Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 162 of 198
Found at i:51047906 original size:21 final size:19
Alignment explanation
Indices: 51047791--51047910 Score: 94
Period size: 20 Copynumber: 6.4 Consensus size: 19
51047781 AAAGTATTTT
51047791 AAAAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATT-AA
**
51047811 AAAAAGTATTTTAAAAATATTTT
1 AAAAA-TATTTT--AAA-ATTAA
51047834 AAAAATATTTTAAAATTAA
1 AAAAATATTTTAAAATTAA
51047853 AAAAAGTA--TT----TT--
1 AAAAA-TATTTTAAAATTAA
51047865 AAAAATATTTTAAAATTAA
1 AAAAATATTTTAAAATTAA
*
51047884 AAAAATTATTTTAAAATTTA
1 AAAAA-TATTTTAAAATTAA
51047904 AAAAATA
1 AAAAATA
51047911 AATATATTTA
Statistics
Matches: 81, Mismatches: 5, Indels: 29
0.70 0.04 0.25
Matches are distributed among these distances:
11 2 0.02
12 5 0.06
13 2 0.02
14 2 0.02
17 2 0.02
18 2 0.02
19 15 0.19
20 28 0.35
21 6 0.07
22 6 0.07
23 8 0.10
24 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAATATTTTAAAATTAA
Found at i:51047915 original size:74 final size:74
Alignment explanation
Indices: 51047765--51047908 Score: 231
Period size: 74 Copynumber: 2.0 Consensus size: 74
51047755 ACCAAAAATT
51047765 TATTTTAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAGTATTTTAAAAATA
1 TATTTTAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAGTATTTTAAAAATA
**
51047830 TTTTAAAAA
66 TTAAAAAAA
* *
51047839 TATTTTAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATT-AAAAAAATTATTTT-AAAAT-
1 TATTTTAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAGTATTTTAAAAATA
51047901 TTAAAAAA
66 TTAAAAAA
51047909 TAAATATATT
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
71 6 0.09
72 5 0.08
73 13 0.20
74 42 0.64
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (74 bp):
TATTTTAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAGTATTTTAAAAATA
TTAAAAAAA
Found at i:51049233 original size:5 final size:5
Alignment explanation
Indices: 51049223--51049261 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
51049213 TTATTAAGTA
51049223 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
51049262 ACATAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:51049298 original size:21 final size:21
Alignment explanation
Indices: 51049266--51049374 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 21
51049256 ATTATAACAT
* *
51049266 AATAAAACAAAATAAATAAAG
1 AATAAAACAAAAGAAAGAAAG
51049287 AATAAATA-AAAAGAAAGAAAG
1 AATAAA-ACAAAAGAAAGAAAG
*
51049308 -ATAGAAACGAAACGAAACGAAACG
1 AATA-AAAC-AAAAGAAA-GAAA-G
51049332 AA-ACGAAACAGAAAGAAAGAAAG
1 AATA--AAACA-AAAGAAAGAAAG
51049355 AA-AAAA-AAAAGGAAAGAAAG
1 AATAAAACAAAA-GAAAGAAAG
51049375 GAAGGAGAAG
Statistics
Matches: 74, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
19 3 0.04
20 14 0.19
21 22 0.30
22 8 0.11
23 8 0.11
24 7 0.09
25 12 0.16
ACGTcount: A:0.72, C:0.06, G:0.17, T:0.06
Consensus pattern (21 bp):
AATAAAACAAAAGAAAGAAAG
Found at i:51049303 original size:4 final size:4
Alignment explanation
Indices: 51049296--51049408 Score: 77
Period size: 4 Copynumber: 26.0 Consensus size: 4
51049286 GAATAAATAA
*
51049296 AAAG AAAG AAAG ATAG AAACG AAACG AAACG AAACG AAACG AAACAG AAAG
1 AAAG AAAG AAAG AAAG AAA-G AAA-G AAA-G AAA-G AAA-G -AA-AG AAAG
* * *
51049347 AAAG AAAG AAA- AAAA AAAGG AAAG AAAGG AAGG AGAAG AAAG AAA- AAAA
1 AAAG AAAG AAAG AAAG AAA-G AAAG AAA-G AAAG A-AAG AAAG AAAG AAAG
51049396 AAAGG AAAG AAAG
1 AAA-G AAAG AAAG
51049409 GAAGGAGAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
3 6 0.06
4 49 0.52
5 35 0.37
6 3 0.03
7 1 0.01
ACGTcount: A:0.70, C:0.05, G:0.24, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:51049313 original size:8 final size:8
Alignment explanation
Indices: 51049296--51049408 Score: 77
Period size: 9 Copynumber: 13.0 Consensus size: 8
51049286 GAATAAATAA
51049296 AAAGAAAG
1 AAAGAAAG
*
51049304 AAAGATAG
1 AAAGAAAG
51049312 AAACGAAACG
1 AAA-GAAA-G
51049322 AAACGAAACG
1 AAA-GAAA-G
51049332 AAACGAAACAG
1 AAA-G-AA-AG
51049343 AAAGAAAG
1 AAAGAAAG
51049351 AAAGAAA-
1 AAAGAAAG
*
51049358 AAAAAAAGG
1 AAAGAAA-G
51049367 AAAGAAAGG
1 AAAGAAA-G
*
51049376 AAGGAGAAG
1 AAAGA-AAG
51049385 AAAGAAA-
1 AAAGAAAG
*
51049392 AAAAAAAGG
1 AAAGAAA-G
51049401 AAAGAAAG
1 AAAGAAAG
51049409 GAAGGAGAAA
Statistics
Matches: 88, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
7 12 0.14
8 22 0.25
9 28 0.32
10 19 0.22
11 6 0.07
12 1 0.01
ACGTcount: A:0.70, C:0.05, G:0.24, T:0.01
Consensus pattern (8 bp):
AAAGAAAG
Found at i:51049321 original size:5 final size:5
Alignment explanation
Indices: 51049311--51049357 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
51049301 AAGAAAGATA
51049311 GAAAC GAAAC GAAAC GAAAC GAAAC GAAAC AGAAA- GAAA- GAAA- GAAA
1 GAAAC GAAAC GAAAC GAAAC GAAAC GAAAC -GAAAC GAAAC GAAAC GAAA
51049358 AAAAAAAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 12 0.29
5 25 0.61
6 4 0.10
ACGTcount: A:0.66, C:0.13, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAC
Found at i:51049391 original size:34 final size:34
Alignment explanation
Indices: 51049348--51049417 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
51049338 AACAGAAAGA
51049348 AAGAAAGAAAAAAAAAAGGAAAGAAAGGAAGGAG
1 AAGAAAGAAAAAAAAAAGGAAAGAAAGGAAGGAG
51049382 AAGAAAGAAAAAAAAAAGGAAAGAAAGGAAGGAG
1 AAGAAAGAAAAAAAAAAGGAAAGAAAGGAAGGAG
51049416 AA
1 AA
51049418 AGCCACGGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (34 bp):
AAGAAAGAAAAAAAAAAGGAAAGAAAGGAAGGAG
Found at i:51050110 original size:24 final size:24
Alignment explanation
Indices: 51050083--51050129 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
51050073 ATTGAAATAG
51050083 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
51050107 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
51050130 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:51064389 original size:13 final size:13
Alignment explanation
Indices: 51064373--51064407 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
51064363 AATAAATATA
*
51064373 TATTTTTTATTTT
1 TATTTTTAATTTT
51064386 TATTTTTAATTTT
1 TATTTTTAATTTT
*
51064399 TAATTTTAA
1 TATTTTTAA
51064408 AATACTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTTTTAATTTT
Found at i:51064437 original size:11 final size:11
Alignment explanation
Indices: 51064423--51064447 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51064413 TTTAAAAAAA
51064423 TTTATTTTTAT
1 TTTATTTTTAT
51064434 TTTATTTTTAT
1 TTTATTTTTAT
51064445 TTT
1 TTT
51064448 TAAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:51070277 original size:41 final size:41
Alignment explanation
Indices: 51070220--51070307 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
51070210 CAACAAGTTT
** *
51070220 ACCAATTCAAGCTTACTTGGGCTCTAAGGAATCCATTCACA
1 ACCAATTCAAGCTTACTCAGACTCTAAGGAATCCATTCACA
*
51070261 ACCAATTCAAGCTTACTCAGACTCTAAGTAATCCATTCACA
1 ACCAATTCAAGCTTACTCAGACTCTAAGGAATCCATTCACA
51070302 AGCCAA
1 A-CCAA
51070308 AAGACTTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 38 0.90
42 4 0.10
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.25
Consensus pattern (41 bp):
ACCAATTCAAGCTTACTCAGACTCTAAGGAATCCATTCACA
Found at i:51071050 original size:36 final size:36
Alignment explanation
Indices: 51071005--51071095 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 36
51070995 ACATCGATAT
* *
51071005 TCCAACCGAAACACACCAGATGCTCATAAGAACTAA
1 TCCATCCGAAACACACCAGATGCTCATAAGAACCAA
* * * *
51071041 TTCATCCGAAACACAACAGATGCTCATACGAGCCAA
1 TCCATCCGAAACACACCAGATGCTCATAAGAACCAA
*
51071077 TCCATTCGATAACACACCA
1 TCCATCCGA-AACACACCA
51071096 ATGTCTTCGA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 37 0.82
37 8 0.18
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (36 bp):
TCCATCCGAAACACACCAGATGCTCATAAGAACCAA
Found at i:51081917 original size:21 final size:21
Alignment explanation
Indices: 51081880--51081948 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
51081870 CAAAACAGCA
*
51081880 GTTTCTCCCCTCATTCTTGCTG
1 GTTTCT-CCCTCGTTCTTGCTG
* * *
51081902 GTTTCTCCCTTGTTCTTGTTA
1 GTTTCTCCCTCGTTCTTGCTG
* *
51081923 GTTTGTCCCTCGTTTTTGCTG
1 GTTTCTCCCTCGTTCTTGCTG
51081944 GTTTC
1 GTTTC
51081949 CCCCCTCTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
21 31 0.84
22 6 0.16
ACGTcount: A:0.03, C:0.28, G:0.17, T:0.52
Consensus pattern (21 bp):
GTTTCTCCCTCGTTCTTGCTG
Found at i:51083346 original size:18 final size:18
Alignment explanation
Indices: 51083323--51083360 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
51083313 TTCAATTAAG
*
51083323 TCTTTCATT-AAGTGTTTT
1 TCTTTC-TTCAAGTATTTT
51083341 TCTTTCTTCAAGTATTTT
1 TCTTTCTTCAAGTATTTT
51083359 TC
1 TC
51083361 ATCTAGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (18 bp):
TCTTTCTTCAAGTATTTT
Found at i:51083408 original size:12 final size:12
Alignment explanation
Indices: 51083348--51083477 Score: 64
Period size: 12 Copynumber: 10.2 Consensus size: 12
51083338 TTTTCTTTCT
51083348 TCAAGTATTTTTCA
1 TCAAGT-TTTTT-A
*
51083362 TCTAGTTCTTTTA
1 TCAAGTT-TTTTA
51083375 TCAAGTTTTTAATTA
1 TCAAG-TTTT--TTA
*
51083390 CCAAGTTTTTTA
1 TCAAGTTTTTTA
**
51083402 TCAAGTTTTGCA
1 TCAAGTTTTTTA
* *
51083414 GCAAGTTCTTT-
1 TCAAGTTTTTTA
*
51083425 TCAAAGTTTTTCA
1 TC-AAGTTTTTTA
*
51083438 TCAAGTCTTTTCA
1 TCAAGT-TTTTTA
* * *
