Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 70 of 182
Found at i:22426178 original size:19 final size:19
Alignment explanation
Indices: 22426154--22426210 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
22426144 ACTCCTCTAT
22426154 CCATTATTTGACGCCATAC
1 CCATTATTTGACGCCATAC
* *
22426173 CCATTA-CT--C-CTC-TAT
1 CCATTATTTGACGC-CATAC
22426188 CCATTATTTGACGCCATAC
1 CCATTATTTGACGCCATAC
22426207 CCAT
1 CCAT
22426211 GTCAAAGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
15 9 0.32
16 3 0.11
18 3 0.11
19 13 0.46
ACGTcount: A:0.25, C:0.35, G:0.07, T:0.33
Consensus pattern (19 bp):
CCATTATTTGACGCCATAC
Found at i:22426184 original size:34 final size:34
Alignment explanation
Indices: 22426141--22426210 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
22426131 GTTTCGTTTG
22426141 ATTACTCCTCTATCCATTATTTGACGCCATACCC
1 ATTACTCCTCTATCCATTATTTGACGCCATACCC
22426175 ATTACTCCTCTATCCATTATTTGACGCCATACCC
1 ATTACTCCTCTATCCATTATTTGACGCCATACCC
22426209 AT
1 AT
22426211 GTCAAAGGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (34 bp):
ATTACTCCTCTATCCATTATTTGACGCCATACCC
Found at i:22433345 original size:21 final size:21
Alignment explanation
Indices: 22433279--22433349 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 21
22433269 CAAATGATTT
22433279 TAAAATTATTTTTTAAAAT-A
1 TAAAATTATTTTTTAAAATAA
22433299 TAAAA--A--TTTTAAAATTAA
1 TAAAATTATTTTTTAAAA-TAA
*
22433317 TTTAAAATTATTTTTTGAAATAA
1 --TAAAATTATTTTTTAAAATAA
22433340 TAAAATTATT
1 TAAAATTATT
22433350 AAATAATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
16 8 0.19
17 1 0.02
18 2 0.05
20 10 0.24
21 10 0.24
22 1 0.02
23 3 0.07
24 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (21 bp):
TAAAATTATTTTTTAAAATAA
Found at i:22433361 original size:40 final size:40
Alignment explanation
Indices: 22433270--22433361 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
22433260 CCACATCAGC
*
22433270 AAATGATTTTAAAATTATTTTTTAAAATATAAAAATTTTA
1 AAATAATTTTAAAATTATTTTTTAAAATATAAAAATTTTA
*
22433310 AAATTAA-TTTAAAATTATTTTTTGAAATA-ATAAAATTATT-
1 AAA-TAATTTTAAAATTATTTTTTAAAATATA-AAAATT-TTA
22433350 AAATAATTTTAA
1 AAATAATTTTAA
22433362 TTTCCAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
39 4 0.09
40 38 0.83
41 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (40 bp):
AAATAATTTTAAAATTATTTTTTAAAATATAAAAATTTTA
Found at i:22434273 original size:20 final size:19
Alignment explanation
Indices: 22434227--22434286 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
22434217 TTTTTCAAAA
*
22434227 AAATAATTTTAATATATTT
1 AAATAATTTTAAAATATTT
*
22434246 AAATTAATGTTAAAATAATTT
1 AAA-TAATTTTAAAAT-ATTT
*
22434267 TAATAATTTTAAAATCATTT
1 AAATAATTTTAAAAT-ATTT
22434287 GTTGATGTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.09
20 25 0.74
21 6 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
AAATAATTTTAAAATATTT
Found at i:22434286 original size:11 final size:11
Alignment explanation
Indices: 22434226--22434286 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
22434216 TTTTTTCAAA
22434226 AAAATAATTTT
1 AAAATAATTTT
*
22434237 AATAT-A-TTT
1 AAAATAATTTT
* *
22434246 AAATTAATGTT
1 AAAATAATTTT
22434257 AAAATAATTTT
1 AAAATAATTTT
22434268 --AATAATTTT
1 AAAATAATTTT
*
22434277 AAAATCATTT
1 AAAATAATTT
22434287 GTTGATGTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
9 15 0.38
10 2 0.05
11 22 0.56
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:22434881 original size:44 final size:44
Alignment explanation
Indices: 22434831--22434916 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
22434821 AGTAAAATGA
* * * *
22434831 AAGTTGTGATAATTATACATTTAAAAATAATTATAATTTAATAG
1 AAGTTGTGATAATCACACATTTAAAAATAATAATAAGTTAATAG
*
22434875 AAGTTGTGATAATCACATATTTAAAAATAATAATAAGTTAAT
1 AAGTTGTGATAATCACACATTTAAAAATAATAATAAGTTAAT
22434917 TTATCATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38
Consensus pattern (44 bp):
AAGTTGTGATAATCACACATTTAAAAATAATAATAAGTTAATAG
Found at i:22436824 original size:6 final size:6
Alignment explanation
Indices: 22436810--22436850 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
22436800 TTATTAGTTA
*
22436810 TGATGG TGATAG TGATAG TGATAG TGATAG TGATAG TGATA
1 TGATAG TGATAG TGATAG TGATAG TGATAG TGATAG TGATA
22436851 CAATAGAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (6 bp):
TGATAG
Found at i:22438631 original size:26 final size:26
Alignment explanation
Indices: 22438601--22438679 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
22438591 AATTCACCCG
22438601 TATTATTTTTTATTTTTTTAAAATTA
1 TATTATTTTTTATTTTTTTAAAATTA
* *
22438627 TATTATATTATCTTA-ATATTTAATAATTA
1 TATTAT-TT-T-TTATTTTTTTAA-AATTA
*
22438656 TA-TATTTTTT-TATTTATTAAAATT
1 TATTATTTTTTAT-TTTTTTAAAATT
22438680 TTTTTATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
25 6 0.14
26 12 0.29
27 4 0.10
28 10 0.24
29 10 0.24
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (26 bp):
TATTATTTTTTATTTTTTTAAAATTA
Found at i:22451170 original size:69 final size:69
Alignment explanation
Indices: 22451048--22451508 Score: 367
Period size: 69 Copynumber: 6.7 Consensus size: 69
22451038 AACACTTATG
* *
22451048 TCATTCTAAGGTTCGCAGGCGAAGAGTCGCAACCTCTAACACATTTAGCGAGAGCAAAGCTCCCA
1 TCATTCTAAGGTTCGCAGGCGAAGAGCCGCAACCTCTAACACAGTTAGCGAGAGCAAAGCTCCCA
22451113 ACTA
66 ACTA
* * * * ** * *
22451117 TTATTCTAAGGTTCGCAGGCGATGAGCCGTAACCTTTAACACAGTTAATGAGAGGAAATCTCCCA
1 TCATTCTAAGGTTCGCAGGCGAAGAGCCGCAACCTCTAACACAGTTAGCGAGAGCAAAGCTCCCA
** *
22451182 GTTG
66 ACTA
* * * * *
22451186 TCATTCTAAGGTTCGCAGGCGAAGAGCCACAGCCTCTAACATAGTTAGTGAGAGCAAAGCTCTCA
1 TCATTCTAAGGTTCGCAGGCGAAGAGCCGCAACCTCTAACACAGTTAGCGAGAGCAAAGCTCCCA
* *
22451251 ATTG
66 ACTA
* * * * * * * * * *
22451255 TCATTCTAAGGTTCGTATGTGAAAAGCCACAACCTCCAACATAATTTA-CGAGAGAAAAGCTCTC
1 TCATTCTAAGGTTCGCAGGCGAAGAGCCGCAACCTCTAACA-CAGTTAGCGAGAGCAAAGCTCCC
22451319 AACTA
65 AACTA
* * * * * *
22451324 TCATTCTCAA-GTTCACAGGCAAAGAGTCGTAATCT-TCAACATAGTTAGCGAGAGCAAAGCTCC
1 TCATTCT-AAGGTTCGCAGGCGAAGAGCCGCAACCTCT-AACACAGTTAGCGAGAGCAAAGCTCC
* * *
22451387 TACCTG
64 CAACTA
* * * * * *
22451393 TCATTTTAAGGTTCGCAAGCGAAGGGCTGCAACCT-TCAACACAGTTAGCGACAGCAAAGCTTCC
1 TCATTCTAAGGTTCGCAGGCGAAGAGCCGCAACCTCT-AACACAGTTAGCGAGAGCAAAGCTCCC
*
22451457 AGCTA
65 AACTA
* * * * * *
22451462 TTATT-T-AGAGTTCACAAGCTAAGAGTCGTAACCTCTAACACAGTTAG
1 TCATTCTAAG-GTTCGCAGGCGAAGAGCCGCAACCTCTAACACAGTTAG
22451509 TGAAACTTTC
Statistics
Matches: 308, Mismatches: 77, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
67 2 0.01
68 37 0.12
69 263 0.85
70 6 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (69 bp):
TCATTCTAAGGTTCGCAGGCGAAGAGCCGCAACCTCTAACACAGTTAGCGAGAGCAAAGCTCCCA
ACTA
Found at i:22451451 original size:207 final size:207
Alignment explanation
Indices: 22451046--22451453 Score: 462
Period size: 207 Copynumber: 2.0 Consensus size: 207
22451036 CAAACACTTA
* * * * * *
22451046 TGTCATTCTAAGGTTCGCAGGCGAAGAGTCGCAACCTCTAACACATTTAGCGAGAGCAAAGCTCC
1 TGTCATTCTAAGGTTCGCAGGCGAAAAGCCACAACCTCCAACAAATTTAGCGAGAGAAAAGCTCC
* * * * * * * *
22451111 CAACTATTATTCTAAGGTTCGCAGGCGATGAGCCGTAACCTTTAACACAGTTAATGAGAGGAAAT
66 CAACTATCATTCTAAGGTTCACAGGCAAAGAGCCGTAACCTTCAACACAGTTAACGAGAGCAAAG
** * * * * *
22451176 CTCCCAGTTGTCATTCTAAGGTTCGCAGGCGAAGAGCCACAGCCTCTAACATAGTTAGTGAGAGC
131 CTCCCACCTGTCATTCTAAGGTTCGCAAGCGAAGAGCCACAACCTCTAACACAGTTAGCGACAGC
22451241 AAAGCTCTCAAT
196 AAAGCTCTCAAT
* * *
22451253 TGTCATTCTAAGGTTCGTATGTGAAAAGCCACAACCTCCAACATAATTTA-CGAGAGAAAAGCTC
1 TGTCATTCTAAGGTTCGCAGGCGAAAAGCCACAACCTCCAACA-AATTTAGCGAGAGAAAAGCTC
* * * * *
22451317 TCAACTATCATTCTCAA-GTTCACAGGCAAAGAGTCGTAATCTTCAACATAGTTAGCGAGAGCAA
65 CCAACTATCATTCT-AAGGTTCACAGGCAAAGAGCCGTAACCTTCAACACAGTTAACGAGAGCAA
* * * **
22451381 AGCTCCTACCTGTCATTTTAAGGTTCGCAAGCGAAGGGCTGCAACCT-TCAACACAGTTAGCGAC
129 AGCTCCCACCTGTCATTCTAAGGTTCGCAAGCGAAGAGCCACAACCTCT-AACACAGTTAGCGAC
22451445 AGCAAAGCT
193 AGCAAAGCT
22451454 TCCAGCTATT
Statistics
Matches: 164, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
206 1 0.01
207 156 0.95
208 7 0.04
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (207 bp):
TGTCATTCTAAGGTTCGCAGGCGAAAAGCCACAACCTCCAACAAATTTAGCGAGAGAAAAGCTCC
CAACTATCATTCTAAGGTTCACAGGCAAAGAGCCGTAACCTTCAACACAGTTAACGAGAGCAAAG
CTCCCACCTGTCATTCTAAGGTTCGCAAGCGAAGAGCCACAACCTCTAACACAGTTAGCGACAGC
AAAGCTCTCAAT
Found at i:22451782 original size:27 final size:26
Alignment explanation
Indices: 22451739--22451809 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
22451729 GCCTAAGTTT
* *
22451739 ATAGCAAGAGAGGTAGCAGCTTTGCTC
1 ATAGAAAGAG-GGTAGCAGCTTCGCTC
* * *
22451766 ATAGTAAGAGGGATAGCATCTTCGTTC
1 ATAGAAAGAGGG-TAGCAGCTTCGCTC
*
22451793 GTAGAAAGAGGGTAGCA
1 ATAGAAAGAGGGTAGCA
22451810 TATTAGTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 7 0.19
27 30 0.81
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.23
Consensus pattern (26 bp):
ATAGAAAGAGGGTAGCAGCTTCGCTC
Found at i:22451822 original size:26 final size:27
Alignment explanation
Indices: 22451771--22451830 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
22451761 TGCTCATAGT
* *
22451771 AAGAGGGATAGCATCTTCGTTCGTAGA
1 AAGAGGGATAGCATATTAGTTCGTAGA
*
22451798 AAGAGGG-TAGCATATTAGTTTGTAG-
1 AAGAGGGATAGCATATTAGTTCGTAGA
*
22451823 TAGAGGGA
1 AAGAGGGA
22451831 ACTATGCTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 6 0.21
26 15 0.54
27 7 0.25
ACGTcount: A:0.32, C:0.08, G:0.33, T:0.27
Consensus pattern (27 bp):
AAGAGGGATAGCATATTAGTTCGTAGA
Found at i:22453572 original size:12 final size:12
Alignment explanation
Indices: 22453535--22453572 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
22453525 ACTTTCGAAA
*
22453535 TTGAAGGACGTT
1 TTGAAGGACTTT
22453547 TTGAAGGACTTT
1 TTGAAGGACTTT
22453559 TTGAAGGACTTT
1 TTGAAGGACTTT
22453571 TT
1 TT
22453573 TAAAGAGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (12 bp):
TTGAAGGACTTT
Found at i:22454437 original size:30 final size:29
Alignment explanation
Indices: 22454329--22454635 Score: 176
Period size: 30 Copynumber: 10.3 Consensus size: 29
22454319 GGACATTCAG
* *
22454329 GGGTAAAATGGTAATTTTGGGAAAGTTCAA
1 GGGTAAAATGGAAATTTT-GGAAAGTTTAA
* * * ***
22454359 -GGTCAAAAATTGAATTTTTGG-ATGTTCGG
1 GGGT--AAAATGGAAATTTTGGAAAGTTTAA
* * *
22454388 GGGTAAAATAGTAATTTTTGAAAAGTTTAA
1 GGGTAAAAT-GGAAATTTTGGAAAGTTTAA
* * *
22454418 GGTTAAAAATGGAAATTTT-GAATGTTTAG
1 GGGT-AAAATGGAAATTTTGGAAAGTTTAA
*
22454447 GGGTAAAATGGTAATTTTAGGAAAGTTT-A
1 GGGTAAAATGGAAATTTT-GGAAAGTTTAA
*
22454476 GGGTCAAAAATGGAATTTTTGGAAA-TTTAA
1 GGGT--AAAATGGAAATTTTGGAAAGTTTAA
* **
22454506 GGGTAAAATGGTAATTTTTGTG-AAGTTTGG
1 GGGTAAAATGG-AAATTTTG-GAAAGTTTAA
* * * *
22454536 GGGTGATAATGTAATTTTTGGAAAGTTTAG
1 GGGT-AAAATGGAAATTTTGGAAAGTTTAA
** * *
22454566 GGGTTAAAATATAATTTTTGGTAAGTTTAA
1 GGG-TAAAATGGAAATTTTGGAAAGTTTAA
* * *
22454596 GGGTTAAAATGTAATTTTTGGAAAGTTCAA
1 GGG-TAAAATGGAAATTTTGGAAAGTTTAA
22454626 GGGTCAAAAT
1 GGGT-AAAAT
22454636 ATGATTTTTA
Statistics
Matches: 222, Mismatches: 37, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
28 25 0.11
29 45 0.20
30 118 0.53
31 34 0.15
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (29 bp):
GGGTAAAATGGAAATTTTGGAAAGTTTAA
Found at i:22454532 original size:59 final size:59
Alignment explanation
Indices: 22454253--22454635 Score: 310
Period size: 59 Copynumber: 6.4 Consensus size: 59
22454243 GTAAAACGGT
* * * ** * ** *
22454253 AATTTTTGGACATCCAAGGGTTTAATGGTAATTCTTAGG-AAGTTCGGGGTCAAAAATGA
1 AATTTTTGGAAATTCAGGGGTAAAATGGTAATT-TTTGGAAAGTTTAGGGTCAAAAATGG
* * * * *
22454312 AATTTTTGGACATTCAGGGGTAAAATGGTAATTTTGGGAAAGTTCAAGGTCAAAAATTG
1 AATTTTTGGAAATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTCAAAAATGG
** * * * * *
22454371 AATTTTTGGATGTTCGGGGGTAAAATAGTAATTTTTGAAAAGTTTAAGGTTAAAAATGG
1 AATTTTTGGAAATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTCAAAAATGG
* * * *
22454430 AAATTTT-GAATGTTTAGGGGTAAAATGGTAATTTTAGGAAAGTTTAGGGTCAAAAATGG
1 AATTTTTGGAA-ATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTCAAAAATGG
* * * * * *
22454489 AATTTTTGGAAATTTAAGGGTAAAATGGTAATTTTTGTG-AAGTTTGGGGGT-GATAATGT
1 AATTTTTGGAAATTCAGGGGTAAAATGGTAATTTTTG-GAAAGTTT-AGGGTCAAAAATGG
* * * * *
22454548 AATTTTTGGAAAGTTTAGGGGTTAAAAT-ATAATTTTTGGTAAGTTTAAGGGT-TAAAATGT
1 AATTTTTGGAAA-TTCAGGGG-TAAAATGGTAATTTTTGGAAAGTTT-AGGGTCAAAAATGG
*
22454608 AATTTTTGGAAAGTTCAAGGGTCAAAAT
1 AATTTTTGGAAA-TTCAGGGGT-AAAAT
22454636 ATGATTTTTA
Statistics
Matches: 272, Mismatches: 43, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
58 6 0.02
59 196 0.72
60 64 0.24
61 6 0.02
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (59 bp):
AATTTTTGGAAATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTCAAAAATGG
Found at i:22454643 original size:30 final size:29
Alignment explanation
Indices: 22454388--22454644 Score: 202
Period size: 30 Copynumber: 8.6 Consensus size: 29
22454378 GGATGTTCGG
*
22454388 GGGTAAAATAGTAATTTTTGAAAAGTTTAA
1 GGGTAAAATA-TAATTTTTGGAAAGTTTAA
* * * *
22454418 GGTTAAAA-ATGGAAATTTT-GAATGTTTAG
1 GGGTAAAATAT--AATTTTTGGAAAGTTTAA
* *
22454447 GGGTAAAATGGTAATTTTAGGAAAGTTT-A
1 GGGTAAAAT-ATAATTTTTGGAAAGTTTAA
22454476 GGGTCAAAA-ATGGAATTTTTGGAAA-TTTAA
