Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 102 of 325
Found at i:29993298 original size:20 final size:20
Alignment explanation
Indices: 29993234--29993335 Score: 64
Period size: 20 Copynumber: 5.1 Consensus size: 20
29993224 TATATTTATT
*
29993234 CCCTGAATGCACATTCATGC
1 CCCTGAATGCACATTCGTGC
* ** * *
29993254 CTCTGTTTGTAC-TTCGATAC
1 CCCTGAATGCACATTCG-TGC
*
29993274 CCCTGAATGGACATTCGTGC
1 CCCTGAATGCACATTCGTGC
** * *
29993294 CCCTGCTTGTAC-TTCGGTAC
1 CCCTGAATGCACATTC-GTGC
*
29993314 CCCTAAATGCACATTCGTGC
1 CCCTGAATGCACATTCGTGC
29993334 CC
1 CC
29993336 TTGTTAGTAC
Statistics
Matches: 58, Mismatches: 20, Indels: 8
0.67 0.23 0.09
Matches are distributed among these distances:
19 6 0.10
20 45 0.78
21 7 0.12
ACGTcount: A:0.19, C:0.33, G:0.18, T:0.30
Consensus pattern (20 bp):
CCCTGAATGCACATTCGTGC
Found at i:29997742 original size:53 final size:53
Alignment explanation
Indices: 29997646--29997848 Score: 190
Period size: 53 Copynumber: 3.8 Consensus size: 53
29997636 TTTTTAAACA
* * * *
29997646 TACCATTGCCATGTCTTGACATGGTTTTACGTGGTATCCTTGCCTTATGAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACT
* * * * * * *
29997699 CACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATTATAGTT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA-A-CT
* * * * * *
29997754 TATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACT
* ** *
29997808 TACCAATGCCATGCCTTGGCATGAACTTACTTGGTATCCTT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
29997849 AAACCCTAAT
Statistics
Matches: 116, Mismatches: 31, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
53 42 0.36
54 34 0.29
55 39 0.34
56 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACT
Found at i:30004291 original size:22 final size:22
Alignment explanation
Indices: 30004263--30004308 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
30004253 AATGTTCCCC
30004263 TATACAGAATTGATTATCTCAT
1 TATACAGAATTGATTATCTCAT
30004285 TATACAGAATTGATTATCTCAT
1 TATACAGAATTGATTATCTCAT
30004307 TA
1 TA
30004309 AATGTTCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (22 bp):
TATACAGAATTGATTATCTCAT
Found at i:30007414 original size:46 final size:46
Alignment explanation
Indices: 30007361--30007536 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
30007351 TATTTGGGCA
30007361 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
30007407 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
30007454 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
30007500 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30007537 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:30007516 original size:93 final size:93
Alignment explanation
Indices: 30007357--30007528 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30007347 GGGATATTTG
* *
30007357 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30007422 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
30007450 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30007515 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30007529 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30010477 original size:48 final size:48
Alignment explanation
Indices: 30010309--30010679 Score: 272
Period size: 48 Copynumber: 7.7 Consensus size: 48
30010299 TATGAGAGTT
* * * ** *
30010309 AGTGTAATACCATCTTTGGGACATGGCAT-TAGCCTCGATATGT--GTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGA-CCTTAATATGTGAGCC
30010355 AGTGTAAGACCATGTTTGGGACATGGCATCAGCACCGGTT--TATG-GAAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATC-G-ACC--TTAATATGTG-AGCC
* * *
30010405 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAATATGTGAGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACCTTAATATGTGAGCC
* * * * * **
30010453 TGTGTAAGACTATGTTTGGAACATGGCGTCGACATTGTTATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACCTTAATATGTGAGCC
** * * * *
30010501 AGTGTAAGACCATGCCTGGGACATGTCATCGGCCATAATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACCTTAATATGTGAGCC
** * * * *
30010549 AGTGTAAGACCATGTTTGCAACATGGCATCGGCATTGTTATATGT-A-TC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGAC-CT-TAATATGTGAGCC
** * *
30010597 AGTGTAAGACCATGTTTGGGACATGGCATCGACGCCGATGTATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGAC-CTTA-ATATGTGAGCC
* * **
30010647 AGTGTAAAATCATGTCCGGGACATGGCATCGAC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGAC
30010680 ATTTTACCCT
Statistics
Matches: 253, Mismatches: 56, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
46 28 0.11
48 152 0.60
49 5 0.02
50 68 0.27
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGACCTTAATATGTGAGCC
Found at i:30024387 original size:29 final size:29
Alignment explanation
Indices: 30024361--30024454 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
30024351 TCGCACACCC
*
30024361 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
30024390 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
30024419 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
30024448 AGTGCCA
1 AGTGCCA
30024455 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:30032227 original size:29 final size:29
Alignment explanation
Indices: 30032203--30032296 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
30032193 TCGCACACCC
*
30032203 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
30032232 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
30032261 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
30032290 AGTGCCA
1 AGTGCCA
30032297 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:30032228 original size:58 final size:58
Alignment explanation
Indices: 30032166--30032296 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
30032156 ATTTAAGCCC
* * * *
30032166 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
30032224 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
30032282 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
30032297 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:30037120 original size:27 final size:28
Alignment explanation
Indices: 30037064--30037133 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
30037054 AAATTTGTAC
30037064 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
30037092 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
30037119 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30037134 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:30037144 original size:27 final size:27
Alignment explanation
Indices: 30037064--30037145 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
30037054 AAATTTGTAC
* *
30037064 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
30037092 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
30037119 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
30037146 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:30044930 original size:27 final size:28
Alignment explanation
Indices: 30044874--30044943 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
30044864 AAATTTGTAC
30044874 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
30044902 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
30044929 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30044944 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:30044954 original size:27 final size:27
Alignment explanation
Indices: 30044874--30044955 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
30044864 AAATTTGTAC
* *
30044874 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
30044902 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
30044929 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
30044956 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:30049778 original size:40 final size:40
Alignment explanation
Indices: 30049727--30049871 Score: 272
Period size: 40 Copynumber: 3.6 Consensus size: 40
30049717 AGTAATTCGC
*
30049727 AATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCACA
1 AATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCACA
*
30049767 ATTGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCACA
1 AATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCACA
30049807 AATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCACA
1 AATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCACA
30049847 AATGCCTTCGGGAATTAACCCGGAT
1 AATGCCTTCGGGAATTAACCCGGAT
30049872 ATCATTCGAA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCACA
Found at i:30057821 original size:40 final size:40
Alignment explanation
Indices: 30057763--30057919 Score: 260
Period size: 40 Copynumber: 3.9 Consensus size: 40
30057753 CCCGGTTATA
* * * *
30057763 GTAATTCGCGCAAATGCCTTTGGGACTTAACCCGGATTTG
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
* *
30057803 GTAACTCGCACAATTGCCTTCGCGAATTAACCCGGATTTG
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
30057843 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
30057883 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGAT
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGAT
30057920 ATCATTCGAA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
Found at i:30064451 original size:48 final size:48
Alignment explanation
Indices: 30064390--30064570 Score: 238
Period size: 48 Copynumber: 3.8 Consensus size: 48
30064380 CTCGCACCTT
* * *
30064390 AAGTGCCAATATCATGTCCCGAAGCCAAATCAAAGAAGCTCGCACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
** * *
30064438 AAGTGCTGATATCATGGTCCGAAGCTAAATCAATGTAA-CTCACACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATG-AAGCTCACACCCG
* ** *
30064486 AAGTTCCAATATCATGGCCTAAAGCCAAATCAATGAAGCTTACACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
*
30064534 AAGTACCAATATCATGGCCCGAAGCCAAATCAATGAA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAA
30064571 TTCCCTAATG
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
47 2 0.02
48 109 0.96
49 2 0.02
