Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 76 of 185
Found at i:23910989 original size:26 final size:26
Alignment explanation
Indices: 23910927--23910990 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
23910917 AGTTCTTCAT
*
23910927 TGCTTTTGAAAAGTGCTTTAGAAAAG
1 TGCTTTTGAAAAGTACTTTAGAAAAG
*
23910953 TG-TTGTGGAAAAGTACTTCTCAG-AAA-
1 TGCTT-TTGAAAAGTACTT-T-AGAAAAG
23910979 TGCTTTTGAAAA
1 TGCTTTTGAAAA
23910991 ATTTGAGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 2 0.06
26 21 0.68
27 6 0.19
28 2 0.06
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (26 bp):
TGCTTTTGAAAAGTACTTTAGAAAAG
Found at i:23913377 original size:24 final size:23
Alignment explanation
Indices: 23913338--23913414 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
23913328 TGGAAGAGTT
*
23913338 ACAAAGCGGTAAAGCAAAAGAGGC
1 ACAAAGCAG-AAAGCAAAAGAGGC
* **
23913362 ACAGAGCA-AAGCAGCAGCAGAGGC
1 ACAAAGCAGAA--AGCAAAAGAGGC
23913386 ACAAAGCAGTAAAGCAAAAGAGGC
1 ACAAAGCAG-AAAGCAAAAGAGGC
23913410 ACAAA
1 ACAAA
23913415 AGCCAGAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
22 2 0.05
24 38 0.90
26 2 0.05
ACGTcount: A:0.51, C:0.19, G:0.27, T:0.03
Consensus pattern (23 bp):
ACAAAGCAGAAAGCAAAAGAGGC
Found at i:23916951 original size:15 final size:15
Alignment explanation
Indices: 23916931--23916962 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
23916921 TCTTCGAAGG
23916931 TTTAGGGTTTAAGTT
1 TTTAGGGTTTAAGTT
23916946 TTTAGGGTTTAAGTT
1 TTTAGGGTTTAAGTT
23916961 TT
1 TT
23916963 GACCCGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (15 bp):
TTTAGGGTTTAAGTT
Found at i:23918870 original size:31 final size:30
Alignment explanation
Indices: 23918805--23918891 Score: 122
Period size: 30 Copynumber: 2.8 Consensus size: 30
23918795 TAAATATATA
23918805 TTTTTTATTTTTAAAA-ATATTTTAAAATAC
1 TTTTTTATTTTTAAAATAT-TTTTAAAATAC
23918835 TTTTTTATTTTTAAAATATTTTTAAAATAC
1 TTTTTTATTTTTAAAATATTTTTAAAATAC
23918865 TTTTTTTAATTTTCTAAAATTATTTTT
1 -TTTTTT-ATTTT-TAAAA-TATTTTT
23918892 GTGTTTATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
30 27 0.52
31 8 0.15
32 5 0.10
33 5 0.10
34 7 0.13
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTTTATTTTTAAAATATTTTTAAAATAC
Found at i:23921319 original size:31 final size:31
Alignment explanation
Indices: 23921284--23921366 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
23921274 TAGCCAAGTA
*
23921284 ACTTAAATAAAAACTTTCGAATAATTCGATG
1 ACTTAAATAAAAACTTTCAAATAATTCGATG
* *
23921315 ACTTAAATAAAAACTTTCAAATAGTTCGGTG
1 ACTTAAATAAAAACTTTCAAATAATTCGATG
* **
23921346 ACTAAAATGGAAACTTTCAAA
1 ACTTAAATAAAAACTTTCAAA
23921367 CAGTCAAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAATTCGATG
Found at i:23927770 original size:16 final size:16
Alignment explanation
Indices: 23927746--23927787 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23927736 TAGTTCACTG
23927746 TAATCGAATAGAGCTA
1 TAATCGAATAGAGCTA
* *
23927762 TAATTGAATAGAGCTG
1 TAATCGAATAGAGCTA
*
23927778 TAATGGAATA
1 TAATCGAATA
23927788 AAGTTGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (16 bp):
TAATCGAATAGAGCTA
Found at i:23927795 original size:16 final size:16
Alignment explanation
Indices: 23927743--23927797 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
23927733 GTTTAGTTCA
* *
23927743 CTGTAATCGAATAGAG
1 CTGTAATGGAATAAAG
* * *
23927759 CTATAATTGAATAGAG
1 CTGTAATGGAATAAAG
23927775 CTGTAATGGAATAAAG
1 CTGTAATGGAATAAAG
*
23927791 TTGTAAT
1 CTGTAAT
23927798 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAAAG
Found at i:23927986 original size:22 final size:22
Alignment explanation
Indices: 23927959--23928010 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
23927949 ATTGTTATTG
23927959 TTATTAAATTTTAATAAGATTA
1 TTATTAAATTTTAATAAGATTA
*
23927981 TTATTAAATTTTAATAAGGTTA
1 TTATTAAATTTTAATAAGATTA
23928003 TTATTAAA
1 TTATTAAA
23928011 AATACTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
TTATTAAATTTTAATAAGATTA
Found at i:23928116 original size:58 final size:58
Alignment explanation
Indices: 23928004--23928118 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 58
23927994 ATAAGGTTAT
* * *
23928004 TATTAAAAATACTTTAATAAAAATAATAAATAATTTAACCATATTTTAACATAATTAC
1 TATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATTTTAACATAATTAC
* * * *
23928062 TATTAAATATAATTTAAT-AAAATAATATATAATTTAATAAAATTCTTAATATAATTA
1 TATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATT-TTAACATAATTA
23928119 TTATATGAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
57 22 0.45
58 27 0.55
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (58 bp):
TATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATTTTAACATAATTAC
Found at i:23928167 original size:23 final size:23
Alignment explanation
Indices: 23928131--23928176 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
23928121 ATATGAATTA
*
23928131 AAAAATCATAATATATAATACTAT
1 AAAAATAATAATATATAAT-CTAT
23928155 AAAAATAAT-ATATATAATCTAT
1 AAAAATAATAATATATAATCTAT
23928177 TTTATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 9 0.43
24 8 0.38
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATAATAATATATAATCTAT
Found at i:23937884 original size:14 final size:14
Alignment explanation
Indices: 23937865--23937895 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23937855 ATCAAATCGA
23937865 TAAGAAAATATTAC
1 TAAGAAAATATTAC
23937879 TAAGAAAATATTAC
1 TAAGAAAATATTAC
23937893 TAA
1 TAA
23937896 ACTTTCAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
TAAGAAAATATTAC
Found at i:23938895 original size:33 final size:29
Alignment explanation
Indices: 23938857--23938931 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 29
23938847 CAACTATAAG
23938857 TGCCGAATGCACATAT-TCACTTATACCTACCTA
1 TGCCGAATGCACATATAT-A--TAT-CC-ACCTA
23938890 TGCCGAATGCATACATATATATATCCACCTA
1 TGCCGAATGC--ACATATATATATCCACCTA
23938921 TGCCGAATGCA
1 TGCCGAATGCA
23938932 TACATATACA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
29 1 0.03
31 15 0.38
32 2 0.05
33 13 0.33
35 7 0.18
36 1 0.03
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (29 bp):
TGCCGAATGCACATATATATATCCACCTA
Found at i:23938908 original size:27 final size:27
Alignment explanation
Indices: 23938878--23938940 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 27
23938868 CATATTCACT
23938878 TATACCTACCTATGCCGAATGCATACATATA
1 TATACC-ACCTATGCCGAATGCATAC--A-A
23938909 TATATCCACCTATGCCGAATGCATAC-A
1 TATA-CCACCTATGCCGAATGCATACAA
23938936 TATAC
1 TATAC
23938941 ACACTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.03
27 5 0.16
31 23 0.74
32 2 0.06
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.29
Consensus pattern (27 bp):
TATACCACCTATGCCGAATGCATACAA
Found at i:23939194 original size:41 final size:41
Alignment explanation
Indices: 23939129--23939328 Score: 251
Period size: 41 Copynumber: 4.9 Consensus size: 41
23939119 TTTAAGCAGA
* * * * *
23939129 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCGTATAGTCTGATTCAG
* *
23939170 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
* * *
23939211 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
* *
23939252 TTCACCGGCACTTAGCCTGCT-GGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CGTATAGTCTGATTCAG
*
23939293 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGA
23939329 ACAATTTCAC
Statistics
Matches: 141, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 3 0.02
41 137 0.97
42 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
Found at i:23940681 original size:13 final size:13
Alignment explanation
Indices: 23940663--23940687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23940653 CCATCGAATG
23940663 CACACAAAATAAA
1 CACACAAAATAAA
23940676 CACACAAAATAA
1 CACACAAAATAA
23940688 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:23941166 original size:138 final size:138
Alignment explanation
Indices: 23940918--23941189 Score: 508
Period size: 138 Copynumber: 2.0 Consensus size: 138
23940908 CTGACTCCCA
23940918 AGTTGCTTCTTCAACTCCGTGTTTATGCCACAATACTTTAACTAACGGAATTTTCTTATTTCGTA
1 AGTTGCTTCTTCAACTCCGTGTTTATGCCACAATACTTTAACTAACGGAATTTTCTTATTTCGTA
*
23940983 ACTCTTTGATCTCACGAGCCAGAATGCTAATCGGTTCTTCTTCATATAACATATCAGAGTTAATT
66 ACTCCTTGATCTCACGAGCCAGAATGCTAATCGGTTCTTCTTCATATAACATATCAGAGTTAATT
23941048 TCAACCTT
131 TCAACCTT
23941056 AGTTGCTTCTTCAACTCCGTGTTTATGCCACAATACTTTAACTAACGGAATTTTCTTATTTCGTA
1 AGTTGCTTCTTCAACTCCGTGTTTATGCCACAATACTTTAACTAACGGAATTTTCTTATTTCGTA
* * *
23941121 ATTCCTTGATCTCACGAGCCAGAATGCTAATCGGTTCTTCTTCATATGACATATCAGGGTTAATT
66 ACTCCTTGATCTCACGAGCCAGAATGCTAATCGGTTCTTCTTCATATAACATATCAGAGTTAATT
23941186 TCAA
131 TCAA
23941190 TCTCCGTCGG
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 130 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (138 bp):
AGTTGCTTCTTCAACTCCGTGTTTATGCCACAATACTTTAACTAACGGAATTTTCTTATTTCGTA
ACTCCTTGATCTCACGAGCCAGAATGCTAATCGGTTCTTCTTCATATAACATATCAGAGTTAATT
TCAACCTT
Found at i:23945328 original size:29 final size:29
Alignment explanation
Indices: 23945269--23945626 Score: 412
Period size: 29 Copynumber: 11.9 Consensus size: 29
23945259 TAAAAAAAAT
*
23945269 CCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
23945299 CCTAATTTAATTAAAAACCTTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
23945328 CCTAATTTAATTAAAAACCCTAACCCTGA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
23945357 CTTAATTTAATTAAAAACCCTAACCCTAG
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* ** *
23945386 CTTAATTTAATTAAAATTTTA-ATTAAAAAACCTAA
1 CCTAATTTAATTAAAA----ACCCT---AACCCTAA
* *
23945421 CCTTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CC-TAA--T-TTA--ATTAAAAACCCTAACCCTAA
*
23945456 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
23945485 CTTAATTTAATTGAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
23945514 CCTAATTTAATTAAAAACCCTAACCCTAG
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
23945543 CTTGATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
23945572 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
23945602 CTTAATTTAATTAAAAACCCTAACC
1 CCTAATTTAATTAAAAACCCTAACC
23945627 ATTAACAAAA
Statistics
Matches: 283, Mismatches: 30, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
29 199 0.70
30 48 0.17
31 1 0.00
32 2 0.01
33 1 0.00
34 3 0.01
35 15 0.05
36 3 0.01
37 1 0.00
38 2 0.01
39 1 0.00
41 7 0.02
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.30
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:23945382 original size:58 final size:58
Alignment explanation
Indices: 23945269--23945626 Score: 473
Period size: 58 Copynumber: 5.9 Consensus size: 58
23945259 TAAAAAAAAT
* * *
23945269 CCTAATTTAATTAAAAACCCTAAACACTAACCTAATTTAATTAAAAACCTTAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAACTTAATTTAATTAAAAACCCTAACCCTAA
*
23945328 CCTAATTTAATTAAAAACCCTAACCCTGACTTAATTTAATTAAAAACCCTAACCCTAGCTTAATT
1 CCTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATTAAAAACCCTAA-CC---C-T-A--
23945393 TA
58 -A
** * * *
23945395 ATTAAAATTTTAATTAAAAAACCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCT--AA-TTTAATTAAAAACCCTAACCCTAACTTAATTTAATTAAAAACCCTAACCCTAA
* *
23945456 CTTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATTGAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATTAAAAACCCTAACCCTAA
* *
23945514 CCTAATTTAATTAAAAACCCTAACCCTAGCTTGATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATTAAAAACCCTAACCCTAA
23945572 CCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAACC
1 CCTAATTTAATTAAAAACCCT-AACCCTAACTTAATTTAATTAAAAACCCTAACC
23945627 ATTAACAAAA
Statistics
Matches: 265, Mismatches: 21, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
58 151 0.57
59 56 0.21
61 3 0.01
62 1 0.00
63 1 0.00
64 2 0.01
