Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 161 of 322
Found at i:52993799 original size:24 final size:24
Alignment explanation
Indices: 52993763--52993808 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
52993753 CTATAAATTA
* *
52993763 ATTATTATTTATTATTAAAATAAT
1 ATTACTATATATTATTAAAATAAT
*
52993787 ATTACTATATATTATTCAAATA
1 ATTACTATATATTATTAAAATA
52993809 TAAATATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTACTATATATTATTAAAATAAT
Found at i:53008727 original size:11 final size:11
Alignment explanation
Indices: 53008711--53008761 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
53008701 AATGTTTATA
53008711 TATTTAATTTT
1 TATTTAATTTT
53008722 TATTTAATTTT
1 TATTTAATTTT
** *
53008733 TAAATAATATAT
1 TATTTAAT-TTT
53008745 T-TTTAATTTT
1 TATTTAATTTT
53008755 TATTTAA
1 TATTTAA
53008762 ATTATTGAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
10 3 0.09
11 26 0.81
12 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTAATTTT
Found at i:53008767 original size:22 final size:22
Alignment explanation
Indices: 53008711--53008767 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
53008701 AATGTTTATA
*
53008711 TATTTAATTTTTATTTAATTTT
1 TATTTAATTATTATTTAATTTT
**
53008733 TAAATAATATATT-TTTAATTTT
1 TATTTAAT-TATTATTTAATTTT
53008755 TATTTAAATTATT
1 TATTT-AATTATT
53008768 GAACATAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTAATTATTATTTAATTTT
Found at i:53008823 original size:18 final size:19
Alignment explanation
Indices: 53008800--53008836 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
53008790 TTTATTTAAC
*
53008800 AATTCAAA-TATAATAAAA
1 AATTCAAACCATAATAAAA
53008818 AATTCAAACCATAATAAAA
1 AATTCAAACCATAATAAAA
53008837 GTATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (19 bp):
AATTCAAACCATAATAAAA
Found at i:53009073 original size:22 final size:23
Alignment explanation
Indices: 53009026--53009074 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 23
53009016 AGCTTAATTA
53009026 AAATATATCAATTATTTTGGCAATTT
1 AAATATATCAATTATTTT-G--ATTT
53009052 AAATATATCAATTATTTT-ATTT
1 AAATATATCAATTATTTTGATTT
53009074 A
1 A
53009075 GGGAATGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
26 18 0.78
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (23 bp):
AAATATATCAATTATTTTGATTT
Found at i:53011424 original size:39 final size:39
Alignment explanation
Indices: 53011379--53011500 Score: 190
Period size: 40 Copynumber: 3.1 Consensus size: 39
53011369 AAAGTTGATT
* *
53011379 CCACTCCCCCATGCTACTTTGTTTTATTATTAATTAAAA
1 CCACTCCCCCATACTATTTTGTTTTATTATTAATTAAAA
*
53011418 CTACTCCCCCATACTATTTTGTTTTCATTATTAATTAAAA
1 CCACTCCCCCATACTATTTTGTTTT-ATTATTAATTAAAA
*
53011458 CCATTCCCCCATACTATTTTGGTTTTATTATTAATTAAAA
1 CCACTCCCCCATACTATTTT-GTTTTATTATTAATTAAAA
53011498 CCA
1 CCA
53011501 TACTTTATTT
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 22 0.29
40 49 0.64
41 5 0.07
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.43
Consensus pattern (39 bp):
CCACTCCCCCATACTATTTTGTTTTATTATTAATTAAAA
Found at i:53031560 original size:22 final size:23
Alignment explanation
Indices: 53031532--53031576 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
53031522 TTCAAAACTG
53031532 AAATATT-TTTAAAAATTTTTAA
1 AAATATTATTTAAAAATTTTTAA
* *
53031554 AAATATTATTTTAAATTTTTTAA
1 AAATATTATTTAAAAATTTTTAA
53031577 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATTATTTAAAAATTTTTAA
Found at i:53031648 original size:36 final size:37
Alignment explanation
Indices: 53031608--53031678 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 37
53031598 GAAAAAAATA
* *
53031608 TTAAAAATATAAAAAT-ATTAAATAA-AATTTAAAAAG
1 TTAAAAAAATAAAAATAAATAAA-AATAATTTAAAAAG
53031644 TTAAAAAAATAAAAATAAATAAAAATAATTTAAAA
1 TTAAAAAAATAAAAATAAATAAAAATAATTTAAAA
53031679 GTTTAAGTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 17 0.55
37 14 0.45
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (37 bp):
TTAAAAAAATAAAAATAAATAAAAATAATTTAAAAAG
Found at i:53032155 original size:21 final size:22
Alignment explanation
Indices: 53032131--53032183 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
53032121 ATTTTTTTGG
*
53032131 AAATTTATTTAAT-TTTTTATA
1 AAATTTATTTAATGTTTTTACA
*
53032152 AAATTTA-ATAATGTTTTTACA
1 AAATTTATTTAATGTTTTTACA
53032173 AAATTATATTT
1 AAATT-TATTT
53032184 TAAAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 19 0.73
22 2 0.08
23 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
AAATTTATTTAATGTTTTTACA
Found at i:53032200 original size:16 final size:16
Alignment explanation
Indices: 53032160--53032215 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
53032150 TAAAATTTAA
*
53032160 TAATGTTTTTACAAAAT
1 TAAT-TTTTTAAAAAAT
*
53032177 T-ATATTTTAAAAAAT
1 TAATTTTTTAAAAAAT
*
53032192 TAATTTTTTAAAATAT
1 TAATTTTTTAAAAAAT
*
53032208 TTATTTTT
1 TAATTTTT
53032216 AATTAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
15 11 0.33
16 21 0.64
17 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TAATTTTTTAAAAAAT
Found at i:53032215 original size:15 final size:15
Alignment explanation
Indices: 53032165--53032217 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
53032155 TTTAATAATG
*
53032165 TTTTTACAAAA-TTA
1 TTTTTAAAAAATTTA
*
53032179 TATTTTAAAAAATTAA
1 T-TTTTAAAAAATTTA
*
53032195 TTTTTTAAAATATTTA
1 -TTTTTAAAAAATTTA
53032211 TTTTTAA
1 TTTTTAA
53032218 TTAAATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 1 0.03
15 16 0.50
16 14 0.44
17 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTTAAAAAATTTA
Found at i:53036736 original size:30 final size:30
Alignment explanation
Indices: 53036700--53036760 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
53036690 GTTGTGGGCA
*
53036700 AGTAATGTTACCGCTCATAAATTAAATCAT
1 AGTAATGTTACCGCTCACAAATTAAATCAT
* *
53036730 AGTAATGTTACTGCTCACAACTTAAATCAT
1 AGTAATGTTACCGCTCACAAATTAAATCAT
53036760 A
1 A
53036761 CTGCTCTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (30 bp):
AGTAATGTTACCGCTCACAAATTAAATCAT
Found at i:53036764 original size:21 final size:21
Alignment explanation
Indices: 53036738--53036781 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
53036728 ATAGTAATGT
*
53036738 TACTGCTCACAACTTAAATCA
1 TACTGCTCACAAATTAAATCA
*
53036759 TACTGCTCTCAAATTAAATCA
1 TACTGCTCACAAATTAAATCA
53036780 TA
1 TA
53036782 ACGTTGACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.32
Consensus pattern (21 bp):
TACTGCTCACAAATTAAATCA
Found at i:53040420 original size:16 final size:16
Alignment explanation
Indices: 53040401--53040451 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
53040391 AGTTAGTGTG
*
53040401 TATAAAAATATATATC
1 TATAAAAATATATATA
*
53040417 TATAAAAACATATATA
1 TATAAAAATATATATA
* *
53040433 TATATATATATATATA
1 TATAAAAATATATATA
53040449 TAT
1 TAT
53040452 GAGAAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAAAATATATATA
Found at i:53040431 original size:2 final size:2
Alignment explanation
Indices: 53040426--53040451 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
53040416 CTATAAAAAC
53040426 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
53040452 GAGAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53040431 original size:18 final size:17
Alignment explanation
Indices: 53040404--53040451 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
53040394 TAGTGTGTAT
*
53040404 AAAAATATATATCTATA
1 AAAAATATATATATATA
53040421 AAAACATATATATATAT-
1 AAAA-ATATATATATATA
* *
53040438 ATATATATATATAT
1 AAAAATATATATAT
53040452 GAGAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 10 0.37
17 6 0.22
18 11 0.41
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAATATATATATATA
Found at i:53041729 original size:106 final size:106
Alignment explanation
Indices: 53041612--53041823 Score: 415
Period size: 106 Copynumber: 2.0 Consensus size: 106
53041602 TTAGTAAAAT
53041612 ATAGATGTTTTTTAAAAAAAATTTTCCATCAAAAATATTTAGTAATTTGATTGATAGTATTCACA
1 ATAGATGTTTTTTAAAAAAAATTTTCCATCAAAAATATTTAGTAATTTGATTGATAGTATTCACA
53041677 GAAGGAAAAAAAAAAACCATCGAAATCATTTCAAAATCCCA
66 GAAGGAAAAAAAAAAACCATCGAAATCATTTCAAAATCCCA
*
53041718 ATAGATTTTTTTTAAAAAAAATTTTCCATCAAAAATATTTAGTAATTTGATTGATAGTATTCACA
1 ATAGATGTTTTTTAAAAAAAATTTTCCATCAAAAATATTTAGTAATTTGATTGATAGTATTCACA
53041783 GAAGGAAAAAAAAAAACCATCGAAATCATTTCAAAATCCCA
66 GAAGGAAAAAAAAAAACCATCGAAATCATTTCAAAATCCCA
53041824 TATATAATCA
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (106 bp):
ATAGATGTTTTTTAAAAAAAATTTTCCATCAAAAATATTTAGTAATTTGATTGATAGTATTCACA
GAAGGAAAAAAAAAAACCATCGAAATCATTTCAAAATCCCA
Found at i:53058467 original size:39 final size:39
Alignment explanation
Indices: 53058385--53058526 Score: 158
Period size: 39 Copynumber: 3.6 Consensus size: 39
53058375 AACTTCTAGA
* * *
53058385 TGCTGGAATTATATCCGGGCTTAAAGACCCGCAGGCTTCG
1 TGCTGGAACTATATCCGGACTT-AAGATCCGCAGGCTTCG
* *
53058425 TGCTGGAATTGTATCCGGACTTAAGATCCGCAGGCTTCG
1 TGCTGGAACTATATCCGGACTTAAGATCCGCAGGCTTCG
* ** * *
53058464 TGCTGGTACTATATCCAAACTTAAGGTCCACAGGCTTCG
1 TGCTGGAACTATATCCGGACTTAAGATCCGCAGGCTTCG
* * *
53058503 TACTGGTACTATATCCGGGCTTAA
1 TGCTGGAACTATATCCGGACTTAA
53058527 AGTCCTGTAG
Statistics
Matches: 88, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 68 0.77
40 20 0.23
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (39 bp):
TGCTGGAACTATATCCGGACTTAAGATCCGCAGGCTTCG
Found at i:53070368 original size:6 final size:6
Alignment explanation
Indices: 53070357--53070396 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
53070347 TTTGTGGTAT
53070357 AATATA AATATA AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATA
53070397 ATATTAGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:53071428 original size:16 final size:17
Alignment explanation
Indices: 53071402--53071435 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
53071392 AGTTAAATTA
53071402 ATTACATATGAATTATT
1 ATTACATATGAATTATT
*
53071419 ATTA-ATATGAGTTATT
1 ATTACATATGAATTATT
53071435 A
1 A
53071436 AATTTGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (17 bp):
ATTACATATGAATTATT
Found at i:53072089 original size:26 final size:25
Alignment explanation
Indices: 53072046--53072094 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
53072036 AACCCCACTA
53072046 ACCCACAAACCCAAACAATAACCCTT
1 ACCCACAAACCCAAACAA-AACCCTT
*
53072072 ACCCA-AAACCCATTACAAAACCC
1 ACCCACAAACCCA-AACAAAACCC
53072095 AAATACCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (25 bp):
ACCCACAAACCCAAACAAAACCCTT
Found at i:53084429 original size:131 final size:132
Alignment explanation
Indices: 53084268--53084658 Score: 441
Period size: 131 Copynumber: 3.0 Consensus size: 132
53084258 GAATTTGGAG
* * *
53084268 AACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAAC-AGGAGATCGTAACCCAGC
1 AACATGAGTGAAATCCTAAAGGAATATTCGATTATTTTGAACAAACGA-GAAATCGCAACCCAGC
* * * * **
53084332 ACGATAGAGAACGATTCCCCGAATTGCCAATCATCGAGCACTACCTTCGTTTTGGAGAATTTTTA
65 ACGATAGGGAACGATTCCCCGAATTGCCAAACATCGAACACTACCTTCATTTTAAAGAATTTTTA
53084397 -AA
130 GAA
* * * *
53084399 AGCATGAGTGAAATCCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCTAACA
1 AACATGAGTGAAATCCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCA
* * ** * * * *
53084464 CGATAGGGTACGACTCCCTAAATTGCCAAACATCGAACATTTCCTTTATTTTAAAGAGTTTTTAG
66 CGATAGGGAACGATTCCCCGAATTGCCAAACATCGAACACTACCTTCATTTTAAAGAATTTTTAG
53084529 AA
131 AA
* ** * *
53084531 AACATGAGTGAAATTCC--AAGGGACGTTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGC
1 AACATGAGTGAAA-TCCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGC
* * * * *
53084594 ACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAACA-TCGCCTTCATTTCAAAGAATTTTT
65 ACGATAGGGAACGATTCCCCGAATTGCCAAACATCGAACACT-ACCTTCATTTTAAAGAATTTTT
53084658 A
129 A
53084659 AATAGTTATA
Statistics
Matches: 216, Mismatches: 40, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
130 1 0.00
131 197 0.91
132 15 0.07
133 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (132 bp):
AACATGAGTGAAATCCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCA
CGATAGGGAACGATTCCCCGAATTGCCAAACATCGAACACTACCTTCATTTTAAAGAATTTTTAG
AA
Found at i:53088057 original size:14 final size:14
Alignment explanation
Indices: 53088038--53088064 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53088028 GAAAACAACC
53088038 AAAATAAATAAAAT
1 AAAATAAATAAAAT
53088052 AAAATAAATAAAA
1 AAAATAAATAAAA
53088065 CAAAGACTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:53089499 original size:9 final size:9
Alignment explanation
Indices: 53089485--53089514 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
53089475 TTGAGGAAAC
*
53089485 CTTGGTATG
1 CTTGGTTTG
53089494 CTTGGTTTG
1 CTTGGTTTG
53089503 CTTGGTTTG
1 CTTGGTTTG
53089512 CTT
1 CTT
53089515 TGTGGCTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.03, C:0.13, G:0.30, T:0.53
Consensus pattern (9 bp):
CTTGGTTTG
Found at i:53096881 original size:29 final size:28
Alignment explanation
Indices: 53096849--53096913 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
53096839 ATTTTACGTG
* *
53096849 TATAATTATAC-TAAATTAAAGTTTATTTA
1 TATAATTACACATAAATTAAAATTTA--TA
53096878 TATAATTACACATTAAATTAAAATTTATA
1 TATAATTACACA-TAAATTAAAATTTATA
53096907 TATAATT
1 TATAATT
53096914 TTAACATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 19 0.59
31 13 0.41
