Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 228 of 253
Found at i:74601765 original size:3 final size:3
Alignment explanation
Indices: 74601757--74601851 Score: 65
Period size: 3 Copynumber: 33.0 Consensus size: 3
74601747 CTTATGACTG
* * * * *
74601757 TTA TTA TTA ATA TTC TTA TTA TCA CTA TTA TT- TT- TTT TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
74601802 TCA ATA -TA TTA TTA CTA -TA GTTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
74601846 TTA TTA
1 TTA TTA
74601852 ATTTTTAATA
Statistics
Matches: 72, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
2 10 0.14
3 60 0.83
4 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:74602076 original size:43 final size:43
Alignment explanation
Indices: 74601979--74602087 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
74601969 GTTTATTTAA
*
74601979 AAAAACGCCGCTAAAGATCATGACCATTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAAATCATGACCATTAGCGGCGCTTTTCCC
* * ***
74602022 ACAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTTTTTT
1 AAAAACGCCGCTAAAAATCATGACCATTAGCGGCGCTTTTCCC
* *
74602065 AAAAACACCGCTAAAAGTCATGA
1 AAAAACGCCGCTAAAAATCATGA
74602088 AATTCAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAATCATGACCATTAGCGGCGCTTTTCCC
Found at i:74606345 original size:22 final size:22
Alignment explanation
Indices: 74606317--74606359 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
74606307 TTAATCATCT
74606317 TTAACGTTAACAGCAGGATTCC
1 TTAACGTTAACAGCAGGATTCC
*
74606339 TTAACGTTAATAGCAGGATTC
1 TTAACGTTAACAGCAGGATTC
74606360 GCAAGAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (22 bp):
TTAACGTTAACAGCAGGATTCC
Found at i:74607927 original size:3 final size:3
Alignment explanation
Indices: 74607911--74608168 Score: 64
Period size: 3 Copynumber: 85.3 Consensus size: 3
74607901 TTATTTTCTT
* * * * *
74607911 TTA TTA TAA ATA TTA TTA CTA TTA TT- TTA TACA CTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * *
74607955 TCA -TA TT- TTC TT- TTA -TA TTA TTA TT- TTA -TA TTA TTA TTT TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* * *
74607998 TGTA CGTA TTA TT- TATA TTA TTA -TA TCTA TTT TTA CCTCTA TTA TAA
1 T-TA -TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA --T-TA TTA TTA
* *
74608045 TTA TTA TTA ATA TTA GTA TATA TT- TTA TTA TATA TGTA TATA TATA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA T-TA T-TA T-TA
* * *
74608091 CTTT TTA TATA GTA TTA TT- TTT TCTA TTA TTA -TA TTA -TA TTTA TTA
1 -TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA -TTA TTA
* *
74608137 TT- TTCA CTA TTA TTA TT- TT- TTA TCA TTA TTA T
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA T
74608169 ACATATATAC
Statistics
Matches: 188, Mismatches: 35, Indels: 64
0.66 0.12 0.22
Matches are distributed among these distances:
2 32 0.17
3 118 0.63
4 33 0.18
5 3 0.02
6 2 0.01
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:74608333 original size:16 final size:16
Alignment explanation
Indices: 74608297--74608334 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
74608287 TTATATTATG
74608297 TATATTATTTTTTTAA
1 TATATTATTTTTTTAA
*
74608313 AATATTATATTTTTT-A
1 TATATTAT-TTTTTTAA
74608329 TATATT
1 TATATT
74608335 TTGTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTATTTTTTTAA
Found at i:74608333 original size:41 final size:47
Alignment explanation
Indices: 74608287--74608396 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 47
74608277 TTTAATACTC
74608287 TTATATTATGTATATTATTTTTTTAA-A-ATATTA-T-AT-T-TTTTA
1 TTATATTATGTATA-TATTTTTTTAATACATATTATTCATATATTTTA
*
74608329 -TATATTTTGTATATATATTTTTTAATATCATATTATTCATATATTTTA
1 TTATATTATGTATATAT-TTTTTTAATA-CATATTATTCATATATTTTA
74608377 TTATATTATGTATATATTTT
1 TTATATTATGTATATATTTT
74608397 AATAACTATA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
40 3 0.05
41 20 0.35
42 1 0.02
44 6 0.11
45 1 0.02
46 2 0.04
47 1 0.02
48 8 0.14
49 15 0.26
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.63
Consensus pattern (47 bp):
TTATATTATGTATATATTTTTTTAATACATATTATTCATATATTTTA
Found at i:74608345 original size:13 final size:11
Alignment explanation
Indices: 74608318--74608396 Score: 61
Period size: 11 Copynumber: 6.7 Consensus size: 11
74608308 TTTAAAATAT
74608318 TATATTTTTTA
1 TATATTTTTTA
74608329 TATATTTTGTATA
1 TATATTTT-T-TA
74608342 TATATTTTTTAA
1 TATATTTTTT-A
*
74608354 TATCATATTATTCA
1 TAT-AT-TT-TTTA
*
74608368 TATATTTTAT-
1 TATATTTTTTA
* *
74608378 TATATTATGTA
1 TATATTTTTTA
74608389 TATATTTT
1 TATATTTT
74608397 AATAACTATA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 8 0.15
11 17 0.31
12 8 0.15
13 14 0.25
14 6 0.11
15 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (11 bp):
TATATTTTTTA
Found at i:74608350 original size:24 final size:24
Alignment explanation
Indices: 74608318--74608393 Score: 75
Period size: 26 Copynumber: 3.1 Consensus size: 24
74608308 TTTAAAATAT
74608318 TATATTTTTTATATATTTTGTATA
1 TATATTTTTTATATATTTTGTATA
* *
74608342 TATATTTTTTAATATCATATTAT-TCA
1 TATATTTTTT-ATAT-ATTTTGTAT-A
* *
74608368 TATATTTTAT-TATATTATGTATA
1 TATATTTTTTATATATTTTGTATA
74608391 TAT
1 TAT
74608394 TTTAATAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
23 8 0.19
24 14 0.33
25 5 0.12
26 15 0.36
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (24 bp):
TATATTTTTTATATATTTTGTATA
Found at i:74608356 original size:39 final size:40
Alignment explanation
Indices: 74608288--74608385 Score: 110
Period size: 39 Copynumber: 2.4 Consensus size: 40
74608278 TTAATACTCT
* * * *
74608288 TATATTATGTATATTATTTTTTTAAAATATTATATTTTTTA
1 TATATTTTGTATATTATTTTTTT-AAATATCATATTATTCA
74608329 TATATTTTGTATA-TATATTTTTT-AATATCATATTATTCA
1 TATATTTTGTATATTAT-TTTTTTAAATATCATATTATTCA
*
74608368 TATATTTTATTATATTAT
1 TATATTTT-GTATATTAT
74608386 GTATATATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
39 21 0.43
40 7 0.14
41 21 0.43
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (40 bp):
TATATTTTGTATATTATTTTTTTAAATATCATATTATTCA
Found at i:74608362 original size:15 final size:13
Alignment explanation
Indices: 74608318--74608349 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
74608308 TTTAAAATAT
74608318 TATATTTT-T-TA
1 TATATTTTGTATA
74608329 TATATTTTGTATA
1 TATATTTTGTATA
74608342 TATATTTT
1 TATATTTT
74608350 TTAATATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 1 0.05
13 10 0.53
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TATATTTTGTATA
Found at i:74608384 original size:21 final size:21
Alignment explanation
Indices: 74608287--74608421 Score: 78
Period size: 21 Copynumber: 6.0 Consensus size: 21
74608277 TTTAATACTC
*
74608287 TTATATTATGTATATTATTTTT
1 TTATATTATGTATA-TATTTTA
* * *
74608309 TTAAAATAT-TATATTTTTTA
1 TTATATTATGTATATATTTTA
*
74608329 -TATATTTTGTATATATATTTTTTAA
1 TTATATTATG--TATATA--TTTT-A
74608354 TATCATATTAT-TCATATATTTTA
1 T-T-ATATTATGT-ATATATTTTA
74608377 TTATATTATGTATATATTTTAA
1 TTATATTATGTATATATTTT-A
*
74608399 TAACTATATTATGTATGTATTTT
1 T---TATATTATGTATATATTTT
74608422 TAACACTATA
Statistics
Matches: 88, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
19 5 0.06
20 5 0.06
21 20 0.23
22 16 0.18
23 2 0.02
24 8 0.09
25 20 0.23
26 5 0.06
27 1 0.01
28 6 0.07
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (21 bp):
TTATATTATGTATATATTTTA
Found at i:74608406 original size:25 final size:25
Alignment explanation
Indices: 74608342--74608496 Score: 87
Period size: 25 Copynumber: 6.4 Consensus size: 25
74608332 ATTTTGTATA
* *
74608342 TATATTTTTTAATATC-ATATTAT-
1 TATATATTTTAATAACTATATTATG
74608365 TCATATATTTT-AT---TATATTATG
1 T-ATATATTTTAATAACTATATTATG
74608387 TATATATTTTAATAACTATATTATG
1 TATATATTTTAATAACTATATTATG
* * **
74608412 TATGTATTTTTAA-CACTATATTACA
1 TATATA-TTTTAATAACTATATTATG
* * *
74608437 TACATACTTTTAATATC-ATTATTACG
1 TATATA-TTTTAATAACTA-TATTATG
*
74608463 TATCTATTATTAAT-A-TATATATATG
1 TATATATT-TTAATAACTATAT-TATG
*
74608488 TGTATATTT
1 TATATATTT
74608497 ATGTAGTATT
Statistics
Matches: 102, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
21 16 0.16
22 3 0.03
23 3 0.03
24 12 0.12
25 46 0.45
26 22 0.22
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (25 bp):
TATATATTTTAATAACTATATTATG
Found at i:74608680 original size:18 final size:18
Alignment explanation
Indices: 74608642--74608676 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
74608632 TATATATTGT
*
74608642 TATTATTAGTTATTTTTA
1 TATTATTAGCTATTTTTA
74608660 TATTATTA-CTATTTTTA
1 TATTATTAGCTATTTTTA
74608677 ATATATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTATTAGCTATTTTTA
Found at i:74608684 original size:136 final size:140
Alignment explanation
Indices: 74608377--74608684 Score: 312
Period size: 136 Copynumber: 2.2 Consensus size: 140
74608367 ATATATTTTA
** *
74608377 TTATATTATGTATATATTTTAATA-ACTATATTATGTATGTATTTTTAACACTATATTACATACA
1 TTATATTAT-TATAT-TTTTAATATA-TATATTATGTACATATTTTTAACACTATAGTA-ATA-A
* * * *
74608441 TACTTTTAATATCATTATTACGTATCTATTATTAATATATATATATGTGTATATTTATGTAGTAT
61 TACTTTTAATATCATTATTACGTATATATTATTAATATACATATATGTATATATTTATATAGTAT
*
74608506 TACTAATAGTTGTTT
126 TACTAATAGTTATTT
* *
74608521 TTA-A-TATTATTATTTCTAATATGTATATATTATGTACATATTTTTAATACTAT-GT-AT-ATA
1 TTATATTATTA-TATTTTTAATA--TATATATTATGTACATATTTTTAACACTATAGTAATAATA
* * *
74608581 CTTTTTAT-TCCTATTATTACGTATATATT-TT-A-ATACATATATGTATATATTTATATATTGT
63 CTTTTAATAT-C-ATTATTACGTATATATTATTAATATACATATATGTATATATTTATATAGTAT
* *
74608642 TATTATTAGTTATTT
126 TACTAATAGTTATTT
74608657 TTATATTATTACTATTTTTAATATATAT
1 TTATATTATTA-TATTTTTAATATATAT
74608685 TGTATATATA
Statistics
Matches: 139, Mismatches: 17, Indels: 24
0.77 0.09 0.13
Matches are distributed among these distances:
136 44 0.32
137 3 0.02
138 28 0.20
139 16 0.12
140 2 0.01
141 9 0.06
142 7 0.05
143 26 0.19
144 4 0.03
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (140 bp):
TTATATTATTATATTTTTAATATATATATTATGTACATATTTTTAACACTATAGTAATAATACTT
TTAATATCATTATTACGTATATATTATTAATATACATATATGTATATATTTATATAGTATTACTA
ATAGTTATTT
Found at i:74611336 original size:17 final size:17
Alignment explanation