51083451 TAAAATTTTTCA
1 TCAAGTTTTTTA
* *
51083463 TCTAGTTTTTAA
1 TCAAGTTTTTTA
51083475 TCA
1 TCA
51083478 TTTCATTTTT
Statistics
Matches: 89, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
11 1 0.01
12 46 0.52
13 20 0.22
14 15 0.17
15 7 0.08
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (12 bp):
TCAAGTTTTTTA
Found at i:51083459 original size:25 final size:23
Alignment explanation
Indices: 51083415--51083472 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
51083405 AGTTTTGCAG
*
51083415 CAAGTTCTTTTCAAAGTTTTTCAT
1 CAAG-TCTTTTCAAAATTTTTCAT
51083439 CAAGTCTTTTCATAAAATTTTTCAT
1 CAAGTCTTTTC--AAAATTTTTCAT
*
51083464 CTAGT-TTTT
1 CAAGTCTTTT
51083473 AATCATTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 7 0.23
24 8 0.27
25 15 0.50
ACGTcount: A:0.26, C:0.16, G:0.07, T:0.52
Consensus pattern (23 bp):
CAAGTCTTTTCAAAATTTTTCAT
Found at i:51085734 original size:31 final size:32
Alignment explanation
Indices: 51085699--51085761 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
51085689 AGGAAAATTA
51085699 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
51085730 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
51085762 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:51091923 original size:31 final size:31
Alignment explanation
Indices: 51091888--51091949 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
51091878 AGGAAAATTA
51091888 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
51091919 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
51091950 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:51092544 original size:49 final size:49
Alignment explanation
Indices: 51092487--51092595 Score: 209
Period size: 49 Copynumber: 2.2 Consensus size: 49
51092477 AAATGGGAAT
51092487 GGGAAATGGGAGGAGGGCACCGGGTTTGGGACTTTGATCAGTGGAAGAG
1 GGGAAATGGGAGGAGGGCACCGGGTTTGGGACTTTGATCAGTGGAAGAG
*
51092536 GGGAAATGGGAGGAGGGCACCGGGTTTGGGACTTTGATCGGTGGAAGAG
1 GGGAAATGGGAGGAGGGCACCGGGTTTGGGACTTTGATCAGTGGAAGAG
51092585 GGGAAATGGGA
1 GGGAAATGGGA
51092596 ATGGGGAAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.25, C:0.09, G:0.49, T:0.17
Consensus pattern (49 bp):
GGGAAATGGGAGGAGGGCACCGGGTTTGGGACTTTGATCAGTGGAAGAG
Found at i:51092709 original size:31 final size:31
Alignment explanation
Indices: 51092616--51092826 Score: 381
Period size: 31 Copynumber: 6.9 Consensus size: 31
51092606 TGCACTGTAT
51092616 TAGTGTATTTTAAAAATAAAAAA-ATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATATG
*
51092646 TAGTGTATTTTAAAAATAAAAAA-AAATATG
1 TAGTGTATTTTAAAAATAAAAAATATATATG
*
51092676 TAGTGTATTTTAAAAATAAAAGATATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATATG
51092707 TAGTGTATTTTAAAAATAAAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATATG
51092738 TAGTGTATTTTAAAAATAAAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATATG
*
51092769 TAGTGTTTTTTAAAAATAAAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATATG
51092800 TAGTGTATTTTAAAAATAAAAAATATA
1 TAGTGTATTTTAAAAATAAAAAATATA
51092827 GTTTATATTC
Statistics
Matches: 174, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 51 0.29
31 123 0.71
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (31 bp):
TAGTGTATTTTAAAAATAAAAAATATATATG
Found at i:51098751 original size:21 final size:21
Alignment explanation
Indices: 51098725--51098777 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
51098715 TCATTATTTT
*
51098725 TAATCTCACCGCTACAATATC
1 TAATCTCACCGCTACAATAAC
* *
51098746 TAATCTCATCGCTACATTAAC
1 TAATCTCACCGCTACAATAAC
*
51098767 TAATCTTACCG
1 TAATCTCACCG
51098778 TTACTGTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (21 bp):
TAATCTCACCGCTACAATAAC
Found at i:51111486 original size:9 final size:10
Alignment explanation
Indices: 51111453--51111486 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
51111443 AAAGAAATTC
51111453 AAAAATTATA
1 AAAAATTATA
*
51111463 AAAAAATATA
1 AAAAATTATA
51111473 AAAAATTA-A
1 AAAAATTATA
51111482 AAAAA
1 AAAAA
51111487 AATCAATCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAATTATA
Found at i:51111561 original size:31 final size:31
Alignment explanation
Indices: 51111526--51111588 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
51111516 TTCTTAAATC
* *
51111526 TCTTTATACAACAATTTGCTCTTTCAACTAT
1 TCTTTATACAACAAATTACTCTTTCAACTAT
*
51111557 TCTTTATACAACAAATTACTGTTTCAACTAT
1 TCTTTATACAACAAATTACTCTTTCAACTAT
51111588 T
1 T
51111589 GCATTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44
Consensus pattern (31 bp):
TCTTTATACAACAAATTACTCTTTCAACTAT
Found at i:51112607 original size:35 final size:34
Alignment explanation
Indices: 51112534--51112609 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
51112524 TAGTTTCGGG
*
51112534 ATTTATCTATTTTTATAATTTAATGAATTTTTAAT
1 ATTTATCTATTTTTATAATTTAATAAATTTTT-AT
*
51112569 ATTTTTCTAATTTTT-TAATTTTAAATAAATTTTT-T
1 ATTTATCT-ATTTTTATAA-TTT-AATAAATTTTTAT
51112604 ATTTAT
1 ATTTAT
51112610 AATGTATAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
35 16 0.46
36 9 0.26
37 10 0.29
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (34 bp):
ATTTATCTATTTTTATAATTTAATAAATTTTTAT
Found at i:51119503 original size:23 final size:23
Alignment explanation
Indices: 51119476--51119597 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
51119466 AGTGTTATTG
* *
51119476 ATCAGTGGTAGCTTCGGCTTCGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51119499 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51119522 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51119545 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51119568 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
51119591 ATCAGTG
1 ATCAGTG
51119598 TTGCACTTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 89 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:51119531 original size:46 final size:46
Alignment explanation
Indices: 51119478--51119597 Score: 213
Period size: 46 Copynumber: 2.6 Consensus size: 46
51119468 TGTTATTGAT
* *
51119478 CAGTGGTAGCTTCGGCTTCGTTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
51119524 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
*
51119570 CAGTGGTAGCTTCGGCTACATATCAGTG
1 CAGTGGTAGCTTCGGCTACATTTCAGTG
51119598 TTGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.31
Consensus pattern (46 bp):
CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
Found at i:51127027 original size:23 final size:23
Alignment explanation
Indices: 51127000--51127118 Score: 193
Period size: 23 Copynumber: 5.2 Consensus size: 23
51126990 AGTGTTATTG
*
51127000 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51127023 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51127046 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51127069 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51127092 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
51127115 ATCA
1 ATCA
51127119 ATGTTGCACT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:51127055 original size:46 final size:46
Alignment explanation
Indices: 51127002--51127114 Score: 217
Period size: 46 Copynumber: 2.5 Consensus size: 46
51126992 TGTTATTGAT
*
51127002 CAGTGGTAGCTTCGGCTACGTTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
51127048 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
51127094 CAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACAT
51127115 ATCAATGTTG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.30
Consensus pattern (46 bp):
CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
Found at i:51129194 original size:54 final size:54
Alignment explanation
Indices: 51129091--51129195 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
51129081 GCTATGGCAA
* * * * *
51129091 GAAGACCATATAGTGTAAGACCTAATCTGGGACTATGGCGTTATATGGGGATAC
1 GAAGACCACATAGTGTAAGACCTAATCTAGGACTATGACATCATATGGGGATAC
* * * *
51129145 GAAGACCACATAGTGTAAGACTTATTCTAGGATTATGACATCATGTGGGGA
1 GAAGACCACATAGTGTAAGACCTAATCTAGGACTATGACATCATATGGGGA
51129196 AAAAGATAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (54 bp):
GAAGACCACATAGTGTAAGACCTAATCTAGGACTATGACATCATATGGGGATAC
Found at i:51132173 original size:34 final size:34
Alignment explanation
Indices: 51132135--51132235 Score: 184
Period size: 34 Copynumber: 3.0 Consensus size: 34
51132125 ATGTTATGAT
*
51132135 TTATATGTGTCAGAGATTGTGAGATTACATGGAA
1 TTATATGTGTCAGAGATTGTGAGGTTACATGGAA
51132169 TTATATGTGTCAGAGATTGTGAGGTTACATGGAA
1 TTATATGTGTCAGAGATTGTGAGGTTACATGGAA
*
51132203 TTATATGTGTTAGAGATTGTGAGGTTACATGGA
1 TTATATGTGTCAGAGATTGTGAGGTTACATGGA
51132236 GTTCTGACAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 65 1.00
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.37
Consensus pattern (34 bp):
TTATATGTGTCAGAGATTGTGAGGTTACATGGAA
Found at i:51137820 original size:5 final size:5
Alignment explanation
Indices: 51137805--51137834 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
51137795 CTATGACTAG
51137805 TTATAT TTATT TTATT TTATT TTATT TTAT
1 TTAT-T TTATT TTATT TTATT TTATT TTAT
51137835 GAGTTTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:51137959 original size:20 final size:20
Alignment explanation
Indices: 51137934--51138005 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
