Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 147 of 444
Found at i:39573251 original size:69 final size:69
Alignment explanation
Indices: 39573168--39573654 Score: 351
Period size: 69 Copynumber: 7.1 Consensus size: 69
39573158 CGAGCTTTAA
* * * ** *
39573168 TTTT-ACAATTGGGAGCTTTACTCTCACTATCTATTTTAAAGGCTATGGATCTTCTCCTCTGAA-
1 TTTTCACAACTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGCTGCGGCTCTTCTCCTCTGAAC
39573231 CTATG
66 CT-TG
* * * * * * * * *
39573236 TTTTTACAACTGGGAGCTTTGCTCTCGCTAATTGTTTTAGAGGCTGCAGCTTTTCACCTATGAAC
1 TTTTCACAACTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGCTGCGGCTCTTCTCCTCTGAAC
39573301 CTTG
66 CTTG
* * ** * * *
39573305 TTTTCACAGCTGGGAGTTTTGCTCTTGCTAACTGTTTTAAAGGCTGCAGCTCTT-TGCCTAC-AA
1 TTTTCACAACTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGCTGCGGCTCTTCT-CCT-CTGA
39573368 ACCTTG
64 ACCTTG
* * * * * * *
39573374 TTTTCCCAACTAGGAGCTTTACTC-CTGCTAACTATTTTAAAGCCTACGGCTCTTCACCTGC-GA
1 TTTTCACAACTGGGAGCTTTGCTCTC-ACTAACTATTTTAAAGGCTGCGGCTCTTCTCCT-CTGA
39573437 ACCTTG
64 ACCTTG
* * * * * * *
39573443 TTTTCACAACTGAGAGCTTTGCCCTCACTAACTATTTTAGAGGTTGTGGCTCTTCGT-TTGTGAA
1 TTTTCACAACTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGCTGCGGCTCTTC-TCCTCTGAA
*
39573507 CATTG
65 CCTTG
* ** * * * *
39573512 TTTTTACAACTGGGAGCTTTGCTCTCACTAACTATTTTAGTGGTTGTGGCTCTTCACCTGC-AAA
1 TTTTCACAACTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGCTGCGGCTCTTCTCCT-CTGAA
39573576 CCTTG
65 CCTTG
* * ** * ** * * **
39573581 TTTTTACAGCTGGGAGCTTTGCTCTTGCTAACTGTTTTAGGGGCTACGGCTCTTCACCTACAAAA
1 TTTTCACAACTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGCTGCGGCTCTTCTCCT-CTGAA
39573646 CCTTG
65 CCTTG
39573651 TTTT
1 TTTT
39573655 TATTTCTAGG
Statistics
Matches: 337, Mismatches: 70, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
68 4 0.01
69 318 0.94
70 15 0.04
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (69 bp):
TTTTCACAACTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGCTGCGGCTCTTCTCCTCTGAAC
CTTG
Found at i:39573412 original size:138 final size:138
Alignment explanation
Indices: 39573234--39573654 Score: 448
Period size: 138 Copynumber: 3.0 Consensus size: 138
39573224 CTCTGAACTA
* * * * * **
39573234 TGTTTTTACAACTGGGAGCTTTGCTCTCGCTAATTGTTTTAGAGGCTGCAGCTTTTCACCTATGA
1 TGTTTTCACAACTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGCTGCGGCTCTTCACCTGCGA
* * * *
39573299 ACCTTGTTTTCACAGCTGGGAGTTTTGCTCTTGCTAACTGTTTTAAAGGCTGCAGCTCTTTGCCT
66 ACCTTGTTTTCACAGCTGGGAGCTTTGCTCTTGCTAACTGTTTTAGAGGCTGCGGCTCTTCGCCT
39573364 ACAAACCT
131 ACAAACCT
* * * * * *
39573372 TGTTTTCCCAACTAGGAGCTTTACTC-CTGCTAACTATTTTAAAGCCTACGGCTCTTCACCTGCG
1 TGTTTTCACAACTGGGAGCTTTGCTCTC-GCTAACTATTTTAGAGGCTGCGGCTCTTCACCTGCG
* * * ** * * * **
39573436 AACCTTGTTTTCACAACTGAGAGCTTTGCCCTCACTAACTATTTTAGAGGTTGTGGCTCTTCGTT
65 AACCTTGTTTTCACAGCTGGGAGCTTTGCTCTTGCTAACTGTTTTAGAGGCTGCGGCTCTTCGCC
*** *
39573501 TGTGAACAT
130 TACAAACCT
* * * * * *
39573510 TGTTTTTACAACTGGGAGCTTTGCTCTCACTAACTATTTTAGTGGTTGTGGCTCTTCACCTGCAA
1 TGTTTTCACAACTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGCTGCGGCTCTTCACCTGCGA
