Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 91 of 213
Found at i:25165215 original size:16 final size:16
Alignment explanation
Indices: 25165194--25165324 Score: 79
Period size: 16 Copynumber: 7.8 Consensus size: 16
25165184 ATTAATATTA
25165194 TACATAACTTACAACT
1 TACATAACTTACAACT
25165210 TACATAACTTACAA-T
1 TACATAACTTACAACT
*** *
25165225 TTTTTAA-TTATTCGTAAAT
1 TACATAACTTA--C--AACT
*
25165244 TACATAACTTACTTAATT
1 TACATAACTTAC--AACT
* * *
25165262 TTCATAA-TAAATAACT
1 TACATAACT-TACAACT
25165278 TACATAACTTACAACT
1 TACATAACTTACAACT
*
25165294 TACATAACTTATACAACA
1 TACATAAC-T-TACAACT
25165312 TACATAACTTACA
1 TACATAACTTACA
25165325 TAGCATAATT
Statistics
Matches: 89, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
14 3 0.03
15 5 0.06
16 41 0.46
17 4 0.04
18 28 0.31
19 5 0.06
20 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:25165276 original size:75 final size:76
Alignment explanation
Indices: 25165122--25165297 Score: 243
Period size: 75 Copynumber: 2.3 Consensus size: 76
25165112 CGTAACTTAC
* *
25165122 AACTTACATAACTTACATAACTTACATTTTTTTAATTATTCATAAATTACATAACTTAGTTAATT
1 AACTTACA-AACTTACATAACTTACAATTTTTTAATTATTCATAAATTACATAACTTACTTAATT
* *
25165187 AATATTATACAT
65 AATATAATAAAT
*
25165199 AACTTAC-AACTTACATAACTTACAATTTTTTAATTATTCGTAAATTACATAACTTACTTAATT-
1 AACTTACAAACTTACATAACTTACAATTTTTTAATTATTCATAAATTACATAACTTACTTAATTA
*
25165262 TTCATAATAAAT
66 AT-ATAATAAAT
25165274 AACTTACATAACTTAC--AACTTACA
1 AACTTACA-AACTTACATAACTTACA
25165298 TAACTTATAC
Statistics
Matches: 90, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
74 1 0.01
75 75 0.83
77 14 0.16
ACGTcount: A:0.42, C:0.15, G:0.01, T:0.41
Consensus pattern (76 bp):
AACTTACAAACTTACATAACTTACAATTTTTTAATTATTCATAAATTACATAACTTACTTAATTA
ATATAATAAAT
Found at i:25165373 original size:16 final size:16
Alignment explanation
Indices: 25165362--25165394 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
25165352 ACATAATTTT
25165362 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
25165378 CATAATACATAACTTA
1 CATAATAAATAACTTA
25165394 C
1 C
25165395 GTAGTTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:25166519 original size:66 final size:65
Alignment explanation
Indices: 25166411--25166582 Score: 211
Period size: 66 Copynumber: 2.6 Consensus size: 65
25166401 TGAGCAAATT
* * * *
25166411 ACACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCC
1 ACACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCC
25166475 A
65 A
* *
25166476 GCTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCC
1 AC-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCC
25166541 A
65 A
* * ** *
25166542 ACAGCAGCTTAAAGCAGATGCGGCAGTAAGAGAAGCAGAGG
1 ACA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
25166583 CGGCAGCGAG
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 2 0.02
66 84 0.92
67 5 0.05
ACGTcount: A:0.42, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
ACACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
Found at i:25166577 original size:21 final size:21
Alignment explanation
Indices: 25166553--25166665 Score: 82
Period size: 21 Copynumber: 5.4 Consensus size: 21
25166543 CAGCAGCTTA
* *
25166553 AAGCAGATGCGGCAGTAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
*
25166574 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCAAGAG
* * * * *
25166595 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGAG
*** * *
25166616 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGAG
* * *
25166637 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGAG
25166658 AAGCAGAG
1 AAGCAGAG
25166666 CAGCGTCAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.35, C:0.17, G:0.43, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:25166620 original size:42 final size:42
Alignment explanation
Indices: 25166573--25166665 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
25166563 GGCAGTAAGA
** *
25166573 GAAGCAGAGGCGGCAGCGAGAGAAGTACAGGCTGCAGCGAGG
1 GAAGCAGAGGCGAAAGCGAGAGAAGCACAGGCTGCAGCGAGG
* * *
25166615 GAAGCAGAGGCTAAAGCGAGGGAAGCAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCGAAAGCGAGAGAAGCACAGGCTGCAGCGAGG
25166657 GAAGCAGAG
1 GAAGCAGAG
25166666 CAGCGTCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.45, T:0.04
Consensus pattern (42 bp):
GAAGCAGAGGCGAAAGCGAGAGAAGCACAGGCTGCAGCGAGG
Found at i:25167112 original size:43 final size:43
Alignment explanation
Indices: 25166972--25167240 Score: 233
Period size: 43 Copynumber: 6.2 Consensus size: 43
25166962 ATCTGCCAAA
* * *
25166972 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAATGGTC
1 TTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCATGGTC
** * *
25167015 TTTAGCGGCGTTTGTGGAAAAAAGCGCCACTAAAGATCATAGTC
1 TTTAGCGGCGTTTGTGG-TCAAAGCGCCGCTAAAGATCATGGTC
* * *
25167059 TTTAGTGGCGTTTGTGGTCAAAGAGCCGCTATAGATCA-GGCTC
1 TTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCATGG-TC
* ** * * **
25167102 TATTA-CGGCGTTTGAGGGGAAAGCGCCGCTAAAGACCCTGACC
1 T-TTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCATGGTC
* * * * *
25167145 TTTAGTGGCGTTTTTGG-GAGAAGCGCCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTGTGGTCA-AAGCGCCGCTAAAGATCATGGTC
* *
25167188 TTTAGCGGCGTTTGT-G-CAAGATGCGCCGCTAAAGATTAGGGTC
1 TTTAGCGGCGTTTGTGGTCAA-A-GCGCCGCTAAAGATCATGGTC
25167231 TTTAGCGGCG
1 TTTAGCGGCG
25167241 CATTCATTAG
Statistics
Matches: 181, Mismatches: 37, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 9 0.05
43 130 0.72
44 41 0.23
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCATGGTC
Found at i:25167216 original size:129 final size:130
Alignment explanation
Indices: 25166991--25167240 Score: 283
Period size: 129 Copynumber: 1.9 Consensus size: 130
25166981 GTTTTTGGTC
* ** * *
25166991 AAAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTGTGGAAAAAAGCGCCACTAAAGATCATA
1 AAAGCGCCGCTAAAGACAATGACCTTTAGCGGCGTTTGTGGAAAAAAGCGCCACTAAAGATAAGA
* *
25167056 GTCTTTAGTGGCGTTTGTGGTCAAAGAGCCGCTATAGATCAGGCTCTATTA-CGGCGTTTGAGGG
66 GTCTTTAGCGGCGTTTGTGGTCAAAGAGCCGCTAAAGATCAGGCTCT-TTAGCGGCGTTTGAGGG
25167120 G
130 G
** * * * * * *
25167121 AAAGCGCCGCTAAAGACCCTGACCTTTAGTGGCGTTTTTGG-GAGAAGCGCCGCTAAAGATAAGG
1 AAAGCGCCGCTAAAGACAATGACCTTTAGCGGCGTTTGTGGAAAAAAGCGCCACTAAAGATAAGA
* * *
25167185 GTCTTTAGCGGCGTTTGT-G-CAAGATGCGCCGCTAAAGATTAGGGTCTTTAGCGGCG
66 GTCTTTAGCGGCGTTTGTGGTCAA-A-GAGCCGCTAAAGATCAGGCTCTTTAGCGGCG
25167241 CATTCATTAG
Statistics
Matches: 99, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
127 3 0.03
128 5 0.05
129 57 0.58
130 34 0.34
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (130 bp):
AAAGCGCCGCTAAAGACAATGACCTTTAGCGGCGTTTGTGGAAAAAAGCGCCACTAAAGATAAGA
GTCTTTAGCGGCGTTTGTGGTCAAAGAGCCGCTAAAGATCAGGCTCTTTAGCGGCGTTTGAGGGG
Found at i:25167234 original size:86 final size:84
Alignment explanation
Indices: 25166972--25167240 Score: 272
Period size: 86 Copynumber: 3.1 Consensus size: 84
25166962 ATCTGCCAAA
*
25166972 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTGTGGAAAAA
1 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGT-G--AAA
* *
25167037 AGCGCCACTAAAGATCATAGTC
63 AGCGCCGCTAAAGATCATGGTC
* * * * * * *
25167059 TTTAGTGGCGTTTGTGGTCAAAGAGCCGCTATAGATCAGGCTCTATTA-CGGCGTTTGAGGGGAA
1 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTT--GTGAAA
* * **
25167123 AGCGCCGCTAAAGACCCTGACC
63 AGCGCCGCTAAAGATCATGGTC
*
25167145 TTTAGTGGCGTTTTTGG-GAGAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGCAAGA
1 TTTAGTGGCGTTTTTGGTCA-AAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTG-AA-A
* * *
25167209 TGCGCCGCTAAAGATTAGGGTC
63 AGCGCCGCTAAAGATCATGGTC
*
25167231 TTTAGCGGCG
1 TTTAGTGGCG
25167241 CATTCATTAG
Statistics
Matches: 145, Mismatches: 30, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
84 2 0.01
85 5 0.03
86 87 0.60
87 46 0.32
88 4 0.03
89 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (84 bp):
TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGAAAAGC
GCCGCTAAAGATCATGGTC
Found at i:25171674 original size:19 final size:18
Alignment explanation
Indices: 25171645--25171718 Score: 68
Period size: 17 Copynumber: 4.3 Consensus size: 18
25171635 CGATAATTTA
25171645 TTAAA-AATTGAATTAAG
1 TTAAATAATTGAATTAAG
* * *
25171662 TTAGATCAATTGATTTACG
1 TTAAAT-AATTGAATTAAG
25171681 --AAATAATTGAATTAAG
1 TTAAATAATTGAATTAAG
*
25171697 TTAAA-AATTGATTTAA-
1 TTAAATAATTGAATTAAG
25171713 TTAAAT
1 TTAAAT
25171719 CGATTTTGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
16 15 0.33
17 17 0.38
18 3 0.07
19 10 0.22
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (18 bp):
TTAAATAATTGAATTAAG
Found at i:25172677 original size:11 final size:11
Alignment explanation
Indices: 25172663--25172689 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25172653 AAAAAAATCA
25172663 TAAAATAATTT
1 TAAAATAATTT
25172674 TAAAATAATTT
1 TAAAATAATTT
25172685 TAAAA
1 TAAAA
25172690 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAAATAATTT
Found at i:25172697 original size:9 final size:9
Alignment explanation
Indices: 25172680--25172800 Score: 50
Period size: 9 Copynumber: 13.2 Consensus size: 9
25172670 ATTTTAAAAT
*
25172680 AATTTTAAA
1 AATTATAAA
25172689 AATTATAAA
1 AATTATAAA
*
25172698 AAAT-TAAA
1 AATTATAAA
* *
25172706 TA-T-TAGA
1 AATTATAAA
*
