Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011243.1 Kokia drynarioides strain JFW-HI SEQ_126221, whole genome shotgun sequence
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: 217176
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 39 characters in sequence are not A, C, G, or T
Found at i:2595 original size:93 final size:94
Alignment explanation
Indices: 2489--2679 Score: 276
Period size: 93 Copynumber: 2.0 Consensus size: 94
2479 TTTTGTAGAT
* *
2489 TTTTTTTCGCTTAAGAATGTATTGGCCTTTTTAACGCGAAATGGAATGACAACCCAAGTACCCCA
1 TTTTTTTC-CTTAAGAATGTATTGGCCCTTTTAACGCGAAATGGAATGACAACCCAAGCACCCCA
* *
2554 CCCCGGTTACTCAGCCCAACACACTCCAAA
65 CCCCGATTACTCAACCCAACACACTCCAAA
* * * *
2584 TTTTTTT-CTTAAGAATGTATTGGCCCTTTTGATGTGAAATGGAATGACAACCCAAGCACCCTAC
1 TTTTTTTCCTTAAGAATGTATTGGCCCTTTTAACGCGAAATGGAATGACAACCCAAGCACCCCAC
* *
2648 CCCGATTACTCAATCCAACACACTCCCAA
66 CCCGATTACTCAACCCAACACACTCCAAA
2677 TTT
1 TTT
2680 AGTTTTTTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 79 0.92
95 7 0.08
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (94 bp):
TTTTTTTCCTTAAGAATGTATTGGCCCTTTTAACGCGAAATGGAATGACAACCCAAGCACCCCAC
CCCGATTACTCAACCCAACACACTCCAAA
Found at i:13675 original size:20 final size:20
Alignment explanation
Indices: 13650--13689 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13640 AGTCTAAAAG
*
13650 GTATCGGTAAAATTGGAGTT
1 GTATCGGTAAAAGTGGAGTT
*
13670 GTATCGGTAGAAGTGGAGTT
1 GTATCGGTAAAAGTGGAGTT
13690 CTACCAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.35, T:0.33
Consensus pattern (20 bp):
GTATCGGTAAAAGTGGAGTT
Found at i:14258 original size:29 final size:27
Alignment explanation
Indices: 14189--14276 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 27
14179 TTTAAATTTT
* *
14189 TTTGACCCCCAAACTATTCAAATATTATA
1 TTTGA-CCCCAAACTA-TCAAAAAATATA
*
14218 TTTGACCACCAAACTATCAAAAAAATATG
1 TTTGACC-CCAAACTATC-AAAAAATATA
*
14247 TTTCGACCCCAAACTATCTAAAAAT-TA
1 TTT-GACCCCAAACTATCAAAAAATATA
14274 TTT
1 TTT
14277 TTTAACCCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
27 4 0.08
28 10 0.20
29 33 0.65
30 4 0.08
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (27 bp):
TTTGACCCCAAACTATCAAAAAATATA
Found at i:14284 original size:29 final size:29
Alignment explanation
Indices: 14182--14301 Score: 84
Period size: 29 Copynumber: 4.2 Consensus size: 29
14172 GCTTTATTTT
* *
14182 AAATT-TTTTTGACCCCCAAACTAT-TCAA
1 AAATTATTTTTTAACCCCAAACTATCT-AA
* * * *
14210 ATATTA-TATTTGACCACCAAACTATCAAA
1 AAATTATTTTTTAACC-CCAAACTATCTAA
* * **
14239 AAAATATGTTTCGACCCCAAACTATCTAA
1 AAATTATTTTTTAACCCCAAACTATCTAA
* * *
14268 AAATTATTTTTTAACCCTAAACTTTCCAA
1 AAATTATTTTTTAACCCCAAACTATCTAA
14297 AAATT
1 AAATT
14302 TAGATTTAAC
Statistics
Matches: 69, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
28 9 0.13
29 54 0.78
30 6 0.09
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATTATTTTTTAACCCCAAACTATCTAA
Found at i:14321 original size:30 final size:29
Alignment explanation
Indices: 14281--14484 Score: 203
Period size: 30 Copynumber: 6.8 Consensus size: 29
14271 TTATTTTTTA
* *
14281 ACCC-TAAACTTTCCAAAAATTTAGATTTA
1 ACCCTTAAACTTTCCAAAAATTCA-ATTTG
*
14310 ACCCTTAAACTTTCCAAAAAAAATTCAATTTC
1 ACCCTTAAACTTTCC---AAAAATTCAATTTG
14342 ACCCTTAAACTTTCCAAAAATTCAAATTTG
1 ACCCTTAAACTTTCCAAAAATTC-AATTTG
* * *
14372 ACCCTCAAACTTTCTAACAATTCAAATTTG
1 ACCCTTAAACTTTCCAAAAATTC-AATTTG
* * *
14402 ACCCCTGAACTTTCCAAAAATTTGAATTTG
1 ACCCTTAAACTTTCCAAAAA-TTCAATTTG
* * *
14432 ACCCTCAAATTTTCCAAAAAATCCAATTTG
1 ACCCTTAAACTTTCC-AAAAATTCAATTTG
* *
14462 ACCCCTAAATTTTCCAAAAATTC
1 ACCCTTAAACTTTCCAAAAATTC
14485 TAACTTGAAG
Statistics
Matches: 147, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
29 19 0.13
30 94 0.64
31 7 0.05
32 19 0.13
33 8 0.05
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.32
Consensus pattern (29 bp):
ACCCTTAAACTTTCCAAAAATTCAATTTG
Found at i:14430 original size:60 final size:58
Alignment explanation
Indices: 14282--14492 Score: 233
Period size: 60 Copynumber: 3.5 Consensus size: 58
14272 TATTTTTTAA
* * *
14282 CCCTAAACTTTCCAAAAATTTAGATTTAACCCTTAAACTTTCCAAAAAAAATTCAATTTCAC
1 CCCTAAACTTTCCAAAAATTTA-ATTTGACCCTCAAACTTT-C--AAAAAATTCAATTTGAC
* * * *
14344 CCTTAAACTTTCCAAAAATTCAAATTTGACCCTCAAACTTTCTAACAATTCAAATTTGAC
1 CCCTAAACTTTCCAAAAATT-TAATTTGACCCTCAAACTTTCAAAAAATTC-AATTTGAC
* * *
14404 CCCTGAACTTTCCAAAAATTTGAATTTGACCCTCAAATTTTCCAAAAAATCCAATTTGAC
1 CCCTAAACTTTCCAAAAATTT-AATTTGACCCTCAAACTTT-CAAAAAATTCAATTTGAC
* *
14464 CCCTAAATTTTCCAAAAATTCTAACTTGA
1 CCCTAAACTTTCCAAAAATT-TAATTTGA
14493 AGTTTCCAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
59 7 0.06
60 75 0.59
61 9 0.07
62 35 0.28
63 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.33
Consensus pattern (58 bp):
CCCTAAACTTTCCAAAAATTTAATTTGACCCTCAAACTTTCAAAAAATTCAATTTGAC
Found at i:14484 original size:90 final size:90
Alignment explanation
Indices: 14281--14484 Score: 239
Period size: 90 Copynumber: 2.2 Consensus size: 90
14271 TTATTTTTTA
* * *
14281 ACCCTAAACTTTCCAAAAATTTAGATTTAACCCTTAAACTTTCCAAAAAAAATTCAATTTCACCC
1 ACCCTAAACTTTCCAAAAATTCAAATTTAACCCCTAAACTTTCC-AAAAAAATTCAATTTCACCC
* *
14346 TTAAACTTTCCAAAAATTCAAATTTG
65 TCAAACTTTCCAAAAAATCAAATTTG
* * * * * * *
14372 ACCCTCAAACTTTCTAACAATTCAAATTTGACCCCTGAACTTTCC-AAAAATTTGAATTTGACCC
1 ACCCT-AAACTTTCCAAAAATTCAAATTTAACCCCTAAACTTTCCAAAAAAATTCAATTTCACCC
* *
14436 TCAAATTTTCCAAAAAATCCAATTTG
65 TCAAACTTTCCAAAAAATCAAATTTG
*
14462 ACCCCTAAATTTTCCAAAAATTC
1 A-CCCTAAACTTTCCAAAAATTC
14485 TAACTTGAAG
Statistics
Matches: 94, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
90 53 0.56
91 9 0.10
92 32 0.34
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.32
Consensus pattern (90 bp):
ACCCTAAACTTTCCAAAAATTCAAATTTAACCCCTAAACTTTCCAAAAAAATTCAATTTCACCCT
CAAACTTTCCAAAAAATCAAATTTG
Found at i:18079 original size:59 final size:58
Alignment explanation
Indices: 17965--18287 Score: 230
Period size: 59 Copynumber: 5.4 Consensus size: 58
17955 AATTTTGGAA
* * *
17965 AAGTTTAAGGGGTAAAAATGTAATTTTAGGAAAGTTTA-GGGTTAAAATGTGATTTTAAAG
1 AAGTTT-A-GGGTTAAAATGTAATTTAAAG-AAGTTTAGGGGTTAAAATGTGATTTTAAAG
* * *
18025 AAGTTTAGGGTTAAAATGTGATTTAAAGAAGGTTTAGGGGTCAAAATGTCATTTTAAAG
1 AAGTTTAGGGTTAAAATGTAATTTAAAGAA-GTTTAGGGGTTAAAATGTGATTTTAAAG
** * * * **
18084 AAGTACAAGGGTCAAAATGTAATTTTGGAAAG--GTTAAGGGGGTTAAAATGTGATTATGGAG
1 AAGT-TTAGGGTTAAAATGTAA-TTT--AAAGAAGTTTA-GGGGTTAAAATGTGATTTTAAAG
* * * *
18145 TAGTTTAGGGTTAAAATGTAATTTTGGAA-AATTTTAGGGGTTAAAATGT-AATTTATAA-
1 AAGTTTAGGGTTAAAATGTAA-TTT-AAAGAAGTTTAGGGGTTAAAATGTGATTTTA-AAG
* * * * *
18203 AAGTTTAGGGGTCAAAATATAATTTTACAA-AAGTTTATGGGTCAAAATGTAATTTTAGAA-
1 AAGTTTA-GGGTTAAAATGTAA-TTTA-AAGAAGTTTAGGGGTTAAAATGTGATTTTA-AAG
*
18263 AAGTTTAGGTGTTAAAATGAAATTT
1 AAGTTTAGG-GTTAAAATGTAATTT
18288 TAGGTATGTT
Statistics
Matches: 210, Mismatches: 39, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
57 2 0.01
58 31 0.15
59 82 0.39
60 67 0.32
61 24 0.11
63 4 0.02
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (58 bp):
AAGTTTAGGGTTAAAATGTAATTTAAAGAAGTTTAGGGGTTAAAATGTGATTTTAAAG
Found at i:18288 original size:30 final size:29
Alignment explanation
Indices: 17953--18290 Score: 281
Period size: 30 Copynumber: 11.3 Consensus size: 29
17943 TGGTCAAACA
* *
17953 GTAATTTTGGAAAAGTTTAAGGGGTAAAAAT
1 GTAATTTTAGAAAAGTTT-A-GGGTTAAAAT
*
17984 GTAATTTTAGGAAAGTTTAGGGTTAAAAT
1 GTAATTTTAGAAAAGTTTAGGGTTAAAAT
*
18013 GTGATTTTA-AAGAAGTTTAGGGTTAAAAT
1 GTAATTTTAGAA-AAGTTTAGGGTTAAAAT
* *
18042 GTGA-TTTA-AAGAAGGTTTAGGGGTCAAAAT
1 GTAATTTTAGAA-AA-GTTTA-GGGTTAAAAT
* ** *
18072 GTCATTTTA-AAGAAGTACAAGGGTCAAAAT
1 GTAATTTTAGAA-AAGT-TTAGGGTTAAAAT
* * *
18102 GTAATTTTGGAAAGGTTAAGGGGGTTAAAAT
1 GTAATTTTAGAAAAGTTTA--GGGTTAAAAT
* * * **
18133 GTGATTATGGAGTAGTTTAGGGTTAAAAT
1 GTAATTTTAGAAAAGTTTAGGGTTAAAAT
* *
18162 GTAATTTTGGAAAATTTTAGGGGTTAAAAT
1 GTAATTTTAGAAAAGTTTA-GGGTTAAAAT
* *
18192 GTAA-TTTATAAAAGTTTAGGGGTCAAAAT
1 GTAATTTTAGAAAAGTTTA-GGGTTAAAAT
* * *
18221 ATAATTTTACAAAAGTTTATGGGTCAAAAT
1 GTAATTTTAGAAAAGTTTA-GGGTTAAAAT
18251 GTAATTTTAGAAAAGTTTAGGTGTTAAAAT
1 GTAATTTTAGAAAAGTTTAGG-GTTAAAAT
*
18281 GAAATTTTAG
1 GTAATTTTAG
18291 GTATGTTCAG
Statistics