Indices: 74611314--74611352 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
74611304 GTCAAAATTC
**
74611314 AAAATTAATTTAAACTT
1 AAAATTAACCTAAACTT
*
74611331 AAAATTAACCTGAACTT
1 AAAATTAACCTAAACTT
74611348 AAAAT
1 AAAAT
74611353 ATCTAGGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATTAACCTAAACTT
Found at i:74611925 original size:21 final size:19
Alignment explanation
Indices: 74611875--74611925 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
74611865 AACCAATAAA
*
74611875 TCTATGTAAATCCCTAACT
1 TCTATGTAAAGCCCTAACT
74611894 TCTA-GAATAAAGCCCTTAACT
1 TCTATG--TAAAGCCC-TAACT
74611915 TCTATCGTAAA
1 TCTAT-GTAAA
74611926 TATATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
18 1 0.04
19 4 0.15
20 7 0.27
21 13 0.50
23 1 0.04
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (19 bp):
TCTATGTAAAGCCCTAACT
Found at i:74616270 original size:19 final size:19
Alignment explanation
Indices: 74616243--74616279 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
74616233 CCATTTAAAC
*
74616243 AATACTTCATCAATATAAT
1 AATAATTCATCAATATAAT
*
74616262 AATAATTCATCCATATAA
1 AATAATTCATCAATATAA
74616280 CACATAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAATTCATCAATATAAT
Found at i:74616491 original size:23 final size:23
Alignment explanation
Indices: 74616452--74616541 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 23
74616442 GCTGATGGAT
*
74616452 AGTAAGTTCTACTGAGCTGA-AAC
1 AGTAAGCTCTAC-GAGCTGAGAAC
74616475 AGTAAGCTCTGACGAGCTGAGAAC
1 AGTAAGCTCT-ACGAGCTGAGAAC
* *
74616499 AGTAAGCTCTTACGATCTGATATATC
1 AGTAAGCTC-TACGAGCTGAGA-A-C
*
74616525 GGTAAGCTCATACGAGC
1 AGTAAGCTC-TACGAGC
74616542 CGAGGTGAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
23 16 0.29
24 23 0.41
25 2 0.04
26 15 0.27
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTACGAGCTGAGAAC
Found at i:74620407 original size:13 final size:13
Alignment explanation
Indices: 74620389--74620414 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
74620379 CTTTATAGTC
74620389 ACTTTATTCAGCT
1 ACTTTATTCAGCT
74620402 ACTTTATTCAGCT
1 ACTTTATTCAGCT
74620415 GTCTATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
ACTTTATTCAGCT
Found at i:74626477 original size:19 final size:20
Alignment explanation
Indices: 74626438--74626476 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
74626428 CTTTTGAAAT
74626438 TTAATTTTTATATTAAAAAA
1 TTAATTTTTATATTAAAAAA
74626458 TTAATGTTTTAT-TTAAAAA
1 TTAAT-TTTTATATTAAAAA
74626477 TCTCAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TTAATTTTTATATTAAAAAA
Found at i:74627610 original size:12 final size:12
Alignment explanation
Indices: 74627578--74627603 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
74627568 TTAAAAATAG
74627578 AAAATTTAAAAA
1 AAAATTTAAAAA
74627590 AAAATTTAAAAA
1 AAAATTTAAAAA
74627602 AA
1 AA
74627604 TCTTTAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATTTAAAAA
Found at i:74628634 original size:28 final size:28
Alignment explanation
Indices: 74628602--74628657 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
74628592 TTATAATACC
74628602 AAGGATTCATAAAGTTTAAAGCATTATT
1 AAGGATTCATAAAGTTTAAAGCATTATT
74628630 AAGGATTCATAAAGTTTAAAGCATTATT
1 AAGGATTCATAAAGTTTAAAGCATTATT
74628658 TAGTTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (28 bp):
AAGGATTCATAAAGTTTAAAGCATTATT
Found at i:74638329 original size:40 final size:39
Alignment explanation
Indices: 74638252--74638337 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
74638242 TAATGACTTA
* * *
74638252 TCGGCTAAAATGGTACTTAGTGTGTAGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
* * *
74638291 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCT
74638331 TCGGCTA
1 TCGGCTA
74638338 TATATATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
Found at i:74638389 original size:28 final size:28
Alignment explanation
Indices: 74638349--74638448 Score: 85
Period size: 28 Copynumber: 3.6 Consensus size: 28
74638339 ATATATATAA
*
74638349 ATGGAACTTAGTGTGCAAAGTATCGAGG
1 ATGGCACTTAGTGTGCAAAGTATCGAGG
* *
74638377 ATGGCACTTAGTGTGCGAAA-CATCCAGG
1 ATGGCACTTAGTGTGC-AAAGTATCGAGG
* * * * * *
74638405 GTAGCACTTAGCGTGCGAGGTATCGAGT
1 ATGGCACTTAGTGTGCAAAGTATCGAGG
* *
74638433 ATGGTACATAGTGTGC
1 ATGGCACTTAGTGTGC
74638449 GAGATATCGA
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
27 1 0.02
28 50 0.93
29 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCAAAGTATCGAGG
Found at i:74641783 original size:22 final size:22
Alignment explanation
Indices: 74641736--74641785 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
74641726 AATTTAACAT
74641736 TTAATATTTTAAATTTGTTTGA
1 TTAATATTTTAAATTTGTTTGA
74641758 -TAATCATTTTAAATTT-TTT-A
1 TTAAT-ATTTTAAATTTGTTTGA
74641778 CTTAATAT
1 -TTAATAT
74641786 AAAATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 1 0.04
21 9 0.36
22 15 0.60
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (22 bp):
TTAATATTTTAAATTTGTTTGA
Found at i:74642736 original size:151 final size:149
Alignment explanation
Indices: 74642542--74642843 Score: 586
Period size: 151 Copynumber: 2.0 Consensus size: 149
74642532 ATGACTTATA
74642542 ATATTTTAATATTCGTTTAGATGAAAACGTAGCATTGATGATGAGCAAACATCAACCACTAGCGG
1 ATATTTTAATATTCGTTTAGATGAAAACGTAGCATTGATGATGAGCAAACATCAACCACTAGCGG
74642607 TGACTAAAATAAAAGCTGAAAGGGAAATTATTAAACGACACAACATTGCATAATCTTACGTTCTC
66 TGACTAAAATAAAAGCTGAAAGGGAAATTATTAAACGACACAACATTGCATAATCTTACGTTCTC
74642672 CAATCTCATAGGAACTGGG
131 CAATCTCATAGGAACTGGG
74642691 ATATTTTAAATATATCGTTTAGATGAAAACGTAGCATTGATGATGAGCAAACATCAACCACTAGC
1 ATATTTT-AATAT-TCGTTTAGATGAAAACGTAGCATTGATGATGAGCAAACATCAACCACTAGC
74642756 GGTGACTAAAATAAAAGCTGAAAGGGAAATTATTAAACGACACAACATTGCATAATCTTACGTTC
64 GGTGACTAAAATAAAAGCTGAAAGGGAAATTATTAAACGACACAACATTGCATAATCTTACGTTC
74642821 TCCAATCTCATAGGAACTGGG
129 TCCAATCTCATAGGAACTGGG
74642842 AT
1 AT
74642844 CTACTATAAA
Statistics
Matches: 151, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
149 7 0.05
150 5 0.03
151 139 0.92
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (149 bp):
ATATTTTAATATTCGTTTAGATGAAAACGTAGCATTGATGATGAGCAAACATCAACCACTAGCGG
TGACTAAAATAAAAGCTGAAAGGGAAATTATTAAACGACACAACATTGCATAATCTTACGTTCTC
CAATCTCATAGGAACTGGG
Found at i:74644844 original size:20 final size:20
Alignment explanation
Indices: 74644821--74644859 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
74644811 TGAACTCAAG
74644821 TTAA-TTAAAATTCAAAATTA
1 TTAATTTAAAATT-AAAATTA
*
74644841 TTAATTTAAACTTAAAATT
1 TTAATTTAAAATTAAAATT
74644860 GATCGTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATTTAAAATTAAAATTA
Found at i:74644987 original size:33 final size:33
Alignment explanation
Indices: 74644942--74645018 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
74644932 TTAAAAATCG
***
74644942 TAAACAATATTCAAATTATTTATACTAATAACAA
1 TAAA-AATATTCAAATTAAGGATACTAATAACAA
* *
74644976 TAAAAATATTCAAATTAAGGATGCTAGTAACAA
1 TAAAAATATTCAAATTAAGGATACTAATAACAA
74645009 TAAAAATATT
1 TAAAAATATT
74645019 TATACTAAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
33 34 0.89
34 4 0.11
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.32
Consensus pattern (33 bp):
TAAAAATATTCAAATTAAGGATACTAATAACAA
Found at i:74652180 original size:12 final size:13
Alignment explanation
Indices: 74652138--74652185 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
74652128 AGATACCTAA
74652138 ATAATATTAAAAT
1 ATAATATTAAAAT
*
74652151 ATACATA--ATAAT
1 ATA-ATATTAAAAT
74652163 AT-ATA-TAAAAT
1 ATAATATTAAAAT
74652174 ATAATATTAAAA
1 ATAATATTAAAA
74652186 ACTTATGTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 3 0.10
11 6 0.21
12 9 0.31
13 8 0.28
14 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAATATTAAAAT
Found at i:74653749 original size:22 final size:22
Alignment explanation
Indices: 74653699--74653749 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
74653689 ACTGTGGACT
*
74653699 TATGGGACTGTTGTAGTGGGGG
1 TATGGGGCTGTTGTAGTGGGGG
74653721 TATGGGGCTGTTGTAGTGGGGG
1 TATGGGGCTGTTGTAGTGGGGG
74653743 TATGGGG
1 TATGGGG
74653750 TTGCTTCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.12, C:0.04, G:0.53, T:0.31
Consensus pattern (22 bp):
TATGGGGCTGTTGTAGTGGGGG
Found at i:74654697 original size:89 final size:88
Alignment explanation
Indices: 74654396--74654714 Score: 299
Period size: 89 Copynumber: 3.6 Consensus size: 88
74654386 GATATTGAGT
* * * * *
74654396 TCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAACAGACA-TTAAAAACAAAAACTGAA
1 TCAACTCATCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGA-ATTTAAAAACAGAAATTGAA
* * *
74654459 AATATCTCAGCATGTGAACTGAGGC
64 AATACCTCAGCACGTGAACCGAGGC
* * * *
74654484 TCAACTCA-CTTCTCGCAATATGAGTTGATTTTTGAAAAAAAAAATACAAATCAAAAACAGAATT
1 TCAACTCATC-TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAT-----TTAAAAACAGAAAT
* **
74654548 TAAAAATACCTCAG--CGTGCCCCGAGGC
60 TGAAAATACCTCAGCACGTGAACCGAGGC
* ** *
74654575 TCAACTCATCTCTTGCAATATGAGTTG-TATTTTGACGAACGGAATTTGAAAAACAGAAATTGAA
1 TCAACTCATCTCTCGCAATATGAGTTGAT-TTTTGAAAAACAGAATTT-AAAAACAGAAATTGAA
* * *
74654639 AATAGCTCAGCACGTGAGCCAAGGC
64 AATACCTCAGCACGTGAACCGAGGC
*
74654664 TCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
1 TCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATTTAAAA
74654715 GGCTTAACTC
Statistics
Matches: 184, Mismatches: 33, Indels: 28
0.75 0.13 0.11
Matches are distributed among these distances:
86 1 0.01
87 28 0.15
88 36 0.20
89 50 0.27
90 2 0.01
91 44 0.24
92 1 0.01
93 22 0.12
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (88 bp):
TCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATTTAAAAACAGAAATTGAAAA
TACCTCAGCACGTGAACCGAGGC
Found at i:74654863 original size:70 final size:70
Alignment explanation
Indices: 74654714--74655029 Score: 277
Period size: 70 Copynumber: 4.5 Consensus size: 70
74654704 AGAAATTAAA
* * * ** ** * *
74654714 AGGCTTAACTCACCTCTTGCAAGATGAGTCAATTTTCTAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GGAACAGAAATTAAAAATACCTCAGCGT
* *
74654779 GCCCCG
65 GTCCTG
* *