51137924 AAATTCATGG
51137934 TTATGATTTGGATATGAGTA
1 TTATGATTTGGATATGAGTA
* *
51137954 TTATGATTTTAGATGATTGGGTA
1 TTATGA-TTTGGAT-A-TGAGTA
*
51137977 TTATGATTTGGATTTGAGTA
1 TTATGATTTGGATATGAGTA
51137997 TTATGATTT
1 TTATGATTT
51138006 TAGATTCGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 20 0.45
21 6 0.14
22 7 0.16
23 11 0.25
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (20 bp):
TTATGATTTGGATATGAGTA
Found at i:51138701 original size:53 final size:53
Alignment explanation
Indices: 51138621--51138727 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
51138611 CTTTGTATAG
51138621 AACAAGGGTCATGTCGCGACGTAGGTTCCTCAACATCGTGACGAGGGTTGGAA
1 AACAAGGGTCATGTCGCGACGTAGGTTCCTCAACATCGTGACGAGGGTTGGAA
51138674 AACAAGGGTCATGTCGCGACGTAGGTTCCTCAACATCGTGACGAGGGTTGGAA
1 AACAAGGGTCATGTCGCGACGTAGGTTCCTCAACATCGTGACGAGGGTTGGAA
51138727 A
1 A
51138728 GAGAGTCACA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.21
Consensus pattern (53 bp):
AACAAGGGTCATGTCGCGACGTAGGTTCCTCAACATCGTGACGAGGGTTGGAA
Found at i:51149222 original size:16 final size:18
Alignment explanation
Indices: 51149203--51149235 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
51149193 GGTTATTATT
51149203 ATTT-TAAAAA-ATATAA
1 ATTTATAAAAATATATAA
51149219 ATTTATAAAAATATATA
1 ATTTATAAAAATATATA
51149236 TAAATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTTATAAAAATATATAA
Found at i:51151208 original size:9 final size:9
Alignment explanation
Indices: 51151179--51151223 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
51151169 TTAAGATATA
*
51151179 TATAAATAT
1 TATAATTAT
51151188 TAT-ATGTA-
1 TATAAT-TAT
51151196 TATAATTAT
1 TATAATTAT
51151205 TATAATTAT
1 TATAATTAT
51151214 TATAATTAT
1 TATAATTAT
51151223 T
1 T
51151224 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Found at i:51154033 original size:15 final size:15
Alignment explanation
Indices: 51154013--51154044 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51154003 GTTATCCGAA
51154013 GCTTCCTGATTATGT
1 GCTTCCTGATTATGT
51154028 GCTTCCTGATTATGT
1 GCTTCCTGATTATGT
51154043 GC
1 GC
51154045 CCTAATGGGT
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:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (15 bp):
GCTTCCTGATTATGT
Found at i:51159147 original size:17 final size:16
Alignment explanation
Indices: 51159106--51159147 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
51159096 CTCTCCCACC
51159106 ACTAAAATAAAAATAA
1 ACTAAAATAAAAATAA
51159122 ACTAGAAATAAAATGATAA
1 ACTA-AAATAAAA--ATAA
51159141 AC-AAAAT
1 ACTAAAAT
51159148 CTTCTATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 12 0.52
18 1 0.04
19 6 0.26
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.19
Consensus pattern (16 bp):
ACTAAAATAAAAATAA
Found at i:51164376 original size:49 final size:49
Alignment explanation
Indices: 51164296--51164392 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
51164286 TTATGCTATG
* * * *
51164296 CATTTCTAAACTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTCCCACTGTCTACACTCTTATCACTATTTATA
*
51164345 CATTGCTAAATTTAGTCTCCCACTGTCTACACTCTTATCACTATTTAT
1 CATTGCTAAACTTAGTCTCCCACTGTCTACACTCTTATCACTATTTAT
51164393 CCCTTCTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.25, C:0.26, G:0.06, T:0.43
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTCCCACTGTCTACACTCTTATCACTATTTATA
Found at i:51166489 original size:19 final size:18
Alignment explanation
Indices: 51166449--51166489 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
51166439 AATATTACAC
*
51166449 ATTTCAACTTCACATTAA
1 ATTTCAACTTCACACTAA
*
51166467 ATTTCAACTTTCACACTAT
1 ATTTCAAC-TTCACACTAA
51166486 ATTT
1 ATTT
51166490 TGCTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTCAACTTCACACTAA
Found at i:51172206 original size:50 final size:50
Alignment explanation
Indices: 51172138--51172283 Score: 186
Period size: 50 Copynumber: 2.9 Consensus size: 50
51172128 TTTTCTGTAC
* * **
51172138 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
51172188 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
51172238 TGCCAACT-CCATGTCTCAGACATGGTCTTACATGAGACCTCTCATA
1 TGCCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
51172284 ATCTCAATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 80 0.99
51 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:51175378 original size:21 final size:22
Alignment explanation
Indices: 51175337--51175378 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
51175327 AAATAAATAA
* *
51175337 TTTTTAAACATCAATATTTATT
1 TTTTTAAACAACAATAATTATT
51175359 TTTTTAAACAAC-ATAATTAT
1 TTTTTAAACAACAATAATTAT
51175379 AATTAGAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTTAAACAACAATAATTATT
Found at i:51175730 original size:19 final size:20
Alignment explanation
Indices: 51175696--51175733 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
51175686 ATAGAGGTAA
51175696 TAAAGTGTACATAATAATAT
1 TAAAGTGTACATAATAATAT
*
51175716 TAAAGTGT-GATAATAATA
1 TAAAGTGTACATAATAATA
51175734 ATAATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.34
Consensus pattern (20 bp):
TAAAGTGTACATAATAATAT
Found at i:51185850 original size:27 final size:29
Alignment explanation
Indices: 51185820--51186015 Score: 78
Period size: 29 Copynumber: 6.7 Consensus size: 29
51185810 ATATTTTAAC
*
51185820 ATAATTATTATTAAATATAA-T-TTAATA
1 ATAATTATTATTAAATAAAATTCTTAATA
* *
51185847 ATAATATATAATTTAATAAAATTCTTAATA
1 ATAAT-TATTATTAAATAAAATTCTTAATA
* * * * * * *
51185877 ATAAATATTCTTATATGAATTTACTAAAATC
1 ATAATTATTATTAAATAAAATT-CT-TAATA
* *** *
51185908 ATAATATATAATCCTATAAAATATAATTTAA-A
1 ATAAT-TATTATTAAATAAAAT-T--CTTAATA
*
51185940 ATAATTATTATTAAAT-ATATT-TTAATA
1 ATAATTATTATTAAATAAAATTCTTAATA
* * *
51185967 AAAATATATAATTTAATAAAATTCTTAATA
1 ATAAT-TATTATTAAATAAAATTCTTAATA
* * * *
51185997 TTAAATATTCTTATATAAA
1 ATAATTATTATTAAATAAA
51186016 TTTACTAAAA
Statistics
Matches: 119, Mismatches: 38, Indels: 22
0.66 0.21 0.12
Matches are distributed among these distances:
26 4 0.03
27 10 0.08
28 21 0.18
29 27 0.23
30 23 0.19
31 14 0.12
32 15 0.13
33 3 0.03
34 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (29 bp):
ATAATTATTATTAAATAAAATTCTTAATA
Found at i:51185878 original size:15 final size:16
Alignment explanation
Indices: 51185860--51185889 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51185850 ATATATAATT
51185860 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
51185875 TAATAAATATTCTTA
1 TAATAAATATTCTTA
51185890 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:51185917 original size:61 final size:60
Alignment explanation
Indices: 51185847--51186154 Score: 259
Period size: 61 Copynumber: 5.1 Consensus size: 60
51185837 TAATTTAATA
51185847 ATAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATC
1 ATAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATAT-AATTTACTAAAATC
* * * * *
51185908 ATAATATATAATCCT-ATAAAATATAATTTAA-AATAATTATTATTAAATATATTT--TAATAA-
1 ATAATATATAAT-TTAATAAAAT-T--CTTAATAATAAATATTCTTATATA-ATTTACTAA-AAT
51185968 -
60 C
*
51185968 A-AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAAAATC
1 ATAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATAT-AATTTACTAAAATC
* * * *
51186028 ATAATATATAATCCTGTAA-AATATAAT-TTAA-AATAATTATTATTAAATATATTT--TAATAA
1 ATAATATATAAT--T-TAATAA-A-ATTCTTAATAATAAATATTCTTATATA-ATTTACTAA-AA
51186088 --
59 TC
* *
51186088 A-AATATATAATTTAATAAAATTTTTAATATTAAATATTCTTATATGAATTTACTAAAATC
1 ATAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATAT-AATTTACTAAAATC
51186148 ATAATAT
1 ATAATAT
51186155 TTTATATGAA
Statistics
Matches: 196, Mismatches: 21, Indels: 60
0.71 0.08 0.22
Matches are distributed among these distances:
55 2 0.01
56 12 0.06
57 37 0.19
58 8 0.04
59 33 0.17
60 4 0.02
61 40 0.20
62 8 0.04
63 38 0.19
64 12 0.06
65 2 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.44
Consensus pattern (60 bp):
ATAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATAATTTACTAAAATC
Found at i:51185938 original size:120 final size:120
Alignment explanation
Indices: 51185814--51186154 Score: 619
Period size: 120 Copynumber: 2.8 Consensus size: 120
51185804 TTAATCATAT
* * * *
51185814 TTTAACATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
51185879 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATCCTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATCCTATAAAATATAA
51185934 TTTAAAATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
51185999 AAATATTCTTATATAAATTTACTAAAATCATAATATATAATCCTGTAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATCCTATAAAATATAA
*
51186054 TTTAAAATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTTTTAATATT
1 TTTAAAATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
51186119 AAATATTCTTATATGAATTTACTAAAATCATAATAT
66 AAATATTCTTATATGAATTTACTAAAATCATAATAT
51186155 TTTATATGAA
Statistics
Matches: 213, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 213 1.00
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATCCTATAAAATATAA
Found at i:51185973 original size:16 final size:17
Alignment explanation
Indices: 51185952--51185987 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
51185942 AATTATTATT
51185952 AAATATAT-TTTAATAA
1 AAATATATATTTAATAA