65 1 0.00
66 1 0.00
67 2 0.01
69 4 0.02
70 43 0.16
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.30
Consensus pattern (58 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATTAAAAACCCTAACCCTAA
Found at i:23945412 original size:70 final size:70
Alignment explanation
Indices: 23945333--23945471 Score: 233
Period size: 70 Copynumber: 2.0 Consensus size: 70
23945323 CCTAACCTAA
* * * *
23945333 TTTAATTAAAAACCCTAACCCTGACTTAATTTAATTAAAAACCCTAACCCTAGCTTAATTTAATT
1 TTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATT
23945398 AAAAT
66 AAAAT
*
23945403 TTTAATTAAAAAACCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATT
1 TTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATT
23945468 AAAA
66 AAAA
23945472 ACCCTAACCC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.34
Consensus pattern (70 bp):
TTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATT
AAAAT
Found at i:23945420 original size:41 final size:41
Alignment explanation
Indices: 23945362--23945442 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
23945352 CCTGACTTAA
* * *
23945362 TTTAATTAAAAACCCTAACCCTAGCTTAATTTAATTAAAAT
1 TTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAT
*
23945403 TTTAATTAAAAAACCTAACCTTAACCTAATTTAATTAAAA
1 TTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAA
23945443 ACCCTAACCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (41 bp):
TTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAT
Found at i:23948437 original size:35 final size:35
Alignment explanation
Indices: 23948390--23948460 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
23948380 TCAATATAAG
*
23948390 TTGCTCCGCTAGCAAGATGAGTCTGCACCATTGCC
1 TTGCTCCACTAGCAAGATGAGTCTGCACCATTGCC
23948425 TTGCTCCACTAGCAAGATGAGTCTGCACCATTGCC
1 TTGCTCCACTAGCAAGATGAGTCTGCACCATTGCC
23948460 T
1 T
23948461 CCAAGCTACG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (35 bp):
TTGCTCCACTAGCAAGATGAGTCTGCACCATTGCC
Found at i:23949070 original size:124 final size:124
Alignment explanation
Indices: 23948850--23949129 Score: 481
Period size: 124 Copynumber: 2.3 Consensus size: 124
23948840 CCACGAGGGC
*
23948850 GCGATTTTATACTATTTGCTCAGAAACGTTAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
*
23948915 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAGATAGCATCCTAGTAGAA
66 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * *
23948974 GCGATTTTATATTATTTGCTCACAAACGTCAAAAAAAATTATTTTTTACATGACCAACTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
* *
23949039 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTATAA
66 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
23949098 GCGATTTTATACTATTTGAC-CAGAAACGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
23949130 CTCGAAATAA
Statistics
Matches: 146, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 145 0.99
125 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:23964024 original size:54 final size:54
Alignment explanation
Indices: 23963966--23964068 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
23963956 TTATAATTTA
* *
23963966 TTTTTTAGTCACTCAACTATG-AAAATTACAAAATGGTCATTCAACTATTAGTAT
1 TTTTTTA-TCACTCAAATATGAAAAATTACAAAATGGTCACTCAACTATTAGTAT
* * *
23964020 TTTTTTATCACTCAAATATGAAAAATTATAGAATGGTCACTCAATTATT
1 TTTTTTATCACTCAAATATGAAAAATTACAAAATGGTCACTCAACTATT
23964069 TAATTTTGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 12 0.28
54 31 0.72
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (54 bp):
TTTTTTATCACTCAAATATGAAAAATTACAAAATGGTCACTCAACTATTAGTAT
Found at i:23968147 original size:29 final size:29
Alignment explanation
Indices: 23968115--23968177 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
23968105 TCATGTGTAT
* *
23968115 AATTGT-ACTAAATCAAAGTTCATGTATCA
1 AATTGTAACTAAACCAAAGTTCATATAT-A
*
23968144 AATTGTAAATTAAACCAAAGTTCATATATA
1 AATTGT-AACTAAACCAAAGTTCATATATA
23968174 AATT
1 AATT
23968178 TGATATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 6 0.21
30 5 0.17
31 18 0.62
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (29 bp):
AATTGTAACTAAACCAAAGTTCATATATA
Found at i:23969717 original size:27 final size:28
Alignment explanation
Indices: 23969668--23969720 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
23969658 AAAAAATCAA
* *
23969668 CTTTTAAGGGGCTCAAAAGTTTTTTTAG
1 CTTTTAAGAGCCTCAAAAGTTTTTTTAG
*
23969696 CTTTTAAGAGCCT-AAAATTTTTTTT
1 CTTTTAAGAGCCTCAAAAGTTTTTTT
23969721 TACCAACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.47
Consensus pattern (28 bp):
CTTTTAAGAGCCTCAAAAGTTTTTTTAG
Found at i:23969773 original size:32 final size:32
Alignment explanation
Indices: 23969696--23969776 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
23969686 GTTTTTTTAG
* *
23969696 CTTTTAAGAGCCT-AAAATTTTTTTTTACCAA
1 CTTTTAAGAACCTAAAAATTTTTTTCTACCAA
* * *
23969727 CTTTTGAGGGACCTAAAAATTTTTTTCT-CTAA
1 CTTTT-AAGAACCTAAAAATTTTTTTCTACCAA
23969759 CTTTTAAAGAACCTAAAA
1 CTTTT-AAGAACCTAAAA
23969777 CTCCATTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
31 5 0.12
32 23 0.57
33 12 0.30
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.41
Consensus pattern (32 bp):
CTTTTAAGAACCTAAAAATTTTTTTCTACCAA
Found at i:23979052 original size:2 final size:2
Alignment explanation
Indices: 23979045--23979069 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23979035 TGAAGGAAGA
23979045 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23979070 GCAGGTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23993087 original size:25 final size:26
Alignment explanation
Indices: 23993053--23993106 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
23993043 AGTACCAAAA
23993053 GTCTGCCGTA-TTGGCACGTTTCTTT
1 GTCTGCCGTATTTGGCACGTTTCTTT
23993078 GTCTGCCGTATTTTGGCACGTTTCTTT
1 GTCTGCCGTA-TTTGGCACGTTTCTTT
23993105 GT
1 GT
23993107 TTTTCTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 10 0.37
27 17 0.63
ACGTcount: A:0.07, C:0.22, G:0.24, T:0.46
Consensus pattern (26 bp):
GTCTGCCGTATTTGGCACGTTTCTTT
Found at i:24001109 original size:13 final size:13
Alignment explanation
Indices: 24001091--24001131 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
24001081 CTCAATTTTC
24001091 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
24001104 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
* *
24001117 TC-CTTCTTTCCT
1 TCTTTTCTTTCTT
24001129 TCT
1 TCT
24001132 CTGTTTCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TCTTTTCTTTCTT
Found at i:24021246 original size:25 final size:25
Alignment explanation
Indices: 24021228--24021357 Score: 88
Period size: 25 Copynumber: 5.2 Consensus size: 25
24021218 GAAGCTTTAG
24021228 AGAGCCA-TTAATCGGGAAGCTCATA
1 AGAGCCAGTT-ATCGGGAAGCTCATA
**
24021253 AGAGCCAGTTATCGGGAAGCTCCGA
1 AGAGCCAGTTATCGGGAAGCTCATA
* **
24021278 AGAGCCAATTAT-GGAGAAGCTCGCA
1 AGAGCCAGTTATCGG-GAAGCTCATA
* * *
24021303 GGAACCA-TATAAT-GGGAAGCTCGTA
1 AGAGCCAGT-T-ATCGGGAAGCTCATA
** * *
24021328 AGAGCCAAATATCGGGACGCTTATA
1 AGAGCCAGTTATCGGGAAGCTCATA
24021353 AGAGC
1 AGAGC
24021358 TGTGGTGTGT
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
24 5 0.06
25 74 0.87
26 6 0.07
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.18
Consensus pattern (25 bp):
AGAGCCAGTTATCGGGAAGCTCATA
Found at i:24024393 original size:2 final size:2
Alignment explanation
Indices: 24024388--24024419 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24024378 TTTTCCAGGG
24024388 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24024420 CTTTCAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:24031737 original size:103 final size:103
Alignment explanation
Indices: 24031558--24031754 Score: 274
Period size: 103 Copynumber: 1.9 Consensus size: 103
24031548 TATCAAGACC
* * *
24031558 GTATCAATACTTTGTAGGTTTTGTGAGAAACATAATGCTATTTTGGTATCGCTTTTAAGAATAGG
1 GTATCAATACTTTGTAGGTTTTGTGAAAAACATAATACCATTTTGGTATCGCTTTTAAGAATAGG
*
24031623 TATCGATAATTCAGAAAATATCGATACTTAATCAAAAG
66 TATCGATAATTCAGAAAATATCAATACTTAATCAAAAG
* *
24031661 GTATCTATACTTAT-TAGGTTTTGTGAAAAACGA-AATACCATTTTGGTATCGTTTTTAAGAGA-
1 GTATCAATACTT-TGTAGGTTTTGTGAAAAAC-ATAATACCATTTTGGTATCGCTTTTAAGA-AT
* *
24031723 AGGTATTGATAATTCATAAAATATCAATACTT
63 AGGTATCGATAATTCAGAAAATATCAATACTT
24031755 GGCCAAAAAG
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
103 80 0.96
104 3 0.04
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (103 bp):
GTATCAATACTTTGTAGGTTTTGTGAAAAACATAATACCATTTTGGTATCGCTTTTAAGAATAGG
TATCGATAATTCAGAAAATATCAATACTTAATCAAAAG
Found at i:24038319 original size:43 final size:42
Alignment explanation
Indices: 24038256--24038381 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 42
24038246 AGGACTCCGA
24038256 TATGTGTTTTTGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 TATGTGTTTTTGTGTAAGACCACGTCTGGGACGT-GGCATCG-C
*
24038300 T-TGTGTTTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTTGTGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* *** *
24038342 TATGTGATTACATGTAAGACTACGTCTGGGACGTTGGCAT
1 TATGTGTTTTTGTGTAAGACCACGTCTGGGACG-TGGCAT
24038382 TGTACTAGCT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
42 3 0.04
43 64 0.90
44 4 0.06
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.33
Consensus pattern (42 bp):
TATGTGTTTTTGTGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:24038962 original size:12 final size:12
Alignment explanation
Indices: 24038945--24038969 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24038935 TATCTGTTTA
24038945 TATATATATATG
1 TATATATATATG
24038957 TATATATATATG
1 TATATATATATG
24038969 T
1 T
24038970 GGAATGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:24039209 original size:25 final size:24
Alignment explanation
Indices: 24039133--24039223 Score: 101
Period size: 25 Copynumber: 3.7 Consensus size: 24
24039123 GCCTTGTAAA
*
24039133 GGGAAGCTCATAAGAGCCATAATC
1 GGGAAGCTCATAAGAGCCATTATC
* * * *
24039157 GGGAAGTTCACAAGAACCATATAAC
1 GGGAAGCTCATAAGAGCCAT-TATC
*
24039182 GGGAAGCTCATGAGAGCCAATTATC
1 GGGAAGCTCATAAGAGCC-ATTATC
*
24039207 GGGATGCTCATAAGAGC
1 GGGAAGCTCATAAGAGC
24039224 TACTAACTGG
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 17 0.32
25 34 0.64
26 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (24 bp):
GGGAAGCTCATAAGAGCCATTATC
Found at i:24040789 original size:21 final size:21
Alignment explanation
Indices: 24040760--24040816 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
24040750 AATTCTGGAA
* *
24040760 TTTTAAAAAATTATTTTGAAT
1 TTTTGAAAAATTATTTTAAAT
24040781 TTTTGAAAAATTATTTTAAAT
1 TTTTGAAAAATTATTTTAAAT
24040802 TTTTGAAAAATTATT
1 TTTTGAAAAATTATT
24040817 GTTTGATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTTGAAAAATTATTTTAAAT
Found at i:24040826 original size:21 final size:21
Alignment explanation
Indices: 24040760--24040827 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
24040750 AATTCTGGAA
*
24040760 TTTTAAAAAATTA-TTTTGAAT
1 TTTTGAAAAATTATTTTTG-AT
**
24040781 TTTTGAAAAATTATTTTAAAT
1 TTTTGAAAAATTATTTTTGAT
24040802 TTTTGAAAAATTATTGTTTGAT
1 TTTTGAAAAATTATT-TTTGAT
24040824 TTTT
1 TTTT
24040828 TTTGTAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
21 29 0.73
22 11 0.28
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTGAAAAATTATTTTTGAT
Found at i:24042884 original size:31 final size:30
Alignment explanation
Indices: 24042846--24042915 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
24042836 GGTTTGGAGT
*
24042846 TTTTAAAAATTTTGAAA-AATCTAATTAAAAA
1 TTTTAAAAACTTTGAAAGAAT-TAATT-AAAA
*
24042877 TTTTAAAAACTTTGAAAGGATTAATTAAAA
1 TTTTAAAAACTTTGAAAGAATTAATTAAAA
24042907 TTTCTAAAA
1 TTT-TAAAA
24042916 TTGAAGGGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 7 0.20
31 26 0.74
32 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (30 bp):
