Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 145 of 145
Found at i:48293288 original size:62 final size:62
Alignment explanation
Indices: 48293219--48293394 Score: 173
Period size: 62 Copynumber: 2.8 Consensus size: 62
48293209 TTATACTCAT
* **
48293219 TTTTAAAAATTTTAATTAG-GTC-CATCAAATTTTTTAGAAAATT-TAATTAAGCCT-TCCAAAA
1 TTTTAAAAATTTTAATTAGACTCTC--CAAAACTTTT-GAAAATTCTAATTAAGCCTCT-CAAAA
48293280 G
62 G
* * * *
48293281 TTTTAAAATTTTTAATTAGACTCTCCAAAACTTTTGAAAATTCTCATTAATCCTCTCAAAAT
1 TTTTAAAAATTTTAATTAGACTCTCCAAAACTTTTGAAAATTCTAATTAAGCCTCTCAAAAG
* * * *
48293343 TTTTAAAAATTTTAATTAAACCCTCCAAAA-TTTATGGAAATTCTTATTAAGC
1 TTTTAAAAATTTTAATTAGACTCTCCAAAACTTT-TGAAAATTCTAATTAAGC
48293395 TGCTAAGTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
61 10 0.10
62 82 0.85
63 3 0.03
64 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (62 bp):
TTTTAAAAATTTTAATTAGACTCTCCAAAACTTTTGAAAATTCTAATTAAGCCTCTCAAAAG
Found at i:48293337 original size:32 final size:31
Alignment explanation
Indices: 48293250--48293392 Score: 109
Period size: 31 Copynumber: 4.6 Consensus size: 31
48293240 CCATCAAATT
*
48293250 TTTTAGAAAATT-TAATTAAGCCT-TCCAAAA
1 TTTT-GAAAATTCTAATTAAACCTCTCCAAAA
* *
48293280 GTTTT-AAAATTTTTAATTAGA-CTCTCCAAAA
1 -TTTTGAAAA-TTCTAATTAAACCTCTCCAAAA
* *
48293311 CTTTTGAAAATTCTCATTAATCCTCT-CAAAA
1 -TTTTGAAAATTCTAATTAAACCTCTCCAAAA
* *
48293342 TTTTTAAAAATTTTAATTAAACC-CTCCAAAA
1 -TTTTGAAAATTCTAATTAAACCTCTCCAAAA
* *
48293373 TTTATGGAAATTCTTATTAA
1 TTT-TGAAAATTCTAATTAA
48293393 GCTGCTAAGT
Statistics
Matches: 89, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
29 4 0.04
30 9 0.10
31 68 0.76
32 8 0.09
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.41
Consensus pattern (31 bp):
TTTTGAAAATTCTAATTAAACCTCTCCAAAA
Found at i:48293373 original size:31 final size:31
Alignment explanation
Indices: 48293217--48293375 Score: 135
Period size: 31 Copynumber: 5.1 Consensus size: 31
48293207 TATTATACTC
** *
48293217 ATTTTTAAAAATTTTAATTAGGTCCAT-CAAA
1 ATTTTTAAAAATTTTAATTA-AACCCTCCAAA
* * *
48293248 TTTTTTAGAAAA-TTTAATTAAGCCTTCCAAA
1 ATTTTTA-AAAATTTTAATTAAACCCTCCAAA
* * * *
48293279 AGTTTTAAAATTTTTAATTAGACTCTCCAAA
1 ATTTTTAAAAATTTTAATTAAACCCTCCAAA
* * * * *
48293310 ACTTTTGAAAATTCTCATT-AATCCTCTCAAA
1 ATTTTTAAAAATTTTAATTAAACCCTC-CAAA
48293341 ATTTTTAAAAATTTTAATTAAACCCTCCAAA
1 ATTTTTAAAAATTTTAATTAAACCCTCCAAA
48293372 ATTT
1 ATTT
48293376 ATGGAAATTC
Statistics
Matches: 99, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
30 10 0.10
31 79 0.80
32 10 0.10
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (31 bp):
ATTTTTAAAAATTTTAATTAAACCCTCCAAA
Found at i:48299004 original size:322 final size:324
Alignment explanation
Indices: 48298487--48299107 Score: 813
Period size: 322 Copynumber: 1.9 Consensus size: 324
48298477 AGTACGTGGT
* * * * * *
48298487 GATAATTGATGGTTGTCTTATCGAAGTGACCTTGTTGTCAGGGGTGGTTGGCTTGCACTTCCTTT
1 GATAAGTGATAGTTGTCTTATCGAAGTGACCTTATTATCAGGGGTGGTTAGCTTGCACTTCCCTT
* *
48298552 GATCCTGACAAACAATACTTATGGTGGAAGAGATAAGATTGACGAAACCTGATGGGCGGAGTTAG
66 GATCCTGACAAACAATACTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGGCGGA--TAG
* * ** *
48298617 GTGGTGAAGTGATCATGGTACTTTGGCGCAGATTGCCAAGTAGCGTATGTATTTGGAACAGTCCT
129 GT-GTGAAGTGATCACGGTACTTTGGCGCAGATTGCCAAGTAGAGTACATATATGGAACAGTCCT
* * *
48298682 TATGGTGGAAGAGATAAGACGGACGAAACCAGATCGGCGGAGTTAGATGATGGTTGTCTTTGATA
193 TATGGTGGAAGAGATAAGACGGACAAAACCAGATCGGCGGAGTTAGAGGATGATTGTC-TTGATA
* * * * * *
48298747 GGCTTGTTGCTCCTTCTCATGATCTCTTGTTAGATGAGTAATGTGACATCACCAAGATTTCAAAA
257 GCCTCGCTGCTCCTTCCCATCATCCCTTGTTAGATGAGTAATGTGACATCACCAAGATTTCAAAA
48298812 TAC
322 TAC
* *
48298815 GATAAGTGATAGTTGTCTTA-CTGGAGTGACCTTATTATTAGGGGTGGTTAGCTTGCACATTCCC
1 GATAAGTGATAGTTGTCTTATC-GAAGTGACCTTATTATCAGGGGTGGTTAGCTTGCAC-TTCCC
* * *
48298879 TTGATCCTGGCAGAACAATCCTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGG-TGA-A
64 TTGATCCTGACA-AACAATACTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGGCGGATA
* *
48298942 -GT-T-AGGTGATCACGGTACTTTGGCGCAGATTGCCAAGTGGAGTACATATATGGAACAGTCCT
128 GGTGTGAAGTGATCACGGTACTTTGGCGCAGATTGCCAAGTAGAGTACATATATGGAACAGTCCT
* * * * *
48299004 TATGGTGGAAGAGATAAGACTGACAAAACGAGATGGGCGGAGTTTGGGGATGATTGTCTTGATAG
193 TATGGTGGAAGAGATAAGACGGACAAAACCAGATCGGCGGAGTTAGAGGATGATTGTCTTGATAG
* *
48299069 CCTCGCTGGTCCTTCCCATCATCCCTTGTTAGGTGAGTA
258 CCTCGCTGCTCCTTCCCATCATCCCTTGTTAGATGAGTA
48299108 TTGTTAGGTG
Statistics
Matches: 254, Mismatches: 36, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
321 38 0.15
322 102 0.40
323 1 0.00
325 2 0.01
326 1 0.00
327 1 0.00
328 49 0.19
329 17 0.07
330 43 0.17
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (324 bp):
GATAAGTGATAGTTGTCTTATCGAAGTGACCTTATTATCAGGGGTGGTTAGCTTGCACTTCCCTT
GATCCTGACAAACAATACTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGGCGGATAGGT
GTGAAGTGATCACGGTACTTTGGCGCAGATTGCCAAGTAGAGTACATATATGGAACAGTCCTTAT
GGTGGAAGAGATAAGACGGACAAAACCAGATCGGCGGAGTTAGAGGATGATTGTCTTGATAGCCT
CGCTGCTCCTTCCCATCATCCCTTGTTAGATGAGTAATGTGACATCACCAAGATTTCAAAATAC
Found at i:48299113 original size:14 final size:14
Alignment explanation