74654785 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAACAGAAATTAAAATTACCTCAACGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAACAGAAATTAAAAATACCTCAGCGTG
*
74654850 TCTTG
66 TCCTG
* * * *
74654855 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACAACAGGAATTAAAAATACTTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG---GAACAGAAATTAAAAATACCTCAG
*
74654920 CGTGACCTG
62 CGTGTCCTG
** ** * *
74654929 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTG-A-A-ACA-T---AATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAACAGAAATTAAAAATACCTCAGCGTG
74654987 TGACCTG
66 T--CCTG
**
74654994 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
74655030 TTGAAAACAT
Statistics
Matches: 200, Mismatches: 39, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
63 13 0.06
65 34 0.17
66 1 0.00
67 1 0.00
68 1 0.00
69 1 0.00
70 56 0.28
71 36 0.18
73 4 0.02
74 53 0.26
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAACAGAAATTAAAAATACCTCAGCGTG
TCCTG
Found at i:74654944 original size:74 final size:73
Alignment explanation
Indices: 74654714--74655057 Score: 260
Period size: 74 Copynumber: 4.9 Consensus size: 73
74654704 AGAAATTAAA
* * * * * ** * *
74654714 AGGCTTAACTCACCTCTTGCAAGATGAGTCAATTTT-CTA-AACATAAACTAAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTGATTTTTGAAACAACAGAAATTAAAAATACCTCAGC
* *
74654777 GTGCCCCG
66 GTGACCTG
* * *
74654785 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG---GAACAGAAATTAAAATTACCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAG-TGATTTTTGAAACAACAGAAATTAAAAATACCTCAG
* *
74654846 CGTGTCTTG
65 CGTGACCTG
* *
74654855 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACAACAGGAATTAAAAATACTTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAG-TGATTTTTGAAACAACAGAAATTAAAAATACCTCAG
74654920 CGTGACCTG
65 CGTGACCTG
** *
74654929 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTG--A-AAC----A-T---AATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGT-GATTTTTGAAACAACAGAAATTAAAAATACCTCAG
74654983 CGTGTGACCTG
65 C--GTGACCTG
** *
74654994 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTG-AA-AACATG-AATTAAAGATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAG-TGA-TTTTTGAAACAACA-GAAATTAAAAATACCTC
74655056 AG
63 AG
74655058 AGTACCCAAA
Statistics
Matches: 223, Mismatches: 29, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
63 10 0.04
65 33 0.15
66 8 0.04
67 5 0.02
70 56 0.25
71 38 0.17
72 4 0.02
73 1 0.00
74 59 0.26
75 9 0.04
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (73 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTGATTTTTGAAACAACAGAAATTAAAAATACCTCAGC
GTGACCTG
Found at i:74668259 original size:20 final size:20
Alignment explanation
Indices: 74668212--74668259 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
74668202 AAAAACAGAA
*
74668212 GAGGAGGGAGAGAAAAGAGGG
1 GAGG-GGGAAAGAAAAGAGGG
* * *
74668233 AACGGGGAAAGAAGAGAGGG
1 GAGGGGGAAAGAAAAGAGGG
74668253 GAGGGGG
1 GAGGGGG
74668260 GAGCTCCGGC
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.40, C:0.02, G:0.58, T:0.00
Consensus pattern (20 bp):
GAGGGGGAAAGAAAAGAGGG
Found at i:74668850 original size:22 final size:22
Alignment explanation
Indices: 74668793--74668850 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
74668783 TACGAGGACT
* *
74668793 GTGGAGGTATGGGACTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
74668815 GTGGGGGTATGGGGCTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
74668837 GTGGGGGTATGGGG
1 GTGGGGGTATGGGG
74668851 TTGCTTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.12, C:0.03, G:0.55, T:0.29
Consensus pattern (22 bp):
GTGGGGGTATGGGGCTGTTGTA
Found at i:74669195 original size:45 final size:44
Alignment explanation
Indices: 74669131--74669266 Score: 157
Period size: 45 Copynumber: 3.0 Consensus size: 44
74669121 TTTTGCAGAC
*
74669131 AAGTTGCTAGTAC-AGTGTGGATAAACCACTCATCGGTGCAGATAA
1 AAGTTGCTAATACGA-TGTGGATAAACCACTCAT-GGTGCAGATAA
* * *
74669176 AAGTTGCTAATACGATGTGGATAAATCACTCATTGGTGCATAAAA
1 AAGTTGCTAATACGATGTGGATAAACCACTCA-TGGTGCAGATAA
* * * *
74669221 AAGTTGCTAATATGGTGTGGATAAACCATTCAATGGTGTAGATAA
1 AAGTTGCTAATACGATGTGGATAAACCACTC-ATGGTGCAGATAA
74669266 A
1 A
74669267 CTGCTCATAT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
45 74 0.96
46 3 0.04
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (44 bp):
AAGTTGCTAATACGATGTGGATAAACCACTCATGGTGCAGATAA
Found at i:74672638 original size:17 final size:17
Alignment explanation
Indices: 74672598--74672640 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
74672588 TCTAGCTTTC
74672598 ACAATTTAAGTTTTCAA
1 ACAATTTAAGTTTTCAA
*
74672615 ACTATTTAAGTTTTTCAA
1 ACAATTTAAG-TTTTCAA
74672633 A-AATTTAA
1 ACAATTTAA
74672641 ATTTAAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (17 bp):
ACAATTTAAGTTTTCAA
Found at i:74675592 original size:20 final size:20
Alignment explanation
Indices: 74675553--74675592 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
74675543 ATTTTCGTTA
*
74675553 TTACTATTATTAGCATATTT
1 TTACTATTATTAGCAAATTT
74675573 TTACTATTATTTAG-AAATTT
1 TTACTATTA-TTAGCAAATTT
74675593 GTTAGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TTACTATTATTAGCAAATTT
Found at i:74675814 original size:21 final size:20
Alignment explanation
Indices: 74675777--74675817 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
74675767 ACTAGTATTA
* *
74675777 GTATATGTTTTATTATATAT
1 GTATATATTTTAATATATAT
74675797 GTATATATCTTTAATATATAT
1 GTATATAT-TTTAATATATAT
74675818 ATATGTATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
GTATATATTTTAATATATAT
Found at i:74675991 original size:12 final size:12
Alignment explanation
Indices: 74675956--74675999 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
74675946 TTACCATTAC
74675956 TATTATTACTAT
1 TATTATTACTAT
**
74675968 TGCTA-TATCTAT
1 TATTATTA-CTAT
74675980 TATTATTACTAT
1 TATTATTACTAT
74675992 TATTATTA
1 TATTATTA
74676000 TTATATTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:74676311 original size:23 final size:23
Alignment explanation
Indices: 74676282--74676327 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
74676272 TACTACCACC
*
74676282 GTTATTTTTATTATCATATTATT
1 GTTATTTTTATTACCATATTATT
*
74676305 GTTATTTTTTTTACCATATTATT
1 GTTATTTTTATTACCATATTATT
74676328 ATTTCCTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (23 bp):
GTTATTTTTATTACCATATTATT
Found at i:74676409 original size:3 final size:3
Alignment explanation
Indices: 74676401--74676523 Score: 76
Period size: 3 Copynumber: 41.3 Consensus size: 3
74676391 AATTTCACTT
* * *
74676401 TTA TTA TTA TTA CTA -TA TTA TCA TTG TTA TTA TTA TT- TTCCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA
* * * * *
74676446 TTA TTA ATA TTA ATA TTAA TT- TTC TTA TTA TTA CTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
74676491 TCA -TA GGTA CTA -TA TTA TTA TTA TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T
74676524 CTTTTATATT
Statistics
Matches: 94, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
2 9 0.10
3 78 0.83
4 5 0.05
5 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:74682012 original size:16 final size:16
Alignment explanation
Indices: 74681986--74682019 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
74681976 TTTAATTGTG
74681986 AAAATTCTAAAAATAAA
1 AAAATTCT-AAAATAAA
74682003 AAAATT-TAAAATAAA
1 AAAATTCTAAAATAAA
74682018 AA
1 AA
74682020 TAAAAATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 1 0.06
17 6 0.35
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATTCTAAAATAAA
Found at i:74683975 original size:16 final size:16
Alignment explanation
Indices: 74683954--74683998 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
74683944 TAAATATTAA
**
74683954 ATTTTTTTAAATTGTT
1 ATTTTTTTAAATAATT
74683970 ATTTTTATTAAATAATT
1 ATTTTT-TTAAATAATT
74683987 ATTTTATTTAAA
1 ATTTT-TTTAAA
74683999 AAAATTAGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 18 0.72
18 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTTTTTTAAATAATT
Found at i:74685664 original size:29 final size:27
Alignment explanation
Indices: 74685619--74685698 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
74685609 AAAAAAGAGG
* *
74685619 CTAGCTAGATGAATTAGCAAAAATGAAA
1 CTAGCTAGAAGAGTTAGCAAAAATG-AA
* *
74685647 CCTAGCT-GAAAGAGTTAGAAAAAAATGGA
1 -CTAGCTAG-AAGAGTTAG-CAAAAATGAA
74685676 CTAGCTAGAAGAGTTAGCAAAAA
1 CTAGCTAGAAGAGTTAGCAAAAA
74685699 AAACAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
27 5 0.12
28 16 0.37
29 15 0.35
30 7 0.16
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (27 bp):
CTAGCTAGAAGAGTTAGCAAAAATGAA
Found at i:74685673 original size:30 final size:29
Alignment explanation
Indices: 74685619--74685700 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
74685609 AAAAAAGAGG
* *
74685619 CTAGCTAGATGAATTAGC--AAAAATGAAA
1 CTAGCTAGAAGAGTTAGCAAAAAAATG-AA
*
74685647 CCTAGCT-GAAAGAGTTAG-AAAAAAATGGA
1 -CTAGCTAG-AAGAGTTAGCAAAAAAATGAA
74685676 CTAGCTAGAAGAGTTAGCAAAAAAA
1 CTAGCTAGAAGAGTTAGCAAAAAAA
74685701 ACAAAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
28 16 0.36
29 22 0.49
30 7 0.16
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (29 bp):
CTAGCTAGAAGAGTTAGCAAAAAAATGAA
Found at i:74685908 original size:28 final size:28
Alignment explanation
Indices: 74685787--74685918 Score: 86
Period size: 28 Copynumber: 4.5 Consensus size: 28
74685777 GAGCTAACTA
* * *
74685787 AAAAAAGGCGTTAGCCT-GATGAGTTTTC
1 AAAAAAGGGGTTAG-CTAGAAGAGTTTGC
* *
74685815 TAAAAAGGAGTTAGCTAGAAGAGTTTGC
1 AAAAAAGGGGTTAGCTAGAAGAGTTTGC
* * * * *
74685843 CAAAAATGGGTTAACCAGAAGAGTTAGAC
1 AAAAAAGGGGTTAGCTAGAAGAGTTTG-C
*
74685872 TAAAAAAAAAGGGGCTAGCTAGAAGAGTTTGC
1 ----AAAAAAGGGGTTAGCTAGAAGAGTTTGC
*
74685904 AAAAATGGGAGTTAG
1 AAAAAAGGG-GTTAG
74685919 TAAGAATAGT
Statistics
Matches: 79, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
27 2 0.03
28 50 0.63
29 5 0.06
32 1 0.01
33 21 0.27
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (28 bp):
AAAAAAGGGGTTAGCTAGAAGAGTTTGC
Found at i:74685938 original size:61 final size:61