TTTTAAAAACTTTGAAAGAATTAATTAAAA
Found at i:24046848 original size:6 final size:6
Alignment explanation
Indices: 24046837--24046871 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
24046827 GTTTTAAGCA
24046837 TATATG TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
24046872 ATGAAAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:24050867 original size:27 final size:27
Alignment explanation
Indices: 24050837--24050892 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
24050827 TTTAAGGGCC
24050837 AAAATTTTTTTT-TACCAACTTTTAAGT
1 AAAATTTTTTTTCT-CCAACTTTTAAGT
24050864 AAAATTTTTTTTCTCCAACTTTTAAGT
1 AAAATTTTTTTTCTCCAACTTTTAAGT
24050891 AA
1 AA
24050893 CTTAAAACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.04, T:0.50
Consensus pattern (27 bp):
AAAATTTTTTTTCTCCAACTTTTAAGT
Found at i:24062593 original size:11 final size:11
Alignment explanation
Indices: 24062568--24062636 Score: 67
Period size: 11 Copynumber: 6.5 Consensus size: 11
24062558 ATTTTTTAAA
24062568 TTTTAAAATACTT
1 TTTTAAAATA--T
24062581 TTTTAAAAT-T
1 TTTTAAAATAT
*
24062591 TTTT--TA-AT
1 TTTTAAAATAT
24062599 T-TTAAAATAT
1 TTTTAAAATAT
24062609 TTTTAAAATAT
1 TTTTAAAATAT
*
24062620 TTTTAAAATAC
1 TTTTAAAATAT
24062631 TTTTAA
1 TTTTAA
24062637 TTTTTTTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
7 2 0.04
8 3 0.06
9 1 0.02
10 8 0.17
11 25 0.52
13 9 0.19
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:24062594 original size:30 final size:28
Alignment explanation
Indices: 24062558--24062626 Score: 102
Period size: 30 Copynumber: 2.4 Consensus size: 28
24062548 TTATTTATTT
24062558 ATTTTTTAAATTTTAAAATACTTTTTTAAA
1 ATTTTTTAAATTTTAAAATA--TTTTTAAA
*
24062588 ATTTTTTTAATTTTAAAATATTTTTAAA
1 ATTTTTTAAATTTTAAAATATTTTTAAA
24062616 ATATTTTTAAA
1 AT-TTTTTAAA
24062627 ATACTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 10 0.28
29 7 0.19
30 19 0.53
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTTTTAAATTTTAAAATATTTTTAAA
Found at i:24062603 original size:17 final size:17
Alignment explanation
Indices: 24062581--24062614 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24062571 TAAAATACTT
*
24062581 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
24062598 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
24062615 AATATTTTTA
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:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:24062664 original size:48 final size:51
Alignment explanation
Indices: 24062568--24062672 Score: 162
Period size: 48 Copynumber: 2.1 Consensus size: 51
24062558 ATTTTTTAAA
*
24062568 TTTTAAAATACTTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAAT-AT
1 TTTTAAAATAC-TTTTT-AAATTTTTTTAATTTTAAAATATTATTAAAATAAT
24062620 TTTTAAAATAC-TTTT-AATTTTTTTAATTTTAAAATATTATTAAAATAAT
1 TTTTAAAATACTTTTTAAATTTTTTTAATTTTAAAATATTATTAAAATAAT
24062669 TTTT
1 TTTT
24062673 TTATTTTTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
48 30 0.59
49 6 0.12
50 4 0.08
52 11 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (51 bp):
TTTTAAAATACTTTTTAAATTTTTTTAATTTTAAAATATTATTAAAATAAT
Found at i:24062680 original size:37 final size:34
Alignment explanation
Indices: 24062609--24062706 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 34
24062599 TTTAAAATAT
* *
24062609 TTTTAAAATATTTTTAAAATACTTTTAATTTTTTTAA
1 TTTTAAAATA-TTTTAAAATAATTTT--TTTTTTTTA
*
24062646 TTTTAAAATATTATTAAAATAATTTTTTTATTTTTG
1 TTTTAAAATATT-TTAAAATAATTTTTTT-TTTTTA
24062682 TTTT--AAT-TTTTAAAATAATTTTTTT
1 TTTTAAAATATTTTAAAATAATTTTTTT
24062707 GGTATTTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
32 16 0.29
33 2 0.04
34 3 0.05
35 3 0.05
36 10 0.18
37 22 0.39
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (34 bp):
TTTTAAAATATTTTAAAATAATTTTTTTTTTTTA
Found at i:24062719 original size:32 final size:32
Alignment explanation
Indices: 24062659--24062719 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
24062649 TAAAATATTA
* *
24062659 TTAAAATAATTTTTTTATTTTTGTTTTAATTT
1 TTAAAATAATTTTTTTATATTTGATTTAATTT
*
24062691 TTAAAATAATTTTTTTGGTATTT-ATTTAA
1 TTAAAATAATTTTTTT-ATATTTGATTTAA
24062720 AAAAACGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 21 0.84
33 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (32 bp):
TTAAAATAATTTTTTTATATTTGATTTAATTT
Found at i:24063981 original size:31 final size:29
Alignment explanation
Indices: 24063941--24064010 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
24063931 ATTTTTTTTG
* *
24063941 AGTTAAATTTAATTATCAATCTTTTAACAAA
1 AGTTGAATTTAATCATCAA-CTTTTAA-AAA
* * *
24063972 AGTTGAATTTGATCCTCAACTTTTCAAAA
1 AGTTGAATTTAATCATCAACTTTTAAAAA
24064001 AGTTGAATTT
1 AGTTGAATTT
24064011 TTGTTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 13 0.38
30 6 0.18
31 15 0.44
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (29 bp):
AGTTGAATTTAATCATCAACTTTTAAAAA
Found at i:24069200 original size:27 final size:27
Alignment explanation
Indices: 24069170--24069238 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
24069160 CGCCTATCTC
24069170 AGAGGCGCCAATGGTGGTCCCAATG-TG
1 AGAGGCGCCAATGGTGGTCCC-ATGTTG
* * *
24069197 AGAGGCGCCATTAGTGGTGCCATGTTG
1 AGAGGCGCCAATGGTGGTCCCATGTTG
*
24069224 AAAGGCGCCAATGGT
1 AGAGGCGCCAATGGT
24069239 CTGATTTTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.20
Consensus pattern (27 bp):
AGAGGCGCCAATGGTGGTCCCATGTTG
Found at i:24069321 original size:21 final size:19
Alignment explanation
Indices: 24069296--24069341 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
24069286 CAGAGAAACG
* *
24069296 GAAGAAATAAGAAGGAAGACA
1 GAAGAAAAAAAAAGGAA-A-A
24069317 GAAGAAAAAAAAAGGAAAA
1 GAAGAAAAAAAAAGGAAAA
24069336 GAAGAA
1 GAAGAA
24069342 GAAGGATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 15 0.65
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.02
Consensus pattern (19 bp):
GAAGAAAAAAAAAGGAAAA
Found at i:24071354 original size:25 final size:25
Alignment explanation
Indices: 24071245--24071403 Score: 165
Period size: 25 Copynumber: 6.6 Consensus size: 25
24071235 TTGGTATGCA
* *
24071245 CTAATGAA-CAGAGAGCACTAAAGTG
1 CTAAT-AATCAGAGAGCACCAACGTG
*
24071270 CT-AT-A-CAGAGAGCA-CAGATGTG
1 CTAATAATCAGAGAGCACCA-ACGTG
**
24071292 CT-A-AA-CAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACCAACGTG
24071314 CTAA-AATCAGAGAGCACCAACGTG
1 CTAATAATCAGAGAGCACCAACGTG
* * *
24071338 CTAGTAGTCAGAGAGCACTAACGTG
1 CTAATAATCAGAGAGCACCAACGTG
24071363 CTAATAATCAGAGAGCACCAACGTG
1 CTAATAATCAGAGAGCACCAACGTG
24071388 CTAATAATCAGAGAGC
1 CTAATAATCAGAGAGC
24071404 GCGCTAAAGT
Statistics
Matches: 115, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.01
22 33 0.29
23 3 0.03
24 20 0.17
25 58 0.50
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACCAACGTG
Found at i:24072407 original size:5 final size:5
Alignment explanation
Indices: 24072389--24072428 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
24072379 TGTTTTATGT
*
24072389 ATATA ATAATA ATATA ATATT ATAATA ATATA ATATA ATA
1 ATATA AT-ATA ATATA ATATA AT-ATA ATATA ATATA ATA
24072429 ACTTACTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:24072413 original size:16 final size:16
Alignment explanation
Indices: 24072389--24072429 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
24072379 TGTTTTATGT
24072389 ATATAATAATAATATA
1 ATATAATAATAATATA
*
24072405 ATATTATAATAATATA
1 ATATAATAATAATATA
24072421 ATATAATAA
1 ATATAATAA
24072430 CTTACTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATAATAATATA
Found at i:24072429 original size:8 final size:8
Alignment explanation
Indices: 24072394--24072423 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
24072384 TATGTATATA
24072394 ATAATAAT
1 ATAATAAT
*
24072402 ATAATATT
1 ATAATAAT
24072410 ATAATAAT
1 ATAATAAT
24072418 ATAATA
1 ATAATA
24072424 TAATAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATAAT
Found at i:24076716 original size:60 final size:60
Alignment explanation
Indices: 24076642--24076763 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
24076632 ATACTAAACT
* * * * *
24076642 AAACACAACAATTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
24076702 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
24076762 AA
1 AA
24076764 TATTCATACA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 4 0.07
60 52 0.93
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:24076929 original size:61 final size:61
Alignment explanation
Indices: 24076786--24076929 Score: 261
Period size: 61 Copynumber: 2.4 Consensus size: 61
24076776 AAATTACAAT
*
24076786 ATTACAATATTCATACAAAATACTAATCCAAAACTATAAAAACAAAATTAATTATAAAATA
1 ATTACAATATTCATACAAAATTCTAATCCAAAACTATAAAAACAAAATTAATTATAAAATA
* *
24076847 ATTACAATATTCATACAAAATTCTCATCCAAAACTATAAATACAAAATTAATTATAAAATA
1 ATTACAATATTCATACAAAATTCTAATCCAAAACTATAAAAACAAAATTAATTATAAAATA
24076908 ATTACAATATTCATACAAAATT
1 ATTACAATATTCATACAAAATT
24076930 ACAATATTCA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 80 1.00
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.31
Consensus pattern (61 bp):
ATTACAATATTCATACAAAATTCTAATCCAAAACTATAAAAACAAAATTAATTATAAAATA
Found at i:24076931 original size:19 final size:19
Alignment explanation
Indices: 24076907--24076968 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
24076897 ATTATAAAAT
24076907 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
24076926 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
24076947 AATTAGAATATTCATACAA
1 AATTACAATATTCATACAA
24076966 AAT
1 AAT
24076969 ACTAATCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 22 0.55
21 18 0.45
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:24076950 original size:21 final size:21
Alignment explanation
Indices: 24076902--24076967 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
24076892 AATTAATTAT
24076902 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
24076924 --AAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
24076943 AAAAAATTAGAATATTCATAC
1 AAAAAATTACAATATTCATAC
24076964 AAAA
1 AAAA
24076968 TACTAATCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 17 0.41
20 2 0.05
21 22 0.54
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:24078096 original size:19 final size:19
Alignment explanation
Indices: 24078069--24078105 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24078059 CAAATTATAT
*
24078069 TTATATAAAATTAATAATA
1 TTATATAAAAATAATAATA
*
24078088 TTATTTAAAAATAATAAT
1 TTATATAAAAATAATAAT
24078106 GAAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATATAAAAATAATAATA
Found at i:24078362 original size:6 final size:6
Alignment explanation
Indices: 24078351--24078375 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24078341 TTATGATGAT
24078351 TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA T
24078376 TTGAATATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:24079498 original size:23 final size:23
Alignment explanation
Indices: 24079470--24079521 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
24079460 GGATGCCACT
24079470 TTGCATCGAAGTGCCACTAACAC
1 TTGCATCGAAGTGCCACTAACAC
* * *
24079493 TTGCATCGTAGTGTCACTATCAC
1 TTGCATCGAAGTGCCACTAACAC
24079516 TTGCAT
1 TTGCAT
24079522 GCATAGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (23 bp):
TTGCATCGAAGTGCCACTAACAC
Found at i:24081211 original size:15 final size:15
Alignment explanation
Indices: 24081188--24081245 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
24081178 GTTAGGACAC
*
24081188 AACGTATTGAATTCT
1 AACGCATTGAATTCT
24081203 AACGCATTGAATTCT
1 AACGCATTGAATTCT
** *
24081218 AACG--TTGTGTCCT
1 AACGCATTGAATTCT
24081231 AACGCATTGAATTCT
1 AACGCATTGAATTCT
24081246 CGATAATGAG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
