Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 304 of 316
Found at i:100038953 original size:19 final size:19
Alignment explanation
Indices: 100038929--100038967 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
100038919 TGAGATTGCC
100038929 AACCTATTTGCCTGAAATT
1 AACCTATTTGCCTGAAATT
100038948 AACCTATTTGCCTGAAATT
1 AACCTATTTGCCTGAAATT
100038967 A
1 A
100038968 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (19 bp):
AACCTATTTGCCTGAAATT
Found at i:100045502 original size:42 final size:43
Alignment explanation
Indices: 100045444--100045539 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 43
100045434 GATTTATGTA
* ** *
100045444 TAAGACCATGTTTGGGACATTGGCATCG-TATCTG-ATTTCATG
1 TAAGACCATGTATGGGACAGAGGCATCGATAT-TGAATTACATG
*
100045486 TAAGACCCTGTATGGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTATGGGACAGAGGCATCGATATTGAATTACATG
100045529 TAAGACCATGT
1 TAAGACCATGT
100045540 CCGGGACGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
TAAGACCATGTATGGGACAGAGGCATCGATATTGAATTACATG
Found at i:100048258 original size:5 final size:5
Alignment explanation
Indices: 100048222--100048278 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
100048212 AACCTAAAGT
* * *
100048222 AATAA AATCA AATCA AATAAA AATAAA TAATAA AATAAA AATAA AACAA
1 AATAA AATAA AATAA AAT-AA AAT-AA -AATAA AAT-AA AATAA AATAA
100048271 AATAA AAT
1 AATAA AAT
100048279 CTTTCTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 28 0.62
6 14 0.31
7 3 0.07
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:100048941 original size:18 final size:18
Alignment explanation
Indices: 100048918--100048954 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
100048908 ATTAACCTAT
100048918 TCACATTTGAACATGCTA
1 TCACATTTGAACATGCTA
100048936 TCACATTTGAACATGCTA
1 TCACATTTGAACATGCTA
100048954 T
1 T
100048955 AACAATAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (18 bp):
TCACATTTGAACATGCTA
Found at i:100049950 original size:21 final size:20
Alignment explanation
Indices: 100049910--100049950 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
100049900 ATTTTTTTCT
*
100049910 TAAAATTAAAGATAAATTAA
1 TAAAATTAAACATAAATTAA
*
100049930 TAAAATTAAGACATTAATTAA
1 TAAAATTAA-ACATAAATTAA
100049951 AAGAAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
TAAAATTAAACATAAATTAA
Found at i:100052385 original size:24 final size:25
Alignment explanation
Indices: 100052328--100052501 Score: 73
Period size: 24 Copynumber: 6.8 Consensus size: 25
100052318 AAAAAAACTT
*
100052328 TATTTA-TATATTATTATTTACCTA
1 TATTTATTATATTATTATTTACATA
100052352 TATCTATATTATATT-TTA-TTACATAA
1 TAT-T-TATTATATTATTATTTACAT-A
* *
100052378 TATTTATTATACTA-T-TTTATAT-
1 TATTTATTATATTATTATTTACATA
*
100052400 TTTATTATTATATTATTTTACACTTTA-ATA
1 TAT-TTATTATATTA--TT--A-TTTACATA
100052430 TATGTTATTTTATATTATTA-TTACATCA
1 TAT-TTA--TTATATTATTATTTACAT-A
* **
100052458 TATTTATTAT-GTATT-TTTGTATA
1 TATTTATTATATTATTATTTACATA
100052481 T-TATTATCTATATTATTATTT
1 TAT-TTAT-TATATTATTATTT
100052502 TGATAGATTT
Statistics
Matches: 115, Mismatches: 11, Indels: 46
0.67 0.06 0.27
Matches are distributed among these distances:
22 3 0.03
23 16 0.14
24 28 0.24
25 15 0.13
26 16 0.14
27 11 0.10
28 5 0.04
29 2 0.02
30 11 0.10
32 8 0.07
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (25 bp):
TATTTATTATATTATTATTTACATA
Found at i:100052411 original size:23 final size:23
Alignment explanation
Indices: 100052381--100052452 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
100052371 TACATAATAT
*
100052381 TTATTATACTATTTTATATTTTA
1 TTATTATATTATTTTATATTTTA
* *
100052404 TTATTATATTATTTTACACTTTA
1 TTATTATATTATTTTATATTTTA
* *
100052427 ATA-TATGTTATTTTATATTATTA
1 TTATTATATTATTTTATATT-TTA
100052450 TTA
1 TTA
100052453 CATCATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 13 0.32
23 27 0.68
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (23 bp):
TTATTATATTATTTTATATTTTA
Found at i:100063469 original size:68 final size:69
Alignment explanation
Indices: 100063338--100063475 Score: 172
Period size: 68 Copynumber: 2.0 Consensus size: 69
100063328 TCCCACCTTT
* * * *
100063338 TCTTTTAAATGGCATCAAAACATTTCCAAGATACCAATCAAGTCCAAAAGATATCAACCAATAAG
1 TCTTTCAAATGGCATCAAAACATGTCCAAGATACCAATCAAGTCCAAAAGAAAACAACCAATAAG
100063403 CCAA
66 CCAA
* * * *
100063407 TCTTTCAAATGGCATCAAAAC-TAGT-CAATATACTAGTCAAGTCCAACAGAAAACAACCAATAA
1 TCTTTCAAATGGCATCAAAACAT-GTCCAAGATACCAATCAAGTCCAAAAGAAAACAACCAATAA
*
100063470 GGCAA
65 GCCAA
100063475 T
1 T
100063476 AGTCTGTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
68 38 0.64
69 21 0.36
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.22
Consensus pattern (69 bp):
TCTTTCAAATGGCATCAAAACATGTCCAAGATACCAATCAAGTCCAAAAGAAAACAACCAATAAG
CCAA
Found at i:100065946 original size:33 final size:33
Alignment explanation
Indices: 100065907--100065979 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
100065897 ATTTAAAATT
*
100065907 TTTCATTTTAACTTATTAAACTATTCAAAAAAA
1 TTTCATTTTAACTTATCAAACTATTCAAAAAAA
*
100065940 TTTCATTTTAACTTATCAATCTATTCAAAAAAA
1 TTTCATTTTAACTTATCAAACTATTCAAAAAAA
100065973 TTT-ATTT
1 TTTCATTT
100065980 GTGCCTCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 4 0.11
33 34 0.89
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (33 bp):
TTTCATTTTAACTTATCAAACTATTCAAAAAAA
Found at i:100067889 original size:57 final size:55
Alignment explanation
Indices: 100067777--100067890 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 55
100067767 CCTGCAGAGA
** *
100067777 AGTTGAACACCTTTTAGTTTGCTTATGTATTTTTTTTCCACCATTTGGTTTATTCTT
1 AGTTGAACACCTTTTAGTTTGCTTATGTA--TTTTTTCCACCATTACGTTCATTCTT
* *
100067834 AGTTGAACTCCTTTTAGTAGTCTGCTTATGTA-TTTTTCCTCCATTACGTTCATTCTT
1 AGTTGAACACCTTTTAGT--T-TGCTTATGTATTTTTTCCACCATTACGTTCATTCTT
100067891 GGTCAAACAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 38 0.78
59 1 0.02
60 10 0.20
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (55 bp):
AGTTGAACACCTTTTAGTTTGCTTATGTATTTTTTCCACCATTACGTTCATTCTT
Found at i:100071522 original size:11 final size:11
Alignment explanation
Indices: 100071508--100071547 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
100071498 ATAAATAATT
100071508 TAAAAATTATC
1 TAAAAATTATC
* *
100071519 TAAAAAATAATT
1 T-AAAAATTATC
100071531 TAAAAATTATC
1 TAAAAATTATC
100071542 TAAAAA
1 TAAAAA
100071548 ATATAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAATTATC
Found at i:100071526 original size:12 final size:12
Alignment explanation
Indices: 100071509--100071549 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
100071499 TAAATAATTT
100071509 AAAAATTATCTA
1 AAAAATTATCTA
* *
100071521 AAAAATAAT-TT
1 AAAAATTATCTA
100071532 AAAAATTATCTA
1 AAAAATTATCTA
100071544 AAAAAT
1 AAAAAT
100071550 ATAATTTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATTATCTA
Found at i:100071530 original size:23 final size:23
Alignment explanation
Indices: 100071500--100071550 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
100071490 GAAAAAATAT
100071500 AAATAATTTAAAAATTATCTAAA
1 AAATAATTTAAAAATTATCTAAA
100071523 AAATAATTTAAAAATTATCTAAA
1 AAATAATTTAAAAATTATCTAAA
100071546 AAATA
1 AAATA
100071551 TAATTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATAATTTAAAAATTATCTAAA
Found at i:100073856 original size:176 final size:176
Alignment explanation
Indices: 100073483--100073900 Score: 477
Period size: 176 Copynumber: 2.4 Consensus size: 176
100073473 AGTGAATCCA
* *
100073483 CAATCGTTAATCGTTTAGGCTTCATTGAGCTCTGTTTATGGACTCAACACTGAAAACCATTCTCC
1 CAATCGTCAATCGTTTGGGCTTCATTGAGCTCTGTTTATGGACTCAACACTGAAAACCATTCTCC
* * * * *
100073548 TAACATGGCAAAACTGATCATTCAATGAGTCTTTACACCGCCACAAAGAAAGCCAGTGAGGAAAT
66 TAACATGACAAAACTGATAATCCAATGAGTATTTACACCGCCACAAAGAAAGCCAATGAGGAAAT
*
100073613 CGCTTATTACTTATAACCATATCCAAAGCATTTCCCTCACTAGACT
131 CGCTCATTACTTATAACCATATCCAAAGCATTTCCCTCACTAGACT
* * * * * * * *
100073659 CAACCATCAACCGTTTGGGCTTCTTTGATCTCTGTTTTATAGACTCAACATTGAAAACCCATTGT
1 CAATCGTCAATCGTTTGGGCTTCATTGAGCTCTG-TTTATGGACTCAACACTGAAAA-CCATTCT
* * ** *
100073724 -TTGAACATGACAAAATTGATAATCCAATGAGTATTTACGTCGCCACAAA-AAAGGTCAATGAGG
64 CCT-AACATGACAAAACTGATAATCCAATGAGTATTTACACCGCCACAAAGAAA-GCCAATGAGG
* * * *
100073787 AAATTGCTCA-TACTTATAACCATATCC-ATGCATTTCCCTTGA-TGGACT
127 AAATCGCTCATTACTTATAACCATATCCAAAGCATTTCCC-TCACTAGACT
* * * * *
100073835 CAATCGTCAATTGTTTGGGCTTCATTGAGCTCCGTTTATGGACTCGACACCGAAAGCCCATTCTC
1 CAATCGTCAATCGTTTGGGCTTCATTGAGCTCTGTTTATGGACTCAACACTGAAA-ACCATTCTC
100073900 C
65 C
100073901 GAATGTGACA
Statistics
Matches: 196, Mismatches: 39, Indels: 14
0.79 0.16 0.06
Matches are distributed among these distances:
175 23 0.12
176 69 0.35
177 43 0.22
178 61 0.31
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (176 bp):
CAATCGTCAATCGTTTGGGCTTCATTGAGCTCTGTTTATGGACTCAACACTGAAAACCATTCTCC
TAACATGACAAAACTGATAATCCAATGAGTATTTACACCGCCACAAAGAAAGCCAATGAGGAAAT
CGCTCATTACTTATAACCATATCCAAAGCATTTCCCTCACTAGACT
Found at i:100076221 original size:51 final size:51
Alignment explanation
Indices: 100076093--100076221 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
100076083 GACCATGACA
* *
100076093 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTG
1 ACAAGTGAAAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
*
100076144 A-AAGTGATAAA-TGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGA-AAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
*
100076194 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGAAAAGTGATAGCTTCGGCTAC
100076222 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGAAAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
Found at i:100076235 original size:31 final size:31
Alignment explanation