51185968 AAATATATAATTTAATAA
1 AAATATAT-ATTTAATAA
51185986 AA
1 AA
51185988 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATATATTTAATAA
Found at i:51186013 original size:37 final size:37
Alignment explanation
Indices: 51185971--51186155 Score: 99
Period size: 37 Copynumber: 4.8 Consensus size: 37
51185961 TTAATAAAAA
51185971 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
* * * *
51186008 TATATAAATTTACTAAAA-TCATAATA-TATA-ATCCT
1 TATAT-AATTTAATAAAATTCTTAATATTAAATATTCT
* * * ****
51186043 GTAAAATATAATTTAAAATAATTATTATTAAATATATTTTAATAAAAA
1 -T---ATATAATTT--AATAA-AATTCTT--A-ATA-TTAAATATTCT
*
51186091 TATATAATTTAATAAAATTTTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
* *
51186128 TATATGAATTTACTAAAA-TCATAATATT
1 TATAT-AATTTAATAAAATTCTTAATATT
51186156 TTATATGAAT
Statistics
Matches: 108, Mismatches: 24, Indels: 32
0.66 0.15 0.20
Matches are distributed among these distances:
35 4 0.04
36 4 0.04
37 31 0.29
38 30 0.28
39 5 0.05
40 4 0.04
41 6 0.06
42 7 0.06
44 10 0.09
45 3 0.03
47 3 0.03
48 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTCT
Found at i:51186093 original size:16 final size:17
Alignment explanation
Indices: 51186072--51186107 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
51186062 AATTATTATT
51186072 AAATATAT-TTTAATAA
1 AAATATATATTTAATAA
51186088 AAATATATAATTTAATAA
1 AAATATAT-ATTTAATAA
51186106 AA
1 AA
51186108 TTTTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATATATTTAATAA
Found at i:51192311 original size:98 final size:99
Alignment explanation
Indices: 51192193--51192483 Score: 362
Period size: 98 Copynumber: 2.9 Consensus size: 99
51192183 AAAAATATTT
*
51192193 TTATAGTTATTTTGTAAGTAATTTATGATTAGTTTATAAATTGTTAGTG-T-TTT-GTGTTTTGT
1 TTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTATTTAGTGTTTTGT
* **
51192255 GATTTATTAGTAATGTAAATTCTTTTTTAAAAAATG
66 GATTTTTTAGTAATGTAAA--CTTTTTTAAAAAAAA
* * *
51192291 TTATAGTTATTTTGTTAGTAATTTGTGATTAATTTATAAATTGTTAGTGTTTAGTTTAGGGTTTT
1 TTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTG-TTA-TTTAGTGTTTT
*
51192356 GTGATTTTTTAGTAATGT-AA---TTTAAAAAAAAA
64 GTGATTTTTTAGTAATGTAAACTTTTTTAAAAAAAA
* *
51192388 TTATAATTTTTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTT
1 TTATAGTTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTG-TTA-TTTAGTGTT
*
51192453 TTGTGATTTTTTATTAATGTAAACTTTTTTA
62 TTGTGATTTTTTAGTAATGTAAACTTTTTTA
51192484 TAATGTGATT
Statistics
Matches: 167, Mismatches: 15, Indels: 17
0.84 0.08 0.09
Matches are distributed among these distances:
97 37 0.22
98 48 0.29
99 47 0.28
100 3 0.02
102 5 0.03
103 27 0.16
ACGTcount: A:0.29, C:0.01, G:0.15, T:0.55
Consensus pattern (99 bp):
TTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTATTTAGTGTTTTGT
GATTTTTTAGTAATGTAAACTTTTTTAAAAAAAA
Found at i:51192454 original size:99 final size:98
Alignment explanation
Indices: 51192193--51192474 Score: 360
Period size: 99 Copynumber: 2.9 Consensus size: 98
51192183 AAAAATATTT
*
51192193 TTATAGTTATTTTGTAAGTAATTTATGATTAGTTTATAAATTGTTAGTG--T--TTT-GTGTTTT
1 TTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGTGTTTT
* * **
51192253 GTGATTTATTAGTAATGTAAATTCTTTTTTAAAAAATG
66 GTGATTTTTTAGTAATGT-AA----TTTTAAAAAAAAA
* * *
51192291 TTATAGTTATTTTGTTAGTAATTTGTGATTAATTTATAAATTGTTAGTGTTTAGTTTAGGGTTTT
1 TTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGTGTTTT
51192356 GTGATTTTTTAGTAATGTAA-TTTAAAAAAAAA
66 GTGATTTTTTAGTAATGTAATTTTAAAAAAAAA
* *
51192388 TTATAATTTTTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTT
1 TTATAGTTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAGTTTAGTGTT
*
51192453 TTGTGATTTTTTATTAATGTAA
64 TTGTGATTTTTTAGTAATGTAA
51192475 ACTTTTTTAT
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
97 37 0.23
98 48 0.29
99 49 0.30
100 1 0.01
102 5 0.03
103 23 0.14
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.54
Consensus pattern (98 bp):
TTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGTGTTTT
GTGATTTTTTAGTAATGTAATTTTAAAAAAAAA
Found at i:51192585 original size:27 final size:27
Alignment explanation
Indices: 51192528--51192585 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
51192518 TCATAGGAGT
* * * *
51192528 CACCAGTGGCGCCTATCAGATGGGAGT
1 CACCAGTGGCGCCTACCAAATGGCAGC
51192555 CACCAGTGGCGCCTACCAAATAGGCA-C
1 CACCAGTGGCGCCTACCAAAT-GGCAGC
51192582 CACC
1 CACC
51192586 TATCCCATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.14
Consensus pattern (27 bp):
CACCAGTGGCGCCTACCAAATGGCAGC
Found at i:51192702 original size:13 final size:13
Alignment explanation
Indices: 51192679--51192713 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
51192669 TGCGCCACCA
*
51192679 ATAAAATAATATT
1 ATAAAAAAATATT
*
51192692 TTAAAAAAATATT
1 ATAAAAAAATATT
51192705 ATAAAAAAA
1 ATAAAAAAA
51192714 GGTGGTGGCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAAAAAATATT
Found at i:51198854 original size:43 final size:43
Alignment explanation
Indices: 51198788--51198880 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
51198778 TAATATATAT
*
51198788 TTACTAAACCAAAAAATATGTATATTTAGCTTTTTAGACTAAA
1 TTACCAAACCAAAAAATATGTATATTTAGCTTTTTAGACTAAA
51198831 TTACCAAACCAAAAAATATGTATATTTAGCTTTTTAGACTAAA
1 TTACCAAACCAAAAAATATGTATATTTAGCTTTTTAGACTAAA
51198874 TTACCAA
1 TTACCAA
51198881 GTAAAGTCGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.35
Consensus pattern (43 bp):
TTACCAAACCAAAAAATATGTATATTTAGCTTTTTAGACTAAA
Found at i:51199235 original size:29 final size:30
Alignment explanation
Indices: 51199194--51199261 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
51199184 CGGTGTACTG
* *
51199194 AAAAATATTTTTGACGAGAT-AGGTTCT-GA
1 AAAAATATCTTTGACGAGATGA-GTTCTAAA
51199223 AAAAATATCTTTGACGAGATGAGTTCTAAA
1 AAAAATATCTTTGACGAGATGAGTTCTAAA
51199253 AAAAATATC
1 AAAAATATC
51199262 CCAGGAATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 24 0.69
30 11 0.31
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (30 bp):
AAAAATATCTTTGACGAGATGAGTTCTAAA
Found at i:51202393 original size:168 final size:167
Alignment explanation
Indices: 51202115--51202451 Score: 566
Period size: 168 Copynumber: 2.0 Consensus size: 167
51202105 TTAAGGCCTA
* * * *
51202115 GAATATTTGGATAGATTATTTATTGAGAAAATTAGTTTATTTGATAGATTAACTAATTAAGGGAT
1 GAATATTTGGATAGATTAGTGATTGAGAAAATTAGTTAATTTGATAGATTAACTAATTAAAGGAT
*
51202180 TAAATTGTAAAAATTGCAAAAGTTTGGGGTAATTGCATAAATTCAAAAAATAAAAGGGTATTAAT
66 TAAATTGCAAAAATTGCAAAAGTTTGGGGTAATTGCATAAATTC-AAAAATAAAAGGGTATTAAT
*
51202245 TGTAAAATGAATTGGAAATGAAATATATGCTAATAAAT
130 TGTAAAATGAATTAGAAATGAAATATATGCTAATAAAT
*
51202283 GAATATTTGGATAGATTAGTGATTGAGGAAATTAGTTAATTTGATAGATTAACTAATTAAAGGAT
1 GAATATTTGGATAGATTAGTGATTGAGAAAATTAGTTAATTTGATAGATTAACTAATTAAAGGAT
* **
51202348 TAAATTGCCAAAATTGCAAAAGTTTGGGGTAATTGTGTAAATTCAAAAATAAAAGGGTATTAATT
66 TAAATTGCAAAAATTGCAAAAGTTTGGGGTAATTGCATAAATTCAAAAATAAAAGGGTATTAATT
*
51202413 GTATAATGAATTAGAAATGAAATATATGCTAATAAAT
131 GTAAAATGAATTAGAAATGAAATATATGCTAATAAAT
51202450 GA
1 GA
51202452 GTAATTTTTA
Statistics
Matches: 158, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
167 58 0.37
168 100 0.63
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.34
Consensus pattern (167 bp):
GAATATTTGGATAGATTAGTGATTGAGAAAATTAGTTAATTTGATAGATTAACTAATTAAAGGAT
TAAATTGCAAAAATTGCAAAAGTTTGGGGTAATTGCATAAATTCAAAAATAAAAGGGTATTAATT
GTAAAATGAATTAGAAATGAAATATATGCTAATAAAT
Found at i:51207349 original size:41 final size:41
Alignment explanation
Indices: 51207292--51207400 Score: 191
Period size: 41 Copynumber: 2.6 Consensus size: 41
51207282 GACTATACGT
*
51207292 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
51207333 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
51207374 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
51207401 TTAAATTAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 60 0.92
42 5 0.08
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:51208964 original size:31 final size:31
Alignment explanation
Indices: 51208905--51208968 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
51208895 AAAGAGAGAG
**
51208905 TTTGAGAGATTTTTGAGAGTGGATTGAGAAA
1 TTTGAGAGATTTTTGAGAGTAAATTGAGAAA
51208936 TTTGAGAGATTTTTGAGAG-AAATGTGAGAAA
1 TTTGAGAGATTTTTGAGAGTAAAT-TGAGAAA
51208967 TT
1 TT
51208969 AGTAGGTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.34, C:0.00, G:0.30, T:0.36
Consensus pattern (31 bp):
TTTGAGAGATTTTTGAGAGTAAATTGAGAAA
Found at i:51210548 original size:15 final size:15
Alignment explanation
Indices: 51210530--51210562 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
51210520 ACCACCGGCA
51210530 CCTCCACCTATGACG
1 CCTCCACCTATGACG
*
51210545 CCTCCATCTATGACG
1 CCTCCACCTATGACG
51210560 CCT
1 CCT
51210563 AATTCAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.45, G:0.12, T:0.24
Consensus pattern (15 bp):
CCTCCACCTATGACG
Found at i:51220044 original size:14 final size:14
Alignment explanation
Indices: 51220025--51220073 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
51220015 AAAAAATTAT
51220025 TTAAAATATTTAAA
1 TTAAAATATTTAAA
*
51220039 TTAAAA-AATTAAA
1 TTAAAATATTTAAA
51220052 TTTAAAAATATTTAAA
1 -TT-AAAATATTTAAA
*
51220068 ATAAAA
1 TTAAAA
51220074 AATAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 6 0.21