13 10 0.29
15 24 0.71
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (15 bp):
AACGCATTGAATTCT
Found at i:24084300 original size:14 final size:15
Alignment explanation
Indices: 24084269--24084305 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
24084259 AAATCTAGAG
*
24084269 AAATTAAATTATGTA
1 AAATTAAAATATGTA
24084284 AAATTAAAATA-GTA
1 AAATTAAAATATGTA
24084298 AAATTAAA
1 AAATTAAA
24084306 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
AAATTAAAATATGTA
Found at i:24085044 original size:125 final size:125
Alignment explanation
Indices: 24084831--24085324 Score: 765
Period size: 125 Copynumber: 4.0 Consensus size: 125
24084821 TTAGGTCCAA
* * * * *
24084831 GAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGCATAATGATG
1 GAAGAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGAATGATA
*
24084896 TTTGATAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTG
66 TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTG
* * *
24084956 GAAGAAATAATTTTGAGTTGACATTTCTAAGCAAATAGTATAAAATCGCTTCTAGCATAATGATG
1 GAAGAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGAATGATA
*
24085021 TTTGATAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTG
66 TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTG
* * *
24085081 GAAGAAATAATTTTGAGTTGACATTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTA
1 GAAGAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGAATGATA
* * *
24085146 TTTAAGAAGAATTTGTGAAATCGCGCCCTTGTGGACGCGCTTTTGCTACAGTAGGTCATG
66 TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTG
* * * * *
24085206 GAAGAAATAATTTCGAGTTTACTTTTCTGAGAAAATAGTATAAAATCGCTTCTAGCAGGAT-ACT
1 GAAGAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGAATGA-T
* *
24085270 ATTTGAGAAGAATTTGTGAAAGCACGCCCTCGTGGACGCGCTTTTGCTACAGTAG
65 ATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
24085325 CATGTTTGGG
Statistics
Matches: 346, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
125 346 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
GAAGAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGAATGATA
TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTG
Found at i:24088565 original size:64 final size:64
Alignment explanation
Indices: 24088486--24088622 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 64
24088476 ATCAAATAAA
* *
24088486 TTTAAGTTAAGGGTTACAG-TTTTTAAGTTCTA-GTTTAAAGTTTAAAAGTTAAGGGTTAAGGGT
1 TTTAAGTTAAGGGTTA-AGATTTTTAAGTT-GAGGGTTAAAGTTTAAAAGTTAAGGGTTAAGGGT
24088549 T
64 T
** ** *
24088550 TTTAAGTTAAGGGTTAAGATTTTTAAGTTGAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAAGATTTTTAAGTTGAGGGTTAAAGTTTAAAAGTTAAGGGTTAAGGGTT
24088614 TTTAA-TTAA
1 TTTAAGTTAA
24088623 ATTAGTTAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
63 7 0.11
64 57 0.89
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (64 bp):
TTTAAGTTAAGGGTTAAGATTTTTAAGTTGAGGGTTAAAGTTTAAAAGTTAAGGGTTAAGGGTT
Found at i:24088684 original size:68 final size:67
Alignment explanation
Indices: 24088569--24089567 Score: 953
Period size: 68 Copynumber: 14.8 Consensus size: 67
24088559 AGGGTTAAGA
* *
24088569 TTTTTAAGTTGAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAG-TTAG
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAG
24088632 GG
66 GG
* * ** * ** *
24088634 TTTTTAAGTTTAAGGGTTTAGGATTTTTAATTAAATTAGTTTAAGGTTTTTAAGTT-AA-GGGGT
1 TTTTTAAG-TTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTTAA-TTAAATTAGTT
24088697 TAGGG
63 TAGGG
* * * ** **
24088702 TTTTTAAATTTAAGGGTTTAGTGTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTT-AAGGAG-T
1 TTTTT-AAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTTAA-TTAAATTAGTT
*
24088765 TAAGG
63 TAGGG
* ** ** *
24088770 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTT-AA-GGGCT
1 TTTTTAAG-TTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTTAA-TTAAATTAGTT
24088833 TAGGG
63 TAGGG
* * **
24088838 TTTTTAATTTTAAGGGTTTAGGATTTTTAATTTAAGGG-TTAGGGTTTTTAAGTT-AA-GGGTTT
1 TTTTTAA-GTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTT
24088900 AGGG
64 AGGG
** *
24088904 TTTTTAA-TTAA-ATTAGTTAGGGTTTTTAAGTTTAAGGGTTTAGAGTTTTTAATTAAATTAGTT
1 TTTTTAAGTTAAGGGT--TTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTTAATTAAATTAGTT
24088967 TAGGG
63 TAGGG
* * *
24088972 TTTTTAAGTTAAGGG-TTAGGATTTTTAAATTTAAGGGTCTATGGTTTTTAATTAAATTAGTTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTT-AATTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTA
24089036 GGG
65 GGG
* *
24089039 TTTTTAAGTTAAGGGGTTAGGGTTTTTAAGTTTAAAGGTTTAGGGTTTTTAATTAAATTAGTTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTA
24089104 GGG
65 GGG
*
24089107 TTTTTAAGTTAAGGGTTATGGTTTAGGGTTTTTATTTTTAAGGGTTTAGGGTTTTTAATTAAATT
1 TTTTTAAGTTAA--G----GGTTTAGGGTTTTTA-ATTTAAGGGTTTAGGGTTTTTAATTAAATT
24089172 AGTTTAGGG
59 AGTTTAGGG
* * *
24089181 TTTTTAAGTTAAGGGCTTAGGGTTTTTAATTGTAAGGGTTTAGGGTTTTTAATTTAA--AGGTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAATT-TAAGGGTTTAGGGTTTTTAATTAAATTAGTTTA
24089244 GGG
65 GGG
* * *
24089247 TTTTAAAGTTAAGGGTTTAAGGTTTTTAATTTTAAGGGGTTAGGGTTTTTAATTAAATTAGTTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTA
24089312 GGG
65 GGG
* * *
24089315 TTTTTAAGTTAAGGG-TTAGAGTTTTTATGTTTAAGGGTTTATGGTTTTTAATTAAATTAGTTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTA-ATTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTA
24089379 GGG
65 GGG
* * ** * * *
24089382 TTTTTAAGTTATGGGTTTATGGTTTTTAATTTTAAGGGTTTAGAATTTTTAATTTAA--GGGTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTA
*
24089445 GAG
65 GGG
** * * * * * **
24089448 TTTTTAAGTTAAAAG-TTAAGGTTTTTAAGTTAAGGATTTAGTGTTTTTAATTTTAA-GGGTTTA
1 TTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTA
*
24089511 GGA
65 GGG
** * * *
24089514 TTTTTAA-TTAAATTAGTTTAGAGTTTTTAAGTTAAGGGTTGAGGGTTTTTAATT
1 TTTTTAAGTT-AA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATT
24089568 TTAAGAATTT
Statistics
Matches: 806, Mismatches: 88, Indels: 78
0.83 0.09 0.08
Matches are distributed among these distances:
63 1 0.00
64 22 0.03
65 39 0.05
66 140 0.17
67 165 0.20
68 364 0.45
69 10 0.01
70 1 0.00
72 1 0.00
74 63 0.08
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.49
Consensus pattern (67 bp):
TTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAG
GG
Found at i:24089571 original size:23 final size:22
Alignment explanation
Indices: 24088534--24089587 Score: 879
Period size: 23 Copynumber: 46.9 Consensus size: 22
24088524 AGTTTAAAAG
* *
24088534 TTAAGGGTTAAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
* * *
24088556 TTAAGGG-TTAAGATTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
* *
24088577 TTGAGGG-TTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
24088598 TTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* **
24088620 TAAATTAG-TTAGGGTTTTTAAGT
1 TTAA-GGGTTTAGGGTTTTTAA-T
*
24088643 TTAAGGGTTTAGGATTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** * *
24088665 TAAATTAGTTTAAGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
24088688 TTAAGGGGTTAGGGTTTTTAAAT
1 TTAAGGGTTTAGGGTTTTT-AAT
*
24088711 TTAAGGGTTTAGTGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
24088733 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
24088756 TTAAGGAG-TTAAGGTTTTTAAGT
1 TTAAGG-GTTTAGGGTTTTTAA-T
24088779 TTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
24088801 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
24088824 TTAAGGGCTTAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
24088847 TTAAGGGTTTAGGATTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
*
24088869 TTAAGGG-TTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
24088890 TTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* **
24088912 TAAATTAG-TTAGGGTTTTTAAGT
1 TTAA-GGGTTTAGGGTTTTTAA-T
*
24088935 TTAAGGGTTTAGAGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
24088957 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
24088980 TTAAGGG-TTAGGATTTTTAAAT
1 TTAAGGGTTTAGGGTTTTT-AAT
* *
24089002 TTAAGGGTCTATGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
24089024 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
24089047 TTAAGGGGTTAGGGTTTTTAAGT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
24089070 TTAAAGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
24089092 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
24089115 TTAAGGGTTATGGTTTAGGGTTTTTATTT
1 TTAA--G----GGTTTAGGGTTTTTA-AT
24089144 TTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
24089166 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
24089189 TTAAGGGCTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
24089211 TGTAAGGGTTTAGGGTTTTTAAT
1 T-TAAGGGTTTAGGGTTTTTAAT
* * *
24089234 TTAAAGG-TTAGGGTTTTAAAG
1 TTAAGGGTTTAGGGTTTTTAAT
*
24089255 TTAAGGGTTTAAGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
24089278 TTAAGGGGTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
24089300 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
* *
24089323 TTAAGGG-TTAGAGTTTTTATGT
1 TTAAGGGTTTAGGGTTTTTA-AT
*
24089345 TTAAGGGTTTATGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
24089367 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
* *
24089390 TTATGGGTTTATGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
**
24089413 TTAAGGGTTTAGAATTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* *
24089435 TTAAGGG-TTAGAGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
** * *
24089456 TTAAAAG-TTAAGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
* *
24089477 TTAAGGATTTAGTGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
24089500 TTAAGGGTTTAGGATTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** * *
24089522 TAAATTAGTTTAGAGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
24089545 TTAAGGGTTGAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
** *
24089568 TTAAGAATTTAGGGGTTTTA
1 TTAAGGGTTTAGGGTTTTTA
24089588 GGTAATAACT
Statistics
Matches: 814, Mismatches: 177, Indels: 81
0.76 0.17 0.08
Matches are distributed among these distances:
21 126 0.15
22 266 0.33
23 403 0.50
27 1 0.00
28 14 0.02
29 4 0.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (22 bp):
TTAAGGGTTTAGGGTTTTTAAT
Found at i:24089579 original size:45 final size:43
Alignment explanation
Indices: 24088534--24089587 Score: 814
Period size: 45 Copynumber: 23.5 Consensus size: 43
24088524 AGTTTAAAAG
* * * *
24088534 TTAAGGGTTAAGGGTTTTTAAGTTAAGGGTTAAGATTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAT
*
24088577 TTGAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAT
* ** *
24088620 TAAATTAG-TTAGGGTTTTTAAGTTTAAGGGTTTAGGATTTTTAAT
1 TTAA-GGGTTTAGGGTTTTTAAG-TTAAGGG-TTAGGGTTTTTAAT
* ** *
24088665 TAAATTAGTTTAAGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAAAT
1 TTAA-GGGTTTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTT-AAT
* * * *
24088711 TTAAGGGTTTAGTGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAAT
*
24088756 TTAAGGAG-TTAAGGTTTTTAAGTTTAAGGGTTTAGGGTTTTTAAT
1 TTAAGG-GTTTAGGGTTTTTAAG-TTAAGGG-TTAGGGTTTTTAAT
* **
24088801 TAAATTAGTTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAATT
1 TTAA-GGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAA-T
* * *
24088847 TTAAGGGTTTAGGATTTTTAATTTAAGGGTTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAT
**
24088890 TTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTAGGGTTTTTAAGT
1 TTAAGGGTTTAGGGTTTTTAAGTT-AA-GGGTTAGGGTTTTTAA-T
* * * *
24088935 TTAAGGGTTTAGAGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAAT
* * *
24088980 TTAAGGG-TTAGGATTTTTAAATTTAAGGGTCTATGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTT-AAGTTAAGGGT-TAGGGTTTTTAAT
* **