Indices: 100076192--100076345 Score: 245
Period size: 31 Copynumber: 5.0 Consensus size: 31
100076182 CAAGGACAAA
*
100076192 TGACAAGTGAAAAGTGGTAGCTTCGGCTACC
1 TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
*
100076223 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
1 TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
*
100076254 TGACCAGTGAAAAGTGGTAGCTTCGGCTATC
1 TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
100076285 TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
1 TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
* * * *
100076316 TGATCAGTGAATAGTGGTATCTTAGGCTAC
1 TGACCAGTGAAAAGTGGTAGCTTCGGCTAC
100076346 AAGTGACAAG
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 114 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (31 bp):
TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
Found at i:100077952 original size:31 final size:31
Alignment explanation
Indices: 100077917--100077981 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
100077907 GTAATAAAAT
* * * *
100077917 AGTCATTAAAGTATTTAAAATTTTTTATTTA
1 AGTCAATAAACTATTCAAAAGTTTTTATTTA
*
100077948 AGTCAATAAACTATTCGAAAGTTTTTATTTA
1 AGTCAATAAACTATTCAAAAGTTTTTATTTA
100077979 AGT
1 AGT
100077982 TAACATGTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.46
Consensus pattern (31 bp):
AGTCAATAAACTATTCAAAAGTTTTTATTTA
Found at i:100081695 original size:21 final size:21
Alignment explanation
Indices: 100081669--100081711 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
100081659 ACTTTTTATG
*
100081669 TTGGTTGGTACGTATATTAAA
1 TTGGTTGGTACATATATTAAA
100081690 TTGGTTGGTACATATATTAAA
1 TTGGTTGGTACATATATTAAA
100081711 T
1 T
100081712 ATTTGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGGTTGGTACATATATTAAA
Found at i:100084336 original size:13 final size:14
Alignment explanation
Indices: 100084318--100084364 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
100084308 TTTTATTTTT
100084318 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
100084331 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
*
100084346 ATTTTAAATAATATT
1 ATTTT-AATAATATA
100084361 ATTT
1 ATTT
100084365 ACATATCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 10 0.36
14 1 0.04
15 12 0.43
16 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:100084344 original size:16 final size:16
Alignment explanation
Indices: 100084322--100084358 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
100084312 ATTTTTATTT
100084322 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
100084339 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
100084354 TAATA
1 TAATA
100084359 TTATTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:100085414 original size:16 final size:17
Alignment explanation
Indices: 100085393--100085432 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
100085383 ATATATATTA
100085393 TATATTATTAATT-GAT
1 TATATTATTAATTAGAT
*
100085409 TATATTA-TAATTATAT
1 TATATTATTAATTAGAT
100085425 TATATTAT
1 TATATTAT
100085433 GAAACAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATATTATTAATTAGAT
Found at i:100085723 original size:33 final size:30
Alignment explanation
Indices: 100085663--100085723 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 30
100085653 TACAATTGTA
*
100085663 ATATTTTTATTTAATTATTTAAGTAAATAG
1 ATATTTTTATTTAATTATTAAAGTAAATAG
*
100085693 ATATTTATTATTTATTATTATTAAATTAAAT
1 ATATTT-TTATTTA--ATTATTAAAGTAAAT
100085724 TAAAGACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 6 0.23
31 7 0.27
33 13 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
ATATTTTTATTTAATTATTAAAGTAAATAG
Found at i:100086009 original size:13 final size:15
Alignment explanation
Indices: 100085980--100086021 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
100085970 GGTTTATATT
100085980 ATATATAAAGTGAATAA
1 ATATATAAA--GAATAA
100085997 A-ATA-AAAGAATAA
1 ATATATAAAGAATAA
100086010 ATATATAAAGAA
1 ATATATAAAGAA
100086022 ACAAAGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 7 0.30
14 3 0.13
15 9 0.39
16 3 0.13
17 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (15 bp):
ATATATAAAGAATAA
Found at i:100086844 original size:44 final size:44
Alignment explanation
Indices: 100086764--100086855 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
100086754 TGTTCAGGAA
* *
100086764 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTATTGT
1 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCATACTGT
* **
100086808 TACTTCGA-CTTCGAGTTGATGAGGCACCT-TGTGTGTCATACTGT
1 TACTTCGACCTT-GAGTCGATGAGGCA-CTATAAGTGTCATACTGT
100086852 TACT
1 TACT
100086856 GTTACTTCGG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.07
44 36 0.88
45 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCATACTGT
Found at i:100086944 original size:47 final size:47
Alignment explanation
Indices: 100086825--100086944 Score: 116
Period size: 47 Copynumber: 2.5 Consensus size: 47
100086815 ACTTCGAGTT
* * ** * *
100086825 GATGAGGCACCTTGTGTGTCATACTGTTACTGTTACTTCGGTTTAATCT
1 GATGAGGCA-C-TGAGTGCCATACTGTTACTGTTACTTCGGTCAAAGCC
* * * *
100086874 GATGAGGTACTAAGTACCGTACTGTTACTGTTTACTTCGG-CAAAGCC
1 GATGAGGCACTGAGTGCCATACTGTTACTG-TTACTTCGGTCAAAGCC
100086921 GATGAGGCACTGAGTGCCATACTG
1 GATGAGGCACTGAGTGCCATACTG
100086945 GTGTGTTGGT
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
47 38 0.68
48 10 0.18
49 8 0.14
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (47 bp):
GATGAGGCACTGAGTGCCATACTGTTACTGTTACTTCGGTCAAAGCC
Found at i:100088226 original size:29 final size:27
Alignment explanation
Indices: 100088172--100088226 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
100088162 AAATAAAAAA
* **
100088172 ATATATTTTTAATTTAATTTTTAATTT
1 ATATATTTTTAATTAAATTTAAAATTT
100088199 ATATATTTTTATAATTAAATTTAAAATT
1 ATATA-TTTT-TAATTAAATTTAAAATT
100088227 AAAAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 4 0.17
29 14 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
ATATATTTTTAATTAAATTTAAAATTT
Found at i:100089688 original size:41 final size:41
Alignment explanation
Indices: 100089642--100089724 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
100089632 TGTTACTTCC
100089642 TTCCCTAGGCATGATGTGGTGAAGCTTGATGAGGGCACCTT
1 TTCCCTAGGCATGATGTGGTGAAGCTTGATGAGGGCACCTT
100089683 TTCCCTAGGCATGATGTGGTGAAGCTTGATGAGGGCACCTT
1 TTCCCTAGGCATGATGTGGTGAAGCTTGATGAGGGCACCTT
100089724 T
1 T
100089725 CTTCAATGGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.30
Consensus pattern (41 bp):
TTCCCTAGGCATGATGTGGTGAAGCTTGATGAGGGCACCTT
Found at i:100101765 original size:48 final size:47
Alignment explanation
Indices: 100101706--100101873 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
100101696 GCCATGTGCA
* * * * *
100101706 TGATGTTTATTGTTTGTTTCTGCCATTGTATGAATGCCATTATCAAAT
1 TGATGTGTATTGTGTATATCTGCCATTGTATGAATG-CATTATCAAAC
*
100101754 TGATGTGTATTGTGTATATCTGCCATTGTATGAATACATTATCAAAC
1 TGATGTGTATTGTGTATATCTGCCATTGTATGAATGCATTATCAAAC
*
100101801 TGATGTGTATTGTGTATATCTACCATTGTATGAATGCATTATCAAAC
1 TGATGTGTATTGTGTATATCTGCCATTGTATGAATGCATTATCAAAC
*
100101848 TGATGTTTATTGTGTATATCTGCCAT
1 TGATGTGTATTGTGTATATCTGCCAT
100101874 GATGTTTATT
Statistics
Matches: 110, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 79 0.72
48 31 0.28
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.44
Consensus pattern (47 bp):
TGATGTGTATTGTGTATATCTGCCATTGTATGAATGCATTATCAAAC
Found at i:100101876 original size:25 final size:25
Alignment explanation
Indices: 100101848--100101898 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
100101838 ATTATCAAAC
*
100101848 TGATGTTTATTGTGTATATCTGCCA
1 TGATGTTTATTGTGTATATCTACCA
100101873 TGATGTTTATTGTGTATATCTACCA
1 TGATGTTTATTGTGTATATCTACCA
100101898 T
1 T
100101899 TATCAAACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.49
Consensus pattern (25 bp):
TGATGTTTATTGTGTATATCTACCA
Found at i:100102192 original size:15 final size:15
Alignment explanation
Indices: 100102172--100102212 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
100102162 GAAAACATGT
*
100102172 CTGGTAATGATGTGC
1 CTGGTAGTGATGTGC
*
100102187 CTGGTAGTGATGTGT
1 CTGGTAGTGATGTGC
100102202 CTGGTAGTGAT
1 CTGGTAGTGAT
100102213 AGTGATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.10, G:0.37, T:0.37
Consensus pattern (15 bp):
CTGGTAGTGATGTGC
Found at i:100103917 original size:42 final size:42
Alignment explanation
Indices: 100103854--100103949 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
100103844 TTGCTGATCA
* * * *
100103854 CATGCACTGATTGTTGGAAAGCTATTGACTTTTTTTAATATG
1 CATGCAATGATTGTTGAAAAGCTATTGACTATTTTCAATATG
* * *
100103896 TATGCAATGATTGTTGAAAAGCTGTTGTCTATTTTCAATATG
1 CATGCAATGATTGTTGAAAAGCTATTGACTATTTTCAATATG
100103938 CATGCAATGATT
1 CATGCAATGATT
100103950 ATTGGTGTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (42 bp):
CATGCAATGATTGTTGAAAAGCTATTGACTATTTTCAATATG
Found at i:100104021 original size:26 final size:26
Alignment explanation
Indices: 100103964--100104021 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
100103954 GTGTGTTGCC
* *
100103964 TATTTTTTAATATGCATACAATGAGT
1 TATTTTATAATATGCATACAATGACT
* ** *
100103990 TTTTTTATAATATGCATGTAGTGACT
1 TATTTTATAATATGCATACAATGACT
100104016 TATTTT
1 TATTTT
100104022 TTAGGGGTGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (26 bp):
TATTTTATAATATGCATACAATGACT
Found at i:100104727 original size:21 final size:21
Alignment explanation
Indices: 100104701--100104754 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
100104691 CTCAACAAGG
* *
100104701 TGCCCCAAGTCAGTTACCTAC
1 TGCCCCAACTCAGATACCTAC
100104722 TGCCCCAACTCAGATACCTAC
1 TGCCCCAACTCAGATACCTAC
* *
100104743 TGTCCTAACTCA
1 TGCCCCAACTCA