Alignment explanation
Indices: 74685816--74685938 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 61
74685806 TGAGTTTTCT
* *
74685816 AAAAAGGAGTTAGCTAGAAGAGTTTGCCAAAAATGGGTTAACCAGAAGAGTTAGACTAAAA
1 AAAAAGGAGCTAGCTAGAAGAGTTTGCCAAAAATGGGTTAACAAGAAGAGTTAGACTAAAA
* ** *
74685877 AAAAAGGGGCTAGCTAGAAGAGTTTG-CAAAAATGGGAGTTAGTAAGAATAGTTAGAC-AAAA
1 AAAAAGGAGCTAGCTAGAAGAGTTTGCCAAAAAT-GG-GTTAACAAGAAGAGTTAGACTAAAA
74685938 A
1 A
74685939 GGAGGTATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
60 7 0.13
61 31 0.57
62 16 0.30
ACGTcount: A:0.46, C:0.08, G:0.26, T:0.20
Consensus pattern (61 bp):
AAAAAGGAGCTAGCTAGAAGAGTTTGCCAAAAATGGGTTAACAAGAAGAGTTAGACTAAAA
Found at i:74687458 original size:15 final size:15
Alignment explanation
Indices: 74687438--74687469 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
74687428 GGCTCTTGGC
74687438 ACCACCATGGTGTGA
1 ACCACCATGGTGTGA
74687453 ACCACCATGGTGTGA
1 ACCACCATGGTGTGA
74687468 AC
1 AC
74687470 TATCCCAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (15 bp):
ACCACCATGGTGTGA
Found at i:74693509 original size:25 final size:26
Alignment explanation
Indices: 74693462--74693512 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
74693452 AAGGTTCCTT
*
74693462 TGCTTCTTCTTTTTTTTGTATTTTGG
1 TGCTTCTTCTTTTTTTTGGATTTTGG
74693488 TGCTT-TT-TTTTTTTTGAGATTTTGG
1 TGCTTCTTCTTTTTTTTG-GATTTTGG
74693513 CCTCTGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 9 0.39
26 5 0.22
ACGTcount: A:0.06, C:0.08, G:0.18, T:0.69
Consensus pattern (26 bp):
TGCTTCTTCTTTTTTTTGGATTTTGG
Found at i:74694231 original size:19 final size:19
Alignment explanation
Indices: 74694209--74694250 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
74694199 TTTTGACCCT
*
74694209 TTATATATTTTTTTATTTA
1 TTATATATTTGTTTATTTA
* *
74694228 TTATTTGTTTGTTTATTTA
1 TTATATATTTGTTTATTTA
74694247 TTAT
1 TTAT
74694251 TCCTTTACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTATATATTTGTTTATTTA
Found at i:74694327 original size:18 final size:18
Alignment explanation
Indices: 74694304--74694339 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
74694294 TATTGTACAT
*
74694304 TTTATTTCTTTTTATTTA
1 TTTATTTATTTTTATTTA
*
74694322 TTTATTTATTTTTCTTTA
1 TTTATTTATTTTTATTTA
74694340 CCTTCTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATTTATTTTTATTTA
Found at i:74694408 original size:3 final size:3
Alignment explanation
Indices: 74694396--74694439 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
74694386 TGTACTTTTA
74694396 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
74694440 GCATATTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:74696544 original size:57 final size:62
Alignment explanation
Indices: 74696478--74696604 Score: 147
Period size: 62 Copynumber: 2.1 Consensus size: 62
74696468 GATTAATTTC
**
74696478 ATTATTTATATAT-TAAT-TA-ATTTATTATTCTTCA-CTTTTT-AAATACGTAAAGTTAAT
1 ATTATTTATATATCTAATATATATTTATTATTCTTCATCTTTTTAAAATACCCAAAGTTAAT
* ** * * *
74696535 ATTATTTATATTTCTTTTATATATTTATTATTCTTTATTTTTTTAAAATACCCAAATTTAAT
1 ATTATTTATATATCTAATATATATTTATTATTCTTCATCTTTTTAAAATACCCAAAGTTAAT
74696597 ATTATTTA
1 ATTATTTA
74696605 CATCTATTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
57 12 0.21
58 2 0.04
59 2 0.04
60 14 0.25
61 5 0.09
62 22 0.39
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (62 bp):
ATTATTTATATATCTAATATATATTTATTATTCTTCATCTTTTTAAAATACCCAAAGTTAAT
Found at i:74696615 original size:60 final size:60
Alignment explanation
Indices: 74696497--74696625 Score: 145
Period size: 62 Copynumber: 2.1 Consensus size: 60
74696487 ATATTAATTA
** * *
74696497 ATTTATTATTCTTCACTTTTTAAATACGTAAAGTTAATATTATTTATATTTCTTTTATA-T
1 ATTTATTATTCTTCACTTTTTAAATACCCAAAGTTAATATTATTTACA-TTCTATTATAGT
* * *
74696557 ATTTATTATTCTTTATTTTTTTAAAATACCCAAATTTAATATTATTTACA-TCTATTATAGTT
1 ATTTATTATTCTTCA-CTTTTT-AAATACCCAAAGTTAATATTATTTACATTCTATTATAG-T
74696619 ATTTATT
1 ATTTATT
74696626 TTTTGTTCAT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 22 0.38
61 5 0.09
62 31 0.53
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (60 bp):
ATTTATTATTCTTCACTTTTTAAATACCCAAAGTTAATATTATTTACATTCTATTATAGT
Found at i:74696704 original size:4 final size:4
Alignment explanation
Indices: 74696689--74696786 Score: 54
Period size: 4 Copynumber: 22.8 Consensus size: 4
74696679 TTTTTTATCA
* * * **
74696689 ATTT ACTT ATTT ATTT ATTT ATTT ATCTTT ATTTT ACTT -TTA AAAT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT A--TTT A-TTT ATTT ATTT ATTT ATTT
* *
74696739 ATTT AATATT ATGTAT ATTT ATTTT ATCT ATTT ACTT ATTT ATTT ATT
1 ATTT -AT-TT AT-T-T ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATT
74696787 ATTCTTTTAC
Statistics
Matches: 71, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
3 1 0.01
4 47 0.66
5 14 0.20
6 9 0.13
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (4 bp):
ATTT
Found at i:74696795 original size:71 final size:69
Alignment explanation
Indices: 74696696--74696968 Score: 200
Period size: 71 Copynumber: 3.8 Consensus size: 69
74696686 TCAATTTACT
*
74696696 TATTTATTTATTTATTTATCT-TTATTTTA-CTTTTAAAATATTTATTTAATATTATGTATATTT
1 TATTTA-TTATTTATTT-T-TATTCTTTTACCTTTTAAAATATTTATTTAATATTAT-TATATTT
*
74696759 ATTTTATC
62 ATTTTGTC
* * *
74696767 TATTTACTTATTTATTTATTATTCTTTTA-CTTTGT-AAATGCTTGAATTTAATATTGTTCATAT
1 TATTTA-TTATTTATTT-TTATTCTTTTACCTTT-TAAAAT-ATT-TATTTAATATTATT-ATAT
*
74696830 TTGTTTTGTC
60 TTATTTTGTC
* * *
74696840 TATTTATTCACTTA--TTTATTCTTTTACCTTTTAAAACATTTGAATTTGATATTATTTATATTT
1 TATTTATT-ATTTATTTTTATTCTTTTACCTTTTAAAATATTT--ATTTAATATTA-TTATATTT
*
74696903 GTTTTTGTC
62 -ATTTTGTC
* * * * *
74696912 AATTTATCATTT-TATTTATTCTTTTACCTTTTTAAAATACTTCAATTTAATGTTATT
1 TATTTATTATTTATTTTTATTCTTTTACC-TTTTAAAATA-TT-TATTTAATATTATT
74696969 TGTTTTATCT
Statistics
Matches: 164, Mismatches: 21, Indels: 33
0.75 0.10 0.15
Matches are distributed among these distances:
70 15 0.09
71 59 0.36
72 37 0.23
73 51 0.31
74 2 0.01
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (69 bp):
TATTTATTATTTATTTTTATTCTTTTACCTTTTAAAATATTTATTTAATATTATTATATTTATTT
TGTC
Found at i:74696933 original size:72 final size:71
Alignment explanation
Indices: 74696720--74696969 Score: 233
Period size: 73 Copynumber: 3.5 Consensus size: 71
74696710 TTTATCTTTA
* * * * * *
74696720 TTTTACTTTTAAAATATTT--ATTTAATATTATGTATATTTATTTTATCTATTTACTTATTTATT
1 TTTTACTTTTAAAACATTTGAATTTAATATTATTTATATTTGTTTTGTCTATTTACTCATTT-TA
74696783 TATTATTC
65 T-TTATTC
* * * * *
74696791 TTTTACTTTGTAAATGC--TTGAATTTAATATTGTTCATATTTGTTTTGTCTATTTATTCA-CTT
1 TTTTACTTT-TAAA-ACATTTGAATTTAATATTATTTATATTTGTTTTGTCTATTTACTCATTTT
74696853 ATTTATTC
64 ATTTATTC
* *
74696861 TTTTACCTTTTAAAACATTTGAATTTGATATTATTTATATTTGTTTTTGTCAATTTA-TCATTTT
1 TTTTA-CTTTTAAAACATTTGAATTTAATATTATTTATATTTG-TTTTGTCTATTTACTCATTTT
74696925 ATTTATTC
64 ATTTATTC
* * * *
74696933 TTTTACCTTTTTAAAATACTTCAATTTAATGTTATTT
1 TTTTA-C-TTTTAAAACATTTGAATTTAATATTATTT
74696970 GTTTTATCTA
Statistics
Matches: 147, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
69 1 0.01
70 15 0.10
71 42 0.29
72 34 0.23
73 55 0.37
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.60
Consensus pattern (71 bp):
TTTTACTTTTAAAACATTTGAATTTAATATTATTTATATTTGTTTTGTCTATTTACTCATTTTAT
TTATTC
Found at i:74697986 original size:111 final size:108
Alignment explanation
Indices: 74697793--74698001 Score: 251
Period size: 111 Copynumber: 1.9 Consensus size: 108
74697783 TCAAATTACG
74697793 AGGTGATCCGATCACACCTCATAAAAAAAAAGATTGGTAGCGACTCCCATTTTCATTTTCAAAAT
1 AGGTGATCCGATCACACCTCAT--AAAAAAAGATTGGTAGCGACTCCCATTTTCATTTTCAAAAT
* * *
74697858 ATAAGTCGATTTAAAAAAAAATGGTTTCGACAACAATCAAATTCAA
64 AAAAATCGATTT-AAAAAAAATAGTTTCGACAACAATCAAATTCAA
** * * * **
74697904 AGGTGATCCGATCATGCCTCAT-AAAAAAGATTGGTGGCGACTCCCCTTTTTTTCGTTTTTTAAA
1 AGGTGATCCGATCACACCTCATAAAAAAAGATTGGTAGCGACT-CCC--ATTTTCATTTTCAAAA
74697968 TAAAAAATCGATTT-AAAAAAATAGTTTCGACAAC
63 T-AAAAATCGATTTAAAAAAAATAGTTTCGACAAC
74698002 TTGGCAACTC
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
108 19 0.23
109 3 0.04
110 19 0.23
111 33 0.39
112 10 0.12
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (108 bp):
AGGTGATCCGATCACACCTCATAAAAAAAGATTGGTAGCGACTCCCATTTTCATTTTCAAAATAA
AAATCGATTTAAAAAAAATAGTTTCGACAACAATCAAATTCAA
Found at i:74703564 original size:89 final size:87
Alignment explanation
Indices: 74703423--74704205 Score: 626
Period size: 89 Copynumber: 8.8 Consensus size: 87
74703413 CATTGTTGCG
* * * * ** * *
74703423 AATCTCATCTCT-TGAAGTTGTAGTGGAGCAGATTAAAGCCACAAATCTTATCTCATTAAAGTTA
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTC-TTGAAGTTG
*
74703487 CAGTGGAGCAGATTGAAGATAACA
65 CAGTGGAGCAGATTGAAG-TTACA
* * * * * * *
74703511 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCTCCGAAGTTA
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCT-TGAAGTTG
* *
74703576 CAGTGGAGTAGGTTGAAGTTACA
65 CAGTGGAGCAGATTGAAGTTACA
* * * ** *
74703599 AGTCTTATATCCCTGAAGTTATAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTC-TTGAAGTT
* * **
74703664 GCAGTAGG-GCAGATTAAAGCTGTA
64 GCAGT-GGAGCAGATTGAAGTTACA
* * * * * * * *
74703688 AACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCACTCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCT-TGAAGTTG
* *
74703753 CAGTGGAGTAGATTGAAGATAGCA
65 CAGTGGAGCAGATTGAAGTTA-CA
* * * * * * * *
74703777 AATCTTATCTCTTTGAAGTTGCAATAGAGCAGATTAAAGTTATAAACCTTATCTCCCTAAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCT-CTTGAAGTTG
* *
74703842 CAGTGGAACAGGTTGAAGTTACA
65 CAGTGGAGCAGATTGAAGTTACA
* * * * * * *
74703865 AGTTTTATCTCGT-TGAAGTTGCAGTGGAGTAAATCGAAGATAGCAAATCTTATCTCTTTAAAGT
1 AATCTTATCTC-TCTGAAGTTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTC-TTGAAGT
* * *
74703929 TGCAGTAGAGCATATTGAAGTTATA
63 TGCAGTGGAGCAGATTGAAGTTACA
* *
74703954 AATCTTATCTC-CATGAAGTTGCAGTAGAGTAGATCGAAGATGGA-AAATCTTATCTCTCTGAAG
1 AATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTGAAGAT--ACAAATCTTATCTCT-TGAAG
* *
74704017 TTGCAGTAGAGCAGATTGAAGCTACA
62 TTGCAGTGGAGCAGATTGAAGTTACA