24089024 TAAATTAGTTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAAGT
1 TTAA-GGGTTTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAA-T
* * * *
24089070 TTAAAGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAAT
**
24089115 TTAAGGGTTATGGTTTAGGGTTTTTATTTTTAAGGGTTTAGGGTTTTTAAT
1 TTAA--G----GGTTTAGGGTTTTTA-AGTTAAGGG-TTAGGGTTTTTAAT
* **
24089166 TAAATTAGTTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAT
1 TTAA-GGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAT
* * * *
24089211 TGTAAGGGTTTAGGGTTTTTAATTTAAAGGTTAGGGTTTTAAAG
1 T-TAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAT
* *
24089255 TTAAGGGTTTAAGGTTTTTAATTTTAAGGGGTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAA-GTTAA-GGGTTAGGGTTTTTAAT
* ** * *
24089300 TAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTATGT
1 TTAA-GGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTA-AT
* * * *
24089345 TTAAGGGTTTATGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAAT
* * * **
24089390 TTATGGGTTTATGGTTTTTAATTTTAAGGGTTTAGAATTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAA-GTTAAGGG-TTAGGGTTTTTAAT
* ** * *
24089435 TTAAGGG-TTAGAGTTTTTAAGTTAAAAGTTAAGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAT
* * * *
24089477 TTAAGGATTTAGTGTTTTTAATTTTAAGGGTTTAGGATTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAA-GTTAAGGG-TTAGGGTTTTTAAT
* ** *
24089522 TAAATTAGTTTAGAGTTTTTAAGTTAAGGGTTGAGGGTTTTTAATT
1 TTAA-GGGTTTAGGGTTTTTAAGTTAAGGGTT-AGGGTTTTTAA-T
** *
24089568 TTAAGAATTTAGGGGTTTTA
1 TTAAGGGTTTAGGGTTTTTA
24089588 GGTAATAACT
Statistics
Matches: 817, Mismatches: 140, Indels: 106
0.77 0.13 0.10
Matches are distributed among these distances:
42 38 0.05
43 81 0.10
44 137 0.17
45 358 0.44
46 163 0.20
47 4 0.00
50 1 0.00
51 31 0.04
52 2 0.00
53 2 0.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (43 bp):
TTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAT
Found at i:24090898 original size:20 final size:20
Alignment explanation
Indices: 24090861--24090898 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24090851 TTTATTTTTA
*
24090861 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
24090881 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
24090899 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:24091898 original size:11 final size:11
Alignment explanation
Indices: 24091884--24091960 Score: 61
Period size: 11 Copynumber: 6.9 Consensus size: 11
24091874 TTAAATATGG
24091884 ATTTGAGAGAA
1 ATTTGAGAGAA
**
24091895 ATTTG-GAAGGG
1 ATTTGAG-AGAA
24091906 ATTTGAGAGCAA
1 ATTTGAGAG-AA
24091918 A-TTGAGAGGAA
1 ATTTGAGA-GAA
24091929 ATTT-AGAGAA
1 ATTTGAGAGAA
* *
24091939 AATTAAGAGGAA
1 ATTTGAGA-GAA
24091951 ATTTGAGAGA
1 ATTTGAGAGA
24091961 GGATTAGTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
10 7 0.13
11 31 0.60
12 14 0.27
ACGTcount: A:0.44, C:0.01, G:0.30, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:24091941 original size:22 final size:23
Alignment explanation
Indices: 24091906--24091960 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
24091896 TTTGGAAGGG
* *
24091906 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAGAGAAAATTAAGAGGAA
24091929 ATTT-AGAGAAAATTAAGAGGAA
1 ATTTGAGAGAAAATTAAGAGGAA
24091951 ATTTGAGAGA
1 ATTTGAGAGA
24091961 GGATTAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.47, C:0.02, G:0.27, T:0.24
Consensus pattern (23 bp):
ATTTGAGAGAAAATTAAGAGGAA
Found at i:24092510 original size:23 final size:24
Alignment explanation
Indices: 24092484--24092533 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
24092474 AAGTTTCTCA
24092484 AATTAT-ATT-TATACAAAATTATT
1 AATTATCATTATATACAAAATT-TT
*
24092507 AATTATCATTATATACAAAGTTTT
1 AATTATCATTATATACAAAATTTT
24092531 AAT
1 AAT
24092534 GAAAAAGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 8 0.33
25 10 0.42
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTATCATTATATACAAAATTTT
Found at i:24095161 original size:26 final size:26
Alignment explanation
Indices: 24095090--24095161 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
24095080 TATGGGCTAG
* *
24095090 TTTGACAA-TGCTTTTAAAAAGTGAT
1 TTTGAAAAGTGCTTTTAAAAAATGAT
* * *
24095115 TTTGAAAAGTGACGTGT-AAAAATGCT
1 TTTGAAAAGTG-CTTTTAAAAAATGAT
*
24095141 TTTGAGAAGTGCTTTTAAAAA
1 TTTGAAAAGTGCTTTTAAAAA
24095162 GTTTGGTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
25 10 0.28
26 23 0.64
27 3 0.08
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (26 bp):
TTTGAAAAGTGCTTTTAAAAAATGAT
Found at i:24101987 original size:5 final size:5
Alignment explanation
Indices: 24101977--24102160 Score: 368
Period size: 5 Copynumber: 36.8 Consensus size: 5
24101967 TACTGTTCAT
24101977 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
24102027 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
24102077 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
24102127 TATTA TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATT
24102161 GACAATTGAA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 179 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:24105134 original size:31 final size:31
Alignment explanation
Indices: 24105071--24105136 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
24105061 AAGTTGTGGA
* * *
24105071 TTTAGTCCCTGTATTTTTTGAATTTATCAAT
1 TTTAGTCCCTATACTTTTTGAATTTATAAAT
*
24105102 TTTAGTCTCTATACTTTTTGAATTT-TGAAAT
1 TTTAGTCCCTATACTTTTTGAATTTAT-AAAT
24105133 TTTA
1 TTTA
24105137 ATCTAGACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (31 bp):
TTTAGTCCCTATACTTTTTGAATTTATAAAT
Found at i:24110557 original size:25 final size:25
Alignment explanation
Indices: 24110508--24110571 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
24110498 TTTAATTGAA
* **
24110508 TTTTAATAAATTTATATATTTTTAT-
1 TTTTAA-AATTTTATATATAATTATC
24110533 TTATTAAAATTTTATATATAATTATC
1 TT-TTAAAATTTTATATATAATTATC
*
24110559 TTTTAACATTTTA
1 TTTTAAAATTTTA
24110572 AATGTTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 27 0.82
26 6 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTAAAATTTTATATATAATTATC
Found at i:24116702 original size:30 final size:31
Alignment explanation
Indices: 24116663--24116722 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
24116653 GGAGGTGGGA
*
24116663 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
24116694 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
24116723 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:24123621 original size:49 final size:50
Alignment explanation
Indices: 24123519--24123691 Score: 240
Period size: 49 Copynumber: 3.5 Consensus size: 50
24123509 ATTTGGGTAA
* *
24123519 AGAGGTCCCATGTAAGACCATGTGTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
* *
24123569 AGAGGTCCCATGTAAGACCATGTCT-GGATATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
* * *
24123618 AGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
** *
24123668 AGAACATCTCATGTAAGACCATGT
1 AG-AGGTCCCATGTAAGACCATGT
24123692 TGAATGAGTG
Statistics
Matches: 109, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
49 46 0.42
50 46 0.42
51 17 0.16
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
Found at i:24125426 original size:20 final size:21
Alignment explanation
Indices: 24125383--24125427 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
24125373 GTAAGGTGTT
*
24125383 AATATGCATAATGGAATAATA
1 AATATGCATAACGGAATAATA
24125404 AATATG-ATAACGTGAATAA-A
1 AATATGCATAACG-GAATAATA
24125424 AATA
1 AATA
24125428 ATATGAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.27
Consensus pattern (21 bp):
AATATGCATAACGGAATAATA
Found at i:24125789 original size:22 final size:23
Alignment explanation
Indices: 24125764--24125823 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
24125754 ATAAAAAAAA
*
24125764 CATATAATTATGTATATATAT-T
1 CATATAATTATGTATATAGATAT
* **
24125786 CATAAAAAAATGTATATAGATAT
1 CATATAATTATGTATATAGATAT
*
24125809 -ATATAGTTATGTATA
1 CATATAATTATGTATA
24125824 AAAATATGAG
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (23 bp):
CATATAATTATGTATATAGATAT
Found at i:24126636 original size:15 final size:15
Alignment explanation
Indices: 24126616--24126646 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24126606 TGCATATAAG
24126616 AGAAAATAAATAAAA
1 AGAAAATAAATAAAA
24126631 AGAAAATAAATAAAA
1 AGAAAATAAATAAAA
24126646 A
1 A
24126647 AGGGGAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (15 bp):
AGAAAATAAATAAAA
Found at i:24128386 original size:28 final size:28
Alignment explanation
Indices: 24128350--24128409 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
24128340 GAAAGAAAGG
*
24128350 AAATTATATATGAA-AATAAATTTAAAAT
1 AAATAATATATGAATAA-AAATTTAAAAT
* *
24128378 AAATAATATATGAATGAAAATTTGAAAT
1 AAATAATATATGAATAAAAATTTAAAAT
24128406 AAAT
1 AAAT
24128410 TAAAAATACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (28 bp):
AAATAATATATGAATAAAAATTTAAAAT
Found at i:24128778 original size:18 final size:18
Alignment explanation
Indices: 24128747--24128781 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24128737 ATAGATAAAT
24128747 AAACATATAAACTAATAC
1 AAACATATAAACTAATAC
24128765 AAACA-ATAATACTAATA
1 AAACATATAA-ACTAATA
24128782 ATTATAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.23
Consensus pattern (18 bp):
AAACATATAAACTAATAC
Found at i:24128807 original size:15 final size:15
Alignment explanation
Indices: 24128778--24128817 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
24128768 CAATAATACT
* *
24128778 AATAATTATAGTAAC
1 AATAATAATATTAAC
*
24128793 ATTAATAATATTAAC
1 AATAATAATATTAAC
24128808 AATAATAATA
1 AATAATAATA
24128818 AACAATAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (15 bp):
AATAATAATATTAAC
Found at i:24137467 original size:23 final size:23
Alignment explanation
Indices: 24137433--24137481 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
24137423 TTCATATATA
*
24137433 TTTTAAAAAATATTATTCAGGTT
1 TTTTAAAAAATATTATTCAAGTT
* *
24137456 TTTTAAATAATATTATTTAAGTT
1 TTTTAAAAAATATTATTCAAGTT
24137479 TTT
1 TTT
24137482 CATTACATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (23 bp):
TTTTAAAAAATATTATTCAAGTT
Found at i:24137951 original size:39 final size:39
Alignment explanation
Indices: 24137823--24137957 Score: 119
Period size: 40 Copynumber: 3.4 Consensus size: 39
24137813 CGTTTGGACA
* * *
24137823 AAAAACGCCACTAAAAAATAAGCATTAGCGGCGCTTATAT
1 AAAAACGCCGCT-AAAAATAAGCATTAGCGGCGCTTTTTT
** * * * *
24137863 AAAAACGCCGCTAAAGGTCGAGAACTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTTTT
* * * *
24137903 GAAACCGCCGCTAAAAATAAGCATTAGTGGCGTTTTTTT
1 AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTT
*
24137942 AAAAGCGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
24137958 GTCTAAGCCC
Statistics
Matches: 73, Mismatches: 21, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
38 5 0.07
39 28 0.38
40 40 0.55
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTT
Found at i:24138053 original size:41 final size:41
Alignment explanation
Indices: 24137994--24138266 Score: 431
Period size: 41 Copynumber: 6.7 Consensus size: 41
24137984 GAGTTTTTGG
*
24137994 GGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
*
24138035 GGCCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
*
24138076 GGCCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
*
24138117 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* * *
24138158 GACCTTTAACGGCGTTTTTAAAAAAGCGCCGCTAATGCT-T
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* * * *
24138198 CGGCCTTTAGCAGCTTTTTTTAAAAAGCGCCGCTAATGCTCG
1 -GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
24138240 GGCCTTTAGCGGCGTTTTTGAAAAAGC
1 GGCCTTTAGCGGCGTTTTTGAAAAAGC
24138267 AGATAGTTCG
Statistics