1 GGGT-AAAATAT--AATTTTTGGAAAGTTTAA
* **
22454506 GGGTAAAATGGTAATTTTTGTG-AAGTTTGG
1 GGGTAAAAT-ATAATTTTTG-GAAAGTTTAA
* * *
22454536 GGGTGATAATGTAATTTTTGGAAAGTTTAG
1 GGGT-AAAATATAATTTTTGGAAAGTTTAA
*
22454566 GGGTTAAAATATAATTTTTGGTAAGTTTAA
1 GGG-TAAAATATAATTTTTGGAAAGTTTAA
* *
22454596 GGGTTAAAATGTAATTTTTGGAAAGTTCAA
1 GGG-TAAAATATAATTTTTGGAAAGTTTAA
*
22454626 GGGTCAAAATATGATTTTT
1 GGGT-AAAATATAATTTTT
22454645 AGACAGTTCA
Statistics
Matches: 183, Mismatches: 27, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
28 2 0.01
29 43 0.23
30 131 0.72
31 7 0.04
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.38
Consensus pattern (29 bp):
GGGTAAAATATAATTTTTGGAAAGTTTAA
Found at i:22454653 original size:30 final size:29
Alignment explanation
Indices: 22454312--22454657 Score: 140
Period size: 30 Copynumber: 11.7 Consensus size: 29
22454302 TCAAAAATGA
* *
22454312 AATTTTTGGACA-TTC-AGGGGTAAAATGGT
1 AATTTTTGGA-AGTTCAAGGGTTAAAAT-AT
* *
22454341 AATTTTGGGAAAGTTCAA-GGTCAAAA-ATT
1 AATTTTTGG-AAGTTCAAGGGTTAAAATA-T
* * *
22454370 GAATTTTTGGATGTTC-GGGGGTAAAATAGT
1 -AATTTTTGGAAGTTCAAGGGTTAAAATA-T
* *
22454400 AATTTTTGAAAAGTTTAA-GGTTAAAA-AT
1 AATTTTTG-GAAGTTCAAGGGTTAAAATAT
* * * *
22454428 GGAAATTTT-GAATGTT-TAGGGGTAAAATGGT
1 --AATTTTTGGAA-GTTCAAGGGTTAAAAT-AT
* * *
22454459 AATTTTAGGAAAGTT-TAGGGTCAAAA-AT
1 AATTTTTGG-AAGTTCAAGGGTTAAAATAT
* * *
22454487 GGAATTTTTGGAAATTTAAGGG-TAAAATGGT
1 --AATTTTTGGAAGTTCAAGGGTTAAAAT-AT
*** * * *
22454518 AATTTTTGTGAAGTTTGGGGGTGATAATGT
1 AATTTTTG-GAAGTTCAAGGGTTAAAATAT
* *
22454548 AATTTTTGGAAAGTTTAGGGGTTAAAATAT
1 AATTTTTGG-AAGTTCAAGGGTTAAAATAT
* *
22454578 AATTTTTGGTAAGTTTAAGGGTTAAAATGT
1 AATTTTTGG-AAGTTCAAGGGTTAAAATAT
*
22454608 AATTTTTGGAAAGTTCAAGGGTCAAAATAT
1 AATTTTTGG-AAGTTCAAGGGTTAAAATAT
* *
22454638 GATTTTTAGACAGTTCAAGG
1 AATTTTTGGA-AGTTCAAGG
22454658 ACCTTCTAGG
Statistics
Matches: 243, Mismatches: 48, Indels: 51
0.71 0.14 0.15
Matches are distributed among these distances:
28 5 0.02
29 63 0.26
30 166 0.68
31 9 0.04
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (29 bp):
AATTTTTGGAAGTTCAAGGGTTAAAATAT
Found at i:22456545 original size:7 final size:6
Alignment explanation
Indices: 22456520--22456596 Score: 79
Period size: 6 Copynumber: 13.2 Consensus size: 6
22456510 ACTTTTATTT
* *
22456520 ATTTAA ATTTAA A-ATAA TTTTAA ATTTAA ATTTAA ATTTAA ATTTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A-TTTAA
** *
22456568 A-ACAA ATTTAA ATTTAA A-ATAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
22456597 CTGGGTTTAG
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
5 10 0.18
6 41 0.72
7 6 0.11
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (6 bp):
ATTTAA
Found at i:22456561 original size:18 final size:17
Alignment explanation
Indices: 22456520--22456596 Score: 109
Period size: 17 Copynumber: 4.4 Consensus size: 17
22456510 ACTTTTATTT
22456520 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
* *
22456537 TTTTAAATTTAAATTTAA
1 ATTTAAATTTAAA-ATAA
*
22456555 ATTTAAATTTTAAAACAA
1 ATTTAAA-TTTAAAATAA
22456573 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
22456590 ATTTAAA
1 ATTTAAA
22456597 CTGGGTTTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
17 28 0.54
18 18 0.35
19 6 0.12
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:22457376 original size:209 final size:208
Alignment explanation
Indices: 22456972--22457833 Score: 1000
Period size: 209 Copynumber: 4.1 Consensus size: 208
22456962 CTTAGTCTAA
* * *
22456972 TTCTCTGTATCTCATCAGGAAGATGACCG-ATTTA-TTGCTTCGACCCACTTCTCTGTATCTCAT
1 TTCTCTGTATCTCATCAGGAAGATGACCGCA-TCACTTGTTTCGATCCACTTCTCTGTATCTCAT
* * * * * *
22457035 CAGGAAGACGGATTTGATCCACTTCTCTATGTCTCATCAGGAAGATGACCGCTTTATTGCTTCGA
65 CAGGAAGAC-GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACCACTTTATTGCTTTGA
** * * * *
22457100 CCCACTTCTCAGTATCTCATAAAGAAGCTGGGGTTCGGAGTTTCGCTCATATTGAGCTTTGTTTC
129 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTC
* * *
22457165 ATTTATTTGGTATGC
194 ATTGAGTTGGTATAC
* * * * *
22457180 TTCTTTGTATTTTATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCATC
1 TTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGATCCACTTCTCTGTATCTCATC
* * * * * * *
22457245 AGGAAGACTGATCTGGTTCATTTCTCTGTATCTTATCAGGGAGGTGACCGCTTTATTGCTTTGAC
66 AGGAAGAC-GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACCACTTTATTGCTTTGAC
* *
22457310 CTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCACTCACATTGAGCTTTGTTTCA
130 CTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCA
22457375 TTGAGTTGGTATAC
195 TTGAGTTGGTATAC
* * * * ** *
22457389 TTCTCGGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTTTGTATCTCATC
1 TTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGATCCACTTCTCTGTATCTCATC
* * *
22457454 AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTGACCATTTTATTG-TTTCGA
66 AGGAAGACG-ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACCACTTTATTGCTTT-GA
*
22457518 CCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTC
129 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTC
* *
22457583 ATTGATTTGGTCTAC
194 ATTGAGTTGGTATAC
* * * * * * * *
22457598 TTCTCAGTATCTCATTAGAAAGATGGCCGCATCACATGTTT-TACTCTACTTCTCTATATCTCAT
1 TTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGA-TCCACTTCTCTGTATCTCAT
* * * *
22457662 CAGGAAGACAGATTTGGTCCAATTCT-TAGTATCTCATCAGGAAACTAACCATTTTATTGCTTTG
65 CAGGAAGAC-GATTTGGTCCACTTCTCT-GTATCTCATCAGGAAGCTGACCACTTTATTGCTTTG
* * * ** * *
22457726 ATCTTCTTCCCAGTATCTCATCAGGAAGCTGACGTTCGAAGATTT-GCTCACTTTGAGC-TTATT
128 ACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAG-TTTCGCTCACATTGAGCTTTGTT
*
22457789 TCATTGAGTTGGAATAC
192 TCATTGAGTTGGTATAC
*
22457806 TTCTCTGTATCTCATTAGGAAGATGACC
1 TTCTCTGTATCTCATCAGGAAGATGACC
22457834 AGCTCGTTGT
Statistics
Matches: 558, Mismatches: 87, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
208 76 0.14
209 475 0.85
210 7 0.01
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (208 bp):
TTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGATCCACTTCTCTGTATCTCATC
AGGAAGACGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACCACTTTATTGCTTTGACC
TGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCAT
TGAGTTGGTATAC
Found at i:22469847 original size:29 final size:28
Alignment explanation
Indices: 22469814--22470223 Score: 263
Period size: 30 Copynumber: 13.9 Consensus size: 28
22469804 GGATACTCAA
* *
22469814 GGTAAAATGATAATTTTTGGAGGTTTGGG
1 GGTAAAATG-TAATTTTTGGAAGTTTGAG
* *
22469843 GGTAAAACGATAATTTTTGGATA-TTCGAG
1 GGTAAAATG-TAATTTTTGGA-AGTTTGAG
*
22469872 GGTAAAGTGGTAATTTTTGAGAAGTTT-AG
1 GGTAAAAT-GTAATTTTTG-GAAGTTTGAG
* * *
22469901 GGTCAAAAATGGAATTTTTGGACGTTCGAG
1 GGT--AAAATGTAATTTTTGGAAGTTTGAG
* * *
22469931 GGTAAAATTATAATTTTTGAAAAGTAT-AG
1 GGTAAAA-TGTAATTTTTG-GAAGTTTGAG
* * * *
22469960 GGTCAAAAATGGAATTTTTGGATGTTCGGG
1 GGT--AAAATGTAATTTTTGGAAGTTTGAG
* *
22469990 GGTAAAATGGTAATTTTAAGAAAGTTTGA-
1 GGTAAAAT-GTAATTTT-TGGAAGTTTGAG
* * * *
22470019 AGTCAAAATGGAATTTTTGGAAATTTAAG
1 GGT-AAAATGTAATTTTTGGAAGTTTGAG
22470048 GGTAAAATGGTAATTTTTGTGAAGTTTTG-G
1 GGTAAAAT-GTAATTTTTG-GAAG-TTTGAG
* * *
22470078 GGCAATAATATAATTTTTGAAAAGTTTGAG
1 GGTAA-AATGTAATTTTTG-GAAGTTTGAG
*
22470108 GGTTAAAATGTAATTTTTGGTAAGTTCGAG
1 GG-TAAAATGTAATTTTTGG-AAGTTTGAG
* * *
22470138 AGTCAAAATGTAATTTTTAGTAAGTTTGGG
1 GGT-AAAATGTAATTTTT-GGAAGTTTGAG
*
22470168 GGTTAAAATGTAATTTTTGGAAAGTTTAAG
1 GG-TAAAATGTAATTTTTGG-AAGTTTGAG
* *
22470198 GGTCAAAATATGATTTTTGGACAGTT
1 GGT-AAAATGTAATTTTTGGA-AGTT
22470224 CAAGGACCTT
Statistics
Matches: 294, Mismatches: 58, Indels: 57
0.72 0.14 0.14
Matches are distributed among these distances:
28 21 0.07
29 102 0.35
30 153 0.52
31 18 0.06
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (28 bp):
GGTAAAATGTAATTTTTGGAAGTTTGAG
Found at i:22469929 original size:59 final size:60
Alignment explanation
Indices: 22469854--22470224 Score: 311
Period size: 59 Copynumber: 6.2 Consensus size: 60
22469844 GTAAAACGAT
*
22469854 AATTTTTGGATA-TTCGAGGGTAAAGTGGTAATTTTTGAG-AAGTTTAGGGTCAAAAATGG
1 AATTTTTGGA-AGTTCGAGGGTAAAATGGTAATTTTTGAGAAAGTTTAGGGTCAAAAATGG
* ** *
22469913 AATTTTTGGACGTTCGAGGGTAAAATTATAATTTTTGA-AAAGTATAGGGTCAAAAATGG
1 AATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGAGAAAGTTTAGGGTCAAAAATGG
* * * *
22469972 AATTTTTGGATGTTCGGGGGTAAAATGGTAA-TTTTAAGAAAGTTT-GAAGTC-AAAATGG
1 AATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGAGAAAGTTTAG-GGTCAAAAATGG
* ** * * * * **
22470030 AATTTTTGGAAATTTAAGGGTAAAATGGTAATTTTTGTG-AAGTTTTGGGGCAATAATAT
1 AATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGAGAAAGTTTAGGGTCAAAAATGG
* * * * * *
22470089 AATTTTTGAAAAGTTTGAGGGTTAAAAT-GTAATTTTTG-GTAAGTTCGAGAGTC-AAAATGT
1 AATTTTTG-GAAGTTCGAGGG-TAAAATGGTAATTTTTGAGAAAGTT-TAGGGTCAAAAATGG
* * *
22470149 AATTTTTAGTAAGTTTGGGGGTTAAAAT-GTAATTTTTG-GAAAGTTTAAGGGTCAAAATAT-G
1 AATTTTT-GGAAGTTCGAGGG-TAAAATGGTAATTTTTGAGAAAGTTT-AGGGTCAAAA-ATGG
22470210 -ATTTTTGGACAGTTC
1 AATTTTTGGA-AGTTC
22470225 AAGGACCTTC
Statistics
Matches: 255, Mismatches: 41, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
58 47 0.18
59 109 0.43
60 84 0.33
61 13 0.05
62 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (60 bp):
AATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGAGAAAGTTTAGGGTCAAAAATGG
Found at i:22470055 original size:58 final size:58
Alignment explanation
Indices: 22469797--22470218 Score: 283
Period size: 59 Copynumber: 7.2 Consensus size: 58
22469787 GATTAAATAC
* * * * * *
22469797 AATTTTTGGATACTC-AAGGTAAAATGATAATTTTTGGAGGTTTGGGGGT-AAAACGAT--
1 AATTTTTGGATATTCGAGGGTAAAATGGTAATTTTTGAAAGTTT-AGGGTCAAAA--ATGG
*
22469854 AATTTTTGGATATTCGAGGGTAAAGTGGTAATTTTTGAGAAGTTTAGGGTCAAAAATGG
1 AATTTTTGGATATTCGAGGGTAAAATGGTAATTTTTGA-AAGTTTAGGGTCAAAAATGG
** ** *
22469913 AATTTTTGGACGTTCGAGGGTAAAATTATAATTTTTGAAAAGTATAGGGTCAAAAATGG
1 AATTTTTGGATATTCGAGGGTAAAATGGTAATTTTTG-AAAGTTTAGGGTCAAAAATGG
* * * *
22469972 AATTTTTGGATGTTCGGGGGTAAAATGGTAATTTTAAGAAAGTTT-GAAGTC-AAAATGG
1 AATTTTTGGATATTCGAGGGTAAAATGGTAATTTT-TGAAAGTTTAG-GGTCAAAAATGG
* ** * * * * **
22470030 AATTTTTGGAAATTTAAGGGTAAAATGGTAATTTTTGTGAAGTTTTGGGGCAATAATAT
1 AATTTTTGGATATTCGAGGGTAAAATGGTAATTTTTG-AAAGTTTAGGGTCAAAAATGG
* * * * * * *
22470089 AATTTTTGAAAAGTTTGAGGGTTAAAAT-GTAATTTTTGGTAAGTTCGAGAGTC-AAAATGT
1 AATTTTTGGATA-TTCGAGGG-TAAAATGGTAATTTTT-GAAAGTT-TAGGGTCAAAAATGG
* * *
22470149 AATTTTTAG-TAAGTTTGGGGGTTAAAAT-GTAATTTTTGGAAAGTTTAAGGGTCAAAATAT-G
1 AATTTTTGGAT-A-TTCGAGGG-TAAAATGGTAATTTTT-GAAAGTTT-AGGGTCAAAA-ATGG
22470210 -ATTTTTGGA
1 AATTTTTGGA
22470219 CAGTTCAAGG
Statistics
Matches: 295, Mismatches: 50, Indels: 36
0.77 0.13 0.09
Matches are distributed among these distances:
57 17 0.06
58 68 0.23
59 116 0.39
60 79 0.27
61 13 0.04
62 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.37
Consensus pattern (58 bp):
AATTTTTGGATATTCGAGGGTAAAATGGTAATTTTTGAAAGTTTAGGGTCAAAAATGG
Found at i:22470184 original size:90 final size:86
Alignment explanation
Indices: 22469814--22470227 Score: 250
Period size: 88 Copynumber: 4.7 Consensus size: 86
22469804 GGATACTCAA
* * * * * * *
22469814 GGTAAAATGATAATTTTTG-GAGGTTTGGGGGT-AAAACGATAATTTTTGGATATTCGAGGGTAA
1 GGTAAAATG-TAATTTTTGAAAAGTTTGAGGGTCAAAATG-TAATTTTTGGAAATTCAAGAGTAA
* * *
22469877 AGTGGTAATTTTTGAGAAGTTT-AG
64 AAT-GTAATTTTTG-TAAGTTTGGG
* * * * * * * *
22469901 GGTCAAAAATGGAATTTTTG-GACGTTCGAGGGT-AAAATTATAATTTTTGAAAAGT-ATAGGGT
1 GGT--AAAATGTAATTTTTGAAAAGTTTGAGGGTCAAAA-TGTAATTTTTGGAAATTCA-AGAGT
* * * *
22469963 CAAAAATGGAATTTTTGGATGTTCGGG
62 --AAAATGTAATTTTTGTAAGTTTGGG
* * * * *
22469990 GGTAAAATGGTAA-TTTTAAGAAAGTTTGA-AGTCAAAATGGAATTTTTGGAAATTTAAGGGTAA
1 GGTAAAAT-GTAATTTTTGA-AAAGTTTGAGGGTCAAAATGTAATTTTTGGAAATTCAAGAGTAA
*
22470053 AATGGTAATTTTTGTGAAGTTTTGG
64 AAT-GTAATTTTTGT-AAGTTTGGG
* * * * *
22470078 GGCAATAATATAATTTTTGAAAAGTTTGAGGGTTAAAATGTAATTTTTGGTAAGTTCGAGAGTCA
1 GGTAA-AATGTAATTTTTGAAAAGTTTGAGGGTCAAAATGTAATTTTTGG-AAATTCAAGAGT-A
22470143 AAATGTAATTTTTAGTAAGTTTGGG
63 AAATGTAATTTTT-GTAAGTTTGGG
* * * * *
22470168 GGTTAAAATGTAATTTTTGGAAAGTTTAAGGGTCAAAATATGATTTTTGGACAGTTCAAG
1 GG-TAAAATGTAATTTTTGAAAAGTTTGAGGGTCAAAATGTAATTTTTGGA-AATTCAAG
22470228 GACCTTCTGG
Statistics
Matches: 256, Mismatches: 49, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
86 5 0.02
87 21 0.08
88 89 0.35
89 56 0.22
90 76 0.30
91 9 0.04
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (86 bp):
GGTAAAATGTAATTTTTGAAAAGTTTGAGGGTCAAAATGTAATTTTTGGAAATTCAAGAGTAAAA
TGTAATTTTTGTAAGTTTGGG
Found at i:22471217 original size:3 final size:3
Alignment explanation
Indices: 22471209--22471260 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
22471199 GTTTTTTAAA
** ** * *
22471209 ATT ATT ATT ATT ATT AAA AAA ATT ATT ATT ATT ATT ATT ATC ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22471257 ATT A
1 ATT A
22471261 AGGCTGTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (3 bp):
ATT
Found at i:22471227 original size:18 final size:18
Alignment explanation
Indices: 22471204--22471261 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
22471194 TTCGGGTTTT
22471204 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