* * * *
74704043 AATCTGATCT-TCCTGAAGTTGCAATAGAGCAGATTGAAGTTACTAATCTTATCTCCTTGAAGTT
1 AATCTTATCTCT-CTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCT-CTTGAAGTT
* *
74704107 GCAGTGGAGTAGATTGAAGTGACA
64 GCAGTGGAGCAGATTGAAGTTACA
* * * * *
74704131 AGTCCTATAC-CTCTAAAGTTGCAATGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTG
1 AATCTTAT-CTCTCTGAAG-T----TGCAGTAGAGCAGATTGAAGATACAAATCTTATCT-CTTG
*
74704195 AAGATGCAGTG
59 AAGTTGCAGTG
74704206 TGTAATGAAC
Statistics
Matches: 558, Mismatches: 109, Indels: 51
0.78 0.15 0.07
Matches are distributed among these distances:
87 4 0.01
88 164 0.29
89 339 0.61
90 5 0.01
91 1 0.00
93 45 0.08
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (87 bp):
AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCTTGAAGTTGC
AGTGGAGCAGATTGAAGTTACA
Found at i:74703626 original size:133 final size:132
Alignment explanation
Indices: 74703481--74704204 Score: 751
Period size: 133 Copynumber: 5.4 Consensus size: 132
74703471 TATCTCATTA
*
74703481 AAGTTACAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATT
1 AAGTTACAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
* *
74703546 AAAGCTATAAACCTTATCTCTCCGAAGTTACAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCC
66 AAAGTTATAAACCTTATCTC-CCGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCC
74703611 CTG
130 CTG
* * * *
74703614 AAGTTATAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGTTGCAGTAGGGCAGATT
1 AAGTTACAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
* * * *
74703679 AAAGCTGTAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCA-C
66 AAAGTTATAAACCTTATCTCCC-GAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTAT-ATC
*
74703743 TCTG
129 CCTG
* * * * *
74703747 AAGTTGCAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCTTTGAAGTTGCAATAGAGCAGATT
1 AAGTTACAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
* ** * * *
74703812 AAAGTTATAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGTTACAAGTTTTATCTCG
66 AAAGTTATAAACCTTATCTCCC-GAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCC
*
74703877 TTG
130 CTG
* * * * * * * *
74703880 AAGTTGCAGTGGAGTAAATCGAAGATAGCAAATCTTATCTCTTTAAAGTTGCAGTAGAGCATATT
1 AAGTTACAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
* * * * * * * * *
74703945 GAAGTTATAAATCTTATCTCCATGAAGTTGCAGTAGAGTAGATCGAAGATGGA-AAATCTTATCT
66 AAAGTTATAAACCTTATCTCC-CGAAGTTGCAGTGGAGTAGGTTGAAG-T-TACAAGTCTTATAT
*
74704009 CTCTG
128 CCCTG
* * * * *
74704014 AAGTTGCAGTAGAGCAGATTGAAGCT-ACAAATCTGATCT-TCCTGAAGTTGCAATAGAGCAGAT
1 AAGTTACAGTGGAGCAGATTGAAGATAACAAATCTTATCTCT-CTGAAGTTGCAGTAGAGCAGAT
* * * * * *
74704077 TGAAGTTACT-AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGTGACAAGTCCTATA-
65 TAAAGTTA-TAAACCTTATCTCC-CGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATAT
*
74704140 CCTCTA
128 CC-CTG
* *
74704146 AAGTTGCAATGCAGTGGAGCAGATTGAAGAT-ACAAATCTTATCTCCCTGAAGATGCAGT
1 AAGTT---A--CAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGT
74704205 GTGTAATGAA
Statistics
Matches: 508, Mismatches: 67, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
131 3 0.01
132 18 0.04
133 409 0.81
134 36 0.07
135 1 0.00
137 41 0.08
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (132 bp):
AAGTTACAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
AAAGTTATAAACCTTATCTCCCGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCCC
TG
Found at i:74703918 original size:266 final size:265
Alignment explanation
Indices: 74703437--74704190 Score: 865
Period size: 266 Copynumber: 2.8 Consensus size: 265
74703427 TCATCTCTTG
* * * * *
74703437 AAGTTGTAGTGGAGCAGATTAAAGCCACAAATCTTATCTCAT-TAAAGTTACAGTGGAGCAGATT
1 AAGTTGCAGTGGAGCAGATTGAAGTCACAAATCTTATCTC-TCTGAAGTTGCAGTGGAGCAGATT
* * *
74703501 GAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTC
65 GAAGAT-ACAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGTTATAAACCTTATCTC
* *
74703566 TCC-GAAGTTACAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCCCTGAAGTTATAGTGGAGCA
129 -CCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCCCTGAAGTTACAGTGGAGCA
* * * * *
74703630 GATTGAAGATAGCAAATCTTATCTCTTTGAAGTTGCAGTAGGGCAGATTAAAGCTGTAAACCTTA
193 AATCGAAGATAGCAAATCTTATCTCTTTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTA
*
74703695 TCTCCCTA
258 TCTCCATA
* * * * *
74703703 AAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCACTCTGAAGTTGCAGTGGAGTAGATTG
1 AAGTTGCAGTGGAGCAGATTGAAGTCACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTG
*
74703768 AAGATAGCAAATCTTATCTCTTTGAAGTTGCAATAGAGCAGATTAAAGTTATAAACCTTATCTCC
66 AAGATA-CAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGTTATAAACCTTATCTCC
* ** * * ** * *
74703833 CTAAAGTTGCAGTGGAACAGGTTGAAGTTACAAGTTTTATCTCGTTGAAGTTGCAGTGGAGTAAA
130 CTGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCCCTGAAGTTACAGTGGAGCAAA
* * * *
74703898 TCGAAGATAGCAAATCTTATCTCTTTAAAGTTGCAGTAGAGCATATTGAAGTTATAAATCTTATC
195 TCGAAGATAGCAAATCTTATCTCTTTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATC
*
74703963 TCCATG
260 TCCATA
* * * * *
74703969 AAGTTGCAGTAGAGTAGATCGAAGATGGA-AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 AAGTTGCAGTGGAGCAGATTGAAG-T-CACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
* * * *
74704033 TGAAGCTACAAATCTGATCT-TCCTGAAGTTGCAATAGAGCAGATTGAAGTTACT-AATCTTATC
64 TGAAGATACAAATCTTATCTCT-CTGAAGTTGCAATAGAGCAGATTAAAGTTA-TAAACCTTATC
* * * * *
74704096 TCCTTGAAGTTGCAGTGGAGTAGATTGAAGTGACAAGTCCTATA-CCTCTAAAGTTGCAATGCAG
127 TCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCC-CTGAAGTT---A--CAG
* *
74704160 TGGAGCAGATTGAAGATA-CAAATCTTATCTC
186 TGGAGCAAATCGAAGATAGCAAATCTTATCTC
74704191 CCTGAAGATG
Statistics
Matches: 409, Mismatches: 66, Indels: 22
0.82 0.13 0.04
Matches are distributed among these distances:
265 6 0.01
266 331 0.81
267 40 0.10
268 1 0.00
270 13 0.03
271 18 0.04
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (265 bp):
AAGTTGCAGTGGAGCAGATTGAAGTCACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTG
AAGATACAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGTTATAAACCTTATCTCCC
TGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCCCTGAAGTTACAGTGGAGCAAAT
CGAAGATAGCAAATCTTATCTCTTTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCT
CCATA
Found at i:74704122 original size:44 final size:44
Alignment explanation
Indices: 74703423--74704205 Score: 621
Period size: 44 Copynumber: 17.6 Consensus size: 44
74703413 CATTGTTGCG
* * * **
74703423 AATCTCATCT-CTTGAAGTTGTAGTGGAGCAGATTAAAGCCACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * *
74703466 AATCTTATCTCATTAAAGTTACAGTGGAGCAGATTGAAGATAACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG-TTACA
* * * * *
74703511 AATCTTATCT-CTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * *
74703555 AACCTTATCT-CTCCGAAGTTACAGTGGAGTAGGTTGAAGTTACA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * ** *
74703599 AGTCTTATATCCCTGAAGTTATAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * * **
74703644 AATCTTATCTCTTTGAAGTTGCAGTAGG-GCAGATTAAAGCTGTA
1 AATCTTATCTCCTTGAAGTTGCAGT-GGAGCAGATTGAAGTTACA
* * * *
74703688 AACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * *
74703732 AGTCTTATC-ACTCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * * * *
74703777 AATCTTATCTCTTTGAAGTTGCAATAGAGCAGATTAAAGTTATA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * *
74703821 AACCTTATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGTTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * * * *
74703865 AGTTTTATCTCGTTGAAGTTGCAGTGGAGTAAATCGAAGATAGCA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * * * *
74703910 AATCTTATCTCTTTAAAGTTGCAGTAGAGCATATTGAAGTTATA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * *
74703954 AATCTTATCTCCATGAAGTTGCAGTAGAGTAGATCGAAGATGGA-A
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG-T-TACA
* *
74703999 AATCTTATCT-CTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * *
74704043 AATCTGATCTTCC-TGAAGTTGCAATAGAGCAGATTGAAGTTACT
1 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* *
74704087 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGTGACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * *
74704131 AGTCCTAT-ACCTCTAAAGTTGCAATGCAGTGGAGCAGATTGAAGATACA
1 AATCTTATCTCCT-TGAAG-T----TGCAGTGGAGCAGATTGAAGTTACA
* *
74704180 AATCTTATCTCCCTGAAGATGCAGTG
1 AATCTTATCTCCTTGAAGTTGCAGTG
74704206 TGTAATGAAC
Statistics
Matches: 578, Mismatches: 137, Indels: 49
0.76 0.18 0.06
Matches are distributed among these distances:
43 19 0.03
44 346 0.60
45 174 0.30
46 5 0.01
49 32 0.06
50 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
Found at i:74704607 original size:4 final size:4
Alignment explanation
Indices: 74704600--74704676 Score: 50
Period size: 4 Copynumber: 18.8 Consensus size: 4
74704590 GTTAAAAAAA
* * *
74704600 AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTTAC AAAG --AG CAAACG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A--AAG AAAG AAAG -AAA-G
** *
74704646 TGAG AAAG AAAG AAAT AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
74704677 TAGAAAAGGG
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
2 2 0.04
4 48 0.87
5 2 0.04
6 3 0.05
ACGTcount: A:0.66, C:0.04, G:0.23, T:0.06
Consensus pattern (4 bp):
AAAG
Found at i:74704667 original size:16 final size:16
Alignment explanation
Indices: 74704648--74704678 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
74704638 AGCAAACGTG
74704648 AGAAAGAAAGAAATAA
1 AGAAAGAAAGAAATAA
74704664 AGAAAGAAAGAAATA
1 AGAAAGAAAGAAATA
74704679 GAAAAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
AGAAAGAAAGAAATAA
Found at i:74711918 original size:4 final size:4
Alignment explanation
Indices: 74711909--74711937 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
74711899 AGCAAACGTG
74711909 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
74711938 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:74714019 original size:44 final size:44
Alignment explanation
Indices: 74713949--74714192 Score: 211