25172713 AATTATTAA
1 AATTATAAA
* *
25172722 AATGATTAA
1 AATTATAAA
25172731 AATTATATAA
1 AATTATA-AA
*
25172741 ACTTATTAAAA
1 AATTA-T-AAA
25172752 AATTATAAA
1 AATTATAAA
* *
25172761 ACTAATAAA
1 AATTATAAA
* *
25172770 ACTTATTTAA
1 AATTA-TAAA
*
25172780 AATTAAAAA
1 AATTATAAA
*
25172789 CAATTTTAAA
1 -AATTATAAA
25172799 AA
1 AA
25172801 ACTTGAACTG
Statistics
Matches: 84, Mismatches: 21, Indels: 14
0.71 0.18 0.12
Matches are distributed among these distances:
7 5 0.06
8 6 0.07
9 44 0.52
10 21 0.25
11 7 0.08
12 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.36
Consensus pattern (9 bp):
AATTATAAA
Found at i:25172701 original size:10 final size:10
Alignment explanation
Indices: 25172649--25172761 Score: 52
Period size: 10 Copynumber: 10.8 Consensus size: 10
25172639 TACTCTTTTT
25172649 TTATAAAAAAA
1 TTAT-AAAAAA
*
25172660 TCATAAAATAA
1 TTATAAAA-AA
*
25172671 TTTTAAAATAA
1 TTATAAAA-AA
*
25172682 TT-TTAAAAA
1 TTATAAAAAA
25172691 TTATAAAAAA
1 TTATAAAAAA
*
25172701 TTAAATATTAGAAA
1 TT--ATA--AAAAA
*
25172715 TTAT-TAAAA
1 TTATAAAAAA
* *
25172724 TGAT-TAAAA
1 TTATAAAAAA
* *
25172733 TTATATAAAC
1 TTATAAAAAA
25172743 TTATTAAAAAA
1 TTA-TAAAAAA
25172754 TTATAAAA
1 TTATAAAA
25172762 CTAATAAAAC
Statistics
Matches: 81, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
9 18 0.22
10 28 0.35
11 24 0.30
12 5 0.06
14 6 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:25172741 original size:19 final size:17
Alignment explanation
Indices: 25172703--25172787 Score: 57
Period size: 19 Copynumber: 4.6 Consensus size: 17
25172693 ATAAAAAATT
25172703 AAATATTAGAAATTATTA
1 AAATATTA-AAATTATTA
25172721 AAATGATTAAAATTATATA
1 AAAT-ATTAAAATTAT-TA
*
25172740 AACTTATTAAAAAATTA-TA
1 AA-ATATT--AAAATTATTA
* *
25172759 AAACTAATAAAACTTATTT
1 AAA-TATTAAAA-TTATTA
25172778 AAA-ATTAAAA
1 AAATATTAAAA
25172788 ACAATTTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
17 10 0.19
18 14 0.26
19 22 0.41
20 1 0.02
21 7 0.13
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (17 bp):
AAATATTAAAATTATTA
Found at i:25173294 original size:8 final size:9
Alignment explanation
Indices: 25173273--25173299 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
25173263 TTCTAATAAT
25173273 TTTTTTATA
1 TTTTTTATA
25173282 TTTTTTATA
1 TTTTTTATA
25173291 TTTTTTATA
1 TTTTTTATA
25173300 GAATTTCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTATA
Found at i:25173446 original size:19 final size:19
Alignment explanation
Indices: 25173418--25173460 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
25173408 CTTTAAAGTA
25173418 TTTT-TAATATTTAATAAT
1 TTTTATAATATTTAATAAT
*
25173436 TTTTATAATATTTAATCAT
1 TTTTATAATATTTAATAAT
25173455 TTTTAT
1 TTTTAT
25173461 GGAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAATATTTAATAAT
Found at i:25174767 original size:17 final size:16
Alignment explanation
Indices: 25174739--25174791 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
25174729 TTTGGTTCGC
25174739 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25174755 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
25174772 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25174788 TGTA
1 TGTA
25174792 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:25174856 original size:44 final size:45
Alignment explanation
Indices: 25174772--25174862 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
25174762 GGATTAGAGG
* * *
25174772 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
25174817 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
25174861 TG
1 TG
25174863 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:25175048 original size:18 final size:17
Alignment explanation
Indices: 25175027--25175061 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25175017 TTATTATTAA
*
25175027 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25175045 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25175062 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25175115 original size:157 final size:156
Alignment explanation
Indices: 25174921--25175229 Score: 573
Period size: 157 Copynumber: 2.0 Consensus size: 156
25174911 CCCTTAACAT
*
25174921 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
25174986 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
25175051 TTTAATAAAATTCTTAATAATTAGCAG
131 -TTAATAAAATTCTTAATAATTAGCAG
*
25175078 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
25175143 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
25175208 TTAATAAAATTCTTAATAATTA
131 TTAATAAAATTCTTAATAATTA
25175230 ATATTCTTAT
Statistics
Matches: 148, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
156 22 0.15
157 126 0.85
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (156 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
TTAATAAAATTCTTAATAATTAGCAG
Found at i:25175201 original size:16 final size:16
Alignment explanation
Indices: 25175164--25175205 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25175154 TTAATCATAT
*
25175164 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25175180 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25175195 TTAAAATATAT
1 TTAAAATATAT
25175206 AATTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25175208 original size:13 final size:15
Alignment explanation
Indices: 25175173--25175211 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
25175163 TTTAAACATA
*
25175173 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25175188 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
25175202 A-TATAATTAA
1 ATTATAATTAA
25175212 TAAAATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25175331 original size:14 final size:15
Alignment explanation
Indices: 25175282--25175333 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25175272 ATAAAATATA
25175282 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25175297 TATTAAATATATTAT
1 AATTAAATATATTAT
25175312 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25175325 AATTTAATA
1 AATTAAATA
25175334 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25175379 original size:120 final size:120
Alignment explanation
Indices: 25175167--25175560 Score: 706
Period size: 120 Copynumber: 3.3 Consensus size: 120
25175157 ATCATATTTA
25175167 AACATAATTATTATTAAATATATTATAATTAAAATATATAA-TTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
25175231 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
25175286 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
25175351 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
25175406 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
25175471 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-ATAAA-TT
* *
25175526 GAA-ATAATTAATATTAAATATATTTTAATTAAAAT
1 -AACATAATTATTATTAAATATATTATAATTAAAAT
25175561 TTATTGTTTA
Statistics
Matches: 267, Mismatches: 4, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
119 48 0.18
120 217 0.81
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:25175451 original size:14 final size:15
Alignment explanation
Indices: 25175402--25175453 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25175392 GTAAAATATA
25175402 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25175417 TATTAAATATATTAT
1 AATTAAATATATTAT
25175432 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25175445 AATTTAATA
1 AATTAAATA
25175454 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25178714 original size:5 final size:5
Alignment explanation
Indices: 25178700--25178755 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
25178690 GAAAAAATAA
* * * * *
25178700 ATTTT ATTTT GTTTT AATAT AATTT -TTGT AATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT
25178750 ATTTT A
1 ATTTT A
25178756 GATAGTTTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 2 0.05
5 35 0.85
6 4 0.10
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (5 bp):
ATTTT
Found at i:25179564 original size:7 final size:7
Alignment explanation
Indices: 25179539--25179575 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
25179529 TCCATCCTAT
25179539 ATTTTCA
1 ATTTTCA
* *
25179546 ATCTTAA
1 ATTTTCA
25179553 ATTTTCA
1 ATTTTCA
25179560 ATTTTCA
1 ATTTTCA
25179567 ATTTTCA
1 ATTTTCA
25179574 AT
1 AT
25179576 CCTCAATCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTTTCA
Found at i:25179581 original size:14 final size:14
Alignment explanation
Indices: 25179539--25179582 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
25179529 TCCATCCTAT
*
25179539 ATTTTCAATCTTAA
1 ATTTTCAATCTTCA
*
25179553 ATTTTCAATTTTCA
1 ATTTTCAATCTTCA
*
25179567 ATTTTCAATCCTCA
1 ATTTTCAATCTTCA
25179581 AT
1 AT
25179583 CCTCAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTCAATCTTCA
Found at i:25179581 original size:21 final size:21
Alignment explanation
Indices: 25179539--25179582 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
25179529 TCCATCCTAT
**
25179539 ATTTTCAATCTTAAATTTTCA
1 ATTTTCAATCTTAAATCCTCA
* *
25179560 ATTTTCAATTTTCAATCCTCA
1 ATTTTCAATCTTAAATCCTCA
25179581 AT
1 AT
25179583 CCTCAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTCAATCTTAAATCCTCA
Found at i:25185107 original size:20 final size:19
Alignment explanation
Indices: 25185084--25185148 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