* * * *
39573575 ACCTTGTTTTTACAGCTGGGAGCTTTGCTCTTGCTAACTGTTTTAGGGGCTACGGCTCTTCACCT
66 ACCTTGTTTTCACAGCTGGGAGCTTTGCTCTTGCTAACTGTTTTAGAGGCTGCGGCTCTTCGCCT
39573640 ACAAAACCT
131 AC-AAACCT
39573649 TGTTTT
1 TGTTTT
39573655 TATTTCTAGG
Statistics
Matches: 219, Mismatches: 61, Indels: 5
0.77 0.21 0.02
Matches are distributed among these distances:
137 1 0.00
138 207 0.95
139 11 0.05
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (138 bp):
TGTTTTCACAACTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGCTGCGGCTCTTCACCTGCGA
ACCTTGTTTTCACAGCTGGGAGCTTTGCTCTTGCTAACTGTTTTAGAGGCTGCGGCTCTTCGCCT
ACAAACCT
Found at i:39573535 original size:207 final size:207
Alignment explanation
Indices: 39573179--39573654 Score: 481
Period size: 207 Copynumber: 2.3 Consensus size: 207
39573169 TTTACAATTG
* * * * * * *
39573179 GGAGCTTTACT-CTCACTATCTATTTTAAAGGCTATGGATCTTCTCCTCTGAA-CTATGTTTTTA
1 GGAGCTTTACTCCT-GCTAACTATTTTAAAGGCTACGGCTCTTCACCTCAGAACCT-TGTTTTCA
* * * * * * *
39573242 CAACTGGGAGCTTTGCTCTCGCTAATTGTTTTAGAGGCTGCAGCTTTTCACCTATGAACCTTGTT
64 CAACTGAGAGCTTTGCCCTCACTAACTATTTTAGAGGCTGCAGCTCTTCACCTATGAACATTGTT
* * ** * **
39573307 TTCACAGCTGGGAGTTTTGCTCTTGCTAACTGTTTTAAAGGCTGCAGCTCTTTGCCTACAAACCT
129 TTCACAACTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGCTGCAGCTCTTCACCTACAAACCT
*
39573372 TGTTTTCCCAACTA
194 TGTTTTCACAACTA
*
39573386 GGAGCTTTACTCCTGCTAACTATTTTAAAGCCTACGGCTCTTCACCTGC-GAACCTTGTTTTCAC
1 GGAGCTTTACTCCTGCTAACTATTTTAAAGGCTACGGCTCTTCACCT-CAGAACCTTGTTTTCAC
* ** *** *
39573450 AACTGAGAGCTTTGCCCTCACTAACTATTTTAGAGGTTGTGGCTCTTCGTTTGTGAACATTGTTT
65 AACTGAGAGCTTTGCCCTCACTAACTATTTTAGAGGCTGCAGCTCTTCACCTATGAACATTGTTT
* ** * ** *
39573515 TTACAACTGGGAGCTTTGCTCTCACTAACTATTTTAGTGGTTGTGGCTCTTCACCTGCAAACCTT
130 TCACAACTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGCTGCAGCTCTTCACCTACAAACCTT
* * *
39573580 GTTTTTACAGCTG
195 GTTTTCACAACTA
* * * ** *
39573593 GGAGCTTTGCTCTTGCTAACTGTTTTAGGGGCTACGGCTCTTCACCTACAAAACCTTGTTTT
1 GGAGCTTTACTCCTGCTAACTATTTTAAAGGCTACGGCTCTTCACCT-CAGAACCTTGTTTT
39573655 TATTTCTAGG
Statistics
Matches: 218, Mismatches: 47, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
207 202 0.93
208 16 0.07
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.38
Consensus pattern (207 bp):
GGAGCTTTACTCCTGCTAACTATTTTAAAGGCTACGGCTCTTCACCTCAGAACCTTGTTTTCACA
ACTGAGAGCTTTGCCCTCACTAACTATTTTAGAGGCTGCAGCTCTTCACCTATGAACATTGTTTT
CACAACTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGCTGCAGCTCTTCACCTACAAACCTTG
TTTTCACAACTA
Found at i:39581860 original size:30 final size:30
Alignment explanation
Indices: 39581824--39581884 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39581814 TCCTTAACTC
39581824 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
39581854 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
39581884 A
1 A
39581885 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:39595804 original size:64 final size:62
Alignment explanation
Indices: 39595631--39595835 Score: 184
Period size: 64 Copynumber: 3.2 Consensus size: 62
39595621 CATAATTTTG
* * *