100104755 TCAAGAAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.39, G:0.11, T:0.24
Consensus pattern (21 bp):
TGCCCCAACTCAGATACCTAC
Found at i:100105182 original size:23 final size:24
Alignment explanation
Indices: 100105143--100105198 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
100105133 TATCCATGCT
*
100105143 ATTTGT-TATCCAACTGTTAAGTA
1 ATTTGTATATCCAACTGTTAAGCA
*
100105166 ATTTGTATAT-CATCTGTTAAGCA
1 ATTTGTATATCCAACTGTTAAGCA
*
100105189 ATTTGCATAT
1 ATTTGTATAT
100105199 AAATTGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (24 bp):
ATTTGTATATCCAACTGTTAAGCA
Found at i:100105333 original size:28 final size:30
Alignment explanation
Indices: 100105301--100105359 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
100105291 AACCATTTTT
100105301 AACAC-ATGT-TAAGCAACAAAAATATTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
* * *
100105329 AACACAATTTGTAATCAACAAAAATTTTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
100105359 A
1 A
100105360 TTTCATTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 3 0.12
30 18 0.69
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.25
Consensus pattern (30 bp):
AACACAATGTGTAAGCAACAAAAATATTCC
Found at i:100105707 original size:38 final size:38
Alignment explanation
Indices: 100105656--100105732 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
100105646 CCAGCTGAAA
*
100105656 AACCAACATGGTTTTCGAAATGCACTGCCGAGTTTCTT
1 AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
*
100105694 AACCAACATGGTTTTCGAAATGCATTGCCGAATTTCTT
1 AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
100105732 A
1 A
100105733 CACCTAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (38 bp):
AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
Found at i:100105866 original size:15 final size:15
Alignment explanation
Indices: 100105840--100105901 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 15
100105830 CCATTTTTCC
* *
100105840 TCTTCTCTTTCTTTT
1 TCTTCTTTTTCTTCT
*
100105855 TCTTCTTCTTC-TCT
1 TCTTCTTTTTCTTCT
* * *
100105869 TCCTCATTCTCTTCT
1 TCTTCTTTTTCTTCT
*
100105884 TCTTCTTTTTCTTTT
1 TCTTCTTTTTCTTCT
100105899 TCT
1 TCT
100105902 CAAACCCTAA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
14 9 0.26
15 26 0.74
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.68
Consensus pattern (15 bp):
TCTTCTTTTTCTTCT
Found at i:100111118 original size:31 final size:32
Alignment explanation
Indices: 100111083--100111155 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
100111073 ATTGTACATG
*
100111083 AATTTTAATTTAATAT-ATAATTTGATATATA-
1 AATTTTAATTTAATATAATAATAT-ATATATAT
* * *
100111114 AATTTTAATTTGATGTAATTATATATATATAT
1 AATTTTAATTTAATATAATAATATATATATAT
100111146 AATTTTAATT
1 AATTTTAATT
100111156 ATGATTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 21 0.58
32 15 0.42
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (32 bp):
AATTTTAATTTAATATAATAATATATATATAT
Found at i:100111169 original size:31 final size:30
Alignment explanation
Indices: 100111107--100111192 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 30
100111097 ATATAATTTG
*
100111107 ATATATAAATTTTAATTTGATGTAATTATAT
1 ATATATAAATTTTAATTTGATTTAA-TATAT
100111138 ATATATATAATTTTAATTATGATTTAA-ATAT
1 ATATATA-AATTTTAATT-TGATTTAATATAT
*
100111169 ATATATGAAACTTTAATTTTGATT
1 ATATAT-AAATTTTAA-TTTGATT
100111193 CAATCAAACA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
31 29 0.59
32 13 0.27
33 7 0.14
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (30 bp):
ATATATAAATTTTAATTTGATTTAATATAT
Found at i:100111171 original size:27 final size:31
Alignment explanation
Indices: 100111107--100111173 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 31
100111097 ATATAATTTG
*
100111107 ATATATA-AATTTTAATTTGATGTAATTATAT
1 ATATATATAATTTTAATTTGATG-AATTATAA
100111138 ATATATATAATTTTAA-TT-ATG-ATT-TAA
1 ATATATATAATTTTAATTTGATGAATTATAA
100111165 ATATATATA
1 ATATATATA
100111174 TGAAACTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 11 0.32
28 3 0.09
30 3 0.09
31 9 0.26
32 8 0.24
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (31 bp):
ATATATATAATTTTAATTTGATGAATTATAA
Found at i:100118249 original size:25 final size:27
Alignment explanation
Indices: 100118191--100118252 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 27
100118181 AATAATTAAT
*
100118191 TAAATTTT-ATAATTCTAAATTTATTA
1 TAAATTTTAATAATTCTAAATTTATAA
*
100118217 TAATATTTTAATAATTCTAGATTTA-AA
1 TAA-ATTTTAATAATTCTAAATTTATAA
100118244 T-AATTTTAA
1 TAAATTTTAA
100118253 AACAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 7 0.22
26 4 0.12
27 7 0.22
28 14 0.44
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (27 bp):
TAAATTTTAATAATTCTAAATTTATAA
Found at i:100120554 original size:18 final size:16
Alignment explanation
Indices: 100120523--100120556 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
100120513 TTAAAAACAA
100120523 AATTAAACAAATTTAT
1 AATTAAACAAATTTAT
100120539 AATTAATACTAAATTTAT
1 AATTAA-AC-AAATTTAT
100120557 TCTATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAACAAATTTAT
Found at i:100124147 original size:9 final size:9
Alignment explanation
Indices: 100124133--100124194 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 9
100124123 CTTAAATTTT
100124133 TAAAAAATA
1 TAAAAAATA
100124142 TAAAAAAATTA
1 T-AAAAAA-TA
* *
100124153 TAAAATATT
1 TAAAAAATA
100124162 TAAAAAATA
1 TAAAAAATA
100124171 TATAAAAACTA
1 TA-AAAAA-TA
*
100124182 AAAAAAAT-
1 TAAAAAATA
100124190 TAAAA
1 TAAAA
100124195 TTTTTAGAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
8 4 0.09
9 12 0.28
10 21 0.49
11 6 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAAAAATA
Found at i:100124159 original size:18 final size:20
Alignment explanation
Indices: 100124136--100124195 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
100124126 AAATTTTTAA
100124136 AAAATA-TAAAAAAAT-TAT
1 AAAATACTAAAAAAATATAT
* *
100124154 AAAATATTTAAAAAATATAT
1 AAAATACTAAAAAAATATAT
100124174 AAAA-ACTAAAAAAA-AT-T
1 AAAATACTAAAAAAATATAT
100124191 AAAAT
1 AAAAT
100124196 TTTTAGAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.14
18 8 0.22
19 16 0.44
20 7 0.19
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATACTAAAAAAATATAT
Found at i:100124186 original size:29 final size:29
Alignment explanation
Indices: 100124126--100124194 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
100124116 AAATTCTCTT
* * *
100124126 AAATTTTTAAAAAATATAAAAAAATTATA
1 AAATATTTAAAAAATATAAAAAAACTAAA
*
100124155 AAATATTTAAAAAATATATAAAAACTAAA
1 AAATATTTAAAAAATATAAAAAAACTAAA
*
100124184 AAA-AATTAAAA
1 AAATATTTAAAA
100124195 TTTTTAGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 7 0.20
29 28 0.80
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (29 bp):
AAATATTTAAAAAATATAAAAAAACTAAA
Found at i:100124220 original size:9 final size:9
Alignment explanation
Indices: 100124135--100124250 Score: 58
Period size: 9 Copynumber: 12.6 Consensus size: 9
100124125 TAAATTTTTA
*
100124135 AAAAATATAA
1 AAAAAT-TAT
100124145 AAAAATTAT
1 AAAAATTAT
100124154 AAAATATT-T
1 AAAA-ATTAT
100124163 AAAAAATATAT
1 -AAAAAT-TAT
* *
100124174 AAAAACTAA
1 AAAAATTAT
*
100124183 AAAAAAT-T
1 AAAAATTAT
* *
100124191 AAAATTTTT
1 AAAAATTAT
* * *
100124200 AGAATTTTT
1 AAAAATTAT
100124209 AAAAATTAT
1 AAAAATTAT
*
100124218 AAAAA-TAA
1 AAAAATTAT
*
100124226 AAAAATATTT
1 AAAAAT-TAT
100124236 AAAAATTAT
1 AAAAATTAT
100124245 GAAAAA
1 -AAAAA
100124251 CAAACTATAA
Statistics
Matches: 83, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
8 12 0.14
9 39 0.47
10 31 0.37
11 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:100124763 original size:21 final size:22
Alignment explanation
Indices: 100124733--100124784 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
100124723 AAAAAAAAGT
* * *
100124733 CTGTTGTTTTCTTACT-TTTTT
1 CTGTTATTTTCTCACTGTTTTG
*
100124754 TTGTTATTTTCTCACTGTTTTG
1 CTGTTATTTTCTCACTGTTTTG
100124776 CTGTTATTT
1 CTGTTATTT
100124785 CACTATTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.08, C:0.13, G:0.12, T:0.67
Consensus pattern (22 bp):
CTGTTATTTTCTCACTGTTTTG
Found at i:100125254 original size:11 final size:11
Alignment explanation
Indices: 100125215--100125256 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
100125205 TTAAGGGTTA
100125215 AATTTGTTTTAT
1 AATTT-TTTTAT
100125227 AATTTTTTCTAT
1 AATTTTTT-TAT
100125239 AATTTTTTTAT
1 AATTTTTTTAT
*
100125250 GATTTTT
1 AATTTTT
100125257 AATATTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 12 0.43
12 16 0.57
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:100125302 original size:27 final size:26
Alignment explanation
Indices: 100125263--100125316 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
100125253 TTTTAATATT
100125263 TTTCAAATATTTTTAATAATTTTATAG
1 TTTCAAATATTTTT-ATAATTTTATAG
* * *
100125290 TTTCAATTTTTTTTGTAATTTTATAG
1 TTTCAAATATTTTTATAATTTTATAG
100125316 T
1 T
100125317 ATGTTACGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (26 bp):
TTTCAAATATTTTTATAATTTTATAG
Found at i:100127012 original size:12 final size:12
Alignment explanation
Indices: 100126997--100127033 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
100126987 GAATAAAGAG
*
100126997 AAAGGAAAAGGA
1 AAAGGCAAAGGA
*
100127009 AAAGGCAAAGGC
1 AAAGGCAAAGGA
100127021 AAAGGCAAAGGA
1 AAAGGCAAAGGA
100127033 A
1 A
100127034 TGCTTAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.32, T:0.00
Consensus pattern (12 bp):
AAAGGCAAAGGA
Found at i:100127018 original size:18 final size:18
Alignment explanation
Indices: 100126997--100127031 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100126987 GAATAAAGAG
100126997 AAAGGAAAAGGAAAAGGC