25185074 TTCCTACACC
25185084 ATTTGTTCATCTCCGTTTCA
1 ATTT-TTCATCTCCGTTTCA
*
25185104 ATTTTTTCCT-TCCGAATTT-A
1 A-TTTTTCATCTCCG--TTTCA
* *
25185124 ATTTTTTATCTCCATTTCA
1 ATTTTTCATCTCCGTTTCA
25185143 ATTTTT
1 ATTTTT
25185149 TCTATACTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
18 3 0.08
19 17 0.47
20 10 0.28
21 6 0.17
ACGTcount: A:0.18, C:0.20, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTTTTCATCTCCGTTTCA
Found at i:25185145 original size:19 final size:19
Alignment explanation
Indices: 25185092--25185149 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
25185082 CCATTTGTTC
*
25185092 ATCTCCGTTTCAATTTTTT
1 ATCTCCATTTCAATTTTTT
*
25185111 -CCTTCCGAATTT-AATTTTTT
1 ATC-TCC--ATTTCAATTTTTT
25185131 ATCTCCATTTCAATTTTTT
1 ATCTCCATTTCAATTTTTT
25185150 CTATACTGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 11 0.35
21 4 0.13
ACGTcount: A:0.19, C:0.21, G:0.03, T:0.57
Consensus pattern (19 bp):
ATCTCCATTTCAATTTTTT
Found at i:25187629 original size:84 final size:86
Alignment explanation
Indices: 25187482--25187651 Score: 211
Period size: 84 Copynumber: 2.0 Consensus size: 86
25187472 TCTCCAAGTG
* * * * *
25187482 TTTGAGCTTAGTTCTAAAACATTAATGTAAAGGTTTTACTTGAGCGGATCAAACAAAATTATTCT
1 TTTGAGCTTAGTTCTAAAACATCAATGGAAAGGTCTTACTTGAGCGGACCAAAAAAAATTATTCT
*
25187547 CAGACAGT-AAAACAAAAGCA
66 AAGACAGTAAAAACAAAAGCA
* * *
25187567 TTTGA-CTTAGTTCTATAACATCAATGGACAGGTCTTATTTTG-GCGGACCAAAAAAAATTATTC
1 TTTGAGCTTAGTTCTAAAACATCAATGGAAAGGTCTTA-CTTGAGCGGACCAAAAAAAATTATTC
* *
25187630 TAAGACGGTAAAAACAGAAGCA
65 TAAGACAGTAAAAACAAAAGCA
25187652 AATAAGGTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
84 53 0.74
85 19 0.26
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (86 bp):
TTTGAGCTTAGTTCTAAAACATCAATGGAAAGGTCTTACTTGAGCGGACCAAAAAAAATTATTCT
AAGACAGTAAAAACAAAAGCA
Found at i:25188026 original size:3 final size:3
Alignment explanation
Indices: 25187998--25188050 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
25187988 AAAGGGGGAG
* * * *
25187998 GAA GAA CAA GAA GAT GAA GAA CAA GAA GAA GATA -TA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA GAA GAA GAA
25188043 GAA GAA GA
1 GAA GAA GA
25188051 GGCAAGAGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.95
4 1 0.03
ACGTcount: A:0.62, C:0.04, G:0.28, T:0.06
Consensus pattern (3 bp):
GAA
Found at i:25188028 original size:18 final size:18
Alignment explanation
Indices: 25188005--25188047 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
25187995 GAGGAAGAAC
25188005 AAGAAGATGA-AGAACAAG
1 AAGAAGAT-ATAGAACAAG
*
25188023 AAGAAGATATAGAAGAAG
1 AAGAAGATATAGAACAAG
25188041 AAGAAGA
1 AAGAAGA
25188048 AGAGGCAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.63, C:0.02, G:0.28, T:0.07
Consensus pattern (18 bp):
AAGAAGATATAGAACAAG
Found at i:25189087 original size:18 final size:18
Alignment explanation
Indices: 25189043--25189088 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
25189033 ATTTAATTGG
*
25189043 GACCAAATTAAAATTTAA
1 GACCAAATTAAAATTGAA
25189061 GTACCAAATTAAACATTGAA
1 G-ACCAAATTAAA-ATTGAA
25189081 G-CCAAATT
1 GACCAAATT
25189089 TAAGTGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
19 11 0.44
20 6 0.24
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (18 bp):
GACCAAATTAAAATTGAA
Found at i:25189153 original size:22 final size:23
Alignment explanation
Indices: 25189108--25189154 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
25189098 AATTGGAATA
*
25189108 AAAAATACTCAAGTATCAAATTG
1 AAAAATACTCAAGTACCAAATTG
* *
25189131 AAAAA-ACTCAAGTCCCAATTTG
1 AAAAATACTCAAGTACCAAATTG
25189153 AA
1 AA
25189155 TATTGAAGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (23 bp):
AAAAATACTCAAGTACCAAATTG
Found at i:25191417 original size:42 final size:42
Alignment explanation
Indices: 25191358--25191451 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
25191348 AATGGGCCTA
* *
25191358 CTCACATGAGTTGTGGGTTAG-AATGTAAACTACACGATGCTG
1 CTCACACGAGTTATGGG-TAGAAATGTAAACTACACGATGCTG
* * *
25191400 CTCACACGAGTTATGGGTCGAAATGTAAACTATACGGTGCTG
1 CTCACACGAGTTATGGGTAGAAATGTAAACTACACGATGCTG
25191442 CTCACACGAG
1 CTCACACGAG
25191452 CTGTGGAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 2 0.04
42 44 0.96
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (42 bp):
CTCACACGAGTTATGGGTAGAAATGTAAACTACACGATGCTG
Found at i:25200675 original size:177 final size:177
Alignment explanation
Indices: 25200379--25200732 Score: 708
Period size: 177 Copynumber: 2.0 Consensus size: 177
25200369 ATACCAAACA
25200379 AAGCCTAAATGACAGTAACCTTAAACATTTGTTTTAAAGTGAAAGGAAGAGAAGAAAAAAACCCA
1 AAGCCTAAATGACAGTAACCTTAAACATTTGTTTTAAAGTGAAAGGAAGAGAAGAAAAAAACCCA
25200444 AAATTTAACAGTTTTTAAAAAGCAAGACTAAATTACTCAATTTTTCATGTCACTTCAATGGACGA
66 AAATTTAACAGTTTTTAAAAAGCAAGACTAAATTACTCAATTTTTCATGTCACTTCAATGGACGA
25200509 CAAATCAAACATTTTTTAATGCTCAACCTGTGTCTTACAGTTTTACT
131 CAAATCAAACATTTTTTAATGCTCAACCTGTGTCTTACAGTTTTACT
25200556 AAGCCTAAATGACAGTAACCTTAAACATTTGTTTTAAAGTGAAAGGAAGAGAAGAAAAAAACCCA
1 AAGCCTAAATGACAGTAACCTTAAACATTTGTTTTAAAGTGAAAGGAAGAGAAGAAAAAAACCCA
25200621 AAATTTAACAGTTTTTAAAAAGCAAGACTAAATTACTCAATTTTTCATGTCACTTCAATGGACGA
66 AAATTTAACAGTTTTTAAAAAGCAAGACTAAATTACTCAATTTTTCATGTCACTTCAATGGACGA
25200686 CAAATCAAACATTTTTTAATGCTCAACCTGTGTCTTACAGTTTTACT
131 CAAATCAAACATTTTTTAATGCTCAACCTGTGTCTTACAGTTTTACT
25200733 TACTTCAAAA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 177 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (177 bp):
AAGCCTAAATGACAGTAACCTTAAACATTTGTTTTAAAGTGAAAGGAAGAGAAGAAAAAAACCCA
AAATTTAACAGTTTTTAAAAAGCAAGACTAAATTACTCAATTTTTCATGTCACTTCAATGGACGA
CAAATCAAACATTTTTTAATGCTCAACCTGTGTCTTACAGTTTTACT
Found at i:25209302 original size:68 final size:68
Alignment explanation
Indices: 25209185--25209320 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 68
25209175 GAGAAGATAA
* *
25209185 AGTTAAAATGGAATATTCAGAACATATAGAGACAATAAGCCCAAGAAACATTTAGGATTTTATCC
1 AGTTAAAATGGAATATTCAAAACATATAAAGACAATAAGCCCAAGAAACATTTAGGATTTTATCC
25209250 TAT
66 TAT
* **
25209253 AGTTAAAATGGAATATTCAAAACATATAAAGACAATAAGCCTATTAAACATTTAGGATTTTATCC
1 AGTTAAAATGGAATATTCAAAACATATAAAGACAATAAGCCCAAGAAACATTTAGGATTTTATCC
25209318 TAT
66 TAT
25209321 GTCTCTTGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (68 bp):
AGTTAAAATGGAATATTCAAAACATATAAAGACAATAAGCCCAAGAAACATTTAGGATTTTATCC
TAT
Found at i:25210698 original size:12 final size:12
Alignment explanation
Indices: 25210681--25210713 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
25210671 CCTTGTGTGC
25210681 GTTCTTTTTATT
1 GTTCTTTTTATT
25210693 GTTC-TTTTATT
1 GTTCTTTTTATT
25210704 GCTTCTTTTT
1 G-TTCTTTTT
25210714 GCATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.42
12 7 0.37
13 4 0.21
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (12 bp):
GTTCTTTTTATT
Found at i:25212476 original size:16 final size:16
Alignment explanation
Indices: 25212455--25212486 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25212445 GTTTTGTTGC
*
25212455 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
25212471 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
25212487 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:25212775 original size:51 final size:51
Alignment explanation
Indices: 25212717--25212904 Score: 222
Period size: 51 Copynumber: 3.7 Consensus size: 51
25212707 GTTCACATAA
*
25212717 TAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACGTAG
* * ** *
25212768 TAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTATGCATAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATACACGTAG
* * * **
25212819 TAGCCTGCACATAGTATTACACATGCGACCTATCA-T-TTTGATACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGATACACGTAG
25212869 TAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGCCTGCACATAGTACTACACACGTGACCATCACT
25212905 TTCACTTTCA
Statistics
Matches: 112, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
49 4 0.04
50 38 0.34
51 67 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACGTAG
Found at i:25212873 original size:101 final size:102
Alignment explanation
Indices: 25212712--25212896 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
25212702 TACCTGTTCA
*
25212712 CATAATAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAATAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
25212777 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
* * **
25212814 CATAGTAGCCTGCACATAGTATTACACATGCGACCTATCA-T-TTTGATACACGTAGTAGCCTGC
1 CATAATAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
25212877 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
25212897 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 40 0.52
102 33 0.43
103 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAATAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
Found at i:25212919 original size:101 final size:102
Alignment explanation
Indices: 25212708--25212934 Score: 268
Period size: 101 Copynumber: 2.2 Consensus size: 102
25212698 ATGATACCTG
* *
25212708 TTCACATAATAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCC
*
25212773 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGT
66 TGCACATAGTACTACACACGTGATCCAAGCTATCC-GT
* * * **