14 12 0.41
15 5 0.17
16 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAAATATTTAAA
Found at i:51220067 original size:29 final size:26
Alignment explanation
Indices: 51219989--51220076 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 26
51219979 ATTAAATACC
***
51219989 AAAAATTATTTAAAATTAAACAAAATA
1 AAAAATTATTTAAAA-TATTTAAAATA
*
51220016 AAAAATTATTTAAAATATTTAAATTA
1 AAAAATTATTTAAAATATTTAAAATA
51220042 AAAAATTAAATTTAAAAATATTTAAAATA
1 AAAAATT--ATTT-AAAATATTTAAAATA
51220071 AAAAAT
1 AAAAAT
51220077 AAAAAAAGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 14 0.26
27 15 0.28
28 4 0.08
29 20 0.38
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAAATTATTTAAAATATTTAAAATA
Found at i:51220114 original size:25 final size:22
Alignment explanation
Indices: 51220054--51220115 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 22
51220044 AAATTAAATT
*
51220054 TAAAAATATTTAAAATAAAAAA
1 TAAAAAAATTTAAAATAAAAAA
51220076 TAAAAAAAGTATTTAAAATTTAAAAAAA
1 T-AAAAAA--ATTTAAAA--T-AAAAAA
51220104 TAAAAAAATTTA
1 TAAAAAAATTTA
51220116 TTATATTCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
22 1 0.03
23 5 0.15
25 13 0.39
27 7 0.21
28 7 0.21
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAAAAATTTAAAATAAAAAA
Found at i:51220693 original size:9 final size:9
Alignment explanation
Indices: 51220676--51220706 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
51220666 TCGAGTTGAT
51220676 TCGAATAAC
1 TCGAATAAC
*
51220685 TCGATTAAC
1 TCGAATAAC
51220694 TCGAATAAC
1 TCGAATAAC
51220703 TCGA
1 TCGA
51220707 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:51225733 original size:23 final size:23
Alignment explanation
Indices: 51225707--51225754 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
51225697 TCTGTGTCAA
51225707 CCTAGTTCTCCTAGATCGACTAT
1 CCTAGTTCTCCTAGATCGACTAT
51225730 CCTAGTTCTCCTAGATCGACTAT
1 CCTAGTTCTCCTAGATCGACTAT
51225753 CC
1 CC
51225755 AGTGATGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (23 bp):
CCTAGTTCTCCTAGATCGACTAT
Found at i:51227030 original size:6 final size:6
Alignment explanation
Indices: 51227019--51227044 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51227009 ACCTAGCAAG
51227019 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
51227045 TTAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:51228940 original size:24 final size:22
Alignment explanation
Indices: 51228911--51228962 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
51228901 ATGCAATATT
51228911 AGATATGATATGCAATCTTAG-
1 AGATATGATATGCAATCTTAGA
*
51228932 ATATGAT-ATATGCAATCTTAGA
1 AGAT-ATGATATGCAATCTTAGA
51228954 AGATATGAT
1 AGATATGAT
51228963 TTTGTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:51228944 original size:21 final size:19
Alignment explanation
Indices: 51228898--51228953 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 19
51228888 AATTTTCGAG
*
51228898 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
51228917 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51228936 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
51228954 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:51229104 original size:12 final size:11
Alignment explanation
Indices: 51229084--51229117 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
51229074 TTTATTGTAC
51229084 AAAAAAAAAGA
1 AAAAAAAAAGA
51229095 AAAAAGAAAAGA
1 AAAAA-AAAAGA
51229107 ATAAAAAAAAG
1 A-AAAAAAAAG
51229118 GGAGAACGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 12 0.57
13 4 0.19
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:51229185 original size:19 final size:21
Alignment explanation
Indices: 51229161--51229199 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
51229151 ACTGTTTTCT
*
51229161 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
51229180 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
51229200 TTAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:51229430 original size:3 final size:3
Alignment explanation
Indices: 51229424--51229463 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
51229414 AATTTTGTTG
*
51229424 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
51229464 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:51229553 original size:29 final size:31
Alignment explanation
Indices: 51229491--51229553 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
51229481 CATATGCATG
* **
51229491 TTAATATATATACATATATATTTTAAATGTT
1 TTAATATATATACATATATATTATAAATACT
*
51229522 TTAATATATATACATAT-TA-TATACATACT
1 TTAATATATATACATATATATTATAAATACT
51229551 TTA
1 TTA
51229554 TTATTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 9 0.32
30 2 0.07
31 17 0.61
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (31 bp):
TTAATATATATACATATATATTATAAATACT
Found at i:51230744 original size:22 final size:22
Alignment explanation
Indices: 51230719--51230763 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
51230709 TAGACCAAAG
51230719 CCGTTTTTTTAGGTGATCCAAT
1 CCGTTTTTTTAGGTGATCCAAT
51230741 CCGTTTTTTTAGGTGATCCAAT
1 CCGTTTTTTTAGGTGATCCAAT
51230763 C
1 C
51230764 ACACCTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (22 bp):
CCGTTTTTTTAGGTGATCCAAT
Found at i:51234952 original size:15 final size:16
Alignment explanation
Indices: 51234929--51234975 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 16
51234919 AAAAAAAATG
51234929 ATGACAAAATGAAAAAA
1 ATGA-AAAATGAAAAAA
51234946 ATGAAAAAGTG--AAAA
1 ATGAAAAA-TGAAAAAA
51234961 ATGAAAAATGAAAAA
1 ATGAAAAATGAAAAA
51234976 TGAAAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 2 0.07
15 12 0.44
16 7 0.26
17 6 0.22
ACGTcount: A:0.70, C:0.02, G:0.15, T:0.13
Consensus pattern (16 bp):
ATGAAAAATGAAAAAA
Found at i:51234961 original size:9 final size:8
Alignment explanation
Indices: 51234929--51234982 Score: 60
Period size: 7 Copynumber: 7.0 Consensus size: 8
51234919 AAAAAAAATG
*
51234929 ATGACAAA
1 ATGAAAAA
51234937 ATGAAAAAA
1 ATG-AAAAA
51234946 ATGAAAAA
1 ATGAAAAA
*
51234954 GTG-AAAA
1 ATGAAAAA
51234961 ATG-AAAA
1 ATGAAAAA
51234968 ATG-AAAA
1 ATGAAAAA
51234975 ATGAAAAA
1 ATGAAAAA
51234983 GTAAAATGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
7 20 0.49
8 14 0.34
9 7 0.17
ACGTcount: A:0.70, C:0.02, G:0.15, T:0.13
Consensus pattern (8 bp):
ATGAAAAA
Found at i:51234988 original size:7 final size:7
Alignment explanation
Indices: 51234942--51234982 Score: 73
Period size: 7 Copynumber: 5.7 Consensus size: 7
51234932 ACAAAATGAA
51234942 AAAAATG
1 AAAAATG
51234949 AAAAAGTG
1 AAAAA-TG
51234957 AAAAATG
1 AAAAATG
51234964 AAAAATG
1 AAAAATG
51234971 AAAAATG
1 AAAAATG
51234978 AAAAA
1 AAAAA
51234983 GTAAAATGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:51234988 original size:14 final size:15
Alignment explanation
Indices: 51234942--51234988 Score: 80
Period size: 14 Copynumber: 3.3 Consensus size: 15
51234932 ACAAAATGAA
51234942 AAAAATGAAAAAGTG
1 AAAAATGAAAAAGTG
51234957 AAAAATGAAAAA-TG
1 AAAAATGAAAAAGTG
51234971 AAAAATGAAAAAGT-
1 AAAAATGAAAAAGTG
51234985 AAAA
1 AAAA
51234989 TGGAGAGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (15 bp):
AAAAATGAAAAAGTG
Found at i:51237284 original size:132 final size:132
Alignment explanation
Indices: 51236229--51237252 Score: 1688
Period size: 132 Copynumber: 7.8 Consensus size: 132
51236219 ACCGGTGAAA
*
51236229 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTT
51236294 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
*
51236359 GA
131 GT
* * * *
51236361 AGGTTGAAGATTGTAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGACAAATCTT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTT
*
51236426 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
51236491 GT
131 GT
* * * *
51236493 AGGTTGAAGATTGTAGATCTTATCTCCTTAAACAGTAGTGGAGCAGATTGAAGACGACAAATCTT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTT
* * *
51236558 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACTAAGCCTTGTCTCCCTAAGTAGCAGCGGA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
51236623 GT
131 GT
* * * * *
51236625 AGGTTAAAAATTGTAGATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGAAGACAGCAAATCTT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTT
* * *
51236690 ATCTTTCCAAGATAGTGAGAAGCAGATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
*
51236755 GA
131 GT
* *
51236757 AGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCAAATCTT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTT
* *
51236822 ATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTTCCTGAGCAGCAGCGGA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
*
51236887 GA
131 GT
* * *
51236889 AGGTTAAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTT
* *
51236954 ATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCTACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
51237019 GT
131 GT
* * *
51237021 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGTAAATCAT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTT
* *
51237086 ATCTTTCCAAGATAGTGGGAAGCAGATTTAGGCCACCAAGCCTTATCTCCCTGAGCAGCAGCGGA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
51237151 GT
131 GT
*
51237153 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCAT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTT
*
51237218 ATCTTTCCAAGATAGTGGGAAGCAGATTAAAGCCA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
51237253 ATAATCCTAT
Statistics
Matches: 825, Mismatches: 67, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 825 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (132 bp):
AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTT
ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
GT
Found at i:51237633 original size:133 final size:133
Alignment explanation
Indices: 51237344--51237634 Score: 438
Period size: 133 Copynumber: 2.2 Consensus size: 133
51237334 CATTTAGTCT
* *
51237344 TATCTCCCTGAAGTTGCAGTGGAACAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
* ** *
51237409 AGACAGACTGAAGATGGCAAATCTTATCTCCATGAAGTTGTAGTGGAGTAGATTAAAGCCAATAA
66 AGACAGACTGAAGATGGAAAATCTTATCTCCATGAAGTTACAGTGGAGCAGATTAAAGCCAATAA
51237474 TCC
131 TCC
* * *
51237477 TATCTCCCTGAAGTTGTAGTGGAGCAGACTCAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
** * * *
51237542 AGGTAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAGAGCCGATAA
66 AGACAGACTGAAGATGGAAAATCTTATCTCCATGAAGTTACAGTGGAGCAGATTAAAGCCAATAA
51237607 TCC
131 TCC
* *
51237610 TATCTGCCTAAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
51237635 GGATCAAAAC
Statistics
Matches: 141, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 141 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (133 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
AGACAGACTGAAGATGGAAAATCTTATCTCCATGAAGTTACAGTGGAGCAGATTAAAGCCAATAA
TCC
Found at i:51237655 original size:133 final size:133
Alignment explanation
Indices: 51237344--51237680 Score: 403
Period size: 133 Copynumber: 2.5 Consensus size: 133
51237334 CATTTAGTCT
* * * * * *
51237344 TATCTCCCTGAAGTTGCAGTGGAACAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTCAGAAACCAAGTCTTATCCTCCTGAAGTTGCAGTG
* ** *
51237409 AGACAGACTGAAGATGGCAAATCTTATCTCCATGAAGTTGTAGTGGAGTAGATTAAAGCCAATAA
66 AGACAGACTGAAGATGGAAAATCTTATCTCCATGAAGTTACAGTGGAGCAGATTAAAGCCAATAA
51237474 TCC
131 TCC
* * * *
51237477 TATCTCCCTGAAGTTGTAGTGGAGCAGACTCAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTCAGAAACCAAGTCTTATCCTCCTGAAGTTGCAGTG
** * * *
51237542 AGGTAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAGAGCCGATAA
66 AGACAGACTGAAGATGGAAAATCTTATCTCCATGAAGTTACAGTGGAGCAGATTAAAGCCAATAA
51237607 TCC
131 TCC
* * **
51237610 TATCTGCCTAAAGTTGCAGTGGAGCGGA-TCA-AAACCTTGGATCTTAT-CTCTCTGAAGTTGCA
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTCAGAAACC-AAG-TCTTATCCTC-CTGAAGTTGCA
*
51237672 GAGAG-CAGA
63 GTGAGACAGA
51237681 TCGGGTCTAG
Statistics
Matches: 177, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
131 3 0.02
132 10 0.06
133 164 0.93
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (133 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGACTCAGAAACCAAGTCTTATCCTCCTGAAGTTGCAGTG
AGACAGACTGAAGATGGAAAATCTTATCTCCATGAAGTTACAGTGGAGCAGATTAAAGCCAATAA
TCC
Found at i:51237748 original size:44 final size:43
Alignment explanation
Indices: 51237339--51237804 Score: 222
Period size: 44 Copynumber: 10.7 Consensus size: 43
51237329 GATCGCATTT
* * * *
51237339 AGTCTTATCTCCCTGAAGTTGCAGTGGAACAAACTAAGTAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAGTAAACA
* **
51237383 AGTCTTATCCTCCTGAAGTTGCAGT-GAGACAGACTGAAG-ATGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGAG-CAGA-TTAAGTA-AACA
* * * ** *
51237428 AATCTTATCTCCATGAAGTTGTAGTGGAGTAGATTAAAGCCAATA
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGATT-AAGTAAACA
* * * * * *
51237473 A-TCCTATCTCCCTGAAGTTGTAGTGGAGCAGACTCAGCAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAGTAAACA
* * *
51237516 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGAA-A
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGA-TTAAG-T-AAACA
* *** *
51237562 A-TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAGAGCCGATA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTA-AGTAAACA
* * * * * *
51237606 A-TCCTATCTGCCTAAAGTTGCAGTGGAGCGGATCAA--AACCTT
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAGTAAAC-A
* * *** *
51237648 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGGGT---CT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAGTAAACA
*
51237689 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAGTAAACA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAGTAAACA
* *
51237733 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTAAATAAACA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGATTAAGTAAACA
* * * *
51237777 AATCTTGTCTCCTTAAGTTGTAGTGGAG
1 AGTCTTATCTCCTGAAGTTGCAGTGGAG
51237805 TGAATTAGAG
Statistics
Matches: 325, Mismatches: 64, Indels: 67
0.71 0.14 0.15
Matches are distributed among these distances:
40 20 0.06
41 14 0.04
42 1 0.00
43 38 0.12
44 177 0.54
45 67 0.21
46 7 0.02
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (43 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGATTAAGTAAACA
Found at i:51238144 original size:21 final size:21
Alignment explanation
Indices: 51238115--51238192 Score: 138
Period size: 21 Copynumber: 3.7 Consensus size: 21
51238105 ATTTTCGAGG
51238115 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
51238136 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
51238157 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
51238178 ATATACAATCTTAGA
1 ATATACAATCTTAGA
51238193 AGATATGATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:51238344 original size:12 final size:11
Alignment explanation
Indices: 51238322--51238356 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
51238312 CTTCATTGTC
51238322 GAAAAAAAAAA
1 GAAAAAAAAAA
51238333 GAAAAAAGAAAA
1 GAAAAAA-AAAA
51238345 GAATAAAAAAAA
1 GAA-AAAAAAAA
51238357 AGGGAGAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.32
12 11 0.50
13 4 0.18
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:51238670 original size:3 final size:3
Alignment explanation
Indices: 51238662--51238717 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
51238652 ATTAATTTTG
51238662 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
51238708 TTA TTA TTA T
1 TTA TTA TTA T
51238718 ACCTACATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:51238727 original size:19 final size:19
Alignment explanation
Indices: 51238669--51238727 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
51238659 TTGTTATTAT
* *
51238669 TATTATTATTATTATTA-T
1 TATTATTATTATTACTACA
* *
51238687 TATTATTATTATTATTATA
1 TATTATTATTATTACTACA
51238706 TATTATTATTA-TACCTACA
1 TATTATTATTATTA-CTACA
51238725 TAT
1 TAT
51238728 ATGTGCGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 19 0.53
19 17 0.47
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTATTATTATTACTACA
Found at i:51241613 original size:16 final size:17
Alignment explanation
Indices: 51241592--51241623 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51241582 AATTTTTAAA
51241592 AAATA-TTTTAAATTTG
1 AAATATTTTTAAATTTG
51241608 AAATATTTTTAAATTT
1 AAATATTTTTAAATTT
51241624 ATAGTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AAATATTTTTAAATTTG
Found at i:51251105 original size:14 final size:15
Alignment explanation
Indices: 51251088--51251116 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51251078 GGGAATTAAT
51251088 TTGGGG-AAAAGAAA
1 TTGGGGAAAAAGAAA
51251102 TTGGGGAAAAAGAAA
1 TTGGGGAAAAAGAAA
51251117 GGGGTCTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (15 bp):
TTGGGGAAAAAGAAA
Found at i:51251171 original size:76 final size:76
Alignment explanation
Indices: 51250995--51251174 Score: 208
Period size: 76 Copynumber: 2.4 Consensus size: 76
51250985 ACATATATTG
*
51250995 GGGAG-GGGGGAATTGATTTGGGGAAAAGAAATTTGGGAAAAAAAAGAAAGGGATTTAGGAAAAA
1 GGGAGAGGGGGAATTGATTTGGGGAAAAGAAATTTGGG-AAAAAAAGAAAGGGATCTAGGAAAAA
51251059 ATTAGGGATTTC
65 ATTAGGGATTTC
* * * *
51251071 GAGA-AGGGGGAATTAATTTGGGGAAAAGAAA-TTGGG-GAAAAAGAAAGGGGTCT-GTGAAAGA
1 GGGAGAGGGGGAATTGATTTGGGGAAAAGAAATTTGGGAAAAAAAGAAAGGGATCTAG-GAAA-A
51251132 AACTTAGGGATTTC
64 AA-TTAGGGATTTC
** *
51251146 AGGGAGAGGGGGAACCGATTTGGGAAAAA
1 -GGGAGAGGGGGAATTGATTTGGGGAAAA
51251175 AAGAAAGAGG
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
72 1 0.01
73 18 0.20
74 3 0.03
75 16 0.18
76 31 0.35
77 19 0.22
ACGTcount: A:0.41, C:0.03, G:0.37, T:0.19
Consensus pattern (76 bp):
GGGAGAGGGGGAATTGATTTGGGGAAAAGAAATTTGGGAAAAAAAGAAAGGGATCTAGGAAAAAA
TTAGGGATTTC
Found at i:51251207 original size:64 final size:64
Alignment explanation
Indices: 51251108--51251238 Score: 147
Period size: 64 Copynumber: 2.0 Consensus size: 64
51251098 GAAATTGGGG
* * * * *** *
51251108 AAAAAGAAAGGGGTCTGTGAAAGAAACTTAGGGATTTCAGGGAGAGGGGGAACCGATTTGGGAA
1 AAAAAGAAAGAGGTCTGTGAAAAAAAATTAAGGATTTCAAAAAGAGGAGGAACCGATTTGGGAA
* * *
51251172 AAAAAGAAAGAGGTTTAG-GAAAAAAAATTAAGGATTTCAAAAAGAGGAGGAACTGATTTGGGGA
1 AAAAAGAAAGAGGTCT-GTGAAAAAAAATTAAGGATTTCAAAAAGAGGAGGAACCGATTTGGGAA
51251236 AAA
1 AAA
51251239 GAATTTGAGG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
64 54 0.98
65 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.32, T:0.18
Consensus pattern (64 bp):
AAAAAGAAAGAGGTCTGTGAAAAAAAATTAAGGATTTCAAAAAGAGGAGGAACCGATTTGGGAA