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
Found at i:30075265 original size:7 final size:7
Alignment explanation
Indices: 30075255--30075296 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
30075245 AAATCTGCTA
30075255 AAAAAAT
1 AAAAAAT
*
30075262 -AAAATT
1 AAAAAAT
*
30075268 AAAAATT
1 AAAAAAT
*
30075275 AAAAATT
1 AAAAAAT
30075282 AAAAAAT
1 AAAAAAT
30075289 AAAAAAT
1 AAAAAAT
30075296 A
1 A
30075297 GTTTGAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAAAAT
Found at i:30075293 original size:14 final size:14
Alignment explanation
Indices: 30075255--30075293 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
30075245 AAATCTGCTA
30075255 AAAAAAT-AAAATT
1 AAAAAATAAAAATT
*
30075268 AAAAATTAAAAATT
1 AAAAAATAAAAATT
30075282 AAAAAATAAAAA
1 AAAAAATAAAAA
30075294 ATAGTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAATAAAAATT
Found at i:30075315 original size:7 final size:7
Alignment explanation
Indices: 30075262--30075293 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
30075252 CTAAAAAAAT
30075262 AAAATTA
1 AAAATTA
30075269 AAAATTA
1 AAAATTA
30075276 AAAATTA
1 AAAATTA
*
30075283 AAAAATA
1 AAAATTA
30075290 AAAA
1 AAAA
30075294 ATAGTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
AAAATTA
Found at i:30081116 original size:41 final size:41
Alignment explanation
Indices: 30081050--30081171 Score: 140
Period size: 41 Copynumber: 3.0 Consensus size: 41
30081040 AGAATAATGA
* * * * **
30081050 TGAATTGCACAGACGTGACCATGTTTGTACTTCAATACCCC
1 TGAATTACACAGATGTGCCCCTGTTTGTACTTCGGTACCCC
* *
30081091 TGAATTACACATATGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGAATTACACAGATGTGCCCCTGTTTGTACTTCGGTACCCC
* *
30081132 TGAATTGCACAGATGTTCCCC--TTTGTACTTCGGTACCCC
1 TGAATTACACAGATGTGCCCCTGTTTGTACTTCGGTACCCC
30081171 T
1 T
30081172 AGATGTACTT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
39 18 0.26
41 51 0.74
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (41 bp):
TGAATTACACAGATGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:30085438 original size:30 final size:30
Alignment explanation
Indices: 30085402--30085561 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
30085392 GACAAGATTG
* * * * *
30085402 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
30085432 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
30085460 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
30085489 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
30085519 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
30085548 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30085562 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:30085529 original size:59 final size:57
Alignment explanation
Indices: 30085402--30085561 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
30085392 GACAAGATTG
* * * * * *
30085402 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
30085460 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
30085519 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
30085562 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:30093184 original size:30 final size:30
Alignment explanation
Indices: 30093148--30093307 Score: 215
Period size: 29 Copynumber: 5.5 Consensus size: 30
30093138 GACAAGATTG
* * * *
30093148 GCACTAAGTGTGCTG-GTTTAAAATTGTACA
1 GCACTAAGTGTGC-GAGCTGAAAATTATATA
*
30093178 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
30093206 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
30093235 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
30093265 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
30093294 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30093308 GATTCACTCT
Statistics
Matches: 120, Mismatches: 4, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 50 0.42
30 44 0.37
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:30093274 original size:59 final size:57
Alignment explanation
Indices: 30093177--30093307 Score: 219
Period size: 59 Copynumber: 2.3 Consensus size: 57
30093167 AAAATTGTAC
*
30093177 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
30093234 AGCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG---ATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
30093293 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30093308 GATTCACTCT
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
56 2 0.03
57 17 0.24
59 51 0.73
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:30099118 original size:41 final size:41
Alignment explanation
Indices: 30099055--30099190 Score: 119
Period size: 41 Copynumber: 3.3 Consensus size: 41
30099045 AGAATAATAA
* * *
30099055 TGAATTGCACAGACGTGACCCTGTTTGTACTTCAGTACCTC
1 TGAATTGCACAGACGCGACCCTGTTTCTACTTCAGTACCCC
* * * *
30099096 TGAATTGTACATACGCGCCCCTGTTTCTACTTCGGTACCCC
1 TGAATTGCACAGACGCGACCCTGTTTCTACTTCAGTACCCC
* * *** * ** * *
30099137 TAAATTGCATAGACGTTCCCCTATTTCTACTTTGGGACCCT
1 TGAATTGCACAGACGCGACCCTGTTTCTACTTCAGTACCCC
30099178 TGAATTGCACAGA
1 TGAATTGCACAGA
30099191 GGTGCCCCTA
Statistics
Matches: 76, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (41 bp):
TGAATTGCACAGACGCGACCCTGTTTCTACTTCAGTACCCC
Found at i:30099199 original size:41 final size:41
Alignment explanation
Indices: 30099112--30099260 Score: 181
Period size: 41 Copynumber: 3.6 Consensus size: 41
30099102 GTACATACGC
* * *
30099112 GCCCCTGTTTCTACTTCGGTACCCCTAAATTGCATAGACGT
1 GCCCCTATTTCTACTTTGGTACCCCTAAATTGCATAGAGGT
* * * * *
30099153 TCCCCTATTTCTACTTTGGGACCCTTGAATTGCACAGAGGT
1 GCCCCTATTTCTACTTTGGTACCCCTAAATTGCATAGAGGT
* *
30099194 GCCCCTATTTGTACTTTGGTACCCCTAAATTACATAGAGGT
1 GCCCCTATTTCTACTTTGGTACCCCTAAATTGCATAGAGGT
* * *
30099235 GCCCCTATTTGTACTTAGGTAACCCT
1 GCCCCTATTTCTACTTTGGTACCCCT
30099261 CGATATACTT
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (41 bp):
GCCCCTATTTCTACTTTGGTACCCCTAAATTGCATAGAGGT
Found at i:30108857 original size:33 final size:31
Alignment explanation
Indices: 30108818--30108880 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
30108808 TGAAAAATGA
*
30108818 TTTTTTTAATAATTTTTTATGTTTTAAAGCTTC
1 TTTTTTTAATAA-TTTTTATCTTTT-AAGCTTC
**
30108851 TTTTTTTTGTAATTTTTATCTTTTAAGCTT
1 TTTTTTTAATAATTTTTATCTTTTAAGCTT
30108881 TTTAAAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 6 0.22
32 11 0.41
33 10 0.37
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (31 bp):
TTTTTTTAATAATTTTTATCTTTTAAGCTTC
Found at i:30111490 original size:13 final size:13
Alignment explanation
Indices: 30111468--30111501 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
30111458 CCCAAGTTCA
*
30111468 AAAAAAAAAAAAG
1 AAAAAAGAAAAAG
30111481 -AAAAAGAAAAAG
1 AAAAAAGAAAAAG
30111493 AAAAAAGAA
1 AAAAAAGAA
30111502 TTCAAGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:30115206 original size:19 final size:19
Alignment explanation
Indices: 30115182--30115219 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30115172 GGTATTTATG
30115182 CCCTTCAATTGATTCCCAA
1 CCCTTCAATTGATTCCCAA
*
30115201 CCCTTCAATTGATTTCCAA
1 CCCTTCAATTGATTCCCAA
30115220 TCGTTGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.34
Consensus pattern (19 bp):
CCCTTCAATTGATTCCCAA
Found at i:30117787 original size:39 final size:39
Alignment explanation
Indices: 30117740--30117922 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
30117730 AATGTTCGAG
30117740 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
30117779 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
30117818 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
30117857 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
30117897 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
30117923 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:30121754 original size:40 final size:41
Alignment explanation
Indices: 30121660--30121880 Score: 194
Period size: 40 Copynumber: 5.6 Consensus size: 41
30121650 TATTCGAATG
* *
30121660 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTA-GTGACT
* * * *
30121701 ATAACCAGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAG-TGACT
* * *
30121741 ATATCCGGGCTAAGA-CTCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
*
30121781 ATATCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTC-GTGCTAGTGACT
* * * * *
30121821 ATATCTGGGCTAA-AACCCGAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGA-CT
30121860 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
30121881 ATTACTTGAG
Statistics
Matches: 146, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
38 15 0.10
39 14 0.10
40 87 0.60
41 29 0.20
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
Found at i:30121831 original size:80 final size:81
Alignment explanation
Indices: 30121660--30121844 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 81
30121650 TATTCGAATG
* * *
30121660 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
*
30121725 ATTCGTGCGAGTTGCT
66 ATTCGTGCGAGTTGCC
* * * *
30121741 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGAT-CCGAAGG
*
30121804 CA-TCTGTGCTAG-TGACC
65 CATTC-GTGCGAGTTG-CC
* *
30121821 ATATCTGGGCTAAAACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
30121845 CTTGTGCAAG
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
79 5 0.06
80 53 0.60
81 31 0.35
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
ATTCGTGCGAGTTGCC
Found at i:30124489 original size:41 final size:42
Alignment explanation
Indices: 30124440--30124535 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
30124430 CCCTAGACAG
* *
30124440 GGTCTTACACGAATCAAATA-CGATACC-GATGTCCCAAACAT
1 GGTCTTACACGAATCAAAGATCGATACCAG-CGTCCCAAACAT
* * * *
30124481 GGTCTTACACATAATCAAAGATCGATGCCAGCGTCCCAGACGT
1 GGTCTTACAC-GAATCAAAGATCGATACCAGCGTCCCAAACAT
30124524 GGTCTTACACGA
1 GGTCTTACACGA
30124536 GAACACATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 10 0.22
42 9 0.20
43 25 0.56
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