**
22471222 TTAAAAAAATTATTATTA
1 TTAAAATTATTATTATTA
** * *
22471240 TTATTATTATCATCATTA
1 TTAAAATTATTATTATTA
22471258 TTAA
1 TTAA
22471262 GGCTGTAAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:22471232 original size:21 final size:21
Alignment explanation
Indices: 22471206--22471245 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
22471196 CGGGTTTTTT
22471206 AAAATTATTATTATTATTAAA
1 AAAATTATTATTATTATTAAA
22471227 AAAATTATTATTATTATTA
1 AAAATTATTATTATTATTA
22471246 TTATCATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATTATTATTATTATTAAA
Found at i:22472030 original size:6 final size:6
Alignment explanation
Indices: 22472019--22472095 Score: 68
Period size: 6 Copynumber: 13.0 Consensus size: 6
22472009 ACTTTTATTT
* * *
22472019 ATTTAA ATTTAA ATATAA ATTTAA AATTAA A-TTAA ATTAAA ATTTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A-TTTAA
** **
22472067 A-ACAA ATTTAA ATTTAA AAATAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
22472096 TCTTAAAATA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
5 8 0.15
6 42 0.76
7 5 0.09
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (6 bp):
ATTTAA
Found at i:22472039 original size:12 final size:11
Alignment explanation
Indices: 22472022--22472122 Score: 64
Period size: 12 Copynumber: 8.9 Consensus size: 11
22472012 TTTATTTATT
22472022 TAAATTTAAATA
1 TAAATTTAAA-A
22472034 TAAATTTAAAA
1 TAAATTTAAAA
*
22472045 TTAAA-TTAAAT
1 -TAAATTTAAAA
22472056 TAAAATTTTAAAA
1 T-AAA-TTTAAAA
* *
22472069 CAAATTTAAATT
1 TAAATTTAAA-A
** *
22472081 TAAAAATAAAT
1 TAAATTTAAAA
*
22472092 TTAATCTTAAAA
1 TAAAT-TTAAAA
22472104 TAAA--TAAAA
1 TAAATTTAAAA
22472113 TAAATTTAAA
1 TAAATTTAAA
22472123 GTTGGTTAGT
Statistics
Matches: 69, Mismatches: 12, Indels: 17
0.70 0.12 0.17
Matches are distributed among these distances:
9 9 0.13
10 1 0.01
11 23 0.33
12 31 0.45
13 5 0.07
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:22472042 original size:18 final size:17
Alignment explanation
Indices: 22472019--22472108 Score: 101
Period size: 18 Copynumber: 5.1 Consensus size: 17
22472009 ACTTTTATTT
22472019 ATTTAAATTTAAATATAA
1 ATTTAAATTTAAA-ATAA
* *
22472037 ATTTAAAATTAAATTAA
1 ATTTAAATTTAAAATAA
* *
22472054 ATTAAAATTTTAAAACAA
1 ATTTAAA-TTTAAAATAA
22472072 ATTTAAATTTAAAAATAA
1 ATTTAAATTT-AAAATAA
22472090 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
22472107 AT
1 AT
22472109 AAAATAAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
17 24 0.39
18 37 0.61
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:22478452 original size:22 final size:22
Alignment explanation
Indices: 22478421--22478474 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
22478411 TTTTTTATAA
* *
22478421 TTATTATATTAAAATTTAAATT
1 TTATTTTATTAAAATTTAAATG
* * *
22478443 TTATTTTATTGATATTTATATG
1 TTATTTTATTAAAATTTAAATG
22478465 TTA-TTTATTA
1 TTATTTTATTA
22478475 GTTTGTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTATTTTATTAAAATTTAAATG
Found at i:22479355 original size:14 final size:16
Alignment explanation
Indices: 22479334--22479368 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22479324 AAATGTTGTA
*
22479334 TAAAA-ATATAATATT
1 TAAAATATATATTATT
22479349 TAAAATATATATTATT
1 TAAAATATATATTATT
22479365 TAAA
1 TAAA
22479369 TTTTATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAATATATATTATT
Found at i:22484608 original size:30 final size:32
Alignment explanation
Indices: 22484544--22484620 Score: 97
Period size: 30 Copynumber: 2.5 Consensus size: 32
22484534 GTAAGTAAAG
*
22484544 GACTGTTTTGTCAC-TTTTCGATAACTTTAGT
1 GACTGTTTTGTCACATTTTCGATAACTTGAGT
*
22484575 GACTGTTTTGTCACATTTTC-A-AAGTTGAGT
1 GACTGTTTTGTCACATTTTCGATAACTTGAGT
* *
22484605 GACTATTTTGTTACAT
1 GACTGTTTTGTCACAT
22484621 GTAATCGGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
30 21 0.51
31 15 0.37
32 5 0.12
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (32 bp):
GACTGTTTTGTCACATTTTCGATAACTTGAGT
Found at i:22485434 original size:57 final size:59
Alignment explanation
Indices: 22485373--22485541 Score: 247
Period size: 57 Copynumber: 2.9 Consensus size: 59
22485363 CTTTTTTTTT
*
22485373 CAATTTGGTACATGAACTTGACACTTTTTCCTAATTTGGTACCTAAA-TTTTTTGA-CC
1 CAATTTGGTACTTGAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTGAGCC
*
22485430 CAATTTGATACTTGAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTGAGCC
1 CAATTTGGTACTTGAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTGAGCC
* * * *
22485489 CAATTTGGTATTTGAACTTGGCA-TTTTT-TTAAATTTGGTACCTAAGCTTTTTT
1 CAATTTGGTACTTGAACTTGACACTTTTTCCT-AATTTGGTACCTAAACTTTTTT
22485542 TAGGTTCAAT
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
57 46 0.45
58 34 0.33
59 22 0.22
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (59 bp):
CAATTTGGTACTTGAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTGAGCC
Found at i:22486009 original size:60 final size:58
Alignment explanation
Indices: 22485919--22486050 Score: 151
Period size: 60 Copynumber: 2.2 Consensus size: 58
22485909 CATTTGACAA
* * * *
22485919 GTACCAAATTGAA-CAAAAAAGATTAGGTATCAAATTAGGATAAAGA-GTCAAGTTCAG
1 GTACCAAATTGAACCAAAAAAGATTAAGTATCAAATTAAGA-AAAAATGTCAAATTCAG
* * *
22485976 GTACCAAATTGAACCTCCAAAAAGATTAAGTATCAACTTAAGAAAAAATGTCAAATTTAG
1 GTACCAAATTGAA-C-CAAAAAAGATTAAGTATCAAATTAAGAAAAAATGTCAAATTCAG
22486036 GTACCAAATTAGAAC
1 GTACCAAATT-GAAC
22486051 AAAGTGTCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
57 13 0.21
59 4 0.06
60 43 0.68
61 3 0.05
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (58 bp):
GTACCAAATTGAACCAAAAAAGATTAAGTATCAAATTAAGAAAAAATGTCAAATTCAG
Found at i:22486644 original size:29 final size:30
Alignment explanation
Indices: 22486586--22486644 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
22486576 AAATTGGATT
22486586 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
* *
22486616 AAATCAAAATTT-ATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTACACA
22486645 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:22488299 original size:17 final size:17
Alignment explanation
Indices: 22488279--22488317 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22488269 AAATCCATAA
*
22488279 TAAATAAATTTTGAATT
1 TAAATAAATTTTAAATT
**
22488296 TAAATTTATTTTAAATT
1 TAAATAAATTTTAAATT
22488313 TAAAT
1 TAAAT
22488318 TTGAAATGTC
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TAAATAAATTTTAAATT
Found at i:22488318 original size:17 final size:17
Alignment explanation
Indices: 22488286--22488319 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22488276 TAATAAATAA
*
22488286 ATTTTGAATTTAAATTT
1 ATTTTAAATTTAAATTT
22488303 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
22488320 GAAATGTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:22490034 original size:30 final size:30
Alignment explanation
Indices: 22490000--22490149 Score: 149
Period size: 30 Copynumber: 5.0 Consensus size: 30
22489990 TTAAAAATCT
* * *
22490000 CATTTTGACCCTTAAACTTCTCAAAAATTA
1 CATTTTAACCCTTAAACTTTTCCAAAATTA
* * * *
22490030 CATTTTAACCCCTAAAATTTTTCTAAAATCA
1 CATTTTAA-CCCTTAAACTTTTCCAAAATTA
* * * * *
22490061 TATTTTTACCCCTGAACTTTTCCAAAATCA
1 CATTTTAACCCTTAAACTTTTCCAAAATTA
22490091 CATTTTAACCCTTAAACTTTTCCAAAATTA
1 CATTTTAACCCTTAAACTTTTCCAAAATTA
* * *
22490121 CATTTTGACCC-CAAACTTCTCCAAAATTA
1 CATTTTAACCCTTAAACTTTTCCAAAATTA
22490150 TAATTCTCCC
Statistics
Matches: 98, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
29 16 0.16
30 59 0.60
31 23 0.23
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.37
Consensus pattern (30 bp):
CATTTTAACCCTTAAACTTTTCCAAAATTA
Found at i:22490079 original size:61 final size:59
Alignment explanation
Indices: 22489993--22490149 Score: 179
Period size: 61 Copynumber: 2.6 Consensus size: 59
22489983 GTTTTATTTA
* * * * *
22489993 AAAATCTCATTTTGACCCTTAAACTTCTCAAAAATTACATTTTAACCCCTAAAATTTTTCT
1 AAAATCACATTTTGACCC-CAAACTTCTCCAAAATTACATTTTAA-CCCTAAAACTTTTCC
* * * * * *
22490054 AAAATCATATTTTTACCCCTGAACTTTTCCAAAATCACATTTTAACCCTTAAACTTTTCC
1 AAAATCACATTTTGACCCC-AAACTTCTCCAAAATTACATTTTAACCCTAAAACTTTTCC
*
22490114 AAAATTACATTTTGACCCCAAACTTCTCCAAAATTA
1 AAAATCACATTTTGACCCCAAACTTCTCCAAAATTA
22490150 TAATTCTCCC
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
59 14 0.18
60 28 0.36
61 36 0.46
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.37
Consensus pattern (59 bp):
AAAATCACATTTTGACCCCAAACTTCTCCAAAATTACATTTTAACCCTAAAACTTTTCC
Found at i:22498979 original size:49 final size:49
Alignment explanation
Indices: 22498817--22499339 Score: 381
Period size: 49 Copynumber: 10.6 Consensus size: 49
22498807 CAGGTTTGAT
* * ** * *
22498817 AGGG-AAGGATTGAGGCTGCAACGGCCAATTCGGTACCTTAAAAGATGTGA
1 AGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATGTGA
*
22498867 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACC-ATGAAGATGTGA
* **
22498917 TGGGAAAGGTTGAGGCCGCAACGGCGAACCTAGTACCATGAAGA-GATGA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG-TGA
** * ** *
22498966 AGGG-AAGGATTGAGGCCGTGACGGTGAATTCGGTACCTTAGAAGATGTGA
1 AGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATGTGA
* * **
22499016 TA-GGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCACGAAGATGCAA
1 -AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGA
* * ** *
22499065 AGGGAAAGGTTGAGGCCGCAACGGTGAGCCCAATACCTAAGAAGATGTGA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACC-ATGAAGATGTGA
* * ** * * * *
22499115 TGAGAAAGGTTGAGGCCGCAACGGTAAACCCGATACCACGGAGATATGA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGA
* * * ** * * *
22499164 TGGGAAAGGTTAAGGTCGCAACGGTAAACCCGGTACCACGGAGATATGA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGA
* ** * * * **
22499213 AGGGACAGGTTGAGGTTGCAACGACGAACTCGGTACCTTAGAAGATACGA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATGTGA
* *** * * * * *
22499263 TGGG-AAGGATTGAGGTTTCAACGGTGAATCCGATACCATGAAGATATAA
1 AGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGA
* *
22499312 AGGGAAAGGTTGATGCCGCAATGGCGAA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAA
22499340 TCTAATAGAA
Statistics
Matches: 380, Mismatches: 80, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
48 6 0.02
49 182 0.48
50 182 0.48
51 10 0.03
ACGTcount: A:0.33, C:0.18, G:0.33, T:0.16
Consensus pattern (49 bp):
AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGA
Found at i:22499002 original size:99 final size:97
Alignment explanation
Indices: 22498864--22499227 Score: 401
Period size: 99 Copynumber: 3.7 Consensus size: 97
22498854 TTAAAAGATG
*
22498864 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGTTG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGTTG
* * *
22498929 AGGCCGCAACGGCGAACCTAGTACCATGAAGAGA
66 AGGCCGCAACGGCAAACCCAGTACCACG-A-AGA
** ** * *
22498963 TGAAGGG-AAGGATTGAGGCCGTGACGGTGAATTCGGTACCTTAGAAGATGTGATAGGAAAGGTT
1 TGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGTT
*
22499027 GAGGCCGCAACGGCAAACCCGGTACCACGAAGA
65 GAGGCCGCAACGGCAAACCCAGTACCACGAAGA
* ** *
22499060 TGCAAAGGGAAAGGTTGAGGCCGCAACGGTGAGCCCAATACCTAAGAAGATGTGATGAGAAAGGT
1 TG--AAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGT
* *
22499125 TGAGGCCGCAACGGTAAACCC-GATACCACGGAGATA
64 TGAGGCCGCAACGGCAAACCCAG-TACCAC-GA-AGA
* * * * * * * * *
22499161 TGATGGGAAAGGTTAAGGTCGCAACGGTAAACCCGGTACC-ACGGAGATATGAAGGGACAGGTTG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGTTG
22499225 AGG
66 AGG
22499228 TTGCAACGAC
Statistics
Matches: 222, Mismatches: 36, Indels: 15
0.81 0.13 0.05
Matches are distributed among these distances:
97 5 0.02
98 27 0.12
99 180 0.81
100 6 0.03
101 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.35, T:0.15
Consensus pattern (97 bp):
TGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGTTG
AGGCCGCAACGGCAAACCCAGTACCACGAAGA
Found at i:22499200 original size:198 final size:199
Alignment explanation
Indices: 22498813--22499200 Score: 469
Period size: 198 Copynumber: 1.9 Consensus size: 199
22498803 TCTACAGGTT
* * * ** **
22498813 TGATAGGGAAGGATTGAGGCTGCAACGGCCAATTCGGTACCTTAAAAGATGTGAAGGGAAAGGTT
1 TGATAGGAAAGGATTGAGGCCGCAACGGCAAACCCGGTACC-TAAAAGATGCAAAGGGAAAGGTT
** * *
22498878 GAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCG
65 GAGGCCGCAACGGCGAACCCAATACCTAAGAAGATGTGATGAGAAAGGTTGAGGCCGCAACGGCA
* * * ** * **
22498943 AACCTAGTACCATGAAGAGATGAAGGGAAGGATTGAGGCCGTGACGGTGAATTCGGTACCTTAGA
130 AACCGAGTACCACGAAGAGATGAAGGGAAGGATTAAGGCCGCAACGGTAAACCCGGTACCTTAGA
22499008 AGATG
195 AGATG
*
22499013 TGATAGGAAAGG-TTGAGGCCGCAACGGCAAACCCGGTACC-ACGAAGATGCAAAGGGAAAGGTT
1 TGATAGGAAAGGATTGAGGCCGCAACGGCAAACCCGGTACCTA-AAAGATGCAAAGGGAAAGGTT
* * *
22499076 GAGGCCGCAACGGTGAGCCCAATACCTAAGAAGATGTGATGAGAAAGGTTGAGGCCGCAACGGTA
65 GAGGCCGCAACGGCGAACCCAATACCTAAGAAGATGTGATGAGAAAGGTTGAGGCCGCAACGGCA
* * * *
22499141 AACCCGA-TACCACGGAGATATGATGGGAAAGG-TTAAGGTCGCAACGGTAAACCCGGTACC
130 AA-CCGAGTACCACGAAGAGATGAAGGG-AAGGATTAAGGCCGCAACGGTAAACCCGGTACC
22499201 ACGGAGATAT
Statistics
Matches: 158, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
197 1 0.01
198 115 0.73
199 31 0.20
200 11 0.07
ACGTcount: A:0.32, C:0.19, G:0.34, T:0.16
Consensus pattern (199 bp):