Matches: 260, Mismatches: 36, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
28 10 0.04
29 95 0.37
30 105 0.40
31 50 0.19
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (29 bp):
GTAATTTTAGAAAAGTTTAGGGTTAAAAT
Found at i:18305 original size:149 final size:147
Alignment explanation
Indices: 17944--18302 Score: 413
Period size: 149 Copynumber: 2.4 Consensus size: 147
17934 GAGAATACAT
* *
17944 GGTCAAACA-GTAATTTTGGAAAAGTTTAAGGGGTAAAAATGTAATTTTAGGAAAGTTTAGGGTT
1 GGTCAAA-ATGTAATTTTGGAAAAGTTT-AGGGGTTAAAATGTAATTTTAGG-TAGTTTAGGGTT
* * *
18008 AAAATGTGATTTTAAAGAAGTTTAGGGTTAAAATGTGATTTAAAGAAGGTTTAGGGGTCAAAATG
63 AAAATGTAATTTTAAAGAAGTTTAGGGTTAAAATGTAATTTAAAGAAGGTTTAGGGGTCAAAATA
*
18073 TCATTTTAAAGAAGTACAAG
128 TAATTTTAAAGAAGTACAAG
* * * * *
18093 GGTCAAAATGTAATTTTGGAAAGGTTAAGGGGGTTAAAATGTGATTATGGAGTAGTTTAGGGTTA
1 GGTCAAAATGTAATTTTGGAAAAGTTTA-GGGGTTAAAATGTAATTTTAG-GTAGTTTAGGGTTA
* *
18158 AAATGTAATTTTGGAA-AATTTTAGGGGTTAAAATGTAATTTATAA-AA-GTTTAGGGGTCAAAA
64 AAATGTAATTTT-AAAGAAGTTTA-GGGTTAAAATGTAATTTA-AAGAAGGTTTAGGGGTCAAAA
** *
18220 TATAATTTTACAA-AAGTTTATG
126 TATAATTTTA-AAGAAGTACAAG
* * * *
18242 GGTCAAAATGTAATTTTAGAAAAGTTTAGGTGTTAAAATGAAATTTTAGGTATGTTCAGGG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTAGGTA-GTTTAGGG
18303 GTTTGGGGTT
Statistics
Matches: 177, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
147 3 0.02
148 25 0.14
149 123 0.69
150 24 0.14
151 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (147 bp):
GGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTAGGTAGTTTAGGGTTAAA
ATGTAATTTTAAAGAAGTTTAGGGTTAAAATGTAATTTAAAGAAGGTTTAGGGGTCAAAATATAA
TTTTAAAGAAGTACAAG
Found at i:20478 original size:85 final size:85
Alignment explanation
Indices: 20334--20501 Score: 219
Period size: 85 Copynumber: 2.0 Consensus size: 85
20324 CACTTCATTT
* * * * * * *
20334 ATTTGGTCTACTTCTCTATATCTCATTACGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCT
1 ATTTGGTCCACTTCTCTATATCTCATCACGAAGACGACCACCTCATTGCTTTAACCCACTTCTCC
20399 ATATCTCATCAGGAAGATAG
66 ATATCTCATCAGGAAGATAG
* * * * *
20419 ATTTGGTCCACTTCTCTATATCTCATCAGGAAGACGACTACTTTATTGCTTTGACCCACTTCTCC
1 ATTTGGTCCACTTCTCTATATCTCATCACGAAGACGACCACCTCATTGCTTTAACCCACTTCTCC
*
20484 GTATCTCATCAGGAAGAT
66 ATATCTCATCAGGAAGAT
20502 GGGGGTTCGA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (85 bp):
ATTTGGTCCACTTCTCTATATCTCATCACGAAGACGACCACCTCATTGCTTTAACCCACTTCTCC
ATATCTCATCAGGAAGATAG
Found at i:20578 original size:209 final size:210
Alignment explanation
Indices: 20212--20665 Score: 669
Period size: 209 Copynumber: 2.2 Consensus size: 210
20202 GCTTCATCTC
* * * *
20212 TTGGTCCACTTCTTTGTATCTCATCAGGAAGATGGCCACTTTATTGCTTTGACCCACTTCTCTGT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCACTTTATTGCTTTGACCCACTTCTCCGT
* * * * ** *
20277 ATCTCATCAGGCATATAGGGATTTCAGGTTTCACTTGCATTGAACTTCACTTCATTTATTTGGTC
66 ATCTCATCAGGAAGATAGGGAGTTCAAGTTTCACTCACATTGAACTTCACTTCATCTATTTGGTC
* *
20342 TACTTCTCTATATCTCATTACGAAGATGACCGCCTCA-TTGTTTTAATCCACTTCTCTATATCTC
131 TACTTCTCTATATCTCATTACGAAGATGACCACATCACTTGTTTTAATCCACTTCTCTATATCTC
20406 ATCAGGAAGATAGAT
196 ATCAGGAAGATAGAT
* *
20421 TTGGTCCACTTCTCTATATCTCATCAGGAAGACGACTACTTTATTGCTTTGACCCACTTCTCCGT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCACTTTATTGCTTTGACCCACTTCTCCGT
* * *
20486 ATCTCATCAGGAAGAT-GGGGGTTCGAAGTTTCACTCACATTGAGCTTCGCTTCATCTATTTGGT
66 ATCTCATCAGGAAGATAGGGAGTTC-AAGTTTCACTCACATTGAACTTCACTTCATCTATTTGGT
* * * *
20550 CTACTTCTCTATATCTCATTAGGAAGATGATCACATCACTTGTTTTAATCCACTTCTTTGTATCT
130 CTACTTCTCTATATCTCATTACGAAGATGACCACATCACTTGTTTTAATCCACTTCTCTATATCT
* *
20615 CATTAGGAAGATGGAT
195 CATCAGGAAGATAGAT
20631 TTGGTCCACTTCTCTGTATCTCATCAGGAAGACGA
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGACGA
20666 ATTTGGTCCA
Statistics
Matches: 218, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
208 6 0.03
209 140 0.64
210 72 0.33
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (210 bp):
TTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCACTTTATTGCTTTGACCCACTTCTCCGT
ATCTCATCAGGAAGATAGGGAGTTCAAGTTTCACTCACATTGAACTTCACTTCATCTATTTGGTC
TACTTCTCTATATCTCATTACGAAGATGACCACATCACTTGTTTTAATCCACTTCTCTATATCTC
ATCAGGAAGATAGAT
Found at i:20649 original size:37 final size:37
Alignment explanation
Indices: 20598--20702 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
20588 CTTGTTTTAA
*
20598 TCCACTTCTTTGTATCTCATTAGGAAGATGGATTTGG
1 TCCACTTCTTTGTATCTCATTAGGAAGATGAATTTGG
* * *
20635 TCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGG
1 TCCACTTCTTTGTATCTCATTAGGAAGATGAATTTGG
* *
20672 TCCACTTTTTTGTTTCTCATTAGGAAGATGA
1 TCCACTTCTTTGTATCTCATTAGGAAGATGA
20703 TCACTTTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (37 bp):
TCCACTTCTTTGTATCTCATTAGGAAGATGAATTTGG
Found at i:20672 original size:247 final size:246
Alignment explanation
Indices: 20388--20908 Score: 733
Period size: 247 Copynumber: 2.1 Consensus size: 246
20378 ATTGTTTTAA
*
20388 TCCACTTCTCTATATCTCATCAGGAAGATAGATTTGGTCCACTTCTCTATATCTCATCAGGAAGA
1 TCCACTTCTCTATATCTCATCAGGAAGAGAGATTTGGTCCACTTCTCTATATCTCATCAGGAAGA
* * * *
20453 CGA-CTACTTTATTGCTTTGACCCACTTCTCCGTATCTCATCAGGAAGATGGGGGTTCGAAGTTT
66 CGATC-ACTTTATTGCTTTAACCCACTTCTCAGTATCTCATCAGGAAGATGGAGGTTCGAAGTTG
* *
20517 CACTCACATTGAGCTTCGCTTCATCT-ATTTGGTCTACTTCTCTATATCTCATTAGGAAGATGAT
130 CACTCACATTGAGCTTCGCTTCAT-TGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGAC
* * * *
20581 CACATCACTTGTTTTAATCCACTTCTTTGTATCTCATTAGGAAGATGGATTTGG
194 CACATCA-TTGTTTCAATCCACTTCTCTATATCTCATTAGGAAGATGGATTTCG
* * * * * *
20635 TCCACTTCTCTGTATCTCATCAGGAAGACGA-ATTTGGTCCACTTTTTTGTTTCTCATTAGGAAG
1 TCCACTTCTCTATATCTCATCAGGAAGA-GAGATTTGGTCCACTTCTCTATATCTCATCAGGAAG
* *
20699 ATGATCACTTTATTGCTTTAACCCACTTCTCAGTATCTCATCAGGAAGATGGAGGTTTGAAGTTG
65 ACGATCACTTTATTGCTTTAACCCACTTCTCAGTATCTCATCAGGAAGATGGAGGTTCGAAGTTG
** * * *
20764 CACTCGTATTGAGCTTTGCTTCATTGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACC
130 CACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACC
* * *
20829 GCCTCATTGTTTCAATCCACTTCTCTATATCTCATTAGGCAGATGGATTTCG
195 ACATCATTGTTTCAATCCACTTCTCTATATCTCATTAGGAAGATGGATTTCG
*
20881 TCCACTTCTCCATATCTCATCAGGAAGA
1 TCCACTTCTCTATATCTCATCAGGAAGA
20909 TGATCGCTTT
Statistics
Matches: 242, Mismatches: 29, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
246 68 0.28
247 172 0.71
248 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (246 bp):
TCCACTTCTCTATATCTCATCAGGAAGAGAGATTTGGTCCACTTCTCTATATCTCATCAGGAAGA
CGATCACTTTATTGCTTTAACCCACTTCTCAGTATCTCATCAGGAAGATGGAGGTTCGAAGTTGC
ACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCA
CATCATTGTTTCAATCCACTTCTCTATATCTCATTAGGAAGATGGATTTCG
Found at i:20849 original size:124 final size:123
Alignment explanation
Indices: 20418--20875 Score: 351
Period size: 124 Copynumber: 3.7 Consensus size: 123
20408 CAGGAAGATA
* * * *
20418 GATTTGGTCCACTTCTCTATATCTCATCAGGAAGACGACTACTTTATTGCTTTGACCCACTTCTC
1 GATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCACTTCATTGCTTTAACCCACTTCTC
* * * * * *
20483 CGTATCTCATCAGGAAGATGGGGGTTCGAAGTTTCACTCACATTGAGCTTCGCTTCATCT
66 AGTATCTCATCAGGAAGATGGAGGTTTGAAGTTCCACTC-TATTGAGCTTTGCTTCAT-T
* * * * * *
20543 -ATTTGGTCTACTTCTCTATATCTCATTAGGAAGATGATCACATCACTTGTTTTAATCCACTTCT
1 GATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCACTTCA-TTGCTTTAACCCACTTCT
** * * * * *** **
20607 TTGTATCTCATTAGGAAGATGGA--TTTG--G-TCCACTTCT-CTGTATCTCAT-CAGGAAGAC
65 CAGTATCTCATCAGGAAGATGGAGGTTTGAAGTTCCAC-TCTATTG-AGCT-TTGC-TTCA-TT
* * * * * * *
20664 GAATTTGGTCCACTTTTTTGTTTCTCATTAGGAAGATGATCACTTTATTGCTTTAACCCACTTCT
1 G-ATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCACTTCATTGCTTTAACCCACTTCT
*
20729 CAGTATCTCATCAGGAAGATGGAGGTTTGAAGTTGCACTCGTATTGAGCTTTGCTTCATT
65 CAGTATCTCATCAGGAAGATGGAGGTTTGAAGTTCCACTC-TATTGAGCTTTGCTTCATT
* * * * * *
20789 GATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTG-TTTCAATCCACTTCT
1 GATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCACTTCATTGCTTT-AACCCACTTCT
* *
20853 CTA-TATCTCATTAGGCAGATGGA
65 C-AGTATCTCATCAGGAAGATGGA
20876 TTTCGTCCAC
Statistics
Matches: 257, Mismatches: 58, Indels: 37
0.73 0.16 0.11
Matches are distributed among these distances:
119 2 0.01
120 8 0.03
121 4 0.02
122 36 0.14
