGTGTATTC
Statistics
Matches: 252, Mismatches: 23, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 12 0.05
40 240 0.95
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:59085147 original size:26 final size:26
Alignment explanation
Indices: 59085111--59085220 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
59085101 TGATACAAAT
*
59085111 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59085137 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
59085163 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
59085189 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59085215 TGATAA
1 TGATAA
59085221 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:59086424 original size:8 final size:8
Alignment explanation
Indices: 59086411--59086437 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
59086401 GCAAAAGCCA
59086411 AAATGCCG
1 AAATGCCG
59086419 AAATGCCG
1 AAATGCCG
59086427 AAATGCCG
1 AAATGCCG
59086435 AAA
1 AAA
59086438 ACCGGTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:59090974 original size:26 final size:26
Alignment explanation
Indices: 59090943--59091018 Score: 143
Period size: 26 Copynumber: 2.9 Consensus size: 26
59090933 AATTGATAAA
*
59090943 GGTTAGGTAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
59090969 GGTTAGGTAAATGTTTCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
59090995 GGTTAGGTAAATGTTTCATGATAA
1 GGTTAGGTAAATGTTTCATGATAA
59091019 GAATTTCATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
GGTTAGGTAAATGTTTCATGATAATG
Found at i:59097046 original size:26 final size:26
Alignment explanation
Indices: 59096988--59097039 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
59096978 ATACTACAAT
* *
59096988 TATGGCAGCTAGACTGTAAATCTATG
1 TATGGCAGCTAGACTGCAAATATATG
59097014 TATGGCAGCTTAG-CTGCAAATATATG
1 TATGGCAGC-TAGACTGCAAATATATG
59097040 AGTGGCACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (26 bp):
TATGGCAGCTAGACTGCAAATATATG
Found at i:59097177 original size:30 final size:30
Alignment explanation
Indices: 59097143--59097208 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
59097133 ATGGGGGTAG
59097143 GATATGATATGTTATACTATGATTTGATCC
1 GATATGATATGTTATACTATGATTTGATCC
* * *
59097173 GATATGATATGTTATGCTATGGTTTGATCT
1 GATATGATATGTTATACTATGATTTGATCC
59097203 GATATG
1 GATATG
59097209 CTATTCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (30 bp):
GATATGATATGTTATACTATGATTTGATCC
Found at i:59099919 original size:16 final size:16
Alignment explanation
Indices: 59099900--59099930 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59099890 TTCTATTGAA
*
59099900 ATCACTTAACAAAATC
1 ATCACATAACAAAATC
59099916 ATCACATAACAAAAT
1 ATCACATAACAAAAT
59099931 TAGAACTTCA
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:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (16 bp):
ATCACATAACAAAATC
Found at i:59100761 original size:44 final size:44
Alignment explanation
Indices: 59100700--59100789 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
59100690 GTTGAAATGG
* * * *
59100700 AATAGAAGTTGTGATAATTATACATTTAAAAATAATTATAATTT
1 AATAAAAGTTGTAATAATTACACATTTAAAAATAATTAGAATTT
*
59100744 AATAAAAGTTGTAATAATTACACATTTACAAATAATTAGAATTT
1 AATAAAAGTTGTAATAATTACACATTTAAAAATAATTAGAATTT
59100788 AA
1 AA
59100790 ATTACAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (44 bp):
AATAAAAGTTGTAATAATTACACATTTAAAAATAATTAGAATTT
Found at i:59107112 original size:23 final size:23
Alignment explanation
Indices: 59107086--59107137 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
59107076 ATAAATATTT
* *
59107086 AATATTAATTTTTTAATGTATA-A
1 AATATTAATATTTAAAT-TATATA
*
59107109 AATATGAATATTTAAATTATATA
1 AATATTAATATTTAAATTATATA
59107132 AATATT
1 AATATT
59107138 TGTATTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AATATTAATATTTAAATTATATA
Found at i:59108909 original size:43 final size:43
Alignment explanation
Indices: 59108861--59109009 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 43
59108851 GTTATTGAGA
* * * *
59108861 TGTGATTATATTTAAGACCATGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGTAT
* *
59108904 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGTAT
* * * * * * * *
59108947 TATGATTTCGTGTAAGGCCCTGTCTGGGACAGTGGCAT-G-AT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGTAT
* *
59108988 ATATGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
59109010 ATCTGGGATA
Statistics
Matches: 88, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
41 2 0.02
42 17 0.19
43 69 0.78
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGTAT
Found at i:59111343 original size:23 final size:24
Alignment explanation
Indices: 59111305--59111349 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
59111295 TTTGCTCTTC
*
59111305 TAGTATGAACTTGTCTTACCTTTT
1 TAGTATGAACTCGTCTTACCTTTT
59111329 TAGTAT-AACTCGTCTTACCTT
1 TAGTATGAACTCGTCTTACCTT
59111350 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (24 bp):
TAGTATGAACTCGTCTTACCTTTT
Found at i:59111608 original size:55 final size:53
Alignment explanation
Indices: 59111477--59111672 Score: 173
Period size: 55 Copynumber: 3.6 Consensus size: 53
59111467 CTTACCATTG
* * *
59111477 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCGCCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATA
* * * *
59111530 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATA
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATA
*** * *
59111585 CCATGTCTTGACATGGTCTTACATGATCTCCTT-CCATTA-GAAACCTTACCAATTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCC-TTATG-AA-CTCACCAA-TA
* * *
59111640 CCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
59111673 AAACCCTAAT
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 2 0.02
53 37 0.32
54 10 0.09
55 66 0.56
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATA
Found at i:59116343 original size:17 final size:17
Alignment explanation
Indices: 59116317--59116374 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
59116307 ACTTTTCCTT
* *
59116317 CTATTGTATTGTATGAA
1 CTATTATATTGAATGAA
59116334 CTATTATATTGAATGAA
1 CTATTATATTGAATGAA
*
59116351 CTATTAT-TATGCATGAA
1 CTATTATAT-TGAATGAA
59116368 CTATTAT
1 CTATTAT
59116375 TTTTTGCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 1 0.03
17 36 0.97
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (17 bp):
CTATTATATTGAATGAA
Found at i:59116375 original size:17 final size:18
Alignment explanation
Indices: 59116323--59116375 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 18
59116313 CCTTCTATTG
*
59116323 TATTGTATGAACTATTA-
1 TATTGAATGAACTATTAT
59116340 TATTGAATGAACTATTAT
1 TATTGAATGAACTATTAT
*
59116358 TA-TGCATGAACTATTAT
1 TATTGAATGAACTATTAT
59116375 T
1 T
59116376 TTTTGCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 31 0.94
18 2 0.06
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (18 bp):
TATTGAATGAACTATTAT
Found at i:59123294 original size:50 final size:48
Alignment explanation
Indices: 59123201--59123409 Score: 210
Period size: 50 Copynumber: 4.3 Consensus size: 48
59123191 CCATATCTCC
* * **
59123201 GACATGGTCTTACACTG-GCTCATACATCTAAGTTGATGCCATGTCCCA
1 GACATGGTCTTACACTGATCTCATATATC-AAGCCGATGCCATGTCCCA
*
59123249 GACATGGTCTTACACTGACTCTCATATATCAAGACTGATGCCATGTCCCA
1 GACATGGTCTTACACTGA-TCTCATATATCAAG-CCGATGCCATGTCCCA
* * * * * *
59123299 GATATGGTCTTACACTGGCTCTCATCTGTCAGTGCCGATGTCATGTCCCA
1 GACATGGTCTTACACT-GATCTCATATATCA-AGCCGATGCCATGTCCCA