TGATAGGAAAGGATTGAGGCCGCAACGGCAAACCCGGTACCTAAAAGATGCAAAGGGAAAGGTTG
AGGCCGCAACGGCGAACCCAATACCTAAGAAGATGTGATGAGAAAGGTTGAGGCCGCAACGGCAA
ACCGAGTACCACGAAGAGATGAAGGGAAGGATTAAGGCCGCAACGGTAAACCCGGTACCTTAGAA
GATG
Found at i:22499286 original size:148 final size:148
Alignment explanation
Indices: 22498858--22499332 Score: 373
Period size: 148 Copynumber: 3.2 Consensus size: 148
22498848 GGTACCTTAA
* * * * * *** *
22498858 AAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGATGGGAA
1 AAGATATGATGGGAAAGGTTAAGGCCGCAACGGCAAACCCGGTACC-ACGAAGATACAAAGGGAA
* * * * * * * * **
22498923 AGGTTGAGGCCGCAACGGCGAACCTAGTACC-ATGAAGAGATGAAG-GGAAGGATTGAGGCCGTG
65 AGGTTGAGGCCGCAACGACGAACCCAATACCTAAGAAGATACGATGAGAAAGG-TTGAGGCCGCA
* ** *
22498986 ACGGTGAATTCGGTACCTTA-G
129 ACGGTAAACCCGATACC--ACG
* * * *
22499007 AAGATGTGATAGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCACGAAGATGCAAAGGGAAA
1 AAGATATGATGGGAAAGGTTAAGGCCGCAACGGCAAACCCGGTACCACGAAGATACAAAGGGAAA
** * **
22499072 GGTTGAGGCCGCAACGGTGAGCCCAATACCTAAGAAGATGTGATGAGAAAGGTTGAGGCCGCAAC
66 GGTTGAGGCCGCAACGACGAACCCAATACCTAAGAAGATACGATGAGAAAGGTTGAGGCCGCAAC
22499137 GGTAAACCCGATACCACG
131 GGTAAACCCGATACCACG
* * * * ** *
22499155 GAGATATGATGGGAAAGGTTAAGGTCGCAACGGTAAACCCGGTACCACGGAGATATGAAGGGACA
1 AAGATATGATGGGAAAGGTTAAGGCCGCAACGGCAAACCCGGTACCACGAAGATACAAAGGGAAA
** * ** * * ***
22499220 GGTTGAGGTTGCAACGACGAACTCGGTACCTTAGAAGATACGATG-GGAAGGATTGAGGTTTCAA
66 GGTTGAGGCCGCAACGACGAACCCAATACCTAAGAAGATACGATGAGAAAGG-TTGAGGCCGCAA
* * *
22499284 CGGTGAATCCGATACCATG
130 CGGTAAACCCGATACCACG
* * * *
22499303 AAGATATAAAGGGAAAGGTTGATGCCGCAA
1 AAGATATGATGGGAAAGGTTAAGGCCGCAA
22499333 TGGCGAATCT
Statistics
Matches: 265, Mismatches: 57, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
147 6 0.02
148 179 0.68
149 75 0.28
150 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.16
Consensus pattern (148 bp):
AAGATATGATGGGAAAGGTTAAGGCCGCAACGGCAAACCCGGTACCACGAAGATACAAAGGGAAA
GGTTGAGGCCGCAACGACGAACCCAATACCTAAGAAGATACGATGAGAAAGGTTGAGGCCGCAAC
GGTAAACCCGATACCACG
Found at i:22499818 original size:17 final size:17
Alignment explanation
Indices: 22499798--22499831 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22499788 TAATAAACAA
*
22499798 ATTTTGAATTTAAATTT
1 ATTTTAAATTTAAATTT
22499815 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
22499832 GAAATGTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:22501574 original size:30 final size:30
Alignment explanation
Indices: 22501538--22501684 Score: 215
Period size: 30 Copynumber: 4.9 Consensus size: 30
22501528 TGACCCTTAA
*
22501538 AACTTTTCCAAAATCACATTTTTACCCCTG
1 AACTTTTCCAAAATCACATTTTAACCCCTG
*
22501568 AACTTTTCCAAAATCACATTTTAACCCCTT
1 AACTTTTCCAAAATCACATTTTAACCCCTG
* * * *
22501598 AACTTCTCAAAAATTACATTTTAACCCCTA
1 AACTTTTCCAAAATCACATTTTAACCCCTG
*
22501628 AACTTTTCCAAAATCACATTTTAACCCTTG
1 AACTTTTCCAAAATCACATTTTAACCCCTG
*
22501658 AACTTTTCCAAAATTACA-TTTAACCCC
1 AACTTTTCCAAAATCACATTTTAACCCC
22501685 AAACTTCTCT
Statistics
Matches: 104, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
29 8 0.08
30 96 0.92
ACGTcount: A:0.35, C:0.29, G:0.01, T:0.35
Consensus pattern (30 bp):
AACTTTTCCAAAATCACATTTTAACCCCTG
Found at i:22501619 original size:60 final size:60
Alignment explanation
Indices: 22501516--22501699 Score: 239
Period size: 60 Copynumber: 3.1 Consensus size: 60
22501506 ATTTTCTTTA
* * * * *
22501516 AAAATCTCATTTTGACCCTTAAAACTTTTCCAAAATCACATTTTTACCCCTGAACTTTTCC
1 AAAATCACATTTTAACCCTT-AAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCC
* *
22501577 AAAATCACATTTTAACCCCTT-AACTTCTCAAAAATTACATTTTAACCCCTAAACTTTTCC
1 AAAATCACATTTTAA-CCCTTAAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCC
* * *
22501637 AAAATCACATTTTAACCCTTGAACTTTTCCAAAATTACA-TTTAACCCC-AAACTTCTCT
1 AAAATCACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCC
22501695 AAAAT
1 AAAAT
22501700 TATGATTCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
58 13 0.12
59 14 0.13
60 65 0.59
61 13 0.12
62 5 0.05
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (60 bp):
AAAATCACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCC
Found at i:22501660 original size:90 final size:89
Alignment explanation
Indices: 22501515--22501701 Score: 270
Period size: 90 Copynumber: 2.1 Consensus size: 89
22501505 TATTTTCTTT
* * *
22501515 AAAAATCT-CATTTTGACCCTTAAAACTTTTCCAAAATCACATTTTTACCCCTGAACTTTTCCAA
1 AAAAAT-TACATTTTAACCCCTAAAACTTTTCCAAAATCACATTTTAACCCCTGAACTTTTCCAA
*
22501579 AATCACATTTTAACCCCTTAACTTCTC
65 AATCACA-TTTAACCCC-AAACTTCTC
*
22501606 AAAAATTACATTTTAACCCCT-AAACTTTTCCAAAATCACATTTTAACCCTTGAACTTTTCCAAA
1 AAAAATTACATTTTAACCCCTAAAACTTTTCCAAAATCACATTTTAACCCCTGAACTTTTCCAAA
*
22501670 ATTACATTTAACCCCAAACTTCTC
66 ATCACATTTAACCCCAAACTTCTC
*
22501694 TAAAATTA
1 AAAAATTA
22501702 TGATTCTCCC
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
88 15 0.17
89 9 0.10
90 47 0.53
91 17 0.19
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (89 bp):
AAAAATTACATTTTAACCCCTAAAACTTTTCCAAAATCACATTTTAACCCCTGAACTTTTCCAAA
ATCACATTTAACCCCAAACTTCTC
Found at i:22501790 original size:29 final size:28
Alignment explanation
Indices: 22501725--22501794 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
22501715 AAATTTTCAA
* * *
22501725 AAAATTACCATTTTGCCCCTGAATATCC
1 AAAATTACCATTTCGCCCCTAAATTTCC
*
22501753 AATAATTACCATTTCGCCCTTAAATTTCC
1 AA-AATTACCATTTCGCCCCTAAATTTCC
22501782 AAAAGTTA-CATTT
1 AAAA-TTACCATTT
22501795 TCAACCTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.25
29 27 0.75
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (28 bp):
AAAATTACCATTTCGCCCCTAAATTTCC
Found at i:22501863 original size:30 final size:29
Alignment explanation
Indices: 22501777--22501863 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
22501767 CGCCCTTAAA
* *
22501777 TTTCCAAAAGTT-ACATTTTCAACCTCAATT
1 TTTCCAAAAGTTCA-ATTTT-AACCCCAAGT
* *
22501807 TTTCCAAAAGTTCGATTTTAATCCCAAGT
1 TTTCCAAAAGTTCAATTTTAACCCCAAGT
* *
22501836 TTTCCAAAAATTTCAATTTTGACCCCAA
1 TTTCC-AAAAGTTCAATTTTAACCCCAA
22501864 ATTCCTCGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
29 12 0.26
30 35 0.74
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (29 bp):
TTTCCAAAAGTTCAATTTTAACCCCAAGT
Found at i:22507652 original size:20 final size:19
Alignment explanation
Indices: 22507629--22507676 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
22507619 AAAAAAATTT
*
22507629 AAAATAATTTTCTGAAATCC
1 AAAATAATTTT-TAAAATCC
*
22507649 AAAATAATTTTTAAAATTC
1 AAAATAATTTTTAAAATCC
22507668 AAAATAATT
1 AAAATAATT
22507677 ATAAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATAATTTTTAAAATCC
Found at i:22507670 original size:19 final size:19
Alignment explanation
Indices: 22507622--22507706 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 19
22507612 AAATTATAAA
*
22507622 AAAATTTAAAATAATTTTCT
1 AAAATTCAAAATAATTTT-T
* *
22507642 GAAATCCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
* *
22507661 AAAATTCAAAATAATTATA
1 AAAATTCAAAATAATTTTT
22507680 AAAATTTCAAAATTTATATTTTT
1 AAAA-TTCAAAA--TA-ATTTTT
22507703 AAAA
1 AAAA
22507707 AAATCTAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
19 20 0.38
20 22 0.42
22 2 0.04
23 8 0.15
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:22507690 original size:20 final size:19
Alignment explanation
Indices: 22507643--22507692 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
22507633 TAATTTTCTG
* * *
22507643 AAATCCAAAATAATTTTTA
1 AAATTCAAAATAATTATAA
22507662 AAATTCAAAATAATTATAA
1 AAATTCAAAATAATTATAA
22507681 AAATTTCAAAAT
1 AAA-TTCAAAAT
22507693 TTATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTCAAAATAATTATAA
Found at i:22510110 original size:19 final size:20
Alignment explanation
Indices: 22510086--22510127 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
22510076 CCAATATGAA
22510086 TTTTTATATAT-TTTTTTAG
1 TTTTTATATATATTTTTTAG
22510105 TTTTTATATATATTTTTTAG
1 TTTTTATATATATTTTTTAG
22510125 TTT
1 TTT
22510128 CTATTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTTATATATATTTTTTAG
Found at i:22510116 original size:21 final size:19
Alignment explanation
Indices: 22510086--22510127 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 19
22510076 CCAATATGAA
22510086 TTTTTATATATTTTTTTAGT
1 TTTTTATATA-TTTTTTAGT
22510106 TTTTATATATATTTTTTAGT
1 TTTT-TATATATTTTTTAGT
22510126 TT
1 TT
22510128 CTATTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTATATATTTTTTAGT
Found at i:22510815 original size:16 final size:15
Alignment explanation
Indices: 22510786--22510817 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22510776 CTCAACAATG
22510786 TGTAAAATAAATTTT
1 TGTAAAATAAATTTT
*
22510801 TGTAAAATAAAATTT
1 TGTAAAATAAATTTT
22510816 TG
1 TG
22510818 AACCCTGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (15 bp):
TGTAAAATAAATTTT
Found at i:22511240 original size:17 final size:18
Alignment explanation
Indices: 22511218--22511268 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 18
22511208 TTATAGATAT
22511218 AAATAAATACAAATAA-A
1 AAATAAATACAAATAATA
22511235 AAATAAAT--AAATAATA
1 AAATAAATACAAATAATA
*
22511251 AAATTAA-ACAAAT-ATA
1 AAATAAATACAAATAATA
22511267 AA
1 AA
22511269 CTCATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.20
16 12 0.40
17 12 0.40
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (18 bp):
AAATAAATACAAATAATA
Found at i:22512235 original size:30 final size:30
Alignment explanation
Indices: 22512201--22512303 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
22512191 TTAACTCTTA
*
22512201 AACTTTCCAAAAATTTAAATTTGACCCCCG
1 AACTTTCCAAAAATTTAAATTTGACCCCTG
* * *
22512231 AACTTTCCAAAATTTTGAATTTGACCCCTA
1 AACTTTCCAAAAATTTAAATTTGACCCCTG
** *
22512261 AACTTTCCAAAAATTCCAATTTGACCCTTG
1 AACTTTCCAAAAATTTAAATTTGACCCCTG
*
22512291 AACCTTCCAAAAA
1 AACTTTCCAAAAA
22512304 AATTCAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (30 bp):
AACTTTCCAAAAATTTAAATTTGACCCCTG
Found at i:22512507 original size:25 final size:24
Alignment explanation
Indices: 22512458--22512514 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
22512448 CGTTTGTTTC
* *
22512458 TTTATTTACTCATTTATTCGGTTA
1 TTTATTTACTCATTTATTAGCTTA
*
22512482 TTTATTTACTCAATTTATTATCTTA
1 TTTATTTACTC-ATTTATTAGCTTA
22512507 TTGTATTT
1 TT-TATTT
22512515 TATGTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.39
25 12 0.43
26 5 0.18
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (24 bp):
TTTATTTACTCATTTATTAGCTTA
Found at i:22514622 original size:29 final size:29
Alignment explanation
Indices: 22514584--22514844 Score: 194
Period size: 29 Copynumber: 8.9 Consensus size: 29
22514574 TATTTCGAAC
* *
22514584 TTTTTAGATGTTTAGGGGTCAAAATCAAA
1 TTTTTGGAAGTTTAGGGGTCAAAATCAAA
*
22514613 TTTTTGGATGTTTAGGGGTCAAAATCAAA
1 TTTTTGGAAGTTTAGGGGTCAAAATCAAA
* *
22514642 TTTTTGGACG-TTCGGGGATCAAAATCAAA
1 TTTTTGGAAGTTTAGGGG-TCAAAATCAAA
*
22514671 TTTTT--AAGGCTTTTAGGGGTTAAAA-CTAAA
1 TTTTTGGAA-G--TTTAGGGGTCAAAATC-AAA
* * * **
22514701 -TTTTGAAAAGTTT-GAGGGTTAAATTTGAA
1 TTTTTG-GAAGTTTAG-GGGTCAAAATCAAA
* * * * *
22514730 TTTTTAGAGAGTCTAAGGGTTAAATTCAAA
1 TTTTTGGA-AGTTTAGGGGTCAAAATCAAA
22514760 TTTTTGGAAAGTTTAGGGGTC-AAATCTAAA
1 TTTTTGG-AAGTTTAGGGGTCAAAATC-AAA
* * *
22514790 TTTTAGAAAGTTTAGGGGTCAAATTCAAA
1 TTTTTGGAAGTTTAGGGGTCAAAATCAAA
*
22514819 TTTTTGGAAAGTTTAAGGGTCAAAAT
1 TTTTTGG-AAGTTTAGGGGTCAAAAT
22514845 GTGATTTTTG
Statistics
Matches: 187, Mismatches: 27, Indels: 35
0.75 0.11 0.14
Matches are distributed among these distances:
27 1 0.01
28 8 0.04
29 97 0.52
30 71 0.38
31 8 0.04
32 2 0.01
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (29 bp):
TTTTTGGAAGTTTAGGGGTCAAAATCAAA
Found at i:22514852 original size:59 final size:59
Alignment explanation
Indices: 22514701--22514842 Score: 185
Period size: 59 Copynumber: 2.4 Consensus size: 59
22514691 TAAAACTAAA
* * * * * * *
22514701 TTTTGAAAAGTTTGAGGGTTAAATTTGAATTTTTAGAGAGTCTAAGGGTTAAATTCAAAT
1 TTTTGGAAAGTTTAAGGGTCAAATCT-AAATTTTAGAAAGTCTAAGGGTCAAATTCAAAT
* * *
22514761 TTTTGGAAAGTTTAGGGGTCAAATCTAAATTTTAGAAAGTTTAGGGGTCAAATTCAAAT
1 TTTTGGAAAGTTTAAGGGTCAAATCTAAATTTTAGAAAGTCTAAGGGTCAAATTCAAAT
22514820 TTTTGGAAAGTTTAAGGGTCAAA
1 TTTTGGAAAGTTTAAGGGTCAAA
22514843 ATGTGATTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 50 0.70
60 21 0.30
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (59 bp):
TTTTGGAAAGTTTAAGGGTCAAATCTAAATTTTAGAAAGTCTAAGGGTCAAATTCAAAT
Found at i:22516840 original size:47 final size:43
Alignment explanation
Indices: 22516786--22516883 Score: 115
Period size: 46 Copynumber: 2.2 Consensus size: 43
22516776 TGAGATGGTA
**
22516786 GCTTCAATATGCCCCTATTGATTTTAGCGGTAAAAGATTGGATAGTG
1 GCTTCAATATGCCCCTATT-AACTTAGCGGTAAAAGATTGG---GTG
* * *
22516833 GCTTCAATTTGCCCCTCTTAACTTAGGGGTAAAAGATTGGGTG
1 GCTTCAATATGCCCCTATTAACTTAGCGGTAAAAGATTGGGTG
22516876 GCTTCAAT
1 GCTTCAAT
22516884 CTACCCCATG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 11 0.24
46 18 0.39
47 17 0.37
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (43 bp):
GCTTCAATATGCCCCTATTAACTTAGCGGTAAAAGATTGGGTG
Found at i:22516936 original size:42 final size:42
Alignment explanation