123 44 0.17
124 111 0.43
125 36 0.14
126 5 0.02
127 9 0.04
128 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (123 bp):
GATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCACTTCATTGCTTTAACCCACTTCTC
AGTATCTCATCAGGAAGATGGAGGTTTGAAGTTCCACTCTATTGAGCTTTGCTTCATT
Found at i:21326 original size:41 final size:40
Alignment explanation
Indices: 21226--21547 Score: 322
Period size: 41 Copynumber: 7.9 Consensus size: 40
21216 TAACGGTTGT
* * *
21226 AATCTGCCCT-ATGATT-GAGGGTAAAATACTGGAATCTTC
1 AATCTGCCCTCTTGATTAG-GGGTAAAAGATTGGAATCTTC
*
21265 AATCTGCCCCTCTTG---A----TAAAAGATTGTAATCTTC
1 AATCTG-CCCTCTTGATTAGGGGTAAAAGATTGGAATCTTC
* *
21299 AATCTGCCCTTTTTGATTAGGGGTAAAAGACTGGAATCTTC
1 AATCTGCCC-TCTTGATTAGGGGTAAAAGATTGGAATCTTC
21340 AATCTGTCCCTCTTGATTAGGGGTAAAAGACTT-GAATCGCTTC
1 AATCTG-CCCTCTTGATTAGGGGTAAAAGA-TTGGAAT--CTTC
* * *
21383 AATCTTCCTCTCTTAATTAGGGGTAAAAAATTGGAATCTTC
1 AATCTGCC-CTCTTGATTAGGGGTAAAAGATTGGAATCTTC
*
21424 AATCTACCCTCTTGATTAGGGGTAAAAGATTGGATGATGGCTTC
1 AATCTGCCCTCTTGATTAGGGGTAAAAGATTGGA--AT--CTTC
21468 AATCTGCCCTTCTTGACTTAGGGGTAAAAGATTGGAAGGTCTTC
1 AATCTGCCC-TCTTGA-TTAGGGGTAAAAGATTGGAA--TCTTC
* *
21512 AATCTACCCTCTTGACTAGGGGTAAAAGATTGGAAT
1 AATCTGCCCTCTTGATTAGGGGTAAAAGATTGGAAT
21548 GACTGCAGTT
Statistics
Matches: 240, Mismatches: 18, Indels: 49
0.78 0.06 0.16
Matches are distributed among these distances:
33 3 0.01
34 25 0.10
37 1 0.00
39 6 0.03
40 29 0.12
41 58 0.24
42 29 0.12
43 38 0.16
44 25 0.10
45 6 0.03
46 20 0.08
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (40 bp):
AATCTGCCCTCTTGATTAGGGGTAAAAGATTGGAATCTTC
Found at i:21532 original size:128 final size:125
Alignment explanation
Indices: 21281--21547 Score: 346
Period size: 128 Copynumber: 2.1 Consensus size: 125
21271 CCCCTCTTGA
* * *
21281 TAAAAGATTGTAATCTTCAATCTGCCCTTTTTGATTAGGGGTAAAAGACTGGAATCTTCAATCTG
1 TAAAAGATTGGAATCTTCAATCTACCCTTCTTGATTAGGGGTAAAAGACTGGAATCTTCAATCTG
* *
21346 TCCCTCTTGATTAGGGGTAAAAGACTTGAATCGCTTCAATCTTCCTCTCTTAATTAGGGG
66 TCCCTCTTGATTAGGGGTAAAAGACTTGAATCGCTTCAATCTACCTCTCTTAACTAGGGG
* *
21406 TAAAAAATTGGAATCTTCAATCTACCC-TCTTGATTAGGGGTAAAAGATTGGATGATGGCTTCAA
1 TAAAAGATTGGAATCTTCAATCTACCCTTCTTGATTAGGGGTAAAAGACTGGA--AT--CTTCAA
* *
21470 TCTG-CCCTTCTTGACTTAGGGGTAAAAGA-TTGGAA-GGTCTTCAATCTACC-CTCTTGACTAG
62 TCTGTCCC-TCTTGA-TTAGGGGTAAAAGACTT-GAATCG-CTTCAATCTACCTCTCTTAACTAG
21531 GGG
123 GGG
21534 TAAAAGATTGGAAT
1 TAAAAGATTGGAAT
21548 GACTGCAGTT
Statistics
Matches: 124, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
124 23 0.19
125 24 0.19
126 2 0.02
127 3 0.02
128 44 0.35
129 28 0.23
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (125 bp):
TAAAAGATTGGAATCTTCAATCTACCCTTCTTGATTAGGGGTAAAAGACTGGAATCTTCAATCTG
TCCCTCTTGATTAGGGGTAAAAGACTTGAATCGCTTCAATCTACCTCTCTTAACTAGGGG
Found at i:21949 original size:50 final size:50
Alignment explanation
Indices: 21840--22502 Score: 146
Period size: 50 Copynumber: 13.5 Consensus size: 50
21830 CATGGTACCA
* * * *
21840 GGTTTGCCATT-AAGGCCTCAACCTTTCCCATAACAT-TTCAT--GGAATCG
1 GGTTTGCCATTGCA-GCCTCAACCTTCCCCATCACATATT-ATAAGGTATCG
* * * *
21888 GATTTGTCATTGCAGTCTCAATCC-TCCCCATCACATATTCTAAGGTATCG
1 GGTTTGCCATTGCAGCCTCAA-CCTTCCCCATCACATATTATAAGGTATCG
* * * *
21938 GGTTTGCCATTGTAGCCTCAACCTTTCCCATCACATCTTATAAGGTACCG
1 GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATTATAAGGTATCG
** * * * * * * * *
21988 GGTTCACCATTGCGGCCTCAACATTTCCCTTCATATCTT-CAAGGTACCG
1 GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATTATAAGGTATCG
* *** *
22037 GGTTCGTTGTTGC-GTCCTCAACCTTTCCCATCACAT-TTCAT--GGTATCG
1 GGTTTGCCATTGCAG-CCTCAACCTTCCCCATCACATATT-ATAAGGTATCG
* ** ** * * * * *
22085 GATTCCCCATTGTGGCCTCAATCTTTCCTATCACATCTTCTAAGGTATCG
1 GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATTATAAGGTATCG
* * ** * * * * ** * *
22135 AGTTCGCTGTTACGGCCTCAACCTTTCCCTTCGTATATT-TATGGTATTG
1 GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATTATAAGGTATCG
* ** * * * *
22184 GGTTCGCTGTTGCGGTCTCAACCTTTCCTATCACAT-TTCAT--GGTATCG
1 GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATT-ATAAGGTATCG
* * * * * * * ** * * * *
22232 GATTCGCCGTTGCGGCCTCAATCTTTCCCTTCGTATCTT-CAGGGTACCG
1 GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATTATAAGGTATCG
* * * * * *
22281 AGTTCGCCATTACGGCCTCAACCTTTCCCATCACAT-TTCAT--GGTACCG
1 GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATT-ATAAGGTATCG
* * ** * * * * *
22329 GATTTGCCGTTGCAGCCTCAATATTTCCCATCACATCTTCTAAGGTACCT
1 GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATTATAAGGTATCG
* * * * * * * *** * *
22379 GATTCGTCGTTGCGGCCTCAACCTTTCCCTTTGTATCTTCAT--GGTATGG
1 GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATT-ATAAGGTATCG
* * * * * *
22428 GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTA-CTG
1 GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATTATAAGGTATC-G
* *
22478 GGTTCT-CCGTTGCAACCTCAACCTT
1 GGTT-TGCCATTGCAGCCTCAACCTT
22503 TCCCTTCGCA
Statistics
Matches: 469, Mismatches: 118, Indels: 54
0.73 0.18 0.08
Matches are distributed among these distances:
48 137 0.29
49 158 0.34
50 173 0.37
51 1 0.00
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.34
Consensus pattern (50 bp):
GGTTTGCCATTGCAGCCTCAACCTTCCCCATCACATATTATAAGGTATCG
Found at i:22097 original size:147 final size:148
Alignment explanation
Indices: 21897--22611 Score: 605
Period size: 147 Copynumber: 4.9 Consensus size: 148
21887 GGATTTGTCA
* * * * * **
21897 TTGCAGT-CTCAATCC-TCCCCATCACATATTCTAAGGTATCGGGTTTGCCATTGTAGCCTCAAC
1 TTGCAGTCCTCAA-CCTTTCCCATCACAT-TTC-ATGGTATCGGATTCGCCGTTGCGGCCTCAAC
* * * * *
21960 CTTTCCCATCACATCTTATAAGGTACCGGGTTCACCATTGCGGCCTCAACATTTCCCTTCATATC
63 CTTTCCCATCACATCTTATAAGGTATCGGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCATATC
**
22025 TTCAAGGTACCGGGTTCGTTG
128 TTCAAGGTACCGGGTTCGCCG
* * * *
22046 TTGC-GTCCTCAACCTTTCCCATCACATTTCATGGTATCGGATTCCCCATTGTGGCCTCAATCTT
1 TTGCAGTCCTCAACCTTTCCCATCACATTTCATGGTATCGGATTCGCCGTTGCGGCCTCAACCTT
* * * * * * *
22110 TCCTATCACATCTTCTAAGGTATCGAGTTCGCTGTTACGGCCTCAACCTTTCCCTTCGTATATTT
66 TCCCATCACATCTTATAAGGTATCGGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCATATCTTC
* ** *
22175 ATGGTATTGGGTTCGCTG
131 AAGGTACCGGGTTCGCCG
* * *
22193 TTGCGGT-CTCAACCTTTCCTATCACATTTCATGGTATCGGATTCGCCGTTGCGGCCTCAATCTT
1 TTGCAGTCCTCAACCTTTCCCATCACATTTCATGGTATCGGATTCGCCGTTGCGGCCTCAACCTT
* ** * * * * * * *
22257 TCCCTTCGTATCTT-CAGGGTACCGAGTTCGCCATTACGGCCTCAACCTTTCCCATCACAT-TTC
66 TCCCATCACATCTTATAAGGTATCGGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCATATCTTC
* * *
22320 ATGGTACCGGATTTGCCG
131 AAGGTACCGGGTTCGCCG
** * * * *
22338 TTGCAG-CCTCAATATTTCCCATCACATCTTCTAAGGTACCTGATTCGTCGTTGCGGCCTCAACC
1 TTGCAGTCCTCAACCTTTCCCATCACAT-TTC-ATGGTATCGGATTCGCCGTTGCGGCCTCAACC
* *** * * * *
22402 TTTCCCTTTGTATCTTCAT--GGTATGGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
64 TTTCCCATCACATCTT-ATAAGGTATCGGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCATATC
* *
22465 TTCTAAGGTACTGGGTTCTCCG
128 TTC-AAGGTACCGGGTTCGCCG
* * * * * * *
22487 TTGCA-ACCTCAACCTTTCCCTTCGCATTTCATGGTACCAGATTCACCGTTACGGCCTCAA----
1 TTGCAGTCCTCAACCTTTCCCATCACATTTCATGGTATCGGATTCGCCGTTGCGGCCTCAACCTT
* * ** *
22547 T-CCATCACATCTTCTAAGGTATCAGGTTTACCGTTACGGCCTCAACCTTTCCCTTTATATCTTC
66 TCCCATCACATCTTATAAGGTATCGGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCATATCTTC
22611 A
131 A
22612 TGCTTCCTTT
Statistics
Matches: 465, Mismatches: 88, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
141 1 0.00
142 9 0.02
143 40 0.09
145 37 0.08
146 41 0.09
147 267 0.57
148 15 0.03
149 55 0.12
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (148 bp):
TTGCAGTCCTCAACCTTTCCCATCACATTTCATGGTATCGGATTCGCCGTTGCGGCCTCAACCTT
TCCCATCACATCTTATAAGGTATCGGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCATATCTTC
AAGGTACCGGGTTCGCCG
Found at i:22258 original size:97 final size:98
Alignment explanation
Indices: 21952--22598 Score: 498
Period size: 97 Copynumber: 6.7 Consensus size: 98
21942 TGCCATTGTA
* * * * * *
21952 GCCTCAACCTTTCCCATCACATCTTATAAGGTACCGGGTTCACCATTGCGGCCTCAACATTTCCC
1 GCCTCAATCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTT-CC
* * * * **
22017 T-TCATATCTTCAAGGTACCGGGTTCGTTGTTGCG