Indices: 48299094--48299121 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48299084 CCATCATCCC
48299094 TTGTTAGGTGAGTA
1 TTGTTAGGTGAGTA
48299108 TTGTTAGGTGAGTA
1 TTGTTAGGTGAGTA
48299122 ATGTGATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (14 bp):
TTGTTAGGTGAGTA
Found at i:48308543 original size:2 final size:2
Alignment explanation
Indices: 48308536--48308560 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48308526 CAAATTAAAT
48308536 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
48308561 TAATCCGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48313519 original size:73 final size:69
Alignment explanation
Indices: 48313360--48313592 Score: 265
Period size: 69 Copynumber: 3.3 Consensus size: 69
48313350 GTTACTTCTG
* *
48313360 TTTTGCTGATAGCATGAATAATAT-T-ATTACCAAGTATTCAATACTCATACCCGAGTCTGAATA
1 TTTTGCTGATAGCATGAATAAGATCTCA-TACC-TGTATTCAATACTCATACCCGAGTCTGAATA
48313423 AGATGA
64 AGATGA
* * * *
48313429 TTTTGCTGATAGAATGAATAAGATGCTCATACCTGTATTCAGTACTCGTA-CTGAGTCTGAATAA
1 TTTTGCTGATAGCATGAATAAGAT-CTCATACCTGTATTCAATACTCATACCCGAGTCTGAATAA
48313493 GATACTTGA
65 G--A--TGA
* * * *
48313502 TTTTGCTGATAGCATGAATAAGACACTCATATATCTGTATTCAATACTCATACCCGAGTCCGAGT
1 TTTTGCTGATAGCATGAATAAGA-TCTC--ATACCTGTATTCAATACTCATACCCGAGTCTGAAT
48313567 AAGATGA
63 AAGATGA
48313574 TTTTGCTGATAGCATGAAT
1 TTTTGCTGATAGCATGAAT
48313593 GTTATTAGTA
Statistics
Matches: 139, Mismatches: 14, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
69 36 0.26
70 14 0.10
71 6 0.04
72 23 0.17
73 28 0.20
74 1 0.01
75 19 0.14
76 12 0.09
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (69 bp):
TTTTGCTGATAGCATGAATAAGATCTCATACCTGTATTCAATACTCATACCCGAGTCTGAATAAG
ATGA
Found at i:48320566 original size:16 final size:16
Alignment explanation
Indices: 48320540--48320586 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
48320530 AAAATTCAAT
*
48320540 AAATAAAAAATATATA
1 AAATAATAAATATATA
* *
48320556 AATTATTAAATAT-TA
1 AAATAATAAATATATA
48320571 AAATAATATAATATAT
1 AAATAATA-AATATAT
48320587 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 8 0.33
16 15 0.62
17 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAATAAATATATA
Found at i:48320567 original size:27 final size:27
Alignment explanation
Indices: 48320523--48320608 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
48320513 TTTAGAAGAC
** *
48320523 TATATAAAAAATTCAATAAATAAAAAA
1 TATATAAATTATTAAATAAATAAAAAA
*
48320550 TATATAAATTATTAAAT-ATTAAAATAA
1 TATATAAATTATTAAATAAATAAAA-AA
* * *
48320577 TATAATATATCTTTTAAAAAAATTAAAAAA
1 TAT-ATAAAT-TATTAAATAAA-TAAAAAA
48320607 TA
1 TA
48320609 ATATGGACGA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
26 6 0.13
27 19 0.41
28 5 0.11
29 6 0.13
30 5 0.11
31 5 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
TATATAAATTATTAAATAAATAAAAAA
Found at i:48322021 original size:2 final size:2
Alignment explanation
Indices: 48322009--48322038 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
48321999 CAAATGCTAG
*
48322009 CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
48322039 GATATACCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:48325915 original size:3 final size:3
Alignment explanation
Indices: 48325907--48325938 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
48325897 TCTTTTAGCA
48325907 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48325939 CAGATTAACA
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:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48325966 original size:3 final size:3
Alignment explanation
Indices: 48325960--48325986 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
48325950 AACTTAAAAA
48325960 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
48325987 CGTACCACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:48329518 original size:20 final size:21
Alignment explanation
Indices: 48329493--48329534 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
48329483 GAAAAAAAAA
48329493 AGGATAAACGTA-CAACAAAT
1 AGGATAAACGTACCAACAAAT
*
48329513 AGGATAAATGTATCCAACAAAT
1 AGGATAAACGTA-CCAACAAAT
48329535 TCATTAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (21 bp):
AGGATAAACGTACCAACAAAT
Found at i:48330814 original size:11 final size:11
Alignment explanation
Indices: 48330798--48330823 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48330788 TTGCTGGATG
48330798 ATATTTTGGTT
1 ATATTTTGGTT
48330809 ATATTTTGGTT
1 ATATTTTGGTT
48330820 ATAT
1 ATAT
48330824 ACAGATGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (11 bp):
ATATTTTGGTT
Found at i:48333256 original size:20 final size:20
Alignment explanation
Indices: 48333231--48333270 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48333221 AATATTTTCT
*
48333231 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
48333251 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
48333271 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:48333273 original size:34 final size:35
Alignment explanation
Indices: 48333219--48333285 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
48333209 CAAACACCAG
* *
48333219 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