* * * *
59123349 AACATGGTCTTACACT-A--ACACATATCAAGCCGATGCCTTGTCCCA
1 GACATGGTCTTACACTGATCTCATATATCAAGCCGATGCCATGTCCCA
59123394 GACATGGTCTTACACT
1 GACATGGTCTTACACT
59123410 AGCTCTTATA
Statistics
Matches: 135, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
45 30 0.22
46 6 0.04
48 17 0.13
49 3 0.02
50 77 0.57
51 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
GACATGGTCTTACACTGATCTCATATATCAAGCCGATGCCATGTCCCA
Found at i:59123383 original size:45 final size:46
Alignment explanation
Indices: 59123332--59123461 Score: 140
Period size: 45 Copynumber: 2.8 Consensus size: 46
59123322 ATCTGTCAGT
*
59123332 GCCGATGTCATGTCCCAAACATGGTCTTACACTAACACATATCA-A-
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTAACACATATAATAG
* * * * *
59123377 GCCGATGCCTTGTCCCAGACATGGTCTTACACTAGCTCTTATAATATG
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTAACACATATAATA-G
* *
59123425 GCCAATGCATGTCCCAAACAT-GTCTTACACCAACACA
1 GCCGATGCATGTCCCAAACATGGTCTTACACTAACACA
59123462 GATATCACCC
Statistics
Matches: 68, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
45 37 0.54
46 13 0.19
47 12 0.18
48 6 0.09
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGGTCTTACACTAACACATATAATAG
Found at i:59131081 original size:40 final size:40
Alignment explanation
Indices: 59131026--59131236 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
59131016 ATTTGAATGA
*
59131026 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
59131066 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
59131106 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
59131146 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
59131186 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
59131226 TATCC-GGCTAA
1 TATCCGGGCTAA
59131237 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:59137735 original size:40 final size:40
Alignment explanation
Indices: 59137680--59137890 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
59137670 ATTTGAATGA
*
59137680 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
59137720 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
59137760 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
59137800 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
59137840 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
59137880 TATCC-GGCTAA
1 TATCCGGGCTAA
59137891 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:59141021 original size:50 final size:49
Alignment explanation
Indices: 59140918--59141139 Score: 161
Period size: 50 Copynumber: 4.6 Consensus size: 49
59140908 GGTAAGATGC
* * * *
59140918 CGATGCCATATCCCAGACATGGTCTTACACTG-GCTCATACATCGAAGT
1 CGATGTCATGTCCCAGACATGGTCTTACACTGCTCTCATACATCGAAGA
* * * *
59140966 CGATGTTATGTCCTAGACATGGTCTTACAATGACTCTCATATATCG-AGA
1 CGATGTCATGTCCCAGACATGGTCTTACACTG-CTCTCATACATCGAAGA
* * * * ** *
59141015 CAGATGTCATGTCCCAAACATGGTCTTGCACTGGCTCTCAT-CTGTTGGTGC
1 C-GATGTCATGTCCCAGACATGGTCTTACACT-GCTCTCATAC-ATCGAAGA
* * * * *
59141066 CAATGCCATGTCCCAGACATGGTCTTACACTG-ACACAT--ATC-AAGC
1 CGATGTCATGTCCCAGACATGGTCTTACACTGCTCTCATACATCGAAGA
* *
59141111 CGATGCCATGCCCCAGACATGGTCTTACA
1 CGATGTCATGTCCCAGACATGGTCTTACA
59141140 TTAGCTTTCA
Statistics
Matches: 138, Mismatches: 30, Indels: 15
0.75 0.16 0.08
Matches are distributed among these distances:
45 29 0.21
46 1 0.01
48 31 0.22
49 4 0.03
50 70 0.51
51 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (49 bp):
CGATGTCATGTCCCAGACATGGTCTTACACTGCTCTCATACATCGAAGA
Found at i:59142592 original size:26 final size:26
Alignment explanation
Indices: 59142560--59142611 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
59142550 TCATAATACT
59142560 TAATACTTTAACTAAAATGAATTTAA
1 TAATACTTTAACTAAAATGAATTTAA
59142586 TAATACTTTAACTAAAATGAATTTAA
1 TAATACTTTAACTAAAATGAATTTAA
59142612 CCCACAATCA
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:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (26 bp):
TAATACTTTAACTAAAATGAATTTAA
Found at i:59142612 original size:15 final size:15
Alignment explanation
Indices: 59142566--59142612 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
59142556 TACTTAATAC
59142566 TTTAACTAAAATGAA
1 TTTAACTAAAATGAA
*
59142581 TTTAA-T--AAT-AC
1 TTTAACTAAAATGAA
59142592 TTTAACTAAAATGAA
1 TTTAACTAAAATGAA
59142607 TTTAAC
1 TTTAAC
59142613 CCACAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
11 6 0.23
12 4 0.15
14 4 0.15
15 12 0.46
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (15 bp):
TTTAACTAAAATGAA
Found at i:59150098 original size:24 final size:24
Alignment explanation
Indices: 59150048--59150101 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
59150038 AATCGAATTT
*
59150048 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
59150072 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
59150096 GCACAC
1 GCACAC
59150102 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:59153998 original size:34 final size:33
Alignment explanation
Indices: 59153911--59154001 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
59153901 CTGATTGTAT
*
59153911 ACTG-TACTAATTCTGTAATGGGCTTAGGCCCC
1 ACTGATACTAATTCTGTAATGGGCTCAGGCCCC
59153943 ACTGATACT-ATTACTGTAATGGGCTCAGGCCCAC
1 ACTGATACTAATT-CTGTAATGGGCTCAGGCCC-C
* * * *
59153977 ACTGTTTCTAATTTTGAAATGGGCT
1 ACTGATACTAATTCTGTAATGGGCT
59154002 AAGCCCTAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
32 7 0.14
33 22 0.44
34 18 0.36
35 3 0.06
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (33 bp):
ACTGATACTAATTCTGTAATGGGCTCAGGCCCC
Found at i:59160371 original size:46 final size:46
Alignment explanation
Indices: 59160318--59160493 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
59160308 TATTTGGGCA
*
59160318 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
59160364 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* * *
59160411 TCTGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
59160457 CCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59160494 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59165885 original size:46 final size:46
Alignment explanation
Indices: 59165832--59166007 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
59165822 TATTTGGGCA
*
59165832 TCCGAACTCGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
59165878 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* * *
59165925 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59165971 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59166008 GCAGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 66 0.62
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59165987 original size:93 final size:93
Alignment explanation
Indices: 59165828--59165999 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
59165818 AGGATATTTG
* * *
59165828 GGCATCCGAACTCGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAG
*
59165893 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
59165921 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAG
59165986 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
59166000 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59172586 original size:19 final size:19
Alignment explanation
Indices: 59172564--59172603 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
59172554 TCAAGCATTC
59172564 ATCAATGAC-ACTTCACAAA
1 ATCAATGACAACTTCA-AAA
*
59172583 ATCATTGACAACTTCAAAA
1 ATCAATGACAACTTCAAAA
59172602 AT
1 AT