65 TATCACAT-TTCATGGTATCGGATTCGCCGTTGCG
* * * * * * * *
22051 TCCTCAACCTTTCCCATCACAT-TTC-ATGGTA-TCGGATTCCCCATTGTGGCCTCAATCTTTCC
1 GCCTCAATCTTTCCCATCACATCTTCTAAGGTACT-GGGTTCGCCGTTGCGGCCTCAACCTTTCC
* * *
22113 TATCACATCTTCTAAGGTATC-GAGTTCGCTGTTACG
65 TATCACAT-TTC-ATGGTATCGGA-TTCGCCGTTGCG
* * ** * * * * *
22149 GCCTCAACCTTTCCCTTCGTATATT-TATGGTATTGGGTTCGCTGTTGCGGTCTCAACCTTTCCT
1 GCCTCAATCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCT
22213 ATCACATTTCATGGTATCGGATTCGCCGTTGCG
66 ATCACATTTCATGGTATCGGATTCGCCGTTGCG
* ** * * * * * *
22246 GCCTCAATCTTTCCCTTCGTATCTTC-AGGGTACCGAGTTCGCCATTACGGCCTCAACCTTTCCC
1 GCCTCAATCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCT
* * *
22310 ATCACATTTCATGGTACCGGATTTGCCGTTGCA
66 ATCACATTTCATGGTATCGGATTCGCCGTTGCG
* * *
22343 GCCTCAATATTTCCCATCACATCTTCTAAGGTACCT-GATTCGTCGTTGCGGCCTCAACCTTTCC
1 GCCTCAATCTTTCCCATCACATCTTCTAAGGTA-CTGGGTTCGCCGTTGCGGCCTCAACCTTT-C
*** * *
22407 CT-TTGTATCTTCATGGTATGGGGTTCGCCGTTGCG
64 CTATCACAT-TTCATGGTATCGGATTCGCCGTTGCG
* * **
22442 GCCTCAACCTTTCCCATCACATCTTCTAAGGTACTGGGTTCTCCGTTGCAACCTCAACCTTTCCC
1 GCCTCAATCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTT-CC
* * * * *
22507 T-TCGCATTTCATGGTACCAGATTCACCGTTACG
65 TATCACATTTCATGGTATCGGATTCGCCGTTGCG
* ** *
22540 GCCTCAA----T-CCATCACATCTTCTAAGGTA-TCAGGTTTACCGTTACGGCCTCAACCTTTCC
1 GCCTCAATCTTTCCCATCACATCTTCTAAGGTACT-GGGTTCGCCGTTGCGGCCTCAACCTTTCC
22599 CTTTATATCT
Statistics
Matches: 450, Mismatches: 83, Indels: 37
0.79 0.15 0.06
Matches are distributed among these distances:
92 3 0.01
93 41 0.09
94 1 0.00
96 3 0.01
97 158 0.35
98 100 0.22
99 143 0.32
100 1 0.00
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (98 bp):
GCCTCAATCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCT
ATCACATTTCATGGTATCGGATTCGCCGTTGCG
Found at i:22302 original size:244 final size:243
Alignment explanation
Indices: 21952--22546 Score: 725
Period size: 244 Copynumber: 2.4 Consensus size: 243
21942 TGCCATTGTA
*
21952 GCCTCAACCTTTCCCATCACATCTT-ATAAGGTACCGGGTTCACCATTGCGGCCTCAACATTTCC
1 GCCTCAACCTTTCCCATCACATCTTCAT--GGTA-CGGGTTCACCGTTGCGGCCTCAAC-TTTCC
* * ** * *
22016 CTTCATATCTTCAAGGTACCGGGTTCGTTGTTGCGTCCTCAACCTTTCCCATCACATTTCATGGT
62 CTTCGTATCTTCAAGGTACCGAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATTTCATGGT
* ** * * *
22081 ATCGGATTCCCCATTGTGGCCTCAATCTTTCCTATCACATCTTCTAAGGTATC-GAGTTCG-CTG
127 ACCGGATTCCCCATTGCAGCCTCAATATTTCCCATCACATCTTCTAAGGTACCTGA-TTCGTC-G
* * *
22144 TTACGGCCTCAACCTTTCCCTTCGTATATTTATGGTATTGGGTTCGCTGTTGCG
190 TTACGGCCTCAACCTTTCCCTTCGTATATTCATGGTATGGGGTTCGCCGTTGCG
* * * *
22198 GTCTCAACCTTTCCTATCACAT-TTCATGGTATCGGATTCGCCGTTGCGGCCTCAATCTTTCCCT
1 GCCTCAACCTTTCCCATCACATCTTCATGGTA-CGGGTTCACCGTTGCGGCCTCAA-CTTTCCCT
* *
22262 TCGTATCTTCAGGGTACCGAGTTCGCCATTACGGCCTCAACCTTTCCCATCACATTTCATGGTAC
64 TCGTATCTTCAAGGTACCGAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATTTCATGGTAC
** * *
22327 CGGATTTGCCGTTGCAGCCTCAATATTTCCCATCACATCTTCTAAGGTACCTGATTCGTCGTTGC
129 CGGATTCCCCATTGCAGCCTCAATATTTCCCATCACATCTTCTAAGGTACCTGATTCGTCGTTAC
* *
22392 GGCCTCAACCTTTCCCTTTGTATCTTCATGGTATGGGGTTCGCCGTTGCG
194 GGCCTCAACCTTTCCCTTCGTATATTCATGGTATGGGGTTCGCCGTTGCG
* * **
22442 GCCTCAACCTTTCCCATCACATCTTCTAAGGTACTGGGTTCTCCGTTGCAACCTCAACCTTTCCC
1 GCCTCAACCTTTCCCATCACATCTTC-ATGGTAC-GGGTTCACCGTTGCGGCCTCAA-CTTTCCC
* * *
22507 TTCGCAT-TTCATGGTACC-AGATTCACCGTTACGGCCTCAA
63 TTCGTATCTTCAAGGTACCGAG-TTCGCCGTTACGGCCTCAA
22547 TCCATCACAT
Statistics
Matches: 300, Mismatches: 41, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
244 205 0.68
245 37 0.12
246 58 0.19
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (243 bp):
GCCTCAACCTTTCCCATCACATCTTCATGGTACGGGTTCACCGTTGCGGCCTCAACTTTCCCTTC
GTATCTTCAAGGTACCGAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATTTCATGGTACCG
GATTCCCCATTGCAGCCTCAATATTTCCCATCACATCTTCTAAGGTACCTGATTCGTCGTTACGG
CCTCAACCTTTCCCTTCGTATATTCATGGTATGGGGTTCGCCGTTGCG
Found at i:23597 original size:18 final size:19
Alignment explanation
Indices: 23566--23616 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
23556 GTTTTTTCTA
*
23566 TTTTCTATTTTTTTTCCTT-
1 TTTTCT-TTCTTTTTCCTTC
*
23585 TTTTCTTTC-TTTTCTTTC
1 TTTTCTTTCTTTTTCCTTC
23603 TTTTCTTTCTTTTT
1 TTTTCTTTCTTTTT
23617 TATTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 7 0.25
18 11 0.39
19 10 0.36
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTCTTTCTTTTTCCTTC
Found at i:23616 original size:29 final size:28
Alignment explanation
Indices: 23564--23626 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
23554 CAGTTTTTTC
*
23564 TATTTTCTATTTTTTTTCCTTTTTTCTT
1 TATTTTCTATTTTTTTTCCTTTTTTATT
* *
23592 TCTTTTCT-TTCTTTTCTTTCTTTTTTATT
1 TATTTTCTATT-TTTT-TTCCTTTTTTATT
23621 TATTTT
1 TATTTT
23627 TTCTTCATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.07
28 11 0.38
29 16 0.55
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.79
Consensus pattern (28 bp):
TATTTTCTATTTTTTTTCCTTTTTTATT
Found at i:29367 original size:29 final size:30
Alignment explanation
Indices: 29327--29636 Score: 264
Period size: 30 Copynumber: 10.4 Consensus size: 30
29317 ATATAGAGTC
* * * *
29327 AAAACGTAAATTTGGAAAAGTATAGGGGTA
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
29357 AAAATGTAATTTTTGG-AAAGTTTA-GGGTT
1 AAAATGTAA-TTTTGGAAAAGTTTAGGGGTT
* **
29386 AAAATGTAATTTTAGAAAAAATTA-GGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
29415 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* *
29445 AACATGTAATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* *
29475 AAAATGTGATTTTAGG-AAAG-TTAGGGGTC
1 AAAATGTAATTTT-GGAAAAGTTTAGGGGTT
*
29504 AAAATGT-ATTTTAGG-AAAGTTT-GGGAGTC
1 AAAATGTAATTTT-GGAAAAGTTTAGGG-GTT
* * * *
29533 AAAATGTGATTTTGGGAAAGTTT-GAGGTAC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGT-T
* * * * *
29563 AAAATATGATTTCGGGAAAGTTTAGGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTA-GGGGTT
*
29594 AAAATATAATTTT-GAGAAAGTTT-GGAGGTT
1 AAAATGTAATTTTGGA-AAAGTTTAGG-GGTT
*
29624 AAAATGTGATTTT
1 AAAATGTAATTTT
29637 TAAAGAAAAT
Statistics
Matches: 241, Mismatches: 26, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
28 20 0.08
29 77 0.32
30 114 0.47
31 26 0.11
32 4 0.02
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGGTT
Found at i:29419 original size:58 final size:59
Alignment explanation
Indices: 29327--29636 Score: 247
Period size: 59 Copynumber: 5.2 Consensus size: 59
29317 ATATAGAGTC
* * * * *
29327 AAAACGTAAATTTGGAAAAGTATAGGGGTAAAAATGTAATTTTTGGAAAGTTTA-GGGTT
1 AAAATGTAATTTTAGAAAAGTTTA-GGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTT
**
29386 AAAATGTAATTTTAGAAAAAATTAGGGTTAAAATGTAA-TTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGTTAAAATGTAATTTTTGG-AAAGTTTAGGGGTT
* * * * *
29445 AACATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGTGATTTTAGGAAAG-TTAGGGGTC
1 AAAATGTAATTTTAGAAAAGTTT-AGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTT
* * * * * * *
29504 AAAATGT-ATTTTAGGAAAGTTTGGGAGTCAAAATGTGATTTTGGGAAAGTTT-GAGGTAC
1 AAAATGTAATTTTAGAAAAGTTTAGG-GTTAAAATGTAATTTTTGGAAAGTTTAGGGGT-T
* * ** * * *
29563 AAAATATGATTTCGGGAAAGTTTAGGGGGTCAAAATATAA-TTTTGAGAAAGTTT-GGAGGTT
1 AAAATGTAATTTTAGAAAAGTTTA--GGGTTAAAATGTAATTTTTG-GAAAGTTTAGG-GGTT
*
29624 AAAATGTGATTTT
1 AAAATGTAATTTT
29637 TAAAGAAAAT
Statistics
Matches: 207, Mismatches: 32, Indels: 22
0.79 0.12 0.08
Matches are distributed among these distances:
57 8 0.04
58 59 0.29
59 65 0.31
60 35 0.17
61 35 0.17
62 5 0.02
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (59 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTT
Found at i:29567 original size:88 final size:87
Alignment explanation
Indices: 29324--29636 Score: 296
Period size: 88 Copynumber: 3.5 Consensus size: 87
29314 AGAATATAGA
* * * * *
29324 GTCAAAACGTAAATTTGGAAAAGTATAGGG-GTAAAAATGTAATTTTTGGAAAGTTTAGGGTTAA
1 GTCAAAATGTAATTTTGG-AAAGT-TTGGGAGTTAAAATGTAATTTTGGGAAAGTTTAGGGTTAA
* * *
29388 AATGTAATTTTAGAAAAAATTA-GG
64 AATGTGATTTTAG-GAAAGTTAGGG
* * *
29412 GTTAAAATGTAATTTTGGAAAAGTTTAGGG-GTTAACATGTAATTTTGGAAAAGTTTAAGGGTTA
1 GTCAAAATGTAATTTTGG-AAAGTTT-GGGAGTTAAAATGTAATTTTGGGAAAGTTT-AGGGTTA
29476 AAATGTGATTTTAGGAAAGTTAGGG