48333254 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
48333286 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:48333277 original size:14 final size:14
Alignment explanation
Indices: 48333254--48333293 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
48333244 ACAGAAAAGT
*
48333254 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
48333268 AAATCATTTTACGG
1 AAAACATTTTACAG
48333282 AAAACATTTTAC
1 AAAACATTTTAC
48333294 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:48334129 original size:3 final size:3
Alignment explanation
Indices: 48334121--48334146 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48334111 GAATCTAATT
48334121 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
48334147 GAAAAAGGTA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:48342489 original size:19 final size:19
Alignment explanation
Indices: 48342456--48342517 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
48342446 GTTATGTCAA
*
48342456 AAAAATAAATTAAAAATTAT
1 AAAAAT-AATAAAAAATTAT
48342476 AAAAATAATAAAAAATTCA-
1 AAAAATAATAAAAAATT-AT
**
48342495 AAATTTAA-AAAAAATTAT
1 AAAAATAATAAAAAATTAT
48342513 AAAAA
1 AAAAA
48342518 ACTCATAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 11 0.31
19 16 0.46
20 7 0.20
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATAATAAAAAATTAT
Found at i:48344225 original size:29 final size:30
Alignment explanation
Indices: 48344176--48344236 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
48344166 ATATAAAAAC
*
48344176 TATACATGAATTTTAATTTTG-TGCGATTT
1 TATACAAGAATTTTAATTTTGATGCGATTT
* *
48344205 TATACAAGAAATTTTGA-TTTGATTCGATTT
1 TATACAAG-AATTTTAATTTTGATGCGATTT
48344235 TA
1 TA
48344237 AAAAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (30 bp):
TATACAAGAATTTTAATTTTGATGCGATTT
Found at i:48355882 original size:11 final size:11
Alignment explanation
Indices: 48355866--48355891 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48355856 ATTTTTTTAA
48355866 TTTTAAAATAC
1 TTTTAAAATAC
48355877 TTTTAAAATAC
1 TTTTAAAATAC
48355888 TTTT
1 TTTT
48355892 CGGCCCGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:48355930 original size:16 final size:17
Alignment explanation
Indices: 48355906--48355943 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
48355896 CCGATATAAT
*
48355906 AAATATTTTTA-TTTTA
1 AAATATTTTAATTTTTA
*
48355922 AAATTTTTTAATTTTTA
1 AAATATTTTAATTTTTA
48355939 AAATA
1 AAATA
48355944 AATTTTTGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATATTTTAATTTTTA
Found at i:48360150 original size:158 final size:155
Alignment explanation
Indices: 48359894--48360197 Score: 423
Period size: 158 Copynumber: 1.9 Consensus size: 155
48359884 CAAAAGTACC
* * * * *
48359894 AAAAAAAAAAAAGTTGTTGATATGATTGTCATAAAAAACACAAATACACACACAAAAAGAAAAAC
1 AAAAAAAAAAAAGTTGGTGATATGATTATCATAAAAAACACAAATACACAAAAAAAAAAAAAAAC
* *
48359959 CATTTTGATTATTTTTAGAGCTAACCCAAATTCCCAAATCATAAATTATGAACAAAAAACGAACC
66 CATTTTGATTAATTTTAGAGCTAACCCAAATTCCCAAATCATAAATTATGAACAAAAAACGAAAC
* *
48360024 ATAAGCTTCAAATTGAACTTAAACA
131 ATAAACTCCAAATTGAACTTAAACA
* * *
48360049 AAAAAAAAAAAAGGTTGGTGATATGA-TATCATCAGAAACATAAATACA-AAAAAAAAAAACAAC
1 AAAAAAAAAAAA-GTTGGTGATATGATTATCATAAAAAACACAAATACACAAAAAAAAAAA-AA-
* *
48360112 AACAACATTTTTATTAATTTTAGAGCTAACCCATATTCCCAAATCATAAATTATGAACAAAAAAC
63 AAC--CATTTTGATTAATTTTAGAGCTAACCCAAATTCCCAAATCATAAATTATGAACAAAAAAC
48360177 GAAACATAAACTCCAAATTGA
126 GAAACATAAACTCCAAATTGA
48360198 GCTCAAAGAA
Statistics
Matches: 130, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
154 8 0.06
155 32 0.25
156 15 0.12
158 75 0.58
ACGTcount: A:0.53, C:0.15, G:0.08, T:0.23
Consensus pattern (155 bp):
AAAAAAAAAAAAGTTGGTGATATGATTATCATAAAAAACACAAATACACAAAAAAAAAAAAAAAC
CATTTTGATTAATTTTAGAGCTAACCCAAATTCCCAAATCATAAATTATGAACAAAAAACGAAAC
ATAAACTCCAAATTGAACTTAAACA
Found at i:48361625 original size:363 final size:362
Alignment explanation
Indices: 48360960--48361684 Score: 1441
Period size: 363 Copynumber: 2.0 Consensus size: 362
48360950 CGGACCCTAC
48360960 CGACTTTAATTAAGAAAGTCAACCAAACTGAACTGACATTGACTCAATTGATCTCTTCAATTAAC
1 CGACTTTAATTAAGAAAGTCAACCAAACTGAACTGACATTGACTCAATTGATCTCTTCAATTAAC
48361025 CGTTCCAAAATTTTTGGGTTGGTTTAGTTGTATTGAATTAATATATTTAATATATTATAAATAAC
66 CGTTCCAAAATTTTTGGGTTGGTTTAGTTGTATTGAATTAATATATTTAATATATTATAAATAAC
48361090 TAAAAATAATATAAGGTAAGTTAGTTTTTTCGATCAATTTGATTTTGGCAAAGGTCAAAATTAAC
131 TAAAAATAATATAAGGTAAGTTAGTTTTTTCGATCAATTTGATTTTGGCAAAGGTCAAAATTAAC
48361155 TAAGCCATCCCACCGGACTAAGGGTGGGTTTGGATAAACGTACTGCCCGTCCAAACTCACTGTAA
196 TAAGCCATCCCACCGGACTAAGGGTGGGTTTGGATAAACGTACTGCCCGTCCAAACTCACTGTAA
48361220 ATTATAATCAAATTGAGTTGGATTTATATTAAGATTATTCGATTTTTTTTATTTGGATCAATATC
261 ATTATAATCAAATTGAGTTGGATTTATATTAAGATTATTCGATTTTTTTTATTTGGATCAATATC
48361285 ACATGTCTAATTTAATATATATATATATTATATATAAA
326 ACATGTCTAATTTAATATATATATATA-TATATATAAA
48361323 CGACTTTAATTAAGAAAGTCAACCAAACTGAACTGACATTGACTCAATTGATCTCTTCAATTAAC
1 CGACTTTAATTAAGAAAGTCAACCAAACTGAACTGACATTGACTCAATTGATCTCTTCAATTAAC
48361388 CGTTCCAAAATTTTTGGGTTGGTTTAGTTGTATTGAATTAATATATTTAATATATTATAAATAAC
66 CGTTCCAAAATTTTTGGGTTGGTTTAGTTGTATTGAATTAATATATTTAATATATTATAAATAAC