Found at i:51252443 original size:18 final size:17
Alignment explanation
Indices: 51252389--51252443 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
51252379 TTTTCTAATC
51252389 TTTTTATCTTTTCA-TTG
1 TTTTT-TCTTTTCATTTG
* * *
51252406 -TTTTTCATTTCCTTTC
1 TTTTTTCTTTTCATTTG
51252422 TTTTTGTCTTTTCATTTG
1 TTTTT-TCTTTTCATTTG
51252440 TTTT
1 TTTT
51252444 CATTTTTCCT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 6 0.21
16 6 0.21
17 4 0.14
18 13 0.45
ACGTcount: A:0.07, C:0.15, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTTTCTTTTCATTTG
Found at i:51252444 original size:23 final size:23
Alignment explanation
Indices: 51252403--51252450 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
51252393 TATCTTTTCA
51252403 TTGTTTTTCATTTCCTTTC-TTT
1 TTGTTTTTCATTTCCTTTCATTT
**
51252425 TTGTCTTTTCATTTGTTTTCATTT
1 TTGT-TTTTCATTTCCTTTCATTT
51252449 TT
1 TT
51252451 CCTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 13 0.59
24 5 0.23
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.73
Consensus pattern (23 bp):
TTGTTTTTCATTTCCTTTCATTT
Found at i:51252455 original size:23 final size:23
Alignment explanation
Indices: 51252407--51252456 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
51252397 TTTTCATTGT
*
51252407 TTTTCATTTCCTTTCTTTTTGTC
1 TTTTCATTTCCTTTCTTTTTGCC
**
51252430 TTTTCATTTGTTTTCATTTTT-CC
1 TTTTCATTTCCTTTC-TTTTTGCC
51252453 TTTT
1 TTTT
51252457 AAAATAGACG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTTCATTTCCTTTCTTTTTGCC
Found at i:51257839 original size:22 final size:22
Alignment explanation
Indices: 51257790--51257840 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
51257780 CTTTAAAATA
51257790 AAAAAATTTGTAAAATTTATAT
1 AAAAAATTTGTAAAATTTATAT
*
51257812 AGAAAAATTT-TAAAATTTATTT
1 A-AAAAATTTGTAAAATTTATAT
*
51257834 TAAAAAT
1 AAAAAAT
51257841 ATAAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 12 0.46
23 8 0.31
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
AAAAAATTTGTAAAATTTATAT
Found at i:51258160 original size:18 final size:19
Alignment explanation
Indices: 51258139--51258175 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
51258129 AAATCATAAT
51258139 AATTTTAAAAT-ATTTTAA
1 AATTTTAAAATAATTTTAA
*
51258157 AATTTTATAATAATTTTAA
1 AATTTTAAAATAATTTTAA
51258176 TTTTTTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTTAAAATAATTTTAA
Found at i:51258444 original size:19 final size:19
Alignment explanation
Indices: 51258405--51258447 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
51258395 GTATAATAAA
* *
51258405 TTTTACAATTTTTAAGGAT
1 TTTTACAACTTTTAAAGAT
*
51258424 TTTTACAACTTTTAAATAT
1 TTTTACAACTTTTAAAGAT
51258443 TTTTA
1 TTTTA
51258448 AATAAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTACAACTTTTAAAGAT
Found at i:51263324 original size:16 final size:16
Alignment explanation
Indices: 51263261--51263332 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
51263251 AATAACATGC
51263261 CAAATAAATTACATAA
1 CAAATAAATTACATAA
51263277 -AAATAAATCTA-ATAAA
1 CAAATAAAT-TACAT-AA
* *
51263293 CCTAAA-ACA-CACATAA
1 -C-AAATAAATTACATAA
51263309 CAAATAAATTACATAA
1 CAAATAAATTACATAA
*
51263325 AAAATAAA
1 CAAATAAA
51263333 ACATTCTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
14 3 0.07
15 13 0.30
16 20 0.47
17 2 0.05
18 2 0.05
19 3 0.07
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (16 bp):
CAAATAAATTACATAA
Found at i:51263680 original size:3 final size:3
Alignment explanation
Indices: 51263672--51263702 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
51263662 CTTCCCGCTC
51263672 TCT TCT TCT TCT TCT TCT TCT TC- TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
51263703 AAATTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:51263862 original size:32 final size:32
Alignment explanation
Indices: 51263815--51263921 Score: 110
Period size: 32 Copynumber: 3.4 Consensus size: 32
51263805 ACAAGTCAAA
* * *
51263815 GGTGTGCCACTTGTGGAATGGGCATGATCAGT
1 GGTGTGCCGCCTGTGGAATGGGCATGACCAGT
**
51263847 GGTGTGCCGCCTGTGGAATGGGCATGACCAAC
1 GGTGTGCCGCCTGTGGAATGGGCATGACCAGT
* * *
51263879 CG-ATGCCGCCTGTGAAATGGGCATTG-CCAGT
1 GGTGTGCCGCCTGTGGAATGGGCA-TGACCAGT
*
51263910 GGTGTGTCGCCT
1 GGTGTGCCGCCT
51263922 TTCTCTAAGG
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
31 23 0.38
32 37 0.62
ACGTcount: A:0.17, C:0.22, G:0.36, T:0.24
Consensus pattern (32 bp):
GGTGTGCCGCCTGTGGAATGGGCATGACCAGT
Found at i:51270576 original size:12 final size:12
Alignment explanation
Indices: 51270559--51270586 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
51270549 TTGAAAATTG
51270559 GCTATTGGGCCT
1 GCTATTGGGCCT
51270571 GCTATTGGGCCT
1 GCTATTGGGCCT
51270583 GCTA
1 GCTA
51270587 GTGTTGGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.32
Consensus pattern (12 bp):
GCTATTGGGCCT
Found at i:51271444 original size:132 final size:132
Alignment explanation
Indices: 51271233--51271780 Score: 870
Period size: 132 Copynumber: 4.2 Consensus size: 132
51271223 CAATACATGA
**
51271233 AGACAAGATCTG-CTTC-TCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* *
51271296 TATACTCCACTGTAACCACAGGGAGGTAAAATATGCCATCTTTGATCTGCTCCACTACTGCTTAG
66 TATACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
51271361 GG
131 GG
* * *
51271363 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * ** *
51271428 TGTACTTCACTATAACCAC-GAAGAGGTAAAATCCT-CCATCTTTGATCTGCTCCACTACTGCTT
66 TATACTCCACTGCAACCACAG-GGAGGTAAAAT-CTGCCATCTTTGATCTGCTCCACTACTGCTT
*
51271491 GGGG
129 AGGG
51271495 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
51271560 TGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTGG
66 TATACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
51271625 GG
131 GG
*
51271627 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* *
51271692 TATACTCCACTGCAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTACTGCTTAG
66 TATACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
51271757 GG
131 GG
*
51271759 AGACAAGATCTGTAATCTTCAA
1 AGACAAGATCTGAAATCTTCAA
51271781 CCTGCTCTAC
Statistics
Matches: 388, Mismatches: 24, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
130 12 0.03
131 5 0.01
132 369 0.95
133 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TATACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
GG
Found at i:51273015 original size:42 final size:42
Alignment explanation
Indices: 51272954--51273065 Score: 179
Period size: 42 Copynumber: 2.7 Consensus size: 42
51272944 AAGACCACTG
* *
51272954 CATGCCCCACTCTAATCAGTATTTGAGCTACTCCGATAATCT
1 CATGCCCCATTCTAATCAGTATTTGAGCTACTCCGATAATCA
**
51272996 CATGCCCCATTCTGTTCAGTATTTGAGCTACTCCGATAATCA
1 CATGCCCCATTCTAATCAGTATTTGAGCTACTCCGATAATCA
*
51273038 CATGCCCCATTCTAATCAATATTTGAGC
1 CATGCCCCATTCTAATCAGTATTTGAGC
51273066 CGGCCTTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (42 bp):
CATGCCCCATTCTAATCAGTATTTGAGCTACTCCGATAATCA
Found at i:51278087 original size:2 final size:2
Alignment explanation
Indices: 51278080--51278115 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
51278070 AAATTATGGG
*
51278080 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51278116 AAAGATATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51278223 original size:3 final size:3
Alignment explanation
Indices: 51278209--51278245 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
51278199 TACATATGCG
51278209 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
51278246 CAAAAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:51280092 original size:114 final size:115
Alignment explanation
Indices: 51279892--51280123 Score: 385
Period size: 114 Copynumber: 2.0 Consensus size: 115
51279882 ATTGAGATCC
* * * *
51279892 TTTTAAGCATTTAATATTAATTACCCCGATTCTAATGAGTGCGAAAAATTTGATAGCGCGATATA
1 TTTTAAGCATTCAATAATAATTACCCCGATTCTAATGAGTGCGAAAAACTTGATAGCGCCATATA
*
51279957 TAACTAAACTTAGCACACATAGCTGTTGAACTAGCCCT-AAAAACGTATT
66 TAACTAAACTTAGCACACATAGATGTTGAACTAGCCCTAAAAAACGTATT
* *
51280006 TTTTAAGCATTCAATAATAATTACCCTGATTCTAATGAGTGCGAAAAACTTGATAGTGCCATATA
1 TTTTAAGCATTCAATAATAATTACCCCGATTCTAATGAGTGCGAAAAACTTGATAGCGCCATATA
*
51280071 TAACTAAACTTAGCACACATAGATGTTGAACTAGCCCTAAAAAACTTATT
66 TAACTAAACTTAGCACACATAGATGTTGAACTAGCCCTAAAAAACGTATT
51280121 TTT
1 TTT
51280124 AGACATAGCC
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
114 96 0.88
115 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (115 bp):
TTTTAAGCATTCAATAATAATTACCCCGATTCTAATGAGTGCGAAAAACTTGATAGCGCCATATA
TAACTAAACTTAGCACACATAGATGTTGAACTAGCCCTAAAAAACGTATT
Found at i:51280395 original size:29 final size:29
Alignment explanation
Indices: 51280341--51280396 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
51280331 GGTCCCAATA
* * *
51280341 ATTTTTATTTAATTTTTTATATTTTAATG
1 ATTTTTATTTAATTTTTAAAAATTTAATG
51280370 ATTTTT-TTTGAATTTTTAAAAATTTAA
1 ATTTTTATTT-AATTTTTAAAAATTTAA
51280397 AAATTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (29 bp):
ATTTTTATTTAATTTTTAAAAATTTAATG
Found at i:51281621 original size:27 final size:26
Alignment explanation
Indices: 51281591--51281655 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
51281581 TAAATCAATT
51281591 TTTATAATTTATTTATAGATTTT-TACA
1 TTTATAATTT-TTT-TAGATTTTATACA
*
51281618 TTTATAAAGTTTTTTTAGATTTTATATA