63 AAATGTGATTTTAGGAAAGTTAGGG
* * *
29501 GTCAAAATGT-ATTTTAGGAAAGTTTGGGAGTCAAAATGTGATTTTGGGAAAGTTT-GAGGTACA
1 GTCAAAATGTAATTTT-GGAAAGTTTGGGAGTTAAAATGTAATTTTGGGAAAGTTTAG-GGT-TA
* **
29564 AAATATGATTTCGGGAAAGTTTAGGGG
63 AAATGTGATTTTAGGAAAG-TTA-GGG
* *
29591 GTCAAAATATAATTTTGAGAAAGTTT-GGAGGTTAAAATGTGATTTT
1 GTCAAAATGTAATTTTG-GAAAGTTTGGGA-GTTAAAATGTAATTTT
29637 TAAAGAAAAT
Statistics
Matches: 191, Mismatches: 22, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
86 1 0.01
87 7 0.04
88 103 0.54
89 36 0.19
90 16 0.08
91 28 0.15
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (87 bp):
GTCAAAATGTAATTTTGGAAAGTTTGGGAGTTAAAATGTAATTTTGGGAAAGTTTAGGGTTAAAA
TGTGATTTTAGGAAAGTTAGGG
Found at i:29606 original size:61 final size:60
Alignment explanation
Indices: 29343--29635 Score: 206
Period size: 58 Copynumber: 4.9 Consensus size: 60
29333 TAAATTTGGA
* * * * * * * *
29343 AAAGTATA-GGGGTAAAAATGTAATTTTTGGAAAGTTT-AGGGTTAAAATGTAATTTTAGA
1 AAAGTTTAGGGGGTCAAAATGTGATTTTGGGAAAGTTTGA-GGTCAAAATGTGATTTCAGG
** * * * * * * * *
29402 AAAAATTA--GGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTTAACATGTAATTT-TGG
1 AAAGTTTAGGGGGTCAAAATGTGATTTTGGGAAAGTTT-GAGGTCAAAATGTGATTTCAGG
* * * * * *
29460 AAAAGTTTA-AGGGTTAAAATGTGATTTTAGGAAAGTTAGGGGTCAAAATGT-ATTTTAGG
1 -AAAGTTTAGGGGGTCAAAATGTGATTTTGGGAAAGTTTGAGGTCAAAATGTGATTTCAGG
* * *
29519 AAAGTTT-GGGAGTCAAAATGTGATTTTGGGAAAGTTTGAGGTACAAAATATGATTTCGGG
1 AAAGTTTAGGGGGTCAAAATGTGATTTTGGGAAAGTTTGAGGT-CAAAATGTGATTTCAGG
* * * *
29579 AAAGTTTAGGGGGTCAAAATATAATTTTGAGAAAGTTTGGAGGTTAAAATGTGATTT
1 AAAGTTTAGGGGGTCAAAATGTGATTTTGGGAAAGTTT-GAGGTCAAAATGTGATTT
29636 TTAAAGAAAA
Statistics
Matches: 190, Mismatches: 34, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
58 65 0.34
59 46 0.24
60 37 0.19
61 37 0.19
62 5 0.03
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.34
Consensus pattern (60 bp):
AAAGTTTAGGGGGTCAAAATGTGATTTTGGGAAAGTTTGAGGTCAAAATGTGATTTCAGG
Found at i:35410 original size:41 final size:41
Alignment explanation
Indices: 35332--35599 Score: 270
Period size: 41 Copynumber: 6.5 Consensus size: 41
35322 ACTTTAAGTA
* ** * *
35332 TAAATGGAAGACTCATGTCTCAGGATGAGCCTAAGATTATAT
1 TAAA-GGAAGACTCATGACTCAAAATGAGCATGAGATTATAT
* *
35374 TAAAGGAAGACTCGTGACTCAAAATGGGCATGAGATTATAT
1 TAAAGGAAGACTCATGACTCAAAATGAGCATGAGATTATAT
** * *
35415 TAAAGGAAGACTTGTGACTCAAAACGAGCATGAGATTAAAT
1 TAAAGGAAGACTCATGACTCAAAATGAGCATGAGATTATAT
* * * *
35456 TAAAGGAAGACCCATGTCTCTAGATGAGCATGAGATTATAT
1 TAAAGGAAGACTCATGACTCAAAATGAGCATGAGATTATAT
* *
35497 TAAAGGAAGACTCATGTCTCAAGATGAGCATGAGATTATAT
1 TAAAGGAAGACTCATGACTCAAAATGAGCATGAGATTATAT
* * * * ** * *
35538 TAAAGAAAGATTCATG-TTTAGGGATAAGCATAAGATTATAT
1 TAAAGGAAGACTCATGACTCA-AAATGAGCATGAGATTATAT
35579 TAAAGGAAGACT-AGTGACTCA
1 TAAAGGAAGACTCA-TGACTCA
35600 GGTAGAGCAT
Statistics
Matches: 191, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
40 3 0.02
41 182 0.95
42 6 0.03
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (41 bp):
TAAAGGAAGACTCATGACTCAAAATGAGCATGAGATTATAT
Found at i:35568 original size:123 final size:123
Alignment explanation
Indices: 35332--35628 Score: 309
Period size: 123 Copynumber: 2.4 Consensus size: 123
35322 ACTTTAAGTA
* * *
35332 TAAATGGAAGACTCATGTCTCAGGATGAGCCTAAGATTATATTAAAGGAAGACTCGTGACTCAAA
1 TAAA-GGAAGACCCATGTCTCAGGATGAGCATAAGATTATATTAAAGGAAGACTCATGACTCAAA
* * * * *
35397 ATGGGCATGAGATTATATTAAAGGAAGACTTGTGACTCAAAACGAGCATGAGATTAAAT
65 ATGAGCATGAGATTATATTAAAGAAAGACTTATGACTCAAAACAAGCATAAGATTAAAT
* * *
35456 TAAAGGAAGACCCATGTCTCTA-GATGAGCATGAGATTATATTAAAGGAAGACTCATGTCTCAAG
1 TAAAGGAAGACCCATGTCTC-AGGATGAGCATAAGATTATATTAAAGGAAGACTCATGACTCAAA
* * ** * *
35520 ATGAGCATGAGATTATATTAAAGAAAGA-TTCATG-TTTAGGGATAAGCATAAGATTATAT
65 ATGAGCATGAGATTATATTAAAGAAAGACTT-ATGACTCA-AAACAAGCATAAGATTAAAT
* * *
35579 TAAAGGAAGA-CTAGTGACTCAGG-TAGAGCATAAGATTGT-TTAAGAGGAAG
1 TAAAGGAAGACCCA-TGTCTCAGGAT-GAGCATAAGATTATATTAA-AGGAAG
35629 GTCTATGACT
Statistics
Matches: 145, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
122 12 0.08
123 128 0.88
124 5 0.03
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (123 bp):
TAAAGGAAGACCCATGTCTCAGGATGAGCATAAGATTATATTAAAGGAAGACTCATGACTCAAAA
TGAGCATGAGATTATATTAAAGAAAGACTTATGACTCAAAACAAGCATAAGATTAAAT
Found at i:35609 original size:41 final size:41
Alignment explanation
Indices: 35332--35639 Score: 220
Period size: 41 Copynumber: 7.5 Consensus size: 41
35322 ACTTTAAGTA
* * *
35332 TAAATGGAAGACTCATGTCTCAGG-ATGAGCCTAAGATTATAT
1 TAAA-GGAAGACT-ATGACTCAGGTATGAGCATGAGATTATAT
* ** *
35374 TAAAGGAAGACTCGTGACTCA-AAATGGGCATGAGATTATAT
1 TAAAGGAAGACT-ATGACTCAGGTATGAGCATGAGATTATAT
* ** * *
35415 TAAAGGAAGACTTGTGACTCA-AAACGAGCATGAGATTAAAT
1 TAAAGGAAGAC-TATGACTCAGGTATGAGCATGAGATTATAT
* *
35456 TAAAGGAAGACCCATGTCTCTA-G-ATGAGCATGAGATTATAT
1 TAAAGGAAGA-CTATGACTC-AGGTATGAGCATGAGATTATAT
* *
35497 TAAAGGAAGACTCATGTCTCAAG-ATGAGCATGAGATTATAT
1 TAAAGGAAGACT-ATGACTCAGGTATGAGCATGAGATTATAT
* * * * * * *
35538 TAAAGAAAGATTCATG-TTTAGGGATAAGCATAAGATTATAT
1 TAAAGGAAGACT-ATGACTCAGGTATGAGCATGAGATTATAT
* *
35579 TAAAGGAAGACTAGTGACTCAGGTA-GAGCATAAGATTGT-T
1 TAAAGGAAGACTA-TGACTCAGGTATGAGCATGAGATTATAT
*
35619 TAAGAGGAAGGTCTATGACTC
1 TAA-AGGAA-GACTATGACTC
35640 GGTTGTTAAA
Statistics
Matches: 224, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
40 10 0.04
41 198 0.88
42 16 0.07
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (41 bp):
TAAAGGAAGACTATGACTCAGGTATGAGCATGAGATTATAT
Found at i:40593 original size:41 final size:41
Alignment explanation
Indices: 40525--40784 Score: 331
Period size: 41 Copynumber: 6.3 Consensus size: 41
40515 GTATAAATGA
* * * * *
40525 AAGACTCATGTCTCAGGATAAGTATGAGATTATATTAAAGG
1 AAGACTCGTGACTCAGAATGAGCATGAGATTATATTAAAGG
* **
40566 AAGACTCGTGACTCAAAATTTGCATGAGATTATATTAAAGG
1 AAGACTCGTGACTCAGAATGAGCATGAGATTATATTAAAGG
* * *
40607 AAGACTCGTGACTCAAAATGAGCATGAGATTAAATTAAAGA
1 AAGACTCGTGACTCAGAATGAGCATGAGATTATATTAAAGG
* * *
40648 AAGACTCGTGTCTCGGGATGAGCATGAGATTATATTAAAGG
1 AAGACTCGTGACTCAGAATGAGCATGAGATTATATTAAAGG
* * *
40689 AAGACTCATGTCTCGGAATGAGCATGAGATTATATTAAAGG
1 AAGACTCGTGACTCAGAATGAGCATGAGATTATATTAAAGG
* * * *
40730 AAGACTCATGTCTCAGGATAAGCATGAGATTATATTAAAGG
1 AAGACTCGTGACTCAGAATGAGCATGAGATTATATTAAAGG
40771 AAGACTCGTGACTC
1 AAGACTCGTGACTC
40785 GGGTAGAGCA
Statistics
Matches: 195, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 195 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (41 bp):
AAGACTCGTGACTCAGAATGAGCATGAGATTATATTAAAGG
Found at i:40754 original size:123 final size:123
Alignment explanation
Indices: 40518--40814 Score: 373
Period size: 123 Copynumber: 2.4 Consensus size: 123
40508 ACTTTAAGTA
* * * * *
40518 TAAATGAAAGACTCATGTCTCAGGATAAGTATGAGATTATATTAAAGGAAGACTCGTGACTCAAA
1 TAAA-GAAAGACTCGTGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCATGACTCAAA
** * *
40583 ATTTGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAAATGAGCATGAGATTAAAT
65 ATGAGCATGAGATTATATTAAAGGAAGACTCATGACTCAAAATAAGCATGAGATTAAAT
* **
40642 TAAAGAAAGACTCGTGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCATGTCTCGGAA
1 TAAAGAAAGACTCGTGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCATGACTCAAAA
* ** *
40707 TGAGCATGAGATTATATTAAAGGAAGACTCATGTCTCAGGATAAGCATGAGATTATAT
66 TGAGCATGAGATTATATTAAAGGAAGACTCATGACTCAAAATAAGCATGAGATTAAAT
* * * *
40765 TAAAGGAAGACTCGTGACTCGGG-TAGAGCATAAGATTGT-TTAAGAGGAAG
1 TAAAGAAAGACTCGTGTCTCGGGAT-GAGCATGAGATTATATTAA-AGGAAG
40815 GTCTATGACT
Statistics
Matches: 151, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
122 5 0.03
123 142 0.94
124 4 0.03
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.26
Consensus pattern (123 bp):
TAAAGAAAGACTCGTGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCATGACTCAAAA
TGAGCATGAGATTATATTAAAGGAAGACTCATGACTCAAAATAAGCATGAGATTAAAT
Found at i:40813 original size:41 final size:42
Alignment explanation
Indices: 40525--40814 Score: 290
Period size: 41 Copynumber: 7.1 Consensus size: 42
40515 GTATAAATGA
* * *
40525 AAGACTCATGTCTCAGG-ATAAGTATGAGATTATATTAAAGG
1 AAGACTCATGTCTCGGGTATGAGCATGAGATTATATTAAAGG
* * *** **
40566 AAGACTCGTGACTC-AAAATTTGCATGAGATTATATTAAAGG
1 AAGACTCATGTCTCGGGTATGAGCATGAGATTATATTAAAGG
* * *** * *