Matches: 214, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 1 0.00
41 213 1.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.30
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
Found at i:24139014 original size:7 final size:7
Alignment explanation
Indices: 24139004--24139037 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
24138994 TAAGGTTTAA
24139004 GGGTTAG
1 GGGTTAG
24139011 GGGTTAG
1 GGGTTAG
*
24139018 GGGTTTG
1 GGGTTAG
*
24139025 GGGTTTG
1 GGGTTAG
24139032 GGGTTA
1 GGGTTA
24139038 AGAGTTAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.56, T:0.35
Consensus pattern (7 bp):
GGGTTAG
Found at i:24139082 original size:138 final size:128
Alignment explanation
Indices: 24138829--24139130 Score: 312
Period size: 138 Copynumber: 2.3 Consensus size: 128
24138819 CAAGTTATGG
* *
24138829 TTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAA-TGTTTAGGGGTTAGGAATTTGGGG
1 TTTAAATTAATTAGTGT-TTTTAATTTATATATTAAATAAGTGGTTAGGGGTTAGGAATTTGGGG
* * *
24138893 TCGGGTTAGGGTTTAGGGTTTAAGGATTAGAGATTTAGGGTCGAGTTAGGGTTTAAGATTTAGGA
65 TCGGGTTAGAGTTTAGGATTTAAGGATTAGAGATTCAGGGTCGAGTTAGGGTTTAAGATTTA-GA
**
24138958 TTTAAATTAATTAGTGTTTTTAATTTATATATTAAATAAGGTTTAAGGGTTAGGGGTTAGGGGTT
1 TTTAAATTAATTAGTGTTTTTAATTTATATATTAAATAA-G--T---GGTTAGGGGTTAGGAATT
* * * * *
24139023 TGGGGTTTGGGGTTAAGAG-TTAGTGATTTAGGGTTTAGAGATTCGGGGTCGGGTTAGGGTTTAA
60 TGGGG--TCGGGTT-AGAGTTTAG-GATTTAAGGATTAGAGATTCAGGGTCGAGTTAGGGTTTAA
*
24139087 GGTTTAGA
121 GATTTAGA
* *
24139095 -TT-AATT-AGTA-T-TTTTTAATTTATATACTAAATAAGT
1 TTTAAATTAATTAGTGTTTTTAATTTATATATTAAATAAGT
24139131 TCTTATATAA
Statistics
Matches: 147, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
128 22 0.15
129 17 0.12
131 1 0.01
132 23 0.16
133 1 0.01
134 3 0.02
135 24 0.16
136 2 0.01
137 12 0.08
138 42 0.29
ACGTcount: A:0.27, C:0.02, G:0.28, T:0.42
Consensus pattern (128 bp):
TTTAAATTAATTAGTGTTTTTAATTTATATATTAAATAAGTGGTTAGGGGTTAGGAATTTGGGGT
CGGGTTAGAGTTTAGGATTTAAGGATTAGAGATTCAGGGTCGAGTTAGGGTTTAAGATTTAGA
Found at i:24140038 original size:130 final size:126
Alignment explanation
Indices: 24139882--24140308 Score: 412
Period size: 128 Copynumber: 3.4 Consensus size: 126
24139872 TTTTAGCATA
* *
24139882 ACAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTCAAAAGGTAAGCAA
1 ACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTT-----GATAAGCAA
*
24139947 TAGCGGCGTTTTT-TAAAAAACGCCACAAAA-ATAATTTTA-TTTT-AAAAATAGCGCCATTTTA
61 TAGCGGCGTTTTTATAAAAAACGCCACAAAATA-AAATTTACTTTTAAAAAATAGCGCCATTTT-
24140008 TAT
124 TAT
*
24140011 AGCAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTTGATGAGCAATAGC
1 A-CAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTTGATAAGCAATAGC
*
24140076 GGCGTTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGCCATTTTTTT
65 GGCGTTTTTATAAAAAACGCCACAAAATAAAATTTACTTTT-AAAAAATAGCGCCATTTTTAT
** ** * *
24140139 A-AATTC--CCTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTGTGTATAA--AA-CGC
1 ACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTTG-ATAAGCAATAGC
* **** *
24140198 CGCAATAGATAAGCAATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGTCATTT
65 GGC----G-T-TTTTATAAAAAACGCCACAAAATAAAATTTACTTTT-AAAAAATAGCGCCATTT
*
24140263 TTTT
123 TTAT
** **
24140267 A-AATTC--CCTCGTTTTATTCCAAATAAAATAATTTTTTGCGGC
1 ACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGC
24140309 ATTTGTGTAA
Statistics
Matches: 267, Mismatches: 18, Indels: 27
0.86 0.06 0.09
Matches are distributed among these distances:
122 4 0.01
123 2 0.01
124 40 0.15
125 23 0.09
126 27 0.10
127 6 0.02
128 98 0.37
129 18 0.07
130 49 0.18
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (126 bp):
ACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTTGATAAGCAATAGCG
GCGTTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAATAGCGCCATTTTTAT
Found at i:24140245 original size:128 final size:128
Alignment explanation
Indices: 24140085--24140486 Score: 563
Period size: 128 Copynumber: 3.0 Consensus size: 128
24140075 CGGCGTTTTT
24140085 ATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGCCATTTTTTTAAATTCCCTCG
1 ATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGCCATTTTTTTAAATTCCCTCG
*
24140150 TTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTGTGTATAAAACGCCGCAATAGATAAGCA
66 TTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTGTGTAAAAAACGCCGCAATAGATAAGCA
*
24140213 ATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGTCATTTTTTTAAATTCCCTCG
1 ATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGCCATTTTTTTAAATTCCCTCG
* *
24140278 TTTTATTCCAAATAAAATAATTTTTTGCGGCATTTGTGTAAAAAACGTCGCAATAGATAAGCAAT
66 TTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTGTGTAAAAAACGCCGCAATAGATAAGC---
24140343 A
128 A
24140344 GCGGCGTTTTTATAAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGCCATTTTTT
1 -----------AT-AAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGCCATTTTTT
* * * * *
24140409 AAAATTCCCTCGTTTTATTCCAAATAGAATAATTTTTTACGGCGTTT-TTTACACAAACGCCGCA
54 TAAATTCCCTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTGTGTA-AAAAACGCCGCA
*
24140473 ATAGATAAGAA
118 ATAGATAAGCA
24140484 ATA
1 ATA
24140487 GCGGCGTTTT
Statistics
Matches: 245, Mismatches: 13, Indels: 32
0.84 0.04 0.11
Matches are distributed among these distances:
128 124 0.51
129 2 0.01
131 1 0.00
140 1 0.00
142 5 0.02
143 112 0.46
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (128 bp):
ATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGCCATTTTTTTAAATTCCCTCG
TTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTGTGTAAAAAACGCCGCAATAGATAAGCA
Found at i:24140367 original size:143 final size:142
Alignment explanation
Indices: 24140215--24140560 Score: 552
Period size: 143 Copynumber: 2.4 Consensus size: 142
24140205 GATAAGCAAT
*
24140215 AAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGTCATTTTTTTAAATTCCCTCGTT
1 AAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCG-CATTTTTTAAAATTCCCTCGTT
* * *
24140280 TTATTCCAAATAAAATAATTTTTTGCGGCATTTGTGTA-AAAAACGTCGCAATAGATAAGCAATA
65 TTATTCCAAATAAAATAATTTTTTACGGCATTT-TGTACAAAAACGCCGCAATAGATAAGAAATA
24140344 GCGGCGTTTTTATA
129 GCGGCGTTTTTATA
24140358 AAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGCCATTTTTTAAAATTCCCTCGTT
1 AAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCG-CATTTTTTAAAATTCCCTCGTT
* * * *
24140423 TTATTCCAAATAGAATAATTTTTTACGGCGTTTTTTACACAAACGCCGCAATAGATAAGAAATAG
65 TTATTCCAAATAAAATAATTTTTTACGGCATTTTGTACAAAAACGCCGCAATAGATAAGAAATAG
24140488 CGGCGTTTTTATA
130 CGGCGTTTTTATA
* *
24140501 AAAAAATGCCACAAAATAAAATTTACTTTT-AAAAAATAGTGCAATTTTTTAAAATTCCCT
1 AAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGC-ATTTTTTAAAATTCCCT
24140561 ACCCCCTCCC
Statistics
Matches: 190, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
141 1 0.01
142 30 0.16
143 159 0.84
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (142 bp):
AAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGCATTTTTTAAAATTCCCTCGTTT
TATTCCAAATAAAATAATTTTTTACGGCATTTTGTACAAAAACGCCGCAATAGATAAGAAATAGC
GGCGTTTTTATA
Found at i:24140593 original size:21 final size:20
Alignment explanation
Indices: 24140567--24140611 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
24140557 CCCTACCCCC
*
24140567 TCCCCCCGAAATCCCTAACTT
1 TCCCCCCAAAATCCCTAA-TT
*
24140588 TCCCCCTAAAATCCCTAATT
1 TCCCCCCAAAATCCCTAATT
24140608 TCCC
1 TCCC
24140612 ACATCCAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.24, C:0.47, G:0.02, T:0.27
Consensus pattern (20 bp):
TCCCCCCAAAATCCCTAATT
Found at i:24143839 original size:12 final size:12
Alignment explanation
Indices: 24143822--24143851 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
24143812 ATTTATCACC
24143822 AATTTGCTTTAA
1 AATTTGCTTTAA
24143834 AATTTGCTTTAA
1 AATTTGCTTTAA
24143846 AATTTG
1 AATTTG
24143852 ATCTGTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (12 bp):
AATTTGCTTTAA
Found at i:24145174 original size:43 final size:43
Alignment explanation
Indices: 24145099--24145207 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
24145089 TAAAGATTAT
* * * * *
24145099 GTTTTTAGCGGCGTTTGTGATAAAAAGTGCCGCTAAAGGTTTTG
1 GTTTTTAGCGGCGTTTGTGGT-AAAAGCGCCGCTAAAAGTCTTA
24145143 GTTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAAGTCTTA
1 GTTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAAGTCTTA
* *
24145186 GTCTTTAGCAGCGTTTGTGGTA
1 GTTTTTAGCGGCGTTTGTGGTA
24145208 GGTCTTGGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
43 38 0.66
44 20 0.34
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (43 bp):
GTTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAAGTCTTA
Found at i:24147314 original size:30 final size:30
Alignment explanation
Indices: 24147250--24147307 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24147240 TATTTAAGTT
*
24147250 AATTAAGTTATTCGGATCAACTTGAATAAA
1 AATTAAGTTATTCGGATCAACTCGAATAAA
* * *
24147280 AATTAAGTTTTTCGGTTTAACTCGAATA
1 AATTAAGTTATTCGGATCAACTCGAATA
24147308 TGAATTACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (30 bp):
AATTAAGTTATTCGGATCAACTCGAATAAA
Found at i:24147804 original size:29 final size:30
Alignment explanation
Indices: 24147745--24147808 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
24147735 ATTGGAATTG
* **
24147745 AATTTTAAAATATGAAAAGTAAAGAGTCTA
1 AATTCTAAAATATGAAAAGTAAAGAAACTA
* *
24147775 AATTCTAAAATAT-AAAATTATAGAAACTA
1 AATTCTAAAATATGAAAAGTAAAGAAACTA
24147804 AATTC
1 AATTC
24147809 CAAATCTACA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (30 bp):
AATTCTAAAATATGAAAAGTAAAGAAACTA
Found at i:24148590 original size:6 final size:6
Alignment explanation
Indices: 24148582--24148631 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
24148572 ATTTAATAAA
* *
24148582 TAAAAA TAAAAT TATAAAAC TAAAAC TAAAAC TAAAAC TAAAATC TAAAA
1 TAAAAC TAAAAC TA-AAA-C TAAAAC TAAAAC TAAAAC TAAAA-C TAAAA
24148632 GTCTAAACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
6 25 0.64
7 12 0.31
8 2 0.05
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAAAC
Found at i:24148631 original size:7 final size:6
Alignment explanation
Indices: 24148596--24148631 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
24148586 AATAAAATTA
24148596 TAAAAC TAAAAC TAAAAC TAAAAC TAAAATC TAAAA
1 TAAAAC TAAAAC TAAAAC TAAAAC TAAAA-C TAAAA
24148632 GTCTAAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAC
Found at i:24148771 original size:27 final size:27
Alignment explanation
Indices: 24148706--24148781 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
24148696 GTAGTGATTC
* *
24148706 AATTCGGTTAATTCGGGTAATTCGGGT
1 AATTCAGTTAATTCGGTTAATTCGGGT
*
24148733 AATTCAGTTAATTCAGTTAATTCGGGT
1 AATTCAGTTAATTCGGTTAATTCGGGT
* *
24148760 AATT-TGTATAATTTGGTTAATT
1 AATTCAGT-TAATTCGGTTAATT
24148782 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (27 bp):
AATTCAGTTAATTCGGTTAATTCGGGT
Found at i:24148782 original size:9 final size:9
Alignment explanation
Indices: 24148706--24148781 Score: 73
Period size: 9 Copynumber: 8.4 Consensus size: 9
24148696 GTAGTGATTC
24148706 AATTCGGTT
1 AATTCGGTT
*
24148715 AATTCGGGT
1 AATTCGGTT
*
24148724 AATTCGGGT
1 AATTCGGTT
*
24148733 AATTCAGTT
1 AATTCGGTT
*
24148742 AATTCAGTT
1 AATTCGGTT
*
24148751 AATTCGGGT
1 AATTCGGTT
*
24148760 AATT-TGTAT
1 AATTCGGT-T
*
24148769 AATTTGGTT
1 AATTCGGTT
24148778 AATT
1 AATT
24148782 TTTAACCAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
8 1 0.02
9 54 0.95
10 2 0.04
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:24153071 original size:41 final size:41
Alignment explanation
Indices: 24153022--24153171 Score: 201
Period size: 41 Copynumber: 3.6 Consensus size: 41
24153012 GACTTTAAGT
24153022 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