GGTCTTACACGAATCAAAGATCGATACCAGCGTCCCAAACAT
Found at i:30129739 original size:18 final size:20
Alignment explanation
Indices: 30129693--30129739 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
30129683 GGAACTAACA
*
30129693 TTATCGATACCAAAATAAAT
1 TTATCGATACCAAAATAAAG
*
30129713 TTATTGATA-CAAAA-AAAG
1 TTATCGATACCAAAATAAAG
30129731 TTATCGATA
1 TTATCGATA
30129740 TTGTATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 11 0.46
19 5 0.21
20 8 0.33
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (20 bp):
TTATCGATACCAAAATAAAG
Found at i:30134720 original size:2 final size:2
Alignment explanation
Indices: 30134715--30134747 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
30134705 TATATATATA
*
30134715 TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
30134748 AACACCCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:30135915 original size:18 final size:18
Alignment explanation
Indices: 30135892--30135927 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30135882 ACTCATATTT
*
30135892 TGGTTAAGCTATTTTCTC
1 TGGTTAAACTATTTTCTC
30135910 TGGTTAAACTATTTTCTC
1 TGGTTAAACTATTTTCTC
30135928 GAGTCATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (18 bp):
TGGTTAAACTATTTTCTC
Found at i:30139919 original size:22 final size:21
Alignment explanation
Indices: 30139888--30139928 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
30139878 TGCTAGACAC
30139888 AGGGGAACACGCCCGTGTGGG
1 AGGGGAACACGCCCGTGTGGG
30139909 AGGGGCAACACGCCCGTGTG
1 AGGGG-AACACGCCCGTGTG
30139929 ACCAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.20, C:0.27, G:0.44, T:0.10
Consensus pattern (21 bp):
AGGGGAACACGCCCGTGTGGG
Found at i:30141176 original size:46 final size:45
Alignment explanation
Indices: 30141046--30141263 Score: 176
Period size: 46 Copynumber: 4.7 Consensus size: 45
30141036 ATAAGATGCT
* *
30141046 GATGCCATGTCCC-GAACATGGTCTTACACTAGCTT-AACTCGTA-GCG
1 GATG-CATGTCCCAG-ACAT-GTCTTACACTAGCTTCATCTCG-AGGCC
* *
30141092 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTT-CATCTCGAGGCC
*
30141138 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-ACTGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-TCATCTCGA-GGCC
* * * * * * * *
30141184 AATGCCATGTCCTAAACATGGTCTTACACTGGCCCTCGTAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTCAT-CTCGAGGCC
*
30141232 GATGCATGTCCCCGACATGTCTTACACTAGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCT
30141264 GACAATAGTC
Statistics
Matches: 140, Mismatches: 21, Indels: 23
0.76 0.11 0.12
Matches are distributed among these distances:
44 14 0.10
45 15 0.11
46 65 0.46
47 24 0.17
48 20 0.14
49 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTCATCTCGAGGCC
Found at i:30147456 original size:21 final size:22
Alignment explanation
Indices: 30147430--30147470 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30147420 TCCTAGACAC
*
30147430 AGGGGC-ACATGCCCGTGTGCG
1 AGGGGCAACACGCCCGTGTGCG
30147451 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
30147471 TCCAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.29, G:0.41, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGCG
Found at i:30148687 original size:44 final size:47
Alignment explanation
Indices: 30148613--30148711 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 47
30148603 GATATCGAGC
* *
30148613 CATGTCCCAGACATGGTCTTACACTAGCTTA-A-CTCGTA-GCTGATG
1 CATGTCCTAGACATGGTCTTACACTAGCTTACATCTCG-AGGCTGATA
*
30148658 CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCGAGGCTGATA
1 CATGTCCTAGACATGGTCTTACACTAGCTTACATCTCGAGGCTGATA
30148704 CATGTCCT
1 CATGTCCT
30148712 GTAACACCCC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
44 15 0.31
45 15 0.31
46 18 0.38
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
CATGTCCTAGACATGGTCTTACACTAGCTTACATCTCGAGGCTGATA
Found at i:30149583 original size:37 final size:37
Alignment explanation
Indices: 30149524--30149666 Score: 223
Period size: 37 Copynumber: 3.9 Consensus size: 37
30149514 AGCTCAGACG
* * *
30149524 AAATCTCCACACGAAGTTATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
30149561 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
30149598 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
30149635 TAATCTCCACACGTAGTCATCGGGTCTCACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
30149667 AGAATATATT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:30149953 original size:47 final size:47
Alignment explanation
Indices: 30149874--30150161 Score: 432
Period size: 47 Copynumber: 6.1 Consensus size: 47
30149864 TATATATATT
* * * *
30149874 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
30149921 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
30149968 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
30150015 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
30150062 CCACATTGGCCATTCGACCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
30150109 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
30150156 TCACAT
1 TCACAT
30150162 AAAATCCTAA
Statistics
Matches: 216, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 216 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:30150046 original size:141 final size:141
Alignment explanation
Indices: 30149874--30150162 Score: 506
Period size: 141 Copynumber: 2.0 Consensus size: 141
30149864 TATATATATT
* * *
30149874 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGAC
* *
30149939 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
30150004 GTTCACATTCA
131 ATTCACATTCA
* *
30150015 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGAC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGAC
30150080 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
30150145 ATTCACATTCA
131 ATTCACATTCA
30150156 TCACATA
1 TCACATA
30150163 AAATCCTAAA
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 140 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (141 bp):
TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGAC
CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
ATTCACATTCA
Found at i:30152970 original size:47 final size:45
Alignment explanation
Indices: 30152918--30153040 Score: 124
Period size: 48 Copynumber: 2.6 Consensus size: 45
30152908 AGGGGTGTCA
* *
30152918 CATGTCCCGTACATGTCTTACACTAGCTCTCGT-CTCACT-GCCGATG
1 CATGTCCCG-ACATGTCTTACACTAGCTCTCATAAT--CTGGCCGATG
** *
30152964 CCATGTCCTAAACATGGTCTTACACTAGCTCTCATAATGTGGCCGATG
1 -CATGTCC-CGACAT-GTCTTACACTAGCTCTCATAATCTGGCCGATG
30153012 CATGTCCCAGACATGTCTTACACTAGCTC
1 CATGTCCC-GACATGTCTTACACTAGCTC
30153041 ATAATAGTCC
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
46 15 0.23
47 23 0.36
48 25 0.39
49 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (45 bp):
CATGTCCCGACATGTCTTACACTAGCTCTCATAATCTGGCCGATG
Found at i:30153401 original size:30 final size:30
Alignment explanation
Indices: 30153361--30153420 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30153351 AATAATCTAT
* *
30153361 ACTTTGGCAAAATGACCGTTTTGCCCCTAG
1 ACTTTGGCAAAATGACCATTTTACCCCTAG
*
30153391 ACTTTTGCAAAATGACCATTTTACCCCTAG
1 ACTTTGGCAAAATGACCATTTTACCCCTAG
30153421 GTCTGAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (30 bp):
ACTTTGGCAAAATGACCATTTTACCCCTAG
Found at i:30166349 original size:47 final size:45
Alignment explanation
Indices: 30166274--30166449 Score: 173
Period size: 47 Copynumber: 3.8 Consensus size: 45
30166264 TCACTTGTGT
*
30166274 GAGCTAGTGTAAGACATGTCTGGAACAT-GCATCGGCCACATTATGG
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCC-CATTA-GG
*
30166320 GAGCTAGTGTAAAACCATGTCTGGGACATGGCATCGG--CATTGAGACG
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCCATT-AG--G
* * *
30166367 AGTGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGA-GACGT
1 -GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCC-C-ATTA-GG
*
30166415 AAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGG
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGG
30166450 GTACGAGATG
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
45 5 0.05
46 21 0.19
47 62 0.56
48 19 0.17
49 1 0.01
50 2 0.02
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCCATTAGG
Found at i:30166437 original size:94 final size:94
Alignment explanation
Indices: 30166276--30166493 Score: 259
Period size: 94 Copynumber: 2.3 Consensus size: 94
30166266 ACTTGTGTGA
* * * *
30166276 GCTAGTGTAAGACATGTCTGGAACAT-GCATCGGCCACATTATGGGAGCTAGTGTAAAACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGACGGAAGCTAGTGTAAAACCATGT
*
30166340 CTGGGACATGGCATCGGCAT-TGAGACGAGT
66 CTGGGACAT-GCATCGG-ATACGAGACGAGT
* * *
30166370 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGA-GACGTAAGCTAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-ATGACGGAAGCTAGTGTAAAACCATG
* * *
30166433 TCTGGGACATGCATCGGGTACGAGATGTGT
65 TCTGGGACATGCATCGGATACGAGACGAGT
30166463 -C-AGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATC
30166494 AATGTCTGAC
Statistics
Matches: 109, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
91 9 0.08
92 22 0.20
93 14 0.13
94 39 0.36
95 24 0.22
96 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGACGGAAGCTAGTGTAAAACCATGT
CTGGGACATGCATCGGATACGAGACGAGT
Found at i:30168545 original size:25 final size:25
Alignment explanation
Indices: 30168511--30168560 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
30168501 TCAATTCTTT
30168511 CAACTATGATTTTAACTCCTTCAAC
1 CAACTATGATTTTAACTCCTTCAAC
30168536 CAACTATGATTTTAACTCCTTCAAC
1 CAACTATGATTTTAACTCCTTCAAC
30168561 TCAGTAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (25 bp):
CAACTATGATTTTAACTCCTTCAAC
Found at i:30175991 original size:21 final size:21
Alignment explanation
Indices: 30175962--30176014 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
30175952 GATCTATATA
* *
30175962 AATTAATTTAATCA-TCAATTT
1 AATTCATTTAAT-ATTCAATTG
*
30175983 AATTCATTTCATATTCAATTG
1 AATTCATTTAATATTCAATTG