40607 AAGACTCGTGACTC-AAAATGAGCATGAGATTAAATTAAAGA
1 AAGACTCATGTCTCGGGTATGAGCATGAGATTATATTAAAGG
*
40648 AAGACTCGTGTCTCGGG-ATGAGCATGAGATTATATTAAAGG
1 AAGACTCATGTCTCGGGTATGAGCATGAGATTATATTAAAGG
*
40689 AAGACTCATGTCTC-GGAATGAGCATGAGATTATATTAAAGG
1 AAGACTCATGTCTCGGGTATGAGCATGAGATTATATTAAAGG
* *
40730 AAGACTCATGTCTCAGG-ATAAGCATGAGATTATATTAAAGG
1 AAGACTCATGTCTCGGGTATGAGCATGAGATTATATTAAAGG
* * * *
40771 AAGACTCGTGACTCGGGTA-GAGCATAAGATTGT-TTAAGAGG
1 AAGACTCATGTCTCGGGTATGAGCATGAGATTATATTAA-AGG
40812 AAG
1 AAG
40815 GTCTATGACT
Statistics
Matches: 219, Mismatches: 24, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
40 6 0.03
41 210 0.96
42 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (42 bp):
AAGACTCATGTCTCGGGTATGAGCATGAGATTATATTAAAGG
Found at i:40813 original size:82 final size:81
Alignment explanation
Indices: 40548--40814 Score: 320
Period size: 82 Copynumber: 3.2 Consensus size: 81
40538 CAGGATAAGT
* * ** **
40548 ATGAGATTATATTAAAGGAAGACTCGTGACTCAAAATTTGCATGAGATTATATTAAAGGAAGACT
1 ATGAGATTAT-TTAAAGGAAGACTCATGTCTCAGGATAAGCATGAGATTATATTAAAGGAAGACT
**
40613 CGTGACTCAAAATGAGC
65 CGTGACTCGGAATGAGC
* * * * *
40630 ATGAGATTAAATTAAAGAAAGACTCGTGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACT
1 ATGAGATT-ATTTAAAGGAAGACTCATGTCTCAGGATAAGCATGAGATTATATTAAAGGAAGACT
* *
40695 CATGTCTCGGAATGAGC
65 CGTGACTCGGAATGAGC
40712 ATGAGATTATATTAAAGGAAGACTCATGTCTCAGGATAAGCATGAGATTATATTAAAGGAAGACT
1 ATGAGATTAT-TTAAAGGAAGACTCATGTCTCAGGATAAGCATGAGATTATATTAAAGGAAGACT
*
40777 CGTGACTCGG-GTAGAGC
65 CGTGACTCGGAAT-GAGC
* *
40794 ATAAGATTGTTTAAGAGGAAG
1 ATGAGATTATTTAA-AGGAAG
40815 GTCTATGACT
Statistics
Matches: 159, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
81 6 0.04
82 152 0.96
83 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.26
Consensus pattern (81 bp):
ATGAGATTATTTAAAGGAAGACTCATGTCTCAGGATAAGCATGAGATTATATTAAAGGAAGACTC
GTGACTCGGAATGAGC
Found at i:45779 original size:52 final size:52
Alignment explanation
Indices: 45688--45984 Score: 382
Period size: 52 Copynumber: 5.7 Consensus size: 52
45678 ATTTCATTTT
* * * *
45688 ATTCATATACTCAAGATTACACATAGC-CACCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATA-CTCATCAGACCTCATAATCCGTAAAGG
* * ** * *
45740 ATTCATATACTTACGATGACATATAGACATCAGATCTCATAATCTGTAAAGG
1 ATTCATATACTCACGATGACACATACTCATCAGACCTCATAATCCGTAAAGG
* *
45792 ATTCATATACTCACAATGATACATACTCAT-AGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATACTCATCA-GACCTCATAATCCGTAAAGG
* * *
45844 ATTCGTATACTCACGATGACAAATACTCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATACTCATCAGACCTCATAATCCGTAAAGG
*
45896 ATTCATATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATACTCATCAGACCTCATAATCCGTAAAGG
* * * *
45948 ATTCATATACTCACAAAGACACATAGTAATCAGACCT
1 ATTCATATACTCACGATGACACATACTCATCAGACCT
45985 TTTTCATTTA
Statistics
Matches: 213, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
51 1 0.00
52 212 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.26
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATACTCATCAGACCTCATAATCCGTAAAGG
Found at i:48223 original size:26 final size:26
Alignment explanation
Indices: 48194--48246 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
48184 TTATCTCAGC
48194 AAGAAATTCACTGAATACGAGATAAG
1 AAGAAATTCACTGAATACGAGATAAG
48220 AAGAAATTCACTGAATACGAGATAAG
1 AAGAAATTCACTGAATACGAGATAAG
48246 A
1 A
48247 TATTCTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (26 bp):
AAGAAATTCACTGAATACGAGATAAG
Found at i:51290 original size:50 final size:50
Alignment explanation
Indices: 51221--51385 Score: 181
Period size: 50 Copynumber: 3.3 Consensus size: 50
51211 AATGAATCCT
* ** * *
51221 ATACCCCTAAAGCTGTAGAGGAACGGATTGAAGTCGCAATGGCAAATCTC
1 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGTCACAATGGCAAATCTC
* * * * *
51271 ATACACCTAAAGCTATAGAGGGGCAGATTGAAGCCATAATGGCGAATTTC
1 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGTCACAATGGCAAATCTC
* *
51321 ATTCACCTAAAGCTGTAGAGGGGCAGATTGAAGTCACAA-GG-ATGAATCTT
1 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGTCACAATGGCA--AATCTC
*
51371 ATACTCCTAAAGCTG
1 ATACACCTAAAGCTG
51386 AAATGGAGTG
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
49 2 0.02
50 92 0.98
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (50 bp):
ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGTCACAATGGCAAATCTC
Found at i:51438 original size:40 final size:40
Alignment explanation
Indices: 51394--51517 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
51384 TGAAATGGAG
51394 TGAAGACCATCCAATCTCTTACCACGACCATGA-GGCAAAT
1 TGAAGACCATCCAATCTCTTACC-CGACCATGAGGGCAAAT
* * * *
51434 TGAAG-CAATCCAATCTTTTACCCTAACCA-GAGGGCAGAT
1 TGAAGACCATCCAATCTCTTACCC-GACCATGAGGGCAAAT
* * * * *
51473 TGAAGATCATCCGATCTCTTATCTCGACCATG-GGGTAGAT
1 TGAAGACCATCCAATCTCTTA-CCCGACCATGAGGGCAAAT
51513 TGAAG
1 TGAAG
51518 CAATCTAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
38 3 0.04
39 30 0.44
40 32 0.47
41 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (40 bp):
TGAAGACCATCCAATCTCTTACCCGACCATGAGGGCAAAT
Found at i:51445 original size:39 final size:38
Alignment explanation
Indices: 51402--51522 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 38
51392 AGTGAAGACC
*
51402 ATCCAATCTCTTACCACGACCATGAGGCAAATTGAAGCA
1 ATCCAATCTCTTACC-CGACCATGAGGCAGATTGAAGCA
* *
51441 ATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAG-A
1 ATCCAATCTCTTACCC-GACCATGA-GGCAGATTGAAGCA
* * * *
51479 TCATCCGATCTCTTATCTCGACCATGGGGTAGATTGAAGCA
1 --ATCCAATCTCTTA-CCCGACCATGAGGCAGATTGAAGCA
51520 ATC
1 ATC
51523 TAATATTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
38 4 0.06
39 32 0.48
40 26 0.39
41 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (38 bp):
ATCCAATCTCTTACCCGACCATGAGGCAGATTGAAGCA
Found at i:54035 original size:158 final size:158
Alignment explanation
Indices: 53656--54145 Score: 513
Period size: 158 Copynumber: 3.1 Consensus size: 158
53646 ACAACTCGTA
* * * ** * *
53656 TGAGCATTATAGGTAATATGGGTGTTGGTCTTGGATG-CTCTACCGAT-GTCTAAGGTCCTGCAT
1 TGAGCATTATAGGTTATATGGGTGCTGATCTTAAATGTC-CTACCAATGGT-TGAGGTCCTGCAT
* **** * * * *
53719 TGGTTGTAAATTCTCCACAGCTCGTGTGAGCAGCATCGCATATCCTAACCTCTCGACCCACAACT
64 TGATTACGGATTCTCCACAGCTCGTGTGAGCAGCATCGTATAACCTAACATCTCGACCCACAGCT
* * *
53784 CATGTGAGCAGACCCATTTCACATCTCGTG
129 CGTGTGAGCAGACCCATTTCACAGCTTGTG
* * *
53814 TGAGCATTACAGGTTATATGGGTGCTGGTCTTAAATGTCCTACCGATGGTTGAGGTCCTGCATTG
1 TGAGCATTATAGGTTATATGGGTGCTGATCTTAAATGTCCTACCAATGGTTGAGGTCCTGCATTG
* * * *
53879 GTTACGGATTCTCCACAGCTCGTGTTAGTAGCATCGTATAGCCTAACATCTCGACCCACAGCTCG
66 ATTACGGATTCTCCACAGCTCGTGTGAGCAGCATCGTATAACCTAACATCTCGACCCACAGCTCG
*
53944 TGTAAGCAGACCCATTTCACAGCTTGTG
131 TGTGAGCAGACCCATTTCACAGCTTGTG
* * * *
53972 TGAGCATTATAGGTTATATGGGTGCTGATCTTAGATTTTCTACCAATGGTTGAGGT-TTGGCATT
1 TGAGCATTATAGGTTATATGGGTGCTGATCTTAAATGTCCTACCAATGGTTGAGGTCCT-GCATT
* * * * * * * ** *
54036 TATTGCGTATTCTCCATAGCTCATGTGAGCATCATCGTGTAACCCCACATCTCG-CCTCATAGCT
65 GATTACGGATTCTCCACAGCTCGTGTGAGCAGCATCGTATAACCTAACATCTCGACC-CACAGCT
* *
54100 TGTGTGAGCAGACCCTTTTCACAGCTTGTG
129 CGTGTGAGCAGACCCATTTCACAGCTTGTG
54130 TGAGCA-TATATGGTTA
1 TGAGCATTATA-GGTTA
54146 CATGTTACAG
Statistics
Matches: 283, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
157 7 0.02
158 273 0.96
159 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (158 bp):
TGAGCATTATAGGTTATATGGGTGCTGATCTTAAATGTCCTACCAATGGTTGAGGTCCTGCATTG
ATTACGGATTCTCCACAGCTCGTGTGAGCAGCATCGTATAACCTAACATCTCGACCCACAGCTCG
TGTGAGCAGACCCATTTCACAGCTTGTG
Found at i:55977 original size:4 final size:4
Alignment explanation
Indices: 55968--56010 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
55958 TAAGGCCCAA
*
55968 ATTT ATTT ATTC ATTT AATTTT ATTT ATTT A-TT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT -A-TTT ATTT ATTT ATTT ATTT ATTT AT
56011 AAATAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
4 26 0.76
5 2 0.06
6 3 0.09
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:56119 original size:39 final size:39
Alignment explanation
Indices: 56074--56153 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
56064 AAAATAACCC
*
56074 AATTCTATCTAACCAAAACCCAAATCAAATACATCCTCA