59172604 TAAGGCATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (19 bp):
ATCAATGACAACTTCAAAA
Found at i:59179860 original size:14 final size:14
Alignment explanation
Indices: 59179841--59179880 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
59179831 TTCAATTCTA
59179841 ATAAGAAAAAATTT
1 ATAAGAAAAAATTT
59179855 ATAAG-AAAAATTT
1 ATAAGAAAAAATTT
*
59179868 AAAAGATAAAAAT
1 ATAAGA-AAAAAT
59179881 AAAATTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 12 0.52
14 5 0.22
15 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (14 bp):
ATAAGAAAAAATTT
Found at i:59180151 original size:20 final size:20
Alignment explanation
Indices: 59180114--59180152 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59180104 TCAATCTTAT
*
59180114 AAATTAATTTAATATTAAAA
1 AAATTAATTAAATATTAAAA
59180134 AAATTAA-TAAATACTTAAA
1 AAATTAATTAAATA-TTAAA
59180153 CTTAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTAATTAAATATTAAAA
Found at i:59180916 original size:15 final size:15
Alignment explanation
Indices: 59180896--59180925 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59180886 CTTTTTTGGC
*
59180896 CGATTTGCTTTCTGT
1 CGATTTGCTCTCTGT
59180911 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
59180926 TTTACCCTCC
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:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:59181978 original size:19 final size:19
Alignment explanation
Indices: 59181954--59181990 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
59181944 GCATGACCTC
59181954 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
59181973 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
59181991 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:59184023 original size:61 final size:60
Alignment explanation
Indices: 59183956--59184146 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
59183946 ATTTCATAGT
*
59183956 ATTATATATTATGATTTCAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTT-AGAAAATTAATATAAGAATATTTAATATTAAGAATTTTATTAA
* * * * * *
59184017 ATTATATATT-TTAATTAAAATATATTTAATAGT-A-ATTATGTTAAT-TT-A-TATTTTA-CAG
1 ATTATATATTATGATTTAGAA-A-A-TTAATA-TAAGAATAT-TTAATATTAAGAATTTTATTA-
*
59184075 T
60 A
* *
59184076 ATCATATATTATGATTTTAGTAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAA
1 ATTATATATTATGA-TTTAGAAAATTAATATAAGAATATTTAA-TATTAAGAATTTTATTAA
59184137 ATTATATATT
1 ATTATATATT
59184147 TTAATTAAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
57 5 0.05
58 9 0.09
59 24 0.25
60 10 0.10
61 36 0.37
62 12 0.12
63 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (60 bp):
ATTATATATTATGATTTAGAAAATTAATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:59184033 original size:18 final size:17
Alignment explanation
Indices: 59184007--59184041 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59183997 AATATTAAGA
*
59184007 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59184024 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59184042 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59184053 original size:120 final size:120
Alignment explanation
Indices: 59183900--59184183 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
59183890 TAATTGAAAA
* * *
59183900 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
59183964 TTATGATTTCAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
59184019 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* *
59184084 TTATGATTTTAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
59184139 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
59184184 ATGATTAAAT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 131 0.87
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:59184155 original size:18 final size:17
Alignment explanation
Indices: 59184127--59184161 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59184117 ATTATTAAGA
*
59184127 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59184144 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59184162 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59184161 original size:16 final size:16
Alignment explanation
Indices: 59184127--59184181 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
59184117 ATTATTAAGA
59184127 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
59184144 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
59184160 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
59184174 ATGTTTAA
1 AT-TTTAA
59184182 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:59184424 original size:16 final size:16
Alignment explanation
Indices: 59184397--59184448 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
59184387 GATTTGCTAT
59184397 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
59184413 TATACCTTTAATCCAA
1 TACACCTCTAATCCAA
59184429 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
59184445 TACA
1 TACA
59184449 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:59186993 original size:31 final size:31
Alignment explanation
Indices: 59186957--59187019 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
59186947 GTGTTAAAAT
*
59186957 ATAAAAATATAGTTTATTTTGTTATAAAGTA
1 ATAAAAATATAGTTTAATTTGTTATAAAGTA
59186988 ATAAAAATATAGTTTAATTTGTTATAAAGTA
1 ATAAAAATATAGTTTAATTTGTTATAAAGTA
59187019 A
1 A
59187020 AGAGAGATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (31 bp):
ATAAAAATATAGTTTAATTTGTTATAAAGTA
Found at i:59187995 original size:32 final size:32
Alignment explanation
Indices: 59187959--59188023 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
59187949 ATAAGAGAAA
*
59187959 TTAAAACTGTTTAATAGACTTGTGGTCACTGC
1 TTAAAACTGTTCAATAGACTTGTGGTCACTGC
59187991 TTAAAACTGTTCAATAGACTTGTGGTCACTGC
1 TTAAAACTGTTCAATAGACTTGTGGTCACTGC
59188023 T
1 T
59188024 GAGTCCTCCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (32 bp):
TTAAAACTGTTCAATAGACTTGTGGTCACTGC
Found at i:59195346 original size:52 final size:52
Alignment explanation
Indices: 59195279--59195385 Score: 187
Period size: 52 Copynumber: 2.1 Consensus size: 52
59195269 TCCCACGTGG
*
59195279 CTTCCTCTGAACCGTGATTACACCAAAGCACTTTCACCAGTGGAACAGATTT
1 CTTCCTCTGAACCGTGATTACACCAAAGCACTTTAACCAGTGGAACAGATTT
* *
59195331 CTTCTTCTGAACCGTGATTACGCCAAAGCACTTTAACCAGTGGAACAGATTT
1 CTTCCTCTGAACCGTGATTACACCAAAGCACTTTAACCAGTGGAACAGATTT
59195383 CTT
1 CTT
59195386 TCTTAATACC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (52 bp):
CTTCCTCTGAACCGTGATTACACCAAAGCACTTTAACCAGTGGAACAGATTT
Found at i:59196720 original size:19 final size:19
Alignment explanation
Indices: 59196698--59196742 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
59196688 AGATACAACC
59196698 CTACGACTCAGTGCGTTAG
1 CTACGACTCAGTGCGTTAG
59196717 CTACGACTCAGTGCGTTAG
1 CTACGACTCAGTGCGTTAG
59196736 CTACGAC
1 CTACGAC
59196743 ATTAGCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.24
Consensus pattern (19 bp):
CTACGACTCAGTGCGTTAG
Found at i:59199491 original size:16 final size:16
Alignment explanation
Indices: 59199449--59199484 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
59199439 ACCCAAAACA
59199449 CTCCTGAAGATTTTTG
1 CTCCTGAAGATTTTTG
59199465 CTCCTGAAGATTTTTG
1 CTCCTGAAGATTTTTG
59199481 CTCC
1 CTCC
59199485 ATTAGATCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.42
Consensus pattern (16 bp):
CTCCTGAAGATTTTTG
Found at i:59215535 original size:23 final size:22
Alignment explanation
Indices: 59215509--59215559 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