48361453 TAAAAATAATATAAGGTAAGTTAGTTTTTTCGATCAATTTGATTTTGGCAAAGGTCAAAATTAAC
131 TAAAAATAATATAAGGTAAGTTAGTTTTTTCGATCAATTTGATTTTGGCAAAGGTCAAAATTAAC
48361518 TAAGCCATCCCACCGGACTAAGGGTGGGTTTGGATAAACGTACTGCCCGTCCAAACTCACTGTAA
196 TAAGCCATCCCACCGGACTAAGGGTGGGTTTGGATAAACGTACTGCCCGTCCAAACTCACTGTAA
48361583 ATTATAATCAAATTGAGTTGGATTTATATTAAGATTATTCGATTTTTTTTATTTGGATCAATATC
261 ATTATAATCAAATTGAGTTGGATTTATATTAAGATTATTCGATTTTTTTTATTTGGATCAATATC
48361648 ACATGTCTAATTTAATATATATATATATATATATAAA
326 ACATGTCTAATTTAATATATATATATATATATATAAA
48361685 TTAAAATCTG
Statistics
Matches: 362, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
362 10 0.03
363 352 0.97
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (362 bp):
CGACTTTAATTAAGAAAGTCAACCAAACTGAACTGACATTGACTCAATTGATCTCTTCAATTAAC
CGTTCCAAAATTTTTGGGTTGGTTTAGTTGTATTGAATTAATATATTTAATATATTATAAATAAC
TAAAAATAATATAAGGTAAGTTAGTTTTTTCGATCAATTTGATTTTGGCAAAGGTCAAAATTAAC
TAAGCCATCCCACCGGACTAAGGGTGGGTTTGGATAAACGTACTGCCCGTCCAAACTCACTGTAA
ATTATAATCAAATTGAGTTGGATTTATATTAAGATTATTCGATTTTTTTTATTTGGATCAATATC
ACATGTCTAATTTAATATATATATATATATATATAAA
Found at i:48363035 original size:10 final size:10
Alignment explanation
Indices: 48363020--48363044 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48363010 TTTGTAATTA
48363020 TTTTTTTTTG
1 TTTTTTTTTG
48363030 TTTTTTTTTG
1 TTTTTTTTTG
48363040 TTTTT
1 TTTTT
48363045 ATCATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:48363469 original size:225 final size:226
Alignment explanation
Indices: 48363078--48363529 Score: 888
Period size: 225 Copynumber: 2.0 Consensus size: 226
48363068 ATGAAAGTTA
48363078 ACAAATTGTAAATATTATACTGTAAGAAGATGACGTGGCAACGTGCAGATGGTAGGCAGGTTCCT
1 ACAAATTGTAAATATTATACTGTAAGAAGATGACGTGGCAACGTGCAGATGGTAGGCAGGTTCCT
*
48363143 TCTCTAGTTTCTCCGTGTCATCGTCATAAGATCAGGTGCTTCTGGAATCATAGTACCCCTCGAGA
66 TCTCTAGTTTCTCCGTGTCATCGTCATAAGATCAGGCGCTTCTGGAATCATAGTACCCCTCGAGA
48363208 TAATACGGTGAGATGCGATGCCAAAAATCTCTTCGTCTCTATGGAATTTGTAAATTAAATATTTT
131 TAATACGGTGAGATGCGATGCCAAAAATCTCTTCGTCTCTATGGAATTTGTAAATTAAATATTTT
48363273 ATTTAAAAATTGAGTAAATT-ATTTTTATAT
196 ATTTAAAAATTGAGTAAATTAATTTTTATAT
48363303 ACAAATTGTAAATATTATACTGTAAGAAGATGACGTGGCAACGTGCAGATGGTAGGCAGGTTCCT
1 ACAAATTGTAAATATTATACTGTAAGAAGATGACGTGGCAACGTGCAGATGGTAGGCAGGTTCCT
48363368 TCTCTAGTTTCTCCGTGTCATCGTCATAAGATCAGGCGCTTCTGGAATCATAGTACCCCTCGAGA
66 TCTCTAGTTTCTCCGTGTCATCGTCATAAGATCAGGCGCTTCTGGAATCATAGTACCCCTCGAGA
48363433 TAATACGGTGAGATGCGATGCCAAAAATCTCTTCGTCTCTATGGAATTTGTAAATTAAATATTTT
131 TAATACGGTGAGATGCGATGCCAAAAATCTCTTCGTCTCTATGGAATTTGTAAATTAAATATTTT
48363498 ATTTAAAAATTGAGTAAATTAATTTTTATAT
196 ATTTAAAAATTGAGTAAATTAATTTTTATAT
48363529 A
1 A
48363530 TTATATTAAA
Statistics
Matches: 225, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
225 214 0.95
226 11 0.05
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (226 bp):
ACAAATTGTAAATATTATACTGTAAGAAGATGACGTGGCAACGTGCAGATGGTAGGCAGGTTCCT
TCTCTAGTTTCTCCGTGTCATCGTCATAAGATCAGGCGCTTCTGGAATCATAGTACCCCTCGAGA
TAATACGGTGAGATGCGATGCCAAAAATCTCTTCGTCTCTATGGAATTTGTAAATTAAATATTTT
ATTTAAAAATTGAGTAAATTAATTTTTATAT
Found at i:48366068 original size:7 final size:7
Alignment explanation
Indices: 48366056--48366112 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
48366046 AATAAATATA
48366056 TATTTTT
1 TATTTTT
48366063 TA-TTTT
1 TATTTTT
48366069 TATTTTT
1 TATTTTT
48366076 TATTTTT
1 TATTTTT
* *
48366083 AAAATACTTT
1 --TAT-TTTT
48366093 TA-TTTT
1 TATTTTT
48366099 TATTTTT
1 TATTTTT
48366106 TATTTTT
1 TATTTTT
48366113 AAAATAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 11 0.27
7 24 0.59
8 1 0.02
9 2 0.05
10 3 0.07
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (7 bp):
TATTTTT
Found at i:48366072 original size:13 final size:13
Alignment explanation
Indices: 48366056--48366113 Score: 71
Period size: 13 Copynumber: 4.2 Consensus size: 13
48366046 AATAAATATA
48366056 TATTTTTTATTTT
1 TATTTTTTATTTT
48366069 TATTTTTTATTTT
1 TATTTTTTATTTT
*
48366082 TAAAATACTTTTATTTT
1 T---AT-TTTTTATTTT
48366099 TATTTTTTATTTT
1 TATTTTTTATTTT
48366112 TA
1 TA
48366114 AAATAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 25 0.64
14 2 0.05
16 2 0.05
17 10 0.26
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:48366096 original size:30 final size:30
Alignment explanation
Indices: 48366060--48366118 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
48366050 AATATATATT
48366060 TTTTATTTTTATTTTTTATTTTTAAAATAC
1 TTTTATTTTTATTTTTTATTTTTAAAATAC
48366090 TTTTATTTTTATTTTTTATTTTTAAAATA
1 TTTTATTTTTATTTTTTATTTTTAAAATA
48366119 AATTTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (30 bp):
TTTTATTTTTATTTTTTATTTTTAAAATAC
Found at i:48367580 original size:20 final size:20
Alignment explanation
Indices: 48367545--48367582 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48367535 TGGTCATTTC
48367545 GTAACAAAACGATAACATAA
1 GTAACAAAACGATAACATAA
48367565 GTAATCAAAACG-TAACAT
1 GTAA-CAAAACGATAACAT
48367583 TTCAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (20 bp):
GTAACAAAACGATAACATAA
Found at i:48368666 original size:13 final size:13
Alignment explanation