1 AAAGGAAAAGGAAAAGGC
* *
100127015 AAAGGCAAAGGCAAAGG
1 AAAGGAAAAGGAAAAGG
100127032 AATGCTTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.09, G:0.34, T:0.00
Consensus pattern (18 bp):
AAAGGAAAAGGAAAAGGC
Found at i:100127913 original size:10 final size:10
Alignment explanation
Indices: 100127898--100127922 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
100127888 ACTTTTCATT
100127898 ATTATAAATC
1 ATTATAAATC
100127908 ATTATAAATC
1 ATTATAAATC
100127918 ATTAT
1 ATTAT
100127923 TATATCAGTT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTATAAATC
Found at i:100128004 original size:22 final size:21
Alignment explanation
Indices: 100127983--100128023 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100127973 TTAAACATTA
100127983 ATTTAATAAAAAAT-AATTATT
1 ATTT-ATAAAAAATAAATTATT
*
100128004 ATTTATATAAAATAAATTAT
1 ATTTATAAAAAATAAATTAT
100128024 ATTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTATAAAAAATAAATTATT
Found at i:100128026 original size:20 final size:20
Alignment explanation
Indices: 100127979--100128026 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
100127969 TTAATTAAAC
100127979 ATTA-ATTTAATAAAAAATA
1 ATTATATTTAATAAAAAATA
*
100127998 ATTATTATTT-ATATAAAATAA
1 ATTA-TATTTAATAAAAAAT-A
100128019 ATTATATT
1 ATTATATT
100128027 ATTATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTATATTTAATAAAAAATA
Found at i:100133383 original size:31 final size:31
Alignment explanation
Indices: 100133345--100133403 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
100133335 ATACTTTTAT
*
100133345 TTGATCAATTTTAGTCATTTTACTTTTTGAA
1 TTGATCAATTTTAGTCATTGTACTTTTTGAA
100133376 TTGATCAATTTTAGTCATTGTACTTTTT
1 TTGATCAATTTTAGTCATTGTACTTTTT
100133404 AAAATTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (31 bp):
TTGATCAATTTTAGTCATTGTACTTTTTGAA
Found at i:100137015 original size:29 final size:30
Alignment explanation
Indices: 100136955--100137018 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
100136945 ATGTTTATGA
* *
100136955 TTTTAAAATTTTAAAAGAATTAAATTAAAT
1 TTTTAAAATTTTAAAAGAATCAAAATAAAT
* * *
100136985 TTTTAAAATTTTTATAG-ATCAAAATATAT
1 TTTTAAAATTTTAAAAGAATCAAAATAAAT
100137014 TTTTA
1 TTTTA
100137019 TCATTAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTTAAAATTTTAAAAGAATCAAAATAAAT
Found at i:100138385 original size:2 final size:2
Alignment explanation
Indices: 100138380--100138416 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
100138370 GTGTGTGTGT
100138380 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
100138417 GGACTTTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:100143270 original size:5 final size:5
Alignment explanation
Indices: 100143246--100143309 Score: 69
Period size: 5 Copynumber: 12.6 Consensus size: 5
100143236 TTCTTTTGTT
*
100143246 ATATA TATATA ATAATA ATATA ATATA ATATA ATATTA ATAT- A-ACA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATA-TA ATATA ATATA
*
100143292 ATATA ATATA TTATA ATA
1 ATATA ATATA ATATA ATA
100143310 AAAATATTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 32 0.64
6 15 0.30
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:100143277 original size:21 final size:21
Alignment explanation
Indices: 100143246--100143309 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
100143236 TTCTTTTGTT
100143246 ATATATATATAATAATAATATA
1 ATATA-ATATAATAATAATATA
*
100143268 ATATAATATAATATTAATAT-
1 ATATAATATAATAATAATATA
* *
100143288 A-ACAATATAAT-ATATTATA
1 ATATAATATAATAATAATATA
100143307 ATA
1 ATA
100143310 AAAATATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 5 0.14
19 10 0.28
20 2 0.06
21 14 0.39
22 5 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATAATATAATAATAATATA
Found at i:100143315 original size:29 final size:29
Alignment explanation
Indices: 100143257--100143316 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
100143247 TATATATATA
* **
100143257 ATAATAATATAATATAATATAATATTAAT
1 ATAACAATATAATATAATATAATAAAAAT
*
100143286 ATAACAATATAATATATTATAATAAAAAT
1 ATAACAATATAATATAATATAATAAAAAT
100143315 AT
1 AT
100143317 TAACTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
ATAACAATATAATATAATATAATAAAAAT
Found at i:100143955 original size:29 final size:29
Alignment explanation
Indices: 100143913--100143969 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
100143903 GGTAGAAGAG
100143913 TAAGGCAAATAAATAAGAAGCAATAACAT
1 TAAGGCAAATAAATAAGAAGCAATAACAT
100143942 TAAGGCAAATAAATAAGAAGCAATAACA
1 TAAGGCAAATAAATAAGAAGCAATAACA
100143970 CTAAATTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.60, C:0.11, G:0.14, T:0.16
Consensus pattern (29 bp):
TAAGGCAAATAAATAAGAAGCAATAACAT
Found at i:100143964 original size:15 final size:15
Alignment explanation
Indices: 100143917--100143964 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
100143907 GAAGAGTAAG
100143917 GCAAATAAATAAGAA
1 GCAAATAAATAAGAA
100143932 GC-AATAACATTAAG--
1 GCAAATAA-A-TAAGAA
100143946 GCAAATAAATAAGAA
1 GCAAATAAATAAGAA
100143961 GCAA
1 GCAA
100143965 TAACACTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 4 0.14
14 8 0.29
15 12 0.43
16 4 0.14
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.15
Consensus pattern (15 bp):
GCAAATAAATAAGAA
Found at i:100143966 original size:14 final size:14
Alignment explanation
Indices: 100143920--100143967 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
100143910 GAGTAAGGCA
100143920 AATAAATAAGAAGC
1 AATAAATAAGAAGC
100143934 AATAACATTAAG--GC
1 AATAA-A-TAAGAAGC
100143948 AAATAAATAAGAAGC
1 -AATAAATAAGAAGC
100143963 AATAA
1 AATAA
100143968 CACTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
15 8 0.28
16 4 0.14
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.17
Consensus pattern (14 bp):
AATAAATAAGAAGC
Found at i:100146310 original size:3 final size:3
Alignment explanation
Indices: 100146302--100146578 Score: 89
Period size: 3 Copynumber: 91.7 Consensus size: 3
100146292 GGGGAAAAAT
* *
100146302 ATA ATA AT- ATA A-A AGTA GTA ATA ATA ATA A-A TATA GTA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * *
100146346 ATA GTA ATA A-A A-A AT- AGA ACA ACAA ATA ATA ATA ATA CATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA ATA
* * * * * *
100146391 AAA ATA ATA AGA AT- GTG TTA ATA ATA ATA A-A TTA ATA ATA A-A ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * *
100146437 ATAA ATAA ATA A-A CACA AAA ATA A-A AT- ATA ATT ATA ATA GTA ATA
1 AT-A AT-A ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
100146482 TTA ACA A-A ATA ATA ATA ATA CATTA ATA AAA ATA ATA AGA ATGCG TTA
1 ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA AT--A ATA
*
100146530 ATA ATA A-A TTA ATGA ATTA ATA ATA A-A ATGA ATAA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A AT-A ATA ATA ATA ATA
100146577 AT
1 AT
100146579 GTGATAAAGC
Statistics
Matches: 205, Mismatches: 41, Indels: 56
0.68 0.14 0.19
Matches are distributed among these distances:
2 24 0.12
3 146 0.71
4 29 0.14
5 6 0.03
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:100146398 original size:23 final size:23
Alignment explanation
Indices: 100146369--100146576 Score: 91
Period size: 23 Copynumber: 8.6 Consensus size: 23
100146359 ATAGAACAAC
100146369 AAATAATAATAATACATTAATAA
1 AAATAATAATAATACATTAATAA
* ***
100146392 AAATAATAAGAATGTGTTAATAA
1 AAATAATAATAATACATTAATAA
* * *
100146415 TAATAAATTAATAATAAAATGAATAA
1 AAAT-AA-TAATAAT-ACATTAATAA
* * **
100146441 ATA-AAT-A-AACACAAAAATAA
1 AAATAATAATAATACATTAATAA
* * * *
100146461 AATATAATTATAATAGTAATATTAACA
1 AA-ATAATAATAATA-CATTAAT-A-A
100146488 AAATAATAATAATACATTAATAA
1 AAATAATAATAATACATTAATAA
* * *
100146511 AAATAATAAGAATGCGTTAATAA
1 AAATAATAATAATACATTAATAA
*
100146534 TAAATTAATGAATTAATA-ATAAAATGAA
1 -AAA-TAAT-AA-TAATACAT-TAAT-AA
100146562 TAAATAATAATAATA
1 -AAATAATAATAATA
100146577 ATGTGATAAA
Statistics
Matches: 137, Mismatches: 32, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
20 8 0.06
21 3 0.02
22 4 0.03
23 45 0.33
24 11 0.08
25 23 0.17
26 24 0.18
27 13 0.09
28 6 0.04
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (23 bp):
AAATAATAATAATACATTAATAA
Found at i:100146532 original size:34 final size:35
Alignment explanation
Indices: 100146494--100146559 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
100146484 AACAAAATAA
*
100146494 TAATAATACATTAAT-AA-AAATAATAAGAATGCGT
1 TAATAATAAATTAATGAATAAATAATAA-AATGCGT
*
100146528 TAATAATAAATTAATGAATTAATAATAAAATG
1 TAATAATAAATTAATGAATAAATAATAAAATG
100146560 AATAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.50
35 6 0.21
36 8 0.29
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (35 bp):
TAATAATAAATTAATGAATAAATAATAAAATGCGT
Found at i:100146549 original size:19 final size:18
Alignment explanation
Indices: 100146527--100146574 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
100146517 TAAGAATGCG
*
100146527 TTAATAATAAATTAATGAA
1 TTAATAATAAATGAAT-AA
100146546 TTAATAATAAAATGAATAA
1 TTAATAAT-AAATGAATAA
*
100146565 ATAATAATAA
1 TTAATAATAA
100146575 TAATGTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 2 0.08
19 17 0.65
20 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
TTAATAATAAATGAATAA
Found at i:100146559 original size:16 final size:17
Alignment explanation
Indices: 100146512--100146575 Score: 67
Period size: 16 Copynumber: 3.7 Consensus size: 17
100146502 CATTAATAAA
* **
100146512 AATAATAAGAATGCGTT
1 AATAATAATAATGAATT
100146529 AATAATAAATTAATGAATT
1 AATAAT-AA-TAATGAATT
*
100146548 AATAATAA-AATGAATA
1 AATAATAATAATGAATT
100146564 AATAATAATAAT
1 AATAATAATAAT
100146576 AATGTGATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 15 0.38
17 9 0.22
18 4 0.10
19 12 0.30
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (17 bp):