Indices: 22516877--22517362 Score: 392
Period size: 42 Copynumber: 11.8 Consensus size: 42
22516867 GATTGGGTGG
* * *
22516877 CTTCAATCTACCCCATGATTGAGGTAAAAGTTTGGATGATGT
1 CTTCAATCTGCCCCATGATTGAGGTAAGAGATTGGATGATGT
* * *
22516919 CTTCAAGCTGCCTCATGA-TCAGGGTAAGAGATTGGATG--G-
1 CTTCAATCTGCCCCATGATTGA-GGTAAGAGATTGGATGATGT
* * *
22516958 CTTCAATTTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATTGAGGTAAGAGATTGGATGATGT
* * * *
22517000 CTTTAATCTGCCCTATGATCGGGGTAAGAGATTGGATG--G-
1 CTTCAATCTGCCCCATGATTGAGGTAAGAGATTGGATGATGT
* ** * * *
22517039 CTTTAATCTGCCTTATGA-TCAGGGTAATAGATTGGATGGTAG-
1 CTTCAATCTGCCCCATGATTGA-GGTAAGAGATTGGATGAT-GT
* * ** * *
22517081 CTTCAATCTGCCTCATTA-ACAGGGTAAAAGATTAGATGATGT
1 CTTCAATCTGCCCCATGATTGA-GGTAAGAGATTGGATGATGT
* *
22517123 CTTCAATCTGCCGCATGATT-AGGGTAAGAGATT-GA--ATGA
1 CTTCAATCTGCCCCATGATTGA-GGTAAGAGATTGGATGATGT
* * *
22517162 CTTCAATTTGCCCCATGA-TCAGGGTAAGAGATTAGATGATGT
1 CTTCAATCTGCCCCATGATTGA-GGTAAGAGATTGGATGATGT
* * * *
22517204 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTAT
1 CTTCAATCTGCCCCATGATTGAGGTAAGAGATTGGATGATGT
* * * *
22517246 TTTCAATTTACCCCATGA-TAAGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATTGAGGTAAGAGATTGGATGATGT
* * * * *
22517287 GTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTGT
1 CTTCAATCTGCCCCATGATTGAGGTAAGAGATTGGATGATGT
* * *
22517329 CTTCAATCTGCCCTATGATCGGGGTAAGAGATTG
1 CTTCAATCTGCCCCATGATTGAGGTAAGAGATTG
22517363 TAGCTTCGCT
Statistics
Matches: 366, Mismatches: 61, Indels: 34
0.79 0.13 0.07
Matches are distributed among these distances:
38 1 0.00
39 95 0.26
40 4 0.01
41 39 0.11
42 227 0.62
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
CTTCAATCTGCCCCATGATTGAGGTAAGAGATTGGATGATGT
Found at i:22516961 original size:81 final size:80
Alignment explanation
Indices: 22516859--22517362 Score: 464
Period size: 81 Copynumber: 6.2 Consensus size: 80
22516849 CTTAACTTAG
* * * * * *
22516859 GGGTAAAAGATTGGGTGGCTTCAATCTACCCCATGATTGAGGTAAAAGTTTGGATGATGTCTTCA
1 GGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATGTCTTCA
*
22516924 AGCTGCCTCATGATCA
66 ATCTGCC-CATGATCA
* * *
22516940 GGGTAAGAGATTGGATGGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTTA
1 GGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATGTCTTCA
*
22517005 ATCTGCCCTATGATCG
66 ATCTGCCC-ATGATCA
* ** * *
22517021 GGGTAAGAGATTGGATGGCTTTAATCTGCCTTATGATC-AGGGTAATAGATTGGATGGTAG-CTT
1 GGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGATCGA-GGTAAGAGATTGGATGAT-GTCTT
* *
22517084 CAATCTGCCTCATTAACA
64 CAATCTGCC-CATGATCA
* * * * *
22517102 GGGTAAAAGATTAGATGATGTCTTCAATCTGCCGCATGAT-TAGGGTAAGAGATT-GA--ATGAC
1 GGGTAAGAGATT-G--GATGGCTTCAATCTGCCCCATGATCGA-GGTAAGAGATTGGATGATGTC
*
22517163 TTCAATTTGCCCCATGATCA
62 TTCAATCTG-CCCATGATCA
* * * * *
22517183 GGGTAAGAGATTAGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTATTT
1 GGGTAAGAGATT-G--GATGGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATGTCT
* *
22517248 TCAATTTACCCCATGAT-A
63 TCAATCT-GCCCATGATCA
* * * * *
22517266 AGGTAAGAGATTGGATGATGTGTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTGTCT
1 GGGTAAGAGATTGGATG--G-CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATGTCT
*
22517331 TCAATCTGCCCTATGATCG
63 TCAATCTGCCC-ATGATCA
22517350 GGGTAAGAGATTG
1 GGGTAAGAGATTG
22517363 TAGCTTCGCT
Statistics
Matches: 352, Mismatches: 51, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
80 6 0.02
81 209 0.59
82 11 0.03
83 65 0.18
84 61 0.17
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (80 bp):
GGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATGTCTTCA
ATCTGCCCATGATCA
Found at i:22517037 original size:123 final size:125
Alignment explanation
Indices: 22516881--22517362 Score: 534
Period size: 123 Copynumber: 3.9 Consensus size: 125
22516871 GGGTGGCTTC
* * * * *
22516881 AATCTACCCCATGATTGAGGTAAAAGTTTGGATGATGTCTTCAAGCTGCCTCATGATCAGGGTAA
1 AATCTACCCCATGATTAAGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCAGGGTAA
*
22516946 GAGATTGGAT-G-GCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
66 GAGATTGGATGGTGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
* * *** * **
22517004 AATCTGCCCTATGATCGGGGTAAGAGATTGGATG--G-CTTTAATCTGCCTTATGATCAGGGTAA
1 AATCTACCCCATGATTAAGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCAGGGTAA
* * * * * * * *
22517066 TAGATTGGATGGTAGCTTCAATCTGCCTCATTAACAGGGTAAAAGATTAGATGATGTCTTC
66 GAGATTGGATGGT-GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
* * * * *
22517127 AATCTGCCGCATGATTAGGGTAAGAGATT-GA--ATGACTTCAATTTGCCCCATGATCAGGGTAA
1 AATCTACCCCATGATTAAGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCAGGGTAA
* * * *
22517189 GAGATTAGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTAT-TTT
66 GAGATTGGATGGTG-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
* * *
22517249 CAATTTACCCCATGA-TAAGGTAAGAGATTGGATGATGTGTTCAATCTGCCCCATGATCGGGGTA
1 -AATCTACCCCATGATTAAGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCAGGGTA
* *
22517313 AAAGATTGGATGGTGTCTTCAATCTGCCCTATGATCGGGGTAAGAGATTG
65 AGAGATTGGATGGTG-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
22517363 TAGCTTCGCT
Statistics
Matches: 298, Mismatches: 50, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
120 33 0.11
121 2 0.01
122 19 0.06
123 172 0.58
125 72 0.24
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (125 bp):
AATCTACCCCATGATTAAGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCAGGGTAA
GAGATTGGATGGTGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
Found at i:22517835 original size:49 final size:49
Alignment explanation
Indices: 22517607--22518239 Score: 152
Period size: 49 Copynumber: 12.6 Consensus size: 49
22517597 ACCATTGTGG
* * ** * *
22517607 CCTCAATATTTCCCTTCATATC-TCTAAGGTA-TAAGGTTCACCGTTGTGG
1 CCTCAACATTTCCCTTCATATCTTC-ATGGTACT-AGGTTTGCCGTTGCGA
* * * * * * *
22517656 CTTCAACATTTCCCTCCATATCTCCATGGTACAAGATTTTCCATTGCGA
1 CCTCAACATTTCCCTTCATATCTTCATGGTACTAGGTTTGCCGTTGCGA
* * * * * * * *
22517705 CTTTAATC-TTTCCCATTTATATTTTCATGGTACTAGATTCGTCGTTGCGG
1 CCTCAA-CATTTCCC-TTCATATCTTCATGGTACTAGGTTTGCCGTTGCGA
* * * * ** * *
22517755 CTTCGATATTTCCCATCACGTCTTTAAGGTACTAGGTTTGCCGTTGCGA
1 CCTCAACATTTCCCTTCATATCTTCATGGTACTAGGTTTGCCGTTGCGA
* * ** * *
22517804 CCTCAACATTTCCCTTCATATCTTCATGGTACTAGATTAGCTATTGTGG
1 CCTCAACATTTCCCTTCATATCTTCATGGTACTAGGTTTGCCGTTGCGA
* * * ** * *
22517853 CCTCAATC-TTT-CCTATCACATCTTTTAAGGTA-TAGGGTTCACCGTTACGG
1 CCTCAA-CATTTCCCT-TCATATC-TTCATGGTACTA-GGTTTGCCGTTGCGA
* * * * *
22517903 CCTCAACCTTTCCCTTTATATCTTCATGGTAC-CGGATTCGCCGTTGCAA
1 CCTCAACATTTCCCTTCATATCTTCATGGTACTAGG-TTTGCCGTTGCGA
* * * * *
22517952 CCTCAATCCTACCAATCCTACCCATCACATCTTCTAAGGTAC-AGGGTTTGCCGTTGCGG
1 CCTC-A----A-C-AT--TTCCCTTCATATCTTC-ATGGTACTA-GGTTTGCCGTTGCGA
* * * ** **
22518011 CCTCAACCTTTCCCTTCATATCTTCATGATA-TCGAATT-CATCGTTGTAA
1 CCTCAACATTTCCCTTCATATCTTCATGGTACTAGGTTTGC--CGTTGCGA
* * * * * *
22518060 CCTCAATC-CTTCTCATCACATCTTCTAAGGTAC-AGGGTTTGCTGTTGC-A
1 CCTCAA-CATTTCCCTTCATATCTTC-ATGGTACTA-GGTTTGCCGTTGCGA
* * * * **
22518109 GCCTCAACCTTTCCCTTCATATCTTCATGGTAC-CGAATTCGTTGTTGCTG-
1 -CCTCAACATTTCCCTTCATATCTTCATGGTACTAG-GTTTGCCGTTGC-GA
* * *
22518159 CCTCAATC-TTT-CCTATCATATATTCTAAGGTAC-AGGGTTTGCCGTTG-TA
1 CCTCAA-CATTTCCCT-TCATATCTTC-ATGGTACTA-GGTTTGCCGTTGCGA
* *
22518208 GCCTCAACCTTTCCCTTCATATCTTTATGGTA
1 -CCTCAACATTTCCCTTCATATCTTCATGGTA
22518240 TCTGATTCGC
Statistics
Matches: 416, Mismatches: 123, Indels: 90
0.66 0.20 0.14
Matches are distributed among these distances:
47 1 0.00
48 12 0.03
49 211 0.51
50 140 0.34
51 10 0.02
52 2 0.00
53 1 0.00
54 2 0.00
55 1 0.00
56 1 0.00
58 13 0.03
59 20 0.05
60 2 0.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (49 bp):
CCTCAACATTTCCCTTCATATCTTCATGGTACTAGGTTTGCCGTTGCGA
Found at i:22517915 original size:99 final size:99
Alignment explanation
Indices: 22517712--22518319 Score: 559
Period size: 99 Copynumber: 6.0 Consensus size: 99
22517702 CGACTTTAAT
* * * * * * * *
22517712 CTTTCCCATTTATATTTTCATGGTACTAGATTCG-TCGTTGCGGCTTCGATATTTCCCATCACGT
1 CTTTCCC-TTCATATCTTCATGGTACTAGATTCGCT-GTTGCAGCCTCAATCTTTCCTATCACAT
*
22517776 CTT-TAAGGTACTA-GGTTTGCCGTTGCGACCTCAAC
64 CTTCTAAGGTAC-AGGGTTTGCCGTTGCGGCCTCAAC
* * * **
22517811 ATTTCCCTTCATATCTTCATGGTACTAGATTAGCTATTGTGGCCTCAATCTTTCCTATCACATCT
1 CTTTCCCTTCATATCTTCATGGTACTAGATTCGCTGTTGCAGCCTCAATCTTTCCTATCACATCT
* * ** *
22517876 TTTAAGGTATAGGGTTCACCGTTACGGCCTCAAC
66 TCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAAC
* ** * * *
22517910 CTTTCCCTTTATATCTTCATGGTACCGGATTCGCCGTTGCAACCTCAATCCTACCAATCCTACCC
1 CTTTCCCTTCATATCTTCATGGTACTAGATTCGCTGTTGCAGCCTCAAT-CT-----T--T-CCT
22517975 ATCACATCTTCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAAC
57 ATCACATCTTCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAAC
* * * * * *
22518018 CTTTCCCTTCATATCTTCATGATA-TCGAATTC-ATCGTTGTAACCTCAATCCTT-CTCATCACA
1 CTTTCCCTTCATATCTTCATGGTACTAG-ATTCGCT-GTTGCAGCCTCAATCTTTCCT-ATCACA
* *
22518080 TCTTCTAAGGTACAGGGTTTGCTGTTGCAGCCTCAAC
63 TCTTCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAAC
* * * * *
22518117 CTTTCCCTTCATATCTTCATGGTAC-CGAATTCGTTGTTGCTGCCTCAATCTTTCCTATCATATA
1 CTTTCCCTTCATATCTTCATGGTACTAG-ATTCGCTGTTGCAGCCTCAATCTTTCCTATCACATC
**
22518181 TTCTAAGGTACAGGGTTTGCCGTTGTAGCCTCAAC
65 TTCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAAC
* *
22518216 CTTTCCCTTCATATCTTTATGGTATCT-GATTCGCTGTTGCAGCCTCAATCCTT-CTCATCACAT
1 CTTTCCCTTCATATCTTCATGGTA-CTAGATTCGCTGTTGCAGCCTCAATCTTTCCT-ATCACAT
* * ** *
22518279 CTTCTAAGTTACAAGGTTCACCGTTGCGACCTCAATC
64 CTTCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAA-C
22518316 CTTT
1 CTTT
22518320 TCATCACATC
Statistics
Matches: 421, Mismatches: 66, Indels: 43
0.79 0.12 0.08
Matches are distributed among these distances:
98 51 0.12
99 273 0.65
100 13 0.03
102 1 0.00
105 1 0.00
107 3 0.01
108 79 0.19
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (99 bp):
CTTTCCCTTCATATCTTCATGGTACTAGATTCGCTGTTGCAGCCTCAATCTTTCCTATCACATCT
TCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAAC
Found at i:22518025 original size:207 final size:197
Alignment explanation
Indices: 22517763--22518319 Score: 629
Period size: 207 Copynumber: 2.8 Consensus size: 197
22517753 GGCTTCGATA
* * *
22517763 TTTCCCATCACGTCTT-TAAGGTACTA-GGTTTGCCGTTGCGACCTCAACATTTCCCTTCATATC
1 TTTCCCATCACATCTTCTAAGGTAC-AGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATATC
* * * * *
22517826 TTCATGGTACTAGATTAGCTATTGTGGCCTCAATCTTTC-CTATCACATCTTTTAAGGTATAGGG
65 TTCATGGTACT-GATTAGCTGTTGTAGCCTCAATCCTTCTC-ATCACATCTTCTAAGGTACAGGG
* * *
22517890 TTCACCGTTACGGCCTCAACCTTTCCCTTTATATCTTCATGGTACCGGATTCGCCGTTGCAACCT
128 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGAATTCGCCGTTGCAACCT
22517955 CAATCC
193 CAAT-C
22517961 TACCAATCCTACCCATCACATCTTCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAACCTTTCCCT
1 T-----T--T-CCCATCACATCTTCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAACCTTTCCCT
* * *
22518026 TCATATCTTCATGATA-TCGAATTCATC-GTTGTAACCTCAATCCTTCTCATCACATCTTCTAAG
58 TCATATCTTCATGGTACT-G-ATT-AGCTGTTGTAGCCTCAATCCTTCTCATCACATCTTCTAAG
** * * **
22518089 GTACAGGGTTTGCTGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGAATTCGTTGT
120 GTACAGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGAATTCGCCGT
**
22518154 TGCTGCCTCAATC
185 TGCAACCTCAATC
* * * **
22518167 TTTCCTATCATATATTCTAAGGTACAGGGTTTGCCGTTGTAGCCTCAACCTTTCCCTTCATATCT
1 TTTCCCATCACATCTTCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT
* * * * *
22518232 TTATGGTATCTGATTCGCTGTTGCAGCCTCAATCCTTCTCATCACATCTTCTAAGTTACAAGGTT
66 TCATGGTA-CTGATTAGCTGTTGTAGCCTCAATCCTTCTCATCACATCTTCTAAGGTACAGGGTT
*
22518297 CACCGTTGCGACCTCAATCCTTT
130 CACCGTTGCGGCCTCAA-CCTTT
22518320 TCATCACATC
Statistics
Matches: 301, Mismatches: 41, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
197 1 0.00
198 121 0.40
199 7 0.02
200 1 0.00
201 1 0.00
203 1 0.00
205 1 0.00
206 17 0.06
207 148 0.49
208 3 0.01
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (197 bp):
TTTCCCATCACATCTTCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT
TCATGGTACTGATTAGCTGTTGTAGCCTCAATCCTTCTCATCACATCTTCTAAGGTACAGGGTTC
ACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGAATTCGCCGTTGCAACCTCAA
TC
Found at i:22518212 original size:50 final size:50
Alignment explanation
Indices: 22517975--22518370 Score: 262
Period size: 50 Copynumber: 8.0 Consensus size: 50
22517965 AATCCTACCC
* * *
22517975 ATCACATCTTCTAAGGTACAGGGTTTGCCGTTGCGGCCTCAACCTTTCCCT
1 ATCATATCTTCTAAGGTACAGGGTTCGCCGTTGCAGCCTCAACCTTT-CCT
* * ** ** * *
22518026 -TCATATCTTC-ATGATATC-GAATTCATCGTTGTAACCTCAATCC-TT-CT
1 ATCATATCTTCTAAGGTA-CAGGGTTCGCCGTTGCAGCCTCAA-CCTTTCCT
* * *
22518073 CATCACATCTTCTAAGGTACAGGGTTTGCTGTTGCAGCCTCAACCTTTCCCT
1 -ATCATATCTTCTAAGGTACAGGGTTCGCCGTTGCAGCCTCAACCTTT-CCT
* * ** ** * *
22518125 -TCATATCTTC-ATGGTACCGAATTCGTTGTTGCTGCCTCAATCTTTCCT
1 ATCATATCTTCTAAGGTACAGGGTTCGCCGTTGCAGCCTCAACCTTTCCT
* * *
22518173 ATCATATATTCTAAGGTACAGGGTTTGCCGTTGTAGCCTCAACCTTTCCCT
1 ATCATATCTTCTAAGGTACAGGGTTCGCCGTTGCAGCCTCAACCTTT-CCT
* * * *
22518224 -TCATATCTT-TATGGTATC-TGATTCGCTGTTGCAGCCTCAATCC-TT-CT