Indices: 48368650--48368679 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
48368640 AATTTTAAAC
48368650 AACACTTTTCAAA
1 AACACTTTTCAAA
48368663 AACACTTTTCAAA
1 AACACTTTTCAAA
48368676 AACA
1 AACA
48368680 ATAAAGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (13 bp):
AACACTTTTCAAA
Found at i:48371218 original size:97 final size:96
Alignment explanation
Indices: 48371059--48371356 Score: 334
Period size: 97 Copynumber: 3.1 Consensus size: 96
48371049 TGAAGCACAC
* * * * *
48371059 AATG-AGGAAAGATTGAACCATAAAACCAA-AAAAAGCAACCA-AAGCGTTTTGAAGATCAATAT
1 AATGTAGG-AAGATGGAACCATAAAGCCAATAAAAAACAACCAGAA-CATTTTGAA-ATCGATAT
** *
48371121 AACTCACTAACACGAACCGAGCAATGAAAACTCG
63 AACTTGCTAACACGAACCAAGCAATGAAAACTCG
* **
48371155 AATGTAGGAAGATGGAACCGTAATTCCAATAAAAAAACAA-CAGAAACATTTTGAAATCGATATA
1 AATGTAGGAAGATGGAACCATAAAGCCAAT-AAAAAACAACCAG-AACATTTTGAAATCGATATA
* * *
48371219 GCTTGCTACCACGAACCAAGCAATGAAAACTTG
64 ACTTGCTAACACGAACCAAGCAATGAAAACTCG
* * * * *
48371252 TATGGAGGAAGATGGAACCATAAAGCCAATAAAAAGCAACCTGAACATTTTGAAAATCGACATAA
1 AATGTAGGAAGATGGAACCATAAAGCCAATAAAAAACAACCAGAACATTTTG-AAATCGATATAA
48371317 CTTGCTAACACGAACCAAGCAATGAAAACTCG
65 CTTGCTAACACGAACCAAGCAATGAAAACTCG
*
48371349 AAAGTAGG
1 AATGTAGG
48371357 CCATTTTAAT
Statistics
Matches: 168, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
96 38 0.23
97 112 0.67
98 16 0.10
99 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.18
Consensus pattern (96 bp):
AATGTAGGAAGATGGAACCATAAAGCCAATAAAAAACAACCAGAACATTTTGAAATCGATATAAC
TTGCTAACACGAACCAAGCAATGAAAACTCG
Found at i:48382236 original size:60 final size:61
Alignment explanation
Indices: 48382078--48382236 Score: 207
Period size: 61 Copynumber: 2.6 Consensus size: 61
48382068 GTAACTGAAC
* * **
48382078 AAAATAGTAAGAGGGA-CGAAGTGAGAATTTCATTATAGTGTAAGGAACAAAATGATAAAGA
1 AAAATAGTAA-AAGGACCAAAGTGAGAATTTCATTATAGTCAAAGGAACAAAATGATAAAGA
* * *
48382139 AAATTAGTAAAAGGGCCAATGTGAGAATTTCATTATAGTACAAAGG-ACAAAATGATAAA-A
1 AAAATAGTAAAAGGACCAAAGTGAGAATTTCATTATAGT-CAAAGGAACAAAATGATAAAGA
*
48382199 AAAATAGTAAAAGGACCAAAGTGAGAATTTCACTATAG
1 AAAATAGTAAAAGGACCAAAGTGAGAATTTCATTATAG
48382237 GGCCAAAATA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
60 38 0.45
61 43 0.51
62 4 0.05
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.22
Consensus pattern (61 bp):
AAAATAGTAAAAGGACCAAAGTGAGAATTTCATTATAGTCAAAGGAACAAAATGATAAAGA
Found at i:48393280 original size:104 final size:104
Alignment explanation
Indices: 48393142--48393566 Score: 647
Period size: 104 Copynumber: 4.1 Consensus size: 104
48393132 ATTAGGCACC
* * * * * * * *
48393142 AACCACTAAGTTAAATACTCGAGTTTATGCGAAAATTA-CAGATCAAAAACAAACTCCTGCTACA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGA-ATCAAAATCAAACTCATTCTACA
48393206 ATGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
65 ATGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
*
48393246 AACCTCTAAGTTAAATACTCAAGTTTAAGAGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
* * *
48393311 TGTAAGAGCTTTGATTCCTTGTTTACATGAAAATCTTGA
66 TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
*
48393350 AACCTCTAAGTTAAATATTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
* * *
48393415 TGTAAGAGCTTTGATTCATTATTTACATGAAAATTTTTA
66 TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
*
48393454 AACCTCTAAGTTTAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
*
48393519 TGTAAGAGCTTTGATTCATTACTTACA-AGAAAATCTTGA
66 TGTAAGAGCTTTGATTCATTATTTACATA-AAAATCTTGA
*
48393558 AGCCTCTAA
1 AACCTCTAA
48393567 ATTTACAACA
Statistics
Matches: 294, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
104 293 1.00
105 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (104 bp):
AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
Found at i:48394874 original size:32 final size:31
Alignment explanation
Indices: 48394817--48394886 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 31
48394807 CGAAAACTTA
* *
48394817 AAATTCAAGCCCCAATATGAAAATAATTGAC
1 AAATTTAAGCCCAAATATGAAAATAATTGAC
* *
48394848 AAATTTAAGCCCAAAATATGAGAATAATTGTC
1 AAATTTAAGCCC-AAATATGAAAATAATTGAC
48394880 AAATTTA
1 AAATTTA
48394887 GAGACTAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 11 0.32
32 23 0.68
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (31 bp):
AAATTTAAGCCCAAATATGAAAATAATTGAC
Found at i:48395930 original size:2 final size:2
Alignment explanation
Indices: 48395923--48395949 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48395913 GAAGAGCAAA
48395923 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
48395950 AACATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48398554 original size:29 final size:29
Alignment explanation
Indices: 48398512--48398573 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
48398502 ATTCGAAAGG
48398512 ATTTTGGTTGGCTCAATTTGAATTTTAAA
1 ATTTTGGTTGGCTCAATTTGAATTTTAAA
48398541 ATTTTGGTTGGCTCAATTTGAATTTTAAA
1 ATTTTGGTTGGCTCAATTTGAATTTTAAA
48398570 ATTT
1 ATTT
48398574 ACATAAGATC
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:0.27, C:0.06, G:0.16, T:0.50
Consensus pattern (29 bp):
ATTTTGGTTGGCTCAATTTGAATTTTAAA
Found at i:48398585 original size:29 final size:29