59215499 CTCGAAATAA
59215509 CTTACCTTATCAGCTCAATAGAG
1 CTTACCTT-TCAGCTCAATAGAG
59215532 CTTACCCTTTCAGCTCAATAGAG
1 CTTA-CCTTTCAGCTCAATAGAG
*
59215555 TTTAC
1 CTTAC
59215560 TGTTCATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 21 0.81
24 4 0.15
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (22 bp):
CTTACCTTTCAGCTCAATAGAG
Found at i:59225883 original size:14 final size:13
Alignment explanation
Indices: 59225858--59225898 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
59225848 CTTCCACTAT
59225858 ATATATTCAATTC
1 ATATATTCAATTC
59225871 ATATATCTCAATTC
1 ATATAT-TCAATTC
*
59225885 ACAT-TTCAATTC
1 ATATATTCAATTC
59225897 AT
1 AT
59225899 TAAGTGGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.32
13 7 0.28
14 10 0.40
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATTCAATTC
Found at i:59233126 original size:57 final size:59
Alignment explanation
Indices: 59233026--59233148 Score: 171
Period size: 57 Copynumber: 2.1 Consensus size: 59
59233016 TCGAAATGGA
* *
59233026 AAAAATGGTGAAATGGAAAACATTTGGAAATGATTATGGTTTTCTCCAAAATG-AAAAT
1 AAAAATGGAGAAATGGAAAACATTTGGAAATGATTATGATTTTCTCCAAAATGAAAAAT
**
59233084 AAAAATGGAGAAAT-GAAATTATTTGGAAATGGATT-TGATTTTCTCCAAAATGAAAAAT
1 AAAAATGGAGAAATGGAAAACATTTGGAAAT-GATTATGATTTTCTCCAAAATGAAAAAT
*
59233142 GAAAATG
1 AAAAATG
59233149 ACCTAAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
57 30 0.52
58 28 0.48
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (59 bp):
AAAAATGGAGAAATGGAAAACATTTGGAAATGATTATGATTTTCTCCAAAATGAAAAAT
Found at i:59237881 original size:421 final size:419
Alignment explanation
Indices: 59237098--59237913 Score: 1330
Period size: 421 Copynumber: 1.9 Consensus size: 419
59237088 AATCTCGATG
* * *
59237098 AAATACCCATTGTCCGTCAATTCTTACGAATGATCATTTCACATATATGCACTCCCGCGAACCTC
1 AAATACCCATTATCCGTCAATTCTTACAAATGATCATTTCACATATATGCACTCCCGCAAACCTC
* * * *
59237163 ACTTCTTACGGTGATTTTACTAGTCCAGGCTTAATCCCCCGTATCATAAACTCATAAGGTGATGT
66 ACTTCTTACGGGGA-TTTACCAGTCCAAGCTAAATCCCCCGTATCATAAACTCATAAGGTGATGT
* * *
59237228 TGGAATTACCAGTCCAGGCCAAATCCCTTATAACGACAAACACCCTTAGTGAGCTCGGATCTGAA
130 CGGAATTACCAGTCCAGGCCAAATCCCTTAGAACGACAAACACCCTTAATGAGCTCGGATCTGAA
* * *
59237293 TTCCAGTCTAGGCTAAATTTAGACCCTAATCGGATTACTCGTCCGGGCTAAATCCATAATGCACA
195 TTCCAGTCCAGGCTAAATTCAGACCCTAATCGGATTACTCATCCGGGCTAAATCCATAATGCACA
59237358 CATATTCTTCGGGAGGCTTGATCATTCAAGGAACACCCGACTGGGTTAGATCCTTTTCATACTTG
260 CATATTCTTCGGGAGGCTTGATCATTCAAGGAACACCCGACTGGGTTAGATCCTTTTCATACTTG
* * *
59237423 AGATCACGGATTACCCGTCTGGGCTAAATCCTTACTGCAACACATGCAGGATCTTTTGACTCATA
325 AGATCACAGATTACCCGTCCGGGCTAAATCCTTACTGCAACACATGCAGGATCTTTTGACACATA
59237488 TCAATATATATCTATGAATTACGGTTTATC
390 TCAATATATATCTATGAATTACGGTTTATC
*
59237518 AAATACCCATTATCCGTCAATTCTTACAAATGATTATTTCACATATATGCACTCCCGCAAACCTC
1 AAATACCCATTATCCGTCAATTCTTACAAATGATCATTTCACATATATGCACTCCCGCAAACCTC
* *
59237583 ACTTCTTACGGCAGGA-TTACCAGTCCAAGCTAAATCCCCTGTATCGTAAACTCATAAGGTGATG
66 ACTTCTTACGG--GGATTTACCAGTCCAAGCTAAATCCCCCGTATCATAAACTCATAAGGTGATG
* * * *
59237647 TCGGGATTACCAGTCTAGGCTAAATCCCTTAGAACGACAAACACCCTTAATGAGTTCGGATCTGA
129 TCGGAATTACCAGTCCAGGCCAAATCCCTTAGAACGACAAACACCCTTAATGAGCTCGGATCTGA
* *
59237712 ATTACTAGTCCAGGCTAAATTCAGACCCTAATTGGATTA-TCCATCCGGGCTAAATCCATAATGC
194 ATT-CCAGTCCAGGCTAAATTCAGACCCTAATCGGATTACT-CATCCGGGCTAAATCCATAATGC
* *
59237776 ACACATATTCTTCGGGAGGCTTGATCGTTCAAGGAACACCTGACTGGGTTAGATCCTTTTCATAC
257 ACACATATTCTTCGGGAGGCTTGATCATTCAAGGAACACCCGACTGGGTTAGATCCTTTTCATAC
59237841 TTGAGATCACAGATTACCCGTCCGGGCTAAATCCTTACTGCAACACATGCAGGATCTTTTGACAC
322 TTGAGATCACAGATTACCCGTCCGGGCTAAATCCTTACTGCAACACATGCAGGATCTTTTGACAC
59237906 ATATCAAT
387 ATATCAAT
59237914 GAGGGTTTAT
Statistics
Matches: 365, Mismatches: 27, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
420 177 0.48
421 186 0.51
422 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (419 bp):
AAATACCCATTATCCGTCAATTCTTACAAATGATCATTTCACATATATGCACTCCCGCAAACCTC
ACTTCTTACGGGGATTTACCAGTCCAAGCTAAATCCCCCGTATCATAAACTCATAAGGTGATGTC
GGAATTACCAGTCCAGGCCAAATCCCTTAGAACGACAAACACCCTTAATGAGCTCGGATCTGAAT
TCCAGTCCAGGCTAAATTCAGACCCTAATCGGATTACTCATCCGGGCTAAATCCATAATGCACAC
ATATTCTTCGGGAGGCTTGATCATTCAAGGAACACCCGACTGGGTTAGATCCTTTTCATACTTGA
GATCACAGATTACCCGTCCGGGCTAAATCCTTACTGCAACACATGCAGGATCTTTTGACACATAT
CAATATATATCTATGAATTACGGTTTATC
Found at i:59240570 original size:47 final size:47
Alignment explanation
Indices: 59240499--59241044 Score: 939
Period size: 47 Copynumber: 11.6 Consensus size: 47
59240489 CCCTTCGGGA
* * * * * *
59240499 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
59240546 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59240593 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59240640 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59240687 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59240734 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59240781 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59240828 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59240875 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59240922 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59240971 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59241018 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
59241045 TATTCAAATA
Statistics
Matches: 477, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 433 0.91
49 44 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59240577 original size:25 final size:25
Alignment explanation
Indices: 59240549--59240627 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
59240539 ACTCGGCCCT
59240549 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
59240574 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
59240596 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
59240621 ATCACAT
1 ATCACAT
59240628 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:59251034 original size:47 final size:47
Alignment explanation
Indices: 59250971--59251306 Score: 573
Period size: 47 Copynumber: 7.1 Consensus size: 47
59250961 GAAATGATAG
*
59250971 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
59251018 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
59251065 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
59251112 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTATGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
59251159 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
59251206 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
59251253 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
59251300 CAAGGCC
1 TAAGGCC
59251307 GAGTGGCCAA
Statistics
Matches: 275, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 275 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:59251329 original size:94 final size:94
Alignment explanation
Indices: 59250971--59251350 Score: 562
Period size: 94 Copynumber: 4.0 Consensus size: 94
59250961 GAAATGATAG
* *
59250971 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAC
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAC
*
59251036 GTGATGAATGTGAAAGTGTATATGTGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* *
59251065 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAC
* *
59251130 GTGATGAATGTGAAAGTGTATATGTATGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* *
59251159 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAC
59251224 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
59251253 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAAC
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAC
* * * * *
59251318 GTAATGGATGTGGAAGTGCATAAATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
59251347 TAAG
1 TAAG
59251351 TCCCGAAAGG
Statistics
Matches: 262, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 262 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.28
Consensus pattern (94 bp):
TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAC
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:59251345 original size:47 final size:47
Alignment explanation
Indices: 59250972--59251346 Score: 309
Period size: 47 Copynumber: 8.0 Consensus size: 47
59250962 AAATGATAGT
* * * * * *
59250972 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGAT
1 AAGGCCGAATGGCCAACGTAATGAATGTGAAAGTGTATATATGTGAC
* * * * * *
59251019 AAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGAT
1 AAGGCCGAATGGCCAACGTAATGAATGTGAAAGTGTATATATGTGAC
* * * * * *
59251066 AAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGAT
1 AAGGCCGAATGGCCAACGTAATGAATGTGAAAGTGTATATATGTGAC
* * * * * * * * *
59251113 AGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTATGAT
1 AAGGCCGAATGGCCAACGTAATGAATGTGAAAGTGTATATATGTGAC
* * * * * * *
59251160 AAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGAT
1 AAGGCCGAATGGCCAACGTAATGAATGTGAAAGTGTATATATGTGAC
* * * * * *
59251207 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AAGGCCGAATGGCCAACGTAATGAATGTGAAAGTGTATATATGTGAC
* * * *
59251254 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
1 AAGGCCGAATGGCCAACGTAATGAATGTGAAAGTGTATATATGTGAC
* * * * *
59251301 AAGGCCGAGTGGCCAACGTAATGGATGTGGAAGTGCATAAATGTGA
1 AAGGCCGAATGGCCAACGTAATGAATGTGAAAGTGTATATATGTGA
59251347 TAAGTCCCGA
Statistics
Matches: 305, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 305 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGGCCGAATGGCCAACGTAATGAATGTGAAAGTGTATATATGTGAC
Found at i:59251525 original size:37 final size:37
Alignment explanation
Indices: 59251469--59251547 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
59251459 CCGAGCTCTA
* * * *
59251469 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
*
59251506 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
59251543 AAGAC
1 AAGAC
59251548 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:59258846 original size:55 final size:54
Alignment explanation
Indices: 59258787--59258930 Score: 162
Period size: 55 Copynumber: 2.6 Consensus size: 54
59258777 TCGCTTCTCC
* **
59258787 CACGCTAGTGTTGTTTTGGCAGGTTGGCCCACGGTGTCTTGGCACGGGCGTGTCA
1 CACGCT-GTGTTGTTTTGGCAGGTTCGCCCACGGTGTCAAGGCACGGGCGTGTCA
** * * * *
59258842 CACGCCTGTGTTAATTTGACAGGTTCGACCACGGTTTCAAGGCACGGGCGTGTCG
1 CACG-CTGTGTTGTTTTGGCAGGTTCGCCCACGGTGTCAAGGCACGGGCGTGTCA
* *
59258897 CACACTCGTGTTGTTTTGGTAGGTTCGCCCACGG
1 CACGCT-GTGTTGTTTTGGCAGGTTCGCCCACGG
59258931 CCATGTCGCA
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
54 2 0.03
55 68 0.94
56 2 0.03
ACGTcount: A:0.14, C:0.25, G:0.33, T:0.28
Consensus pattern (54 bp):
CACGCTGTGTTGTTTTGGCAGGTTCGCCCACGGTGTCAAGGCACGGGCGTGTCA
Found at i:59262633 original size:12 final size:13
Alignment explanation
Indices: 59262616--59262653 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
59262606 ATCCTGGAAT
59262616 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
59262628 ATTAAGAACACATA
1 ATTAAGAACA-AGA
59262642 ATTAAGAACAAG
1 ATTAAGAACAAG
59262654 CCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:59270222 original size:32 final size:32
Alignment explanation
Indices: 59270186--59270246 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
59270176 TAACTAGGCA
59270186 TCCGAACTCGTTGAGTTGAGTCCGAGTTTACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTTACG
*
59270218 TCCGAACTCGTTGAGTTGAGTCTGAGTTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTT
59270247 GTGAGATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (32 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTTACG
Found at i:59270272 original size:79 final size:79
Alignment explanation
Indices: 59270138--59270292 Score: 258
Period size: 79 Copynumber: 2.0 Consensus size: 79
59270128 GGATGCGAAT
* *
59270138 GTCCGAACTTGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTT
1 GTCCGAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATCAGAACTCGTTGAGTT
*
59270203 GAGTCCGAGTTTAC
66 AAGTCCGAGTTTAC
*
59270217 GTCCGAACTCGTTGAGTTGAG-TCTGAGTTTGTGAGATGTAACTAGGCATCAGAACTCGTTGAGT
1 GTCCGAACTCGTTGAGTTGAGTTC-GAGTTCGTGAGATGTAACTAGGCATCAGAACTCGTTGAGT
59270281 TAAGTCCGAGTT
65 TAAGTCCGAGTT
59270293 CACTTATGGT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 2 0.03
79 69 0.97
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (79 bp):
GTCCGAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATCAGAACTCGTTGAGTT
AAGTCCGAGTTTAC
Found at i:59273337 original size:15 final size:15
Alignment explanation
Indices: 59273317--59273381 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
59273307 GTATCTTCAG
*
59273317 TTTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
*
59273332 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
59273347 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
59273362 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
59273376 TTTCTT
1 TTTCTT
59273382 GTTATCTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
14 10 0.24
15 30 0.71
16 2 0.05
ACGTcount: A:0.11, C:0.15, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59273350 original size:30 final size:29
Alignment explanation
Indices: 59273316--59273381 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
59273306 TGTATCTTCA
59273316 GTTTCTTTAT-TCTAGATTTCTTTATTCTGG
1 GTTTCTTTATCT-TAGATTTCTTTATTC-GG
* *
59273346 GTTTCTCTATCTTGGATTTCTTTATTCGG
1 GTTTCTTTATCTTAGATTTCTTTATTCGG
*
59273375 TTTTCTT
1 GTTTCTT
59273382 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 7 0.23
30 23 0.74
31 1 0.03
ACGTcount: A:0.11, C:0.15, G:0.14, T:0.61
Consensus pattern (29 bp):
GTTTCTTTATCTTAGATTTCTTTATTCGG
Found at i:59276092 original size:46 final size:46
Alignment explanation
Indices: 59276031--59276291 Score: 241
Period size: 46 Copynumber: 5.6 Consensus size: 46
59276021 TATTTGGGCA
* *
59276031 TCCGAACTTGCTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * * * * *
59276077 TCTGAACTTGTTGAGTTGAGTCCGAGTT-A-GTA-AGATGTAACAAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT--GAATG
* *
59276122 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
59276170 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
59276215 CATCAGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACT-
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-TG
* *
59276263 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
59276292 GGTTATGGGC
Statistics
Matches: 176, Mismatches: 23, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.01
43 9 0.05
44 2 0.01
45 7 0.04
46 81 0.46
47 54 0.31
48 6 0.03
49 2 0.01
50 9 0.05
51 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:59276144 original size:47 final size:47
Alignment explanation
Indices: 59276080--59276246 Score: 184
Period size: 47 Copynumber: 3.6 Consensus size: 47
59276070 GTGAATGTCT
*
59276080 GAACTTGTTGAGTTGAGTCCGAGTT-AGTAAGATGTAACAAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCA-TAAGATGTAACAAGGCATCC