Period size: 44 Copynumber: 5.4 Consensus size: 44
74713939 GACGTTACAT
* * * *
74713949 AGTGGAGTAGATTGAAGACGCTAATCTTATCTCCCTGAAATTGC
1 AGTGGAGCAGATTGAAGATGCGAATCTTATCTCCCTGAAGTTGC
* *
74713993 AGTGGAGCATATTGAAGATGCGAATCTTAAT-TTCCTGAAGTTGC
1 AGTGGAGCAGATTGAAGATGCGAATCTT-ATCTCCCTGAAGTTGC
* * * * * *
74714037 AGTGGAATGGATTAATGGTACAAGTTACAAATCTTATCTCCCTGAAGTTGC
1 AGTGG-A-GCA--GAT--T-GAAGATGCGAATCTTATCTCCCTGAAGTTGC
* * *
74714088 AGTGGAGCAGATTGAAGATGCGACTCTTATTTCCCTGAAGTTAC
1 AGTGGAGCAGATTGAAGATGCGAATCTTATCTCCCTGAAGTTGC
* * * * * * *
74714132 AATGGAGCAGATTGAAGTTACTAATCTTATCTTCCTAAAGTTGT
1 AGTGGAGCAGATTGAAGATGCGAATCTTATCTCCCTGAAGTTGC
74714176 AGTGGAGCAGATTGAAG
1 AGTGGAGCAGATTGAAG
74714193 CGACAATTCC
Statistics
Matches: 158, Mismatches: 33, Indels: 18
0.76 0.16 0.09
Matches are distributed among these distances:
44 114 0.72
45 4 0.03
46 2 0.01
47 2 0.01
48 2 0.01
49 2 0.01
50 4 0.03
51 28 0.18
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (44 bp):
AGTGGAGCAGATTGAAGATGCGAATCTTATCTCCCTGAAGTTGC
Found at i:74715724 original size:12 final size:12
Alignment explanation
Indices: 74715696--74715735 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
74715686 AATTTTGACC
74715696 TTTTATATATATA
1 TTTTATATAT-TA
74715709 TTTTATATATTA
1 TTTTATATATTA
74715721 TTTTA-ATTATTA
1 TTTTATA-TATTA
74715733 TTT
1 TTT
74715736 GTTTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 1 0.04
12 15 0.58
13 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATATATTA
Found at i:74715910 original size:3 final size:3
Alignment explanation
Indices: 74715898--74715946 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
74715888 CGTACTTTTA
* *
74715898 TAT T-T TAT TAT TAT TAC CAT TAT TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
74715944 TAT
1 TAT
74715947 GCATATTGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:74716110 original size:4 final size:4
Alignment explanation
Indices: 74716093--74716122 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
74716083 TTTAGTCGTT
74716093 TTTA TTTCA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTT-A TTTA TTTA TTTA TTTA TTTA T
74716123 CATTCTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:74724728 original size:24 final size:24
Alignment explanation
Indices: 74724629--74724729 Score: 73
Period size: 24 Copynumber: 4.2 Consensus size: 24
74724619 TATTATCATT
* * *
74724629 CATCCATCAGGGGATAAGATTTCA
1 CATCCCTCAAGGGATAATATTTCA
*
74724653 CATCCCTCAAGGGATCATATTTCA
1 CATCCCTCAAGGGATAATATTTCA
* * *
74724677 CAT-TCTTAA-GGA-AATACTATTCTG
1 CATCCCTCAAGGGATAATA-T-TTC-A
*
74724701 TATCCCTCAAGGGATAATATTTCA
1 CATCCCTCAAGGGATAATATTTCA
*
74724725 TATCC
1 CATCC
74724730 TTTAGGGGAC
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
21 3 0.05
22 4 0.07
23 7 0.12
24 30 0.51
25 7 0.12
26 4 0.07
27 4 0.07
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (24 bp):
CATCCCTCAAGGGATAATATTTCA
Found at i:74724753 original size:48 final size:48
Alignment explanation
Indices: 74724654--74724763 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 48
74724644 AAGATTTCAC
* * * *
74724654 ATCCCTCAAGGGATCATATTTCACATTCTTAAGGAAATACTATTCTGT
1 ATCCCTCAAGGGATAATATTTCACATCCTTAAGGAAACACTATTATGT
* * ** * *
74724702 ATCCCTCAAGGGATAATATTTCATATCCTTTAGGGGACATTATTATTT
1 ATCCCTCAAGGGATAATATTTCACATCCTTAAGGAAACACTATTATGT
*
74724750 ATCCCTAAAGGGAT
1 ATCCCTCAAGGGAT
74724764 TTTATGATTA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (48 bp):
ATCCCTCAAGGGATAATATTTCACATCCTTAAGGAAACACTATTATGT
Found at i:74729241 original size:13 final size:13
Alignment explanation
Indices: 74729223--74729300 Score: 86
Period size: 13 Copynumber: 5.9 Consensus size: 13
74729213 AGTTCTTCAT
74729223 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
74729236 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
74729249 TG-TTGTGAAAAAAG
1 TGCTTTTG--AAAAG
*
74729263 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
74729276 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
74729289 TGCTTTGGAAAA
1 TGCTTTTGAAAA
74729301 ATTTAATTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
12 4 0.07
13 40 0.73
14 7 0.13
15 4 0.07
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:74729585 original size:21 final size:19
Alignment explanation
Indices: 74729517--74729589 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 19
74729507 AGTAATTAAT
* *
74729517 ATTAATTATTTATTAAATTTA
1 ATTAAATATTTA--AAATATA
*
74729538 ATTAGAATATATAAAATATA
1 ATTA-AATATTTAAAATATA
*
74729558 TTTAAATATTTAAATATAATA
1 ATTAAATATTTAAA-AT-ATA
74729579 ATTAAATATTT
1 ATTAAATATTT
74729590 GTAATTAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.21
20 11 0.26
21 17 0.40
22 6 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (19 bp):
ATTAAATATTTAAAATATA
Found at i:74738804 original size:31 final size:31
Alignment explanation
Indices: 74738747--74738820 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
74738737 TTATAATTGA
74738747 TTTAT-TTAAA-AATTAGAGTTAAAAGATATT
1 TTTATATTAAATAATTAGAGTTAAAAGAT-TT
* *
74738777 TATTA-ATTAAATAATTATA-TTATAAGATTT
1 T-TTATATTAAATAATTAGAGTTAAAAGATTT
*
74738807 TTTATAATAAATAA
1 TTTATATTAAATAA
74738821 ATAAAAGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
29 3 0.08
30 12 0.32
31 16 0.43
32 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (31 bp):
TTTATATTAAATAATTAGAGTTAAAAGATTT
Found at i:74738944 original size:16 final size:16
Alignment explanation
Indices: 74738923--74738957 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
74738913 ATATTTATTA
74738923 TAATTATTAAT-TAAAT
1 TAATTA-TAATATAAAT
74738939 TAATTATAATATAAAT
1 TAATTATAATATAAAT
74738955 TAA
1 TAA
74738958 ATGAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATTATAATATAAAT
Found at i:74738970 original size:21 final size:21
Alignment explanation
Indices: 74738931--74738970 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
74738921 TATAATTATT
* * *
74738931 AATTAAATTAATTATAATATA
1 AATTAAATGAAATAAAATATA
74738952 AATTAAATGAAATAAAATA
1 AATTAAATGAAATAAAATA
74738971 AACAAAAGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AATTAAATGAAATAAAATATA
Found at i:74739791 original size:21 final size:19
Alignment explanation
Indices: 74739765--74739823 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 19
74739755 GGATAAGTAT
74739765 TGAAAATGAATTGTATATTGA
1 TGAAAATGAATTG-A-ATTGA
74739786 TGAAAAGTGAAATTGAATTGA
1 TGAAAA-TG-AATTGAATTGA
*
74739807 TCCGTAAATGAATTGAA
1 T--GAAAATGAATTGAA
74739824 AGTGATATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 19 0.58
22 5 0.15
23 9 0.27
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.32
Consensus pattern (19 bp):
TGAAAATGAATTGAATTGA
Found at i:74742353 original size:27 final size:27
Alignment explanation
Indices: 74742323--74742379 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
74742313 GAAAGTGTAA
74742323 ATACTAAGGTAATAATTATACTTTCTT
1 ATACTAAGGTAATAATTATACTTTCTT
74742350 ATACTAAGGTAATAATTATACTTTCTT
1 ATACTAAGGTAATAATTATACTTTCTT
74742377 ATA
1 ATA
74742380 GTTACAAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.44
Consensus pattern (27 bp):
ATACTAAGGTAATAATTATACTTTCTT
Found at i:74744292 original size:15 final size:15
Alignment explanation
Indices: 74744272--74744301 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
74744262 TTCAACAAAA
*
74744272 CCAATTAGATATTTT
1 CCAATTAAATATTTT
74744287 CCAATTAAATATTTT
1 CCAATTAAATATTTT
74744302 TCTCAACCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (15 bp):
CCAATTAAATATTTT
Found at i:74745165 original size:32 final size:32
Alignment explanation
Indices: 74745124--74745186 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
74745114 CATCAGAGTG
74745124 TATGAGTCAAGCATACATAGTTTATTATCCAC
1 TATGAGTCAAGCATACATAGTTTATTATCCAC
*
74745156 TATGAGTCAAGCATACATAGTTTGTTATCCA
1 TATGAGTCAAGCATACATAGTTTATTATCCA
74745187 GTCAGGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
TATGAGTCAAGCATACATAGTTTATTATCCAC
Found at i:74745297 original size:17 final size:17
Alignment explanation
Indices: 74745275--74745309 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
74745265 GCTCCAATTT
74745275 GATGTACTATTAGTCTA
1 GATGTACTATTAGTCTA
74745292 GATGTACTATTAGTCTA
1 GATGTACTATTAGTCTA
74745309 G
1 G
74745310 TCAGTCACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (17 bp):
GATGTACTATTAGTCTA
Found at i:74747624 original size:18 final size:18
Alignment explanation
Indices: 74747601--74747638 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
74747591 AAATTGAAGG
74747601 TCTAGCTTCCGAGATGGA
1 TCTAGCTTCCGAGATGGA
*
74747619 TCTAGCTTCTGAGATGGA
1 TCTAGCTTCCGAGATGGA
74747637 TC
1 TC
74747639 AATCGGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (18 bp):
TCTAGCTTCCGAGATGGA
Found at i:74747803 original size:13 final size:13
Alignment explanation
Indices: 74747785--74747811 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74747775 GCTCGATAGG
74747785 GACACGCCCGTGT
1 GACACGCCCGTGT
74747798 GACACGCCCGTGT
1 GACACGCCCGTGT
74747811 G
1 G
74747812 CGATTGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:74753728 original size:273 final size:272
Alignment explanation
Indices: 74753242--74753785 Score: 856
Period size: 273 Copynumber: 2.0 Consensus size: 272
74753232 TTTTTAATCA
74753242 TGAGCACATACATCTTTTTGAAAATTTCCTCAAATGTTGATTACCAAGCAACTTTAGTTAAGATG
1 TGAGCACATACATCTTTTTGAAAATTTCCTCAAATGTTGATTACCAAGCAACTTTAGTTAAGATG
* ** * * **
74753307 GATGCACAAAATTAGGATCGCTTTAAAAAATGATAATGTTGCTTATAATGTAGATTCATTGCAAT
66 GATGCACAAAATTAAGATAACTTTAAAAAATGATAATGTGGCTTATAAGGTAGACCCATTGCAAT
* * * *
74753372 AAATAGGCCTTGAAGCTCAAAATTATAGTTTCAATGGTCTAATATCATAAGGTTTGCTCGAAAAG
131 AAACAGGCCTTGAAGCTCAAAATTACAGTTTCAAGGGTCTAATATCATAAGGTTGGCTCGAAAAG
* * * **
74753437 GCTCAAACGATCCAAATAAATATTGCCTATATCATTTTAGATTTTTGTGTCTCCTAGGATTTTGC
196 GCTCAAACGATCCAAATAAATAGTGCCTATATCATTTTAGATTTTTATGTCTCCTAAGATTTCAC
74753502 CTCAAAAAAGTG
261 CTCAAAAAAGTG
*
74753514 TGAGCACATACATCTTTTTGAAAATTTCCTCAAATGTTGATTACCTAGACAACTTTAGTTAAGAT