Alignment explanation
Indices: 48398524--48398585 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
48398514 TTTGGTTGGC
*** ** *
48398524 TCAATTTGAATTTTAAAATTTTGGTTGGC
1 TCAATTTGAATTTTAAAATTTACATAAGA
48398553 TCAATTTGAATTTTAAAATTTACATAAGA
1 TCAATTTGAATTTTAAAATTTACATAAGA
48398582 TCAA
1 TCAA
48398586 ATTTAATGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (29 bp):
TCAATTTGAATTTTAAAATTTACATAAGA
Found at i:48398609 original size:20 final size:20
Alignment explanation
Indices: 48398584--48398624 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
48398574 ACATAAGATC
*
48398584 AAATTTAATGTTTATTTTTT
1 AAATTTAATGTTTATATTTT
*
48398604 AAATTTAATTTTTATATTTT
1 AAATTTAATGTTTATATTTT
48398624 A
1 A
48398625 GTTAAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
AAATTTAATGTTTATATTTT
Found at i:48403650 original size:2 final size:2
Alignment explanation
Indices: 48403643--48403671 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48403633 AGAGAATGAT
48403643 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48403672 CACTAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48405537 original size:27 final size:26
Alignment explanation
Indices: 48405505--48405558 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
48405495 TAACCTTTGT
48405505 ATATATATTCATCTATTTAATTTTAAAAA
1 ATAT-TATT-ATCTATTTAA-TTTAAAAA
* *
48405534 ATATTATTATTTATTTTATTTAAAA
1 ATATTATTATCTATTTAATTTAAAA
48405559 TTATGTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.30
27 8 0.35
28 4 0.17
29 4 0.17
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
ATATTATTATCTATTTAATTTAAAAA
Found at i:48406023 original size:19 final size:20
Alignment explanation
Indices: 48405987--48406024 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48405977 AGCAACATGG
*
48405987 TTCATTTTTATGTATTTTTT
1 TTCATTTATATGTATTTTTT
48406007 TTCATTTATAT-TATTTTT
1 TTCATTTATATGTATTTTT
48406025 CCAGTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTCATTTATATGTATTTTTT
Found at i:48406059 original size:16 final size:16
Alignment explanation
Indices: 48406032--48406072 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
48406022 TTTCCAGTGT
48406032 AAAA-TATTTTTTT-A
1 AAAATTATTTTTTTCA
48406046 AAAATTATTTTTTTCA
1 AAAATTATTTTTTTCA
48406062 AAAATTATTTT
1 AAAATTATTTT
48406073 CGAGAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.16
15 9 0.36
16 12 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
AAAATTATTTTTTTCA
Found at i:48411859 original size:24 final size:24
Alignment explanation
Indices: 48411809--48411859 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
48411799 CTTAAATTTT
*
48411809 AAAATTTTAAAAATTAAAAAATTA
1 AAAATTTTAAAAATTAAAAAATAA
* *
48411833 AAAATTTTTAAAA-TAAAATTATAA
1 AAAATTTTAAAAATTAAAA-AATAA
48411857 AAA
1 AAA
48411860 CTAAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAATTTTAAAAATTAAAAAATAA
Found at i:48416026 original size:22 final size:23
Alignment explanation
Indices: 48415972--48416019 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
48415962 TTTTCACAAA
48415972 TTTA-GAATTTAATCCTTTTATT
1 TTTAGGAATTTAATCCTTTTATT
* *
48415994 TTTAGGAATTTGATCTTTTTATT
1 TTTAGGAATTTAATCCTTTTATT
48416017 TTT
1 TTT
48416020 CAGATTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTAGGAATTTAATCCTTTTATT
Found at i:48416815 original size:30 final size:31
Alignment explanation
Indices: 48416745--48416818 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
48416735 AATATTTTAG
*
48416745 TTTAAATCACTGAATAATTTGAAAGCTTCTA
1 TTTAAGTCACTGAATAATTTGAAAGCTTCTA
* *
48416776 TTTAAGTCACTGAATTATTTGGAATG-TT-TA
1 TTTAAGTCACTGAATAATTT-GAAAGCTTCTA
*
48416806 TTTACGTCACTGA
1 TTTAAGTCACTGA
48416819 GTTGTTAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 14 0.37
31 20 0.53
32 4 0.11
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (31 bp):
TTTAAGTCACTGAATAATTTGAAAGCTTCTA
Found at i:48426717 original size:20 final size:20
Alignment explanation
Indices: 48426678--48426716 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48426668 AAACTTATAG
* *
48426678 ATGTATGTAATTTATATTTT
1 ATGTATATAATATATATTTT
48426698 ATGTATATAATATAT-TTTT
1 ATGTATATAATATATATTTT
48426717 TTAGAGAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
ATGTATATAATATATATTTT
Found at i:48432100 original size:21 final size:20
Alignment explanation
Indices: 48432065--48432103 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48432055 ATTAACTTTG
*
48432065 TTTAAAAATATTTTTTTAAT
1 TTTAAAAATAATTTTTTAAT
48432085 TTTAAAAATAAATTTTTTA
1 TTTAAAAAT-AATTTTTTA
48432104 TTCATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAAAAATAATTTTTTAAT
Found at i:48446507 original size:79 final size:79
Alignment explanation
Indices: 48446408--48446566 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
48446398 TTAATCCTTT
**
48446408 ACTTTTTGAATTTTGAAGTTTTAGTCCAAACCTATAGGGTGAATTTAAGAGGCCGGCAGGGAGTT
1 ACTTTTTGAATTTTGAAGTTTTAGTCCAAACCTATAGGGTGAATTTAAGAGGCCGGCAGGGACCT
48446473 TGGCCCCTCCAATG
66 TGGCCCCTCCAATG
48446487 ACTTTTTGAATTTTGAAGTTTTAGTCCAAACCTATAGGGTGAATTTAAGAGGCCGGCAGGGACCT
1 ACTTTTTGAATTTTGAAGTTTTAGTCCAAACCTATAGGGTGAATTTAAGAGGCCGGCAGGGACCT