39595631 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCA--TGACCTAGCTACA-TATATCTCGT
39595693 A
62 A
* * * * *
39595694 GCTCTCTTGTCTACATGGTGTCCTTCACCT-GAACCACGCATGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGACCTAGCTACATATATCTCGTA
*
39595758 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATG--ACCTAGCTACAT-AT-A--TCTC
39595823 GTA
60 GTA
39595826 GCTCTCTTGT
1 GCTCTCTTGT
39595836 ACACATGATG
Statistics
Matches: 116, Mismatches: 13, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
61 5 0.04
62 10 0.09
63 27 0.23
64 41 0.35
65 12 0.10
66 5 0.04
68 16 0.14
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (62 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGACCTAGCTACATATATCTCGTA
Found at i:39598583 original size:42 final size:42
Alignment explanation
Indices: 39598476--39598624 Score: 151
Period size: 42 Copynumber: 3.5 Consensus size: 42
39598466 AAGAAATCTG
* *
39598476 AGCTCGTTGAGCGGTCCGAGTTCGTGATATATGTAAGA-ATCTA
1 AGCTCGTTGAGTGGTCCGAGTTCGTGATATA--TAAGACATCCA
* * * *
39598519 AACTTGTTGAGTGGTCCCAGTTCGTGATATATAAGACATCCG
1 AGCTCGTTGAGTGGTCCGAGTTCGTGATATATAAGACATCCA
* * **
39598561 AGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCAAG-CATCCA
1 AGCTCGTTGAGTGGTCCGAGTTCGTGAT--ATATAAGACATCCA
39598604 AGCT-GTTGAGTGGTCCGAGTT
1 AGCTCGTTGAGTGGTCCGAGTT
39598625 TATAATGGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.06
42 43 0.48
43 36 0.40
44 5 0.06
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
AGCTCGTTGAGTGGTCCGAGTTCGTGATATATAAGACATCCA
Found at i:39602323 original size:16 final size:17
Alignment explanation
Indices: 39602302--39602336 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
39602292 GAGATTTCTG
39602302 TAAAATTCAAA-TTATT
1 TAAAATTCAAATTTATT
39602318 TAAAATTCAAATTTATT
1 TAAAATTCAAATTTATT
39602335 TA
1 TA
39602337 TTATTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAAATTCAAATTTATT
Found at i:39602777 original size:35 final size:35
Alignment explanation
Indices: 39602727--39602795 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
39602717 ATCCCTCATC
39602727 CTTAGTTATAAACTTCCATGAAGCTACACAAGATG
1 CTTAGTTATAAACTTCCATGAAGCTACACAAGATG
*
39602762 CTTAGTTATAGACTTCCATGAAGCTACACAAGAT
1 CTTAGTTATAAACTTCCATGAAGCTACACAAGAT
39602796 AAGGCAAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (35 bp):
CTTAGTTATAAACTTCCATGAAGCTACACAAGATG
Found at i:39612962 original size:20 final size:21
Alignment explanation
Indices: 39612939--39612987 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
39612929 AATGAAACTT
*
39612939 ATAAAAATTA-TTAAATTTTA
1 ATAAAAATTATTTAAAATTTA
*
39612959 ATAAAAAATATTTAAAATTTA
1 ATAAAAATTATTTAAAATTTA
*
39612980 CTAAAAAT
1 ATAAAAAT
39612988 AGAAAAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAAAATTATTTAAAATTTA
Found at i:39612988 original size:20 final size:20
Alignment explanation
Indices: 39612940--39613041 Score: 58
Period size: 21 Copynumber: 5.4 Consensus size: 20
39612930 ATGAAACTTA
* *
39612940 TAAAAAT-TATTAAATTTTAA
1 TAAAAATAT-TTAAAATTTAC
39612960 TAAAAAATATTTAAAATTTAC
1 T-AAAAATATTTAAAATTTAC