30176004 AATTCAATTTA
1 AATTC-ATTTA
30176015 CACCCTAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.81
22 4 0.15
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (21 bp):
AATTCATTTAATATTCAATTG
Found at i:30180649 original size:40 final size:39
Alignment explanation
Indices: 30180604--30180733 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
30180594 CGGAATATAA
30180604 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
30180644 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
30180684 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
30180724 CCGGATATAA
1 CCGGATATAA
30180734 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30180748 original size:40 final size:40
Alignment explanation
Indices: 30180620--30180771 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
30180610 ATAACCATGT
* * *
30180620 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
30180660 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
30180700 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
30180740 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
30180772 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:30180754 original size:80 final size:80
Alignment explanation
Indices: 30180620--30180769 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
30180610 ATAACCATGT
*
30180620 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
30180684 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
30180700 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
30180763 CCCGGAT
64 CCCGGAT
30180770 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:30192175 original size:39 final size:39
Alignment explanation
Indices: 30192121--30192283 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
30192111 TGTGAATGAA
30192121 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
30192160 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
30192199 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
30192238 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
30192278 TGTGCG
1 TGTGCG
30192284 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:30192299 original size:40 final size:39
Alignment explanation
Indices: 30192121--30192313 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
30192111 TGTGAATGAA
* *
30192121 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
30192160 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
30192199 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
30192238 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
30192278 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
30192314 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:30200119 original size:39 final size:39
Alignment explanation
Indices: 30200065--30200227 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
30200055 TGTGAATGAA
30200065 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
30200104 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
30200143 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
30200182 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
30200222 TGTGCG
1 TGTGCG
30200228 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:30200243 original size:40 final size:39
Alignment explanation
Indices: 30200065--30200257 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
30200055 TGTGAATGAA
* *
30200065 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
30200104 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
30200143 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
30200182 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
30200222 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
30200258 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:30202324 original size:55 final size:53
Alignment explanation
Indices: 30202258--30202449 Score: 205
Period size: 53 Copynumber: 3.7 Consensus size: 53
30202248 GTAAGGAAAT
* *
30202258 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTACAAGGCAAAGG-TCC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ACAAGGC-AAGGATAC
* * * *
30202313 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCACAAGGCAAGGATAC
* *
30202366 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-TCAA---AAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCACAAGGCAAGGATAC
* * * * *
30202415 CACGTAAGACCATGACAAGTCATGTCAATGGTAAG
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAG
30202450 ATACCCGTGT
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
49 39 0.32
52 6 0.05
53 41 0.34
54 1 0.01
55 33 0.28
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCACAAGGCAAGGATAC
Found at i:30203018 original size:26 final size:26
Alignment explanation
Indices: 30202989--30203063 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 26
30202979 AATGGTATGT
30202989 GAATGCTTGATAATGATTAGCTGTTG
1 GAATGCTTGATAATGATTAGCTGTTG
30203015 GAA----TGACTAATCG--TA--TG-TG
1 GAATGCTTGA-TAAT-GATTAGCTGTTG
30203034 -AATGCTTGATAATGATTAGCTGTTG
1 GAATGCTTGATAATGATTAGCTGTTG
30203059 GAATG
1 GAATG
30203064 ACTAATCAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 24
0.61 0.00 0.39
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 3 0.08
21 4 0.11
22 10 0.27
23 4 0.11
24 3 0.08
25 2 0.05
26 7 0.19
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.36
Consensus pattern (26 bp):
GAATGCTTGATAATGATTAGCTGTTG
Found at i:30203033 original size:44 final size:44
Alignment explanation
Indices: 30202983--30203070 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
30202973 CTTATGAATG
30202983 GTATGTGAATGCTTGATAATGATTAGCTGTTGGAATGACTAATC
1 GTATGTGAATGCTTGATAATGATTAGCTGTTGGAATGACTAATC
30203027 GTATGTGAATGCTTGATAATGATTAGCTGTTGGAATGACTAATC
1 GTATGTGAATGCTTGATAATGATTAGCTGTTGGAATGACTAATC
30203071 AAGGACACGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (44 bp):
GTATGTGAATGCTTGATAATGATTAGCTGTTGGAATGACTAATC
Found at i:30205562 original size:640 final size:640
Alignment explanation
Indices: 30204341--30206250 Score: 3498
Period size: 640 Copynumber: 3.0 Consensus size: 640
30204331 GCACACATCC
* *
30204341 GTGCCCATTGCCCGTGTCCCTCAGACGGCCATGACACACTCGTGTCCTAGCCCGTGTCTAAAAAC
1 GTGCCCATTGCCCGTGTCCCTCACACGGCCATGACACACTTGTGTCCTAGCCCGTGTCTAAAAAC
* * ** * ** * * *
30204406 CTTGACATTCTATTTCTGACGTTAGCATCCAATAAAGGCACACGGCCAAGGCACACGCCCGTGGC
66 CTTGACATTCTGTTTCTGACGTCAGCATCTGATAAGGGCACATAGCCAAGCCATA-GCCCATGGC
30204471 CAGAGGCCGTGTCCTCCACACGGCTGAGACACATAGCCGTGTCTCTGCCCGTGTATTTACTACCA
130 CAGAGGCCGTGTCCTCCACACGGCTGAGACACATAGCCGTGTCTCTGCCCGTGTATTTACTACCA
30204536 TGAATTCTGACTTGCAAATTTTACATGCAAGGGACACAAGGCTGAACAACATACCCATGAGGCTG
195 TGAATTCTGACTTGCAAATTTTACATGCAAGGGACACAAGGCTGAACAACATACCCATGAGGCTG
30204601 ACCGTGTGTCACACACGGCATAGACACATGCTTATGTGTCTACCCGTGTAGACAATATAAGCCTA
260 ACCGTGTGTCACACACGGCATAGACACATGCTTATGTGTCTACCCGTGTAGACAATATAAGCCTA
30204666 TCTACCATGCCTTTGCCACCCTGAAACACAATCTAACATCAACTAACATATCAAAGTTTAACTTA
325 TCTACCATGCCTTTGCCACCCTGAAACACAATCTAACATCAACTAACATATCAAAGTTTAACTTA
*
30204731 ATATGATTTTTCAACCAAACAACCATAGTTGATACCTATATAGATTACATATATTCAACCATGCC
390 ATATGATTTTTCAACCAAACAACCATAGTTAATACCTATATAGATTACATATATTCAACCATGCC
30204796 AATAATTTCATATTCATGAAAGACTAGCTTGCACTCATATAATAACTTTCAATATTAGCCATTTT
455 AATAATTTCATATTCATGAAAGACTAGCTTGCACTCATATAATAACTTTCAATATTAGCCATTTT
30204861 CCATGGCCTTATAAAAAATGAATCAAATGCTAAAGTAAGCCAACACATTTGGCCAATTAACAATG
520 CCATGGCCTTATAAAAAATGAATCAAATGCTAAAGTAAGCCAACACATTTGGCCAATTAACAATG
*
30204926 ACACAAAACTCAAAAGCTAGAATCCTATACATGCCATAATCAAAACTCGAACGTCT
585 ACACAAAACTCAAAAGCTAGAATCCTATACATGCCATAATCAAAACTCAAACGTCT
30204982 GTGCCCATTGCCCGTGTCCCTCACACGGCCATGACACACTTGTGTCCTAGCCCGTGTCTAAAAAC
1 GTGCCCATTGCCCGTGTCCCTCACACGGCCATGACACACTTGTGTCCTAGCCCGTGTCTAAAAAC
30205047 CTTGACATTCTGTTTCTGACGTCAGCATCTGATAAGGGCACATAGCCAAGCCATAGCCCATGGCC
66 CTTGACATTCTGTTTCTGACGTCAGCATCTGATAAGGGCACATAGCCAAGCCATAGCCCATGGCC
30205112 AGAGGCCGTGTCCTCCACACGGCTGAGACACATAGCCGTGTCTCTGCCCGTGTATTTACTACCAT
131 AGAGGCCGTGTCCTCCACACGGCTGAGACACATAGCCGTGTCTCTGCCCGTGTATTTACTACCAT
30205177 GAATTCTGACTTGCAAATTTTACATGCAAGGGACACAAGGCTGAACAACATACCCATGAGGCTGA
196 GAATTCTGACTTGCAAATTTTACATGCAAGGGACACAAGGCTGAACAACATACCCATGAGGCTGA
30205242 CCGTGTGTCACACACGGCATAGACACATGCTTATGTGTCTACCCGTGTAGACAATATAAGCCTAT
261 CCGTGTGTCACACACGGCATAGACACATGCTTATGTGTCTACCCGTGTAGACAATATAAGCCTAT
30205307 CTACCATGCCTTTGCCACCCTGAAACACAATCTAACATCAACTAACATATCAAAGTTTAACTTAA
326 CTACCATGCCTTTGCCACCCTGAAACACAATCTAACATCAACTAACATATCAAAGTTTAACTTAA
30205372 TATGATTTTTCAACCAAACAACCATAGTTAATACCTATATAGATTACATATATTCAACCATGCCA
391 TATGATTTTTCAACCAAACAACCATAGTTAATACCTATATAGATTACATATATTCAACCATGCCA
30205437 ATAATTTCATATTCATGAAAGACTAGCTTGCACTCATATAATAACTTTCAATATTAGCCATTTTC
456 ATAATTTCATATTCATGAAAGACTAGCTTGCACTCATATAATAACTTTCAATATTAGCCATTTTC
30205502 CATGGCCTTATAAAAAATGAATCAAATGCTAAAGTAAGCCAACACATTTGGCCAATTAACAATGA
521 CATGGCCTTATAAAAAATGAATCAAATGCTAAAGTAAGCCAACACATTTGGCCAATTAACAATGA
30205567 CACAAAACTCAAAAGCTAGAATCCTATACATGCCATAATCAAAACTCAAACGTCT
586 CACAAAACTCAAAAGCTAGAATCCTATACATGCCATAATCAAAACTCAAACGTCT
30205622 GTGCCCATTGCCCGTGTCCCTCACACGGCCATGACACACTTGTGTCCTAGCCCGTGTCTAAAAAC
1 GTGCCCATTGCCCGTGTCCCTCACACGGCCATGACACACTTGTGTCCTAGCCCGTGTCTAAAAAC
30205687 CTTGACATTCTGTTTCTGACGTCAGCATCTGATAAGGGCACATAGCCAAGCCATAGCCCATGGCC
66 CTTGACATTCTGTTTCTGACGTCAGCATCTGATAAGGGCACATAGCCAAGCCATAGCCCATGGCC
30205752 AGAGGCCGTGTCCTCCACACGGCTGAGACACATAGCCGTGTCTCTGCCCGTGTATTTACTACCAT
131 AGAGGCCGTGTCCTCCACACGGCTGAGACACATAGCCGTGTCTCTGCCCGTGTATTTACTACCAT
* * **
30205817 GCATTCTGACTTGCAAATTTTACGTGCAAGGGACACAAGGCTGAACAACACGCCCATGAGGCTGA
196 GAATTCTGACTTGCAAATTTTACATGCAAGGGACACAAGGCTGAACAACATACCCATGAGGCTGA
* * * * *
30205882 CCGTGTGTCATACATGGCCTAGACACATGCCTGTGTGTCTACCCGTGTAGACAATATAAGCCTAT
261 CCGTGTGTCACACACGGCATAGACACATGCTTATGTGTCTACCCGTGTAGACAATATAAGCCTAT
*
30205947 CTACCATGCCTTTGCCACCCTGAAACACAATCTAACATCAACCAACATATCAAAGTTTAACTTAA