48446552 TGGCCCCTCCAATG
66 TGGCCCCTCCAATG
48446566 A
1 A
48446567 AAAATTATCT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (79 bp):
ACTTTTTGAATTTTGAAGTTTTAGTCCAAACCTATAGGGTGAATTTAAGAGGCCGGCAGGGACCT
TGGCCCCTCCAATG
Found at i:48455351 original size:6 final size:6
Alignment explanation
Indices: 48455340--48455371 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
48455330 TAAAATATTT
48455340 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
48455372 TAAATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:48466387 original size:29 final size:29
Alignment explanation
Indices: 48466347--48466404 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
48466337 TTACGCAACT
48466347 AAGAACACTACTTTTAGCAAATGCTATAG
1 AAGAACACTACTTTTAGCAAATGCTATAG
*
48466376 AAGAACACTACTTTTAGCTAATGCTATAG
1 AAGAACACTACTTTTAGCAAATGCTATAG
48466405 TTTCATCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (29 bp):
AAGAACACTACTTTTAGCAAATGCTATAG
Found at i:48466621 original size:31 final size:31
Alignment explanation
Indices: 48466586--48466645 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
48466576 AAAATGGTCG
*
48466586 CTGAATTATTCAAAAATTTTCATTTAAGTCA
1 CTGAACTATTCAAAAATTTTCATTTAAGTCA
* *
48466617 CTGAACTATTCAAAAGTTTTTATTTAAGT
1 CTGAACTATTCAAAAATTTTCATTTAAGT
48466646 TACTAGGCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (31 bp):
CTGAACTATTCAAAAATTTTCATTTAAGTCA
Found at i:48467981 original size:25 final size:26
Alignment explanation
Indices: 48467934--48467983 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
48467924 TTTATTATAT
* *
48467934 TATATATATATAAAAATATTAAAAAA
1 TATATATATATAAAAACACTAAAAAA
*
48467960 TATA-ATATATAGAAACACTAAAAA
1 TATATATATATAAAAACACTAAAAA
48467984 TTTTAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (26 bp):
TATATATATATAAAAACACTAAAAAA
Found at i:48468028 original size:19 final size:19
Alignment explanation
Indices: 48467987--48468028 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
48467977 CTAAAAATTT
48467987 TAAAACTGATATTTTTATC
1 TAAAACTGATATTTTTATC
*
48468006 -AAAATTGATATTTTTATC
1 TAAAACTGATATTTTTATC
48468024 TAAAA
1 TAAAA
48468029 ATTAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (19 bp):
TAAAACTGATATTTTTATC
Found at i:48469489 original size:24 final size:24
Alignment explanation
Indices: 48469461--48469508 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
48469451 GCGTGTCTTC
* *
48469461 CAAGGAAGAGAAGGATAAATCATT
1 CAAGGAAGAGAAAGAGAAATCATT
48469485 CAAGGAAGAGAAAGAGAAATCATT
1 CAAGGAAGAGAAAGAGAAATCATT
48469509 ATCACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.08, G:0.25, T:0.15
Consensus pattern (24 bp):
CAAGGAAGAGAAAGAGAAATCATT
Found at i:48505473 original size:14 final size:14
Alignment explanation
Indices: 48505454--48505493 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
48505444 ACAATTTATT
48505454 TATTTTTATTGATA
1 TATTTTTATTGATA
*
48505468 TATTTTTAAT-A-A
1 TATTTTTATTGATA
48505480 TA-TTTTATTGATA
1 TATTTTTATTGATA
48505493 T
1 T
48505494 TAAACATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
11 6 0.27
12 4 0.18
13 3 0.14
14 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (14 bp):
TATTTTTATTGATA
Found at i:48506216 original size:5 final size:5
Alignment explanation
Indices: 48506206--48506231 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48506196 GTTTCTGGTA
48506206 TGCTT TGCTT TGCTT TGCTT TGCTT T
1 TGCTT TGCTT TGCTT TGCTT TGCTT T
48506232 CCTCTTTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.19, T:0.62
Consensus pattern (5 bp):
TGCTT
Found at i:48513464 original size:96 final size:96
Alignment explanation
Indices: 48513300--48513491 Score: 312
Period size: 96 Copynumber: 2.0 Consensus size: 96
48513290 TACACATTTA
* * *
48513300 TTTTTATTTAGATGGAACTTGACATGATATTCTTAAGTTCAATTGAAGTTGAACTTGCTCCATTA
1 TTTTTATTTAGATGGAACTTGACATAATATTCTTAAGTTCAAATGAAGTTGAACTTGCGCCATTA
* * *
48513365 AGTGTTTTTTCTTGATCATATATGGTCAACT
66 AGTGCTTTTGCTTGATCATATATAGTCAACT
*
48513396 TTTTTATTTAGATGGAACTTGACATAATGTTCTTAAGTTCAAATGAAGTTGAACTTGCGCCATTA
1 TTTTTATTTAGATGGAACTTGACATAATATTCTTAAGTTCAAATGAAGTTGAACTTGCGCCATTA
*
48513461 AGTGCTTTTGCTTGATCTTATATAGTCAACT
66 AGTGCTTTTGCTTGATCATATATAGTCAACT
48513492 GAAGTCCATC
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (96 bp):
TTTTTATTTAGATGGAACTTGACATAATATTCTTAAGTTCAAATGAAGTTGAACTTGCGCCATTA
AGTGCTTTTGCTTGATCATATATAGTCAACT
Found at i:48519994 original size:10 final size:9
Alignment explanation
Indices: 48519976--48520021 Score: 65
Period size: 9 Copynumber: 4.8 Consensus size: 9
48519966 CATAAGTATT
48519976 TTTTTATAA
1 TTTTTATAA
48519985 TTTATTATAA
1 TTT-TTATAA
48519995 TTTTTAATGAA
1 TTTTT-AT-AA
48520006 TTTTTATAA
1 TTTTTATAA
48520015 TTTTTAT
1 TTTTTAT
48520022 GAGAAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.41
10 13 0.38
11 7 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:48520009 original size:11 final size:10
Alignment explanation
Indices: 48519975--48520020 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
48519965 TCATAAGTAT
*
48519975 TTTTTTATAA
1 TTTTTAATAA
48519985 TTTATT-ATAA
1 TTT-TTAATAA