AATAATAATAATGAATT
Found at i:100147884 original size:87 final size:87
Alignment explanation
Indices: 100147633--100148030 Score: 434
Period size: 87 Copynumber: 4.6 Consensus size: 87
100147623 CAACGCCATT
* * *
100147633 TTAGGGAGAAAAGATTTGT-AATTTCCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATC
1 TTAGGGGGATAAGATCTGTAAATTT--AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATC
* *
100147697 CCCTTCGATCTGTTTCCCTACTAC
64 ACCTTCGATCTGTTTCCCTACTGC
* * * *
100147721 TTAGGGGGTTAAGATCTG------TAGCCTGTTACCCTACTACTTTAGGGATTTAGGGCCCATCA
1 TTAGGGGGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGC-TTAGGGGTTTAAGGCCCATCA
* *
100147780 CCTTCAATCTATTTCCCTACTGC
65 CCTTCGATCTGTTTCCCTACTGC
* * * **
100147803 TTAGGGTGATAAGATCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGT
1 TTAGGGGGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAC
*
100147868 CTTCGATTTGTTTCCCTACTGC
66 CTTCGATCTGTTTCCCTACTGC
* * * * * *
100147890 TGAGGGTGATAAGATCTGTAAATTTAGCTTGTTACTCTACTGCTTAGGGGTTTAAGGCCCTTCAT
1 TTAGGGGGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAC
* * *
100147955 CGTCGAACTG-CTCCACTACTGC
66 CTTCGATCTGTTTCC-CTACTGC
* * * *
100147977 TTAGGGGGTTAAAATCTGTAAATTCAGCCTGTTACCCTACTGTTTAGGGGTTTA
1 TTAGGGGGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTA
100148031 GATCTGTAAA
Statistics
Matches: 262, Mismatches: 40, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.06
82 54 0.21
83 1 0.00
86 3 0.01
87 156 0.60
88 31 0.12
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (87 bp):
TTAGGGGGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAC
CTTCGATCTGTTTCCCTACTGC
Found at i:100148038 original size:42 final size:42
Alignment explanation
Indices: 100147970--100148245 Score: 186
Period size: 42 Copynumber: 6.4 Consensus size: 42
100147960 AACTGCTCCA
* *
100147970 CTACTGCTTAGGGGGTTAAAATCTGTAAATTCAGCCTGTTACC
1 CTACTGCTTA-GGGGTTTAGATCTGTAAATTCAGCCTGTTACC
* *
100148013 CTACTGTTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTATC
1 CTACTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTACC
* ** * * *
100148055 ATACTGCTTAGGGGTTTGAGGCCCATC-GT-CGTTGA-TCTGCT-CC
1 CTACTGCTTAGGGGTTT-A-G---ATCTGTAAATTCAGCCTGTTACC
* * *
100148098 ACTACTGCTTAGGGGTTAAGATTTGTAAAATCAGCCTGTTACC
1 -CTACTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTACC
** ** * **
100148141 CTACTGCTTAGGGGTTTA-AGTCCCATCACCTTC-GATCTGTTTTC
1 CTACTGCTTAGGGGTTTAGA-T-CTGT-AAATTCAG-CCTGTTACC
* * * *
100148185 TTACTGCTTAGGGGGTTAAGATCTGTAAATTTAACCTGTTACC
1 CTACTGCTTA-GGGGTTTAGATCTGTAAATTCAGCCTGTTACC
100148228 CTACTGCTTAGGGGTTTA
1 CTACTGCTTAGGGGTTTA
100148246 AGGCCTGTGA
Statistics
Matches: 172, Mismatches: 44, Indels: 35
0.69 0.18 0.14
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 3 0.02
42 74 0.43
43 34 0.20
44 40 0.23
45 11 0.06
46 3 0.02
47 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (42 bp):
CTACTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTACC
Found at i:100148060 original size:129 final size:128
Alignment explanation
Indices: 100147876--100148158 Score: 397
Period size: 129 Copynumber: 2.2 Consensus size: 128
100147866 GTCTTCGATT
* * * * * *
100147876 TGTTTCCCTACTGCTGAGGGTGATAAGATCTGTAAATTTAGCTTGTTACTCTACTGCTTAGGGGT
1 TGTTACCCTACTGCTTAGGG-GTTTAGATCTGTAAATTCAGCCTGTTACTCTACTGCTTAGGGGT
* *
100147941 TTAAGGCCCTTCATCGTCGAACTGCTCCACTACTGCTTAGGGGGTTAAAATCTGTAAATTCAGCC
65 TTAAGGCCCATCATCGTCGAACTGCTCCACTACTGCTTA-GGGGTTAAAATCTGTAAAATCAGCC
*
100148006 TGTTACCCTACTGTTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTA-TCATACTGCTTAGGGGT
1 TGTTACCCTACTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTACTC-TACTGCTTAGGGGT
* * * * * *
100148070 TTGAGGCCCATCGTCGTTGATCTGCTCCACTACTGCTTAGGGGTTAAGATTTGTAAAATCAGCC
65 TTAAGGCCCATCATCGTCGAACTGCTCCACTACTGCTTAGGGGTTAAAATCTGTAAAATCAGCC
100148134 TGTTACCCTACTGCTTAGGGGTTTA
1 TGTTACCCTACTGCTTAGGGGTTTA
100148159 AGTCCCATCA
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
128 48 0.35
129 71 0.52
130 17 0.12
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (128 bp):
TGTTACCCTACTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTACTCTACTGCTTAGGGGTT
TAAGGCCCATCATCGTCGAACTGCTCCACTACTGCTTAGGGGTTAAAATCTGTAAAATCAGCC
Found at i:100148112 original size:86 final size:86
Alignment explanation
Indices: 100148011--100148250 Score: 304
Period size: 86 Copynumber: 2.8 Consensus size: 86
100148001 CAGCCTGTTA
* * * * *
100148011 CCCTACTGTTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTATCATACTGCTTAGGGGTTTGAGG
1 CCCTACTGCTTAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG
* *
100148076 CCCATCGTCGTT-GATCTG-CT
66 CCCATC-ACCTTCGATCTGTCT
* *
100148096 CCACTACTGCTTAGGGGTTAAGATTTGTAAAATCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CC-CTACTGCTTAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
* *
100148161 TCCCATCACCTTCGATCTGTTT
65 GCCCATCACCTTCGATCTGTCT
* * * *
100148183 TCTTACTGCTTAGGGGGTTAAGATCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTA-GGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
100148248 GCC
65 GCC
100148251 TGTGAATTTA
Statistics
Matches: 133, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
85 5 0.04
86 76 0.57
87 52 0.39
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (86 bp):
CCCTACTGCTTAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG
CCCATCACCTTCGATCTGTCT
Found at i:100148202 original size:215 final size:216
Alignment explanation
Indices: 100147794--100148245 Score: 579
Period size: 215 Copynumber: 2.1 Consensus size: 216
100147784 CAATCTATTT
* * * *
100147794 CCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTAGGG-GTTTAGATCTGTAAATTCAGCCTATTACCATACTGCTTAGGGGTTTAAG
* * * * * *
100147859 GCCCTTCGTCTTCGATTTGTTTCCCTACTGCTGAGGGTGATAAGATCTGTAAATTTAGCTTGTTA
65 GCCCATCGTCTTCGATCTGTCTCCCTACTGCTGAGGGTGATAAGATCTGTAAAATCAGCCTGTTA
* * *
100147924 CTCTACTGCTTAGGGGTTTAAGGCCCTTCATCGTCGAACTGCTCCACTACTGCTTAGGGGGTTAA
130 CCCTACTGCTTAGGGGTTTAAGGCCCATCACCGTCGAACTGCTCCACTACTGCTTAGGGGGTTAA
*
100147989 AATCTGTAAATTCAGCCTGTTA
195 AATCTGTAAATTCAACCTGTTA
* * * *
100148011 CCCTACTGTTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTATCATACTGCTTAGGGGTTTGAGG
1 CCCTACTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTATTACCATACTGCTTAGGGGTTTAAGG
* * *
100148076 CCCATCGTCGTT-GATCTG-CTCCACTACTGCTTAGGG-GTTAAGATTTGTAAAATCAGCCTGTT
66 CCCATCGTC-TTCGATCTGTCTCC-CTACTGCTGAGGGTGATAAGATCTGTAAAATCAGCCTGTT
* * * * * *
100148138 ACCCTACTGCTTAGGGGTTTAAGTCCCATCACCTTCGATCTGTTTTC-TTACTGCTTAGGGGGTT
129 ACCCTACTGCTTAGGGGTTTAAGGCCCATCACCGTCGAACTG-CTCCACTACTGCTTAGGGGGTT
* *
100148202 AAGATCTGTAAATTTAACCTGTTA
193 AAAATCTGTAAATTCAACCTGTTA
100148226 CCCTACTGCTTAGGGGTTTA
1 CCCTACTGCTTAGGGGTTTA
100148246 AGGCCTGTGA
Statistics
Matches: 202, Mismatches: 30, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
215 116 0.57
216 70 0.35
217 16 0.08
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (216 bp):
CCCTACTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTATTACCATACTGCTTAGGGGTTTAAGG
CCCATCGTCTTCGATCTGTCTCCCTACTGCTGAGGGTGATAAGATCTGTAAAATCAGCCTGTTAC
CCTACTGCTTAGGGGTTTAAGGCCCATCACCGTCGAACTGCTCCACTACTGCTTAGGGGGTTAAA
ATCTGTAAATTCAACCTGTTA
Found at i:100149485 original size:30 final size:30
Alignment explanation
Indices: 100149451--100149536 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
100149441 AAAACCCTAG
*
100149451 CCACCTTGCCTCCCACTTGCATCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
100149481 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
100149511 CCACCTTGTCTCCCACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
100149537 ACCATCAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.16, C:0.51, G:0.07, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:100150134 original size:3 final size:3
Alignment explanation
Indices: 100150128--100150186 Score: 75
Period size: 3 Copynumber: 19.0 Consensus size: 3
100150118 TTCTGACTAC
*
100150128 TAT TAT TAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
100150175 TAT TAT TAT TAT
1 TAT TAT TAT TAT
100150187 CACCCCTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 1 0.02
3 43 0.84
4 7 0.14
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:100150313 original size:16 final size:17
Alignment explanation
Indices: 100150287--100150328 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
100150277 ATATATTAGT
* *
100150287 GTATATTTTTATGTATA
1 GTATATATTTATATATA
100150304 -TATATATTTATATATA
1 GTATATATTTATATATA
100150320 GTAT-TATTT
1 GTATATATTT
100150329 TTTATTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (17 bp):
GTATATATTTATATATA
Found at i:100158107 original size:21 final size:22
Alignment explanation
Indices: 100158070--100158112 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
100158060 TTGATCCTGC
*
100158070 ATCTCTTTTTGCATTTGTTCCA
1 ATCTCTTTTTGCATTTGGTCCA
*
100158092 ATCTCTTTTT-CCTTTGGTCCA
1 ATCTCTTTTTGCATTTGGTCCA
100158113 TTGCTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.12, C:0.26, G:0.09, T:0.53
Consensus pattern (22 bp):
ATCTCTTTTTGCATTTGGTCCA
Found at i:100158230 original size:9 final size:9
Alignment explanation
Indices: 100158212--100158243 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
100158202 TGCAATGCTG
100158212 ATGC-ATGA
1 ATGCAATGA
100158220 ATGCAATGA
1 ATGCAATGA
100158229 ATGCAATGA
1 ATGCAATGA
100158238 ATGCAA
1 ATGCAA
100158244 AAAAGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:100158650 original size:22 final size:22
Alignment explanation
Indices: 100158607--100158650 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
100158597 GTAGTGATGC
* *
100158607 TTTAAGTTCTTCTATCTTCTCT