326 CTACCATGCCTTTGCCACCCTGAAACACAATCTAACATCAACTAACATATCAAAGTTTAACTTAA
** *
30206012 TATGATTTTTCAACCAAACAACCATAGTTAAGGCCTATATACATTACATATATTCAACCATGCCA
391 TATGATTTTTCAACCAAACAACCATAGTTAATACCTATATAGATTACATATATTCAACCATGCCA
* *** *
30206077 ACAATTTTGCATTCATGAAAGACTAGCTTGTACTCATATAATAACTTTCAATATTAGCCATTTTC
456 ATAATTTCATATTCATGAAAGACTAGCTTGCACTCATATAATAACTTTCAATATTAGCCATTTTC
*
30206142 CATGGCCTTATACAAAATGAATCAAATGCTAAAGTAAGCCAACACATTTGGCCAATTAACAATGA
521 CATGGCCTTATAAAAAATGAATCAAATGCTAAAGTAAGCCAACACATTTGGCCAATTAACAATGA
30206207 CACAAAACTCAAAAG-TCAGAATCCTATACATGCCATAATCAAAA
586 CACAAAACTCAAAAGCT-AGAATCCTATACATGCCATAATCAAAA
30206251 TAAAAGATCT
Statistics
Matches: 1235, Mismatches: 33, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
639 1 0.00
640 1125 0.91
641 109 0.09
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (640 bp):
GTGCCCATTGCCCGTGTCCCTCACACGGCCATGACACACTTGTGTCCTAGCCCGTGTCTAAAAAC
CTTGACATTCTGTTTCTGACGTCAGCATCTGATAAGGGCACATAGCCAAGCCATAGCCCATGGCC
AGAGGCCGTGTCCTCCACACGGCTGAGACACATAGCCGTGTCTCTGCCCGTGTATTTACTACCAT
GAATTCTGACTTGCAAATTTTACATGCAAGGGACACAAGGCTGAACAACATACCCATGAGGCTGA
CCGTGTGTCACACACGGCATAGACACATGCTTATGTGTCTACCCGTGTAGACAATATAAGCCTAT
CTACCATGCCTTTGCCACCCTGAAACACAATCTAACATCAACTAACATATCAAAGTTTAACTTAA
TATGATTTTTCAACCAAACAACCATAGTTAATACCTATATAGATTACATATATTCAACCATGCCA
ATAATTTCATATTCATGAAAGACTAGCTTGCACTCATATAATAACTTTCAATATTAGCCATTTTC
CATGGCCTTATAAAAAATGAATCAAATGCTAAAGTAAGCCAACACATTTGGCCAATTAACAATGA
CACAAAACTCAAAAGCTAGAATCCTATACATGCCATAATCAAAACTCAAACGTCT
Found at i:30206820 original size:50 final size:49
Alignment explanation
Indices: 30206649--30207067 Score: 304
Period size: 48 Copynumber: 8.8 Consensus size: 49
30206639 TAGGGTATAA
* * * *
30206649 TGCCGATGCCATATCCCAGACATAGTCTTACACT-GGT-TCATC-CATCAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATC-G
* *
30206697 -GTCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCGA-A-ATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ACATATCG
* * ** *
30206744 AGGCAGACACCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCTG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-G
* * *
30206795 TGCCGATGCCATGTCCTAGACATGGTCTTACACTA-CTATCA-AAATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCG
* * *
30206842 AGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-G
* * * *
30206893 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC-CTC-TATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-CG
* * * *
30206941 TGTCGATGCCATGTCCTAGACATGGTCTTACACT-G---ACACATCTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCG
** * * *
30206986 TAGTAGATG-CATGTCTCAGACAT-GTCTTACACTGGCT-T-ACATCTCG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCG
* *
30207032 AGGCCAATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
30207068 ACACAAATAA
Statistics
Matches: 305, Mismatches: 44, Indels: 46
0.77 0.11 0.12
Matches are distributed among these distances:
44 10 0.03
45 18 0.06
46 45 0.15
47 34 0.11
48 77 0.25
49 48 0.16
50 72 0.24
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCG
Found at i:30206866 original size:98 final size:99
Alignment explanation
Indices: 30206699--30206927 Score: 388
Period size: 98 Copynumber: 2.3 Consensus size: 99
30206689 TCCATCAGGT
*
30206699 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCAGACACCATGTCCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCAGACACCATGTCCCAA
*
30206764 ACATGGTCTTACACTAGCTCTCACATATCTGTGC
66 ACATGGTCTTACACTAGCTCTCACATATCTATGC
* * * *
30206798 CGATGCCATGTCCTAGACATGGTCTTACACT-ACTATCAAAATCGAGGCCGACGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCAGACACCATGTCCCAA
*
30206862 ACATGGTCTTACACTAGCTCTCACATATCTATGT
66 ACATGGTCTTACACTAGCTCTCACATATCTATGC
30206896 CGATGCCATGTCCCAGACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
30206928 GCACCTCTAT
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 91 0.75
99 30 0.25
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (99 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCAGACACCATGTCCCAA
ACATGGTCTTACACTAGCTCTCACATATCTATGC
Found at i:30206952 original size:98 final size:96
Alignment explanation
Indices: 30206650--30207067 Score: 355
Period size: 98 Copynumber: 4.4 Consensus size: 96
30206640 AGGGTATAAT
* * * * *
30206650 GCCGATGCCATATCCCAGACATAGTCTTACACT-GGTTCATC-CATC-AGGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCA-CATATCTATGTCGATGCCATGTCC
*
30206712 CAGACATGGTCTTACACTGACTATCGAAATCGAG
65 CAGACATGGTCTTACACTGACTATCTAAATC--G
* ** * * *
30206746 GCAGACACCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TCACATATCTATGTCGATGCCATGTCC
* *
30206811 TAGACATGGTCTTACACT-ACTATCAAAATCGAG
65 CAGACATGGTCTTACACTGACTATCTAAATC--G
*
30206844 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTATGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TCACATATCTATGTCGATGCCATGTCC
* *
30206909 CAGACATGGTCTTACACTGGCAC-CTCTATA-CG
65 CAGACATGGTCTTACACT-G-ACTATCTAAATCG
* * * * *
30206941 TGTCGATGCCATGTCCTAGACATGGTCTTACACT-G--ACACATCTCGTA-GTAGATG-CATGTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCACATATC-TATGTCGATGCCATGTC
* * **
30207001 TCAGACAT-GTCTTACACTGGCT-TAC-ATCTCGAG
64 CCAGACATGGTCTTACACTGACTAT-CTAAATC--G
*
30207034 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
30207068 ACACAAATAA
Statistics
Matches: 272, Mismatches: 34, Indels: 36
0.80 0.10 0.11
Matches are distributed among these distances:
90 14 0.05
91 17 0.06
92 15 0.06
93 14 0.05
94 13 0.05
95 2 0.01
96 27 0.10
97 5 0.02
98 127 0.47
99 32 0.12
100 4 0.01
101 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCACATATCTATGTCGATGCCATGTCCC
AGACATGGTCTTACACTGACTATCTAAATCG
Found at i:30208346 original size:24 final size:24
Alignment explanation
Indices: 30208319--30208369 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
30208309 TTCTAGAGGG
* *
30208319 TTTAGTACTTATTAGTATAATATA
1 TTTAGCACTTATTAGCATAATATA
* *
30208343 TTTAGCATTTATTAGCATAATTTA
1 TTTAGCACTTATTAGCATAATATA
30208367 TTT
1 TTT
30208370 GACCTACGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (24 bp):
TTTAGCACTTATTAGCATAATATA
Found at i:30210380 original size:16 final size:18
Alignment explanation
Indices: 30210359--30210396 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
30210349 TTCTATATGG
30210359 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
30210375 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
30210393 ATTT
1 ATTT
30210397 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:30212163 original size:28 final size:29
Alignment explanation
Indices: 30212131--30212228 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
30212121 ATAATAAGCC
*
30212131 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
30212159 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
30212187 CGCACACTTAGT-CTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
30212215 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30212229 CAATCTCATG
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
27 3 0.05
28 52 0.88
29 4 0.07
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:30212351 original size:2 final size:2
Alignment explanation
Indices: 30212344--30212370 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30212334 TGCATACATG
30212344 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
30212371 TTATCATTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30212702 original size:2 final size:2
Alignment explanation
Indices: 30212695--30212720 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30212685 CATACTTATG
30212695 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
30212721 CACTTCCGAA
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):
TA
Found at i:30221463 original size:40 final size:40
Alignment explanation
Indices: 30221414--30221562 Score: 167
Period size: 40 Copynumber: 3.7 Consensus size: 40
30221404 CGGAGTTTAA
** *
30221414 CCGGATATAGCT-ACTCGTTCAAATG-CTTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTT-GGGACATAAC
* *
30221454 CCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTTGGGACATAAC
* * * *
30221494 CCGGATTTAGTAACTCACACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTTGGGACATAAC
* *
30221534 CCGAATTTAGTAACTCGCACAAATGCCTT
1 CCGGATATAGTAACTCGCACAAATGCCTT
30221563 CGGATCTTAG
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 91 0.95
41 4 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTTGGGACATAAC
Found at i:30221547 original size:80 final size:81
Alignment explanation
Indices: 30221433--30221616 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 81
30221423 GCTACTCGTT
* * * *
30221433 CAAATGCTTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCC-TTCGGATCTTAACCCG
* *
30221497 GATTTAGTAACTCA-CA
65 GATATAATAACTCAGCA
* **
30221513 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCG-ATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
30221577 GATATAATCACTTAGCA
65 GATATAATAACTCAGCA
30221594 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
30221617 GACATCATTC
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 5 0.06
80 76 0.85
81 8 0.09
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAATAACTCAGCA
Found at i:30221563 original size:40 final size:39
Alignment explanation
Indices: 30221433--30221565 Score: 185
Period size: 40 Copynumber: 3.3 Consensus size: 39
30221423 GCTACTCGTT
* * * *
30221433 CAAATGCTTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGATT-TAGTAACTCGCA
* *
30221473 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
30221513 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCG-ATTTAGTAACTCGCA
30221553 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30221566 ATCTTAGTCC
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 79 0.95
41 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
Found at i:30227027 original size:40 final size:40
Alignment explanation