24153063 CTAGCAGGCTACGTGCCGATGATCTGAATCTGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * **
24153104 CTAGCAGGCTACGTACCGGTGATCTGAATCAAGCTATAAGT
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
24153145 CTAGCAGTCTATGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
24153172 TTTTAATTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 90 0.95
42 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:24160057 original size:41 final size:41
Alignment explanation
Indices: 24160008--24160148 Score: 219
Period size: 41 Copynumber: 3.4 Consensus size: 41
24159998 GACTTTAAGT
*
24160008 CTAGCAGGCTACGTGCCGGTGATCTGAATCAAGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
24160049 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * **
24160090 CTAGCAGGCTACGTACCGGTGATCTAAATCAGGCTATAAGT
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
24160131 CTAGCAGGCTATGTGCCG
1 CTAGCAGGCTACGTGCCG
24160149 TTGAATCTAT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:24160651 original size:24 final size:24
Alignment explanation
Indices: 24160624--24160670 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
24160614 TTCATGTGAA
24160624 CATAGACTCATTCAGCTT-TAATTT
1 CATA-ACTCATTCAGCTTCTAATTT
*
24160648 CATATCTCATTCAGCTTCTAATT
1 CATAACTCATTCAGCTTCTAATT
24160671 CAATTTACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.43
Consensus pattern (24 bp):
CATAACTCATTCAGCTTCTAATTT
Found at i:24161472 original size:46 final size:46
Alignment explanation
Indices: 24161405--24161589 Score: 325
Period size: 46 Copynumber: 4.0 Consensus size: 46
24161395 ACATTGTTAT
* * *
24161405 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTAGTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
24161451 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
24161497 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
24161543 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
24161589 A
1 A
24161590 CTTTGCCATG
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:24162740 original size:273 final size:273
Alignment explanation
Indices: 24162253--24162798 Score: 1022
Period size: 273 Copynumber: 2.0 Consensus size: 273
24162243 ACTTATTCAT
*
24162253 AGTAACTTACAAAATCACCCATGGAATCAAAAACTAATGAATTCAATAGTTGGACCTAGTTGTAA
1 AGTAACTTACAAAATCACCCATGGAATAAAAAACTAATGAATTCAATAGTTGGACCTAGTTGTAA
*
24162318 AAGTCACAAAACATAAAAATTTCAAATAAAAAGCAAGAATTGAACTCACATGGTATAAAAATATG
66 AAGTCACAAAACATAAAAATTTCAAAGAAAAAGCAAGAATTGAACTCACATGGTATAAAAATATG
*
24162383 AGAAACCAGCTTGTTTCAGACCTCCTATGGCGTTTTTGCTGATAAATTATGAAGAGATCTCTAGA
131 AAAAACCAGCTTGTTTCAGACCTCCTATGGCGTTTTTGCTGATAAATTATGAAGAGATCTCTAGA
24162448 TTTTTCACTTTTATCTTTGTTTTATATATTTAATTTGTAAAATTTCCAATTTTGCCCTTATTTCT
196 TTTTTCACTTTTATCTTTGTTTTATATATTTAATTTGTAAAATTTCCAATTTTGCCCTTATTTCT
24162513 CCTTAATTTCTGA
261 CCTTAATTTCTGA
24162526 AGTAACTTACAAAATCACCCATGGAATAAAAAACTAATGAATTCAATAGTTGGACCTAGTTGTAA
1 AGTAACTTACAAAATCACCCATGGAATAAAAAACTAATGAATTCAATAGTTGGACCTAGTTGTAA
* *
24162591 AAGTCACAAAACATGAAAATTTCAAAGAAAAAGCAAGAATTGAACTCACATGGTGTAAAAATATG
66 AAGTCACAAAACATAAAAATTTCAAAGAAAAAGCAAGAATTGAACTCACATGGTATAAAAATATG
*
24162656 AAAAATCAGCTTGTTTCAGACCTCCTATGGCGTTTCTT-CTGATAAATTATGAAGAGATCTCTAG
131 AAAAACCAGCTTGTTTCAGACCTCCTATGGCGTTT-TTGCTGATAAATTATGAAGAGATCTCTAG
24162720 ATTTTTCACTTTTATCTTTGTTTTATATATTTAATTTGTAAAATTTCCAATTTTGCCCTTATTTC
195 ATTTTTCACTTTTATCTTTGTTTTATATATTTAATTTGTAAAATTTCCAATTTTGCCCTTATTTC
24162785 TCCTTAATTTCTGA
260 TCCTTAATTTCTGA
24162799 TGATTTTTCT
Statistics
Matches: 266, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
273 264 0.99
274 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (273 bp):
AGTAACTTACAAAATCACCCATGGAATAAAAAACTAATGAATTCAATAGTTGGACCTAGTTGTAA
AAGTCACAAAACATAAAAATTTCAAAGAAAAAGCAAGAATTGAACTCACATGGTATAAAAATATG
AAAAACCAGCTTGTTTCAGACCTCCTATGGCGTTTTTGCTGATAAATTATGAAGAGATCTCTAGA
TTTTTCACTTTTATCTTTGTTTTATATATTTAATTTGTAAAATTTCCAATTTTGCCCTTATTTCT
CCTTAATTTCTGA
Found at i:24163135 original size:16 final size:17
Alignment explanation
Indices: 24163089--24163136 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
24163079 AAATTCTTTT
*
24163089 TAAACCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
24163106 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
24163123 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
24163137 TTCTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:24165657 original size:12 final size:11
Alignment explanation
Indices: 24165640--24165672 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
24165630 AGCATGCATG
24165640 CATACATAGATA
1 CATACATAG-TA
24165652 CATACATAGTA
1 CATACATAGTA
24165663 CATACA-AGTA
1 CATACATAGTA
24165673 TTTGCAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.19
11 8 0.38
12 9 0.43
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.24
Consensus pattern (11 bp):
CATACATAGTA
Found at i:24165837 original size:151 final size:149
Alignment explanation
Indices: 24165526--24165832 Score: 348
Period size: 151 Copynumber: 2.0 Consensus size: 149
24165516 AATATATTTG
* *
24165526 CAAGTTGCATAAGACCTCAAGAATGTATGGGAAAATAGCATTATACTAAATGTATGGGACCCATG
1 CAAG-TGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATGGGACCCATG
* * * * * * *
24165591 AAACCTTCATTTACACAGATATATAGAAGCAAGCAAGCAAGCATGCATGCATACATAGATACATA
65 AAACCTTCATTTACACACACACACAGAACCAAGCAAGCAAGCATGCATGCATACATACACACATA
* *
24165656 CATAGTACATACAAGTATTTG
130 CATAGTACATAC-AGTATATA
* *
24165677 CAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATTGGACCTATG
1 CAAG-TGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATGGGACCCATG
* * * *
24165742 AAGCCTTCATTTACATACACACACAGACATCCATA-CATGCAAGCATGCATGCATGCATTCACAC
65 AAACCTTCATTTACACACACACACAGA-A-CCA-AGCAAGCAAGCATGCATGCATACA-T-ACAC
* *
24165806 ATATACATATGTACGTAC-GTATATA
125 ACATACATA-GTACATACAGTATATA
24165831 CA
1 CA
24165833 TGCATGCATA
Statistics
Matches: 131, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
151 82 0.63
152 1 0.01
153 22 0.17
154 9 0.07
155 10 0.08
156 7 0.05
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.25
Consensus pattern (149 bp):
CAAGTGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATGGGACCCATGA
AACCTTCATTTACACACACACACAGAACCAAGCAAGCAAGCATGCATGCATACATACACACATAC
ATAGTACATACAGTATATA
Found at i:24166025 original size:94 final size:94
Alignment explanation
Indices: 24165861--24166050 Score: 301
Period size: 94 Copynumber: 2.0 Consensus size: 94
24165851 TATCTAAAAG
* *
24165861 TATTTGTAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAGAATTATACTAAATGTATTGGA
1 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAGAATTATACTAAATGTATGGGA
*
24165926 CCTATGAAACCTTCATTTACAAACATACA
66 CCTATGAAACCTTAATTTACAAACATACA
* *
24165955 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGACAACA-ACATTATGCTAAATGTATGGG
1 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAGA-ATTATACTAAATGTATGGG
* *
24166019 ATCTATGAAACCTTAATTTACATACATACA
65 ACCTATGAAACCTTAATTTACAAACATACA
24166049 TA
1 TA
24166051 CGTACATACG
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 1 0.01
94 87 0.99
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (94 bp):
TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAGAATTATACTAAATGTATGGGA
CCTATGAAACCTTAATTTACAAACATACA
Found at i:24167268 original size:31 final size:31
Alignment explanation
Indices: 24167167--24167277 Score: 111
Period size: 31 Copynumber: 3.6 Consensus size: 31
24167157 TTGCATTTTG
* *
24167167 GAAAA-TTTGGAAAATTTTCATTTCTCCCTT
1 GAAAATTTTTGAAAATTTTCATTTTTCCCTT
* * * *
24167197 GAAAAGTTTAGAAAATTTTAATTAGGTTCCC-T
1 GAAAATTTTTGAAAATTTTCATT--TTTCCCTT
24167229 -AAAATTTTTGAAAATTTTCATTTTTCCCTT
1 GAAAATTTTTGAAAATTTTCATTTTTCCCTT
* *
24167259 GAAATTTTTTGAAATTTTT
1 GAAAATTTTTGAAAATTTT
24167278 AATTAAACTC
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
29 5 0.08
30 6 0.09
31 50 0.76
32 1 0.02
33 4 0.06
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (31 bp):
GAAAATTTTTGAAAATTTTCATTTTTCCCTT
Found at i:24171002 original size:12 final size:12
Alignment explanation
Indices: 24170985--24171009 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24170975 GCACCAGTTT
24170985 CTCATTTATACC
1 CTCATTTATACC
24170997 CTCATTTATACC
1 CTCATTTATACC
24171009 C
1 C
24171010 CTAGCTGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCATTTATACC
Found at i:24178144 original size:3 final size:3
Alignment explanation
Indices: 24178136--24178161 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24178126 TGTGTTAAAA
24178136 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
24178162 ATAATACTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24179301 original size:35 final size:35
Alignment explanation
Indices: 24179235--24179301 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
24179225 CAAACACCAG
*
24179235 AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
24179270 AAAACATTTTCCAG-AAATCATTTTACAAAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAA
24179302 CATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
Found at i:24179308 original size:14 final size:14
Alignment explanation
Indices: 24179270--24179309 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
24179260 ACAAAAAAGT
* *
24179270 AAAACATTTTCCAG
1 AAAACATTTTACAA
*
24179284 AAATCATTTTACAA
1 AAAACATTTTACAA
24179298 AAAACATTTTAC
1 AAAACATTTTAC
24179310 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAA
Found at i:24181410 original size:3 final size:3
Alignment explanation
Indices: 24181375--24181458 Score: 64
Period size: 3 Copynumber: 27.3 Consensus size: 3
24181365 ATAAGAAAAC
* * * * *
24181375 ATA ATA CTA ACA ATA GTA TTA ATA A-A TATA ATA ATA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
24181419 GATA ATA ATG ATA ATA ATA ATA ATA ACTAA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA A
24181459 AAAATTGCTA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
2 2 0.03
3 56 0.88
4 4 0.06
5 2 0.03
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:24182830 original size:44 final size:44
Alignment explanation
Indices: 24182729--24183094 Score: 278
Period size: 44 Copynumber: 8.5 Consensus size: 44
24182719 CTCGGTCTGT
* * * *
24182729 TCCACTGTAATCTCAGGGAGATAAGA-CC-TGA-TGCGATCTAC
1 TCCACTGTAATCTCAGAGAGATAAGATCCTTTATTTCAATCTAC
** * **
24182770 TCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGAGAGATAAGATCCTTTATTTCAATCTAC
* * * *
24182814 TCCACTGTAATCTCAGAGAGATAGGAT--TACTAGCTTCGATCTAC
1 TCCACTGTAATCTCAGAGAGATAAGATCCT-TTA-TTTCAATCTAC
* * *
24182858 TCCACTGTAATCTCAGGGAGATAAGA-CC-TGA-TACAATCTAC
1 TCCACTGTAATCTCAGAGAGATAAGATCCTTTATTTCAATCTAC
* * **
24182899 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGAGAGATAAGATCCTTTATTTCAATCTAC
* * * *
24182943 TCCACTGTAATCTCAGAGAGATAGGAT--TACTAGCTTCGATCTAC
1 TCCACTGTAATCTCAGAGAGATAAGATCCT-TTA-TTTCAATCTAC
* * *
24182987 TCCACTGTAATCTCAGGGAGATAAGA-CC-TGA-TACAATCTAC
1 TCCACTGTAATCTCAGAGAGATAAGATCCTTTATTTCAATCTAC
* * *
24183028 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCTGC
1 TCCACTGTAATC-TCAGAGAGATAAGATCCTTTATTTCAATCTAC
*
24183072 TCCACTGTAATCTCAGGGAGATA
1 TCCACTGTAATCTCAGAGAGATA
24183095 GGATTACTAG
Statistics
Matches: 249, Mismatches: 53, Indels: 43
0.72 0.15 0.12
Matches are distributed among these distances:
40 3 0.01
41 81 0.33
42 8 0.03
43 12 0.05
44 142 0.57
45 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
TCCACTGTAATCTCAGAGAGATAAGATCCTTTATTTCAATCTAC
Found at i:24182906 original size:85 final size:86
Alignment explanation
Indices: 24182729--24183828 Score: 437
Period size: 85 Copynumber: 12.8 Consensus size: 86
24182719 CTCGGTCTGT
* * * * * **
24182729 TCCACTGTAATCTCAGGGAGATAAGA--CCT-GATGCGATCTACTCTGCTGTAA-CTTCAGAGAG