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (28 bp):
TATAATTACACATAAATTAAAATTTATA
Found at i:53098999 original size:16 final size:16
Alignment explanation
Indices: 53098980--53099030 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
53098970 TTTATGTATA
53098980 TATTTTCTTTTAAATC
1 TATTTTCTTTTAAATC
* *
53098996 TATTTAT-GTTT--ATA
1 TATTT-TCTTTTAAATC
53099010 TATTTTCTTTTAAATC
1 TATTTTCTTTTAAATC
53099026 TATTT
1 TATTT
53099031 ATGTTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
13 1 0.04
14 10 0.37
16 15 0.56
17 1 0.04
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTTTCTTTTAAATC
Found at i:53099010 original size:30 final size:30
Alignment explanation
Indices: 53098976--53099052 Score: 154
Period size: 30 Copynumber: 2.6 Consensus size: 30
53098966 TTATTTTATG
53098976 TATATATTTTCTTTTAAATCTATTTATGTT
1 TATATATTTTCTTTTAAATCTATTTATGTT
53099006 TATATATTTTCTTTTAAATCTATTTATGTT
1 TATATATTTTCTTTTAAATCTATTTATGTT
53099036 TATATATTTTCTTTTAA
1 TATATATTTTCTTTTAA
53099053 GTCTGTATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (30 bp):
TATATATTTTCTTTTAAATCTATTTATGTT
Found at i:53099021 original size:14 final size:14
Alignment explanation
Indices: 53098976--53099051 Score: 62
Period size: 14 Copynumber: 5.1 Consensus size: 14
53098966 TTATTTTATG
53098976 TATATATTTTCTTT
1 TATATATTTTCTTT
* * *
53098990 TAAATCTATTTATGTT
1 TATATAT-TTTCT-TT
53099006 TATATATTTTCTTT
1 TATATATTTTCTTT
* * *
53099020 TAAATCTATTTATGTT
1 TATATAT-TTTCT-TT
53099036 TATATATTTTCTTT
1 TATATATTTTCTTT
53099050 TA
1 TA
53099052 AGTCTGTATA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 16 0.35
15 16 0.35
16 14 0.30
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (14 bp):
TATATATTTTCTTT
Found at i:53099037 original size:16 final size:16
Alignment explanation
Indices: 53098988--53099037 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
53098978 TATATTTTCT
53098988 TTTAAATCTATTTATG
1 TTTAAATCTATTTATG
* * *
53099004 TTTATATAT-TTTCT-
1 TTTAAATCTATTTATG
53099018 TTTAAATCTATTTATG
1 TTTAAATCTATTTATG
53099034 TTTA
1 TTTA
53099038 TATATTTTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 7 0.27
15 8 0.31
16 11 0.42
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (16 bp):
TTTAAATCTATTTATG
Found at i:53099238 original size:6 final size:6
Alignment explanation
Indices: 53099227--53099259 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
53099217 TCATGCATTA
53099227 TTTATT TTTATT TTTATT TTTATT TCTTATT TT
1 TTTATT TTTATT TTTATT TTTATT T-TTATT TT
53099260 CTATCTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:53099841 original size:16 final size:17
Alignment explanation
Indices: 53099810--53099842 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53099800 TTCATAAGTA
53099810 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
53099827 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
53099843 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:53100191 original size:46 final size:46
Alignment explanation
Indices: 53100141--53100395 Score: 307
Period size: 46 Copynumber: 5.5 Consensus size: 46
53100131 CCATAGTGTA
* *
53100141 TTTCAACTATGGTCTTACTCATTTTCTGCCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* *
53100187 TTTCAACCATGGTCTTATTC-TTTTCATGTCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
* * * * *
53100233 TTTCAACCATGGTTTTATTCATTTTATGTCACGCTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* * *
53100279 TTTCAACCCTGGTCTTAATTCATTTCCTGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTT-ACTCATTTTCTGTCATGTTGCCATGGTATC
* * * * *
53100326 TTTCAACCGTGGTCTTACACA-TTGCATATCATGCTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
*
53100372 TTTCAACCATGGTCTTACACATTT
1 TTTCAACCATGGTCTTACTCATTT
53100396 CATTTCGGAA
Statistics
Matches: 184, Mismatches: 20, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
45 8 0.04
46 129 0.70
47 47 0.26
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
Found at i:53100362 original size:93 final size:93
Alignment explanation
Indices: 53100170--53100388 Score: 314
Period size: 93 Copynumber: 2.4 Consensus size: 93
53100160 CATTTTCTGC
* *
53100170 CATGTTGCCATGGTATCTTTCAACCATGGTCTT-ATTCTTTTCATGTCACGTTGCCATGGTATCT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTAATTCATTTCATGTCACGTTGCCATGGTATCT
* ** ** *
53100234 TTCAACCATGGTTTTATTCATTTTATGT
66 TTCAACCATGGTCTTACACATTGCATAT
* * * *
53100262 CACGCTGCCATGGTATCTTTCAACCCTGGTCTTAATTCATTTCCTGTCATGTTGCCATGGTATCT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTAATTCATTTCATGTCACGTTGCCATGGTATCT
*
53100327 TTCAACCGTGGTCTTACACATTGCATAT
66 TTCAACCATGGTCTTACACATTGCATAT
53100355 CATGCTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTA
53100389 CACATTTCAT
Statistics
Matches: 111, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
92 30 0.27
93 81 0.73
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (93 bp):
CATGCTGCCATGGTATCTTTCAACCATGGTCTTAATTCATTTCATGTCACGTTGCCATGGTATCT
TTCAACCATGGTCTTACACATTGCATAT
Found at i:53100395 original size:139 final size:138
Alignment explanation
Indices: 53100141--53100395 Score: 357
Period size: 139 Copynumber: 1.8 Consensus size: 138
53100131 CCATAGTGTA
* * **
53100141 TTTCAACTATGGTCTTACTCATTTTCTGCCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
1 TTTCAACCATGGTCTTACTCATTTCCTGCCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
* * * * * **
53100206 CTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTTTTATTCATTTTATGTCACGCTGCC
66 CATTGCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATGTCACGCTGCC
53100271 ATGGTATC
131 ATGGTATC
* * * *
53100279 TTTCAACCCTGGTCTTAATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCGTGGTCTTAC
1 TTTCAACCATGGTCTT-ACTCATTTCCTGCCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
*
53100344 ACATTGCATATCATGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
65 ACATTGCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
53100396 CATTTCGGAA
Statistics
Matches: 100, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
138 14 0.14
139 86 0.86
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (138 bp):
TTTCAACCATGGTCTTACTCATTTCCTGCCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
CATTGCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATGTCACGCTGCC
ATGGTATC
Found at i:53101514 original size:201 final size:201
Alignment explanation
Indices: 53101159--53101561 Score: 788
Period size: 201 Copynumber: 2.0 Consensus size: 201
53101149 TCTATATTTT
*
53101159 TCATCATTTGCTTTTATGAATATTCAAGCTGTCCATCTGTATCATAGTCACTAAATTATTCATAT
1 TCATCATTTACTTTTATGAATATTCAAGCTGTCCATCTGTATCATAGTCACTAAATTATTCATAT
53101224 CTGGATCTATAGAACTCCAAATTAAGATCCACTAATTTTTTCTGAAACTAGACTCATATATCTTC
66 CTGGATCTATAGAACTCCAAATTAAGATCCACTAATTTTTTCTGAAACTAGACTCATATATCTTC
53101289 TTACCATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTTTATTCTTTAAAGTTACCC
131 TTACCATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTTTATTCTTTAAAGTTACCC
53101354 CTATTC
196 CTATTC
*
53101360 TCATTATTTACTTTTATGAATATTCAAGCTGTCCATCTGTATCATAGTCACTAAATTATTCATAT
1 TCATCATTTACTTTTATGAATATTCAAGCTGTCCATCTGTATCATAGTCACTAAATTATTCATAT
53101425 CTGGATCTATAGAACTCCAAATTAAGATCCACTAATTTTTTCTGAAACTAGACTCATATATCTTC
66 CTGGATCTATAGAACTCCAAATTAAGATCCACTAATTTTTTCTGAAACTAGACTCATATATCTTC
53101490 TTACCATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTTTATTCTTTAAAGTTACCC
131 TTACCATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTTTATTCTTTAAAGTTACCC
53101555 CTATTC
196 CTATTC
53101561 T
1 T
53101562 ATTGTCTGAC
Statistics
Matches: 200, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 200 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.41
Consensus pattern (201 bp):
TCATCATTTACTTTTATGAATATTCAAGCTGTCCATCTGTATCATAGTCACTAAATTATTCATAT
CTGGATCTATAGAACTCCAAATTAAGATCCACTAATTTTTTCTGAAACTAGACTCATATATCTTC
TTACCATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTTTATTCTTTAAAGTTACCC
CTATTC
Found at i:53104904 original size:26 final size:26
Alignment explanation
Indices: 53104873--53104980 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
53104863 TGAAATTCCC
*
53104873 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
53104899 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
53104925 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
53104951 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
53104977 ATCA
1 ATCA
53104981 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:53106405 original size:127 final size:126
Alignment explanation
Indices: 53106179--53106422 Score: 416
Period size: 127 Copynumber: 1.9 Consensus size: 126
53106169 TCCTTTACCG
* *
53106179 TTTAACCCAAACTCAAAAGTTTCCCCTTCCTTAACTTGTTGAAAACGAGCAACCAAAGACTCATA
1 TTTAAACCAAACTCAAAAGTTTCCCCTTCCTTAACTTGTTGAAAACGAGAAACCAAAGACTCATA
* *
53106244 TTCCAATTGCTTTTCCTTAATCTGGTCCACCCAGGTTGGCCTTACTTGCAANTCCATCACCA
66 TTCCAACTGCTTTTCCTTAATCTAGTCCACCCAGGTTGGCCTTACTTGCAA-TCCATCACCA
* * *
53106306 TTTAAACCGAACTCAGAAGTTTCCCCTTCCTTAACTTGTTGAAAACGAGAAACCAAAGACTCATC
1 TTTAAACCAAACTCAAAAGTTTCCCCTTCCTTAACTTGTTGAAAACGAGAAACCAAAGACTCATA
53106371 TTCCAACTGCTTTTCCTTAATCTAGTCCACCCAGGTTGGCCTTACTTGCAAT
66 TTCCAACTGCTTTTCCTTAATCTAGTCCACCCAGGTTGGCCTTACTTGCAAT
53106423 TCAGCCAACA
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
126 1 0.01
127 109 0.99
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.30
Consensus pattern (126 bp):
TTTAAACCAAACTCAAAAGTTTCCCCTTCCTTAACTTGTTGAAAACGAGAAACCAAAGACTCATA
TTCCAACTGCTTTTCCTTAATCTAGTCCACCCAGGTTGGCCTTACTTGCAATCCATCACCA
Found at i:53111753 original size:14 final size:14
Alignment explanation
Indices: 53111734--53111760 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53111724 GAAAACAACC
53111734 AAAATAAATAAAAT
1 AAAATAAATAAAAT
53111748 AAAATAAATAAAA
1 AAAATAAATAAAA
53111761 CAAAGACTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:53113173 original size:9 final size:9
Alignment explanation
Indices: 53113159--53113188 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
53113149 TTGAGGAAAC
*
53113159 CTTGGTATG
1 CTTGGTTTG
53113168 CTTGGTTTG
1 CTTGGTTTG
53113177 CTTGGTTTG
1 CTTGGTTTG
53113186 CTT
1 CTT
53113189 TGTGGCTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.03, C:0.13, G:0.30, T:0.53
Consensus pattern (9 bp):
CTTGGTTTG
Found at i:53116196 original size:567 final size:567
Alignment explanation
Indices: 53115122--53116256 Score: 2270
Period size: 567 Copynumber: 2.0 Consensus size: 567
53115112 TTTAGTTTTT
53115122 TCGATTTTTCAGAAGAGTGTTCCGTCTTTAATACGGGCCGACAAATTCCATCCAACATAGCGATG
1 TCGATTTTTCAGAAGAGTGTTCCGTCTTTAATACGGGCCGACAAATTCCATCCAACATAGCGATG
53115187 AAATCTACGGCTTAATGTTAAATCGATACATTGCCTTACTTATTAAAAAACAAGAATAAGATTTT
66 AAATCTACGGCTTAATGTTAAATCGATACATTGCCTTACTTATTAAAAAACAAGAATAAGATTTT
53115252 TTGAAATAATGCAAAGCAAATTAATAAATAAAAATAAATAGAAGACAGATCTAGAAGTATATTGA
131 TTGAAATAATGCAAAGCAAATTAATAAATAAAAATAAATAGAAGACAGATCTAGAAGTATATTGA
53115317 AGCAAATATAAGTGTGACAATAATATTACAAACAATAAAGATGTATGCGATATTAGACGTAATAC
196 AGCAAATATAAGTGTGACAATAATATTACAAACAATAAAGATGTATGCGATATTAGACGTAATAC
53115382 GAGAATTAAACATGAAATGGAAACGGTGAATGTACATGTATACGCGTATAATAATGATATTAAGA
261 GAGAATTAAACATGAAATGGAAACGGTGAATGTACATGTATACGCGTATAATAATGATATTAAGA
53115447 GTATGTACGTAATATATATATAAATAGTAATAGTGTCAGAAATATACTATATATAGTTTTTGAAA
326 GTATGTACGTAATATATATATAAATAGTAATAGTGTCAGAAATATACTATATATAGTTTTTGAAA
53115512 TCTATACATAAAATAGTAAAAAAATATATATAACTTGTATTGTTAAAATATATACATAATATATA
391 TCTATACATAAAATAGTAAAAAAATATATATAACTTGTATTGTTAAAATATATACATAATATATA
53115577 CATATATATGTATAAAATGAATATTGAAAAATGTATGTACATGACATATATGAAAAATACATTAA
456 CATATATATGTATAAAATGAATATTGAAAAATGTATGTACATGACATATATGAAAAATACATTAA
53115642 AATAAAATTAAAATAAGTGATGATGGTGAAAATAATAGGTAGAATAA
521 AATAAAATTAAAATAAGTGATGATGGTGAAAATAATAGGTAGAATAA
53115689 TCGATTTTTCAGAAGAGTGTTCCGTCTTTAATACGGGCCGACAAATTCCATCCAACATAGCGATG
1 TCGATTTTTCAGAAGAGTGTTCCGTCTTTAATACGGGCCGACAAATTCCATCCAACATAGCGATG
53115754 AAATCTACGGCTTAATGTTAAATCGATACATTGCCTTACTTATTAAAAAACAAGAATAAGATTTT
66 AAATCTACGGCTTAATGTTAAATCGATACATTGCCTTACTTATTAAAAAACAAGAATAAGATTTT
53115819 TTGAAATAATGCAAAGCAAATTAATAAATAAAAATAAATAGAAGACAGATCTAGAAGTATATTGA
131 TTGAAATAATGCAAAGCAAATTAATAAATAAAAATAAATAGAAGACAGATCTAGAAGTATATTGA
53115884 AGCAAATATAAGTGTGACAATAATATTACAAACAATAAAGATGTATGCGATATTAGACGTAATAC
196 AGCAAATATAAGTGTGACAATAATATTACAAACAATAAAGATGTATGCGATATTAGACGTAATAC
53115949 GAGAATTAAACATGAAATGGAAACGGTGAATGTACATGTATACGCGTATAATAATGATATTAAGA
261 GAGAATTAAACATGAAATGGAAACGGTGAATGTACATGTATACGCGTATAATAATGATATTAAGA
53116014 GTATGTACGTAATATATATATAAATAGTAATAGTGTCAGAAATATACTATATATAGTTTTTGAAA
326 GTATGTACGTAATATATATATAAATAGTAATAGTGTCAGAAATATACTATATATAGTTTTTGAAA
53116079 TCTATACATAAAATAGTAAAAAAATATATATAACTTGTATTGTTAAAATATATACATAATATATA
391 TCTATACATAAAATAGTAAAAAAATATATATAACTTGTATTGTTAAAATATATACATAATATATA
53116144 CATATATATGTATAAAATGAATATTGAAAAATGTATGTACATGACATATATGAAAAATACATTAA
456 CATATATATGTATAAAATGAATATTGAAAAATGTATGTACATGACATATATGAAAAATACATTAA
53116209 AATAAAATTAAAATAAGTGATGATGGTGAAAATAATAGGTAGAATAA
521 AATAAAATTAAAATAAGTGATGATGGTGAAAATAATAGGTAGAATAA
53116256 T
1 T
53116257 AAATATACGA
Statistics
Matches: 568, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
567 568 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (567 bp):