Indices: 30226919--30227128 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
30226909 CGGGATTTAA
* * * * *
30226919 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
30226959 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30226999 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30227039 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30227079 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30227119 CCGGATATAT
1 CCGGATATAT
30227129 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:30230914 original size:47 final size:47
Alignment explanation
Indices: 30230793--30230914 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
30230783 GCATTGGCAC
* *
30230793 TAAGACAAGGATACCATGTAAGACCATCTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
30230840 TAAGATAATGATACCATATAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
30230887 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGATAAGGATACCATGTAAGACCATG
30230915 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (47 bp):
TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:30230951 original size:54 final size:54
Alignment explanation
Indices: 30230887--30231100 Score: 200
Period size: 54 Copynumber: 4.0 Consensus size: 54
30230877 TGGCATTTGG
* * *
30230887 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
* * * * *
30230941 TAAGGTAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTAATA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTA
* * * * *
30230996 TAAGGCAAAGG-TCCCATATAAGACCATGCCAAGGCATGGCATT-AGTGAGTTC-A
1 TAAGG-TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGA-TAAGTTCTA
* * * * * * *
30231049 TAAGGCAACGATGCCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
30231101 AAAAAGGAAA
Statistics
Matches: 131, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 3 0.02
53 38 0.29
54 47 0.36
55 39 0.30
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
Found at i:30231075 original size:53 final size:53
Alignment explanation
Indices: 30230896--30231089 Score: 192
Period size: 55 Copynumber: 3.6 Consensus size: 53
30230886 GTAAGATAAG
* * * * *
30230896 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTC-ATAAGGCAAA
* * * *
30230950 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTAATATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT--CATAAGGCAAA
* * * * *
30231005 GGTCCCATATAAGACCATGCCAAGGCATGGCATT-AGTGAGTTCATAAGGCAAC
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGA-TGAGTTCATAAGGCAAA
* * *
30231058 GATGCCACGTAAGACCATGTCAAGACATGGCA
1 GATACCATGTAAGACCATGCCAAGACATGGCA
30231090 ATGGTAAGTT
Statistics
Matches: 115, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
53 35 0.30
54 39 0.34
55 41 0.36
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCATAAGGCAAA
Found at i:30231100 original size:53 final size:53
Alignment explanation
Indices: 30230896--30231101 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
30230886 GTAAGATAAG
* * * *
30230896 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC-ATAAGGCAAA
* * * * *
30230950 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTAATATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT--CATAAGGCAAA
* * * * * *
30231005 GGTCCCATATAAGACCATGCCAAGGCATGGCATT-AGTGAGTTCATAAGGCAAC
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGA-TAAGTTCATAAGGCAAA
* * * * *
30231058 GATGCCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCA
30231102 AAAAGGAAAA
Statistics
Matches: 123, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
53 43 0.35
54 39 0.32
55 41 0.33
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGCAAA
Found at i:30234342 original size:26 final size:26
Alignment explanation
Indices: 30234313--30234420 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
30234303 TGAAATGGCC
*
30234313 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAAACCATT
*
30234339 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
30234365 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
30234391 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
30234417 ATCA
1 ATCA
30234421 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:30234391 original size:52 final size:52
Alignment explanation
Indices: 30234313--30234420 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
30234303 TGAAATGGCC
30234313 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
*
30234365 ATCATGGAATATTTACCT-AATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAAT-CATTATCATGGAACATTTACCTAACCCATT
30234417 ATCA
1 ATCA
30234421 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 3 0.06
52 51 0.94
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
Found at i:30238537 original size:27 final size:28
Alignment explanation
Indices: 30238476--30238545 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
30238466 AAATTTGTAC
* *
30238476 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
30238504 AGCACTAAGTGTGCGAG-CTGAATATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
*
30238531 GGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30238546 TGATCGAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:30238584 original size:55 final size:55
Alignment explanation
Indices: 30238477--30238585 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 55
30238467 AATTTGTACA
* * * * *
30238477 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTGAATATATG
1 GCACTAAGTGTGCGAGATCGAGTATATAGCACTAAGTGTGCGAACTCAATATATG
* * *
30238532 GCACTAAGTGTGCGTGATCGAGTAT-TAAGCACTATGTGTGCGAACTCTATATAT
1 GCACTAAGTGTGCGAGATCGAGTATAT-AGCACTAAGTGTGCGAACTCAATATAT
30238586 ATATTTCCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (55 bp):
GCACTAAGTGTGCGAGATCGAGTATATAGCACTAAGTGTGCGAACTCAATATATG
Found at i:30244653 original size:26 final size:26
Alignment explanation
Indices: 30244622--30244729 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
30244612 TGAAATGCCC
30244622 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
30244648 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
30244674 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
30244700 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
30244726 ATCA
1 ATCA
30244730 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:30261478 original size:93 final size:93
Alignment explanation
Indices: 30261363--30261533 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
30261353 GCCCCTAAGT
* * *
30261363 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGTATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
30261428 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
30261456 GAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
30261521 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30261534 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30261527 original size:46 final size:46
Alignment explanation
Indices: 30261358--30261530 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
30261348 AACCCGCCCC
* * * * *
30261358 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
* * * *
30261404 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA---C-ATTTGCATCCA
* *
30261452 TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
*
30261497 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
30261531 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
Found at i:30261549 original size:46 final size:45
Alignment explanation
Indices: 30261408--30261549 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
30261398 TATCCATAAA
30261408 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
30261455 CGAACTCGGACTCAACTCAACAAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
30261501 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
30261547 TGA
1 TGA
30261550 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.42
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:30262058 original size:20 final size:20
Alignment explanation
Indices: 30262020--30262058 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30262010 CTTTTCATAT
*
30262020 TTTTATGTTTTATTTATTAA
1 TTTTATGTTTTATTAATTAA
30262040 TTTTATGTTATT-TTAATTA
1 TTTTATGTT-TTATTAATTA
30262059 TAAACTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTTATGTTTTATTAATTAA
Found at i:30264839 original size:78 final size:81
Alignment explanation
Indices: 30264704--30264887 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
30264694 TCGAATGATG
*
30264704 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
30264768 TGTGCGAGTTACTA-A
66 TATGCGAGTTACTATA
* * **
30264783 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
30264845 TTATGCGAGTTACTATA
65 TTATGCGAGTTACTATA
* *
30264862 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30264888 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
77 1 0.01
78 50 0.54
79 28 0.30
80 14 0.15
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TATGCGAGTTACTATA
Found at i:30264894 original size:40 final size:39
Alignment explanation
Indices: 30264705--30264887 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 39
30264695 CGAATGATGT
* * *
30264705 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
30264745 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
30264784 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
30264822 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30264863 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30264888 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 26 0.20
39 20 0.16
40 71 0.56
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30272939 original size:40 final size:40
Alignment explanation
Indices: 30272882--30273065 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
30272872 TCGAATGATG
*
30272882 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* *
30272922 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