1 ATCATATCTTCTAAGGTA-CAGGGTTCGCCGTTGCAGCCTCAA-CCTTTCCT
* * * * *
22518271 CATCACATCTTCTAAGTTACAAGGTTCACCGTTGC-GACCTCAATCCTTTTC-
1 -ATCATATCTTCTAAGGTACAGGGTTCGCCGTTGCAG-CCTCAA-CCTTTCCT
* * *
22518322 ATCACATCTTCTAAGGTATAGGGTTCACCGTTGCAGCCTCAACCTTTCC
1 ATCATATCTTCTAAGGTACAGGGTTCGCCGTTGCAGCCTCAACCTTTCC
22518371 CTTTATTTCC
Statistics
Matches: 263, Mismatches: 60, Indels: 46
0.71 0.16 0.12
Matches are distributed among these distances:
47 4 0.02
48 3 0.01
49 109 0.41
50 138 0.52
51 6 0.02
52 3 0.01
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (50 bp):
ATCATATCTTCTAAGGTACAGGGTTCGCCGTTGCAGCCTCAACCTTTCCT
Found at i:22519114 original size:112 final size:112
Alignment explanation
Indices: 22518916--22519127 Score: 325
Period size: 112 Copynumber: 1.9 Consensus size: 112
22518906 TATCGTTAGA
* *
22518916 CCACTAACCATCATTTCAATTCAAAAATGCTTGAACAGGGCTGTAAGGTGGATAAAATTGAATTT
1 CCACTAACCATCATTTCAATGCAAAAATGCTTGAACAAGGCTGTAAGGTGGATAAAATTGAATTT
* *
22518981 TATTGGAGACAAAGCTCGTATGAATGAAAAGATTACAAATCATTGGT
66 TATTAGAGACAAAGCTCGTATGAATGAAAACATTACAAATCATTGGT
* * * * *
22519028 CCACTAACCATTATTTCGATGCAAAAATGTTTGAACAAGGTTGTAAGGTGGATGAAATTGAATTT
1 CCACTAACCATCATTTCAATGCAAAAATGCTTGAACAAGGCTGTAAGGTGGATAAAATTGAATTT
* *
22519093 TATTAGAGGCAAAGCTTGTATGAATGAAAACATTA
66 TATTAGAGACAAAGCTCGTATGAATGAAAACATTA
22519128 AAAAATGACA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 89 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (112 bp):
CCACTAACCATCATTTCAATGCAAAAATGCTTGAACAAGGCTGTAAGGTGGATAAAATTGAATTT
TATTAGAGACAAAGCTCGTATGAATGAAAACATTACAAATCATTGGT
Found at i:22519454 original size:10 final size:10
Alignment explanation
Indices: 22519439--22519477 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
22519429 GACCTCTCCT
22519439 TTTCTTTTTC
1 TTTCTTTTTC
22519449 TTTCTTTTTC
1 TTTCTTTTTC
22519459 TTTCTTTTT-
1 TTTCTTTTTC
22519468 TCTTCTTTTT
1 T-TTCTTTTT
22519478 TTGGGTGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 1 0.04
10 27 0.96
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:22519464 original size:14 final size:14
Alignment explanation
Indices: 22519438--22519479 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
22519428 CGACCTCTCC
22519438 TTTTCTT-TTTCTT
1 TTTTCTTCTTTCTT
22519451 TCTTT-TTCTTTCTT
1 T-TTTCTTCTTTCTT
22519465 TTTTCTTCTTT-TT
1 TTTTCTTCTTTCTT
22519478 TT
1 TT
22519480 GGGTGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTCTTTCTT
Found at i:22520356 original size:16 final size:17
Alignment explanation
Indices: 22520337--22520375 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
22520327 TGACTTTCTT
22520337 TTTTCTTCCTT-TTTTC
1 TTTTCTTCCTTCTTTTC
22520353 TTTTC-TCCTTCTTTTC
1 TTTTCTTCCTTCTTTTC
22520369 TTTTCTT
1 TTTTCTT
22520376 TTTCCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 15 0.71
17 1 0.05
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCTTCCTTCTTTTC
Found at i:22521288 original size:16 final size:15
Alignment explanation
Indices: 22521269--22521326 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
22521259 TGACTTTCTT
22521269 TTTTCTTCCTTTTTTC
1 TTTTCTT-CTTTTTTC
*
22521285 TTTTCTTCTTCTTTCC
1 TTTTCTTCTT-TTTTC
*
22521301 TTTTTTTC-TTTTTC
1 TTTTCTTCTTTTTTC
22521315 TTTT-TT-TTTTTT
1 TTTTCTTCTTTTTT
22521327 TTAAAAAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 7 0.19
14 8 0.22
15 4 0.11
16 18 0.49
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCTTCTTTTTTC
Found at i:22521289 original size:35 final size:30
Alignment explanation
Indices: 22521250--22521318 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 30
22521240 CCTTTGCGGG
*
22521250 TTTTCATCTTGACTTTCTTTTTTCTTCCTTTTTTC
1 TTTTCATCTT--CTTTCCTTTTT-TT-C-TTTTTC
*
22521285 TTTTCTTCTTCTTTCCTTTTTTTCTTTTTC
1 TTTTCATCTTCTTTCCTTTTTTTCTTTTTC
22521315 TTTT
1 TTTT
22521319 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 10 0.31
31 1 0.03
32 2 0.06
33 10 0.31
35 9 0.28
ACGTcount: A:0.03, C:0.22, G:0.01, T:0.74
Consensus pattern (30 bp):
TTTTCATCTTCTTTCCTTTTTTTCTTTTTC
Found at i:22521295 original size:19 final size:17
Alignment explanation
Indices: 22521262--22521324 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 17
22521252 TTCATCTTGA
*
22521262 CTTTCTTTTTTCTTC--
1 CTTTTTTTTTTCTTCTT
22521277 CTTTTTTCTTTTCTTCTT
1 CTTTTTT-TTTTCTTCTT
*
22521295 CTTTCCTTTTTTTCTTTTT
1 CTTT--TTTTTTTCTTCTT
22521314 CTTTTTTTTTT
1 CTTTTTTTTTT
22521325 TTTTAAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 6 0.15
16 8 0.20
17 7 0.17
18 4 0.10
19 13 0.32
20 3 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTTTTTTTCTTCTT
Found at i:22521323 original size:11 final size:11
Alignment explanation
Indices: 22521262--22521328 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
22521252 TTCATCTTGA
*
22521262 CTTTCTTTTTT
1 CTTTTTTTTTT
**
22521273 CTTCCTTTTTT
1 CTTTTTTTTTT
* *
22521284 CTTTTCTTCTT
1 CTTTTTTTTTT
22521295 CTTTCCTTTTTTT
1 CTTT--TTTTTTT
*
22521308 CTTTTTCTTTT
1 CTTTTTTTTTT
22521319 -TTTTTTTTTT
1 CTTTTTTTTTT
22521329 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
10 9 0.20
11 27 0.60
13 9 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:22521327 original size:23 final size:22
Alignment explanation
Indices: 22521263--22521328 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
22521253 TCATCTTGAC
*
22521263 TTTCTTTTTTCTTCCTTTTTTCT
1 TTTCTTTTTT-TTCTTTTTTTCT
*
22521286 TTTCTTCTTCTTTCCTTTTTTTCTT
1 TTTCTT-TT-TTTTCTTTTTTTC-T
22521311 TTTCTTTTTTTT-TTTTTT
1 TTTCTTTTTTTTCTTTTTT
22521329 AAAAAGATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.16
23 9 0.24
24 13 0.35
25 9 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTCTTTTTTTTCTTTTTTTCT
Found at i:22525202 original size:103 final size:104
Alignment explanation
Indices: 22525084--22525296 Score: 232
Period size: 103 Copynumber: 2.1 Consensus size: 104
22525074 AACACTAATA
* * ** * * *
22525084 GATTTTAAAATAGGATGTTCAATTACTTAGGTTCGGAGAAAAATCATACCCAATACGTTTGAGCA
1 GATTTTAAAATAGGATATTCAATTACTTAGGTACAAAGAAAAACCATACCCAATACATTAGAGCA
* * * *
22525149 TAATTTCTTGAGTTCCTTAA-AT-AAAGAAACATTTCCTC
66 CAATTTCTTGAATTCCCTAAGATAAAAG-AACATTGCCTC
* ** * * * *
22525187 GATTTTTAAATAGGATATTTTATTATTTAGGTACAAAGAAAAACCATACCTAGTACATTAGGGCA
1 GATTTTAAAATAGGATATTCAATTACTTAGGTACAAAGAAAAACCATACCCAATACATTAGAGCA
*
22525252 CAGTTTCTTGAATTCCCTAAGATAAAAGAACATTGCCTC
66 CAATTTCTTGAATTCCCTAAGATAAAAGAACATTGCCTC
22525291 GATTTT
1 GATTTT
22525297 GAGAATTATT
Statistics
Matches: 89, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
103 67 0.75
104 18 0.20
105 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (104 bp):
GATTTTAAAATAGGATATTCAATTACTTAGGTACAAAGAAAAACCATACCCAATACATTAGAGCA
CAATTTCTTGAATTCCCTAAGATAAAAGAACATTGCCTC
Found at i:22525754 original size:30 final size:29
Alignment explanation
Indices: 22525659--22525867 Score: 143
Period size: 29 Copynumber: 7.1 Consensus size: 29
22525649 TTTTAGGGCT
* * *
22525659 TTCAAGGGTCAAACCTAAATTTTGGAAAG
1 TTCAAGGGTCAAATCTAATTTTTAGAAAG
* * *
22525688 TTCAAAGATCAAATCTAAATTTTT-GGAAG
1 TTCAAGGGTCAAATCT-AATTTTTAGAAAG
22525717 TTCAAGGGTCAAATCTAATTTTTTAGAAAG
1 TTCAAGGGTCAAATCTAA-TTTTTAGAAAG
* * * * *
22525747 TTTAAGGGTTAAAATGTGATTTTTACAAAG
1 TTCAAGGG-TCAAATCTAATTTTTAGAAAG
* * *
22525777 TT-TAGGGTTAAAATGTAATTTTTAGAAAG
1 TTCAAGGG-TCAAATCTAATTTTTAGAAAG
* * * *
22525806 TTCGAGGGTTAAATTTAAATTTTAAGAAAG
1 TTCAAGGGTCAAATCT-AATTTTTAGAAAG
* * * * *
22525836 TTTAGGGGTCAAAATATGATTTTTATAAAG
1 TTCAAGGGTC-AAATCTAATTTTTAGAAAG
22525866 TT
1 TT
22525868 TAGAAACCTT
Statistics
Matches: 145, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
28 2 0.01
29 68 0.47
30 63 0.43
31 12 0.08
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (29 bp):
TTCAAGGGTCAAATCTAATTTTTAGAAAG
Found at i:22525784 original size:29 final size:29
Alignment explanation
Indices: 22525727--22525870 Score: 146
Period size: 30 Copynumber: 4.8 Consensus size: 29
22525717 TTCAAGGGTC
*
22525727 AAATCTAATTTTTTAGAAAGTTTAAGGGTTA
1 AAATGTAA-TTTTTAGAAAGTTT-AGGGTTA
* *
22525758 AAATGTGATTTTTACAAAGTTTAGGGTTA
1 AAATGTAATTTTTAGAAAGTTTAGGGTTA
*
22525787 AAATGTAATTTTTAGAAAGTTCGAGGGTT-
1 AAATGTAATTTTTAGAAAGTT-TAGGGTTA
* * *
22525816 AAATTTAAATTTTAAGAAAGTTTAGGGGTCA
1 AAATGT-AATTTTTAGAAAGTTTA-GGGTTA
* * *
22525847 AAATATGATTTTTATAAAGTTTAG
1 AAATGTAATTTTTAGAAAGTTTAG
22525871 AAACCTTTTG
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
29 33 0.35
30 51 0.54
31 11 0.12
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (29 bp):
AAATGTAATTTTTAGAAAGTTTAGGGTTA
Found at i:22525828 original size:59 final size:60
Alignment explanation
Indices: 22525722--22525867 Score: 154
Period size: 59 Copynumber: 2.5 Consensus size: 60
22525712 GGAAGTTCAA
* * * *
22525722 GGGTC-AAATCTAATTTTTTAGAAAGTTTAAGGGTTAAAATGTGATTTTTACAAAGTTTA-
1 GGGTCAAAATATAA-TTTTTAGAAAGTTCAAGGGTTAAAATGTAATTTTAACAAAGTTTAG
* * * * *
22525781 GGGTTAAAATGTAATTTTTAGAAAGTTCGAGGGTT-AAATTTAAATTTTAAGAAAGTTTAG
1 GGGTCAAAATATAATTTTTAGAAAGTTCAAGGGTTAAAATGT-AATTTTAACAAAGTTTAG
* *
22525841 GGGTCAAAATATGATTTTTATAAAGTT
1 GGGTCAAAATATAATTTTTAGAAAGTT
22525868 TAGAAACCTT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
58 5 0.07
59 37 0.51
60 30 0.42
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (60 bp):
GGGTCAAAATATAATTTTTAGAAAGTTCAAGGGTTAAAATGTAATTTTAACAAAGTTTAG
Found at i:22525835 original size:89 final size:88
Alignment explanation
Indices: 22525705--22525870 Score: 233
Period size: 89 Copynumber: 1.9 Consensus size: 88
22525695 ATCAAATCTA
* * * * *
22525705 AATTTTTGGAAGTTCAAGGGTCAAATCTAATTTTTTAGAAAGTTTAAGGGTTAAAATGTGATTTT
1 AATTTTTGAAAGTTCAAGGGTCAAATCTAAATTTTAAGAAAGTTTAAGGGTCAAAATATGATTTT
22525770 TACAAAGTTTAGGGTTAAAATGT
66 TACAAAGTTTAGGGTTAAAATGT
* * * *
22525793 AATTTTTAGAAAGTTCGAGGGTTAAATTTAAATTTTAAGAAAGTTTAGGGGTCAAAATATGATTT
1 AATTTTT-GAAAGTTCAAGGGTCAAATCTAAATTTTAAGAAAGTTTAAGGGTCAAAATATGATTT
*
22525858 TTATAAAGTTTAG
65 TTACAAAGTTTAG
22525871 AAACCTTTTG
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
88 7 0.10
89 60 0.90
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.40
Consensus pattern (88 bp):
AATTTTTGAAAGTTCAAGGGTCAAATCTAAATTTTAAGAAAGTTTAAGGGTCAAAATATGATTTT
TACAAAGTTTAGGGTTAAAATGT
Found at i:22537362 original size:39 final size:40
Alignment explanation
Indices: 22537267--22537403 Score: 188
Period size: 40 Copynumber: 3.5 Consensus size: 40
22537257 GAAGTCACTA
* *
22537267 CATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAGAC
1 CATCCAATCTTTTACCCCGACCATGAGGCAGATTGAAGAC
22537307 CATCCAATCTTTTACCCCGACCATGAGGCAGATTGAAG-C
1 CATCCAATCTTTTACCCCGACCATGAGGCAGATTGAAGAC
* **
22537346 AATCCAATCTTTTACCCTAACCA-GAGGACAGATTGAAGAC
1 CATCCAATCTTTTACCCCGACCATGAGG-CAGATTGAAGAC
* *
22537386 CATTCAATCCTTTACCCC
1 CATCCAATCTTTTACCCC
22537404 TAAAGTTATA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 4 0.05
39 31 0.36
40 51 0.59
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (40 bp):
CATCCAATCTTTTACCCCGACCATGAGGCAGATTGAAGAC
Found at i:22538185 original size:17 final size:18
Alignment explanation
Indices: 22538150--22538196 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
22538140 TTATAGATAT
*
22538150 AAATAAATACA-AATGAA
1 AAATAAATAAATAATGAA
22538167 AAATAAATAAATAAT-AA
1 AAATAAATAAATAATGAA
* *
22538184 AATTAAACAAATA
1 AAATAAATAAATA
22538197 CAAACCCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (18 bp):
AAATAAATAAATAATGAA
Found at i:22548503 original size:17 final size:18
Alignment explanation
Indices: 22548480--22548561 Score: 72
Period size: 17 Copynumber: 5.0 Consensus size: 18
22548470 GATTTTTATG
*
22548480 TTTTAAATTTTGAATTTA
1 TTTTAAATTTTAAATTTA
22548498 -TTTAAA-TTTAAATTTA
1 TTTTAAATTTTAAATTTA
*
22548514 TTTTAAA-TTTAAATTCA
1 TTTTAAATTTTAAATTTA
**
22548531 -ACT--A-TTTAAATTTA
1 TTTTAAATTTTAAATTTA
22548545 TTTTAAA-TTTAAATTTA
1 TTTTAAATTTTAAATTTA
22548562 AATCAAATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 10 0.19
17 32 0.60
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (18 bp):
TTTTAAATTTTAAATTTA
Found at i:22548508 original size:6 final size:6
Alignment explanation
Indices: 22548497--22548564 Score: 77
Period size: 6 Copynumber: 11.3 Consensus size: 6
22548487 TTTTGAATTT
* *
22548497 ATTTAA ATTTAA ATTT-A TTTTAA ATTTAA ATTCAA CTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA
*
22548545 TTTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA AT
22548565 CAAATTATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
5 8 0.15
6 39 0.75
8 5 0.10
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:22548569 original size:11 final size:12
Alignment explanation
Indices: 22548497--22548575 Score: 56
Period size: 11 Copynumber: 6.6 Consensus size: 12
22548487 TTTTGAATTT
*
22548497 ATTTAAATTTAA
1 ATTTAAATTCAA
* *
22548509 ATTT-ATTTTAA
1 ATTTAAATTCAA
22548520 ATTTAAATTCAA
1 ATTTAAATTCAA
*
22548532 CTATTTAAATT-TA
1 --ATTTAAATTCAA
* *
22548545 TTTTAAATTTAA
1 ATTTAAATTCAA
22548557 ATTTAAA-TCAA
1 ATTTAAATTCAA
22548568 ATTATAAA
1 ATT-TAAA
22548576 AATACTAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
11 24 0.44
12 20 0.37
13 1 0.02
14 9 0.17
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTTAAATTCAA
Found at i:22549285 original size:22 final size:20
Alignment explanation
Indices: 22549246--22549296 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
22549236 CTCATTGAAT
22549246 ATTTTAAAT-GCATTAATTA
1 ATTTTAAATAGCATTAATTA
*
22549265 ATGTTTTAAATAGTATTAATTA
1 A--TTTTAAATAGCATTAATTA
22549287 ATTTTAAATA
1 ATTTTAAATA
22549297 AAAGCATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 9 0.32
21 8 0.29
22 10 0.36
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (20 bp):
ATTTTAAATAGCATTAATTA
Found at i:22550557 original size:58 final size:56
Alignment explanation
Indices: 22550495--22550675 Score: 229
Period size: 58 Copynumber: 3.1 Consensus size: 56
22550485 AAAATTTCAA
* *
22550495 AAAATTATATTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCCCAAACTTTCC
1 AAAATTATATTTTGACCCC--AATTTCCAAAAATTACCATTTTACCCCCGAACTTTCC
*
22550553 AAAATTCCAT-TTTTGACCCCAATTTCATCAAAAATTACCATTTTACCCTCGAACTTTCC
1 AAAATT--ATATTTTGACCCCAATTTC--CAAAAATTACCATTTTACCCCCGAACTTTCC
** *
22550612 AAAATTCCATTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
1 AAAATTATATTTTGACCCCAATTT--CCAAAAATTACCATTTTACCCCCGAACTTTCC
22550670 AAAATT
1 AAAATT
22550676 CCATTTTTAA
Statistics
Matches: 109, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
57 5 0.05
58 56 0.51
59 45 0.41
60 3 0.03
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (56 bp):
AAAATTATATTTTGACCCCAATTTCCAAAAATTACCATTTTACCCCCGAACTTTCC
Found at i:22550676 original size:58 final size:59
Alignment explanation
Indices: 22550521--22550718 Score: 308
Period size: 59 Copynumber: 3.4 Consensus size: 59
22550511 CCCAAAACTT
* *
22550521 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
22550580 TCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
22550638 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
** *
22550697 CCGGAATTTACCATTTTACCCC
1 CCAAAAATTACCATTTTACCCC
22550719 TGAGAGTCCA
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
58 55 0.43
59 72 0.57
ACGTcount: A:0.32, C:0.31, G:0.03, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:22550684 original size:29 final size:29
Alignment explanation
Indices: 22550462--22550682 Score: 169
Period size: 29 Copynumber: 7.6 Consensus size: 29
22550452 CTCCAAACAG
* ** *
22550462 TCCAAAAATT-GCATTTTGACCCTAAAATT
1 TCCAAAAATTACCATTTT-ACCCCCAACTT
* * *
22550491 TCAAAAAATTA-TATTTTGACCCCAAAAC-T
1 TCCAAAAATTACCATTTT-ACCCC-CAACTT
22550520 TCCAAAAATTACCATTTTACCCCCAAACTT
1 TCCAAAAATTACCATTTTACCCCC-AACTT
22550550 TCC-AAAATT-CCATTTTTGA-CCCCAA-TT
1 TCCAAAAATTACCA-TTTT-ACCCCCAACTT
*
22550577 TCATCAAAAATTACCATTTTACCCTCGAACTT
1 TC--CAAAAATTACCATTTTACCC-CCAACTT
*
22550609 TCC-AAAATT-CCATTTTAACCCCAA-TT
1 TCCAAAAATTACCATTTTACCCCCAACTT
22550635 TCACCAAAAATTACCATTTTACCCCCGAACTT
1 T--CCAAAAATTACCATTTTACCCCC-AACTT
22550667 TCC-AAAATT-CCATTTT
1 TCCAAAAATTACCATTTT
22550683 TAACCTCGAT
Statistics
Matches: 161, Mismatches: 11, Indels: 41
0.76 0.05 0.19
Matches are distributed among these distances:
26 3 0.02
27 7 0.04
28 24 0.15
29 72 0.45
30 40 0.25
31 8 0.05
32 7 0.04
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCCCAACTT
Found at i:22550729 original size:58 final size:58
Alignment explanation
Indices: 22550521--22550741 Score: 268
Period size: 59 Copynumber: 3.8 Consensus size: 58
22550511 CCCAAAACTT
** *
22550521 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCTGAAC-TTCCAAAATTCCATTTTTAACCCCAATTTCA
*
22550580 TCAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCT-GAAC-TTCCAAAATTCCATTTTTAACCCCAATTTCA
* * *
22550638 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTGAAC-TTCCAAAATTCCATTTTTAACCCCAATTTCA
** * *
22550697 CCGGAATTTACCATTTTACCCCTGAGA-GTCCAAAATTACCATTTT
1 CCAAAAATTACCATTTTACCCCTGA-ACTTCCAAAATT-CCATTTT
22550742 GCCCTCGAGT
Statistics
Matches: 144, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
58 63 0.44
59 80 0.56
60 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCTGAACTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:22550739 original size:117 final size:116
Alignment explanation
Indices: 22550521--22550741 Score: 311
Period size: 117 Copynumber: 1.9 Consensus size: 116
22550511 CCCAAAACTT
* *
22550521 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCAATTTCATCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
*
22550586 ATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTAACCCCAATTTCA
66 ATTACCATTTTACCCTCGAAC-GTCCAAAATTCCATTTTAACCCCAATTTCA
* * * **
22550638 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCGGAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
*
22550703 TTTACCATTTTACCC-CTGAGA-GTCCAAAATTACCATTTT
66 ATTACCATTTTACCCTC-GA-ACGTCCAAAATT-CCATTTT
22550742 GCCCTCGAGT
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
116 10 0.11
117 81 0.88
118 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (116 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
ATTACCATTTTACCCTCGAACGTCCAAAATTCCATTTTAACCCCAATTTCA
Found at i:22562705 original size:76 final size:76
Alignment explanation
Indices: 22562406--22563318 Score: 1348
Period size: 76 Copynumber: 12.0 Consensus size: 76
22562396 ATCAGACCGC
* * *
22562406 AGCAAGATCATTCCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
22562471 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
22562482 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
22562546 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
22562557 ACCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
*
22562621 ATTGAAGTAAA
66 ATTGAAGTAAG
* *
22562632 AGCAACG-TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGA
1 AGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGA
22562696 AATTGAAGTAAG
65 AATTGAAGTAAG
* * * *
22562708 AGTAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCATTATCTTTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
22562773 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * * *
22562784 AGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTAAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
22562849 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
22562860 AGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
* *
22562925 ATTGAAATCAG
66 ATTGAAGTAAG
* * *
22562936 AGCAAGATCGTCTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
22563001 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
22563012 AGCAACG-TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
1 AGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGA
22563076 AATTGAAGTAAG
65 AATTGAAGTAAG
* * * * *
22563088 AGCAACATCATTTTCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTAAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
22563153 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * * **
22563164 AGCCACATCATTTCCTATTCTCTTGAAATTGAAGTAAAGCTGGATATTAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
22563229 ATTGAAGTAAG
66 ATTGAAGTAAG
* ** * * *
22563240 AGCGACCTCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
22563305 ATTGAAGTAAG
66 ATTGAAGTAAG
22563316 AGC
1 AGC
22563319 TGGACAAAGC
Statistics
Matches: 780, Mismatches: 52, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
75 145 0.19
76 634 0.81
77 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (76 bp):
AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:22564444 original size:22 final size:20
Alignment explanation
Indices: 22564405--22564455 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
22564395 CTCATTGAAT
22564405 ATTTTAAAT-GCATTAATTA
1 ATTTTAAATAGCATTAATTA
*
22564424 ATGTTTTAAATAGTATTAATTA
1 A--TTTTAAATAGCATTAATTA
22564446 ATTTTAAATA
1 ATTTTAAATA
22564456 AAAGCATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 9 0.32
21 8 0.29
22 10 0.36
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (20 bp):
ATTTTAAATAGCATTAATTA
Found at i:22565713 original size:58 final size:57
Alignment explanation
Indices: 22565644--22565825 Score: 152
Period size: 58 Copynumber: 3.1 Consensus size: 57
22565634 CTAGAAATTG
* *
22565644 CATTTTGACCCCAAAATTTTAGAAAATT-ATATTTTGACCCCGAAACTTC-CAAAAATTAC
1 CATTTT-ACCCCAAAACTTTACAAAATTCAT-TTTTGACCCCG--ACTTCACAAAAATTAC
* * * * *
22565703 CATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCTGATTTCACCAAAATTAC
1 CATTTTACCCCAAAACTTTACAAAATT-CATTTTTGACCCCGACTTCACAAAAATTAC
** * * * * * *
22565761 CATTTTACCCCCGAACTTTTCAAAATTCCATTTTTAACCCTGATTTCACCGAAATTTAC
1 CATTTTACCCCAAAACTTTACAAAATT-CATTTTTGACCCCGACTTCA-CAAAAATTAC
22565820 CATTTT
1 CATTTT
22565826 GCCCTCGAGA
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
57 4 0.04
58 70 0.66
59 30 0.28
60 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (57 bp):
CATTTTACCCCAAAACTTTACAAAATTCATTTTTGACCCCGACTTCACAAAAATTAC
Found at i:22565724 original size:30 final size:30
Alignment explanation
Indices: 22565644--22565794 Score: 113
Period size: 29 Copynumber: 5.2 Consensus size: 30
22565634 CTAGAAATTG
* * **
22565644 CATTTTGACCCCAAAATTTTAGAAAATTA-
1 CATTTTGACCCCTAAACTTTCCAAAATTAC
* *
22565673 TATTTTGACCCCGAAAC-TTCCAAAAATTAC
1 CATTTTGACCCCTAAACTTTCC-AAAATTAC
22565703 CATTTT-ACCCCTAAACTTTCCAAAATT-C
1 CATTTTGACCCCTAAACTTTCCAAAATTAC
*
22565731 CATTTTTGA-CCCT-GA-TTTCACCAAAATTAC
1 CA-TTTTGACCCCTAAACTTT--CCAAAATTAC
** *
22565761 CATTTT-ACCCCCGAACTTTTCAAAATT-C
1 CATTTTGACCCCTAAACTTTCCAAAATTAC
22565789 CATTTT
1 CATTTT
22565795 TAACCCTGAT
Statistics
Matches: 100, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
27 3 0.03
28 14 0.14
29 66 0.66
30 14 0.14
31 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTCCAAAATTAC
Found at i:22565755 original size:59 final size:58
Alignment explanation
Indices: 22565695--22565825 Score: 208
Period size: 58 Copynumber: 2.2 Consensus size: 58
22565685 GAAACTTCCA
* *
22565695 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCTGATTTCACC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACC
* *
22565753 AAAATTACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTAACCCTGATTTCACC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACC
*
22565811 GAAATTTACCATTTT
1 -AAAATTACCATTTT
22565826 GCCCTCGAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
58 54 0.81
59 13 0.19
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.37
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACC
Found at i:22565815 original size:29 final size:29
Alignment explanation
Indices: 22565725--22565825 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 29
22565715 AAACTTTCCA
*
22565725 AAATT-CCATTTTTGACCCTGATTTCACC
1 AAATTACCATTTTTAACCCTGATTTCACC
* *
22565753 AAAATTACCA-TTTTACCCCCGAACTTTTCA--
1 -AAATTACCATTTTTAACCCTG-A--TTTCACC
22565783 AAATT-CCATTTTTAACCCTGATTTCACC
1 AAATTACCATTTTTAACCCTGATTTCACC
22565811 GAAATTTACCATTTT
1 -AAA-TTACCATTTT
22565826 GCCCTCGAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
26 5 0.09
28 4 0.07
29 30 0.53
30 6 0.11
31 7 0.12
32 5 0.09
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.39
Consensus pattern (29 bp):
AAATTACCATTTTTAACCCTGATTTCACC
Found at i:22565860 original size:58 final size:57
Alignment explanation
Indices: 22565695--22565853 Score: 185
Period size: 58 Copynumber: 2.7 Consensus size: 57
22565685 GAAACTTCCA
** *
22565695 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCTGATTTCACC
1 AAAATTACCATTTTACCCCCGAAC-GTCCAAAATTCCATTTTTGACCCTGATTTCACC
* * *
22565753 AAAATTACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTAACCCTGATTTCACC
1 AAAATTACCATTTTACCCCCGAAC-GTCCAAAATTCCATTTTTGACCCTGATTTCACC
* * *
22565811 GAAATTTACCATTTTGCCCTCGAGA-GTCCAAAATTACCATTTT
1 -AAAATTACCATTTTACCCCCGA-ACGTCCAAAATT-CCATTTT
22565854 GCCCCTGTGT
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
58 62 0.70
59 26 0.29
60 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCCGAACGTCCAAAATTCCATTTTTGACCCTGATTTCACC
Found at i:22568062 original size:27 final size:24
Alignment explanation
Indices: 22568013--22568062 Score: 64
Period size: 27 Copynumber: 2.0 Consensus size: 24
22568003 TCTACCATTT
*
22568013 TATATTTATTAATATTTTAAAAAA
1 TATATTTATTAATAATTTAAAAAA
22568037 TATATTTAATATATATAATTTAAAAA
1 TATATTT-AT-TA-ATAATTTAAAAA
22568063 TATCAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 2 0.09
26 2 0.09
27 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TATATTTATTAATAATTTAAAAAA
Found at i:22568483 original size:19 final size:19
Alignment explanation
Indices: 22568459--22568522 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
22568449 GTCCAATATG
22568459 AAAAGGGTTGTGACTATTC
1 AAAAGGGTTGTGACTATTC
* *
22568478 AAAA-GG-TGTCTATCTAATTT
1 AAAAGGGTTGT-GA-CT-ATTC
* *
22568498 GAAAGGGTTGTGACTCTTC
1 AAAAGGGTTGTGACTATTC
22568517 AAAAGG
1 AAAAGG
22568523 TGTCCATTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 13 0.39
20 8 0.24
21 3 0.09
22 3 0.09
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (19 bp):
AAAAGGGTTGTGACTATTC
Found at i:22573460 original size:39 final size:40
Alignment explanation
Indices: 22573401--22573480 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 40
22573391 AAGAGGTATG
*
22573401 TCCAATATGAAAAGGGTTGTGACTTTTCAAAAAGTGTCCA