1 AATTCTATCTAACCAAAACCCAAATCAAATACACCCTCA
*
56113 AATTCTATCTAACCAAAACCCAAATCAAATTCACCCTCA
1 AATTCTATCTAACCAAAACCCAAATCAAATACACCCTCA
56152 AA
1 AA
56154 CCCAAACTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (39 bp):
AATTCTATCTAACCAAAACCCAAATCAAATACACCCTCA
Found at i:57419 original size:29 final size:28
Alignment explanation
Indices: 57358--57480 Score: 120
Period size: 30 Copynumber: 4.2 Consensus size: 28
57348 GCTTTATTTT
**
57358 AAAATTATTTTTGACCCCAAAACTATTTA
1 AAAATTATTTTTGACCCC-AAACTATCCA
57387 AAAATTATTTTTTGACCACCAAACTATCCA
1 AAAATTA-TTTTTGACC-CCAAACTATCCA
* * * *
57417 AAAATCATGTTTCGACTCCTAAACAATCCA
1 AAAATTAT-TTTTGAC-CCCAAACTATCCA
* * *
57447 AAAATTATTTTTGACCCTAAACTTTCTA
1 AAAATTATTTTTGACCCCAAACTATCCA
57475 AAAATT
1 AAAATT
57481 TAAATTTAAC
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
28 16 0.20
29 14 0.18
30 46 0.58
31 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (28 bp):
AAAATTATTTTTGACCCCAAACTATCCA
Found at i:57500 original size:30 final size:30
Alignment explanation
Indices: 57443--57612 Score: 175
Period size: 30 Copynumber: 5.7 Consensus size: 30
57433 TCCTAAACAA
**
57443 TCCAAAAA-TTATTTTTGACCC-TAAACTT
1 TCCAAAAATTTAAATTTGACCCTTAAACTT
* *
57471 TCTAAAAATTTAAATTTAACCCTTAAACTT
1 TCCAAAAATTTAAATTTGACCCTTAAACTT
* *
57501 TCCAATAATTCAAATTTGACCCTTAAACTT
1 TCCAAAAATTTAAATTTGACCCTTAAACTT
* *** *
57531 TCCAAAAATTTGAATTTGACCCCCGAATTT
1 TCCAAAAATTTAAATTTGACCCTTAAACTT
* * * *
57561 TCCAAAAAATTT-GATTTTACCCTTGAAGTT
1 TCC-AAAAATTTAAATTTGACCCTTAAACTT
57591 TCCAAAAATTTAAATTTGACCC
1 TCCAAAAATTTAAATTTGACCC
57613 GATTTTAATG
Statistics
Matches: 116, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
28 7 0.06
29 18 0.16
30 83 0.72
31 8 0.07
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (30 bp):
TCCAAAAATTTAAATTTGACCCTTAAACTT
Found at i:72622 original size:18 final size:18
Alignment explanation
Indices: 72599--72642 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
72589 AGTTAAAGAA
72599 GAAGAAGAAGAAGATCCT
1 GAAGAAGAAGAAGATCCT
*
72617 GAAGAAGAAGAGGATCCT
1 GAAGAAGAAGAAGATCCT
*
72635 GAGGAAGA
1 GAAGAAGA
72643 TCCTGTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.34, T:0.09
Consensus pattern (18 bp):
GAAGAAGAAGAAGATCCT
Found at i:78630 original size:149 final size:149
Alignment explanation
Indices: 78360--78660 Score: 584
Period size: 149 Copynumber: 2.0 Consensus size: 149
78350 CGAAGGAATG
78360 TAATGCATATCTTCAAGATAAACTACCCCCAAAGTTGAAGGATCCTAGATGTTTTACTATACCAT
1 TAATGCATATCTTCAAGATAAACTACCCCCAAAGTTGAAGGATCCTAGATGTTTTACTATACCAT
*
78425 GCAACATTGGAGCAACTTATTGTGGTAAAGTACTATGTGATTTAGGTGTAGGTGTGAGCATAAAC
66 GCAACATTGGAGCAACTTATTATGGTAAAGTACTATGTGATTTAGGTGTAGGTGTGAGCATAAAC
78490 TTAATGCCCATGTCGATAT
131 TTAATGCCCATGTCGATAT
*
78509 TAATGCCTATCTTCAAGATAAACTACCCCCAAAGTTGAAGGATCCTAGATGTTTTACTATACCAT
1 TAATGCATATCTTCAAGATAAACTACCCCCAAAGTTGAAGGATCCTAGATGTTTTACTATACCAT
78574 GCAACATTGGAGCAACTTATTATGGTAAAGTACTATGTGATTTAGGTGTAGGTGTGAGCATAAAC
66 GCAACATTGGAGCAACTTATTATGGTAAAGTACTATGTGATTTAGGTGTAGGTGTGAGCATAAAC
78639 TTAATGCCCATGTCGATAT
131 TTAATGCCCATGTCGATAT
78658 TAA
1 TAA
78661 AAAAGTTAGG
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (149 bp):
TAATGCATATCTTCAAGATAAACTACCCCCAAAGTTGAAGGATCCTAGATGTTTTACTATACCAT
GCAACATTGGAGCAACTTATTATGGTAAAGTACTATGTGATTTAGGTGTAGGTGTGAGCATAAAC
TTAATGCCCATGTCGATAT
Found at i:82894 original size:93 final size:93
Alignment explanation
Indices: 82782--82961 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
82772 ATTGGTTTTC
*
82782 TTTTTTCTTTTTCATTTTAGTACTTAATTTTTCTCATTAGAAAGGAAGGAATATTATTGAACTCA
1 TTTTTTCTTTTTCAATTTAGTACTTAATTTTTCTCATTAGAAAGGAAGGAATATTATTGAACTCA
82847 ATACTTCTCAATAT-TTATGTATCCAGAG
66 ATACTTCTCAATATGTTA-GTATCCAGAG
* *
82875 TTTTTT-TTTTTCCAATTTAGTACTTAATTTTTCTCATTAGTAAGGAAGGGATATTATTGAACTC
1 TTTTTTCTTTTT-CAATTTAGTACTTAATTTTTCTCATTAGAAAGGAAGGAATATTATTGAACTC
*
82939 TATACTTCTCAATATGTTAGTAT
65 AATACTTCTCAATATGTTAGTAT
82962 TTAACTACAG
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
92 5 0.06
93 73 0.90
94 3 0.04
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (93 bp):
TTTTTTCTTTTTCAATTTAGTACTTAATTTTTCTCATTAGAAAGGAAGGAATATTATTGAACTCA
ATACTTCTCAATATGTTAGTATCCAGAG
Found at i:87581 original size:18 final size:18
Alignment explanation
Indices: 87555--87603 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
87545 ACTCAAGCTC
*
87555 CTTTATTTGCTTGTCTTG
1 CTTTGTTTGCTTGTCTTG
* *
87573 CTTTGTTTGTTTTTCTTG
1 CTTTGTTTGCTTGTCTTG
*
87591 TTTTGTTTGCTTG
1 CTTTGTTTGCTTG
87604 AGGACAAGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.12, G:0.18, T:0.67
Consensus pattern (18 bp):
CTTTGTTTGCTTGTCTTG
Found at i:108912 original size:20 final size:20
Alignment explanation
Indices: 108889--108930 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
108879 TTCTAACTTA
108889 TTGTTTTTTGGTCTAAATTC
1 TTGTTTTTTGGTCTAAATTC
108909 TTGTTTTTTGGTCTAAATTC
1 TTGTTTTTTGGTCTAAATTC
108929 TT
1 TT
108931 TTTATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.10, G:0.14, T:0.62
Consensus pattern (20 bp):
TTGTTTTTTGGTCTAAATTC
Found at i:118933 original size:9 final size:9
Alignment explanation
Indices: 118919--118943 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
118909 AAAAGAAAAG
118919 AAAAAGAGA
1 AAAAAGAGA
118928 AAAAAGAGA
1 AAAAAGAGA
118937 AAAAAGA
1 AAAAAGA
118944 AGAAGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:129167 original size:17 final size:18
Alignment explanation
Indices: 129145--129178 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
129135 ACACTCTTTT
129145 TATTTTTCTT-TTTTTCA
1 TATTTTTCTTGTTTTTCA
*
129162 TATTTTTTTTGTTTTTC
1 TATTTTTCTTGTTTTTC
129179 CACTTTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (18 bp):
TATTTTTCTTGTTTTTCA
Found at i:132916 original size:31 final size:29
Alignment explanation
Indices: 132880--132940 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 29
132870 ATTTTTTTAA
* *
132880 AATTTAAACAAATTAAAAACTTTATAAAAAT
1 AATTTAAAAAAATT-AAAA-TGTATAAAAAT
132911 AATTTAAAAAAATTAAAATGTATAAAAAT
1 AATTTAAAAAAATTAAAATGTATAAAAAT
132940 A
1 A
132941 TATATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.39
30 4 0.14
31 13 0.46
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (29 bp):
AATTTAAAAAAATTAAAATGTATAAAAAT
Found at i:138221 original size:19 final size:20
Alignment explanation
Indices: 138194--138234 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
138184 TTAAATAGTA
*
138194 TTTTAAAATTTTCA-TTTGC
1 TTTTAAAATTTTAATTTTGC
*
138213 TTTTTAAATTTTAATTTTGC
1 TTTTAAAATTTTAATTTTGC
138233 TT
1 TT
138235 CCTCCATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTAAAATTTTAATTTTGC
Found at i:142177 original size:213 final size:213
Alignment explanation
Indices: 141795--142223 Score: 716
Period size: 213 Copynumber: 2.0 Consensus size: 213
141785 ACTTTTCCAT
* *
141795 AAGCTTCAATATCATAATTGAAGTCTCCTACACTCTTCAAACTCAAAATTCTCAATTTCCATCCG
1 AAGCTTCAATATCACAATTGAAGTCTCCTACACTCTTCAAACTCAAAATTCTCAATTTCCATCCC
* * *
141860 TACAAAATAGATAGAAAGATGAGTTATGATTATTCAAAGCCTTTATAATAGAGAATTCTATATTA
66 TACAAAATAAATAGAAAAATGAGTTATGATTATTCAAAGCCTTTATAATAGAGAATTCGATATTA
141925 ATGAGCATAACAACTAGATTACATCCTGGAATAGAGGTTTAATGGCATGAACCATTTGCCATAAT
131 ATGAGCATAACAACTAGATTACATCCTGGAATAGAGGTTTAATGGCATGAACCATTTGCCATAAT
141990 CTTTCCCTCTATTAATCA
196 CTTTCCCTCTATTAATCA
* * * * *
142008 AAGCTTTAATCTCACAATTGAAGTCTCTTACACTCTTCAAACTGGAAAA-TCTCAATTTCTATCC
1 AAGCTTCAATATCACAATTGAAGTCTCCTACACTCTTCAAACT-CAAAATTCTCAATTTCCATCC
* * *
142072 CTACAAAATAAATAGAAAAATGAGTTATGATTATTCAAAGCTTTTCTAATAGTGAATTCGATATT
65 CTACAAAATAAATAGAAAAATGAGTTATGATTATTCAAAGCCTTTATAATAGAGAATTCGATATT
*
142137 AATGAGCATAACAACTAGATTACATCCTGGAATAGAGGTTTAATGGCATGAACCATTTGCCATAG
130 AATGAGCATAACAACTAGATTACATCCTGGAATAGAGGTTTAATGGCATGAACCATTTGCCATAA
142202 TCTTTCCCTCTATTAATCA
195 TCTTTCCCTCTATTAATCA
142221 AAG
1 AAG
142224 AGATGAGGTT
Statistics
Matches: 201, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
213 197 0.98
214 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (213 bp):
AAGCTTCAATATCACAATTGAAGTCTCCTACACTCTTCAAACTCAAAATTCTCAATTTCCATCCC
TACAAAATAAATAGAAAAATGAGTTATGATTATTCAAAGCCTTTATAATAGAGAATTCGATATTA