30272961 TCCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
30273001 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
30273041 -ACGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30273066 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
39 56 0.44
40 62 0.49
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:30273018 original size:79 final size:80
Alignment explanation
Indices: 30272883--30273065 Score: 239
Period size: 79 Copynumber: 2.3 Consensus size: 80
30272873 CGAATGATGT
* *
30272883 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTATATCCGGACTAAGATCCGAAGGTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
* *
30272947 GTGCGAGTTACTAATC
66 ATGCGAGTTACT-ATA
* **
30272963 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATT
30273025 TATGCGAGTTACTATA
65 TATGCGAGTTACTATA
* *
30273041 ACGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30273066 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 11 0.12
79 63 0.69
80 17 0.19
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
ATGCGAGTTACTATA
Found at i:30273079 original size:39 final size:40
Alignment explanation
Indices: 30272883--30273072 Score: 187
Period size: 39 Copynumber: 4.8 Consensus size: 40
30272873 CGAATGATGT
* * *
30272883 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTATAA
* * * *
30272923 CCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTA-ATC
1 CCGGGCTAAG-TCCCGAAGGCATTTGAGCGAGTTACTATA-A
*
30272963 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAA
*
30273001 TCCGGGTTAAGTCCCGAAGGCATTT-ATGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGA-GCGAGTTACTATAA
* *
30273042 -CGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
30273073 AGCTATATTC
Statistics
Matches: 129, Mismatches: 12, Indels: 19
0.81 0.08 0.12
Matches are distributed among these distances:
39 61 0.47
40 58 0.45
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAA
Found at i:30275680 original size:43 final size:42
Alignment explanation
Indices: 30275616--30275846 Score: 318
Period size: 43 Copynumber: 5.4 Consensus size: 42
30275606 GTTTTTTTCT
*
30275616 CAAAAACGCCGTTAAAGGTCATGACCTTTAGCGGCGCTTTCCC
1 CAAAAACGCCGCTAAA-GTCATGACCTTTAGCGGCGCTTTCCC
*
30275659 CAAAAACGCTGCTAAAAGTCATGACCTTTAGCGGCGCTTTCCC
1 CAAAAACGCCGCT-AAAGTCATGACCTTTAGCGGCGCTTTCCC
30275702 CAAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTCCC
1 CAAAAACGCCGCTAAAG-TCATGACCTTTAGCGGCGCTTTCCC
* * * * *
30275745 CAAAAACGCTGCTAAAGCTCATGACATTTAACGGTGCTTTTCC
1 CAAAAACGCCGCTAAAG-TCATGACCTTTAGCGGCGCTTTCCC
* * * *
30275788 CAAAAACGCCACTAAAGACATGATCTTTAGCGACGCTTTCCC
1 CAAAAACGCCGCTAAAGTCATGACCTTTAGCGGCGCTTTCCC
*
30275830 CAAAAACGCCACTAAAG
1 CAAAAACGCCGCTAAAG
30275847 ACCATATATA
Statistics
Matches: 168, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
42 39 0.23
43 126 0.75
44 3 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (42 bp):
CAAAAACGCCGCTAAAGTCATGACCTTTAGCGGCGCTTTCCC
Found at i:30279286 original size:22 final size:22
Alignment explanation
Indices: 30279260--30279303 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
30279250 CAAAAGGAGT
30279260 AAGATGAATGGCACATAAGGAA
1 AAGATGAATGGCACATAAGGAA
30279282 AAGATGAATGGCACATAAGGAA
1 AAGATGAATGGCACATAAGGAA
30279304 TCAGCCAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.27, T:0.14
Consensus pattern (22 bp):
AAGATGAATGGCACATAAGGAA
Found at i:30281269 original size:16 final size:15
Alignment explanation
Indices: 30281223--30281273 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 15
30281213 AAGGGTTATA
30281223 GTTTAGTGTTTAGGG
1 GTTTAGTGTTTAGGG
30281238 GTTTTTAG-GATTTAGGG
1 G--TTTAGTG-TTTAGGG
30281255 GTTTAGTGTTTTAGGG
1 GTTTAGTG-TTTAGGG
30281271 GTT
1 GTT
30281274 ATAGATTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.19
16 12 0.39
17 13 0.42
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (15 bp):
GTTTAGTGTTTAGGG
Found at i:30281297 original size:54 final size:55
Alignment explanation
Indices: 30281201--30281317 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 55
30281191 GTTTTTTGGA
* *
30281201 GTTTAGGGTTTTAAGGGTTATAGTTTAGTGTTTAGGGGTTTTT-AGGATTTAGGG
1 GTTTAGGGTTTTAAGGGTTATAGATTAGTGTTTAGGAGTTTTTGAGGATTTAGGG
* * ** * * *
30281255 GTTTAGTGTTTTAGGGGTTATAGATTAGTGTTTATTATTTTTTGGGGGTTTAGGG
1 GTTTAGGGTTTTAAGGGTTATAGATTAGTGTTTAGGAGTTTTTGAGGATTTAGGG
*
30281310 TTTTAGGG
1 GTTTAGGG
30281318 ATTATATGAT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
54 36 0.71
55 15 0.29
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (55 bp):
GTTTAGGGTTTTAAGGGTTATAGATTAGTGTTTAGGAGTTTTTGAGGATTTAGGG
Found at i:30281407 original size:41 final size:40
Alignment explanation
Indices: 30281327--30281423 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 40
30281317 GATTATATGA
*** *
30281327 TTTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTATCAAAAAAACCGCTAATCCTCT-G
* *
30281368 TTTTTAGCGGCGTTTTA-CTAAAAAAACCGTTATTCCTCTG
1 TTTTTAGCGGCGTTTTATC-AAAAAAACCGCTAATCCTCTG
*
30281408 TTTTTAGCAGCGTTTT
1 TTTTTAGCGGCGTTTT
30281424 TGGTAAAACG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 17 0.35
41 31 0.65
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTATCAAAAAAACCGCTAATCCTCTG
Found at i:30283232 original size:28 final size:28
Alignment explanation
Indices: 30283189--30283275 Score: 120
Period size: 28 Copynumber: 3.1 Consensus size: 28
30283179 ATTGATATTT
* * **
30283189 AAGTAAGAGTCTCCATGGGTTATCTTTC
1 AAGTAAGAGTCCCCATAGACTATCTTTC
30283217 AAGTAAGAGTCCCCATAGACTATCTTTC
1 AAGTAAGAGTCCCCATAGACTATCTTTC
* *
30283245 AAGTAAGAGTCCGCATAGACTATCTATC
1 AAGTAAGAGTCCCCATAGACTATCTTTC
30283273 AAG
1 AAG
30283276 CAAAAGTCTG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (28 bp):
AAGTAAGAGTCCCCATAGACTATCTTTC
Found at i:30283283 original size:28 final size:28
Alignment explanation
Indices: 30283209--30283323 Score: 117
Period size: 28 Copynumber: 4.1 Consensus size: 28
30283199 CTCCATGGGT
* *
30283209 TATCTTTCAAGTAAGAGTCCCCATAGAC
1 TATCTTTCAAGCAAGAGTCCGCATAGAC
*
30283237 TATCTTTCAAGTAAGAGTCCGCATAGAC
1 TATCTTTCAAGCAAGAGTCCGCATAGAC
* * * * **
30283265 TATCTATCAAGCAAAAGTCTGTAGGGAC
1 TATCTTTCAAGCAAGAGTCCGCATAGAC
30283293 TATAC-TTCAAGCAAGAGTCCGCA-AGGAC
1 TAT-CTTTCAAGCAAGAGTCCGCATA-GAC
30283321 TAT
1 TAT
30283324 TCTTCAGGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 71 0.99
29 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (28 bp):
TATCTTTCAAGCAAGAGTCCGCATAGAC
Found at i:30283328 original size:28 final size:27
Alignment explanation
Indices: 30283209--30283338 Score: 109
Period size: 28 Copynumber: 4.6 Consensus size: 27
30283199 CTCCATGGGT
* *
30283209 TATCTTTCAAGTAAGAGTCCCCATAGAC
1 TATC-TTCAAGCAAGAGTCCGCATAGAC
*
30283237 TATCTTTCAAGTAAGAGTCCGCATAGAC
1 TATC-TTCAAGCAAGAGTCCGCATAGAC
* * * **
30283265 TATCTATCAAGCAAAAGTCTGTAGGGAC
1 TATCT-TCAAGCAAGAGTCCGCATAGAC
30283293 TATACTTCAAGCAAGAGTCCGCA-AGGAC
1 TAT-CTTCAAGCAAGAGTCCGCATA-GAC
* *
30283321 TATTCTTCAGGAAAGAGT
1 TA-TCTTCAAGCAAGAGT
30283339 TTCTAAGAAC
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.01
28 81 0.95
29 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (27 bp):
TATCTTCAAGCAAGAGTCCGCATAGAC
Found at i:30290502 original size:20 final size:19
Alignment explanation
Indices: 30290461--30290504 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
30290451 TTTAAGGTTC
* *
30290461 TTATGTTGTAATTAGACCA
1 TTATGTTGTAAGTAGACAA
*
30290480 TTATGTTGGTAAGTGGACAA
1 TTATGTT-GTAAGTAGACAA
30290500 TTATG
1 TTATG
30290505 GACATAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (19 bp):
TTATGTTGTAAGTAGACAA
Found at i:30291165 original size:33 final size:33
Alignment explanation
Indices: 30291123--30291195 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
30291113 GGCTAAATTG
* * * *
30291123 AATAGATTGAATGCTGAATGTATTGAATTTGAT
1 AATATATTGAATACTGAATGTACTAAATTTGAT
30291156 AATATATTGAATACTGAATGTACTAAATTTGAT
1 AATATATTGAATACTGAATGTACTAAATTTGAT
30291189 AATATAT
1 AATATAT
30291196 ATAGATCAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40
Consensus pattern (33 bp):
AATATATTGAATACTGAATGTACTAAATTTGAT
Found at i:30293604 original size:28 final size:29
Alignment explanation
Indices: 30293572--30293670 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
30293562 ATAATAAGCC
*
30293572 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
30293600 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
30293628 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
30293657 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30293671 CAATCTTATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:30298022 original size:27 final size:27
Alignment explanation
Indices: 30297992--30298052 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
30297982 GATTCGCATA
30297992 AAAT-TTAACTAAAAAAATAATTTACCG
1 AAATCTTAA-TAAAAAAATAATTTACCG
* *
30298019 AAATCTTTATTAAAAAATAATTTACCG
1 AAATCTTAATAAAAAAATAATTTACCG
30298046 AAATCTT
1 AAATCTT
30298053 TATTATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 28 0.90
28 3 0.10
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.34
Consensus pattern (27 bp):
AAATCTTAATAAAAAAATAATTTACCG
Found at i:30298053 original size:27 final size:27
Alignment explanation
Indices: 30298003--30298057 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
30297993 AATTTAACTA
30298003 AAAAAATAATTTACCGAAATCTTTATT
1 AAAAAATAATTTACCGAAATCTTTATT
30298030 AAAAAATAATTTACCGAAATCTTTATT
1 AAAAAATAATTTACCGAAATCTTTATT
30298057 A
1 A
30298058 TAATTATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (27 bp):
AAAAAATAATTTACCGAAATCTTTATT
Found at i:30298098 original size:38 final size:38
Alignment explanation
Indices: 30298052--30298152 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 38
30298042 ACCGAAATCT
*
30298052 TTATTATAATTATTGTAATAATAATTTAGGATCAAATA
1 TTATTATAATTATTGTAATTATAATTTAGGATCAAATA
* * ****