48519995 TTTTTAATGAA
1 TTTTTAAT-AA
48520006 TTTTT-ATAA
1 TTTTTAATAA
48520015 TTTTTA
1 TTTTTA
48520021 TGAGAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 9 0.28
10 14 0.44
11 9 0.28
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:48529205 original size:26 final size:26
Alignment explanation
Indices: 48529169--48529222 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
48529159 TGAGGAACGA
48529169 ATTGGGTTGAAACATGGTTAAAAAAT
1 ATTGGGTTGAAACATGGTTAAAAAAT
48529195 ATTGGGTTGAAACATGGTTAAAAAAT
1 ATTGGGTTGAAACATGGTTAAAAAAT
48529221 AT
1 AT
48529223 ACATTTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.31
Consensus pattern (26 bp):
ATTGGGTTGAAACATGGTTAAAAAAT
Found at i:48544866 original size:159 final size:161
Alignment explanation
Indices: 48544672--48544992 Score: 585
Period size: 159 Copynumber: 2.0 Consensus size: 161
48544662 AAAAACCATA
48544672 TTTTTTGAGATAAAAGACTAAAATCGATCCAACTTAAAATTTATTACATTTTTAAACTCATAAAA
1 TTTTTTGAGATAAAAGACTAAAATCGATCCAACTTAAAATTTATTACATTTTTAAACTCATAAAA
*
48544737 AACAAATATTATAATTGAAATTTTAA-AAAAA-TAATATAAAAAACCAAAGGGGTTGCTTTGCGG
66 AACAAATATTATAATTGAAA-TTTAAGAAAAATTAATATAAAAAAACAAAGGGGTTGCTTTGCGG
*
48544800 CCAAATTCTATAGAAGTTTA-TTTTGGAGGGT
130 CCAAATTCTAAAGAAGTTTATTTTTGGAGGGT
48544831 TTTTTTGAGATAAAAGACTAAAATCGATCCAACTTAAAATTTATTACATTTTTAAACTCATAAAA
1 TTTTTTGAGATAAAAGACTAAAATCGATCCAACTTAAAATTTATTACATTTTTAAACTCATAAAA
*
48544896 AATAAATATTATAATTGAAATTTAAGAAAAATTAATATAAAAAAACAAAGGGGTTGCTTTGCGGC
66 AACAAATATTATAATTGAAATTTAAGAAAAATTAATATAAAAAAACAAAGGGGTTGCTTTGCGGC
48544961 CAAATTCTAAAGAAGTTTATTTTTGGAGGGT
131 CAAATTCTAAAGAAGTTTATTTTTGGAGGGT
48544992 T
1 T
48544993 AAAATTAAAT
Statistics
Matches: 156, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
158 5 0.03
159 89 0.57
160 50 0.32
161 12 0.08
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (161 bp):
TTTTTTGAGATAAAAGACTAAAATCGATCCAACTTAAAATTTATTACATTTTTAAACTCATAAAA
AACAAATATTATAATTGAAATTTAAGAAAAATTAATATAAAAAAACAAAGGGGTTGCTTTGCGGC
CAAATTCTAAAGAAGTTTATTTTTGGAGGGT
Found at i:48577885 original size:22 final size:23
Alignment explanation
Indices: 48577855--48577899 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
48577845 ATTTGTTATG
* *
48577855 AAAGCAAAAGAAATGAGGAAGAA
1 AAAGCAAAACAAAAGAGGAAGAA
*
48577878 AAAG-AAAACAAAAGAGGGAGAA
1 AAAGCAAAACAAAAGAGGAAGAA
48577900 CGAATGAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.67, C:0.04, G:0.27, T:0.02
Consensus pattern (23 bp):
AAAGCAAAACAAAAGAGGAAGAA
Found at i:48578178 original size:26 final size:26
Alignment explanation
Indices: 48578144--48578193 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
48578134 AAGCCGGAAT
48578144 ATGCTAAGAATGGGATATACCCAAGA
1 ATGCTAAGAATGGGATATACCCAAGA
*
48578170 ATGCTAAGAATGGGATATGCCCAA
1 ATGCTAAGAATGGGATATACCCAA
48578194 TGCCGGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (26 bp):
ATGCTAAGAATGGGATATACCCAAGA
Found at i:48580113 original size:35 final size:35
Alignment explanation
Indices: 48580058--48580160 Score: 134
Period size: 35 Copynumber: 2.9 Consensus size: 35
48580048 CGAACTTGCC
* * * *
48580058 GCTTGCAAGCTGCGCAACTGACTACTGATTGCACT
1 GCTTGCGAGCCGCGCGACTGACTACCGATTGCACT
48580093 GCTTGCGAGCCGCGCGACTGACTACCGATTGCACT
1 GCTTGCGAGCCGCGCGACTGACTACCGATTGCACT
** **
48580128 GCTTGCGAGCCGTACGACTGACTGTCGATTGCA
1 GCTTGCGAGCCGCGCGACTGACTACCGATTGCA
48580161 AGGGTTGAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.23
Consensus pattern (35 bp):
GCTTGCGAGCCGCGCGACTGACTACCGATTGCACT
Found at i:48583905 original size:19 final size:19
Alignment explanation
Indices: 48583854--48583908 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 19
48583844 ATTGATGGAT
48583854 CAGTGTAAGGAGGAAGAAATA
1 CAGTGTAAGGA--AAGAAATA
48583875 CAGTGT----AAAGAAATA
1 CAGTGTAAGGAAAGAAATA
48583890 CAGTGTAAGGAAAGAAATA
1 CAGTGTAAGGAAAGAAATA
48583909 AAAGTTAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
15 14 0.47
17 1 0.03
19 9 0.30
21 6 0.20
ACGTcount: A:0.51, C:0.05, G:0.27, T:0.16
Consensus pattern (19 bp):
CAGTGTAAGGAAAGAAATA
Found at i:48585229 original size:40 final size:40
Alignment explanation
Indices: 48585174--48585257 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
48585164 TTACTGCATC
*
48585174 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
1 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGAGT
*
48585214 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGGTGGGAGT
1 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGAGT
48585254 TGTG
1 TGTG
48585258 ACGCACGTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.12, C:0.12, G:0.37, T:0.39
Consensus pattern (40 bp):
TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGAGT
Found at i:48586356 original size:21 final size:21
Alignment explanation
Indices: 48586317--48586357 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48586307 GAATTTCCCC
*
48586317 TGTCCGGTTTAGTTCTTTTAG
1 TGTCCGGTTCAGTTCTTTTAG
48586338 TGTCCGGTTCAGATT-TTTTA
1 TGTCCGGTTCAG-TTCTTTTA
48586358 TGCTGCAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.12, C:0.15, G:0.22, T:0.51
Consensus pattern (21 bp):
TGTCCGGTTCAGTTCTTTTAG
Done.