TCGATTTTTCAGAAGAGTGTTCCGTCTTTAATACGGGCCGACAAATTCCATCCAACATAGCGATG
AAATCTACGGCTTAATGTTAAATCGATACATTGCCTTACTTATTAAAAAACAAGAATAAGATTTT
TTGAAATAATGCAAAGCAAATTAATAAATAAAAATAAATAGAAGACAGATCTAGAAGTATATTGA
AGCAAATATAAGTGTGACAATAATATTACAAACAATAAAGATGTATGCGATATTAGACGTAATAC
GAGAATTAAACATGAAATGGAAACGGTGAATGTACATGTATACGCGTATAATAATGATATTAAGA
GTATGTACGTAATATATATATAAATAGTAATAGTGTCAGAAATATACTATATATAGTTTTTGAAA
TCTATACATAAAATAGTAAAAAAATATATATAACTTGTATTGTTAAAATATATACATAATATATA
CATATATATGTATAAAATGAATATTGAAAAATGTATGTACATGACATATATGAAAAATACATTAA
AATAAAATTAAAATAAGTGATGATGGTGAAAATAATAGGTAGAATAA
Found at i:53116434 original size:23 final size:22
Alignment explanation
Indices: 53116394--53116449 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
53116384 CCAATTTCAC
53116394 ATAAAGATATACCTA-TATATATA
1 ATAAAGATATA--TACTATATATA
* *
53116417 TTAAAGATATATAC-ATATGTA
1 ATAAAGATATATACTATATATA
53116438 ATAAA-ATATATA
1 ATAAAGATATATA
53116450 AATAACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.24
21 12 0.41
23 10 0.34
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (22 bp):
ATAAAGATATATACTATATATA
Found at i:53116562 original size:31 final size:32
Alignment explanation
Indices: 53116488--53116562 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 32
53116478 GCAATATGTC
53116488 TGATAAAAATAATAATATACATAATATATAAAA
1 TGAT-AAAATAATAATATACATAATATATAAAA
*
53116521 -AATACAAATAAT-ATATACAT-ATACTA-AAAA
1 TGATA-AAATAATAATATACATAATA-TATAAAA
53116551 TGATAATAATAA
1 TGATAA-AATAA
53116563 AAAATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
30 8 0.22
31 19 0.53
32 9 0.25
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (32 bp):
TGATAAAATAATAATATACATAATATATAAAA
Found at i:53116633 original size:3 final size:3
Alignment explanation
Indices: 53116614--53116655 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
53116604 TCTATGTACC
*
53116614 AAT AAT ATT AAT AAAT AAT AGAT AAT AAT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA
53116656 CGATAATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:53116660 original size:23 final size:21
Alignment explanation
Indices: 53116627--53116669 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
53116617 AATATTAATA
53116627 AATAATAGATAATAATAAAAT
1 AATAATAGATAATAATAAAAT
*
53116648 AATAATAACGATAATAGTAAAA
1 AATAAT-A-GATAATAATAAAA
53116670 ATACAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
AATAATAGATAATAATAAAAT
Found at i:53116906 original size:24 final size:23
Alignment explanation
Indices: 53116858--53116906 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
53116848 TAAGTATGGT
53116858 ATAATATAACAATGATAATAATA
1 ATAATATAACAATGATAATAATA
53116881 ATAA-ATAACAATGAT-ATAATA
1 ATAATATAACAATGATAATAATA
53116902 ATAAT
1 ATAAT
53116907 CTAGTGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.40
22 11 0.44
23 4 0.16
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
ATAATATAACAATGATAATAATA
Found at i:53117710 original size:133 final size:133
Alignment explanation
Indices: 53117472--53117729 Score: 399
Period size: 133 Copynumber: 1.9 Consensus size: 133
53117462 AGGTAAACCT
* * * * *
53117472 TGAAGTTGCAGTGGAGTAGATCGAAGACGGTGAATCCTGTCTTCCTGAAGTTGCAGTGAAGCAGA
1 TGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCCTGGCTTCCTGAAGTTGCAGTAAAGCAGA
* *
53117537 TTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGCAGAGTAAGCTAAAGATTGTAGATCTTGTTT
66 TTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGCAGAGTAAGCTAAAGATTGCAGATCTTGTTT
53117602 CCC
131 CCC
* *
53117605 TGAAGTTGCAGTGGAGCGGATCGAAAACGGCGAATCTTGGCTTCCTGAAGTTGCAGTAAAGCAGA
1 TGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCCTGGCTTCCTGAAGTTGCAGTAAAGCAGA
** * *
53117670 TTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTACGCTGAAGATTGCAGATCT
66 TTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGCAGAGTAAGCTAAAGATTGCAGATCT
53117730 CGTCTCCAGT
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 112 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (133 bp):
TGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCCTGGCTTCCTGAAGTTGCAGTAAAGCAGA
TTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGCAGAGTAAGCTAAAGATTGCAGATCTTGTTT
CCC
Found at i:53120848 original size:131 final size:132
Alignment explanation
Indices: 53120527--53120885 Score: 436
Period size: 131 Copynumber: 2.7 Consensus size: 132
53120517 AAGGCGATGT
* * * *
53120527 TCGATATTTGGCAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAA
* * * ***
53120592 AATAATCGAAT-GTCCCTTGGAATTTCACTCATGTTTTCTAAAAACTCTTTTAAACAAAGGAAAT
66 AATAATCGAATATTCCTTTGGAATTTCACTCATGCTTTCTAAAAACTCTCCAAAACAAAGGAAAT
*
53120656 GT
131 GC
* * * *
53120658 TCGATGTTTGGCAATTCGGAGAGTCGTACCCTATCGTGTTGGGTTGCGATTTCTCGTTTGTTCAA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAA
* * * * * *
53120723 AACAATCGAATATTCCTTTGGGATTTCACTCATGCTTT-TAAAAATTCTCCAAAACGAAGGTAGT
66 AATAATCGAATATTCCTTTGGAATTTCACTCATGCTTTCTAAAAACTCTCCAAAACAAAGGAAAT
53120787 GC
131 GC
* * * * *
53120789 TCGATGTTTGGCAATTCGGGGAATCGTGCTCTATCGTACTGGGTTGTGATCTC-CTGTTTGTTTA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTC-GTTTGTTCA
* *
53120853 AAATAATCAAATATTCCTTTAGAATTTCACTCA
65 AAATAATCGAATATTCCTTTGGAATTTCACTCA
53120886 CGTTCTCCAA
Statistics
Matches: 192, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
130 1 0.01
131 169 0.88
132 22 0.11
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (132 bp):
TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAA
AATAATCGAATATTCCTTTGGAATTTCACTCATGCTTTCTAAAAACTCTCCAAAACAAAGGAAAT
GC
Found at i:53122159 original size:19 final size:19
Alignment explanation
Indices: 53122135--53122232 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
53122125 AATCTTTAAG
53122135 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
53122154 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
53122173 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
53122192 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
53122209 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
53122230 GAT
1 GAT
53122233 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:53131235 original size:45 final size:45
Alignment explanation
Indices: 53131166--53131840 Score: 453
Period size: 45 Copynumber: 15.7 Consensus size: 45
53131156 TCATTGGGGC
* * *
53131166 AGATACAAGATGACAGATCTTATCTCTCTATAATGGGCGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* *
53131211 AGATCCAAGATGACAGATCTTATCTCTCTGTATTTGACGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * * *
53131256 AGATCAAAGATATAGCAGATCTGA---C-CT-TCAT---C-GGG-GC
1 AGATCCAAGAT-GA-CAGATCTTATCTCTCTGTAATGGACGGGGAGT
* *
53131293 AGATCCAAGATGACAGATCTTATCTCTCTATAATGGATGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * *
53131338 GGATCAAAGATGACAGATCTTATCTCTTTGTAATGGGCGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* *
53131383 AGATCCAAGATGACAGATCTTATCTCTTTGTAATGGGCGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * *
53131428 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACTGGGAGC
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * * *
53131473 AGATCGAAGACAT-AGTAGATCTGA---C-CT-TCAT---C-GGG-GC
1 AGATCCAAG--ATGA-CAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * *
53131510 AGATCCAAGATGACAGATCTTATATCTCTGTAATGGGCGGAGAAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* *
53131555 AGATCTAAGATGACAGATCTTATCTCTCTGTAATGGACGGAGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * *
53131600 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGATGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* ** * *
53131645 AGAT-CAA-A-GACATATCAGATCTGAC-CT-TCAT---C-GGG-GC
1 AGATCCAAGATGACAGATCTTATCT--CTCTGTAATGGACGGGGAGT
* * * *
53131682 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGC
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * * * *
53131727 AAATCAAAGACAT-AGCAGATCTGA---C-CT-TCAT---C-GAG-GC
1 AGATCCAAG--ATGA-CAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * * * *
53131764 AGATCCAAGATGGCGGATCTTATCCCTCCGTAATGGACGGAGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
53131809 AGATCCAAGATGACAGATCTTATCTCTCTGTA
1 AGATCCAAGATGACAGATCTTATCTCTCTGTA
53131841 TTCAATGGGG
Statistics
Matches: 495, Mismatches: 83, Indels: 104
0.73 0.12 0.15
Matches are distributed among these distances:
35 26 0.05
36 2 0.00
37 35 0.07
38 17 0.03
39 11 0.02
40 22 0.04
42 19 0.04
43 12 0.02
44 17 0.03
45 304 0.61
46 3 0.01
47 27 0.05
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (45 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
Found at i:53131316 original size:127 final size:125
Alignment explanation
Indices: 53131090--53131736 Score: 524
Period size: 127 Copynumber: 5.0 Consensus size: 125
53131080 GAACAAGTTG
* ** *
53131090 AAGATAACAGATCTTATCTCTCTGTATTCGACGGGGAACAGATCGAAGACTTAGCAGATCTGACC
1 AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGA-TTA-CAGATCTGACC
* * * *
53131155 TTCATTGGGGCAGATACAAGATGACAGATCTTATCTCTCTATAATGGGCGGGGAGTAGATCC
64 TTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGACGGGGAGTAGATCA
*
53131217 AAGATGACAGATCTTATCTCTCTGTATTTGACGGGGAGTAGATCAAAGATATAGCAGATCTGACC
1 AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGAT-TA-CAGATCTGACC
* *
53131282 TTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGATGGGGAGTGGATCA
64 TTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGACGGGGAGTAGATCA
* * * * * * *
53131344 AAGATGACAGATCTTATCTCTTTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTC
1 AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATTACAGATCTGA-C-C
* * * * * * *
53131409 TTTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACTGGGAGCA
64 --T-TCAT---C-GGG-GCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGACGGGGAGTA
53131474 GATCGA
121 GATC-A
* * * * * * * *
53131480 AGACAT-AGTAGATCTGA-C-CT-T-CA-T---C-GGG-GCAGATCCAAGATGACAGATCTTATA
1 A-AGATGA-CAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATTACAGATC-T-GA
* ** * * *
53131534 TCTCTGTAATGGGCGGAGAATAGATCTAAGATGACAGATCTTATCTCTCTGTAATGGACGGAGAG
62 -C-CT-TCAT---CGG-G-GCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGACGGGGAG
*
53131599 TAGATCT
119 TAGATCA
* *
53131606 AAGATGACAGATCTTATCTCTCTGTATTCGATGGGGAGTAGATCAAAGACATATCAGATCTGACC
1 AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGA-TTA-CAGATCTGACC
* * * * * *
53131671 TTCATCGGGGCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAAATCA
64 TTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGACGGGGAGTAGATCA
53131733 AAGA
1 AAGA
53131737 CATAGCAGAT
Statistics
Matches: 431, Mismatches: 59, Indels: 60
0.78 0.11 0.11
Matches are distributed among these distances:
125 18 0.04
126 8 0.02
127 288 0.67
128 6 0.01
129 12 0.03
130 4 0.01
132 4 0.01
133 4 0.01
134 8 0.02
135 57 0.13
136 6 0.01
137 16 0.04
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (125 bp):
AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCAAAGATTACAGATCTGACCTT
CATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGACGGGGAGTAGATCA
Found at i:53131522 original size:172 final size:172
Alignment explanation
Indices: 53131090--53131713 Score: 727
Period size: 172 Copynumber: 3.6 Consensus size: 172
53131080 GAACAAGTTG
* * * *
53131090 AAGATAACAGATCTTATCTCTCTGTATTCGACGGGGAACAGATCGAAGACTTAGCAGATCTGACC
1 AAGATGACAGATCTTATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGCAGATCTGACC
* * *
53131155 TTCATTGGGGCAGATACAAGATGACAGATCTTATCTCTCTATAATGGGCGGGGAGTAGATCCAAG
66 TTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAG
* *
53131220 ATGACAGATCTTATCTCTCTGTATTTGACGGGGAGTAGATCA
131 ATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCA
* * * * *
53131262 AAGATATAGCAGATCTGA-C-CT-T-CA-T---C-GGG-GCAGATCCAAG--AT-GACAGATCTT
1 AAGAT-GA-CAGATCTTATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAG-CAGATCTG
* * * * *
53131314 ATCTCTCTATAATGGATGGGGAGTGGATCAAAGATGACAGATCTTATCTCTTTGTAATGGGCGGG
63 A---C-CT-TCATCG--GGGCA---GATCCAAGATGACAGATCTTATCTCTCTGTAATGGGCGGG
* * *
53131379 GAGTAGATCCAAGATGACAGATCTTATCTCTTTGTAATGGGCGGGGAGTAGATCC
118 GAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCA
*
53131434 AAGATGACAGATCTTATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGTAGATCTGACC
1 AAGATGACAGATCTTATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGCAGATCTGACC
* * * *
53131499 TTCATCGGGGCAGATCCAAGATGACAGATCTTATATCTCTGTAATGGGCGGAGAATAGATCTAAG
66 TTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAG
* *
53131564 ATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCT
131 ATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCA
* * *
53131606 AAGATGACAGATCTTATCTCTCTGTATTCGA-TGGGGAGTAGATCAAAGACATATCAGATCTGAC
1 AAGATGACAGATCTTATCTCTCTGTATTCGACT-GGGAGCAGATCGAAGACATAGCAGATCTGAC
*
53131670 CTTCATCGGGGCAGATCTAAGATGACAGATCTTATCTCTCTGTA
65 CTTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCTGTA
53131714 TTCGACGGGG
Statistics
Matches: 381, Mismatches: 44, Indels: 54
0.80 0.09 0.11
Matches are distributed among these distances:
161 1 0.00
162 9 0.02
164 9 0.02
165 4 0.01
166 3 0.01
167 4 0.01
169 5 0.01
170 9 0.02
171 4 0.01
172 285 0.75
173 3 0.01
174 9 0.02
175 5 0.01
177 4 0.01
178 3 0.01
179 4 0.01
180 10 0.03
182 9 0.02
183 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (172 bp):
AAGATGACAGATCTTATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGCAGATCTGACC
TTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAG
ATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCA
Found at i:53131559 original size:82 final size:82
Alignment explanation
Indices: 53131428--53131818 Score: 394
Period size: 82 Copynumber: 4.7 Consensus size: 82
53131418 GGCGGGGAGT
* * *
53131428 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACTGG-GAGCAGATCGAAGACATAGTAGA
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGAC-GGAGAGTAGATCAAAGACATAGCAGA
53131492 TCTGACCTTCATCGGGGC
65 TCTGACCTTCATCGGGGC
* * * * * *
53131510 AGATCCAAGATGACAGATCTTATATCTCTGTAATGGGCGGAGAATAGATCTAAG--AT-GACAGA
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGAGAGTAGATCAAAGACATAG-CAGA
* * *
53131572 TCTTATCTCTCTGTAATGGACGGAGAGT
65 TCTGA---C-CT-TCAT---CGG-G-GC
* * * *
53131600 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGATGGGGAGTAGATCAAAGACATATCAGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGAGAGTAGATCAAAGACATAGCAGAT
53131665 CTGACCTTCATCGGGGC
66 CTGACCTTCATCGGGGC
* * * *
53131682 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAAATCAAAGACATAGCAGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGAGAGTAGATCAAAGACATAGCAGAT
*
53131747 CTGACCTTCATCGAGGC
66 CTGACCTTCATCGGGGC
* * * * * * *
53131764 AGATCCAAGATGGCGGATCTTATCCCTCCGTAATGGACGGAGAGTAGATCCAAGA
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGAGAGTAGATCAAAGA
53131819 TGACAGATCT
Statistics
Matches: 254, Mismatches: 40, Indels: 30
0.78 0.12 0.09
Matches are distributed among these distances:
79 1 0.00
80 9 0.04
81 2 0.01
82 166 0.65
83 2 0.01
84 5 0.02
85 3 0.01
87 3 0.01
88 5 0.02
89 2 0.01
90 46 0.18
92 10 0.04
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (82 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGAGAGTAGATCAAAGACATAGCAGAT
CTGACCTTCATCGGGGC
Found at i:53131567 original size:217 final size:217
Alignment explanation
Indices: 53131166--53131654 Score: 744
Period size: 217 Copynumber: 2.3 Consensus size: 217
53131156 TCATTGGGGC
* *
53131166 AGATACAAGATGACAGATCTTATCTCTCTATAATGGGCGGGGAGTAGATCCAAGATGACAGATCT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCT
* * *
53131231 TATCTCTCTGTATTTGACGGGGAGTAGATCAAAGATATAGCAGATCTGACCTTCATCGGGGCAGA
66 TATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGGGGCAGA
* * * * *
53131296 TCCAAGATGACAGATCTTATCTCTCTATAATGGATGGGGAGTGGATCAAAGATGACAGATCTTAT
131 TCCAAGATGACAGATCTTATATCTCTATAATGGACGGAGAATAGATCAAAGATGACAGATCTTAT
* * *
53131361 CTCTTTGTAATGGGCGGGGAGT
196 CTCTCTGTAATGGACGGAGAGT
*
53131383 AGATCCAAGATGACAGATCTTATCTCTTTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCT
* * *
53131448 TATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATCGGGGCAGA
66 TATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGGGGCAGA
* * *
53131513 TCCAAGATGACAGATCTTATATCTCTGTAATGGGCGGAGAATAGATCTAAGATGACAGATCTTAT
131 TCCAAGATGACAGATCTTATATCTCTATAATGGACGGAGAATAGATCAAAGATGACAGATCTTAT
53131578 CTCTCTGTAATGGACGGAGAGT
196 CTCTCTGTAATGGACGGAGAGT
* * * ** *
53131600 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGATGGGGAGTAGATCAAAGA
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGA
53131655 CATATCAGAT
Statistics
Matches: 245, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
217 245 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (217 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCT
TATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGGGGCAGA
TCCAAGATGACAGATCTTATATCTCTATAATGGACGGAGAATAGATCAAAGATGACAGATCTTAT
CTCTCTGTAATGGACGGAGAGT
Found at i:53131813 original size:127 final size:127
Alignment explanation
Indices: 53131383--53131903 Score: 487
Period size: 127 Copynumber: 4.1 Consensus size: 127
53131373 GGCGGGGAGT
* * *
53131383 AGATCCAAGATGACAGATCTTATCTCTTTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCT
1 AGATCCAAGATGACAGATCTTATCCCTCTGTAATGGGCGGAGAGTAGATCCAAGATGACAGATCT
* * * *
53131448 TATCTCTCTGTATTCGACTGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATCGGGGC
66 TATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGC
** * *
53131510 AGATCCAAGATGACAGATCTTATATCTCTGTAATGGGCGGAGAATAGATCTAAGATGACAGATCT
1 AGATCCAAGATGACAGATCTTATCCCTCTGTAATGGGCGGAGAGTAGATCCAAGATGACAGATCT
* * * * * * *
53131575 TATCTCTCTGTAATGGACGGAGAGTAGATCTAAG--AT-GACAGATCTTATCTCTCTGTATTCGA
66 TATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAG-CAGATCTGA-C-CT-T-CA-TCGA
*
53131637 TGGGGAGT
125 ----G-GC
* * * * *
53131645 AGATCAAAGACAT-ATCAGATCTGA---C-CT-TCAT---CGG-G-GCAGATCTAAGATGACAGA
1 AGATCCAAG--ATGA-CAGATCTTATCCCTCTGTAATGGGCGGAGAGTAGATCCAAGATGACAGA
*
53131699 TCTTATCTCTCTGTATTCGACGGGGAGCAAATCAAAGACATAGCAGATCTGACCTTCATCGAGGC
63 TCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGC
* * * *
53131764 AGATCCAAGATGGCGGATCTTATCCCTCCGTAATGGACGGAGAGTAGATCCAAGATGACAGATCT
1 AGATCCAAGATGACAGATCTTATCCCTCTGTAATGGGCGGAGAGTAGATCCAAGATGACAGATCT
* * * * * *
53131829 TATCTCTCTGTATTCAATGGGGAGCAGATCGAAA-ACATAGTAGATCTGACTTTCATCAAAGC
66 TATCTCTCTGTATTCGACGGGGAGCAGATC-AAAGACATAGCAGATCTGACCTTCATCGAGGC
53131891 AGATCCAAGATGA
1 AGATCCAAGATGA
53131904 TTTGGCATCT
Statistics
Matches: 319, Mismatches: 46, Indels: 58
0.75 0.11 0.14
Matches are distributed among these distances:
117 9 0.03
119 9 0.03
120 2 0.01
121 1 0.00
122 3 0.01
124 5 0.02
125 13 0.04
126 3 0.01
127 223 0.70
128 6 0.02
129 14 0.04
130 4 0.01
132 3 0.01
133 2 0.01
134 2 0.01
135 9 0.03
136 1 0.00
137 10 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (127 bp):
AGATCCAAGATGACAGATCTTATCCCTCTGTAATGGGCGGAGAGTAGATCCAAGATGACAGATCT
TATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGC
Found at i:53131858 original size:45 final size:45
Alignment explanation
Indices: 53131762--53131858 Score: 104
Period size: 45 Copynumber: 2.2 Consensus size: 45
53131752 CTTCATCGAG
* * **
53131762 GCAGATCCAAGATGGCGGATCTTATCCCTCCGTAATGGACGGAGA
1 GCAGATCCAAGATGACAGATCTTATCCCTCCGTAATCAACGGAGA
* * * * * *
53131807 GTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCAATGGGGA
1 GCAGATCCAAGATGACAGATCTTATCCCTCCGTAATCAACGGAGA
53131852 GCAGATC
1 GCAGATC
53131859 GAAAACATAG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (45 bp):
GCAGATCCAAGATGACAGATCTTATCCCTCCGTAATCAACGGAGA
Found at i:53133509 original size:18 final size:19
Alignment explanation
Indices: 53133486--53133531 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
53133476 TTATATAGCA
53133486 TTTAT-TAGATTTTTTACT
1 TTTATATAGATTTTTTACT
*
53133504 TTTATTATATATTTTTTACT
1 TTTA-TATAGATTTTTTACT
53133524 TATTATAT
1 T-TTATAT
53133532 TATTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.17
19 1 0.04
20 16 0.67
21 3 0.12
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTATATAGATTTTTTACT
Found at i:53133519 original size:21 final size:19
Alignment explanation
Indices: 53133494--53133550 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
53133484 CATTTATTAG
53133494 ATTTTTTACTT-TTATTATAT
1 ATTTTTTACTTATTA-TAT-T
53133514 ATTTTTTACTTATTATATT
1 ATTTTTTACTTATTATATT
53133533 A-TTTTTA-TTA-TATATT
1 ATTTTTTACTTATTATATT
53133549 AT
1 AT
53133551 GTATATCGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.20
17 3 0.09
18 6 0.17
19 2 0.06
20 14 0.40
21 3 0.09
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTTACTTATTATATT
Found at i:53133582 original size:16 final size:16
Alignment explanation
Indices: 53133511--53133595 Score: 56
Period size: 16 Copynumber: 5.6 Consensus size: 16
53133501 ACTTTTATTA
*
53133511 TATATTTTTTA-CTTAT
1 TATATTATTTATC-TAT
53133527 TATATTATTT-T-TAT
1 TATATTATTTATCTAT
*
53133541 TATA-TA-TTATGTA-
1 TATATTATTTATCTAT
**
53133554 TATCGTATATTATCTAT
1 TATATTAT-TTATCTAT
* *
53133571 TATATTATTTATGTTT
1 TATATTATTTATCTAT
53133587 TATATTATT
1 TATATTATT
53133596 CATTTTATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
12 2 0.04
13 6 0.11
14 11 0.20
16 30 0.55
17 6 0.11
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (16 bp):
TATATTATTTATCTAT
Found at i:53133610 original size:16 final size:17
Alignment explanation
Indices: 53133568--53133610 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
53133558 GTATATTATC
*
53133568 TATTATATTATTTATGT
1 TATTATATTATTCATGT
*
53133585 T-TTATATTATTCATTT
1 TATTATATTATTCATGT
53133601 TATTAT-TTAT
1 TATTATATTAT
53133611 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATATTATTCATGT
Found at i:53135115 original size:44 final size:42
Alignment explanation
Indices: 53135016--53136493 Score: 867
Period size: 44 Copynumber: 33.6 Consensus size: 42
53135006 AAACAAGATT
* *
53135016 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGGTAGCAGA
1 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * * * *
53135058 TCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCAAAGATTTCAGCA
1 --TGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
* *
53135104 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGA
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATATCAGA
*
53135146 TTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * *
53135190 TCTGACA-CTCCTGTGCTTATAGTGAAGCAGATCGAAGATTTCAGCA
1 --TGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
* *
53135236 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGT-AAA
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATA-TCAGA
* * *
53135278 TTTGGCATCCCTGTGTTTATAGAGAACAGATCGAACATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * * *
53135322 TCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCA
1 --TGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
* *
53135368 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGA
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATATCAGA
* *
53135410 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * ** * *
53135454 T--CTAACACAACTGTGATTACAACGAAGCAGATCAAAGATTTCAGCA
1 TGGC-ATC-C--CTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
* * *
53135500 TGGCATCCCTGTGTTTATAGGGAATA-AGTTGAAGATAGCAGA
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATATCAGA
* * * *
53135542 TTTTGCATCCCTGTGTTTATAGGGAATA-AGTTGAAGATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATATCAGA
* * * *
53135586 TTTTGCATCCCTGTGTTTATAGGGAACAAATCGAATATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * * * ** *
53135630 TCTGACATTCATGTGATTACAACGAAGCAGATCGAAGATTTCAGCA
1 --TGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
* * *
53135676 TGACATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGA
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATATCAGA
* *
53135718 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * * *
53135762 T--CTAACACAACTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
1 TGGC-ATC-C--CTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
* * * *
53135808 TGGCATCCCTGTATTTATAGGAAACA-AGTTGAAGATAGCAGA
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATATCAGA
* * * *
53135850 TTTGGCATCCCTATGTTTATAGGGAACAAATCGAATATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * * * *
53135894 TCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
1 --TGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
* * *
53135940 TGACATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGA
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATATCAGA
* *
53135982 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * * *
53136026 TCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCA
1 --TGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
* *
53136072 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAACAGA
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATATCAGA
* *
53136114 CTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * * *
53136158 T--CTAACACAACTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
1 TGGC-ATC-C--CTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
* * * *
53136204 TGGCATCCCTGTATTTATAGGAAACA-AGTTGAAGATAGCAGA
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATATCAGA
* * * *
53136246 TTTGGCATCCCTATGTTTATAGGGAACAAATCGAATATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * * * *
53136290 TCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
1 --TGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
* * *
53136336 TGACATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGA
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATATCAGA
* * * *
53136378 TTTGGCATCCTTGTGTTTATAGGGAATAAATCGAAGATAGCAGA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
* * * * ** * *
53136422 TCTGACATTCCTATGCTTATAGCAAAGTAGATCGAAGATTTCAGCA
1 --TGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATATCAG-A
53136468 TGGCATCCCTGTGTTTATAGGGAACA
1 TGGCATCCCTGTGTTTATAGGGAACA
53136494 AGTTGAAGAT
Statistics
Matches: 1128, Mismatches: 216, Indels: 181
0.74 0.14 0.12
Matches are distributed among these distances:
40 3 0.00
41 6 0.01
42 26 0.02
43 120 0.11
44 783 0.69
45 164 0.15
46 17 0.02
47 6 0.01
48 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (42 bp):
TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGA
Found at i:53135600 original size:132 final size:132
Alignment explanation
Indices: 53135011--53135586 Score: 965
Period size: 132 Copynumber: 4.4 Consensus size: 132
53135001 AAGAGAAACA