* *
59276127 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAA--CGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCA--TA-AGATGTAAC-AAGGCATCC
* * *
59276173 GAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCATAAGATGTAACAAGGCATCC
*
59276220 GAACTCGTTGAGTTGAGTCTGAGTTCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCA
59276247 CTTATGGATG
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 1 0.01
46 32 0.32
47 54 0.53
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCATAAGATGTAACAAGGCATCC
Found at i:59276186 original size:93 final size:93
Alignment explanation
Indices: 59276027--59276291 Score: 399
Period size: 93 Copynumber: 2.8 Consensus size: 93
59276017 CGGATATTTG
* * * * *
59276027 GGCATCCGAACTTGCTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCTGAACTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCCGAACTCGTTGAG
59276092 TTGAGTCCGAGTT-AGTAAGATGTAACAA
66 TTGAGTCCGAGTTCA-TAAGATGTAACAA
*
59276120 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCCGAACTCGTTGAG
* *
59276185 TTGAGTCCGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCATAAGATGTAACAA
* * *
59276213 GGCATCAGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAAC-TCCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGT-CCGAACTCGTTGA
59276277 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
59276292 GGTTATGGGC
Statistics
Matches: 158, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
92 1 0.01
93 156 0.99
94 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCATAAGATGTAACAA
Found at i:59293187 original size:42 final size:42
Alignment explanation
Indices: 59293090--59293244 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 42
59293080 TTGTACAATT
* * *
59293090 CCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCGATG
1 CCAACATCCCAGACGTGGTCTTACACGAAATCAAGTA-CGATG
** *
59293133 CC-ACAATCCCAGACAAGGTCTTATACGAAATCAAGTACGATG
1 CCAAC-ATCCCAGACGTGGTCTTACACGAAATCAAGTACGATG
*
59293175 CCAACATCCCAGACGTGGTCTTACACATAAATCATAAGT-CGATG
1 CCAACATCCCAGACGTGGTCTTACAC-GAAATC--AAGTACGATG
**
59293219 CCAACGCCCCA-ATCGTGGTCTTACAC
1 CCAACATCCCAGA-CGTGGTCTTACAC
59293245 AATAACACAT
Statistics
Matches: 94, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
42 27 0.29
43 36 0.38
44 27 0.29
45 4 0.04
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (42 bp):
CCAACATCCCAGACGTGGTCTTACACGAAATCAAGTACGATG
Found at i:59299591 original size:43 final size:43
Alignment explanation
Indices: 59299513--59299685 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 43
59299503 AGCTTGTACA
* * *
59299513 ATGCCAACGTCCTAGACGTGGTCTTATAGGTAATCAAATATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACACGAAATCAAATATCG
*
59299556 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGAAATCAAGTAT-G
1 ATGCCAAC-GTCCTAGAC-GTGGTCTTACACGAAATCAAATATCG
* * * * * *
59299598 ATGCTACCATCCCAGACGTGGTCTTACACGTAAATCATAA-GTCA
1 ATGCCAACGTCCTAGACGTGGTCTTACACG-AAATCA-AATATCG
* * *
59299642 ATGCCAACGTCCTAGACATGGTATTACACGATAA-CACATATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACACGA-AATCAAATATCG
59299685 A
1 A
59299686 ATCCTATGTC
Statistics
Matches: 101, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 46 0.46
44 28 0.28
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCTAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:59304710 original size:55 final size:55
Alignment explanation
Indices: 59304642--59304763 Score: 235
Period size: 55 Copynumber: 2.2 Consensus size: 55
59304632 AACTCACCAT
59304642 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
1 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
59304697 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
1 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
*
59304752 TGCCATGTCTTG
1 TGCCATGCCTTG
59304764 ACATGGTCTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (55 bp):
TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
Found at i:59304789 original size:55 final size:55
Alignment explanation
Indices: 59304642--59304791 Score: 156
Period size: 55 Copynumber: 2.7 Consensus size: 55
59304632 AACTCACCAT
** * * * *
59304642 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
1 TGCCATGCCTTGACATGGCCTTACACGAGATCATTGCCTTATCGTAGTTTATCAA
** * * * *
59304697 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
1 TGCCATGCCTTGACATGGCCTTACACGAGATCATTGCCTTATCGTAGTTTATCAA
* * **
59304752 TGCCATGTCTTGACATGGTCTTACACGATTTCATTGCCTT
1 TGCCATGCCTTGACATGGCCTTACACGAGATCATTGCCTT
59304792 GTAGAACTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 85 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (55 bp):
TGCCATGCCTTGACATGGCCTTACACGAGATCATTGCCTTATCGTAGTTTATCAA
Found at i:59306557 original size:32 final size:32
Alignment explanation
Indices: 59306521--59306583 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
59306511 CAATCTTTTT
* *
59306521 TCTTTTCAAGTTTGCTGATAAACTGTAATTTA
1 TCTTTTCAAGTCTGCTGATAAACCGTAATTTA
*
59306553 TCTTTTCAAGTCTGTTGATAAACCGTAATTT
1 TCTTTTCAAGTCTGCTGATAAACCGTAATTT
59306584 TTACATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (32 bp):
TCTTTTCAAGTCTGCTGATAAACCGTAATTTA
Found at i:59311578 original size:6 final size:6
Alignment explanation
Indices: 59311542--59311634 Score: 133
Period size: 6 Copynumber: 16.2 Consensus size: 6
59311532 TATGATGATG
59311542 TTTTA- TTTTA- TTTTA- TTTTA- TTTTA- TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
59311585 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTATGT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT
59311634 T
1 T
59311635 AATTTCACCT
Statistics
Matches: 84, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
5 25 0.30
6 54 0.64
7 5 0.06
ACGTcount: A:0.17, C:0.00, G:0.01, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:59313970 original size:29 final size:29
Alignment explanation
Indices: 59313928--59313987 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
59313918 CTTTAGGAGT
59313928 TTTGGGTTTTTCTTTATGTTTTGTATTCA
1 TTTGGGTTTTTCTTTATGTTTTGTATTCA
59313957 TTTGGGTTTTTCTTTATGTTTTGTATTCA
1 TTTGGGTTTTTCTTTATGTTTTGTATTCA
59313986 TT
1 TT
59313988 ATTCTTCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.67
Consensus pattern (29 bp):
TTTGGGTTTTTCTTTATGTTTTGTATTCA
Found at i:59320224 original size:40 final size:40
Alignment explanation
Indices: 59320162--59320379 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
59320152 AAGCCAAGTA
* * ***
59320162 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTTGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59320201 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59320241 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59320281 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * **
59320321 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59320361 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59320380 TTATCATCCA
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
39 15 0.09
40 142 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59331232 original size:53 final size:54
Alignment explanation
Indices: 59331147--59331353 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
59331137 TTCTTTTTTA
* * *
59331147 AACTTACCATTGCCATGTCTTGCCATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
59331200 AACTCACCATTGCCATACCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * ** * * * *