25212811 AT-GCATAGTAGCCTGCACATAGTATTACACATGCGACCTATCA-T-TTTGATACACGTAGTAGC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGC
*
25212873 CTGCACATAGTACTACACACGTGA-CCATCA-CTTTCAC-T
65 CTGCACATAGTACTACACACGTGATCCA--AGCTATC-CGT
* *
25212911 TTCACATAGTGGCCTACACATAGT
1 TTCACATAGTAGCCTGCACATAGT
25212935 CTATGCCACA
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
100 4 0.04
101 62 0.58
102 35 0.33
103 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (102 bp):
TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCC
TGCACATAGTACTACACACGTGATCCAAGCTATCCGT
Found at i:25215760 original size:42 final size:42
Alignment explanation
Indices: 25215680--25215761 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
25215670 CGTTTTCTCT
* **
25215680 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
25215722 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
25215762 CACACCGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:25215791 original size:47 final size:48
Alignment explanation
Indices: 25215721--25215813 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 48
25215711 TTTACATATT
* * *
25215721 GATGCCATAGCCCAGCTATGGTCTTACACAG-TAGCACATATCACACC
1 GATGCCATAGCCCAGATACGGTCTTACACAGAAAGCACATATCACACC
* * * *
25215768 GATGCCATATCTCAGATACGGTCTTATACAGAAATCACATATCACA
1 GATGCCATAGCCCAGATACGGTCTTACACAGAAAGCACATATCACA
25215814 TGTTGCCATG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 26 0.68
48 12 0.32
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (48 bp):
GATGCCATAGCCCAGATACGGTCTTACACAGAAAGCACATATCACACC
Found at i:25218567 original size:16 final size:16
Alignment explanation
Indices: 25218546--25218577 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25218536 GTTTTGTTGC
*
25218546 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
25218562 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
25218578 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:25218866 original size:51 final size:51
Alignment explanation
Indices: 25218808--25218993 Score: 213
Period size: 51 Copynumber: 3.7 Consensus size: 51
25218798 GTTCACATAA
* *
25218808 TAGCCTGCACATAGTACTACACATGTGACCATCACTATCCAGTACACGTAG
1 TAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGGTACACGTAG
* * ** *
25218859 TAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATTCGGTATGCATAG
1 TAGCCTGCACATAGTACTACACATGTGA-CCATCA-CTATTCGGTACACGTAG
* * *
25218910 TAGCCTGCACATAGTATTACACATGCGACCTATCA-T-TTTGGTACACGTAG
1 TAGCCTGCACATAGTACTACACATGTGACC-ATCACTATTCGGTACACGTAG
25218960 TAGCCTGCACATAGTACTACAC--GTGACCATCACT
1 TAGCCTGCACATAGTACTACACATGTGACCATCACT
25218994 TTCACTTTCA
Statistics
Matches: 112, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
47 4 0.04
48 6 0.05
50 33 0.29
51 66 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (51 bp):
TAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGGTACACGTAG
Found at i:25223355 original size:90 final size:90
Alignment explanation
Indices: 25223201--25223376 Score: 325
Period size: 90 Copynumber: 2.0 Consensus size: 90
25223191 CAATTTGATA
* * *
25223201 TTTTATTATGTTTTTTGGATTATTGGGGTAAAAAGGTCAAGAAACGATGTATGGTACAATATTTT
1 TTTTATTATATTTTTTAGATTATTGGGGTAAAAAGGTCAAGAAACGATGTATGGTACAACATTTT
25223266 TACCTAAATAATATAAAAAATAATG
66 TACCTAAATAATATAAAAAATAATG
25223291 TTTTATTATATTTTTTAGATTATTGGGGTAAAAAGGTCAAGAAACGATGTATGGTACAACATTTT
1 TTTTATTATATTTTTTAGATTATTGGGGTAAAAAGGTCAAGAAACGATGTATGGTACAACATTTT
25223356 TACCTAAATAATATAAAAAAT
66 TACCTAAATAATATAAAAAAT
25223377 TAATTAAATA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (90 bp):
TTTTATTATATTTTTTAGATTATTGGGGTAAAAAGGTCAAGAAACGATGTATGGTACAACATTTT
TACCTAAATAATATAAAAAATAATG
Found at i:25226030 original size:30 final size:31
Alignment explanation
Indices: 25225974--25226033 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
25225964 GGATGTGGGA
*
25225974 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
25226005 TGGGAA-GGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
25226034 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:25229378 original size:18 final size:18
Alignment explanation
Indices: 25229355--25229390 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25229345 TCGTCAAAAA
25229355 CTACTTTACAAAATAGTC
1 CTACTTTACAAAATAGTC
25229373 CTACTTTACAAAATAGTC
1 CTACTTTACAAAATAGTC
25229391 TTAACTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (18 bp):
CTACTTTACAAAATAGTC
Found at i:25240065 original size:26 final size:26
Alignment explanation
Indices: 25240036--25240089 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
25240026 TAATTAGTAT
*
25240036 AAAATATT-AATAATTCAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
*
25240061 AAAAATTAAATACTTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
25240087 AAA
1 AAA
25240090 TTTAGGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:25240853 original size:16 final size:15
Alignment explanation
Indices: 25240828--25240861 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
25240818 AAACTTGATA
*
25240828 ATAATTAATATATATT
1 ATAATAAATATA-ATT
25240844 ATAATAAATATAATT
1 ATAATAAATATAATT
25240859 ATA
1 ATA
25240862 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:25247835 original size:15 final size:15
Alignment explanation
Indices: 25247812--25247867 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 15
25247802 TTATTTTAAA
25247812 AAATATATAAAATAT
1 AAATATATAAAATAT
* *
25247827 AAATTTATAAAATAAA
1 AAATATATAAAAT-AT
* *
25247843 AAATATATACAATTAA
1 AAATATATA-AAATAT
25247859 AAATATATA
1 AAATATATA
25247868 TAAAAAAGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.34
16 20 0.57
17 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATATATAAAATAT
Found at i:25247851 original size:16 final size:16
Alignment explanation
Indices: 25247808--25247872 Score: 78
Period size: 15 Copynumber: 4.0 Consensus size: 16
25247798 ATTATTATTT
25247808 TAAAAAATATATAAAA
1 TAAAAAATATATAAAA
* *
25247824 T-ATAAATTTATAAAA
1 TAAAAAATATATAAAA
*
25247839 TAAAAAATATATACAAT
1 TAAAAAATATATA-AAA
25247856 TAAAAATATATATAAAA
1 TAAAAA-ATATATAAAA
25247873 AAGGCTATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
15 13 0.32
16 10 0.25
17 10 0.25
18 7 0.17
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAAATATATAAAA
Found at i:25251859 original size:11 final size:11
Alignment explanation
Indices: 25251843--25251872 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
25251833 ATTAGATCTC
*
25251843 TACTTCTTTTA
1 TACTTCTTCTA
25251854 TACTTCTTCTA
1 TACTTCTTCTA
25251865 TACTTCTT
1 TACTTCTT
25251873 ATGCCTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (11 bp):
TACTTCTTCTA
Found at i:25252027 original size:17 final size:18
Alignment explanation
Indices: 25251997--25252096 Score: 54
Period size: 18 Copynumber: 5.7 Consensus size: 18
25251987 ATTTTATAAC
25251997 AATA-ATAT-AAAATTTA
1 AATATATATAAAAATTTA
* *
25252013 AATTTAT-TAAAAATTAAA
1 AATATATATAAAAATT-TA
*
25252031 AATATATATAAATATTTA
1 AATATATATAAAAATTTA
*
25252049 AA-ATA-ACTAGAAATTTTTA
1 AATATATA-TA-AAA-ATTTA
*
25252068 AAT-T-TATAAAAATATA
1 AATATATATAAAAATTTA
25252084 CAA-ATATATAAAA
1 -AATATATATAAAA
25252097 GAACCAAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
16 8 0.13
17 19 0.30
18 21 0.33
19 15 0.24
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (18 bp):
AATATATATAAAAATTTA
Found at i:25252063 original size:36 final size:34
Alignment explanation
Indices: 25251997--25252063 Score: 80
Period size: 36 Copynumber: 1.9 Consensus size: 34
25251987 ATTTTATAAC
* * *
25251997 AATAATATAAAATTTAAATTTATTAAAAATTAAA
1 AATAATATAAAATTTAAAATAACTAAAAATTAAA
*
25252031 AATATATATAAATATTTAAAATAACTAGAAATT
1 AATA-ATATAAA-ATTTAAAATAACTAAAAATT
25252064 TTTAAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 4 0.15
35 7 0.26
36 16 0.59
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (34 bp):
AATAATATAAAATTTAAAATAACTAAAAATTAAA
Found at i:25253113 original size:18 final size:18
Alignment explanation
Indices: 25253074--25253126 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
25253064 TCTAAAAATT
* *
25253074 AAATTTAAAATTATTA-AT
1 AAATTTAAAAATA-TACAA
25253092 AAATTTAAAAATATACAA
1 AAATTTAAAAATATACAA
*
25253110 AAATGATAAAAATATAC
1 AAAT-TTAAAAATATAC
25253127 TCCCCCTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 2 0.07
18 17 0.57
19 11 0.37
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (18 bp):
AAATTTAAAAATATACAA
Found at i:25253479 original size:27 final size:27
Alignment explanation
Indices: 25253439--25253493 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
25253429 GACGAACTTC
* *
25253439 TTCACCGCTTAGATCTCTCAAATGGGT
1 TTCACCACTCAGATCTCTCAAATGGGT
25253466 TTCACCACTCAGATCTCTCAAATGGGT
1 TTCACCACTCAGATCTCTCAAATGGGT
25253493 T
1 T
25253494 AGCTATTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (27 bp):
TTCACCACTCAGATCTCTCAAATGGGT
Found at i:25254229 original size:17 final size:16
Alignment explanation
Indices: 25254205--25254248 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
25254195 AAATTTGAGA
25254205 ATTTTTTTTAATTTAT
1 ATTTTTTTTAATTTAT
* *
25254221 ATATTTTTTAGATTTTT
1 ATTTTTTTTA-ATTTAT
25254238 ATTTTTTTTAA
1 ATTTTTTTTAA
25254249 AAATCAGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTTTTTTTAATTTAT
Found at i:25264722 original size:55 final size:55
Alignment explanation
Indices: 25264638--25264747 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
25264628 AAATAGGCTC
*
25264638 TGTCAACACATGTTATAGATACTTTTTCATTTTGCATAATTTTCTCCTTAGATCT
1 TGTCAACACATGTTATAGACACTTTTTCATTTTGCATAATTTTCTCCTTAGATCT
25264693 TGTCAACACATGTTATAGACACTTTTTCATTTTGCATAATTTTCTCCTTAGATCT
1 TGTCAACACATGTTATAGACACTTTTTCATTTTGCATAATTTTCTCCTTAGATCT
25264748 AGGCTTTAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.46
Consensus pattern (55 bp):
TGTCAACACATGTTATAGACACTTTTTCATTTTGCATAATTTTCTCCTTAGATCT
Found at i:25264927 original size:8 final size:8
Alignment explanation
Indices: 25264914--25264945 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
25264904 TGTTCTTTAT
25264914 GTTCATTC
1 GTTCATTC
25264922 GTTCATTC
1 GTTCATTC
25264930 GTTCATTC
1 GTTCATTC
25264938 GTTCATTC
1 GTTCATTC
25264946 AAGTTTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.50
Consensus pattern (8 bp):
GTTCATTC
Found at i:25277079 original size:13 final size:13
Alignment explanation
Indices: 25277061--25277085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25277051 AGTTTGGTGC
25277061 GTTATTGTTGCTT
1 GTTATTGTTGCTT
25277074 GTTATTGTTGCT
1 GTTATTGTTGCT
25277086 GGTTTATTGA
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:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (13 bp):
GTTATTGTTGCTT
Found at i:25277300 original size:19 final size:19
Alignment explanation
Indices: 25277255--25277303 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
25277245 TTGTTGTATT
25277255 GTTGATGTTGTTTATTTGG
1 GTTGATGTTGTTTATTTGG
** *
25277274 ACTCATGTTGTTTATTTGG
1 GTTGATGTTGTTTATTTGG
25277293 GTTGATGTTGT
1 GTTGATGTTGT
25277304 GTTGCTTTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.12, C:0.04, G:0.29, T:0.55
Consensus pattern (19 bp):
GTTGATGTTGTTTATTTGG
Found at i:25287376 original size:25 final size:25
Alignment explanation
Indices: 25287343--25287394 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
25287333 ACCTACACTA
*
25287343 ATCAGAGTTTAAGTGGGAAACTAAT
1 ATCAAAGTTTAAGTGGGAAACTAAT
*
25287368 ATCAAAGTTTAAGTGTGAAACTAAT
1 ATCAAAGTTTAAGTGGGAAACTAAT
25287393 AT
1 AT
25287395 TAAAATAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (25 bp):
ATCAAAGTTTAAGTGGGAAACTAAT
Found at i:25287431 original size:69 final size:69
Alignment explanation
Indices: 25287320--25287448 Score: 204
Period size: 69 Copynumber: 1.9 Consensus size: 69
25287310 ATAGGTAAAA
* * ** * *
25287320 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAACTAATATCAAAGTTTAAGTGTG
1 TAATATTAAAATAACATACACTAATCAAAGTTTAAGCAGGAAACTAAAAACAAAGTTTAAGTGTG
25287385 AAAC
66 AAAC
25287389 TAATATTAAAATAACATACACTAATCAAAGTTTAAGCAGGAAACTAAAAACAAAGTTTAA
1 TAATATTAAAATAACATACACTAATCAAAGTTTAAGCAGGAAACTAAAAACAAAGTTTAA
25287449 CTGGGAGAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (69 bp):
TAATATTAAAATAACATACACTAATCAAAGTTTAAGCAGGAAACTAAAAACAAAGTTTAAGTGTG
AAAC
Found at i:25289955 original size:31 final size:29
Alignment explanation
Indices: 25289887--25289956 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
25289877 AAATTTAAAC
* *
25289887 TTCATATATAAAATTACATAAAATCAAAA
1 TTCATGTATAAAATTACATAAAACCAAAA
** *
25289916 TTTTTGTATAAAATTACATATTAGACCAAAA
1 TTCATGTATAAAATTACATA--AAACCAAAA
25289947 TTCATGTATA
1 TTCATGTATA
25289957 GTTTTAAGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
29 17 0.53
31 15 0.47
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (29 bp):
TTCATGTATAAAATTACATAAAACCAAAA
Found at i:25290685 original size:28 final size:25
Alignment explanation
Indices: 25290626--25290676 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25290616 TAATCGACAC
25290626 TACTTTGAGGAAAGAATAATTTTTT
1 TACTTTGAGGAAAGAATAATTTTTT
25290651 TACTTTGAGGAAAGAATAATTTTTT
1 TACTTTGAGGAAAGAATAATTTTTT
25290676 T
1 T
25290677 TAGATTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (25 bp):
TACTTTGAGGAAAGAATAATTTTTT
Found at i:25293024 original size:21 final size:21
Alignment explanation
Indices: 25293000--25293043 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
25292990 AGAATGCACG
25293000 TATATATATG-TATAATAATAA
1 TATATA-ATGTTATAATAATAA
25293021 TATATAATGTTATAATAATAA
1 TATATAATGTTATAATAATAA
25293042 TA
1 TA
25293044 GCAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TATATAATGTTATAATAATAA
Found at i:25294967 original size:45 final size:44
Alignment explanation
Indices: 25294889--25295012 Score: 158
Period size: 45 Copynumber: 2.8 Consensus size: 44
25294879 TTCTATATTT
* * *
25294889 GATCTACTTCACGCTAGTACATGAAGACAAGATCTATTTTCTTC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTAGTATCTTC
* ** * *
25294933 GATCTACTTCACCACCAGTACGGGAAGACAAGATCTGGTATCTTT
1 GATCTACTTCA-CGCCAGTACATGAAGACAAGATCTAGTATCTTC
*
25294978 GATCTACTTCACGCCAGTACATGAAGACAATATCT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCT
25295013 GCTTTTTCAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 31 0.46
45 36 0.54
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTAGTATCTTC
Found at i:25295013 original size:44 final size:44
Alignment explanation
Indices: 25294867--25295013 Score: 168
Period size: 44 Copynumber: 3.3 Consensus size: 44
25294857 GTCTATGTAG
* ** * *
25294867 GAAGGCAAGATCTTCTATATTTGATCTACTTCACGCTAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
** * * * **
25294911 GAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTACGG
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCA-CGCCAGTACAT
25294956 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
*
25295000 GAAGACAATATCTG
1 GAAGACAAGATCTG
25295014 CTTTTTCAAT
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 48 0.57
45 36 0.43
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:25295286 original size:44 final size:44
Alignment explanation
Indices: 25295230--25295720 Score: 335
Period size: 45 Copynumber: 11.0 Consensus size: 44
25295220 GGACCTACTA
*
25295230 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
* * * * *** * *
25295274 TCTTCGACCTACTCCACCACCAGTATGGGGAGACAATATCTG-TT
1 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTTT
* * *
25295318 TCTTTGATCTACTTCACGCCAATACATGAAGACAAAATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
* * *** * *
25295362 TCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTG
1 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTTT
* * * *
25295407 ACTTTGATCTACTTCACG-CTGATACATGAAGGCAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGTTT
* * *** * *
25295451 TCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTG
1 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTTT
* * * **
25295496 ACTTTGATCTACTTCACG-CTGATACATGAAGACAATATCTACTT
1 TCTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGTTT
* * *** * * *
25295540 TCTTTCGATCTACTTCGCCACCAGTATGGGAAGGCGAGATCTG-TA
1 TCTTT-GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTT
* * *
25295585 TATTCGATCTACTTCACGCTAGTACATGAAGACAAGATCTGTATT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGT-TT
* * * * * ** * *
25295630 CCTTCGATCTGCTTCGCCACCAGTACGGGAATG-CGAGATCTGTTA
1 TCTTTGATCTACTTC-ACGCCAGTACATGAA-GACAAGATCTGTTT
*
25295675 TCTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTT
25295720 T
1 T
25295721 TCCTTCAATC
Statistics
Matches: 324, Mismatches: 107, Indels: 31
0.70 0.23 0.07
Matches are distributed among these distances:
43 41 0.13
44 122 0.38
45 124 0.38
46 34 0.10
47 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
Found at i:25295453 original size:89 final size:89
Alignment explanation
Indices: 25295231--25295719 Score: 600
Period size: 89 Copynumber: 5.5 Consensus size: 89
25295221 GACCTACTAT
* * * *
25295231 CTTTGATCTACTTCACGC-CAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
1 CTTTGATCTACTTCACGCTCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACC
* *
25295295 AGTATGGGGAGACAATATCTGTTT
66 AGTATGGGGAGACAAGATCTGTTA
* *
25295319 CTTTGATCTACTTCACGC-CAATACATGAAGACAAAATCTGCTTTCTTTGATCTACTCCACCACC
1 CTTTGATCTACTTCACGCTCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACC
25295383 AGTATGGGGAGACAAGATCTGTTGA
66 AGTATGGGGAGACAAGATCTGTT-A
* *
25295408 CTTTGATCTACTTCACGCTGA-TACATGAAGGCAAGATCTGCTTTCTTTGATCTACTCCACCACC
1 CTTTGATCTACTTCACGCTCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACC
25295472 AGTATGGGGAGACAAGATCTGTTGA
66 AGTATGGGGAGACAAGATCTGTT-A
* * * * *
25295497 CTTTGATCTACTTCACGCTGA-TACATGAAGACAATATCTACTTTCTTTCGATCTACTTCGCCAC
1 CTTTGATCTACTTCACGCTCAGTACATGAAGACAAGATCTGCTTTCTTT-GATCTACTCCACCAC
* * *
25295561 CAGTATGGGAAGGCGAGATCTGTATA
65 CAGTATGGGGAGACAAGATCTGT-TA
* * * * *
25295587 -TTCGATCTACTTCACGCT-AGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCA
1 CTTTGATCTACTTCACGCTCAGTACATGAAGACAAGATCTGCT-TT-CTTTGATCTACTCCACCA
* * *
25295649 CCAGTACGGGAATG-CGAGATCTGTTA
64 CCAGTATGGGGA-GACAAGATCTGTTA
*
25295675 TCTTTGATCTACTTCACGC-CAGTACATAAAGACAAGATCTGCTTT
1 -CTTTGATCTACTTCACGCTCAGTACATGAAGACAAGATCTGCTTT
25295720 TTCCTTCAAT
Statistics
Matches: 362, Mismatches: 27, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
88 84 0.23
89 199 0.55
90 77 0.21
91 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (89 bp):
CTTTGATCTACTTCACGCTCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACC
AGTATGGGGAGACAAGATCTGTTA
Found at i:25295550 original size:45 final size:43
Alignment explanation
Indices: 25295230--25295719 Score: 215
Period size: 44 Copynumber: 11.0 Consensus size: 43
25295220 GGACCTACTA
* *
25295230 TCTTTGATCTACTTCACG-CCAGTACATGAAGACACGATCTGTTT
1 TCTTTGATCTACTTCACGCCCA-TACATGAAGACAAGATCT-CTT
* * * *** * * *
25295274 TCTTCGACCTACTCCAC-CACCAGTATGGGGAGACAATATCTGTT
1 TCTTTGATCTACTTCACGC-CCA-TACATGAAGACAAGATCTCTT
* *
25295318 TCTTTGATCTACTTCACGCCAATACATGAAGACAAAATCTGCTT
1 TCTTTGATCTACTTCACGCCCATACATGAAGACAAGATCT-CTT
* *** * *
25295362 TCTTTGATCTACTCCAC-CACCAGTATGGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTCACGC-CCA-TACATGAAGACAAGATCTCTT
* ** *
25295406 GACTTTGATCTACTTCACGCTGATACATGAAGGCAAGATCTGCTT
1 -TCTTTGATCTACTTCACGCCCATACATGAAGACAAGATCT-CTT
* *** * *
25295451 TCTTTGATCTACTCCAC-CACCAGTATGGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTCACGC-CCA-TACATGAAGACAAGATCTCTT
* ** *
25295495 GACTTTGATCTACTTCACGCTGATACATGAAGACAATATCTACTT
1 -TCTTTGATCTACTTCACGCCCATACATGAAGACAAGATCT-CTT
* *** * * * *
25295540 TCTTTCGATCTACTTCGC-CACCAGTATGGGAAGGCGAGATCTGTA
1 TCTTT-GATCTACTTCACGC-CCA-TACATGAAGACAAGATCTCTT
* * * *
25295585 TATTCGATCTACTTCACG-CTAGTACATGAAGACAAGATCTGTAT
1 TCTTTGATCTACTTCACGCCCA-TACATGAAGACAAGATCTCT-T
* * * ** * *
25295629 TCCTTCGATCTGCTTCGC-CACCAGTACGGGAATG-CGAGATCTGTT
1 T-CTTTGATCTACTTCACGC-CCA-TACATGAA-GACAAGATCTCTT
*
25295674 ATCTTTGATCTACTTCACG-CCAGTACATAAAGACAAGATCTGCTT
1 -TCTTTGATCTACTTCACGCCCA-TACATGAAGACAAGATCT-CTT
25295719 T
1 T
25295720 TTCCTTCAAT
Statistics
Matches: 324, Mismatches: 95, Indels: 54
0.68 0.20 0.11
Matches are distributed among these distances:
43 34 0.10
44 132 0.41
45 124 0.38
46 33 0.10
47 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
TCTTTGATCTACTTCACGCCCATACATGAAGACAAGATCTCTT
Found at i:25295809 original size:92 final size:91
Alignment explanation
Indices: 25295235--25295780 Score: 487
Period size: 89 Copynumber: 6.1 Consensus size: 91
25295225 TACTATCTTT
* * * * *
25295235 GATCTACTTCACGCCAGTACATGAAGACACGATCTG--TTTT-CTTCGACCTACTCCACCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
* * * * * * *
25295297 TATGGGGAGACAATATCTGTTTCTTT
66 TATGGGAAGGCGAGATCTGTATATTC
* * * * * *
25295323 GATCTACTTCACGCCAATACATGAAGACAAAATCTGC--TTT-CTTTGATCTACTCCACCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
* * * *
25295385 TATGGGGAGACAAGATCTGT-TGACTTT
66 TATGGGAAGGCGAGATCTGTAT-A-TTC
* * * * * *
25295412 GATCTACTTCACG-CTGATACATGAAGGCAAGATCTGC--TTT-CTTTGATCTACTCCACCACCA
1 GATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCA
* * * *
25295473 GTATGGGGAGACAAGATCTGT-TGACTTT
65 GTATGGGAAGGCGAGATCTGTAT-A-TTC
* * * * *
25295501 GATCTACTTCACG-CTGATACATGAAGACAATATCTAC--TTTCTTTCGATCTACTTCGCCACCA
1 GATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCA
25295563 GTATGGGAAGGCGAGATCTGTATATTC
65 GTATGGGAAGGCGAGATCTGTATATTC
* *
25295590 GATCTACTTCACGCTAGTACATGAAGACAAGATCTG--TATTCCTTCGATCTGCTTCGCCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
* * * *
25295653 TACGGGAATGCGAGATCTGTTATCTTT
66 TATGGGAAGGCGAGATCTG-TATATTC
* *
25295680 GATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTTTCCTTCAATCTGCTTCGCCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
*
25295745 TATGGGAAGGCGAAATCTGTATATTC
66 TATGGGAAGGCGAGATCTGTATATTC
*
25295771 GATCCACTTC
1 GATCTACTTC
25295781 GCTACCAATA
Statistics
Matches: 404, Mismatches: 43, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
87 1 0.00
88 76 0.19
89 195 0.48
90 76 0.19
91 15 0.04
92 41 0.10
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (91 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
TATGGGAAGGCGAGATCTGTATATTC
Found at i:25299934 original size:19 final size:20
Alignment explanation
Indices: 25299910--25299949 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
25299900 AAAGGTTTTT
* *
25299910 AATGCATATG-ATGCAATGA
1 AATGCAAATGCATGAAATGA
25299929 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
25299949 A
1 A
25299950 TGCGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:25302365 original size:21 final size:21
Alignment explanation
Indices: 25302341--25302384 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
25302331 AGAATGCACG
25302341 TATATATATG-TATAATAATAA
1 TATATA-ATGTTATAATAATAA
25302362 TATATAATGTTATAATAATAA
1 TATATAATGTTATAATAATAA
25302383 TA
1 TA
25302385 GCAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TATATAATGTTATAATAATAA
Found at i:25305230 original size:14 final size:14
Alignment explanation
Indices: 25305207--25305237 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25305197 TTTTTAGTAA
*
25305207 AATAGGTAAAATAT
1 AATAGATAAAATAT
25305221 AATAGATAAAATAT
1 AATAGATAAAATAT
25305235 AAT
1 AAT
25305238 TTAATTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (14 bp):
AATAGATAAAATAT
Found at i:25309768 original size:80 final size:81
Alignment explanation
Indices: 25309633--25309788 Score: 296
Period size: 80 Copynumber: 1.9 Consensus size: 81
25309623 AGGAAAAATC
25309633 AAATTGAAGTGGAGTGAGAGGGGTGAGGATGGGTGCATCCAATATTCATGAGGTGGTAGTGGTTT
1 AAATTGAAGTGGAGT-AGAGGGGTGAGGATGGGTGCATCCAATATTCATGAGGTGGTAGTGGTTT
25309698 TCAAGATTATAAAATTT
65 TCAAGATTATAAAATTT
25309715 AAATTGAAGTGGAGT-GAGGGGTGAGGATGGGTGCATCCAATATTCATGAGGTGGTAGTGGTTTT
1 AAATTGAAGTGGAGTAGAGGGGTGAGGATGGGTGCATCCAATATTCATGAGGTGGTAGTGGTTTT
25309779 CAAGATTATA
66 CAAGATTATA
25309789 CATTCATAGT
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
80 59 0.80
82 15 0.20
ACGTcount: A:0.29, C:0.06, G:0.34, T:0.30
Consensus pattern (81 bp):
AAATTGAAGTGGAGTAGAGGGGTGAGGATGGGTGCATCCAATATTCATGAGGTGGTAGTGGTTTT
CAAGATTATAAAATTT
Found at i:25312525 original size:22 final size:22
Alignment explanation
Indices: 25312499--25312542 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25312489 AGAATGCCTG
*
25312499 ATATTGATGTAGTCCTGAACAT
1 ATATTGATGCAGTCCTGAACAT
25312521 ATATTGATGCAGTCCTGAACAT
1 ATATTGATGCAGTCCTGAACAT
25312543 TGTACAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (22 bp):
ATATTGATGCAGTCCTGAACAT
Found at i:25317461 original size:20 final size:20
Alignment explanation
Indices: 25317436--25317497 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
25317426 CATAGTAAAC
*
25317436 CAAAATAACCATAACCTATA
1 CAAAATAACCATAGCCTATA
*
25317456 CAAAATAACCATGGCCTATA
1 CAAAATAACCATAGCCTATA
25317476 CAAAATAACCATAGCCTATA
1 CAAAATAACCATAGCCTATA
25317496 CA
1 CA
25317498 TGCCATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.50, C:0.26, G:0.05, T:0.19
Consensus pattern (20 bp):
CAAAATAACCATAGCCTATA
Found at i:25318318 original size:85 final size:86
Alignment explanation
Indices: 25318214--25318413 Score: 228
Period size: 85 Copynumber: 2.3 Consensus size: 86
25318204 ATCACATACA
* * ** * **
25318214 ATGCCATATCCCGGATATGGTCTTACATGTTATCACATATCGATGCCAATAG-CCCA-ACAATTT
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCACATAACGATGCCAAT-GTCCCAGAC-ATGG
* *
25318277 TCTTACACG-AAT-CATATATTG
64 TCTGACACGTAATACATATATCG
*
25318298 ATGCCAATATCCCAGATATGGTCTTACCCGAAATCACATAACGATGCCAATGTCCCAGACATGGT
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGACATGGT
25318363 CTGACACGTAATCACATATATCG
65 CTGACACGTAAT-ACATATATCG
* *
25318386 ATGCCATATCCCAGACATGGTTTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
25318414 AAAGTCTCAT
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
84 6 0.06
85 53 0.55
86 5 0.05
87 20 0.21
88 13 0.13
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (86 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGACATGGTC
TGACACGTAATACATATATCG
Found at i:25318323 original size:42 final size:43
Alignment explanation
Indices: 25318204--25318413 Score: 205
Period size: 43 Copynumber: 4.9 Consensus size: 43
25318194 AGTCTTGTAT
* * * * *
25318204 ATCACATA-CAATGCC-ATATCCCGGATATGGTCTTACATGTT
1 ATCACATATCGATGCCAATATCCCAGACATGGTCTTACACGTA
* **
25318245 ATCACATATCGATGCCAATAGCCCA-ACAATTTTCTTACACG-A
1 ATCACATATCGATGCCAATATCCCAGAC-ATGGTCTTACACGTA
* * * * *
25318287 ATCATATATTGATGCCAATATCCCAGATATGGTCTTACCCGAA
1 ATCACATATCGATGCCAATATCCCAGACATGGTCTTACACGTA
* * *
25318330 ATCACATAACGATGCCAATGTCCCAGACATGGTCTGACACGTA
1 ATCACATATCGATGCCAATATCCCAGACATGGTCTTACACGTA
*
25318373 ATCACATATATCGATGCC-ATATCCCAGACATGGTTTTACAC
1 ATCAC--ATATCGATGCCAATATCCCAGACATGGTCTTACAC
25318414 AAAGTCTCAT
Statistics
Matches: 135, Mismatches: 27, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
41 8 0.06
42 39 0.29
43 58 0.43
44 20 0.15
45 10 0.07
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
ATCACATATCGATGCCAATATCCCAGACATGGTCTTACACGTA
Found at i:25318429 original size:44 final size:45
Alignment explanation
Indices: 25318214--25318464 Score: 195
Period size: 43 Copynumber: 5.8 Consensus size: 45
25318204 ATCACATACA
* * * **
25318214 ATGCC-ATATCCCGGATATGGTCTTACATGTTATCAC--ATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATATCG
* ** *
25318256 ATGCCAATAGCCCA-ACAATTTTCTTACACG-AAT--CATATATTG
1 ATGCCAATATCCCAGAC-ATGGTCTTACACGAAATCACATATATCG
* *
25318298 ATGCCAATATCCCAGATATGGTCTTACCCGAAATCACATA-A-CG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATATCG
* * *
25318341 ATGCCAATGTCCCAGACATGGTCTGACACGTAATCACATATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATATCG
* * *
25318386 ATGCC-ATATCCCAGACATGGTTTTACAC-AAAGTCTCATTTATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAA-TCACATATATCG
* * * *
25318430 AAGCC-ATAGCCCA-ACTATGGTCTTATACAAAATCA
1 ATGCCAATATCCCAGAC-ATGGTCTTACACGAAATCA
25318465 TGTAAAGCCA
Statistics
Matches: 166, Mismatches: 30, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
40 1 0.01
42 36 0.22
43 60 0.36
44 55 0.33
45 14 0.08
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (45 bp):
ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATATCG
Found at i:25321853 original size:15 final size:16
Alignment explanation
Indices: 25321833--25321862 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25321823 ATGTGTTTTC
25321833 ATCCAACAG-TAAAAA
1 ATCCAACAGTTAAAAA
25321848 ATCCAACAGTTAAAA
1 ATCCAACAGTTAAAA
25321863 TTTTTCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.20, G:0.07, T:0.17
Consensus pattern (16 bp):
ATCCAACAGTTAAAAA
Found at i:25323334 original size:6 final size:6
Alignment explanation
Indices: 25323323--25323368 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
25323313 ACGAAGGAAT
* * * *
25323323 AAGATG AAGATG AAGGTG AAGGTG AAGGTG AAGATG AAGGTG AAGA
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGA
25323369 AGATGGGGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.41, T:0.15
Consensus pattern (6 bp):
AAGATG
Found at i:25323348 original size:12 final size:12
Alignment explanation
Indices: 25323327--25323368 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
25323317 AGGAATAAGA
25323327 TGAAGATGAAGG
1 TGAAGATGAAGG
*
25323339 TGAAGGTGAAGG
1 TGAAGATGAAGG
25323351 TGAAGATGAAGG
1 TGAAGATGAAGG
25323363 TGAAGA
1 TGAAGA
25323369 AGATGGGGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (12 bp):
TGAAGATGAAGG
Found at i:25323354 original size:18 final size:18
Alignment explanation
Indices: 25323327--25323368 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
25323317 AGGAATAAGA
*
25323327 TGAAGATGAAGGTGAAGG
1 TGAAGATGAAGATGAAGG
*
25323345 TGAAGGTGAAGATGAAGG
1 TGAAGATGAAGATGAAGG
25323363 TGAAGA
1 TGAAGA
25323369 AGATGGGGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (18 bp):
TGAAGATGAAGATGAAGG
Found at i:25324912 original size:24 final size:24
Alignment explanation
Indices: 25324885--25324939 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
25324875 CTCCCACCAC
25324885 TTCTCCCCCAGCTCCTCCCGCTGG
1 TTCTCCCCCAGCTCCTCCCGCTGG
* * * *
25324909 TTCTCCCGCTGGTTCTCCCGCTGG
1 TTCTCCCCCAGCTCCTCCCGCTGG
*
25324933 CTCTCCC
1 TTCTCCC
25324940 GCTGGCTCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.02, C:0.51, G:0.18, T:0.29
Consensus pattern (24 bp):
TTCTCCCCCAGCTCCTCCCGCTGG
Found at i:25324914 original size:12 final size:12
Alignment explanation
Indices: 25324899--25324954 Score: 94
Period size: 12 Copynumber: 4.7 Consensus size: 12
25324889 CCCCCAGCTC
*
25324899 CTCCCGCTGGTT
1 CTCCCGCTGGCT
*
25324911 CTCCCGCTGGTT
1 CTCCCGCTGGCT
25324923 CTCCCGCTGGCT
1 CTCCCGCTGGCT
25324935 CTCCCGCTGGCT
1 CTCCCGCTGGCT
25324947 CTCCCGCT
1 CTCCCGCT
25324955 AGCGCTGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.00, C:0.48, G:0.23, T:0.29
Consensus pattern (12 bp):
CTCCCGCTGGCT
Found at i:25324925 original size:36 final size:36
Alignment explanation
Indices: 25324885--25324954 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
25324875 CTCCCACCAC
*
25324885 TTCTCCC-CCAGCTCCTCCCGCTGGTTCTCCCGCTGG
1 TTCTCCCGCCAGCT-CTCCCGCTGGCTCTCCCGCTGG
**
25324921 TTCTCCCGCTGGCTCTCCCGCTGGCTCTCCCGCT
1 TTCTCCCGCCAGCTCTCCCGCTGGCTCTCCCGCT
25324955 AGCGCTGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 26 0.87
37 4 0.13
ACGTcount: A:0.01, C:0.50, G:0.20, T:0.29
Consensus pattern (36 bp):
TTCTCCCGCCAGCTCTCCCGCTGGCTCTCCCGCTGG
Found at i:25326174 original size:28 final size:28
Alignment explanation
Indices: 25326134--25326192 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
25326124 ACCAGAATGT
25326134 ATCATAACTCATCATCTAATTTTATATA
1 ATCATAACTCATCATCTAATTTTATATA
25326162 ATCATAACTCATCATCTAATTTTATATA
1 ATCATAACTCATCATCTAATTTTATATA
25326190 ATC
1 ATC
25326193 TTTTTCACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (28 bp):
ATCATAACTCATCATCTAATTTTATATA
Found at i:25335515 original size:25 final size:25
Alignment explanation
Indices: 25335487--25335535 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
25335477 CTGTCTTTGA
* *
25335487 TAGTATATCCTGAAACTATTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
25335512 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
25335536 ATATATTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:25339967 original size:22 final size:22
Alignment explanation
Indices: 25339942--25339995 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
25339932 AAAGAGTCAT
*
25339942 TTTTCACTCCATCTTTCTAATG
1 TTTTCTCTCCATCTTTCTAATG
* *
25339964 TTTTCTCTCTATCTTTCTGATG
1 TTTTCTCTCCATCTTTCTAATG
25339986 TTTTCTCTCC
1 TTTTCTCTCC
25339996 CCCATCTCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.11, C:0.28, G:0.06, T:0.56
Consensus pattern (22 bp):
TTTTCTCTCCATCTTTCTAATG
Found at i:25342437 original size:9 final size:9
Alignment explanation
Indices: 25342423--25342448 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25342413 TGGTGAAATT
25342423 GTGAAATAA
1 GTGAAATAA
25342432 GTGAAATAA
1 GTGAAATAA
25342441 GTGAAATA
1 GTGAAATA
25342449 TAGGGCTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (9 bp):
GTGAAATAA
Found at i:25353134 original size:22 final size:23
Alignment explanation
Indices: 25353109--25353159 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
25353099 TCTTCTTTTC
* * *
25353109 TTTCTTTC-TTTTTCTTTTCTTT
1 TTTCTCTCATTTTGCTTTTCTAT
*
25353131 TTTCACTCATTTTGCTTTTCTAT
1 TTTCTCTCATTTTGCTTTTCTAT
25353154 TTTCTC
1 TTTCTC
25353160 GAGAACTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTCTCTCATTTTGCTTTTCTAT
Found at i:25356789 original size:37 final size:37
Alignment explanation
Indices: 25356748--25356822 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
25356738 TTAACCTCGT
* *
25356748 TAATAAATGGTCGAATTACCCTCTAAGTCTACTAACA
1 TAATAAATGGTCGAATTACCATCTAAGTCCACTAACA
* *
25356785 TAATAAATGGTCTAATTACCATCTAAGTCCACTCACA
1 TAATAAATGGTCGAATTACCATCTAAGTCCACTAACA
25356822 T
1 T
25356823 TGTAACACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (37 bp):
TAATAAATGGTCGAATTACCATCTAAGTCCACTAACA
Found at i:25358272 original size:27 final size:27
Alignment explanation
Indices: 25358106--25358260 Score: 222
Period size: 27 Copynumber: 5.7 Consensus size: 27
25358096 CTGCATCGAG
25358106 ACCCCCATAGGGTAAAATGATCGAAAT
1 ACCCCCATAGGGTAAAATGATCGAAAT
* * *
25358133 ACCCCTATAGGATAAAATGATAGAAAT
1 ACCCCCATAGGGTAAAATGATCGAAAT
*
25358160 ACCCTCATAGGGTAAAATGATCGAAAT
1 ACCCCCATAGGGTAAAATGATCGAAAT
25358187 ACCCCCATAGGGTAAAATGAAT-GAAAT
1 ACCCCCATAGGGTAAAATG-ATCGAAAT
* * * *
25358214 ACCCCTATAGGGGAAAATGACCAAAAT
1 ACCCCCATAGGGTAAAATGATCGAAAT
25358241 ACCCCCATAGGGTAAAATGA
1 ACCCCCATAGGGTAAAATGA
25358261 CTGTTATACC
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 109 0.97
28 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
ACCCCCATAGGGTAAAATGATCGAAAT
Found at i:25367173 original size:84 final size:88
Alignment explanation
Indices: 25367032--25367260 Score: 288
Period size: 84 Copynumber: 2.6 Consensus size: 88
25367022 CACATATAAC
* *
25367032 ATAAAACAGCCACAAAGGCTTCAACTTATCAGAGAACAACCATAGAGGCTTCCACATATAACATA
1 ATAAAACAGCCACAAAGGCTTCCACTTATCAGAGAACAACCATAGAGGCTTCCACATACAACATA
** *
25367097 TTTTTCCATTAA-GG-T-TC-AT-
66 TTTCGCCA-TAAGGGCTCACAATA
* * * * *
25367116 ATAAAACAGCCACAAAGGCTTCCACTTATCAGAGTACAACTACAGAGGCTTCGACATACAATATA
1 ATAAAACAGCCACAAAGGCTTCCACTTATCAGAGAACAACCATAGAGGCTTCCACATACAACATA
25367181 TTTCGCCATAAGGGCTCACATATA
66 TTTCGCCATAAGGGCTCACA-ATA
*
25367205 ATATAGAACAACCACAAAGGCTTCCACTTATCAGAGAACAACCATAGAGGCTTCCA
1 ATA-A-AACAGCCACAAAGGCTTCCACTTATCAGAGAACAACCATAGAGGCTTCCA
25367261 TATTTCAGTA
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
83 3 0.02
84 66 0.54
85 1 0.01
86 1 0.01
88 2 0.02
89 3 0.02
90 1 0.01
91 45 0.37
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (88 bp):
ATAAAACAGCCACAAAGGCTTCCACTTATCAGAGAACAACCATAGAGGCTTCCACATACAACATA
TTTCGCCATAAGGGCTCACAATA
Found at i:25378395 original size:17 final size:18
Alignment explanation
Indices: 25378375--25378411 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
25378365 GGATTCGCCA
25378375 TTTGGCAAACTCT-AGGT
1 TTTGGCAAACTCTAAGGT
25378392 TTTGGCAAACTCTAAGGT
1 TTTGGCAAACTCTAAGGT
25378410 TT
1 TT
25378412 GACAGACTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (18 bp):
TTTGGCAAACTCTAAGGT
Found at i:25384201 original size:50 final size:50
Alignment explanation
Indices: 25384139--25384240 Score: 154
Period size: 50 Copynumber: 2.0 Consensus size: 50
25384129 TTTATCTAGA
*
25384139 TGAAAAAGTAATTTCCTCGA-CCATCATCAA-TGAAATCATTTTCATTTGTT
1 TGAAAAAGTAATTT-CTCCACCCATCATCAATTG-AATCATTTTCATTTGTT
*
25384189 TGAAAAAGTAATTTCTCCACCCATTATCAATTGAATCATTTTCATTTGTT
1 TGAAAAAGTAATTTCTCCACCCATCATCAATTGAATCATTTTCATTTGTT
25384239 TG
1 TG
25384241 TGGCAAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
49 4 0.08
50 42 0.88
51 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (50 bp):