1 TTTAAGTTCTTCAATCTACTCT
100158629 TTTAA-TTCTTCAACTCTACTCT
1 TTTAAGTTCTTCAA-TCTACTCT
100158651 AACTAGCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.18, C:0.25, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAGTTCTTCAATCTACTCT
Found at i:100162271 original size:3 final size:3
Alignment explanation
Indices: 100162263--100162567 Score: 127
Period size: 3 Copynumber: 100.7 Consensus size: 3
100162253 GGGGAAAAAT
* * *
100162263 ATA ATA ATA ATA AT- ATA ATA ATA ATA TTA GTA ATA A-A A-A AT- AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
100162307 ACA ACAA ATA ATA ATA ATA CATTA ATA AAA ATA ATA AGA AT- GTG TTA
1 ATA A-TA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA
*
100162354 ATA ATA ATA A-A TTA ATGA ATTA ATA ATA A-A ATGA ATAA ATAA ATA
1 ATA ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A AT-A AT-A ATA
* * * * * *
100162399 A-A CACA AAA ATA A-A AT- ATA ATT ATA ATA GTA ATA TTA ACA A-A
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
100162441 ATA ATA GTA GTA ATA ATA ATA ATA ATA ATA CATTA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA
* * * *
100162488 AGA ATGCG TTA ATA ATA ATA A-A TTA ATGA ATTA ATA ATA A-A ATGA
1 ATA AT--A ATA ATA ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A
100162533 ATAA ATAA ATA A-A AT- ATA ATA ATA ATA ATA ATA AT
1 AT-A AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
100162568 GTGATAAAGC
Statistics
Matches: 234, Mismatches: 40, Indels: 56
0.71 0.12 0.17
Matches are distributed among these distances:
2 25 0.11
3 167 0.71
4 35 0.15
5 7 0.03
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:100162379 original size:16 final size:17
Alignment explanation
Indices: 100162358--100162400 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
100162348 GTGTTAATAA
*
100162358 TAATAAAT-TAATGAAT
1 TAATAAATAAAATGAAT
100162374 TAAT-AATAAAATGAAT
1 TAATAAATAAAATGAAT
*
100162390 AAATAAATAAA
1 TAATAAATAAA
100162401 CACAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 14 0.61
17 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
TAATAAATAAAATGAAT
Found at i:100162524 original size:16 final size:17
Alignment explanation
Indices: 100162503--100162547 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
100162493 GCGTTAATAA
*
100162503 TAATAAAT-TAATGAAT
1 TAATAAATAAAATGAAT
100162519 TAAT-AATAAAATGAAT
1 TAATAAATAAAATGAAT
*
100162535 AAATAAATAAAAT
1 TAATAAATAAAAT
100162548 ATAATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 14 0.56
17 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
TAATAAATAAAATGAAT
Found at i:100162564 original size:145 final size:141
Alignment explanation
Indices: 100162258--100162567 Score: 446
Period size: 145 Copynumber: 2.2 Consensus size: 141
100162248 GTAATGGGGA
* * *
100162258 AAAATATAATAATAATAAT-ATAATAATAATATTAGTAATAAAAAATAGAACAACAAATAATAAT
1 AAAATATAATAATAATAATAATAATAATAATAATAGTAACAAAAAATAGAACAAAAAATAATAAT
*
100162322 AATACATTAATAAAAATAATAAGAATGTGTTAATAATAATAAATTAATGAATTAATAATAAAATG
66 AATACATTAATAAAAATAATAAGAATGCGTTAATAATAATAAATTAATGAATTAATAATAAAATG
100162387 AATAAATAAAT
131 AATAAATAAAT
* * * * * **
100162398 AAACACA-AA-AATAAAATATAATTATAATAGTAATATTAACAAAATAATAGTAGTAATAATAAT
1 AAA-ATATAATAATAATA-ATAATAATAATAATAATAGTAACAAAA-AATAG-AACAA-AA-AAT
100162461 AATAATAATACATTAATAAAAATAATAAGAATGCGTTAATAATAATAAATTAATGAATTAATAAT
60 AATAATAATACATTAATAAAAATAATAAGAATGCGTTAATAATAATAAATTAATGAATTAATAAT
100162526 AAAATGAATAAATAAAT
125 AAAATGAATAAATAAAT
100162543 AAAATATAATAATAATAATAATAAT
1 AAAATATAATAATAATAATAATAAT
100162568 GTGATAAAGC
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
139 6 0.04
140 7 0.05
141 21 0.14
142 5 0.03
143 3 0.02
144 3 0.02
145 96 0.65
146 6 0.04
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (141 bp):
AAAATATAATAATAATAATAATAATAATAATAATAGTAACAAAAAATAGAACAAAAAATAATAAT
AATACATTAATAAAAATAATAAGAATGCGTTAATAATAATAAATTAATGAATTAATAATAAAATG
AATAAATAAAT
Found at i:100162574 original size:20 final size:20
Alignment explanation
Indices: 100162313--100162574 Score: 83
Period size: 20 Copynumber: 13.1 Consensus size: 20
100162303 TAGAACAACA
100162313 AATAATAATAATACAT-TAAT
1 AATAATAATAATA-ATGTAAT
* * **
100162333 AAAAATAATAAGAATGTGTT
1 AATAATAATAATAATGTAAT
100162353 AATAATAAT-A-AAT-TAAT
1 AATAATAATAATAATGTAAT
100162370 GAATTAATAATAA-AATG-AAT
1 -AA-TAATAATAATAATGTAAT
* *
100162390 AAATAAATAA-ACACAA--AAAT
1 -AAT-AATAATA-ATAATGTAAT
* *
100162410 AAAATATAATTATAATAGTAAT
1 AATA-ATAATAATAAT-GTAAT
* * *
100162432 ATTAACAA-AATAATAGTAGT
1 AATAATAATAATAAT-GTAAT
*
100162452 AATAATAATAATAATAATACATT
1 AATAATAATAATAAT-GTA-A-T
*
100162475 AATAAAAATAATAA-G-AAT
1 AATAATAATAATAATGTAAT
**
100162493 GCGTTAATAATAATAAAT-TAAT
1 --AATAATAATAAT-AATGTAAT
100162515 GAATTAATAATAA-AATG-AAT
1 -AA-TAATAATAATAATGTAAT
*
100162535 -A-AATAAATAA-AATATAAT
1 AATAAT-AATAATAATGTAAT
*
100162553 AATAATAATAATAATGTGAT
1 AATAATAATAATAATGTAAT
100162573 AA
1 AA
100162575 AGCAACCAAA
Statistics
Matches: 181, Mismatches: 32, Indels: 58
0.67 0.12 0.21
Matches are distributed among these distances:
16 3 0.02
17 10 0.06
18 11 0.06
19 28 0.15
20 82 0.45
21 16 0.09
22 17 0.09
23 14 0.08
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (20 bp):
AATAATAATAATAATGTAAT
Found at i:100165072 original size:15 final size:15
Alignment explanation
Indices: 100165054--100165092 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
100165044 TTAGTCTTAA
100165054 TTAATTAATAAAAAC
1 TTAATTAATAAAAAC
* *
100165069 TTAATTAATTAAACC
1 TTAATTAATAAAAAC
100165084 TTAACTTAA
1 TTAA-TTAA
100165093 ATTTAGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTAATAAAAAC
Found at i:100170157 original size:19 final size:18
Alignment explanation
Indices: 100170103--100170180 Score: 50
Period size: 22 Copynumber: 4.1 Consensus size: 18
100170093 GATTGTCCAT
* *
100170103 TTATAAAATTTTAATAAA
1 TTATAAAAATATAATAAA
*
100170121 TTAAAAAATATTGAATAATAAA
1 TTATAAAA-A-T--ATAATAAA
*
100170143 TTATAAATAATATAAATAAT
1 TTATAAA-AATAT-AATAAA
*
100170163 TTTTAAAAATATAA-AAA
1 TTATAAAAATATAATAAA
100170180 T
1 T
100170181 AATATGAGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
17 3 0.06
18 9 0.19
19 7 0.15
20 12 0.26
21 1 0.02
22 14 0.30
23 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (18 bp):
TTATAAAAATATAATAAA
Found at i:100173270 original size:30 final size:31
Alignment explanation
Indices: 100173202--100173262 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
100173192 TTAAAGTAGT
*
100173202 AATGAT-AAAATTGTACTTTAACTCCTCTAA
1 AATGATAAAAATTGTAATTTAACTCCTCTAA
*
100173232 AATGATAAAAATT-TAATTTAA-TCCTTTAA
1 AATGATAAAAATTGTAATTTAACTCCTCTAA
100173261 AA
1 AA
100173263 ATTATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 9 0.32
30 13 0.46
31 6 0.21
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (31 bp):
AATGATAAAAATTGTAATTTAACTCCTCTAA
Found at i:100177894 original size:60 final size:60
Alignment explanation
Indices: 100177824--100177943 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
100177814 AAACCGGTGT
100177824 ATTTAAACTAAAAGCTTATGTAACCATCGCACATTCTTCCCTTGCTGATGTCCCCACCAA
1 ATTTAAACTAAAAGCTTATGTAACCATCGCACATTCTTCCCTTGCTGATGTCCCCACCAA
*
100177884 ATTTAAACTAAAAGCTTATGTAACCATCGCACCTTCTTCCCTTGCTGATGTCCCCACCAA
1 ATTTAAACTAAAAGCTTATGTAACCATCGCACATTCTTCCCTTGCTGATGTCCCCACCAA
100177944 CATTCATGCT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.30
Consensus pattern (60 bp):
ATTTAAACTAAAAGCTTATGTAACCATCGCACATTCTTCCCTTGCTGATGTCCCCACCAA
Found at i:100186918 original size:42 final size:42
Alignment explanation
Indices: 100186871--100186956 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
100186861 ATCGAGCTAA
* * **
100186871 TACTCAATTGGTGATGCGTTTTGTTCTTAAATTTAGTTCTTT
1 TACTCAATTGGTAATGCGTTTTATTCTTAAATTTAAATCTTT
100186913 TACTCAATTGGTAATGCGTTTTATTCTTAAATTTAAATCTTT
1 TACTCAATTGGTAATGCGTTTTATTCTTAAATTTAAATCTTT
100186955 TA
1 TA
100186957 TTTAAAGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.51
Consensus pattern (42 bp):
TACTCAATTGGTAATGCGTTTTATTCTTAAATTTAAATCTTT
Found at i:100189487 original size:40 final size:40
Alignment explanation
Indices: 100189408--100189518 Score: 188
Period size: 40 Copynumber: 2.8 Consensus size: 40
100189398 TTGAAGGAAT
*
100189408 ATATCCGGGTTAAATTCCGCAGGC-TTGTGCTGGTAATAG
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATAG
100189447 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATAG
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATAG
* *
100189487 ATATCTGGGTTAAATCCCACAGGCTTTGTGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCT
100189519 AGAAATTGGA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
39 23 0.34
40 45 0.66
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (40 bp):
ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATAG
Found at i:100191458 original size:10 final size:10
Alignment explanation
Indices: 100191443--100191467 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
100191433 ATAGAATATA
100191443 TTATTTTGTT
1 TTATTTTGTT
100191453 TTATTTTGTT
1 TTATTTTGTT
100191463 TTATT
1 TTATT
100191468 ATTTATTTTT
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:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (10 bp):
TTATTTTGTT
Found at i:100195127 original size:26 final size:26
Alignment explanation
Indices: 100195073--100195127 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
100195063 ATAATATATT
100195073 TATATTATTTTAATTTAATAATTTAA
1 TATATTATTTTAATTTAATAATTTAA
*
100195099 TATATT-TTTT-ATATTAA-AATTTTA
1 TATATTATTTTAAT-TTAATAATTTAA
100195123 TATAT
1 TATAT
100195128 GGTCATCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 13 0.48
25 8 0.30