1 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAAGTGTCCA
* *
22573441 TCCAATTTG-AAAGGGTTGTGACTCTTCAAAAGGTGTCCA
1 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAAGTGTCCA
22573480 T
1 T
22573481 TGAATGCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 29 0.78
40 8 0.22
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (40 bp):
TCCAATATGAAAAGGGTTGTGACTCTTCAAAAAGTGTCCA
Found at i:22576866 original size:26 final size:26
Alignment explanation
Indices: 22576829--22576975 Score: 152
Period size: 26 Copynumber: 5.7 Consensus size: 26
22576819 TCGCCTTCAA
* *
22576829 GATTATACGTTTATGCTTGTCAGCAT
1 GATTATGCGTTTACGCTTGTCAGCAT
* * *
22576855 GATTATGTGTTTAAGCTCG-CTAGCAT
1 GATTATGCGTTTACGCTTGTC-AGCAT
* * * *
22576881 GAATATACATTTACGCTTGTCATCAT
1 GATTATGCGTTTACGCTTGTCAGCAT
*** *
22576907 GATTATGCGTTTACGCTCACCAACAT
1 GATTATGCGTTTACGCTTGTCAGCAT
*
22576933 GAATATGCGTTTACGCTTGTCAGCAT
1 GATTATGCGTTTACGCTTGTCAGCAT
22576959 GATTATGCGTTTACGCT
1 GATTATGCGTTTACGCT
22576976 CGCCGACATG
Statistics
Matches: 95, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
25 1 0.01
26 93 0.98
27 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (26 bp):
GATTATGCGTTTACGCTTGTCAGCAT
Found at i:22576910 original size:52 final size:51
Alignment explanation
Indices: 22576832--22576998 Score: 217
Period size: 52 Copynumber: 3.2 Consensus size: 51
22576822 CCTTCAAGAT
* * * *
22576832 TATACGTTTATGCTTGTCAGCATGATTATGTGTTTAAGCTCGCTAGCATGAA
1 TATACATTTACGCTTGTCAGCATGATTATGCGTTTACGCTCGC-AGCATGAA
* * *
22576884 TATACATTTACGCTTGTCATCATGATTATGCGTTTACGCTCACCAACATGAA
1 TATACATTTACGCTTGTCAGCATGATTATGCGTTTACGCTC-GCAGCATGAA
* * *
22576936 TATGCGTTTACGCTTGTCAGCATGATTATGCGTTTACGCTCGCCGACATGAA
1 TATACATTTACGCTTGTCAGCATGATTATGCGTTTACGCTCGCAG-CATGAA
22576988 TATACATTTAC
1 TATACATTTAC
22576999 ACTATTAGAG
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
51 1 0.01
52 96 0.98
53 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (51 bp):
TATACATTTACGCTTGTCAGCATGATTATGCGTTTACGCTCGCAGCATGAA
Found at i:22576998 original size:26 final size:26
Alignment explanation
Indices: 22576849--22576990 Score: 133
Period size: 26 Copynumber: 5.5 Consensus size: 26
22576839 TTATGCTTGT
* * *
22576849 CAGCATGATTATGTGTTTAAGCTCGC
1 CAGCATGAATATGCGTTTACGCTCGC
* * * * *
22576875 TAGCATGAATATACATTTACGCTTGT
1 CAGCATGAATATGCGTTTACGCTCGC
* * *
22576901 CATCATGATTATGCGTTTACGCTCAC
1 CAGCATGAATATGCGTTTACGCTCGC
* * *
22576927 CAACATGAATATGCGTTTACGCTTGT
1 CAGCATGAATATGCGTTTACGCTCGC
*
22576953 CAGCATGATTATGCGTTTACGCTCGC
1 CAGCATGAATATGCGTTTACGCTCGC
22576979 C-GACATGAATAT
1 CAG-CATGAATAT
22576991 ACATTTACAC
Statistics
Matches: 89, Mismatches: 26, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
25 1 0.01
26 88 0.99
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (26 bp):
CAGCATGAATATGCGTTTACGCTCGC
Found at i:22584144 original size:26 final size:26
Alignment explanation
Indices: 22584104--22584351 Score: 295
Period size: 26 Copynumber: 9.5 Consensus size: 26
22584094 CCTTCAAGAT
* *
22584104 TATACCTTTATGCTCGTCAGCATGAA
1 TATACGTTTACGCTCGTCAGCATGAA
* *
22584130 TATACATTTACGCTCGTCAGCATGAT
1 TATACGTTTACGCTCGTCAGCATGAA
* * *
22584156 TATGA-ATTTATGCTCGCCAGCATGAA
1 TAT-ACGTTTACGCTCGTCAGCATGAA
* *
22584182 TATACGTTTATGCTCGTCAGCATGGA
1 TATACGTTTACGCTCGTCAGCATGAA
* *
22584208 TATACGTTTACGCTCGTTAGCATGAT
1 TATACGTTTACGCTCGTCAGCATGAA
*
22584234 TATGCGTTTACGCTCG-CTAGCATGAA
1 TATACGTTTACGCTCGTC-AGCATGAA
*
22584260 TATACGTTTACGCTCGTCAGCATGGA
1 TATACGTTTACGCTCGTCAGCATGAA
* *
22584286 TATACGTTTATGCTCGTCAGCATGAT
1 TATACGTTTACGCTCGTCAGCATGAA
*
22584312 TATGCGTTTACGCTCG-CTAGCATGAA
1 TATACGTTTACGCTCGTC-AGCATGAA
*
22584338 TATACATTTACGCT
1 TATACGTTTACGCT
22584352 ACCAGAGTTC
Statistics
Matches: 191, Mismatches: 26, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
25 2 0.01
26 187 0.98
27 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (26 bp):
TATACGTTTACGCTCGTCAGCATGAA
Found at i:22584233 original size:78 final size:78
Alignment explanation
Indices: 22584104--22584347 Score: 389
Period size: 78 Copynumber: 3.1 Consensus size: 78
22584094 CCTTCAAGAT
* * * ** *
22584104 TATACCTTTATGCTCGTCAGCATGAATATACATTTACGCTCGTCAGCATGATTATGAATTTATGC
1 TATACGTTTATGCTCGTCAGCATGGATATACGTTTACGCTCGTCAGCATGATTATGCGTTTACGC
*
22584169 TCGCCAGCATGAA
66 TCGCTAGCATGAA
*
22584182 TATACGTTTATGCTCGTCAGCATGGATATACGTTTACGCTCGTTAGCATGATTATGCGTTTACGC
1 TATACGTTTATGCTCGTCAGCATGGATATACGTTTACGCTCGTCAGCATGATTATGCGTTTACGC
22584247 TCGCTAGCATGAA
66 TCGCTAGCATGAA
* *
22584260 TATACGTTTACGCTCGTCAGCATGGATATACGTTTATGCTCGTCAGCATGATTATGCGTTTACGC
1 TATACGTTTATGCTCGTCAGCATGGATATACGTTTACGCTCGTCAGCATGATTATGCGTTTACGC
22584325 TCGCTAGCATGAA
66 TCGCTAGCATGAA
*
22584338 TATACATTTA
1 TATACGTTTA
22584348 CGCTACCAGA
Statistics
Matches: 154, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 154 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (78 bp):
TATACGTTTATGCTCGTCAGCATGGATATACGTTTACGCTCGTCAGCATGATTATGCGTTTACGC
TCGCTAGCATGAA
Found at i:22585654 original size:19 final size:18
Alignment explanation
Indices: 22585630--22585682 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
22585620 TAACATTTAC
* *
22585630 AAAAAATTATTAAATTTT
1 AAAAAATTATAAAATTGT
*
22585648 AATAAAAATATAAAAATTGT
1 AA-AAAATTAT-AAAATTGT
22585668 AAAAAATTATAAAAT
1 AAAAAATTATAAAAT
22585683 ATATAGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 14 0.48
20 8 0.28
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAAATTATAAAATTGT
Found at i:22591331 original size:20 final size:21
Alignment explanation
Indices: 22591295--22591344 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
22591285 ATTGGGATGG
*
22591295 TTTATATTAAGTGTAAATA-GA
1 TTTA-ATTAAGTGTAAAAATGA
22591316 TTTAATTAAGAT-TAAAAATGA
1 TTTAATTAAG-TGTAAAAATGA
22591337 -TTAATTAA
1 TTTAATTAA
22591345 AGCTTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTAATTAAGTGTAAAAATGA
Found at i:22601888 original size:93 final size:94
Alignment explanation
Indices: 22601781--22602097 Score: 270
Period size: 93 Copynumber: 3.3 Consensus size: 94
22601771 ACGAAGTAGA
* * * *
22601781 TCTCAATTTCCCTGATGTTACAATGGAATAG-AGTGAAGCACCAGATCATATATCCTTGAAGTTG
1 TCTCAATGTCCCTGAGGTTACAGTGGAATAGAAGTGAAGCACCAGATCCTATATCCTTGAAGTTG
22601845 CAATGGATCGAATTAAAATGAGTAACAGG
66 CAATGGATCGAATTAAAATGAGTAACAGG
* * * *
22601874 TCTCAATGTCCCTGAGGTTATAGTGGAATGGAGAGAAGTTACAACACCAAATCCTATA-CCTTTG
1 TCTCAATGTCCCTGAGGTTACAGTGGAAT----AGAAGTGA-AGCACCAGATCCTATATCC-TTG
* * * *
22601938 -AGTTGCAATGGGTC-AGATTAAAGTAACG-AAGCAGA
60 AAGTTGCAATGGATCGA-ATTAAAATGA-GTAA-CAGG
* ** * * * * * *
22601973 TCTCAACGTCGTTGAGGTTATAGTGGAAT-GCAGTAAAGCACCAGAACCTGTATCCCTGAAGTTG
1 TCTCAATGTCCCTGAGGTTACAGTGGAATAGAAGTGAAGCACCAGATCCTATATCCTTGAAGTTG
* * * *
22602037 TAGTGGATCGGATTAAAATGAGTAA-TGG
66 CAATGGATCGAATTAAAATGAGTAACAGG
22602065 ATCTCAATGTCCCTGAGGTTACAGTGGAATAGA
1 -TCTCAATGTCCCTGAGGTTACAGTGGAATAGA
22602098 GAGAAGTTAC
Statistics
Matches: 173, Mismatches: 35, Indels: 31
0.72 0.15 0.13
Matches are distributed among these distances:
92 1 0.01
93 65 0.38
94 29 0.17
97 3 0.02
98 29 0.17
99 46 0.27
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (94 bp):
TCTCAATGTCCCTGAGGTTACAGTGGAATAGAAGTGAAGCACCAGATCCTATATCCTTGAAGTTG
CAATGGATCGAATTAAAATGAGTAACAGG
Found at i:22601996 original size:99 final size:96
Alignment explanation
Indices: 22601874--22602189 Score: 281
Period size: 99 Copynumber: 3.3 Consensus size: 96
22601864 GAGTAACAGG
* *
22601874 TCTCAATGTCCCTGAGGTTATAGTGGAATGGAGAGAAGTTACAACACCAAATCCTATACCTTTGA
1 TCTCAACGTCCCTGAGGTTATAGTGGAAT-GAGAGAAGTTACAACACCAAATCCTATACC-CTGA
*
22601939 GTTGCAATGGGTCAGATTAAAGTAACGAAGCAGA
64 GTTGCAATGGGTCAGATTAAAATAACGAAGC-GA
** * *
22601973 TCTCAACGTCGTTGAGGTTATAGTGGAAT----GCAG-TA-AAGCACCAGAA-CCTGTATCCCTG
1 TCTCAACGTCCCTGAGGTTATAGTGGAATGAGAGAAGTTACAA-CACCA-AATCCTATA-CCCTG
* * * * *
22602031 AAGTTGTAGTGGATCGGATTAAAATGA-GTAATG-GA
63 -AGTTGCAATGGGTCAGATTAAAATAACG-AA-GCGA
* * * *
22602066 TCTCAATGTCCCTGAGGTTACAGTGGAATAGAGAGAAGTTACAACCCCAAATCCTATACCCCTAA
1 TCTCAACGTCCCTGAGGTTATAGTGGAAT-GAGAGAAGTTACAACACCAAATCCTATA-CCCTGA
*
22602131 GTTGCAATGGGTCAGATTAAAACAACGAAGCGGA
64 GTTGCAATGGGTCAGATTAAAATAACGAAGC-GA
* * *
22602165 TCTTAATGTCCCTGAGGTTACAGTG
1 TCTCAACGTCCCTGAGGTTATAGTG
22602190 AAGTGGATCA
Statistics
Matches: 172, Mismatches: 28, Indels: 34
0.74 0.12 0.15
Matches are distributed among these distances:
92 2 0.01
93 42 0.24
94 29 0.17
95 1 0.01
97 1 0.01
98 27 0.16
99 68 0.40
100 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (96 bp):
TCTCAACGTCCCTGAGGTTATAGTGGAATGAGAGAAGTTACAACACCAAATCCTATACCCTGAGT
TGCAATGGGTCAGATTAAAATAACGAAGCGA
Found at i:22602056 original size:192 final size:192
Alignment explanation
Indices: 22601724--22602186 Score: 590
Period size: 192 Copynumber: 2.4 Consensus size: 192
22601714 GGACCAAGTA
* * * * * *
22601724 AACATCAAATCCTATACCTTTGAGTTGTAGTGGGTC-GAATTAATGCAACGAAGTAGATCTCAAT
1 AACACCAAATCCTATACCTTTGAGTTGCAATGGGTCAG-ATTAAAGCAACGAAGCAGATCTCAAC
* * * * *
22601788 TTCCCTGATGTTACAATGGAATAGAGTGAAGCACCAGATCATATATCCTTGAAGTTGCAATGGAT
65 GTCCCTGAGGTTACAATGGAATAGAGTAAAGCACCAGAACATATATCCCTGAAGTTGCAATGGAT
* *
22601853 CGAATTAAAATGAGTAACAGG-TCTCAATGTCCCTGAGGTTATAGTGGAATGGAGAGAAGTTAC
130 CGAATTAAAATGAGTAA-AGGATCTCAATGTCCCTGAGGTTACAGTGGAATAGAGAGAAGTTAC
*
22601916 AACACCAAATCCTATACCTTTGAGTTGCAATGGGTCAGATTAAAGTAACGAAGCAGATCTCAACG
1 AACACCAAATCCTATACCTTTGAGTTGCAATGGGTCAGATTAAAGCAACGAAGCAGATCTCAACG
** * * * * * *
22601981 TCGTTGAGGTTATAGTGGAAT-GCAGTAAAGCACCAGAACCTGTATCCCTGAAGTTGTAGTGGAT
66 TCCCTGAGGTTACAATGGAATAG-AGTAAAGCACCAGAACATATATCCCTGAAGTTGCAATGGAT
* *
22602045 CGGATTAAAATGAGTAATGGATCTCAATGTCCCTGAGGTTACAGTGGAATAGAGAGAAGTTAC
130 CGAATTAAAATGAGTAAAGGATCTCAATGTCCCTGAGGTTACAGTGGAATAGAGAGAAGTTAC
* ** * * * * *
22602108 AACCCCAAATCCTATACCCCTAAGTTGCAATGGGTCAGATTAAAACAACGAAGCGGATCTTAATG
1 AACACCAAATCCTATACCTTTGAGTTGCAATGGGTCAGATTAAAGCAACGAAGCAGATCTCAACG
22602173 TCCCTGAGGTTACA
66 TCCCTGAGGTTACA
22602187 GTGAAGTGGA
Statistics
Matches: 232, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
191 3 0.01
192 228 0.98
193 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (192 bp):
AACACCAAATCCTATACCTTTGAGTTGCAATGGGTCAGATTAAAGCAACGAAGCAGATCTCAACG
TCCCTGAGGTTACAATGGAATAGAGTAAAGCACCAGAACATATATCCCTGAAGTTGCAATGGATC
GAATTAAAATGAGTAAAGGATCTCAATGTCCCTGAGGTTACAGTGGAATAGAGAGAAGTTAC
Found at i:22606094 original size:75 final size:75
Alignment explanation
Indices: 22605964--22606176 Score: 309
Period size: 75 Copynumber: 2.8 Consensus size: 75
22605954 ACTAATAAAC
* * * * * *
22605964 ATATCTATCAGTTATCAGACTAGCGTTGGGCGCAACCTTTGTCAATATATTTGACTAGAGCTGAG
1 ATATCTGTCGGTTATCAGACTAGCGTTGGGCGCAACCTCTGTCAGTTTATCTGACTAGAGCTGAG
22606029 CTCACCTTTG
66 CTCACCTTTG
* *
22606039 ATATCTGTCGGTTATCTGACTAGCGTTGGGCGCAACCTCCGTCAGTTTATCTGACTAGAGCTGAG
1 ATATCTGTCGGTTATCAGACTAGCGTTGGGCGCAACCTCTGTCAGTTTATCTGACTAGAGCTGAG
22606104 CTCACCTTTG
66 CTCACCTTTG
* * * * *
22606114 ATATCTGTAGGTTATCCGACTAGCGCTGGCCGCAACCTCTGTCAGTTTATCTGACTAGTGCTG
1 ATATCTGTCGGTTATCAGACTAGCGTTGGGCGCAACCTCTGTCAGTTTATCTGACTAGAGCTG
22606177 GACACATAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 124 1.00
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (75 bp):
ATATCTGTCGGTTATCAGACTAGCGTTGGGCGCAACCTCTGTCAGTTTATCTGACTAGAGCTGAG
CTCACCTTTG
Found at i:22608537 original size:30 final size:31
Alignment explanation
Indices: 22608481--22608538 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
22608471 ATTTTGACAA
** *
22608481 TGCAAAAAAAAAAAGCAGGGGCTTAATTGAG
1 TGCAAAAAAAAAAAGCAAAGGATTAATTGAG
22608512 TGCAAAAAAAAAAA-CAAAGGATTAATT
1 TGCAAAAAAAAAAAGCAAAGGATTAATT
22608539 TCTTTTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 10 0.42
31 14 0.58
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (31 bp):
TGCAAAAAAAAAAAGCAAAGGATTAATTGAG
Found at i:22609024 original size:27 final size:26
Alignment explanation
Indices: 22608994--22609045 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22608984 TTTCAGTAAG
22608994 TTATAAAATAAAAATAATACAATTTTT
1 TTATAAAATAAAAATAATA-AATTTTT
* * *
22609021 TTATAATATAATAATATTAAATTTT
1 TTATAAAATAAAAATAATAAATTTT
22609046 ATTTTATCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATAAAATAAAAATAATAAATTTTT
Found at i:22618442 original size:16 final size:16
Alignment explanation
Indices: 22618423--22618473 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
22618413 TATCTATCGA
*
22618423 TTTCACAATCTAGAGT
1 TTTCACAATCTATAGT
* *
22618439 TTTCACAGTCTATAGC
1 TTTCACAATCTATAGT
22618455 TTTCACAATCTATAGT
1 TTTCACAATCTATAGT
22618471 TTT
1 TTT
22618474 TAGCTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (16 bp):
TTTCACAATCTATAGT
Found at i:22619367 original size:18 final size:18
Alignment explanation
Indices: 22619341--22619380 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
22619331 AAAATATTAT
22619341 AAAACAAATAATAAACAA
1 AAAACAAATAATAAACAA
* *
22619359 AAAATAAATAATAGACAA
1 AAAACAAATAATAAACAA
22619377 AAAA
1 AAAA
22619381 AGCTGACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.78, C:0.07, G:0.03, T:0.12
Consensus pattern (18 bp):
AAAACAAATAATAAACAA
Done.