59331254 TAGTTTATCAGTGCCATGTCTTCACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* *
59331309 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
59331354 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 45 0.38
54 36 0.30
55 38 0.32
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:59346165 original size:56 final size:57
Alignment explanation
Indices: 59346069--59346179 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 57
59346059 TATATATATA
* * * * *
59346069 TGGCCCACTAGGCCTAATCTCTTTCATATGGCCCATTAGGCCC-ATTCACATTTATG
1 TGGCCCACTAGGCCAAATCACATTCATATGGCCCACTAGGCCCAAATCACATTTATG
*
59346125 TGGCCCATTAGGCCCAAATCACATTCATATGG-CCACTAGGCCCAAATCACATTTA
1 TGGCCCACTAGG-CCAAATCACATTCATATGGCCCACTAGGCCCAAATCACATTTA
59346180 CAGTTGTGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 21 0.45
57 26 0.55
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (57 bp):
TGGCCCACTAGGCCAAATCACATTCATATGGCCCACTAGGCCCAAATCACATTTATG
Found at i:59346175 original size:28 final size:29
Alignment explanation
Indices: 59346066--59346177 Score: 131
Period size: 28 Copynumber: 4.0 Consensus size: 29
59346056 ACCTATATAT
* * *
59346066 ATATGGCCCACTAGG-CCTAATCTCTTTC
1 ATATGGCCCACTAGGCCCAAATCACATTC
* * *
59346094 ATATGGCCCATTAGGCCC-ATTCACATTT
1 ATATGGCCCACTAGGCCCAAATCACATTC
* *
59346122 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCCAAATCACATTC
59346151 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCCAAATCACATT
59346178 TACAGTTGTG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
28 57 0.79
29 15 0.21
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCCAAATCACATTC
Found at i:59347634 original size:28 final size:28
Alignment explanation
Indices: 59347602--59347657 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
59347592 CTTAACCAAG
*
59347602 ACCTACTATCACATAATTAACACTTGAC
1 ACCTACTATCACATAAGTAACACTTGAC
59347630 ACCTACTATCACATAAGTAACACTTGAC
1 ACCTACTATCACATAAGTAACACTTGAC
59347658 TAAGAATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.29, G:0.05, T:0.27
Consensus pattern (28 bp):
ACCTACTATCACATAAGTAACACTTGAC
Found at i:59348778 original size:26 final size:25
Alignment explanation
Indices: 59348726--59348779 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
59348716 TTTATCTTTA
*
59348726 TTTATCTTCTTTAAGTACTTTTTAT
1 TTTATCTTCTTTAAGTACTTTTCAT
*
59348751 TTTATTTTCATTTAA-TACTATTTCAT
1 TTTATCTTC-TTTAAGTACT-TTTCAT
59348777 TTT
1 TTT
59348780 TAGGTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTATCTTCTTTAAGTACTTTTCAT
Found at i:59353131 original size:55 final size:54
Alignment explanation
Indices: 59352990--59353194 Score: 236
Period size: 55 Copynumber: 3.8 Consensus size: 54
59352980 ATCATTTTGA
* * * *
59352990 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATAG
* * *
59353043 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTT-CCTTATAG
* * * *
59353097 TAGCTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATAG
* *
59353151 AACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATC
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATC
59353195 TTTAAACCCT
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
52 4 0.03
53 41 0.32
54 8 0.06
55 69 0.54
56 5 0.04
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATAG
Found at i:59356014 original size:22 final size:21
Alignment explanation
Indices: 59355977--59356028 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
59355967 ATCACCCCAA
*
59355977 TTTT-ATTTTATTTTATTTAT
1 TTTTAATTTTATATTATTTAT
59355997 TTTTAATTCTTATATTATTTAT
1 TTTTAATT-TTATATTATTTAT
59356019 TTTT-ATTTTA
1 TTTTAATTTTA
59356029 CTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTAATTTTATATTATTTAT
Found at i:59356035 original size:22 final size:20
Alignment explanation
Indices: 59355977--59356134 Score: 85
Period size: 18 Copynumber: 7.5 Consensus size: 20
59355967 ATCACCCCAA
*
59355977 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
59355997 TTTTAATTCTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
59356019 TTTTATTTTACTAATTAATTAATTAAT
1 TTTTATTTTA-T-ATT-A-T--TT-AT
*
59356046 TTAGTATTCTTATACTTATATT-T
1 TT-TTATT-TTATA-TTAT-TTAT
* *
59356069 TTAATATTTTAATATT-TTAAT
1 TT-TTATTTT-ATATTATTTAT
* *
59356090 TTTTA-TATA-ATTTTTTAT
1 TTTTATTTTATATTATTTAT
59356108 TTTTATTTT-TATT-TTTAT
1 TTTTATTTTATATTATTTAT
59356126 TTTTATTTT
1 TTTTATTTT
59356135 GCTATGTCTA
Statistics
Matches: 113, Mismatches: 8, Indels: 36
0.72 0.05 0.23
Matches are distributed among these distances:
17 3 0.03
18 24 0.21
19 7 0.06
20 10 0.09
21 11 0.10
22 23 0.20
23 12 0.11
24 1 0.01
25 3 0.03
26 3 0.03
27 6 0.05
28 7 0.06
29 3 0.03
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.70
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:59356110 original size:6 final size:6
Alignment explanation
Indices: 59356101--59356134 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
59356091 TTTATATAAT
59356101 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
59356135 GCTATGTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:59356115 original size:24 final size:24
Alignment explanation
Indices: 59356064--59356119 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
59356054 CTTATACTTA
59356064 TATTTTTA-ATATTTTAATATTTT
1 TATTTTTATATATTTTAATATTTT
* *
59356087 AATTTTTATATAATTTT-TTATTTT
1 TATTTTTATAT-ATTTTAATATTTT
59356111 TATTTTTAT
1 TATTTTTAT
59356120 TTTTATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 16 0.57
25 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (24 bp):
TATTTTTATATATTTTAATATTTT
Found at i:59356227 original size:18 final size:18
Alignment explanation
Indices: 59356204--59356238 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
59356194 TTACCTTTTA
59356204 AGTTTATTGA-TATTATTG
1 AGTTTATT-ATTATTATTG
59356222 AGTTTATTATTATTATT
1 AGTTTATTATTATTATT
59356239 TTATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (18 bp):
AGTTTATTATTATTATTG
Found at i:59356231 original size:3 final size:3
Alignment explanation
Indices: 59356225--59356323 Score: 79
Period size: 3 Copynumber: 34.7 Consensus size: 3
59356215 ATTATTGAGT
59356225 TTA TTA TTA TTA TT- TTA TTA TTA TTA TT- TTA TT- TT- TTA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * *
59356266 TTC TTT TTAA TT- TTG TT- TTA GTTG TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
59356310 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
59356324 TCTCTTCAAT
Statistics
Matches: 83, Mismatches: 3, Indels: 20
0.78 0.03 0.19
Matches are distributed among these distances:
2 15 0.18
3 63 0.76
4 5 0.06
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:59369128 original size:47 final size:44
Alignment explanation
Indices: 59369050--59369177 Score: 145
Period size: 42 Copynumber: 2.8 Consensus size: 44
59369040 GCCGTACAAT
* * *
59369050 AAGTGCCAATAATAATATAGCCGAAGCTATCTCAATAATCTTGCAC-CA
1 AAGTGCCAAT-AT-ACATAGTCGAAGCTATCTCGATAA-C--GCACACA
59369098 GAAGTGCCAATATACATAGTCGAAGCTATCTCGATAACGCACACA
1 -AAGTGCCAATATACATAGTCGAAGCTATCTCGATAACGCACACA
*
59369143 AAATGCC-A-ATACATAGTCGAAGCTATCTCGATAAC
1 AAGTGCCAATATACATAGTCGAAGCTATCTCGATAAC
59369178 TATCCTTAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
42 27 0.36
43 1 0.01
44 10 0.14
45 2 0.03
46 1 0.01
47 21 0.28
48 2 0.03
49 10 0.14
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (44 bp):
AAGTGCCAATATACATAGTCGAAGCTATCTCGATAACGCACACA
Found at i:59371771 original size:39 final size:39