26 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATATTATTTTAATTTAATAATTTAA
Found at i:100197902 original size:11 final size:11
Alignment explanation
Indices: 100197886--100197915 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
100197876 ACAGTGTTGA
100197886 AAGGAATACTT
1 AAGGAATACTT
100197897 AAGGAATACTT
1 AAGGAATACTT
*
100197908 AACGAATA
1 AAGGAATA
100197916 AGAACGGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (11 bp):
AAGGAATACTT
Found at i:100198261 original size:17 final size:17
Alignment explanation
Indices: 100198220--100198261 Score: 75
Period size: 18 Copynumber: 2.4 Consensus size: 17
100198210 AATGCCATGT
100198220 TTTTTGTTACCGAAATC
1 TTTTTGTTACCGAAATC
100198237 TATTTTGTTACCGAAATC
1 T-TTTTGTTACCGAAATC
100198255 TTTTTGT
1 TTTTTGT
100198262 AGAGAGGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.52
Consensus pattern (17 bp):
TTTTTGTTACCGAAATC
Found at i:100203667 original size:21 final size:21
Alignment explanation
Indices: 100203641--100203681 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
100203631 ATCTGCTCAA
* *
100203641 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
100203662 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
100203682 TTGCTGGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:100209631 original size:17 final size:17
Alignment explanation
Indices: 100209609--100209644 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
100209599 AAAAAAATCG
100209609 TTTAATACATAAATTTA
1 TTTAATACATAAATTTA
*
100209626 TTTAATAGATAAATTTA
1 TTTAATACATAAATTTA
100209643 TT
1 TT
100209645 AAAGAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAATACATAAATTTA
Found at i:100214731 original size:18 final size:18
Alignment explanation
Indices: 100214705--100214740 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
100214695 AAGTGAAATT
100214705 TTAAAATATAATTTTATA
1 TTAAAATATAATTTTATA
*
100214723 TTAACATATAATTTTATA
1 TTAAAATATAATTTTATA
100214741 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAAATATAATTTTATA
Found at i:100228534 original size:18 final size:18
Alignment explanation
Indices: 100228511--100228568 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
100228501 TAATGACTTG
100228511 TTTTATTAAATTTTAAAA
1 TTTTATTAAATTTTAAAA
* *
100228529 TTTTATGT-ACTTTT-TAA
1 TTTTAT-TAAATTTTAAAA
100228546 TTTTATTAAGATTTTTAAAA
1 TTTTATTAA-A-TTTTAAAA
100228566 TTT
1 TTT
100228569 GTAAGATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.29
18 11 0.35
19 5 0.16
20 5 0.16
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTATTAAATTTTAAAA
Found at i:100230734 original size:21 final size:22
Alignment explanation
Indices: 100230710--100230750 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
100230700 TAATAATACA
100230710 TTAAATTAAA-AAAATAAATTC
1 TTAAATTAAAGAAAATAAATTC
*
100230731 TTAATTTAAAGAAAATAAAT
1 TTAAATTAAAGAAAATAAAT
100230751 GTAATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
TTAAATTAAAGAAAATAAATTC
Found at i:100245911 original size:12 final size:11
Alignment explanation
Indices: 100245896--100245936 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
100245886 TTGATTTATA
100245896 TTTGAATTATTT
1 TTTGAATT-TTT
100245908 TTTGAACTTTTT
1 TTTGAA-TTTTT
*
100245920 TTTGAACTTTT
1 TTTGAATTTTT
100245931 TTTGAA
1 TTTGAA
100245937 CTCGTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 10 0.37
12 15 0.56
13 2 0.07
ACGTcount: A:0.22, C:0.05, G:0.10, T:0.63
Consensus pattern (11 bp):
TTTGAATTTTT
Found at i:100245919 original size:11 final size:11
Alignment explanation
Indices: 100245905--100245938 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
100245895 ATTTGAATTA
100245905 TTTTTTGAACTT
1 TTTTTTGAAC-T
100245917 TTTTTTGAACT
1 TTTTTTGAACT
100245928 TTTTTTGAACT
1 TTTTTTGAACT
100245939 CGTAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (11 bp):
TTTTTTGAACT
Found at i:100247136 original size:39 final size:41
Alignment explanation
Indices: 100247086--100247189 Score: 117
Period size: 39 Copynumber: 2.6 Consensus size: 41
100247076 TTTTGATATG
* * * *
100247086 ACAATATTAAAAACCAATTATG-A-ACAAGAAAATTTTGAA
1 ACAAGATTAAAAACCAATTACGAATAAAAAAAAATTTTGAA
*
100247125 ACAGGATTAAAAA--AATTACGAATAAAAAAAAATTTTGAA
1 ACAAGATTAAAAACCAATTACGAATAAAAAAAAATTTTGAA
* *
100247164 ACAAGATTAAAAACCAAATACAAATA
1 ACAAGATTAAAAACCAATTACGAATA
100247190 GATAAATTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
37 6 0.11
38 1 0.02
39 37 0.70
41 9 0.17
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.22
Consensus pattern (41 bp):
ACAAGATTAAAAACCAATTACGAATAAAAAAAAATTTTGAA
Found at i:100259105 original size:55 final size:56
Alignment explanation
Indices: 100258969--100259091 Score: 187
Period size: 56 Copynumber: 2.2 Consensus size: 56
100258959 GGGTGTTGAG
* *
100258969 ATATTATCTTTTAGCAATTTGATTCCT-ATGGGATATTATAAGATATTACTATGGA
1 ATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTACAAGATATTACTATGGA
* *
100259024 ATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTACAGGATATTATTATGGTA
1 ATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTACAAGATATTACTATGG-A
100259081 A-ATTATCTTTT
1 ATATTATCTTTT
100259092 GTAATCCGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
55 27 0.44
56 33 0.53
57 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (56 bp):
ATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTACAAGATATTACTATGGA
Found at i:100269033 original size:30 final size:30
Alignment explanation
Indices: 100268997--100269058 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
100268987 TTCCCGAGTC
100268997 TAGGGGTAAAAGTGTAAATATGTAAAAGTT
1 TAGGGGTAAAAGTGTAAATATGTAAAAGTT
* * * *
100269027 TAGGGGTAAAATTGTAATTTTGTTAAAGTT
1 TAGGGGTAAAAGTGTAAATATGTAAAAGTT
100269057 TA
1 TA
100269059 AGTTAAGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (30 bp):
TAGGGGTAAAAGTGTAAATATGTAAAAGTT
Found at i:100273127 original size:15 final size:15
Alignment explanation
Indices: 100273107--100273139 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
100273097 ACTCCATTTT
100273107 ATTTATATTAGGATA
1 ATTTATATTAGGATA
100273122 ATTTATATTAGGATA
1 ATTTATATTAGGATA
100273137 ATT
1 ATT
100273140 ATTAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTTATATTAGGATA
Found at i:100276046 original size:25 final size:23
Alignment explanation
Indices: 100276004--100276055 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
100275994 ATTTTTTAAA
* *
100276004 AAAATTAAAAATTTAAAAACTCTTT
1 AAAATTAAAAA-TAAAAAAAT-TTT
100276029 AAAATTAAAAATAAAAAAATTTT
1 AAAATTAAAAATAAAAAAATTTT
100276052 AAAA
1 AAAA
100276056 AACATTTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.28
24 7 0.28
25 11 0.44
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATTAAAAATAAAAAAATTTT
Found at i:100279843 original size:28 final size:28
Alignment explanation
Indices: 100279782--100279849 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
100279772 AGTAAATAAC
*
100279782 ATTTTTTTAAAATTTTGAAATTAGTTAT
1 ATTTTTTTAAAATTTTGAAATTAGTTAA
*
100279810 ATTTTTATAAAATTTTG-AATTA-TTAA
1 ATTTTTTTAAAATTTTGAAATTAGTTAA
100279836 ATGATTTTTTAAAA
1 AT--TTTTTTAAAA
100279850 ATATTATACT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.14
27 5 0.14
28 25 0.71
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (28 bp):
ATTTTTTTAAAATTTTGAAATTAGTTAA
Found at i:100287536 original size:40 final size:39
Alignment explanation
Indices: 100287449--100287581 Score: 140
Period size: 35 Copynumber: 3.6 Consensus size: 39
100287439 GTTTTCCTCA
*
100287449 TTGAAATACCATACCTACATTT-TACAACTCGGTATGG--
1 TTGAAATACCATACCTACATTTCT-CAACTCAGTATGGAT
* *
100287486 --GAAATGCCATACCTACATTTCTTAACTCAGTATGGAT
1 TTGAAATACCATACCTACATTTCTCAACTCAGTATGGAT
*
100287523 TTGATAATACCATACCTACATTTCACAACTCAGTATGGA-
1 TTGA-AATACCATACCTACATTTCTCAACTCAGTATGGAT
*
100287562 -TG--ATACCATACGTACATTTC
1 TTGAAATACCATACCTACATTTC
100287582 ACACTTTTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
35 47 0.57
36 1 0.01
38 2 0.02
39 2 0.02
40 31 0.37
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (39 bp):
TTGAAATACCATACCTACATTTCTCAACTCAGTATGGAT
Found at i:100290121 original size:130 final size:130
Alignment explanation
Indices: 100289841--100290487 Score: 980
Period size: 130 Copynumber: 5.0 Consensus size: 130
100289831 TTTAGAGAAT
* * *
100289841 CATGAGTGAAATTCTAAAGGAATATTTGATTATTTTGAAAAAAC-AGAAAATCGCAACCCAGCAC
1 CATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAG-AAATCGCAACCCAGCAC
* ** ** *
100289905 GATAAGGCACGATTCCCTGAATTGCCAAACATC-GAGTATTACCTTCGTTTCGAAGAGTTTTTAA
65 GATAGGGCACGATTCCC-GAATTGCCAAACATCGGA-TATCGCCTTCGTTTTAAAGAATTTTTAA
100289969 AGA
128 AGA
* * *
100289972 TATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCACG
1 CATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
* *
100290037 ATAGGGCACGATTCCCGAATTGACAAACATCGGGTA-CTGCCTTCGTTTTAAAGAATTTTTAAAG
66 ATAGGGCACGATTCCCGAATTGCCAAACATCGGATATC-GCCTTCGTTTTAAAGAATTTTTAAAG
100290101 A
130 A
*
100290102 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
1 CATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
* *
100290167 ATAGCGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCATTTTAAAGAATTTTTAAAGA
66 ATAGGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAGA
* *
100290232 C--GAGTAAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCTAGCACG
1 CATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
* *
100290295 ATAGGGCACGATTCCCGAATTGCCAAACATCAGATATGGCCTTCGTTTTAAAGAATTTTTAAAGA
66 ATAGGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAGA
* *
100290360 CATGAGCGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
1 CATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
* * * *