** **
39612981 TAAAAATA-GAAAAAAGTA-
1 TAAAAATATTTAAAATTTAC
* *
39612999 TAAAAA-AATGAAAA--TAC
1 TAAAAATATTTAAAATTTAC
39613016 --AAAATATTTAAAATTTAC
1 TAAAAATATTTAAAATTTAC
39613034 TAAAAATA
1 TAAAAATA
39613042 GACAAAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
15 4 0.06
16 8 0.13
17 1 0.02
18 13 0.21
19 6 0.10
20 14 0.22
21 16 0.25
22 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
TAAAAATATTTAAAATTTAC
Found at i:39613346 original size:31 final size:29
Alignment explanation
Indices: 39613304--39613383 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
39613294 TTCTTACCAC
*
39613304 TTTATACAATTTTATAAATATTTTTA-TGATT
1 TTTATAAAATTTTAT-AAT-TTTTTACT-ATT
39613335 TTTATAAAATTTTATAATTTTTTACTATT
1 TTTATAAAATTTTATAATTTTTTACTATT
*
39613364 TTTATAATAATTTTCTAATT
1 TTTATAA-AATTTTATAATT
39613384 CTTAATAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
29 16 0.36
30 15 0.33
31 14 0.31
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTATAAAATTTTATAATTTTTTACTATT
Found at i:39613357 original size:20 final size:21
Alignment explanation
Indices: 39613304--39613371 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 21
39613294 TTCTTACCAC
*
39613304 TTTATACAATTTTATAAATATT
1 TTTATA-ATTTTTATAAATATT
*
39613326 TTTATGATTTTTATAAA-A-T
1 TTTATAATTTTTATAAATATT
*
39613345 TTTATAATTTTT-T-ACTATT
1 TTTATAATTTTTATAAATATT
39613364 TTTATAAT
1 TTTATAAT
39613372 AATTTTCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.03
18 2 0.05
19 21 0.52
20 1 0.03
21 10 0.25
22 5 0.12
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TTTATAATTTTTATAAATATT
Found at i:39613702 original size:89 final size:89
Alignment explanation
Indices: 39613571--39613798 Score: 255
Period size: 90 Copynumber: 2.5 Consensus size: 89
39613561 ACATTTTGGA
* * **
39613571 AATTGAGTGCCAAAAAAAAAGCAGGGGCTTTATT-ACTCTTTTGAAAAAGTTTAAGGGCTTTTTT
1 AATTGAGTG--AAAAAAAAAGCAGAGGCTTAATTGTTTCTTTTGAAAAAGTTTAAGGG-TTTTTT
* *
39613635 TATG-CATTTTAACAGTTTAAGTATCC
63 TATGACATTTTAACAGGTCAAGTATCC
* *
39613661 AATTGAGTGAAAAAAAAAAG-AGAGGCTTAATTGTTTCTTTTGAAAAAGTTTGAGGGTTTTTTTT
1 AATTGAGTG-AAAAAAAAAGCAGAGGCTTAATTGTTTCTTTTGAAAAAGTTTAAGGGTTTTTTTA
*
39613725 TGTACATTTTAATAGGTCAAGTATCC
65 TG-ACATTTTAACAGGTCAAGTATCC
* * * * *
39613751 AATTGGGTGAAAACAAAAGCAAAGGCTTAATTGCTTTTTTTTTAAAAA
1 AATTGAGTGAAAAAAAAAGCAGAGGCTTAATTG-TTTCTTTTGAAAAA
39613799 AAAGGTTGAG
Statistics
Matches: 118, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
88 19 0.16
89 39 0.33
90 48 0.41
91 12 0.10
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (89 bp):
AATTGAGTGAAAAAAAAAGCAGAGGCTTAATTGTTTCTTTTGAAAAAGTTTAAGGGTTTTTTTAT
GACATTTTAACAGGTCAAGTATCC
Found at i:39613815 original size:90 final size:87
Alignment explanation
Indices: 39613607--39613821 Score: 202
Period size: 90 Copynumber: 2.4 Consensus size: 87
39613597 GCTTTATTAC
* * * * *
39613607 TCTTTTGAAAAAGTTTAAGGGCTTTTTT-TATGCATTTTAACAGTTTAAGTATCCAATTGAGTGA
1 TCTTTTAAAAAAGGTTGAGGG-TTTTTTGTA--CATTTTAACAGGTCAAGTATCCAATTGAGTGA
*
39613671 AAAAAAAAAGAGAGGCTTAATTGTT
63 AAAAAAAAAGAAAGGCTTAATTGTT
* * * *
39613696 TCTTTTGAAAAAGTTTGAGGGTTTTTTTTTGTACATTTTAATAGGTCAAGTATCCAATTGGGTG-