*
53135011 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGGTAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
53135076 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
53135141 GC
131 GC
53135143 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * *
53135208 ATAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
53135273 GT
131 GC
* * *
53135275 AAATTTGGCATCCCTGTGTTTATAGAGAACAGATCGAACATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
53135340 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
53135405 GC
131 GC
* * ** *
53135407 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
53135472 ACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAATAAGTTGAAGATA
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
53135537 GC
131 GC
* * *
53135539 AGATTTTGCATCCCTGTGTTTATAGGGAATA-AGTTGAAGATAGCAGAT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGAT
53135587 TTTGCATCCC
Statistics
Matches: 418, Mismatches: 25, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
131 1 0.00
132 417 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:53135662 original size:308 final size:308
Alignment explanation
Indices: 53135236--53135908 Score: 1121
Period size: 308 Copynumber: 2.2 Consensus size: 308
53135226 GATTTCAGCA
* *
53135236 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGTAAATTTGGCATCCCTGTGTTTATAGA
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGA
* * * *
53135301 GAACAGATCGAACATAGCAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
66 GAACAAATCGAACATAGCAGATCTGACACTCATGTGATTACAACGAAGCAGATCGAAGATTTCAG
*
53135366 CATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATA
131 CATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATA
53135431 GGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAACGAAGCAGATCAAAGATTTC
196 GGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAACGAAGCAGATCAAAGATTTC
* * *
53135496 AGCATGGCATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGCAGATT
261 AGCATGGCATCCCTGTATTTATAGGAAACAAGTTGAAGATAGCAGATT
* * * *
53135544 TTGCATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGCAGATTTTGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGA
* *
53135609 GAACAAATCGAATATAGCAGATCTGACATTCATGTGATTACAACGAAGCAGATCGAAGATTTCAG
66 GAACAAATCGAACATAGCAGATCTGACACTCATGTGATTACAACGAAGCAGATCGAAGATTTCAG
53135674 CATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATA
131 CATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATA
* *
53135739 GGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAGCGAAGCAGATCGAAGATTTC
196 GGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAACGAAGCAGATCAAAGATTTC
53135804 AGCATGGCATCCCTGTATTTATAGGAAACAAGTTGAAGATAGCAGATT
261 AGCATGGCATCCCTGTATTTATAGGAAACAAGTTGAAGATAGCAGATT
* * * * * * *
53135852 TGGCATCCCTATGTTTATAGGGAACAAATCGAATATAGCAGATCTGACATTCCTGTG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTG
53135909 ATTACAGCGA
Statistics
Matches: 337, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
308 337 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (308 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGA
GAACAAATCGAACATAGCAGATCTGACACTCATGTGATTACAACGAAGCAGATCGAAGATTTCAG
CATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATA
GGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAACGAAGCAGATCAAAGATTTC
AGCATGGCATCCCTGTATTTATAGGAAACAAGTTGAAGATAGCAGATT
Found at i:53135683 original size:132 final size:132
Alignment explanation
Indices: 53135546--53136521 Score: 1628
Period size: 132 Copynumber: 7.4 Consensus size: 132
53135536 AGCAGATTTT
* *
53135546 GCATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGCAGATTTTGCATCCCTGTGTTTATAGGGA
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
* * *
53135611 ACAAATCGAATATAGCAGATCTGACATTCATGTGATTACAACGAAGCAGATCGAAGATTTCAGCA
66 ACAAATCGAAGATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
53135676 TG
131 TG
*
53135678 ACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
* ***
53135743 ACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
66 ACAAATCGAAGATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
53135808 TG
131 TG
* * *
53135810 GCATCCCTGTATTTATAGGAAACAAGTTGAAGATAGCAGATTTGGCATCCCTATGTTTATAGGGA
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
*
53135875 ACAAATCGAATATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
66 ACAAATCGAAGATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
53135940 TG
131 TG
*
53135942 ACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
* *
53136007 ACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCA
66 ACAAATCGAAGATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
53136072 TG
131 TG
* *
53136074 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAACAGACTTGGCATCCCTGTGTTTATAGGGA
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
* ***
53136139 ACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
66 ACAAATCGAAGATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
53136204 TG
131 TG
* * *
53136206 GCATCCCTGTATTTATAGGAAACAAGTTGAAGATAGCAGATTTGGCATCCCTATGTTTATAGGGA
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
*
53136271 ACAAATCGAATATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
66 ACAAATCGAAGATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
53136336 TG
131 TG
* *
53136338 ACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGTTTATAGGGA
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
* * * * * *
53136403 ATAAATCGAAGATAGCAGATCTGACATTCCTATGCTTATAGCAAAGTAGATCGAAGATTTCAGCA
66 ACAAATCGAAGATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
53136468 TG
131 TG
*
53136470 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGAAGATTTGGCATCCCT
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCT
53136522 AAAAATCAAA
Statistics
Matches: 786, Mismatches: 58, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 786 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
ACAAATCGAAGATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCA
TG
Found at i:53135814 original size:396 final size:395
Alignment explanation
Indices: 53135016--53136521 Score: 1602
Period size: 396 Copynumber: 3.8 Consensus size: 395
53135006 AAACAAGATT
* * * * * *
53135016 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGGTAGCAGATCTGACA-CTCCTGTGCTTACAG
1 TGGCATCCCTGTATTTATAGGAAACAAATCGAAGATAGCAGATCTGACATC-CCTATGTTTACAG
* ** * * * * * *
53135080 CGAAGCAGATCAAAGATTTCAG-CATGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGC
65 CGAA-CAAATCAAAGATAGCAGAC-TGACATCCCTGTGATTACAGCGAAGAAGATCGAAGATAGC
* * * *
53135143 AG-ATTTGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGCAGATCTGACA-CTCCTGTG
128 AGCA--TGACATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCAGATTTGGCATC-CCTGTG
* * * ** * * * * * *
53135205 CTTATAGTGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAA-CA-AGTT
189 TTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGCGAAGCAGA-TC
* * *** * * * * *
53135266 GAAGATAGTAAATTTGGCATCCCTGTGTTTATAGAGAAC-AGATCGAACATAGCAGATCTGACA-
251 GAAGAT-TTCAGCATGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCAGATTTGGCAT
* * * * ** * * * *
53135329 CTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGC-ATC-C--CTGTGTTTATAGGG
314 C-CCTGTGTTTATAGGGAA-CAAATCGAAGATAGCAG-AT--CTAACACAACTGTGATTACAGCG
* **
53135390 AA-CA-AGTTGAAGATAGCAG-A
374 AAGCAGA-TCGAAGATTTCAGCA
* * * * * *
53135410 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACA-CAACTGTGATTAC
1 --TGGCATCCCTGTATTTATAGGAAACAAATCGAAGATAGCAGATCTGACATC-CCTATGTTTAC
* * ** * * * * * *
53135474 AACGAAGCAGATCAAAGATTTCAG-CATGGCATCCCTGTGTTTATAGGGAATAAG-TTGAAGATA
63 AGCGAA-CAAATCAAAGATAGCAGAC-TGACATCCCTGTGATTACAGCGAAGAAGATCGAAGATA
* *
53135537 GCAG-ATTTTG-CATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGCAGATTTTGCATCCCTGT
126 GCAGCA---TGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGT
* * * *
53135600 GTTTATAGGGAACAAATCGAATATAGCAGATCTGACATTCATGTGATTACAACGAAGCAGATCGA
188 GTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGA
*
53135665 AGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCT
253 AGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCT
53135730 GTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAGCGAAGCAGATC
318 GTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAGCGAAGCAGATC
53135795 GAAGATTTCAGCA
383 GAAGATTTCAGCA
* * * * * *
53135808 TGGCATCCCTGTATTTATAGGAAACAAGTTGAAGATAGCAGATTTGGCATCCCTATGTTTATAGG
1 TGGCATCCCTGTATTTATAGGAAACAAATCGAAGATAGCAGATCTGACATCCCTATGTTTACAGC
* * * * **
53135873 GAACAAATCGAATATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAG
66 GAACAAATCAAAGATAGCAGA-CTGACATCCCTGTGATTACAGCGAAGAAGATCGAAGATAGCAG
53135938 CATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATA
130 CATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATA
*
53136003 GGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTC
195 GGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTC
* *
53136068 AGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAACAGACTTGGCATCCCTGTGTTTA
260 AGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTA
53136133 TAGGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAGCGAAGCAGATCGAAGATT
325 TAGGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAGCGAAGCAGATCGAAGATT
53136198 TCAGCA
390 TCAGCA
* * * * * *
53136204 TGGCATCCCTGTATTTATAGGAAACAAGTTGAAGATAGCAGATTTGGCATCCCTATGTTTATAGG
1 TGGCATCCCTGTATTTATAGGAAACAAATCGAAGATAGCAGATCTGACATCCCTATGTTTACAGC
* * * * **
53136269 GAACAAATCGAATATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAG
66 GAACAAATCAAAGATAGCAGA-CTGACATCCCTGTGATTACAGCGAAGAAGATCGAAGATAGCAG
*
53136334 CATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGTTTATA
130 CATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATA
* * * * *
53136399 GGGAATAAATCGAAGATAGCAGATCTGACATTCCTATGCTTATAGCAAAGTAGATCGAAGATTTC
195 GGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTC
*
53136464 AGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGAAGATTTGGCATCCCT
260 AGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCT
53136522 AAAAATCAAA
Statistics
Matches: 989, Mismatches: 99, Indels: 44
0.87 0.09 0.04
Matches are distributed among these distances:
392 1 0.00
393 2 0.00
394 3 0.00
395 41 0.04
396 894 0.90
397 44 0.04
398 4 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (395 bp):
TGGCATCCCTGTATTTATAGGAAACAAATCGAAGATAGCAGATCTGACATCCCTATGTTTACAGC
GAACAAATCAAAGATAGCAGACTGACATCCCTGTGATTACAGCGAAGAAGATCGAAGATAGCAGC
ATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAG
GGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCA
GCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTAT
AGGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGATTACAGCGAAGCAGATCGAAGATTT
CAGCA
Found at i:53136103 original size:572 final size:572
Alignment explanation
Indices: 53135011--53136158 Score: 1927
Period size: 572 Copynumber: 2.0 Consensus size: 572
53135001 AAGAGAAACA
* * * *
53135011 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGGTAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCATGTGATT
* *
53135076 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAACGAAGCAGATCAAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* * ** *
53135141 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGC
131 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGA
* * * *
53135206 TTATAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
196 TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTATTTATAGGAAACAAGTTGAAGA
* * *
53135271 TAGTAAATTTGGCATCCCTGTGTTTATAGAGAACAGATCGAACATAGCAGATCTGACACTCCTGT
261 TAGCAAATTTGGCATCCCTATGTTTATAGAGAACAAATCGAACATAGCAGATCTGACACTCCTGT
* *
53135336 GCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAA
326 GATTACAGCGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAA
53135401 GATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACT
391 GATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACT
*
53135466 GTGATTACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAATAAGTTG
456 GTGATTACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTG
* * * * * *
53135531 AAGATAGCAGATTTTGCATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGC
521 AAGATAACAGACTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * *
53135583 AGATTTTGCATCCCTGTGTTTATAGGGAACAAATCGAATATAGCAGATCTGACATTCATGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCATGTGATT
*
53135648 ACAACGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAACGAAGCAGATCAAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
53135713 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGA
131 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGA
53135778 TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTATTTATAGGAAACAAGTTGAAGA
196 TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTATTTATAGGAAACAAGTTGAAGA
* * * *
53135843 TAGCAGATTTGGCATCCCTATGTTTATAGGGAACAAATCGAATATAGCAGATCTGACATTCCTGT
261 TAGCAAATTTGGCATCCCTATGTTTATAGAGAACAAATCGAACATAGCAGATCTGACACTCCTGT
53135908 GATTACAGCGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAA
326 GATTACAGCGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAA
* **
53135973 GATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCT
391 GATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACT
* * *
53136038 GTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTG
456 GTGATTACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTG
53136103 AAGATAACAGACTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
521 AAGATAACAGACTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
53136155 AGAT
1 AGAT
53136159 CTAACACAAC
Statistics
Matches: 535, Mismatches: 41, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
572 535 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (572 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCATGTGATT
ACAACGAAGCAGATCAAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACTGTGA
TTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTATTTATAGGAAACAAGTTGAAGA
TAGCAAATTTGGCATCCCTATGTTTATAGAGAACAAATCGAACATAGCAGATCTGACACTCCTGT
GATTACAGCGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAA
GATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACAACT
GTGATTACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTG
AAGATAACAGACTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
Found at i:53137150 original size:19 final size:19
Alignment explanation
Indices: 53137126--53137223 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
53137116 AATCTTTAAG
53137126 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
53137145 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
53137164 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
53137181 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
53137200 AATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
53137221 GAT
1 GAT
53137224 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.66
21 8 0.11
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:53137156 original size:36 final size:35
Alignment explanation
Indices: 53137116--53137199 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 35
53137106 ATGGAAATAT
53137116 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
53137152 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
53137188 AATC-TTAGATAT
1 AATCTTTAGATAT
53137200 AATATGCAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 36 0.80
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:53139021 original size:47 final size:47
Alignment explanation
Indices: 53138968--53139060 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 47
53138958 ATGTCACACC
*
53138968 GATGCCATATCCCAGATATGGTCTTACAC-AAATGCACTTATCACTCT
1 GATGCCATATCCCAGATATGATCTTACACGAAAT-CACTTATCACTCT
* * * *
53139015 GATGCCATATTCTAGATATGATTTTACACGGAAATCACTTGTCACT
1 GATGCCATATCCCAGATATGATCTTACAC-GAAATCACTTATCACT
53139061 TGTAGCCGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 25 0.64
48 10 0.26
49 4 0.10
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGATCTTACACGAAATCACTTATCACTCT
Found at i:53139211 original size:50 final size:51
Alignment explanation
Indices: 53139093--53139221 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
53139083 CACTGATCAG
* * *
53139093 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAAT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAAT
* * *
53139144 GTAGCCGCAGCTATCACTTATCACTT-TCACTTGTTCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAAT
*
53139194 GTAGCCGAAGCTGTCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
53139222 TGCCATGGTC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 45 0.65
51 24 0.35
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAAT
Found at i:53144011 original size:19 final size:19
Alignment explanation
Indices: 53143977--53144037 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
53143967 CTGACTTGTT
53143977 TTGAAACAGTTTTAACTTGA
1 TTGAAACA-TTTTAACTTGA
**
53143997 TTGAAA-ATGTTTAACTCAA
1 TTGAAACAT-TTTAACTTGA
53144016 TTGAAACCATTTTAACTTGA
1 TTGAAA-CATTTTAACTTGA
53144036 TT
1 TT
53144038 TTATCATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.03
19 15 0.44
20 16 0.47
21 2 0.06
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
TTGAAACATTTTAACTTGA
Found at i:53144104 original size:24 final size:23
Alignment explanation
Indices: 53144067--53144111 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
53144057 GTTCAACTTT
53144067 AACTTTTATTCAAAA-ATATTTG
1 AACTTTTATTCAAAACATATTTG
53144089 AACTTGTTATATCAAAACATATT
1 AACTT-TTAT-TCAAAACATATT
53144112 ATCAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 6 0.30
25 5 0.25
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (23 bp):
AACTTTTATTCAAAACATATTTG
Found at i:53146217 original size:16 final size:15
Alignment explanation
Indices: 53146174--53146217 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
53146164 TATAAAAGAG
53146174 AATTTTAAAATAAAA
1 AATTTTAAAATAAAA
* *
53146189 AATTTATATAATAGAAC
1 AATTT-TAAAATA-AAA
53146206 AATTTTAAAATA
1 AATTTTAAAATA
53146218 TATATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.21
16 12 0.50
17 7 0.29
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
AATTTTAAAATAAAA
Found at i:53149200 original size:27 final size:27
Alignment explanation
Indices: 53149116--53149220 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
53149106 AGGAAGCGTC
*
53149116 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
53149143 CTGATGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
53149170 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* * *
53149197 CTGGTGACTCCGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
53149221 GCTGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.12
27 60 0.87
28 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:53153728 original size:14 final size:16
Alignment explanation
Indices: 53153702--53153735 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
53153692 AAATAAAAAT
53153702 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
53153717 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
53153732 ATAA
1 ATAA
53153736 TGAAAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:53153841 original size:3 final size:3
Alignment explanation
Indices: 53153728--53153828 Score: 51
Period size: 3 Copynumber: 33.3 Consensus size: 3
53153718 TAAAAATGAC
* * ** * *
53153728 AAT AAT AAT GAA- AAC AAC AAT AAT AAT AAT GCT AAT AGT AGT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ***
53153773 AGT AAT AGT AAA AAGT AAT AAT AAT AAT AAT AGT AAT GGC AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
53153819 AGT AAT AAT A
1 AAT AAT AAT A
53153829 TGCTAAATAA
Statistics
Matches: 72, Mismatches: 23, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
2 2 0.03
3 66 0.92
4 4 0.06
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:53155612 original size:52 final size:47
Alignment explanation
Indices: 53155530--53155674 Score: 147
Period size: 45 Copynumber: 3.1 Consensus size: 47
53155520 GTTTGTTTTG
* * *
53155530 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTATTTGTTCATAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TATTTG--C-TAACTTCA
* * *
53155582 ATCTGCTCCAATGCAACTTCAGGGAAATAAG--ATTTGCTATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTTGCTAACTTCA
*
53155627 ATCTGCTCCACTGCAACTTCAGGGAGATAAG--ATTTG-TGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTTGCTAACTTCA
53155671 ATCT
1 ATCT
53155675 ACTCTGCTGA
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
44 10 0.12
45 41 0.49
46 1 0.01
48 5 0.06
52 26 0.31
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (47 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTTGCTAACTTCA
Found at i:53155632 original size:45 final size:44
Alignment explanation
Indices: 53155576--53155674 Score: 155
Period size: 45 Copynumber: 2.2 Consensus size: 44
53155566 TTTGTTCATA
53155576 ACTTCAATCTGCTCCAATGCAACTTCAGGGAAATAAGATTTGCT-
1 ACTTCAATCTGCTCCAATGCAACTTCAGGGAAATAAGATTTG-TG
* *
53155620 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
1 A-CTTCAATCTGCTCCAATGCAACTTCAGGGAAATAAGATTTGTG
53155665 ACTTCAATCT
1 ACTTCAATCT
53155675 ACTCTGCTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
44 11 0.22
45 40 0.78
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
ACTTCAATCTGCTCCAATGCAACTTCAGGGAAATAAGATTTGTG
Found at i:53155697 original size:44 final size:45
Alignment explanation
Indices: 53155577--53155698 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 45
53155567 TTGTTCATAA
* * * * *
53155577 CTTCAATCTGCTCCAATGCAACTTCAGGGAAATAAGATTTGCTAT
1 CTTCAATCTACTCCACTGAAAATTCAGGGAGATAAGATTTGCTAT
* * *
53155622 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGA-
1 CTTCAATCTACTCCACTGAAAATTCAGGGAGATAAGATTTGCT-AT
** *
53155666 CTTCAATCTACTCTGCTGAAAATTCAAGGAGAT
1 CTTCAATCTACTCCACTGAAAATTCAGGGAGAT
53155699 TTGCTGTGGC
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 28 0.41
45 40 0.59
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGAAAATTCAGGGAGATAAGATTTGCTAT
Found at i:53155791 original size:68 final size:68
Alignment explanation
Indices: 53155682--53155949 Score: 374
Period size: 68 Copynumber: 3.9 Consensus size: 68
53155672 TCTACTCTGC
* * * * *
53155682 TGAAAATTCAAGGAGATTTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTTAGGGAGAAGAGATC
1 TGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTTAGGGAGAAGAGATC
53155747 CGT
66 CGT
* * *
53155750 TGAAACTTCAAGGAGATCTGTTGTGGCTTCTAGCTGCTCCAACACCATTTTAGGGAGAAGAGATC
1 TGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTTAGGGAGAAGAGATC
***
53155815 TAC
66 CGT
* * * * * *
53155818 TGAAACTTCAAGGAGATTTGTTATGGCTTTTAGCCACTCCAACGCCATTTCAGGGAGAAGAGATC
1 TGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTTAGGGAGAAGAGATC
53155883 CGT
66 CGT
*
53155886 TGAAACTTCAAGGAGTTCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTTAGGGAGAAGAGAT
1 TGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTTAGGGAGAAGAGAT
53155950 TGGTAGCTTC
Statistics
Matches: 172, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 172 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (68 bp):
TGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTTAGGGAGAAGAGATC
CGT
Found at i:53155852 original size:136 final size:136
Alignment explanation
Indices: 53155681--53155949 Score: 448
Period size: 136 Copynumber: 2.0 Consensus size: 136
53155671 ATCTACTCTG
* * * *
53155681 CTGAAAATTCAAGGAGATTTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTTAGGGAGAAGAGAT
1 CTGAAAATTCAAGGAGATTTGCTATGGCTTTTAGCCACTCCAACGCCATTTCAGGGAGAAGAGAT
* *
53155746 CCGTTGAAACTTCAAGGAGATCTGTTGTGGCTTCTAGCTGCTCCAACACCATTTTAGGGAGAAGA
66 CCGTTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACACCATTTTAGGGAGAAGA
53155811 GATCTA
131 GATCTA
* *
53155817 CTGAAACTTCAAGGAGATTTGTTATGGCTTTTAGCCACTCCAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAAATTCAAGGAGATTTGCTATGGCTTTTAGCCACTCCAACGCCATTTCAGGGAGAAGAGAT
* *
53155882 CCGTTGAAACTTCAAGGAGTTCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTTAGGGAGAAGA
66 CCGTTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACACCATTTTAGGGAGAAGA
53155947 GAT
131 GAT
53155950 TGGTAGCTTC
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
136 123 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (136 bp):
CTGAAAATTCAAGGAGATTTGCTATGGCTTTTAGCCACTCCAACGCCATTTCAGGGAGAAGAGAT
CCGTTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACACCATTTTAGGGAGAAGA
GATCTA
Found at i:53156093 original size:85 final size:85
Alignment explanation
Indices: 53155995--53156629 Score: 977
Period size: 85 Copynumber: 7.5 Consensus size: 85
53155985 GATAGCATGG
* * * * *
53155995 TAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCACCTTAGATATGTTCCCCTA
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
*
53156060 CTACTTAGGGTGAAGATCTA
66 CTGCTTAGGGTGAAGATCTA
* * *
53156080 TAAATTCAGCCTGTTACCCTACTCCTTAGGGGTTTAAGGCCCATTGCCTTTGATCTG-TTCCCTT
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCC-T
53156144 ACTGCTTAGGGTGAAGATCTA
65 ACTGCTTAGGGTGAAGATCTA
* * *
53156165 TAAATTCGGCCAGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
*
53156230 CTGCTTAGGGTGAAGATCTG
66 CTGCTTAGGGTGAAGATCTA
*
53156250 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCAATCTGTTTCCCTA
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
*
53156315 TTGCTTAGGGTGAAGATCTA
66 CTGCTTAGGGTGAAGATCTA
* * *
53156335 TAAATTCAGCCTGTTACCCTATTACTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCTTA
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
* *
53156400 TTGCTTAGGGTGAAGATCTG
66 CTGCTTAGGGTGAAGATCTA
* *
53156420 TAAATTCAGCCTGCTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTATTTCCCTA
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
* *
53156485 CTGCTTAGGGTAAAGATCTG
66 CTGCTTAGGGTGAAGATCTA
* * *
53156505 TAAATTCGGCCTGTTACCTTACTGCTTAGGGGTTTAAGGCCCATCGCCTTTGATCTGTTTCCCTA
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
*
53156570 CTGCTTAGGGTGAGGATCTA
66 CTGCTTAGGGTGAAGATCTA
*
53156590 TAAATTCAGCCTGTTAACCTACTGCTTAGGGAG-TTAAGGC
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGG-GTTTAAGGC
53156630 TTGTGAATTC
Statistics
Matches: 504, Mismatches: 43, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
84 4 0.01
85 494 0.98
86 6 0.01
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (85 bp):
TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTA
CTGCTTAGGGTGAAGATCTA
Found at i:53156100 original size:41 final size:41
Alignment explanation
Indices: 53156050--53156620 Score: 200
Period size: 41 Copynumber: 13.5 Consensus size: 41
53156040 ACCTTAGATA
* *
53156050 TGTTCCCCTACTACTTAGGGTGAAGATCTATAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * ** * *** * *
53156091 TGTTACCCTACTCCTTAGGGGTTTAAGGCCCATTGCCTT-TGATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTA-TAAATTCAG-CC
*
53156135 TGTT-CCCTTACTGCTTAGGGTGAAGATCTATAAATTCGGCC
1 TGTTACCC-TACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * ** * *** *
53156176 AGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTC-GATC
1 TGTTACCCTACTGCTT-AGGG-TGAAGATCTAT-AAATTCAG-CC
* *
53156220 TGTTTCCCTACTGCTTAGGGTGAAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* ** * *** **
53156261 TGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCAATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTAT-AAATTCAGCC
* *
53156305 TGTTTCCCTATTGCTTAGGGTGAAGATCTATAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * * ** * *** *
53156346 TGTTACCCTATTACTTAGGGGTTTAAGGCCCATCGCCTTC-GATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTAT-AAATTCAG-CC
* * * *
53156390 TGTTTCCTTATTGCTTAGGGTGAAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * ** * *** *
53156431 TGCTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTC-GATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTAT-AAATTCAG-CC
* * * * *
53156475 TATTTCCCTACTGCTTAGGGTAAAGATCTGTAAATTCGGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * ** * *** * *
53156516 TGTTACCTTACTGCTTAGGGGTTTAAGGCCCATCGCCTT-TGATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTAT-AAATTCAG-CC
* *
53156560 TGTTTCCCTACTGCTTAGGGTGAGGATCTATAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
*
53156601 TGTTAACCTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGG
53156621 AGTTAAGGCT
Statistics
Matches: 363, Mismatches: 137, Indels: 60
0.65 0.24 0.11
Matches are distributed among these distances:
41 126 0.35
42 64 0.18
43 65 0.18
44 108 0.30
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (41 bp):
TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
Found at i:53158528 original size:16 final size:18
Alignment explanation
Indices: 53158507--53158547 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
53158497 TCCTTTTTTG
53158507 TTTTTGTTTTTACTT-T-
1 TTTTTGTTTTTACTTCTC
*
53158523 TTTTTGTTTTTTCTTCTC
1 TTTTTGTTTTTACTTCTC
53158541 TTTTTGT
1 TTTTTGT
53158548 GTGTGTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
17 1 0.05
18 7 0.32
ACGTcount: A:0.02, C:0.10, G:0.07, T:0.80
Consensus pattern (18 bp):
TTTTTGTTTTTACTTCTC
Found at i:53158543 original size:21 final size:22
Alignment explanation
Indices: 53158500--53158545 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
53158490 TCCACGATCC
*
53158500 TTTTTTGTTTTTGTTTTTACTT
1 TTTTTTGTTTTTGTTTCTACTT
53158522 TTTTTTGTTTTT-TCTTCT-CTT
1 TTTTTTGTTTTTGT-TTCTACTT
53158543 TTT
1 TTT
53158546 GTGTGTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.02, C:0.09, G:0.07, T:0.83
Consensus pattern (22 bp):
TTTTTTGTTTTTGTTTCTACTT
Found at i:53162381 original size:12 final size:12
Alignment explanation
Indices: 53162341--53162389 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
53162331 AGAATTTAAA
53162341 CAAATAAATAAG
1 CAAATAAATAAG
*
53162353 AAAAGTGAAATAAG
1 CAAA-T-AAATAAG
*
53162367 CAAATAAATAGG
1 CAAATAAATAAG
53162379 CAAATAAATAA
1 CAAATAAATAA
53162390 AAATATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 19 0.61
13 2 0.06
14 10 0.32
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.16
Consensus pattern (12 bp):
CAAATAAATAAG
Found at i:53162420 original size:14 final size:16
Alignment explanation
Indices: 53162394--53162427 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
53162384 AAATAAAAAT
53162394 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
53162409 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
53162424 ATAA
1 ATAA
53162428 TGAAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:53162428 original size:3 final size:3
Alignment explanation
Indices: 53162420--53162607 Score: 118
Period size: 3 Copynumber: 63.0 Consensus size: 3
53162410 TAAAAATGAC
* * *
53162420 AAT AAT AAT GAA- AAT AGT AAT AAT AAT AAT ACT AAT AGT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*** *
53162465 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GGC AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * ** * * *
53162513 -AT GCT AAAT AAT AAT AAG AA- AA- AAC AAT AGC AAT AGT AAT TAC
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
53162556 AA- AAGT GAT AAT AAT AA- AAT AGGAT GAT AAT AAT AAT ACT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT
53162602 AAT AAT
1 AAT AAT
53162608 TGTCGAAACC
Statistics
Matches: 141, Mismatches: 34, Indels: 20
0.72 0.17 0.10
Matches are distributed among these distances:
2 12 0.09
3 123 0.87
4 4 0.03
5 2 0.01
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:53164860 original size:206 final size:207
Alignment explanation
Indices: 53164187--53165112 Score: 1487
Period size: 207 Copynumber: 4.5 Consensus size: 207
53164177 AAATCTGCTT
* * * *
53164187 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
53164252 GCGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACTAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * ** * * *
53164317 GGATC-TACTTCAGTCTAATCATCTGAAGGTTAGATCTGCTCTATGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
53164381 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
53164393 CTTTGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
53164458 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
53164523 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCAGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
53164588 GGAGACGCAAAA
196 GGAGACGCCAAA
*
53164600 CTTCGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
53164665 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAGCACAAGGATGCCAAACCA-CTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
53164729 GGATCTTTCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
53164794 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * *
53164806 CTTCAATTTGTTCTCTAACAATATAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAAAAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
53164871 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
53164936 GGATCTTGCTTAAGTATAAACATCTGAAGACTAGATTTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
53165001 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * *
53165013 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATTTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
53165078 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGTTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTC
53165113 TCCGTCGAAT
Statistics
Matches: 671, Mismatches: 47, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
206 320 0.48
207 351 0.52
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:53164959 original size:413 final size:413
Alignment explanation
Indices: 53164187--53165112 Score: 1503
Period size: 413 Copynumber: 2.2 Consensus size: 413
53164177 AAATCTGCTT
* * *
53164187 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * *
53164252 GCGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACTAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * ** * *
53164317 GGATCTACTTCAGTCTAATCATCTGAAGGTTAGATCTGCTCTATGTCTGTCCTCCGTCGAATATG
131 GGATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATG
** * *
53164382 GAGACGCCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGACTTGCTTC
196 GAGACGCCAAACTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
* * *
53164447 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAGCACAAGGATGC
261 AACGTAAAAACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATGC
* *
53164512 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCAGCCCT
326 CAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACCAGATCTGCTATGTGTCAGCCCT
53164577 CCGTCGAATATGGAGACGCAAAA
391 CCGTCGAATATGGAGACGCAAAA
* *
53164600 CTTCGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* *
53164665 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAGCACAAGGATGCCAAACCA-CTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* *
53164729 GGATCTTTCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATC-TACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
*
53164794 GGAGACGCCAAACTTCAATTTGTTCTCTAACAATATAGAGATGCCAAATCATCTTAGACTTGCTT
195 GGAGACGCCAAACTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTT
53164859 CAACGTAAAAACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATG
260 CAACGTAAAAACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATG
* * *
53164924 CCAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACTAGATTTGCTATGTGTCTGCCC
325 CCAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACCAGATCTGCTATGTGTCAGCCC
*
53164989 TCCGTCGAATATGGAGACGCCAAA
390 TCCGTCGAATATGGAGACGCAAAA
* * * *
53165013 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATTTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
*
53165078 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGTTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTC
53165113 TCCGTCGAAT
Statistics
Matches: 472, Mismatches: 40, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
412 8 0.02
413 464 0.98
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (413 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATG
GAGACGCCAAACTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
AACGTAAAAACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATGC
CAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACCAGATCTGCTATGTGTCAGCCCT
CCGTCGAATATGGAGACGCAAAA
Found at i:53165333 original size:84 final size:86
Alignment explanation
Indices: 53165235--53165395 Score: 211
Period size: 84 Copynumber: 1.9 Consensus size: 86
53165225 CTATACTTTA
* * * *
53165235 ACCTGTTACCCTACTGCTCAGGGGGTTAAGGCGCA-TC-T-TCGATCTGCTCCACTGCTGTTTAG
1 ACCTGTTACCCTACTGCTCAAGGGATTAAGGCG-AGTCGTCTCGATCTGCTCCACTACTGCTTAG
53165297 AGAGATAAGATCCGTAATTTTG
65 AGAGATAAGATCCGTAATTTTG
* * *
53165319 ACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCGTCGTTGATCTGTTCCACTACTGCTTAG
1 ACCTGTTACCCTACTGCTCAAGGGATTAAGGCGAGTCGTC-TCGATCTGCTCCACTACTGCTTAG
*
53165384 GGAGATAAGATC
65 AGAGATAAGATC
53165396 TGTGAACCTG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
83 1 0.02
84 32 0.49
85 1 0.02
87 31 0.48
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.30
Consensus pattern (86 bp):
ACCTGTTACCCTACTGCTCAAGGGATTAAGGCGAGTCGTCTCGATCTGCTCCACTACTGCTTAGA
GAGATAAGATCCGTAATTTTG
Found at i:53165426 original size:82 final size:79
Alignment explanation
Indices: 53165234--53165434 Score: 215
Period size: 87 Copynumber: 2.4 Consensus size: 79
53165224 GCTATACTTT
* * * *
53165234 AACCTGTTACCCTACTGCTCAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTGCTGTTTAGAG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGAG
53165299 AGATAAGATCCGTA
66 AGATAAGATCCGTA
* * *
53165313 ATTTTGACCTGTTACCCTACTGCTTAAGGGATTAAGGCG-AGTCGTCGTTGATCTGTTCCACTAC
1 A-----ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCA-TC-T--TCGATCTGCTCCACTAC
* * *
53165377 TGCTTAGGGAGATAAGATCTGTG
57 TGCTTAGAGAGATAAGATCCGTA
*
53165400 AACCTGTTACCCTACTGCTTAGGGGATGAAGGCGC
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
53165435 TGAATTTTGT
Statistics
Matches: 100, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
79 1 0.01
82 31 0.31
83 1 0.01
84 32 0.32
85 1 0.01
87 34 0.34
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (79 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGAG
AGATAAGATCCGTA
Found at i:53166373 original size:1 final size:1
Alignment explanation
Indices: 53166363--53166458 Score: 57
Period size: 1 Copynumber: 96.0 Consensus size: 1
53166353 GGCCTCTCCA
* * * * * * * * * * *
53166363 TTTTTCTTTTTTTCTTTTTTCTTTTATCTTTTATCTTTTTTATTTTTTTATTTTTTTCTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
53166428 TTTTTCTTCTTCTTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
53166459 GAAATAGAAG
Statistics
Matches: 65, Mismatches: 30, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:53166376 original size:8 final size:8
Alignment explanation
Indices: 53166363--53166455 Score: 77
Period size: 8 Copynumber: 11.6 Consensus size: 8
53166353 GGCCTCTCCA
53166363 TTTTTCTT
1 TTTTTCTT
53166371 TTTTTC-T
1 TTTTTCTT
53166378 TTTTTC-T
1 TTTTTCTT
*
53166385 TTTATC-T
1 TTTTTCTT
*
53166392 TTTATC-T
1 TTTTTCTT
*
53166399 TTTTTATT
1 TTTTTCTT
*
53166407 TTTTTATT
1 TTTTTCTT
53166415 TTTTTCTT
1 TTTTTCTT
*
53166423 TTCTTTTTT
1 TT-TTTCTT
53166432 TCTTCTTCTTT
1 T-TT-TTC-TT
53166443 TTTTTCTT
1 TTTTTCTT
53166451 TTTTT
1 TTTTT
53166456 TTTGAAATAG
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
7 25 0.34
8 31 0.42
9 10 0.14
10 5 0.07
11 3 0.04
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:53166380 original size:7 final size:7
Alignment explanation
Indices: 53166363--53166458 Score: 83
Period size: 7 Copynumber: 13.4 Consensus size: 7
53166353 GGCCTCTCCA
53166363 TTTTTCTT
1 TTTTTC-T
53166371 TTTTTCT
1 TTTTTCT