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATC-TCAGAGAG
* * **
24182790 ATAAGATCCTTTATTTTAATCCGC
65 ATAAGATCC-TGA-TTCAATCTAC
* * *
24182814 TCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCGATCTACTCCACTGTAATCTCAGGGAGA
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGAGAGA
*
24182879 TAAGA-CCTGATACAATCTAC
66 TAAGATCCTGATTCAATCTAC
* * * * **
24182899 TCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTTAATCCGCTCCACTGTAATCTCAGAG
1 TCCACTGTAATC-TCAGAGAGATAAGAT--TACTAGCTTCAATCTACTCCACTGTAATCTCAGAG
* * * *
24182961 AGATAGGATTACTAGCTTCGATCTAC
63 AGATAAGA-TCCT-GATTCAATCTAC
* * * * *
24182987 TCCACTGTAATCTCAGGGAGATAAGA--CCT-GATACAATCTACTCTACTGTAA-CTTCAGAGAG
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATC-TCAGAGAG
* * *
24183048 ATAAGATCCTTTATTTTAATCTGC
65 ATAAGATCC-TGA-TTCAATCTAC
* * * * * * *
24183072 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCTATAATCTCAGGGAGA
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGAGAGA
* **
24183137 TAAGAT-CTGAAATTTTTCGATCTGT
66 TAAGATCCTG--A---TTCAATCTAC
* * * * * * * * *
24183162 TCCACTGTAATCTCAGGGAAATAAGA--CCT-GGTGCGATCTGCTCTACTTTAA-CTTCAGAGAG
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATC-TCAGAGAG
**
24183223 ATAAGATCCT--TT-AATCCGC
65 ATAAGATCCTGATTCAATCTAC
* * * * * * *
24183242 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCTATAATCTCAGGGAGA
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGAGAGA
** **
24183307 TAAGAT-CTGAAATTCTTCGGTCTGT
66 TAAGATCCTG--A---TTCAATCTAC
* * * * * * * * *
24183332 TCCACTGTAATCTCAGGGAAATAAGA--CCT-GGTGCGATCTGCTCTACTTTAA-CTTCAGAGAG
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATC-TCAGAGAG
**
24183393 ATAAGATCCT--TT-AATCCGC
65 ATAAGATCCTGATTCAATCTAC
* * * * * * *
24183412 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCTATAATCTCAGGGAGA
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGAGAGA
* **
24183477 TAAGAT-CTGAAATTTTTCGATCTGT
66 TAAGATCCTG--A---TTCAATCTAC
* * * * * * *
24183502 TCCACTGTAATCTCAGGGAAATAAGA--CCT-GGTGCGATCTACTCTACTGTAA-CTTCAGAGAG
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATC-TCAGAGAG
* * *
24183563 ATAAGATCCTTTATTTTAATCTGC
65 ATAAGATCC-TGA-TTCAATCTAC
* * * * * * *
24183587 TCCACTGTAATATTAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGAGAGA
** **
24183652 TAAGAT-CTGAAATTCTTCGGTCTGT
66 TAAGATCCTG--A---TTCAATCTAC
* * * * * * * * *
24183677 TCCACTGTAATCTCAGGGAAATAAGA--CCT-GGTGCGATCTGCTCTACTTTAA-CTTCAGAGAG
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATC-TCAGAGAG
**
24183738 ATAAGATCCT--TT-AATCCGC
65 ATAAGATCCTGATTCAATCTAC
* * ** * ** * *
24183757 TCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAATCTGCTCCGTTGTAATATCAGGGAGA
1 TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGAGAGA
24183822 TAAGATC
66 TAAGATC
24183829 TGCAATTCTT
Statistics
Matches: 768, Mismatches: 178, Indels: 140
0.71 0.16 0.13
Matches are distributed among these distances:
80 82 0.11
81 6 0.01
82 10 0.01
83 87 0.11
84 6 0.01
85 175 0.23
86 10 0.01
87 130 0.17
88 138 0.18
89 9 0.01
90 115 0.15
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (86 bp):
TCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGAGAGA
TAAGATCCTGATTCAATCTAC
Found at i:24183117 original size:44 final size:44
Alignment explanation
Indices: 24182807--24183872 Score: 484
Period size: 44 Copynumber: 24.8 Consensus size: 44
24182797 CCTTTATTTT
* * *
24182807 AATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
24182851 GATCTACTCCACTGTAATCTCAGGGAGATAAGA--CCT-GATAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * * *
24182892 AATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* * *
24182936 AATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
24182980 GATCTACTCCACTGTAATCTCAGGGAGATAAGA--CCT-GATAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * * *
24183021 AATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
*
24183065 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * **
24183109 AATTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGA-AATTTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTC
* * * * * *
24183155 GATCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCT-GGTGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
24183196 GATCTGCTCTACTTTAA-CTTCAGAGAGATAAGA-T-C---CTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACTAGCTTC
* *
24183235 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
24183279 AATTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTC
** * * * * *
24183325 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCT-GGTGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
24183366 GATCTGCTCTACTTTAA-CTTCAGAGAGATAAGA-T-C---CTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACTAGCTTC
* *
24183405 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * **
24183449 AATTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGA-AATTTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTC
* * * * * *
24183495 GATCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCT-GGTGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * * * *
24183536 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* * *
24183580 AATCTGCTCCACTGTAATATTAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
24183624 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTC
** * * * * *
24183670 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCT-GGTGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
24183711 GATCTGCTCTACTTTAA-CTTCAGAGAGATAAGA-T-C---CTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACTAGCTTC
* * **
24183750 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
** * * * *
24183794 AATCTGCTCCGTTGTAATATCAGGGAGATAAGATCTGCAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-TACTA-GCTTC
** * * *
24183840 GGTCTGTTCCACCGTAATCTCAGGGAAATAAGA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA
24183873 CTTGTATAAT
Statistics
Matches: 754, Mismatches: 199, Indels: 136
0.69 0.18 0.12
Matches are distributed among these distances:
39 78 0.10
40 12 0.02
41 178 0.24
42 7 0.01
43 6 0.01
44 305 0.40
45 13 0.02
46 155 0.21
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:24183302 original size:170 final size:170
Alignment explanation
Indices: 24182976--24183873 Score: 1445
Period size: 170 Copynumber: 5.2 Consensus size: 170
24182966 GGATTACTAG
** * * * * * *
24182976 CTTCGATCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTT
1 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTT
*
24183041 CAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
66 CAGAGAGATAAGATCC-----TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
24183106 TTCAATTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATT
126 TTCAATTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATT
*
24183151 TTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTT
1 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTT
24183216 CAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
66 CAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
24183281 TTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATT
131 TTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATT
*
24183321 CTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTT
1 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTT
24183386 CAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
66 CAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
24183451 TTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATT
131 TTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATT
* * *
24183491 TTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTT
1 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTT
* * *
24183556 CAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATATTAGGGAGATAGGATTACTAGC
66 CAGAGAGATAAGATCC-----TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
* *
24183621 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT
126 TTCAATTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATT
*
24183666 CTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTT
1 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTT
**
24183731 CAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAA
66 CAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
* * * * *
24183796 TCTGCTCCGTTGTAATATCAGGGAGATAAGATCTGCAATT
131 TTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATT
* *
24183836 CTTCGGTCTGTTCCACCGTAATCTCAGGGAAATAAGAC
1 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
24183874 TTGTATAATG
Statistics
Matches: 684, Mismatches: 34, Indels: 15
0.93 0.05 0.02
Matches are distributed among these distances:
170 451 0.66
175 233 0.34
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (170 bp):
CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTT
CAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
TTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATT
Found at i:24183378 original size:345 final size:341
Alignment explanation
Indices: 24182987--24183873 Score: 1470
Period size: 345 Copynumber: 2.6 Consensus size: 341
24182977 TTCGATCTAC
* * * * * *
24182987 TCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTTCAGAGAGATAA
*
24183052 GATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCT
66 GATCC-----TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCT
24183117 CCGCTATAATCTCAGGGAGATAAGATCTGAAATTTTTCGATCTGTTCCACTGTAATCTCAGGGAA
126 CCGCTATAATCTCAGGGAGATAAGATCTGAAATTTTTCGATCTGTTCCACTGTAATCTCAGGGAA
* *
24183182 ATAAGACCTGGTGCGATCTGCTCTACTTTAACTTCAGAGAGATAAGATCC-TTTAATCCGCTCCA
191 ATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTAATCCGCTCCA
* *
24183246 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCTATAATCTCAGGGAGATAAG
256 CTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAG
24183311 ATCTGAAATTCTTCGGTCTGT
321 ATCTGAAATTCTTCGGTCTGT
24183332 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTTCAGAGAGATAA
24183397 GATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCT
66 GATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCT
24183462 ATAATCTCAGGGAGATAAGATCTGAAATTTTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAG
131 ATAATCTCAGGGAGATAAGATCTGAAATTTTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAG
*
24183527 ACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCAC
196 ACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC----TTTTAATCCGCTCCAC
* *
24183592 TGTAATATTAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
257 TGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGA
24183657 TCTGAAATTCTTCGGTCTGT
322 TCTGAAATTCTTCGGTCTGT
24183677 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTTCAGAGAGATAA
** * *
24183742 GATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAATCTGCTCCGTT
66 GATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCT
* * * * * *
24183807 GTAATATCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACCGTAATCTCAGGGAAATAAG
131 ATAATCTCAGGGAGATAAGATCTGAAATTTTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAG
24183872 AC
196 AC
24183874 TTGTATAATG
Statistics
Matches: 513, Mismatches: 24, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
340 167 0.33
345 346 0.67
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (341 bp):
TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTTCAGAGAGATAA
GATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCT
ATAATCTCAGGGAGATAAGATCTGAAATTTTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAG
ACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTAATCCGCTCCACTGTA
ATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTG
AAATTCTTCGGTCTGT
Done.