1 TCTTTTAAAAAAGGTTGAGGG---TTTTTTGTACATTTTAACAGGTCAAGTATCCAATTGAGTGA
*
39613760 AAAACAAAAGCAAAGGCTTAATTGCTTT
63 AAAAAAAAAG-AAAGGCTTAATTG--TT
*
39613788 TTTTTTAAAAAAAAGGTTGAGGGTTTTTT-TACAT
1 TCTTTT--AAAAAAGGTTGAGGGTTTTTTGTACAT
39613822 CCTTAAGCCC
Statistics
Matches: 107, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
89 29 0.27
90 44 0.41
91 12 0.11
92 9 0.08
94 13 0.12
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (87 bp):
TCTTTTAAAAAAGGTTGAGGGTTTTTTGTACATTTTAACAGGTCAAGTATCCAATTGAGTGAAAA
AAAAAAGAAAGGCTTAATTGTT
Found at i:39613993 original size:87 final size:88
Alignment explanation
Indices: 39613894--39614075 Score: 210
Period size: 89 Copynumber: 2.1 Consensus size: 88
39613884 TTTTAAGTTT
* *
39613894 CAAAATGTATCAAAAA-G-ATTCAAACTTTTTTAAAAGAAACAATTAAG-CCT-CTGTTTTTTTT
1 CAAAATGCATCAAAAAGGCACTCAAAC-TTTTTAAAAG-AACAATTAAGTCCTGCT-TTTTTTTT
* * * *
39613955 TTCATTCAGTTGTGTACTTGAACTGC
63 TGCACTCAATTGAGTACTTGAACTGC
* * *
39613981 CAAAATGCATCAAAAAGGCCCTCAAACTTTTTCAAAGAGCAATTAAGTTCCTGCTTTTTTTTTTG
1 CAAAATGCATCAAAAAGGCACTCAAACTTTTTAAAAGAACAATTAAG-TCCTGCTTTTTTTTTTG
*
39614046 CACTCAATTGAGTATTTGAACTGC
65 CACTCAATTGAGTACTTGAACTGC
39614070 CAAAAT
1 CAAAAT
39614076 ATAAGGTCCT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
87 24 0.30
88 10 0.12
89 44 0.55
90 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (88 bp):
CAAAATGCATCAAAAAGGCACTCAAACTTTTTAAAAGAACAATTAAGTCCTGCTTTTTTTTTTGC
ACTCAATTGAGTACTTGAACTGC
Found at i:39614073 original size:89 final size:89
Alignment explanation
Indices: 39613913--39614075 Score: 215
Period size: 89 Copynumber: 1.8 Consensus size: 89
39613903 TCAAAAAGAT
* * * *
39613913 TCAAACTTTTTTAAAAGAAACAATTAAGCCTCTGTTTTTTTTTTCATTCAGTTGTGTACTTGAAC
1 TCAAACTTTTTTAAAAGAAACAATTAAGCCTCTGTTTTTTTTTGCACTCAATTGAGTACTTGAAC
39613978 TGCCAAAATGCATCAAAAAGGCCC
66 TGCCAAAATGCATCAAAAAGGCCC
* * *
39614002 TCAAAC-TTTTTCAAAG-AGCAATTAAGTTCCTGCT-TTTTTTTTTGCACTCAATTGAGTATTTG
1 TCAAACTTTTTTAAAAGAAACAATTAAG--CCT-CTGTTTTTTTTTGCACTCAATTGAGTACTTG
39614064 AACTGCCAAAAT
63 AACTGCCAAAAT
39614076 ATAAGGTCCT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
87 9 0.14
88 9 0.14
89 44 0.69
90 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (89 bp):
TCAAACTTTTTTAAAAGAAACAATTAAGCCTCTGTTTTTTTTTGCACTCAATTGAGTACTTGAAC
TGCCAAAATGCATCAAAAAGGCCC
Found at i:39614350 original size:39 final size:39
Alignment explanation
Indices: 39614267--39614362 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 39
39614257 TAATTTATTA
** *
39614267 AAAATTAGAAAAAAATTATAAAATTTTATAAAGTTGTAAG
1 AAAATTAG-AAAAAATTATAAAATAATATAAAATTGTAAG
*
39614307 AAAATTAGAAAAAA-TATAAAGA-AATATAAAATTCGTAAT
1 AAAATTAGAAAAAATTATAAA-ATAATATAAAATT-GTAAG
*
39614346 AAAATTA-TAAAAATTAT
1 AAAATTAGAAAAAATTAT
39614363 CGTATCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
38 19 0.40
39 21 0.44
40 8 0.17
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.30
Consensus pattern (39 bp):
AAAATTAGAAAAAATTATAAAATAATATAAAATTGTAAG
Found at i:39614564 original size:19 final size:19
Alignment explanation