TGAAAAAGTAATTTCTCCACCCATCATCAATTGAATCATTTTCATTTGTT
Found at i:25386188 original size:15 final size:15
Alignment explanation
Indices: 25386168--25386224 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
25386158 TTTGACAAAC
25386168 TGAAAAATTAAGTGT
1 TGAAAAATTAAGTGT
*
25386183 TGAAAAAATAAGTGT
1 TGAAAAATTAAGTGT
*
25386198 TG-AAAATTAAGTAT
1 TGAAAAATTAAGTGT
*
25386212 TGAAAATTTAAGT
1 TGAAAAATTAAGT
25386225 ACTAAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
14 12 0.32
15 25 0.68
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (15 bp):
TGAAAAATTAAGTGT
Found at i:25386203 original size:14 final size:14
Alignment explanation
Indices: 25386168--25386217 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
25386158 TTTGACAAAC
25386168 TGAAAAATTAAGTGT
1 TGAAAAA-TAAGTGT
25386183 TGAAAAAATAAGTGT
1 TG-AAAAATAAGTGT
* *
25386198 TGAAAATTAAGTAT
1 TGAAAAATAAGTGT
25386212 TGAAAA
1 TGAAAA
25386218 TTTAAGTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 16 0.50
15 11 0.34
16 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (14 bp):
TGAAAAATAAGTGT
Found at i:25389226 original size:3 final size:3
Alignment explanation
Indices: 25389218--25389245 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
25389208 TTTCGAAAAC
25389218 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
25389246 GTTTTGCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:25402257 original size:66 final size:66
Alignment explanation
Indices: 25402150--25402280 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
25402140 GGTTCTTATC
*
25402150 CAGACAGCTGTCAGGTGCGGCGACAATTCTGAACACAATCTGAAATTAACCCATGCAGCGACATT
1 CAGACAGCTGTCAGATGCGGCGACAATTCTGAACACAATCTGAAATTAACCCATGCAGCGACATT
25402215 G
66 G
* * * *
25402216 CAGACATCTGTCAGATGCGGCGACAATTCTGGACACCATCTGGAATTAACCCATGCAGCGACATT
1 CAGACAGCTGTCAGATGCGGCGACAATTCTGAACACAATCTGAAATTAACCCATGCAGCGACATT
25402281 AATGTAATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (66 bp):
CAGACAGCTGTCAGATGCGGCGACAATTCTGAACACAATCTGAAATTAACCCATGCAGCGACATT
G
Found at i:25403301 original size:17 final size:17
Alignment explanation
Indices: 25403265--25403312 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
25403255 CATTGTCCCC
* *
25403265 AATGCACTGACACT-AA
1 AATGCAATGACAATGAA
* *
25403281 AATGTAATGATAATGAA
1 AATGCAATGACAATGAA
25403298 AATGCAATGACAATG
1 AATGCAATGACAATG
25403313 TATACTTATC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.23
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:25403784 original size:18 final size:18
Alignment explanation
Indices: 25403763--25403797 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25403753 AACTTTCTTT
25403763 TCTTCAGCAACAACTTCC
1 TCTTCAGCAACAACTTCC
**
25403781 TCTTTTGCAACAACTTC
1 TCTTCAGCAACAACTTC
25403798 TGCTTCTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (18 bp):
TCTTCAGCAACAACTTCC
Found at i:25410178 original size:19 final size:19
Alignment explanation
Indices: 25410154--25410198 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
25410144 TTCTCTGCAT
25410154 GTTGTGGACAATCTTCATA
1 GTTGTGGACAATCTTCATA
25410173 GTTGTGGACAATCTTCATA
1 GTTGTGGACAATCTTCATA
*
25410192 GCTGTGG
1 GTTGTGG
25410199 TTGTCACTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (19 bp):
GTTGTGGACAATCTTCATA
Found at i:25422661 original size:6 final size:6
Alignment explanation
Indices: 25422650--25422679 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
25422640 TGAATCTTGG
*
25422650 TGTGTA TGTGTA TGTGTA TGTGTG TGTGTA
1 TGTGTA TGTGTA TGTGTA TGTGTA TGTGTA
25422680 ACATGACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (6 bp):
TGTGTA
Found at i:25423826 original size:28 final size:26
Alignment explanation
Indices: 25423780--25423900 Score: 129
Period size: 25 Copynumber: 4.6 Consensus size: 26
25423770 GACAGATAAG
*
25423780 GAAAGCCTTTGTGGCGTAATATGAAAA
1 GAAAACCTTTGTGGCGTAATATG-AAA
*
25423807 GAATAACCTTTGTGGAGTAATATGAAA
1 GAA-AACCTTTGTGGCGTAATATGAAA
* *
25423834 GAAAGCCTTTGTGTGC--CATATGAAA
1 GAAAACCTTTGTG-GCGTAATATGAAA
* *
25423859 GAAAACCTTTGTGGCGTAAAATGAAT
1 GAAAACCTTTGTGGCGTAATATGAAA
*
25423885 TAAAAGCCTTTGTGGC
1 GAAAA-CCTTTGTGGC
25423901 AAACCATGAA
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
24 2 0.03
25 20 0.25
26 19 0.24
27 20 0.25
28 18 0.23
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (26 bp):
GAAAACCTTTGTGGCGTAATATGAAA
Found at i:25423883 original size:51 final size:54
Alignment explanation
Indices: 25423780--25423915 Score: 156
Period size: 51 Copynumber: 2.5 Consensus size: 54
25423770 GACAGATAAG
*
25423780 GAAAGCCTTTGTGGCGTAATATGAAAAGAATAACCTTTGTGGAGTAATATGAA-A
1 GAAAGCCTTTGTGGCG-AATATGAAAAGAATAACCTTTGTGGAGTAAAATGAATA
* *
25423834 GAAAGCCTTTGTGTGC-CATATG-AAAGAA-AACCTTTGTGGCGTAAAATGAATTA
1 GAAAGCCTTTGTG-GCGAATATGAAAAGAATAACCTTTGTGGAGTAAAATGAA-TA
* *
25423887 -AAAGCCTTTGTGGCAAACCATGAAAAGAA
1 GAAAGCCTTTGTGGCGAA-TATGAAAAGAA
25423916 AGCCTCTATG
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
51 22 0.31
52 19 0.27
53 9 0.13
54 19 0.27
55 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (54 bp):
GAAAGCCTTTGTGGCGAATATGAAAAGAATAACCTTTGTGGAGTAAAATGAATA
Found at i:25423917 original size:27 final size:26
Alignment explanation
Indices: 25423780--25423920 Score: 105
Period size: 27 Copynumber: 5.3 Consensus size: 26
25423770 GACAGATAAG
*
25423780 GAAAGCCTTTGTGGCGTAATATGAAAA
1 GAAAGCCTTTGTGGC-AAATATGAAAA
*
25423807 GAATAACCTTTGTGG-AGTAATATG-AAA
1 GAA-AGCCTTTGTGGCA--AATATGAAAA
*
25423834 GAAAGCCTTTGTGTGC-CATATG-AAA
1 GAAAGCCTTTGTG-GCAAATATGAAAA
* *
25423859 GAAAACCTTTGTGGCGTAAA-ATGAATTA
1 GAAAGCCTTTGTGGC--AAATATGAA-AA
*
25423887 -AAAGCCTTTGTGGCAAACCATGAAAA
1 GAAAGCCTTTGTGGCAAA-TATGAAAA
25423913 GAAAGCCT
1 GAAAGCCT
25423921 CTATGGTAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 26
0.72 0.07 0.20
Matches are distributed among these distances:
24 2 0.02
25 23 0.25
26 13 0.14
27 37 0.40
28 17 0.18
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (26 bp):
GAAAGCCTTTGTGGCAAATATGAAAA
Found at i:25424221 original size:12 final size:12
Alignment explanation
Indices: 25424204--25424234 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25424194 AAGGCATAGT
25424204 TGTATTTACTCA
1 TGTATTTACTCA
*
25424216 TGTATTTACTTA
1 TGTATTTACTCA
25424228 TGTATTT
1 TGTATTT
25424235 TAGTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (12 bp):
TGTATTTACTCA
Found at i:25424579 original size:32 final size:32
Alignment explanation
Indices: 25424542--25424603 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
25424532 TTGCAATTTC
25424542 CATTCATGAATATAGAAAATTTGAGTAGTTCA
1 CATTCATGAATATAGAAAATTTGAGTAGTTCA
* * *
25424574 CATTCATGAATCTAGAGAGTTTGAGTAGTT
1 CATTCATGAATATAGAAAATTTGAGTAGTT
25424604 GGTTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (32 bp):
CATTCATGAATATAGAAAATTTGAGTAGTTCA
Found at i:25429953 original size:13 final size:13
Alignment explanation
Indices: 25429935--25429959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25429925 CTGTCGAGGG
25429935 AGCCTTACATTAC
1 AGCCTTACATTAC
25429948 AGCCTTACATTA
1 AGCCTTACATTA
25429960 TTGCACTGTC
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:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (13 bp):
AGCCTTACATTAC
Found at i:25431779 original size:21 final size:21
Alignment explanation
Indices: 25431738--25431780 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
25431728 AATAAAGTAG
*
25431738 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
25431759 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
25431780 A
1 A
25431781 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:25431831 original size:38 final size:37
Alignment explanation
Indices: 25431789--25431860 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
25431779 TAAATTCATA
25431789 TAATAATAATTATATTAAGAATTAT-ATTAAATTATATT
1 TAATAATAATTATATTAA-AA-TATGATTAAATTATATT
* *
25431827 TAATAATAATTATGTTAAAATATGGTTAAATTAT
1 TAATAATAATTATATTAAAATATGATTAAATTAT
25431861 TTATTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 3 0.10
37 11 0.35
38 17 0.55
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (37 bp):
TAATAATAATTATATTAAAATATGATTAAATTATATT
Found at i:25432059 original size:44 final size:46
Alignment explanation
Indices: 25431996--25432085 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
25431986 TATTAAAACA
*
25431996 TCATTCCATTCAACCAAACAAAAGAA-TGCT-ATTACAGCTCTATT
1 TCATTCCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATT
**
25432040 TCATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATT
1 TCATTCCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATT
25432086 CCCTTACAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 24 0.59
45 3 0.07
46 14 0.34
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (46 bp):
TCATTCCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATT
Found at i:25437105 original size:3 final size:3
Alignment explanation
Indices: 25437097--25437132 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
25437087 CATCATTGTT
*
25437097 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
25437133 GCCTTTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.33, G:0.03, T:0.33
Consensus pattern (3 bp):
ATC
Done.