1 TGAGCACATACATCTTTTTGAAAATTTCCTCAAATGTTGATTACCAAG-CAACTTTAGTTAAGAT
* * * *
74753579 GGGTGCACAAAATTAAGATAAC-TTAAAAAGGTGGTAATGTGGCTTATAAGGTAGACCCATTGTA
65 GGATGCACAAAATTAAGATAACTTTAAAAA-ATGATAATGTGGCTTATAAGGTAGACCCATTGCA
*
74753643 ATAAACAGGCCTTTAAGCTCAAAATTACAGTTTCAAGGGTCTAATATCATAAGGTTGGCTCGAAA
129 ATAAACAGGCCTTGAAGCTCAAAATTACAGTTTCAAGGGTCTAATATCATAAGGTTGGCTCGAAA
74753708 AGGCTCAAACGATCCAAATAAATAGTGCCTATATCATTTTAGATTTTTATGTCTCCTAAGATTTC
194 AGGCTCAAACGATCCAAATAAATAGTGCCTATATCATTTTAGATTTTTATGTCTCCTAAGATTTC
*
74753773 ACCTCAAGAAAGT
259 ACCTCAAAAAAGT
74753786 TACTAAGTCA
Statistics
Matches: 247, Mismatches: 23, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
272 54 0.22
273 193 0.78
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (272 bp):
TGAGCACATACATCTTTTTGAAAATTTCCTCAAATGTTGATTACCAAGCAACTTTAGTTAAGATG
GATGCACAAAATTAAGATAACTTTAAAAAATGATAATGTGGCTTATAAGGTAGACCCATTGCAAT
AAACAGGCCTTGAAGCTCAAAATTACAGTTTCAAGGGTCTAATATCATAAGGTTGGCTCGAAAAG
GCTCAAACGATCCAAATAAATAGTGCCTATATCATTTTAGATTTTTATGTCTCCTAAGATTTCAC
CTCAAAAAAGTG
Found at i:74755744 original size:19 final size:19
Alignment explanation
Indices: 74755722--74755758 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
74755712 GGTGCGGCGA
74755722 CAACGACAGCGTGCGACAG
1 CAACGACAGCGTGCGACAG
*
74755741 CAACGACAGTGTGCGACA
1 CAACGACAGCGTGCGACA
74755759 ATGACAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.30, T:0.08
Consensus pattern (19 bp):
CAACGACAGCGTGCGACAG
Found at i:74767678 original size:46 final size:46
Alignment explanation
Indices: 74767611--74767934 Score: 443
Period size: 46 Copynumber: 7.0 Consensus size: 46
74767601 AAATCGATGT
* *
74767611 CCATGGCCACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
1 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
* *
74767657 CCATGGCAACCTGATATGAAATGTGTAAGACTATGGTTGAAAGATA
1 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
* *
74767703 CCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
1 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
* * *
74767749 CCATAGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATA
1 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
74767795 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
1 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
* *** *
74767841 CCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATA
1 CCATGGCAACCTGATATG-AAATGAGTAAGACCATGGTTGAAAGATA
* * * * **
74767888 CCATGGCAACATGACA-GAAAACGAGTAAAACCATAATTGAAAGATA
1 CCATGGCAACCTGATATG-AAATGAGTAAGACCATGGTTGAAAGATA
74767934 C
1 C
74767935 TATGACATCA
Statistics
Matches: 256, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 214 0.84
47 42 0.16
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
Found at i:74768722 original size:18 final size:18
Alignment explanation
Indices: 74768699--74768738 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
74768689 TATTTAGTAA
74768699 ACTCCGATAATGCCTCGC
1 ACTCCGATAATGCCTCGC
*
74768717 ACTCCGATAATGTCTCGC
1 ACTCCGATAATGCCTCGC
74768735 ACTC
1 ACTC
74768739 TATTCCGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.25
Consensus pattern (18 bp):
ACTCCGATAATGCCTCGC
Found at i:74771656 original size:17 final size:18
Alignment explanation
Indices: 74771634--74771671 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
74771624 AAAATATGAT
74771634 AATAAA-TTAAAAAAATA
1 AATAAATTTAAAAAAATA
*
74771651 AATAAATTTAAAAATATA
1 AATAAATTTAAAAAAATA
74771669 AAT
1 AAT
74771672 TTTTATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAAATTTAAAAAAATA
Found at i:74772947 original size:18 final size:19
Alignment explanation
Indices: 74772914--74772949 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
74772904 AACTTAAATG
74772914 TGGTCCAAAGAAATTAATA
1 TGGTCCAAAGAAATTAATA
74772933 TGGTCCAAA-AAATTAAT
1 TGGTCCAAAGAAATTAAT
74772950 TAGTATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (19 bp):
TGGTCCAAAGAAATTAATA
Found at i:74773186 original size:119 final size:118
Alignment explanation
Indices: 74772946--74773193 Score: 354
Period size: 119 Copynumber: 2.1 Consensus size: 118
74772936 TCCAAAAAAT
* * * * * *
74772946 TAATTAGTATATTCTTTAAATATTTTTAGTTTCAATATTTTAAATTAATTAGTGTAATTAATTTA
1 TAATTAGTACATTCTTTAAATATCTTTAGTTTCAACATCTTAAATTAATTAGTGCAATCAATTTA
* * *
74773011 GTCTAAAAAATTAGAGTCAATATCTTAAAAAACGAGAAAAGTTAATTTTGTTG
66 GTCAAAAAAATTAGAGTCAACATCTTAAAAAACGAGAAAAATTAATTTTGTTG
* *
74773064 TAATTAGTACATT-TTTCAAATATCTTTATTTTTAACATCTTAAATTAATTAGTGCAATCAATTT
1 TAATTAGTACATTCTTT-AAATATCTTTAGTTTCAACATCTTAAATTAATTAGTGCAATCAATTT
*
74773128 AGTCCAAAAAAATTAGAGTCAACATCTTAAAAAACGGGAAAAATTAATTTTGTTG
65 AGT-CAAAAAAATTAGAGTCAACATCTTAAAAAACGAGAAAAATTAATTTTGTTG
*
74773183 TAATTAATACA
1 TAATTAGTACA
74773194 ATAGATAAGT
Statistics
Matches: 115, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
117 3 0.03
118 55 0.48
119 57 0.50
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (118 bp):
TAATTAGTACATTCTTTAAATATCTTTAGTTTCAACATCTTAAATTAATTAGTGCAATCAATTTA
GTCAAAAAAATTAGAGTCAACATCTTAAAAAACGAGAAAAATTAATTTTGTTG
Found at i:74776586 original size:33 final size:33
Alignment explanation
Indices: 74776529--74776639 Score: 128
Period size: 33 Copynumber: 3.6 Consensus size: 33
74776519 AAATATGTTG
* *
74776529 AATAATAATACTT-AT-ATC-TTCAATAATAAT
1 AATAATAATATTTAATAATCATACAATAATAAT
74776559 AATAATAATATTTAATAATCATACAATAATAAT
1 AATAATAATATTTAATAATCATACAATAATAAT
* * *
74776592 ATTTATAATATTTAATAATAATACAATAAT-A-
1 AATAATAATATTTAATAATCATACAATAATAAT
74776623 AA-AAT-ATATTTAATAAT
1 AATAATAATATTTAATAAT
74776640 TAAATGAGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
29 12 0.17
30 14 0.20
31 3 0.04
32 4 0.06
33 38 0.54
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (33 bp):
AATAATAATATTTAATAATCATACAATAATAAT
Found at i:74776639 original size:3 final size:3
Alignment explanation
Indices: 74776550--74776628 Score: 54
Period size: 3 Copynumber: 26.3 Consensus size: 3
74776540 TTATATCTTC
* * * *
74776550 AAT AAT AAT AAT AAT AAT ATTT AAT AAT CAT -AC AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
74776595 TAT AAT ATTT AAT AAT AAT -AC AAT AAT AAA AAT A
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
74776629 TATTTAATAA
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
2 2 0.04
3 51 0.89
4 4 0.07
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:74779721 original size:5 final size:5
Alignment explanation
Indices: 74779713--74779759 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
74779703 GAGCAATACT
* *
74779713 GAACA GAACA GAACA GAACA -AAGCA GAGCA GAATA GAACA GAACA GA
1 GAACA GAACA GAACA GAACA GAA-CA GAACA GAACA GAACA GAACA GA
74779760 GCAAAACGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 2 0.06
5 33 0.92
6 1 0.03
ACGTcount: A:0.57, C:0.17, G:0.23, T:0.02
Consensus pattern (5 bp):
GAACA
Found at i:74781487 original size:26 final size:26
Alignment explanation
Indices: 74781458--74781514 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
74781448 CTGTTATATG
74781458 GCTCTTCATGAGCTTCCCGATTAAAA
1 GCTCTTCATGAGCTTCCCGATTAAAA
** * * *
74781484 GCTCTTTGTGTGCTTCCTGATTAATA
1 GCTCTTCATGAGCTTCCCGATTAAAA
74781510 GCTCT
1 GCTCT
74781515 CTAGAGCTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGATTAAAA
Found at i:74781693 original size:25 final size:25
Alignment explanation
Indices: 74781591--74781710 Score: 109
Period size: 25 Copynumber: 4.9 Consensus size: 25
74781581 TAACTCTTCG
*
74781591 GAGCTACCCGTTAT-TGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * **
74781615 GAGCTTCCTG-AATATGGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * * * **
74781639 GACCTTCCCGCTATATAGCCCGGAT
1 GAGCTTCCCGTTATATGGCTCACAT
* *
74781664 AAGCTTCCCGTTATATGTCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
74781689 GAGCTTCCCGTTATATGGCTCA
1 GAGCTTCCCGTTATATGGCTCA
74781711 AGAGAGGGCT
Statistics
Matches: 72, Mismatches: 22, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
23 2 0.03
24 24 0.33
25 46 0.64
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:74783433 original size:104 final size:104
Alignment explanation
Indices: 74783253--74783533 Score: 325
Period size: 104 Copynumber: 2.7 Consensus size: 104
74783243 GGGTGTTACA
* * * *
74783253 TGGACACATGCCCATGTCCTTGCCCGTGTGGCACACAC-AGCCTGGGCACATACCCATGTCCTTG
1 TGGACACATGCCCATGTCCTTGCCCATGTGGCTCACACGA-CCTGGGCACACACCCATGTCCTTA
* *
74783317 GCCATATGGTTCTAAAGCGTAAACAGT-AAGTTACACGGCT
65 GCCATATGGTTCTAAAGCATAAACAGTGAA-TTACACGGCC
* * *
74783357 TGGACACATGCTCATGTCCTTGCCCATGTGGCTCACACGACTTGGGCACACGCCCATG-CCTCTA
1 TGGACACATGCCCATGTCCTTGCCCATGTGGCTCACACGACCTGGGCACACACCCATGTCCT-TA
*** * *
74783421 GTTGTGTGGTTCTAAAGTATAAACAGTGAATTACACGGCC
65 GCCATATGGTTCTAAAGCATAAACAGTGAATTACACGGCC
* * * ** *
74783461 TGGACACACGCCCATGTCCTTGCCCATGTGGCTAACACGACCTGGGTACACATTCATGTCCCTAG
1 TGGACACATGCCCATGTCCTTGCCCATGTGGCTCACACGACCTGGGCACACACCCATGTCCTTAG
*
74783526 CCGTATGG
66 CCATATGG
74783534 CATCGACATT
Statistics
Matches: 147, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
103 3 0.02
104 139 0.95
105 5 0.03
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (104 bp):
TGGACACATGCCCATGTCCTTGCCCATGTGGCTCACACGACCTGGGCACACACCCATGTCCTTAG
CCATATGGTTCTAAAGCATAAACAGTGAATTACACGGCC
Found at i:74785214 original size:17 final size:17
Alignment explanation
Indices: 74785192--74785241 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
74785182 TTTTTTTTTC
74785192 TTTTTCCTTCT-TATCCA
1 TTTTTCCTTCTCT-TCCA
*
74785209 TTTTT-CTTCTCCTTCGA
1 TTTTTCCTTCT-CTTCCA
74785226 TTTTTCCTTCTCTTCC
1 TTTTTCCTTCTCTTCC
74785242 GTTTAACTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 5 0.18
17 17 0.61
18 6 0.21
ACGTcount: A:0.06, C:0.32, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTTCCTTCTCTTCCA
Found at i:74786276 original size:40 final size:40
Alignment explanation
Indices: 74786200--74786276 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
74786190 ACGGTACCTT
* *
74786200 TTGGTGTGTAGGATTGGAAGGGTTGATTATATCCCCATAC
1 TTGGTGTGTAGGATTGGAAGGGTCGATTATAACCCCATAC