30298090 TTATTATAATT-TCTATAATTTTAATTTTTTTTCAAATA
1 TTATTATAATTAT-TGTAATTATAATTTAGGATCAAATA
*
30298128 TTATTATAATTATGGTAATTATAAT
1 TTATTATAATTATTGTAATTATAAT
30298153 ATTTGGTTAA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
37 1 0.02
38 49 0.96
39 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (38 bp):
TTATTATAATTATTGTAATTATAATTTAGGATCAAATA
Found at i:30298150 original size:15 final size:17
Alignment explanation
Indices: 30298130--30298166 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
30298120 TTCAAATATT
30298130 ATTATAAT-TATGG-TA
1 ATTATAATATATGGTTA
*
30298145 ATTATAATATTTGGTTA
1 ATTATAATATATGGTTA
30298162 ATTAT
1 ATTAT
30298167 TATGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTATAATATATGGTTA
Found at i:30298168 original size:38 final size:37
Alignment explanation
Indices: 30298052--30298169 Score: 112
Period size: 38 Copynumber: 3.1 Consensus size: 37
30298042 ACCGAAATCT
* * *
30298052 TTATTATAATTATTGTAATAATAATTTAGGATCAAATA
1 TTATTATAATTATTGTAATTATAATTTTGG-TTAAATA
* * **
30298090 TTATTATAATT-TCTATAATTTTAATTTTTTTTCAAATA
1 TTATTATAATTAT-TGTAATTATAATTTTGGTT-AAATA
* *
30298128 TTATTATAATTATGGTAATTATAATATTTGGTTAATTA
1 TTATTATAATTATTGTAATTATAAT-TTTGGTTAAATA
30298166 TTAT
1 TTAT
30298170 GATTTGATTC
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
37 2 0.03
38 55 0.87
39 6 0.10
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (37 bp):
TTATTATAATTATTGTAATTATAATTTTGGTTAAATA
Found at i:30299917 original size:22 final size:22
Alignment explanation
Indices: 30299889--30299944 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
30299879 GTATCTCGAA
30299889 AGAGCTTACTATTCAGCTCAAT
1 AGAGCTTACTATTCAGCTCAAT
*
30299911 AGAGCTTACCGTTTTCAGCTCAAT
1 AGAGCTTA-C-TATTCAGCTCAAT
*
30299935 AAAGCTTACT
1 AGAGCTTACT
30299945 GTTTATCAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 9 0.30
23 2 0.07
24 19 0.63
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (22 bp):
AGAGCTTACTATTCAGCTCAAT
Found at i:30299932 original size:24 final size:24
Alignment explanation
Indices: 30299900--30299971 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 24
30299890 GAGCTTACTA
30299900 TTCAGCTCAATAGAGCTTACCGTT
1 TTCAGCTCAATAGAGCTTACCGTT
* *
30299924 TTCAGCTCAATAAAGCTTACTGTT
1 TTCAGCTCAATAGAGCTTACCGTT
**
30299948 TATCAGCTCAGGAGGAGCTTACCG
1 T-TCAGCTCAATA-GAGCTTACCG
30299972 ACCATGACTC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 23 0.57
25 9 0.22
26 8 0.20
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (24 bp):
TTCAGCTCAATAGAGCTTACCGTT
Found at i:30304195 original size:51 final size:51
Alignment explanation
Indices: 30304118--30304366 Score: 378
Period size: 51 Copynumber: 4.9 Consensus size: 51
30304108 CGGATACACG
*
30304118 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
*
30304169 GTGGCCTTCACATAGTACCACACTTGTGT-CAAAACTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * *
30304219 GTGGCCTTTATATAGTACCGCACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
30304270 GTGGCCTTCACATAGTAACACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * *
30304321 GTGGCTTTCACA-ATGTACCTCACTTTTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATA-GTACCACACTTGTGTCCAAAGCTATTTTATTC
30304367 CTAAGGTTCA
Statistics
Matches: 181, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
50 48 0.27
51 133 0.73
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:30304293 original size:101 final size:102
Alignment explanation
Indices: 30304118--30304366 Score: 371
Period size: 101 Copynumber: 2.5 Consensus size: 102
30304108 CGGATACACG
* *
30304118 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAAGTGGCCTTCACAT
1 GTGGCCTTTACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACAT
*
30304182 AGTACCACACTTGTGT-CAAAACTATTTTATTCACAAA
65 AGTAACACACTTGTGTCCAAAACTATTTTATTCACAAA
* *
30304219 GTGGCCTTTATATAGTACCGCACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACATA
1 GTGGCCTTTACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACATA
*
30304284 GTAACACACTTGTGTCCAAAGCTATTTTATTCACAAA
66 GTAACACACTTGTGTCCAAAACTATTTTATTCACAAA
* *
30304321 GTGG-CTTTCACA-ATGTACCTCACTTTTGTCCAAAGCTATTTTATTC
1 GTGGCCTTT-ACATA-GTACCACACTTGTGTCCAAAGCTATTTTATTC
30304367 CTAAGGTTCA
Statistics
Matches: 135, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
100 1 0.01
101 78 0.58
102 56 0.41
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (102 bp):
GTGGCCTTTACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACATA
GTAACACACTTGTGTCCAAAACTATTTTATTCACAAA
Found at i:30304434 original size:28 final size:27
Alignment explanation
Indices: 30304390--30304533 Score: 158
Period size: 28 Copynumber: 5.4 Consensus size: 27
30304380 AGGAAATTTC
*
30304390 TCACTTAACACCATGCCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
30304418 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
30304446 GCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
30304470 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
30304498 TCACTTA--A-ATGTCATGGTA-TTATT
1 TCACTTAGCACATGCCATGG-ACTTATT
*
30304522 TTACTTAGCACA
1 TCACTTAGCACA
30304534 ATGTCATATC
Statistics
Matches: 100, Mismatches: 7, Indels: 19
0.79 0.06 0.15
Matches are distributed among these distances:
24 39 0.39
25 3 0.03
26 2 0.02
27 4 0.04
28 52 0.52
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:30304458 original size:52 final size:52
Alignment explanation
Indices: 30304402--30304533 Score: 203
Period size: 52 Copynumber: 2.5 Consensus size: 52
30304392 ACTTAACACC
*
30304402 ATGCCATGGACTTATTTCACTTAGCACATTGCCATGGACTTATTGCACTTAG
1 ATGCCATGGACTTATTTCACTTAGCACATTGCCATGGACTTATTGCACTTAA
* *
30304454 ATGCCATGGTCTTATTTCACTTAGCACATTGCCATGGACTTATTTCACTTAA
1 ATGCCATGGACTTATTTCACTTAGCACATTGCCATGGACTTATTGCACTTAA
* *
30304506 ATGTCATGGTA-TTATTTTACTTAGCACA
1 ATGCCATGG-ACTTATTTCACTTAGCACA
30304534 ATGTCATATC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (52 bp):
ATGCCATGGACTTATTTCACTTAGCACATTGCCATGGACTTATTGCACTTAA
Found at i:30308794 original size:32 final size:32
Alignment explanation
Indices: 30308758--30308821 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
30308748 CGATTTTCCC
*
30308758 GATCTTTCAAAGTGGCATAGAATTCATAAACT
1 GATCTTTCAAAGTGGCATAAAATTCATAAACT
*
30308790 GATCTTTCAAAGTGGTATAAAATTCATAAACT
1 GATCTTTCAAAGTGGCATAAAATTCATAAACT
30308822 ATCGCGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (32 bp):
GATCTTTCAAAGTGGCATAAAATTCATAAACT
Found at i:30314508 original size:45 final size:46
Alignment explanation
Indices: 30314459--30314627 Score: 186
Period size: 45 Copynumber: 3.7 Consensus size: 46
30314449 GTTGAGCATC
*
30314459 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG-T
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCT
* * * *
30314504 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC-T
* * *
30314550 CCGAACTCGTTGAGTTGAGT-CGAGTTCATTTATGGATGCGAACGCC
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCT
*
30314596 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30314628 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
42 6 0.06
44 4 0.04
45 45 0.44
46 19 0.18
47 24 0.23
49 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCT
Found at i:30314611 original size:92 final size:92
Alignment explanation
Indices: 30314454--30314622 Score: 277
Period size: 92 Copynumber: 1.8 Consensus size: 92
30314444 GGATGGTTGA
* *
30314454 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCGAACTCGTTGAGTT
30314519 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* * *
30314546 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CCGAACTCGTTGAGT
30314610 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
30314623 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 21 0.30
92 50 0.70
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30314889 original size:19 final size:20
Alignment explanation
Indices: 30314852--30314889 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
30314842 ATAAGGTGGT
30314852 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
30314872 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
30314890 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:30321605 original size:46 final size:46
Alignment explanation
Indices: 30321555--30321727 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
30321545 TGGTTGAGCA
*
30321555 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
30321601 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
30321648 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
30321694 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30321728 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:30321711 original size:93 final size:93
Alignment explanation
Indices: 30321552--30321722 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
30321542 GGATGGTTGA
* *
30321552 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
30321617 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
30321645 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
30321710 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30321723 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30321988 original size:19 final size:20
Alignment explanation
Indices: 30321951--30321988 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
30321941 ATAAGGTGGT
30321951 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
30321971 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
30321989 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:30330158 original size:22 final size:22
Alignment explanation
Indices: 30330140--30330183 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30330130 AACTTAAATT
30330140 TTAAAATCTAAAAAATTAAAAA
1 TTAAAATCTAAAAAATTAAAAA
* * *
30330162 TTAAAATTTTAAAAATAAAAAA
1 TTAAAATCTAAAAAATTAAAAA
30330184 AATACAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TTAAAATCTAAAAAATTAAAAA
Done.