100290425 ATAAGGCACGATTCCCGAATTGCCAAACATTGAATATCGCCTTTGTTTTAAAGAATTTTTAAA
66 ATAGGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAA
100290488 TGAATAGGTA
Statistics
Matches: 471, Mismatches: 39, Indels: 13
0.90 0.07 0.02
Matches are distributed among these distances:
128 121 0.26
130 275 0.58
131 74 0.16
132 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (130 bp):
CATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
ATAGGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAGA
Found at i:100290308 original size:258 final size:259
Alignment explanation
Indices: 100289841--100290487 Score: 1007
Period size: 258 Copynumber: 2.5 Consensus size: 259
100289831 TTTAGAGAAT
* * * *
100289841 CATGAGTGAAATTCTAAAGGAATATTTGATTATTTTGAAAAAAC-AGAAAATCGCAACCCAGCAC
1 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAG-AAATCGCAACCCAGCAC
** ** *
100289905 GATAAGGCACGATTCCCTGAATTGCCAAACATC-GAGTATTACCTTCGTTTCGAAGAGTTTTTAA
65 GATAAGGCACGATTCCC-GAATTGCCAAACATCGGA-TATCGCCTTCGTTTTAAAGAATTTTTAA
* * *
100289969 AGATATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGC
128 AGA-ACGAGTAAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGC
* *
100290034 ACGATAGGGCACGATTCCCGAATTGACAAACATCGGGTACT-GCCTTCGTTTTAAAGAATTTTTA
192 ACGATAGGGCACGATTCCCGAATTGACAAACATCAGATA-TGGCCTTCGTTTTAAAGAATTTTTA
100290098 AAGA
256 AAGA
100290102 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
1 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
*
100290167 AT-AGCGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCATTTTAAAGAATTTTTAAAG
66 ATAAG-GCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAG
* *
100290231 -ACGAGTAAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCTAGCACG
130 AACGAGTAAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
*
100290295 ATAGGGCACGATTCCCGAATTGCCAAACATCAGATATGGCCTTCGTTTTAAAGAATTTTTAAAGA
195 ATAGGGCACGATTCCCGAATTGACAAACATCAGATATGGCCTTCGTTTTAAAGAATTTTTAAAGA
*
100290360 CATGAGCGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
1 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
* * *
100290425 ATAAGGCACGATTCCCGAATTGCCAAACATTGAATATCGCCTTTGTTTTAAAGAATTTTTAAA
66 ATAAGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAA
100290488 TGAATAGGTA
Statistics
Matches: 358, Mismatches: 23, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
257 1 0.00
258 239 0.67
259 2 0.01
260 41 0.11
261 73 0.20
262 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (259 bp):
CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
ATAAGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAGA
ACGAGTAAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGA
TAGGGCACGATTCCCGAATTGACAAACATCAGATATGGCCTTCGTTTTAAAGAATTTTTAAAGA
Found at i:100290791 original size:31 final size:31
Alignment explanation
Indices: 100290755--100290817 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
100290745 AATTCAATAC
100290755 AACCAAAACAATACACATAATACATAGCATG
1 AACCAAAACAATACACATAATACATAGCATG
*
100290786 AACCAAAACAATACACATAGTACATAGCATG
1 AACCAAAACAATACACATAATACATAGCATG
100290817 A
1 A
100290818 TATAAAATGG
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:0.54, C:0.22, G:0.08, T:0.16
Consensus pattern (31 bp):
AACCAAAACAATACACATAATACATAGCATG
Found at i:100291697 original size:29 final size:28
Alignment explanation
Indices: 100291636--100291697 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
100291626 CTAAAAAACC
* *
100291636 TAATTGAAATCACATAAAGAAAAGGGCC
1 TAATTGAAATCACATAAAGAAAAAGGCA
*
100291664 TAATTGAAATCACATTAAAATAAAAAGG-A
1 TAATTGAAATCACA-T-AAAGAAAAAGGCA
100291693 TAATT
1 TAATT
100291698 TACAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 14 0.48
29 6 0.21
30 9 0.31
ACGTcount: A:0.53, C:0.10, G:0.13, T:0.24
Consensus pattern (28 bp):
TAATTGAAATCACATAAAGAAAAAGGCA
Found at i:100292841 original size:14 final size:14
Alignment explanation
Indices: 100292822--100292848 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100292812 TAATGGACTG
100292822 TTATAATAATTTTA
1 TTATAATAATTTTA
100292836 TTATAATAATTTT
1 TTATAATAATTTT
100292849 TTTGGTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATAATAATTTTA
Found at i:100293368 original size:133 final size:133
Alignment explanation
Indices: 100293143--100293532 Score: 577
Period size: 133 Copynumber: 2.9 Consensus size: 133
100293133 CGCAATTTTT
*
100293143 AGCCTACTCTACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCA
1 AGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCA
* * * *
100293208 AGAATACAAGATTCGCCGT-TTTCGATCTGCTCCACTACAGCTTCAGGGGAACAAGATCTACAAT
66 GGAAGACAAGATTCGCCGTCTTT-GATCTGCTCCACTGCAACTTCAGGGGAACAAGATCTACAAT
100293272 CTTC
130 CTTC
* *
100293276 AGCCTACTCCATTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGTAACTTCA
1 AGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCA
* *
100293341 GGAAGACAAGATTCGCCGTCTTTGATCTGCTCTACTGCAACTTCAGGGAAACAAGATCTACAATC
66 GGAAGACAAGATTCGCCGTCTTTGATCTGCTCCACTGCAACTTCAGGGGAACAAGATCTACAATC
100293406 TTC
131 TTC
* * * * *
100293409 AGCCTACTCCACTACAACTTTAGGGAGCTAGGATTGTGACTTAAATCTACTTCACTGCAGCTTCA
1 AGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCA
* ** * *
100293474 GGAAGACTAGATTCGCTATCTTCGATCTGCTCCGCTGCAACTTCA-GGGAGACAAGATCT
66 GGAAGACAAGATTCGCCGTCTTTGATCTGCTCCACTGCAACTTCAGGGGA-ACAAGATCT
100293533 GTAGAATCGG
Statistics
Matches: 232, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
132 3 0.01
133 226 0.97
134 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (133 bp):
AGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCA
GGAAGACAAGATTCGCCGTCTTTGATCTGCTCCACTGCAACTTCAGGGGAACAAGATCTACAATC
TTC
Found at i:100293661 original size:64 final size:64
Alignment explanation
Indices: 100293560--100293744 Score: 318
Period size: 64 Copynumber: 2.9 Consensus size: 64
100293550 GGCCTATGCG
* * *
100293560 TATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAGTG-TTCTTAACTAGATGTGGTGCT
1 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTTC-TAACTAAATGTGGTGCT
100293624 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTTCTAACTAAATGTGGTGCT
1 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTTCTAACTAAATGTGGTGCT
*
100293688 TATGTCAAATAATTAAAATGCTATGATCGAAATGAATCAAGTGCTTCTAACTAAATG
1 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTTCTAACTAAATG
100293745 AATGATCATG
Statistics
Matches: 116, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
64 113 0.97
65 3 0.03
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (64 bp):
TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTTCTAACTAAATGTGGTGCT
Found at i:100301766 original size:19 final size:20
Alignment explanation
Indices: 100301729--100301769 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
100301719 TATGGCCTTT
100301729 AATGCATAATGATGTAATGC
1 AATGCATAATGATGTAATGC
100301749 AATGCA-AATGCATG-AATGC
1 AATGCATAATG-ATGTAATGC
100301768 AA
1 AA
100301770 AGGAGGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (20 bp):
AATGCATAATGATGTAATGC
Found at i:100304770 original size:130 final size:130
Alignment explanation
Indices: 100304478--100304866 Score: 575
Period size: 130 Copynumber: 3.0 Consensus size: 130
100304468 TTTAGAGAAT
* * * *
100304478 CATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAAAAAATCACAACCCAGCACG
1 CATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
* ** * *
100304543 ATAGGGCACGATTCCCCGAATT-TCCAAACATC-GAGTATTACCTTCGTTTCAAAGAGTTTTTAA
66 ATAGGGCACGATT-CTCGAATTGT-CAAACATCGGA-TATCGCCTTCGTTTTAAAGAATTTTTAA
100304606 AGA
128 AGA
* *
100304609 TATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCACG
1 CATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
* *
100304674 ATAGGGCACGATTCTCAAATTGTCAAACATCGGATATCGCATTCGTTTTAAAGAATTTTTAAAGA
66 ATAGGGCACGATTCTCGAATTGTCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAGA
* *
100304739 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCATCACG
1 CATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
* * *
100304804 ATAGGGCACGATTCTCGAATTGCCAAACATCGAATATCGCCTTTGTTTTAAAGAATTTTTAAA
66 ATAGGGCACGATTCTCGAATTGTCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAA
100304867 TGAATAGGTA
Statistics
Matches: 234, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
130 159 0.68
131 75 0.32
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (130 bp):
CATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
ATAGGGCACGATTCTCGAATTGTCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAGA
Found at i:100305656 original size:2 final size:2
Alignment explanation
Indices: 100305649--100305673 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100305639 AAATTTAATA
100305649 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 A
100305674 GATCAAACAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100306077 original size:29 final size:28
Alignment explanation
Indices: 100306016--100306077 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
100306006 CTAAAAAACC
* *
100306016 TAATTGAAATCACATAAAGAAAAGGGCC
1 TAATTGAAATCACATAAAGAAAAAGGCA
*
100306044 TAATTGAAATCACATTAAAATAAAAAGG-A
1 TAATTGAAATCACA-T-AAAGAAAAAGGCA
100306073 TAATT
1 TAATT
100306078 TACAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 14 0.48
29 6 0.21
30 9 0.31
ACGTcount: A:0.53, C:0.10, G:0.13, T:0.24
Consensus pattern (28 bp):
TAATTGAAATCACATAAAGAAAAAGGCA
Found at i:100307192 original size:14 final size:14
Alignment explanation
Indices: 100307173--100307199 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100307163 TAATGGACTG
100307173 TTATAATATTTTTA
1 TTATAATATTTTTA
100307187 TTATAATATTTTT
1 TTATAATATTTTT
100307200 TTTGGTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATAATATTTTTA
Done.