* ** *
74786240 TTGGTGTGTAGGTTTGGGTGGGTCGATTCTAACCCCA
1 TTGGTGTGTAGGATTGGAAGGGTCGATTATAACCCCA
74786277 CATGGTGTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.18, C:0.14, G:0.32, T:0.35
Consensus pattern (40 bp):
TTGGTGTGTAGGATTGGAAGGGTCGATTATAACCCCATAC
Found at i:74792330 original size:16 final size:16
Alignment explanation
Indices: 74792291--74792336 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
74792281 GCTGAAATTC
*
74792291 TTTTCTT-TTATTTCT
1 TTTTCTTCTTCTTTCT
*
74792306 TTTTCCTTCTTCTTTGT
1 TTTT-CTTCTTCTTTCT
74792323 TTTTCTTC-TCTTTC
1 TTTTCTTCTTCTTTC
74792337 GATTTTCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 9 0.35
16 7 0.27
17 10 0.38
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTCTTCTTCTTTCT
Found at i:74793066 original size:33 final size:33
Alignment explanation
Indices: 74793023--74793088 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
74793013 CTGTAGGGGC
*
74793023 GATAAGTGTTACTTAAACTCCATACTCTGATTG
1 GATAAATGTTACTTAAACTCCATACTCTGATTG
74793056 GATAAATGTTACTTAAACTCCATACTCTGATTG
1 GATAAATGTTACTTAAACTCCATACTCTGATTG
74793089 ATTACTGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (33 bp):
GATAAATGTTACTTAAACTCCATACTCTGATTG
Found at i:74795392 original size:19 final size:20
Alignment explanation
Indices: 74795370--74795407 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
74795360 ATAAATATTT
*
74795370 TTAAAATAATA-ATAAAAAA
1 TTAAAAAAATATATAAAAAA
74795389 TTAAAAAAATATATAAAAA
1 TTAAAAAAATATATAAAAA
74795408 TAAATAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAAAAAAATATATAAAAAA
Found at i:74798216 original size:13 final size:13
Alignment explanation
Indices: 74798198--74798235 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
74798188 AGGTAAAAAA
74798198 TTATAAAATAAAT
1 TTATAAAATAAAT
*
74798211 TTATAAAAATTAAT
1 TTAT-AAAATAAAT
74798225 TTA-AAAATAAA
1 TTATAAAATAAA
74798236 ATAAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TTATAAAATAAAT
Found at i:74803036 original size:21 final size:21
Alignment explanation
Indices: 74803012--74803055 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
74803002 AAAAAATAAA
* * *
74803012 AATAAAAAATTATTAAATTTT
1 AATAAAAAAATATAAAATATT
74803033 AATAAAAAAATATAAAATATT
1 AATAAAAAAATATAAAATATT
74803054 AA
1 AA
74803056 AAATTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AATAAAAAAATATAAAATATT
Found at i:74803067 original size:28 final size:28
Alignment explanation
Indices: 74803009--74803095 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 28
74802999 GTTAAAAAAT
* **
74803009 AAAAATAAAAAATTATTAAATTTTA-ATAA
1 AAAAATATAAAA-TATTAAAAATTATA-AA
74803038 AAAAATATAAAATATTAAAAATTATAAA
1 AAAAATATAAAATATTAAAAATTATAAA
* * *
74803066 AAGATTATAAAA-ATCGTAAAAAATATAAA
1 AAAAATATAAAATAT--TAAAAATTATAAA
74803095 A
1 A
74803096 TTTTATAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.04
28 22 0.45
29 25 0.51
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAATATAAAATATTAAAAATTATAAA
Found at i:74803074 original size:11 final size:10
Alignment explanation
Indices: 74803013--74803106 Score: 54
Period size: 10 Copynumber: 9.7 Consensus size: 10
74803003 AAAAATAAAA
74803013 ATAAAAAATT
1 ATAAAAAATT
* **
74803023 ATTAAATTTT
1 ATAAAAAATT
74803033 AATAAAAAA--
1 -ATAAAAAATT
*
74803042 ATATAAAA-T
1 ATAAAAAATT
*
74803051 ATTAAAAATT
1 ATAAAAAATT
74803061 ATAAAAAGATT
1 ATAAAAA-ATT
*
74803072 AT-AAAAATC
1 ATAAAAAATT
*
74803081 GTAAAAAA-T
1 ATAAAAAATT
**
74803090 ATAAAATTTT
1 ATAAAAAATT
74803100 ATAAAAA
1 ATAAAAA
74803107 TCATACAAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
8 7 0.11
9 14 0.23
10 30 0.49
11 10 0.16
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:74803076 original size:38 final size:35
Alignment explanation
Indices: 74803002--74803078 Score: 84
Period size: 38 Copynumber: 2.1 Consensus size: 35
74802992 AAAAAAAGTT
* **
74803002 AAAAAATAAAAATAAAAAATTATTAAATTTTAATA
1 AAAAAATAAAAATAAAAAATTATAAAAGATTAATA
74803037 AAAAAATATAAAATATTAAAAATTATAAAAAGATT-ATA
1 AAAAAATA-AAAATA--AAAAATTAT-AAAAGATTAATA
74803075 AAAA
1 AAAA
74803079 TCGTAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 8 0.23
36 6 0.17
38 16 0.46
39 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (35 bp):
AAAAAATAAAAATAAAAAATTATAAAAGATTAATA
Found at i:74803094 original size:9 final size:9
Alignment explanation
Indices: 74803033--74803095 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
74803023 ATTAAATTTT
74803033 AATA-AAAA
1 AATATAAAA
74803041 AATATAAAA
1 AATATAAAA
*
74803050 TAT-TAAAA
1 AATATAAAA
*
74803058 ATTATAAAA
1 AATATAAAA
74803067 AGAT-TATAAA
1 A-ATATA-AAA
*
74803077 AATCGTAAAA
1 AAT-ATAAAA
74803087 AATATAAAA
1 AATATAAAA
74803096 TTTTATAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
8 10 0.23
9 21 0.48
10 11 0.25
11 2 0.05
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (9 bp):
AATATAAAA
Found at i:74803123 original size:22 final size:22
Alignment explanation
Indices: 74803098--74803141 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
74803088 ATATAAAATT
*
74803098 TTATAAAA-ATCATACAAAAAAA
1 TTATAAAATA-CATAAAAAAAAA
74803120 TTATAAAATACATAAAAAAAAA
1 TTATAAAATACATAAAAAAAAA
74803142 ACTCATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (22 bp):
TTATAAAATACATAAAAAAAAA
Found at i:74808299 original size:6 final size:7
Alignment explanation
Indices: 74808281--74808308 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
74808271 CTGGTCTTGG
74808281 ATTTTTT
1 ATTTTTT
74808288 ATTTTTT
1 ATTTTTT
74808295 ATTTTTT
1 ATTTTTT
74808302 ATTTTTT
1 ATTTTTT
74808309 TTGGGGTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
ATTTTTT
Found at i:74809322 original size:5 final size:5
Alignment explanation
Indices: 74809323--74809350 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
74809313 TTTAATTTAA
74809323 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
74809351 AAGTAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:74809414 original size:15 final size:16
Alignment explanation
Indices: 74809394--74809424 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
74809384 TAAAAATTAA
74809394 TATATATTT-TTTATT
1 TATATATTTATTTATT
74809409 TATATATTTATTTATT
1 TATATATTTATTTATT
74809425 AAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATATATTTATTTATT
Found at i:74811465 original size:10 final size:10
Alignment explanation
Indices: 74811445--74811498 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 10
74811435 TAGACTTAAC
*
74811445 TTTTAAATAA
1 TTTTTAATAA
*
74811455 TTTTTATTAA
1 TTTTTAATAA
74811465 -TTTTAAT-A
1 TTTTTAATAA
74811473 TTTTT-ATAA
1 TTTTTAATAA
*
74811482 ATTTTAATAA
1 TTTTTAATAA
74811492 TATTTTA
1 T-TTTTA
74811499 TAAAATTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.09
9 15 0.43
10 12 0.34
11 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:74811500 original size:20 final size:19
Alignment explanation
Indices: 74811445--74811502 Score: 82
Period size: 18 Copynumber: 3.0 Consensus size: 19
74811435 TAGACTTAAC
*
74811445 TTTTAAATAATTTTTATTAA
1 TTTT-AATAATTTTTATAAA
74811465 TTTTAAT-ATTTTTATAAA
1 TTTTAATAATTTTTATAAA
74811483 TTTTAATAATATTTTATAAA
1 TTTTAATAAT-TTTTATAAA
74811503 ATTATAGAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 17 0.49
19 5 0.14
20 13 0.37
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAATAATTTTTATAAA
Found at i:74813816 original size:13 final size:13
Alignment explanation
Indices: 74813780--74813817 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
74813770 TATTTAAGAA
74813780 ATAATAATTATAAT
1 ATAATAA-TATAAT
*
74813794 -TAAAAATATAAT
1 ATAATAATATAAT
74813806 ATAATAATATAA
1 ATAATAATATAA
74813818 AGTAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:74813856 original size:20 final size:20
Alignment explanation
Indices: 74813831--74813869 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
74813821 AAAATAAATA
74813831 AAAGAAATAATAA-AAAGAAT
1 AAAGAAATAA-AAGAAAGAAT
74813851 AAAGAAATAAAAGAAAGAA
1 AAAGAAATAAAAGAAAGAA
74813870 ACAGAACAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (20 bp):
AAAGAAATAAAAGAAAGAAT
Found at i:74821355 original size:13 final size:13
Alignment explanation
Indices: 74821319--74821356 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
74821309 TATTTAAGAA
74821319 ATAATAATTATAAT
1 ATAATAA-TATAAT
*
74821333 -TAAAAATATAAT
1 ATAATAATATAAT
74821345 ATAATAATATAA
1 ATAATAATATAA
74821357 AGTAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:74821395 original size:20 final size:20
Alignment explanation
Indices: 74821370--74821408 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
74821360 AAAATAAATA
74821370 AAAGAAATAATAA-AAAGAAT
1 AAAGAAATAA-AAGAAAGAAT
74821390 AAAGAAATAAAAGAAAGAA
1 AAAGAAATAAAAGAAAGAA
74821409 ACAGAATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (20 bp):
AAAGAAATAAAAGAAAGAAT
Found at i:74822361 original size:6 final size:6
Alignment explanation
Indices: 74822341--74822384 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
74822331 ATGAGGTACT
* *
74822341 CTGTGTA CTGCTA CTGTTA CTGTTA CTGTTA TTGTTA CTGTTA C
1 CTGT-TA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA C
74822385 AGTGTATTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 30 0.91
7 3 0.09
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (6 bp):
CTGTTA
Found at i:74824889 original size:38 final size:38
Alignment explanation
Indices: 74824847--74824964 Score: 121
Period size: 38 Copynumber: 3.1 Consensus size: 38
74824837 ATTGATGATT
* *
74824847 GCATGCCTATTGTTACTATTGAACTAAATACATGTTAA
1 GCATGTCTATTGTTACTATTGAACTGAATACATGTTAA
* * * *
74824885 GCATGTCTACTATTACTACTGAACTGGATACATGTTAA
1 GCATGTCTATTGTTACTATTGAACTGAATACATGTTAA
* * * * *
74824923 TCATGTTTATTGTTATTGTT-AAATCGAATACATGTTAA
1 GCATGTCTATTGTTACTATTGAACT-GAATACATGTTAA
74824961 GCAT
1 GCAT
74824965 ATTTACTGTT
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
37 3 0.05
38 60 0.95
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (38 bp):
GCATGTCTATTGTTACTATTGAACTGAATACATGTTAA
Done.