53166378 TTTTTCT
1 TTTTTCT
*
53166385 TTTATCT
1 TTTTTCT
*
53166392 TTTATCT
1 TTTTTCT
*
53166399 TTTTTAT
1 TTTTTCT
53166406 TTTTT-T
1 TTTTTCT
53166412 ATTTTT-T
1 -TTTTTCT
53166419 TCTTTTCTT
1 T-TTTTC-T
53166428 TTTTTCT
1 TTTTTCT
53166435 TCTTCTT-T
1 T-TT-TTCT
53166443 TTTTTCT
1 TTTTTCT
53166450 TTTTT-T
1 TTTTTCT
53166456 TTT
1 TTT
53166459 GAAATAGAAG
Statistics
Matches: 78, Mismatches: 3, Indels: 16
0.80 0.03 0.16
Matches are distributed among these distances:
6 8 0.10
7 51 0.65
8 15 0.19
9 4 0.05
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:53166403 original size:36 final size:34
Alignment explanation
Indices: 53166363--53166458 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 34
53166353 GGCCTCTCCA
53166363 TTTTTCTTTTTTTCTTTTTTCTTTTATCTTTTATC
1 TTTTTCTTTTTTTCTTTTTTCTTTTAT-TTTTATC
* * * *
53166398 TTTTTTATTTTTTTATTTTTTTCTTTTCTTTTTTTC
1 -TTTTTCTTTTTTT-CTTTTTTCTTTTATTTTTATC
*
53166434 TTCTTCTTTTTTTTCTTTTTT-TTTT
1 TTTTTC-TTTTTTTCTTTTTTCTTTT
53166459 GAAATAGAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
34 4 0.08
35 10 0.20
36 25 0.49
37 12 0.24
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (34 bp):
TTTTTCTTTTTTTCTTTTTTCTTTTATTTTTATC
Found at i:53168151 original size:22 final size:21
Alignment explanation
Indices: 53168120--53168161 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
53168110 ATAAGTCTTA
*
53168120 ACTCCTTTAAATTTGGCATTNG
1 ACTCCCTTAAATTTGGCATT-G
53168142 ACTCCCTTAAATTTGGCATT
1 ACTCCCTTAAATTTGGCATT
53168162 CATTGTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.40
Consensus pattern (21 bp):
ACTCCCTTAAATTTGGCATTG
Found at i:53171872 original size:18 final size:19
Alignment explanation
Indices: 53171838--53171979 Score: 208
Period size: 18 Copynumber: 7.8 Consensus size: 19
53171828 TCATATCTTT
*
53171838 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
53171857 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
53171875 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
*
53171892 TAAGATTGCA-ACCATATC
1 TAAGATTGCATATCATATC
53171910 TAAGATT--ATATCATATC
1 TAAGATTGCATATCATATC
53171927 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
*
53171945 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
53171964 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
53171980 TGAAGATTAT
Statistics
Matches: 111, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.01
17 30 0.27
18 48 0.43
19 32 0.29
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:53171893 original size:35 final size:36
Alignment explanation
Indices: 53171838--53171979 Score: 225
Period size: 35 Copynumber: 3.9 Consensus size: 36
53171828 TCATATCTTT
53171838 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATC
*
53171875 TAAGATTG-TATCATATCTAAGATTGCAACCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
53171910 TAAGATT-ATATCATATCTAAGATTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
*
53171945 TAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
53171980 TGAAGATTAT
Statistics
Matches: 98, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
35 66 0.67
37 27 0.28
38 5 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (36 bp):
TAAGATTGATATCATATCTAAGATTGCAATCATATC
Found at i:53172303 original size:3 final size:3
Alignment explanation
Indices: 53172297--53172446 Score: 55
Period size: 3 Copynumber: 50.3 Consensus size: 3
53172287 ATATAAATGG
* * *
53172297 TAA TAA TAA T-A TAT TAA TAA GAA -AA TAA TAA T-C TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** **
53172342 TAGA -AA TGGAA TAA -AA CACA TAA TGA TAA TAG TGG TGG TAA TAA -AA
1 TA-A TAA T--AA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** *
53172388 GTAA TAA TAC TAA TAA TAGCA GCA -AA TA- TAA TAG TAA TAA TAA TAA
1 -TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA
53172434 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
53172447 TTTGATGATA
Statistics
Matches: 113, Mismatches: 19, Indels: 30
0.70 0.12 0.19
Matches are distributed among these distances:
2 13 0.12
3 91 0.81
4 5 0.04
5 4 0.04
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:53172316 original size:11 final size:11
Alignment explanation
Indices: 53172297--53172340 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
53172287 ATATAAATGG
53172297 TAATAATAATA
1 TAATAATAATA
* *
53172308 TATTAATAAGA
1 TAATAATAATA
* *
53172319 AAATAATAATC
1 TAATAATAATA
53172330 TAATAATAATA
1 TAATAATAATA
53172341 ATAGAAATGG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
TAATAATAATA
Found at i:53175257 original size:21 final size:21
Alignment explanation
Indices: 53175233--53175275 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
53175223 TTACCTTTTC
53175233 TAAAGTTAAAA-GTCAAAACTA
1 TAAAGTTAAAAGGT-AAAACTA
53175254 TAAAGTTAAAAGGTAAAACTA
1 TAAAGTTAAAAGGTAAAACTA
53175275 T
1 T
53175276 GTTGTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (21 bp):
TAAAGTTAAAAGGTAAAACTA
Found at i:53180195 original size:6 final size:6
Alignment explanation
Indices: 53180184--53180213 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
53180174 TTTGTGGTAT
53180184 AATATA AATATA AATATA AATATA TAATAT
1 AATATA AATATA AATATA AATATA -AATAT
53180214 TAGTAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
AATATA
Found at i:53180201 original size:12 final size:13
Alignment explanation
Indices: 53180181--53180213 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
53180171 GCTTTTGTGG
53180181 TATAATATAAATA
1 TATAATATAAATA
53180194 TA-AATATAAATA
1 TATAATATAAATA
53180206 TATAATAT
1 TATAATAT
53180214 TAGTAGAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATAATATAAATA
Found at i:53181573 original size:15 final size:15
Alignment explanation
Indices: 53181531--53181577 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
53181521 TCCCATCATC
53181531 AAGCGAGGAAAAAGA
1 AAGCGAGGAAAAAGA
* **
53181546 AATACGTTG-AAAAGA
1 AA-GCGAGGAAAAAGA
53181561 AAGCGAGGAAAAAGA
1 AAGCGAGGAAAAAGA
53181576 AA
1 AA
53181578 AAGAAAGCTG
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.28, T:0.06
Consensus pattern (15 bp):
AAGCGAGGAAAAAGA
Found at i:53184348 original size:28 final size:27
Alignment explanation
Indices: 53184303--53184358 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
53184293 TTGTCAATAT
*
53184303 TTATAAACTGTTTGCTAACCAACCTATC
1 TTATAAACTGGTTGCTAACCAACC-ATC
*
53184331 TTATACAACTGGTT-CTAACTAACCATC
1 TTATA-AACTGGTTGCTAACCAACCATC
53184358 T
1 T
53184359 AACTACTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 14 0.56
29 7 0.28
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
TTATAAACTGGTTGCTAACCAACCATC
Found at i:53185358 original size:30 final size:30
Alignment explanation
Indices: 53185322--53185379 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
53185312 CTGGGCATTT
* *
53185322 CCACACGGGTTGGCCATACGCCCATGTGAG
1 CCACACGGGCTGGCCACACGCCCATGTGAG
53185352 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGGGCTGGCCACACGCCCATGTG
53185380 CCAGTCCGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.38, G:0.29, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTGAG
Found at i:53186942 original size:22 final size:22
Alignment explanation
Indices: 53186907--53186949 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
53186897 CTGTGATATT
53186907 TACGGCCTTTAGCCATTCTGTC
1 TACGGCCTTTAGCCATTCTGTC
*
53186929 TACGG-CTTTGAGCCGTTCTGT
1 TACGGCCTTT-AGCCATTCTGT
53186950 TGACTTAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.12, C:0.28, G:0.23, T:0.37
Consensus pattern (22 bp):
TACGGCCTTTAGCCATTCTGTC
Found at i:53187138 original size:26 final size:26
Alignment explanation
Indices: 53187109--53187159 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
53187099 TTCTAATACG
53187109 GGCTAGGCCCAACTGTTACTGATATA
1 GGCTAGGCCCAACTGTTACTGATATA
*
53187135 GGCTAGGCCCAATTGTTACTGATAT
1 GGCTAGGCCCAACTGTTACTGATAT
53187160 TGAGAATGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (26 bp):
GGCTAGGCCCAACTGTTACTGATATA
Found at i:53191818 original size:21 final size:22
Alignment explanation
Indices: 53191792--53191836 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
53191782 CCCCAATTTT
*
53191792 TTTTATTTTATTTATT-ATTAA
1 TTTTATTTTATTAATTAATTAA
53191813 TTTTATTTTATTAATTAATTAA
1 TTTTATTTTATTAATTAATTAA
53191835 TT
1 TT
53191837 AATTAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTATTTTATTAATTAATTAA
Found at i:53191823 original size:14 final size:16
Alignment explanation
Indices: 53191796--53191832 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
53191786 AATTTTTTTT
53191796 ATTTTATTTATTATTA
1 ATTTTATTTATTATTA
53191812 ATTTTATTTTATTAATTA
1 ATTTTA-TTTATT-ATTA
53191830 ATT
1 ATT
53191833 AATTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 6 0.32
18 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTATTTATTATTA
Found at i:53191824 original size:17 final size:17
Alignment explanation
Indices: 53191796--53191848 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
53191786 AATTTTTTTT
53191796 ATTTTATTTATT-ATTA
1 ATTTTATTTATTAATTA
53191812 ATTTTATTTTATTAATTA
1 ATTTTA-TTTATTAATTA
* *
53191830 A-TTAATTAATTAATTA
1 ATTTTATTTATTAATTA
53191846 ATT
1 ATT
53191849 AATCTTATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 17 0.53
17 10 0.31
18 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTATTTATTAATTA
Found at i:53191831 original size:4 final size:4
Alignment explanation
Indices: 53191822--53191851 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
53191812 ATTTTATTTT
53191822 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
53191852 CTTATTCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:53191881 original size:17 final size:17
Alignment explanation
Indices: 53191859--53191913 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
53191849 AATCTTATTC
53191859 TTATATTTTTAATTTTT
1 TTATATTTTTAATTTTT
*
53191876 TTATA-TTTTAGTTTTT
1 TTATATTTTTAATTTTT
*
53191892 TATATATTTCT-ATTATTT
1 T-TATATTTTTAATT-TTT
53191910 TTAT
1 TTAT
53191914 TTTGCTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 11 0.34
17 14 0.44
18 7 0.22
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTATATTTTTAATTTTT
Found at i:53191937 original size:23 final size:23
Alignment explanation
Indices: 53191896--53191939 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
53191886 GTTTTTTATA
*
53191896 TATTTCTATTATTTTTATTTTGC
1 TATTTCTATTATTTGTATTTTGC
53191919 TATTTCTATT-TTTCGTATTTT
1 TATTTCTATTATTT-GTATTTT
53191940 TTTTACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (23 bp):
TATTTCTATTATTTGTATTTTGC
Found at i:53192083 original size:9 final size:8
Alignment explanation
Indices: 53191989--53192067 Score: 68
Period size: 8 Copynumber: 8.9 Consensus size: 8
53191979 TATCATTGAG
53191989 TTTTTTAT
1 TTTTTTAT
53191997 TTTTTTAT
1 TTTTTTAT
53192005 TTTTTTAT
1 TTTTTTAT
*
53192013 TTTTTATCTT
1 TTTTT-T-AT
53192023 TCTTTTTAATT
1 T-TTTTT-A-T
53192034 TTGTTTTAGT
1 TT-TTTTA-T
*
53192044 TGTTTTAT
1 TTTTTTAT
53192052 TTTTTTAT
1 TTTTTTAT
53192060 TTTCTTTA
1 TTT-TTTA
53192068 ACTTATTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
8 32 0.54
9 10 0.17
10 7 0.12
11 10 0.17
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.80
Consensus pattern (8 bp):
TTTTTTAT
Found at i:53192098 original size:24 final size:22
Alignment explanation
Indices: 53192049--53192099 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
53192039 TTAGTTGTTT
* **
53192049 TATTTTTTTATTTTCTTTAACT
1 TATTTTTTTATTATCTTTAAAA
53192071 TATTTTTATTATTATCTTTTAAAA
1 TATTTTT-TTATTATC-TTTAAAA
53192095 TATTT
1 TATTT
53192100 ATGGTTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
23 7 0.29
24 10 0.42
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTTTTATTATCTTTAAAA
Found at i:53193044 original size:12 final size:13
Alignment explanation
Indices: 53193027--53193056 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
53193017 CATTGTTCTC
53193027 AAAAAAA-TGAAA
1 AAAAAAAGTGAAA
53193039 AAAAAAAGTGAAA
1 AAAAAAAGTGAAA
53193052 AAAAA
1 AAAAA
53193057 TACATTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAAAAAGTGAAA
Found at i:53194584 original size:24 final size:24
Alignment explanation
Indices: 53194557--53194603 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
53194547 AGGTTTCAAT
53194557 TAATCAACCTAGAGTCAGTTATTG
1 TAATCAACCTAGAGTCAGTTATTG
53194581 TAATCAACCTAGAGTCAGTTATT
1 TAATCAACCTAGAGTCAGTTATT
53194604 TTTACTCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (24 bp):
TAATCAACCTAGAGTCAGTTATTG
Found at i:53201839 original size:28 final size:27
Alignment explanation
Indices: 53201785--53201836 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
53201775 TAAAATTTTC
53201785 AAAGAGATTTTATTTTTATTTTTTTAA
1 AAAGAGATTTTATTTTTATTTTTTTAA
*
53201812 AAAGAGGTTTTATTTTTATTTTTTT
1 AAAGAGATTTTATTTTTATTTTTTT
53201837 TAACTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (27 bp):
AAAGAGATTTTATTTTTATTTTTTTAA
Found at i:53207807 original size:3 final size:3
Alignment explanation
Indices: 53207799--53207840 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
53207789 TATATTTCTA
53207799 TAT 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
53207841 ATAGTAGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Done.