Alignment explanation
Indices: 59371712--59371859 Score: 224
Period size: 39 Copynumber: 3.8 Consensus size: 39
59371702 TGTGAATATA
* * *
59371712 TATATGCGAGAATTATATCCGGACTTCAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAAGC
* *
59371751 TATAAGCGAGAATTATATCCGGACTTCATGTCCGCACGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAAGC
* *
59371790 TATATGCGAGAATTATATCCGGACTTTATGTCTGCAAGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAAGC
*
59371829 TATATGCGAGAATTATATCCGGACTTTATGT
1 TATATGCGAGAATTATATCCGGACTTCATGT
59371860 GACAGCCCTA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCATGTCCGCAAGC
Found at i:59373594 original size:40 final size:40
Alignment explanation
Indices: 59373539--59373769 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
59373529 GGATTGATAT
59373539 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
59373579 CCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
59373619 CCGGGCTAAGTCTCAAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
59373659 CCGGGCCAAGTCCCGAAGGCAATTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
59373699 CCGGGCTAAGTCTCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
** * * *
59373739 CTTGGCTGAGTCCAGAAGGCATTTGAGCGAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
59373770 AAGCTATATC
Statistics
Matches: 170, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 170 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:59381757 original size:80 final size:80
Alignment explanation
Indices: 59381624--59381879 Score: 403
Period size: 80 Copynumber: 3.2 Consensus size: 80
59381614 GGATTGATAA
59381624 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
59381689 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* *
59381704 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
59381769 TGCGAGTTACTATAA
66 TGCGAGTTACTATAT
*
59381784 CCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGT-CCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
59381847 AGCGAG-AAGCTATAT
66 TGCGAGTTA-CTATAT
**
59381862 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59381880 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
77 7 0.04
78 31 0.19
79 37 0.23
80 88 0.54
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:59381860 original size:39 final size:40
Alignment explanation
Indices: 59381620--59381852 Score: 407
Period size: 40 Copynumber: 5.9 Consensus size: 40
59381610 ATTCGGATTG
59381620 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
59381660 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59381700 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
59381740 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59381780 ATAACCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59381819 ATAACCGGGCTAAGT-CCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
59381853 AAGCTATATC
Statistics
Matches: 186, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
39 56 0.30
40 130 0.70
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:59381877 original size:39 final size:40
Alignment explanation
Indices: 59381620--59381879 Score: 357
Period size: 40 Copynumber: 6.6 Consensus size: 40
59381610 ATTCGGATTG
*
59381620 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
59381660 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
* *
59381700 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
* * *
59381740 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
* *
59381780 ATAACCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
* * *
59381819 ATAACCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-AAGCT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTA-CT
* *
59381858 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAATCCCGAAGG
59381880 TACTTGGTTT
Statistics
Matches: 207, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
38 7 0.03
39 70 0.34
40 130 0.63
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:59389813 original size:80 final size:80
Alignment explanation
Indices: 59389679--59389940 Score: 384
Period size: 80 Copynumber: 3.3 Consensus size: 80
59389669 ATTCGGATTG
59389679 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
59389744 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
59389759 TTATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
*
59389824 ATTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* * * ** *
59389839 ATAACCGGGCTAAGTCTCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTGAGTCCAGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
* *
59389904 TTTGAGCGAG-AAGCT
66 TTTGTGCGAGTTA-CT
**
59389919 ATATCC-GGCTAAACCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
59389941 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
79 14 0.09
80 149 0.91
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:59389921 original size:40 final size:40
Alignment explanation
Indices: 59389683--59389913 Score: 363
Period size: 40 Copynumber: 5.8 Consensus size: 40
59389673 GGATTGATAT
59389683 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
59389723 CCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTTTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
59389763 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
59389803 CCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
59389843 CCGGGCTAAGTCTCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
59389883 CCGGGCTGAGTCCAGAAGGCATTTGAGCGAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
59389914 AAGCTATATC
Statistics
Matches: 174, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:59397255 original size:39 final size:39
Alignment explanation
Indices: 59397193--59397351 Score: 237
Period size: 39 Copynumber: 4.1 Consensus size: 39
59397183 TGTGAATATA
*
59397193 TATATGCGAGAATTATATCCGGACTTCAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
59397232 TATAAGCGAGAATTATATACGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
59397271 TATATGCGAGAGTTATATCCGGACTTTATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
59397310 TATATGCGAGAATTATATCCAGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
59397349 TAT
1 TAT
59397352 GTGCTGGACA
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:59405154 original size:48 final size:48
Alignment explanation
Indices: 59405083--59405365 Score: 252
Period size: 48 Copynumber: 5.9 Consensus size: 48
59405073 ATACTAGGGT
* * *
59405083 TATGTGAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGA
1 TATGAGAGCCAGTGTAAGACCATGTTTAGGACATGGCATCGGCCTCGA
* * * *
59405131 TATGTGAGCCAGCGTAAGACCATGTTT-GGAACATGGCATCGGCATTGA
1 TATGAGAGCCAGTGTAAGACCATGTTTAGG-ACATGGCATCGGCCTCGA
* * ** * * **
59405179 TATGAGAGCTAGTTTAAGACCATGTCCAAGATATGGCATCGGCCTTAA
1 TATGAGAGCCAGTGTAAGACCATGTTTAGGACATGGCATCGGCCTCGA
* * * ** *
59405227 AATGTGAGCCAGTGTAAGACCATGTTTAGAACATGGCATCATCATTC-A
1 TATGAGAGCCAGTGTAAGACCATGTTTAGGACATGGCATCGGC-CTCGA
* *
59405275 TATGAGAGCTAGTGTAAGACCATGTTT-GGACCATGGCATCCGCAC-CGATA
1 TATGAGAGCCAGTGTAAGACCATGTTTAGGA-CATGGCATCGGC-CTCG--A
*
59405325 TATGAGAGCCAGAT-TAAGACCATGTCTAGGACATGGCATCG
1 TATGAGAGCCAG-TGTAAGACCATGTTTAGGACATGGCATCG
59405366 ACATCTTGCC
Statistics
Matches: 189, Mismatches: 37, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
47 5 0.03
48 145 0.77
49 2 0.01
50 33 0.17
51 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTTTAGGACATGGCATCGGCCTCGA
Done.