ATGAGCATAACAACTAGATTACATCCTGGAATAGAGGTTTAATGGCATGAACCATTTGCCATAAT
CTTTCCCTCTATTAATCA
Found at i:147400 original size:19 final size:18
Alignment explanation
Indices: 147373--147411 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
147363 TATTTAAATC
147373 AATTTATTATTTA-TATTA
1 AATTTATTA-TTAGTATTA
147391 AATTTGATTATTAGTATTA
1 AATTT-ATTATTAGTATTA
147410 AA
1 AA
147412 AATCTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
AATTTATTATTAGTATTA
Found at i:160395 original size:17 final size:17
Alignment explanation
Indices: 160360--160398 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
160350 AGGTGGAGAA
* *
160360 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
*
160377 CTTGTTCGTAGTGAATT
1 CTTGTTCGTAGAGAATT
160394 CTTGT
1 CTTGT
160399 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.49
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:165877 original size:22 final size:23
Alignment explanation
Indices: 165836--165880 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
165826 TATAAATTGC
*
165836 TTTATATTTAAATCAATTTATTA
1 TTTATATTAAAATCAATTTATTA
*
165859 TTTATATTAAAATC-GTTTATTA
1 TTTATATTAAAATCAATTTATTA
165881 CTATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATATTAAAATCAATTTATTA
Found at i:168221 original size:45 final size:45
Alignment explanation
Indices: 168156--168249 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
168146 CATCCATCAC
168156 AAAAGAAAATTATATATTCTCATAATCAATG-TCAGGACTTAGCGA
1 AAAAGAAAATTATATATTCTCATAATCAATGCT-AGGACTTAGCGA
*
168201 AAAAGAAAATTATATCTTCTCATAATCAATGCTAGGACTTAGCGA
1 AAAAGAAAATTATATATTCTCATAATCAATGCTAGGACTTAGCGA
168246 AAAA
1 AAAA
168250 CATCATATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 46 0.98
46 1 0.02
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
Consensus pattern (45 bp):
AAAAGAAAATTATATATTCTCATAATCAATGCTAGGACTTAGCGA
Found at i:191186 original size:31 final size:32
Alignment explanation
Indices: 191129--191197 Score: 122
Period size: 31 Copynumber: 2.2 Consensus size: 32
191119 TCGTTCACCT
191129 CACCCCAACGTCGTCCCCTTTTCTCTCCTCAA
1 CACCCCAACGTCGTCCCCTTTTCTCTCCTCAA
*
191161 CACCCCAACGTTGTCCCC-TTTCTCTCCTCAA
1 CACCCCAACGTCGTCCCCTTTTCTCTCCTCAA
191192 CACCCC
1 CACCCC
191198 GACTCCCTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 19 0.53
32 17 0.47
ACGTcount: A:0.16, C:0.52, G:0.06, T:0.26
Consensus pattern (32 bp):
CACCCCAACGTCGTCCCCTTTTCTCTCCTCAA
Found at i:191535 original size:3 final size:3
Alignment explanation
Indices: 191387--191515 Score: 118
Period size: 3 Copynumber: 42.3 Consensus size: 3
191377 AATATTTTAA
* * *
191387 TAT TAT T-T TCT TAT TAT TATT TGT TATT TAGT T-T TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TA-T TAT TAT TAT TAT TAT
* * * * * *
191433 TGT TGT TGT TGT TAT TAT TAT TATT TAT TAA TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
191479 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
191516 TATACTACTG
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
2 4 0.04
3 93 0.87
4 10 0.09
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:193094 original size:12 final size:12
Alignment explanation
Indices: 193077--193106 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
193067 ACTAAGAAAG
*
193077 TTTTCTTATTGA
1 TTTTCTGATTGA
193089 TTTTCTGATTGA
1 TTTTCTGATTGA
193101 TTTTCT
1 TTTTCT
193107 AGTTAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.10, T:0.67
Consensus pattern (12 bp):
TTTTCTGATTGA
Found at i:194008 original size:11 final size:11
Alignment explanation
Indices: 193992--194072 Score: 66
Period size: 11 Copynumber: 7.6 Consensus size: 11
193982 ATTTAGAAAA
193992 AGAAAAAAATG
1 AGAAAAAAATG
194003 AGAAAAAAATTG
1 AGAAAAAAA-TG
194015 A-AAAAAAAT-
1 AGAAAAAAATG
*
194024 -TAAAAAAA-G
1 AGAAAAAAATG
*
194033 A-AAAAAATTG
1 AGAAAAAAATG
*
194043 AGAAAAAAAAAG
1 AG-AAAAAAATG
194055 AGAAGAAAAA-G
1 AGAA-AAAAATG
194066 AGAAAAA
1 AGAAAAA
194073 TATGTTTCAG
Statistics
Matches: 59, Mismatches: 3, Indels: 17
0.75 0.04 0.22
Matches are distributed among these distances:
9 13 0.22
10 6 0.10
11 23 0.39
12 17 0.29
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (11 bp):
AGAAAAAAATG
Found at i:194011 original size:12 final size:12
Alignment explanation
Indices: 193994--194072 Score: 52
Period size: 12 Copynumber: 6.3 Consensus size: 12
193984 TTAGAAAAAG
193994 AAAAAAATGAGA
1 AAAAAAATGAGA
* *
194006 AAAAAATTGAAAAA
1 AAAAAAATG--AGA
**
194020 AAATTAAAAAAAGA
1 AAA--AAAATGAGA
*
194034 AAAAAATTGAGA
1 AAAAAAATGAGA
*
194046 AAAAAAAAGAGA
1 AAAAAAATGAGA
*
194058 AGAAAAA-GAGA
1 AAAAAAATGAGA
194069 AAAA
1 AAAA
194073 TATGTTTCAG
Statistics
Matches: 50, Mismatches: 13, Indels: 9
0.69 0.18 0.12
Matches are distributed among these distances:
11 7 0.14
12 30 0.60
14 10 0.20
16 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (12 bp):
AAAAAAATGAGA
Found at i:194051 original size:23 final size:23
Alignment explanation
Indices: 194025--194072 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
194015 AAAAAAAATT
*
194025 AAAAAAAGA-AA-AAAATTGAGAA
1 AAAAAAAGAGAAGAAAA-AGAGAA
194047 AAAAAAAGAGAAGAAAAAGAGAA
1 AAAAAAAGAGAAGAAAAAGAGAA
194070 AAA
1 AAA
194073 TATGTTTCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 10 0.43
24 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (23 bp):
AAAAAAAGAGAAGAAAAAGAGAA
Found at i:195135 original size:23 final size:24
Alignment explanation
Indices: 195109--195153 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
195099 CCAATTAGGG
*
195109 AATTAT-TGTTTAGATTTAATTCT
1 AATTATCTGTTTAGAATTAATTCT
*
195132 AATTATCTTTTTAGAATTAATT
1 AATTATCTGTTTAGAATTAATT
195154 TTGGATCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (24 bp):
AATTATCTGTTTAGAATTAATTCT
Found at i:199546 original size:37 final size:37
Alignment explanation
Indices: 199495--199596 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 37
199485 CTTGATTCAC
* *
199495 CGGCACAAAGCCTACTAGACACAAAGCCCGAAAACA-
1 CGGCACAAAGCCTACTAGGCACAAAGCCAGAAAACAT
* * *
199531 CTGGCACAAAGCCTACTAGGCATATAGCCAGAATACAT
1 C-GGCACAAAGCCTACTAGGCACAAAGCCAGAAAACAT
*
199569 CGACACAAAGCCTACTAGGCACAAAGCC
1 CGGCACAAAGCCTACTAGGCACAAAGCC
199597 TGATTATTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 1 0.02
37 54 0.96
38 1 0.02
ACGTcount: A:0.40, C:0.31, G:0.18, T:0.11
Consensus pattern (37 bp):
CGGCACAAAGCCTACTAGGCACAAAGCCAGAAAACAT
Found at i:212514 original size:48 final size:48
Alignment explanation
Indices: 212458--212609 Score: 129
Period size: 48 Copynumber: 3.2 Consensus size: 48
212448 TTTGAGTAAG
212458 CTTTCTCTTTTTCTATTAGTGACCTTGTTGATTTTTTCACTCTTCATA
1 CTTTCTCTTTTTCTATTAGTGACCTTGTTGATTTTTTCACTCTTCATA
** * *** * *
212506 CTTTCTCTTACTCT-TT--T---CTT-TTCTATTTTCTTTGTTTTTTGAGTAA
1 CTTTCTCTTTTTCTATTAGTGACCTTGTT-GA-TTT-TTTCACTCTTCA-T-A
212552 GCTTTCTCTTTTTCTATTAGTGACCTTGTTGATTTTTTCACTCTTCATA
1 -CTTTCTCTTTTTCTATTAGTGACCTTGTTGATTTTTTCACTCTTCATA
212601 CTTTCTCTT
1 CTTTCTCTT
212610 ACTCTTTTCT
Statistics
Matches: 75, Mismatches: 16, Indels: 26
0.64 0.14 0.22
Matches are distributed among these distances:
41 2 0.03
42 4 0.05
43 3 0.04
44 7 0.09
45 2 0.03
46 1 0.01
47 14 0.19
48 23 0.31
49 1 0.01
50 2 0.03
51 7 0.09
52 3 0.04
53 4 0.05
54 2 0.03
ACGTcount: A:0.12, C:0.20, G:0.08, T:0.59
Consensus pattern (48 bp):
CTTTCTCTTTTTCTATTAGTGACCTTGTTGATTTTTTCACTCTTCATA
Found at i:212592 original size:95 final size:95
Alignment explanation
Indices: 212433--212622 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
212423 TATGAGTATA
212433 CTATTTTCTTTGTTCTTTGAGTAAGCTTTCTCTTTTTCTATTAGTGACCTTGTTGATTTTTTCAC
1 CTATTTTCTTTGTTCTTTGAGTAAGCTTTCTCTTTTTCTATTAGTGACCTTGTTGATTTTTTCAC
212498 TCTTCATACTTTCTCTTACTCTTTTCTTTT
66 TCTTCATACTTTCTCTTACTCTTTTCTTTT
*
212528 CTATTTTCTTTGTTTTTTGAGTAAGCTTTCTCTTTTTCTATTAGTGACCTTGTTGATTTTTTCAC
1 CTATTTTCTTTGTTCTTTGAGTAAGCTTTCTCTTTTTCTATTAGTGACCTTGTTGATTTTTTCAC
212593 TCTTCATACTTTCTCTTACTCTTTTCTTTT
66 TCTTCATACTTTCTCTTACTCTTTTCTTTT
212623 TGTGTTTTTA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.13, C:0.19, G:0.08, T:0.59
Consensus pattern (95 bp):
CTATTTTCTTTGTTCTTTGAGTAAGCTTTCTCTTTTTCTATTAGTGACCTTGTTGATTTTTTCAC
TCTTCATACTTTCTCTTACTCTTTTCTTTT
Done.