1 TTTAT-AA-TTTTTTTAGATTTTATACA
*
51281646 TTTCTAATTT
1 TTTATAATTT
51281656 CAAAATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 3 0.09
27 15 0.45
28 12 0.36
29 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (26 bp):
TTTATAATTTTTTTAGATTTTATACA
Found at i:51282138 original size:10 final size:9
Alignment explanation
Indices: 51282125--51282162 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
51282115 TTAAAAAAAT
51282125 ATTTTTTATA
1 ATTTTTTA-A
51282135 ATTTTTTAA
1 ATTTTTTAA
*
51282144 AATTTTTAA
1 ATTTTTTAA
51282153 ATTTTTTAA
1 ATTTTTTAA
51282162 A
1 A
51282163 AAATTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:51282155 original size:18 final size:19
Alignment explanation
Indices: 51282127--51282163 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
51282117 AAAAAAATAT
51282127 TTTTTATAATTTTTTAAAA
1 TTTTTATAATTTTTTAAAA
51282146 TTTTTA-AATTTTTTAAAA
1 TTTTTATAATTTTTTAAAA
51282164 AATTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATAATTTTTTAAAA
Found at i:51294025 original size:16 final size:17
Alignment explanation
Indices: 51294004--51294036 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51293994 TATATAGAAA
51294004 AAAAATG-GACCATTGG
1 AAAAATGTGACCATTGG
*
51294020 AAAAATGTGATCATTGG
1 AAAAATGTGACCATTGG
51294037 TCTAATTAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (17 bp):
AAAAATGTGACCATTGG
Found at i:51294100 original size:53 final size:53
Alignment explanation
Indices: 51294033--51294179 Score: 267
Period size: 53 Copynumber: 2.8 Consensus size: 53
51294023 AATGTGATCA
*
51294033 TTGGTCTAATTAGCCGTTGGTCTCAACGGTTAGAAAATCAAGAAATCTGACCG
1 TTGGTCTAAATAGCCGTTGGTCTCAACGGTTAGAAAATCAAGAAATCTGACCG
*
51294086 TTGGTCTAAATAGCCGTTGGTCTCAACGGTTAGAAAATCAAGAAATGTGACCG
1 TTGGTCTAAATAGCCGTTGGTCTCAACGGTTAGAAAATCAAGAAATCTGACCG
*
51294139 TTGGTCTAAATAGCCGTTGGTCTCAATGGTTAGAAAATCAA
1 TTGGTCTAAATAGCCGTTGGTCTCAACGGTTAGAAAATCAA
51294180 CGACGGTGAT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 91 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (53 bp):
TTGGTCTAAATAGCCGTTGGTCTCAACGGTTAGAAAATCAAGAAATCTGACCG
Found at i:51296776 original size:29 final size:30
Alignment explanation
Indices: 51296721--51296782 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
51296711 AATTGGCAAA
*
51296721 AAAACTCTCAAATTTCTTCCTAAATTTCTC
1 AAAACTCTCAAATTTCTGCCTAAATTTCTC
*
51296751 AAAACTCTCAAA-TTCTGCTTAAATTTCTC
1 AAAACTCTCAAATTTCTGCCTAAATTTCTC
51296780 AAA
1 AAA
51296783 GCTTTCTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAACTCTCAAATTTCTGCCTAAATTTCTC
Found at i:51297950 original size:7 final size:7
Alignment explanation
Indices: 51297940--51297964 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51297930 AGTCATTTCA
51297940 TATTTAG
1 TATTTAG
51297947 TATTTAG
1 TATTTAG
51297954 TATTTAG
1 TATTTAG
51297961 TATT
1 TATT
51297965 ATGTATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:51301753 original size:17 final size:17
Alignment explanation
Indices: 51301731--51301764 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
51301721 GATGAGTCTG
51301731 CACCATCGCCTCCAAGC
1 CACCATCGCCTCCAAGC
51301748 CACCATCGCCTCCAAGC
1 CACCATCGCCTCCAAGC
51301765 TACAACCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.53, G:0.12, T:0.12
Consensus pattern (17 bp):
CACCATCGCCTCCAAGC
Found at i:51302345 original size:126 final size:125
Alignment explanation
Indices: 51302118--51302605 Score: 732
Period size: 126 Copynumber: 3.9 Consensus size: 125
51302108 GCCAAACAGC
* * *
51302118 AACTACTGTAGAAAAAGACCATCCACGTGGGAGCTTGTTTT-ATCAATTTTGCTGACAGTACATC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTT-TTTTCATCAATTTTGCTGACAGTGCATC
* * *
51302182 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACCGTCTTCTCAAAATTTATTTTTCAAG
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAA-TTATTTTTTAGG
* *
51302244 AACTACTGTAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCATCATTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
*
51302309 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAACTATTTTTTAGG
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTAGG
* * *
51302369 AACTACTGTAGAAAAATAGCGCCCACGTGGGAGC-TTTTTCATCGATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
* * *
51302433 TGCTTGAAGCGTTTTTG--ACTATTTGTTCATAACTGTCTTCTCAGAATTATTTTTTTAGG
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTA-TTTTTTAGG
* *
51302492 AACTACTGTAGAAAAAGAGTGTCCATGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
* * * *
51302557 TGTTTGAAGCGTTTTTTACACTGTTTGTTCAGAACTGTCTTCTCAAAAT
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAAT
51302606 AAATTGAATA
Statistics
Matches: 331, Mismatches: 26, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
122 28 0.08
123 39 0.12
124 89 0.27
125 46 0.14
126 129 0.39
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTAGG
Found at i:51302566 original size:248 final size:250
Alignment explanation
Indices: 51302118--51302604 Score: 755
Period size: 248 Copynumber: 2.0 Consensus size: 250
51302108 GCCAAACAGC
* *
51302118 AACTACTGTAGAAAAAGACCATCCACGTGGGAGCTTGTTTTATCAATTTTGCTGACAGTACATCC
1 AACTACTGTAGAAAAAGACCACCCACGTGGGAGCTTGTTTCATCAATTTTGCTGACAGTACATCC
51302183 TGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACCGTCTTCTCAAAATTTATTTTTCAAGAACT
66 TGCTTGAAGCGTTTTTGA-ACTATTTGTTCAAAACCGTCTTCTCAAAATTTATTTTTCAAGAACT
* *
51302248 ACTGTAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCATCATTTTTGCTGACAGTGCATCCTGCT
130 ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCCTGCT
51302313 TGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAACTATTTTTTAGG
195 TGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAACTATTTTTTAGG
* * * * *
51302369 AACTACTGTAGAAAAATAGCGCCCACGTGGGAGCTT-TTTCATCGATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGACCACCCACGTGGGAGCTTGTTTCATCAATTTTGCTGACAGTACATCC
* * * * *
51302433 TGCTTGAAGCGTTTTTG-ACTATTTGTTCATAACTGTCTTCTCAGAA-TTATTTTTTTAGGAACT
66 TGCTTGAAGCGTTTTTGAACTATTTGTTCAAAACCGTCTTCTCAAAATTTA-TTTTTCAAGAACT
* * *
51302496 ACTGTAGAAAAAGAGTGTCCATGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCCTGTT
130 ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCCTGCT
* * *
51302561 TGAAGCGTTTTTTACACTGTTTGTTCAGAACTGTCTTCTCAAAA
195 TGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAA
51302605 TAAATTGAAT
Statistics
Matches: 215, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
247 3 0.01
248 138 0.64
250 42 0.20
251 32 0.15
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (250 bp):
AACTACTGTAGAAAAAGACCACCCACGTGGGAGCTTGTTTCATCAATTTTGCTGACAGTACATCC
TGCTTGAAGCGTTTTTGAACTATTTGTTCAAAACCGTCTTCTCAAAATTTATTTTTCAAGAACTA
CTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCCTGCTT
GAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAACTATTTTTTAGG
Found at i:51302750 original size:33 final size:33
Alignment explanation
Indices: 51302693--51302790 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
51302683 ACACAGAGTT
* *
51302693 ATTTCTTAAAAA-ACTAAACCCTAATTTAATTA
1 ATTTCTTAAAAACCCCAAACCCTAATTTAATTA
51302725 ATTTCTTAAAAACCCCAAACCCTAATTTAATTA
1 ATTTCTTAAAAACCCCAAACCCTAATTTAATTA
* * * *
51302758 ATTTATTTAAAACCCCTAAAACGTAATTTAATT
1 ATTTCTTAAAAACCCC-AAACCCTAATTTAATT
51302791 TTAAAAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.21
33 32 0.55
34 14 0.24
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (33 bp):
ATTTCTTAAAAACCCCAAACCCTAATTTAATTA
Found at i:51305689 original size:24 final size:24
Alignment explanation
Indices: 51305657--51305702 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
51305647 TTGATTAGAA
*
51305657 TAAGGTGTTTTAATCTTACTACTC
1 TAAGGTGTTTCAATCTTACTACTC
51305681 TAAGGTGTTTCAATCTTACTAC
1 TAAGGTGTTTCAATCTTACTAC
51305703 ACTCCTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (24 bp):
TAAGGTGTTTCAATCTTACTACTC
Found at i:51311045 original size:19 final size:22
Alignment explanation
Indices: 51311011--51311059 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
51311001 ATATATATAT
51311011 ATTTAAAACAATATTGAT-A-A
1 ATTTAAAACAATATTGATAATA
51311031 ATTTAAAAC-ATATTGATAATA
1 ATTTAAAACAATATTGATAATA
51311052 ATTTAAAA
1 ATTTAAAA
51311060 AATGTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.30
20 10 0.37
21 9 0.33
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTTAAAACAATATTGATAATA
Found at i:51311067 original size:23 final size:19
Alignment explanation
Indices: 51311011--51311062 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
51311001 ATATATATAT
51311011 ATTTAAAACAATATTGATAA
1 ATTTAAAA-AATATTGATAA
*
51311031 ATTTAAAACATATTGATAATA
1 ATTTAAAAAATATTGAT-A-A
51311052 ATTTAAAAAAT
1 ATTTAAAAAAT
51311063 GTATTAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.29
20 9 0.32
21 11 0.39
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (19 bp):
ATTTAAAAAATATTGATAA
Found at i:51311885 original size:11 final size:12
Alignment explanation
Indices: 51311869--51311900 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
51311859 GTCCCGTGTT
51311869 TAAAACC-AAAA
1 TAAAACCTAAAA
51311880 TAAAACCTAAAA
1 TAAAACCTAAAA
51311892 -AAAACCTAA
1 TAAAACCTAA
51311901 CACTTCCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (12 bp):
TAAAACCTAAAA
Done.