Indices: 39614542--39614591 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
39614532 TTTTGATGCA
*
39614542 TTTTATATTTTTTTATAAT
1 TTTTATATTTTTTTACAAT
***
39614561 TTTTATAACATTTTACAAT
1 TTTTATATTTTTTTACAAT
39614580 TTTTATATTTTT
1 TTTTATATTTTT
39614592 ACGATATTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTATATTTTTTTACAAT
Found at i:39614573 original size:11 final size:9
Alignment explanation
Indices: 39614551--39614682 Score: 58
Period size: 9 Copynumber: 14.7 Consensus size: 9
39614541 ATTTTATATT
39614551 TTTTTATAA
1 TTTTTATAA
39614560 TTTTTATAA
1 TTTTTATAA
* *
39614569 CATTTTACAA
1 -TTTTTATAA
39614579 TTTTTAT-A
1 TTTTTATAA
**
39614587 TTTTTACGA
1 TTTTTATAA
*
39614596 TATTTATAA
1 TTTTTATAA
*
39614605 TTTATTCT-A
1 TTT-TTATAA
*
39614614 TTTTAAATAA
1 TTTT-TATAA
39614624 -TTTTATTAA
1 TTTTTA-TAA
** *
39614633 AATTTATTA
1 TTTTTATAA
39614642 TTTTTATAA
1 TTTTTATAA
* * *
39614651 CTCTTATTGA
1 TTTTTA-TAA
39614661 TTTTTAT--
1 TTTTTATAA
*
39614668 TTTTTATAT
1 TTTTTATAA
39614677 TTTTTA
1 TTTTTA
39614683 CACATGTCAT
Statistics
Matches: 90, Mismatches: 23, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
7 7 0.08
8 9 0.10
9 53 0.59
10 21 0.23
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:39614593 original size:17 final size:17
Alignment explanation
Indices: 39614541--39614603 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
39614531 TTTTTGATGC
* *
39614541 ATTTTATATTTTTTTATA
1 ATTTT-TATATTTTTACA
*
39614559 ATTTTTATAACATTTTACA
1 ATTTTTAT-A-TTTTTACA
*
39614578 ATTTTTATATTTTTACG
1 ATTTTTATATTTTTACA
*
39614595 ATATTTATA
1 ATTTTTATA
39614604 ATTTATTCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
17 17 0.46
18 6 0.16
19 14 0.38
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTTTTATATTTTTACA
Found at i:39615337 original size:43 final size:43
Alignment explanation
Indices: 39615289--39615395 Score: 169
Period size: 43 Copynumber: 2.5 Consensus size: 43
39615279 AAAAACACCG
*
39615289 CTATAGAACATGAACTTTAGCAGCATTTTTCCTACAAACGCCA
1 CTATAGAACATGACCTTTAGCAGCATTTTTCCTACAAACGCCA
* * *
39615332 CTATAGAACATGACCTTTAGCAGCGTTTTTCCTTCAAACGCCG
1 CTATAGAACATGACCTTTAGCAGCATTTTTCCTACAAACGCCA
*
39615375 CTATAGAACATTACCTTTAGC
1 CTATAGAACATGACCTTTAGC
39615396 GGTGTAACAC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (43 bp):
CTATAGAACATGACCTTTAGCAGCATTTTTCCTACAAACGCCA
Found at i:39616764 original size:71 final size:71
Alignment explanation
Indices: 39616680--39616843 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
39616670 CGATTTGTCT
39616680 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
39616745 CTTTCA
66 CTTTCA
*
39616751 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
39616816 CTTTCA
66 CTTTCA
39616822 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
39616844 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:39616881 original size:71 final size:70
Alignment explanation
Indices: 39616680--39616877 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
39616670 CGATTTGTCT
* * * * *
39616680 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
39616745 CTTTCA
65 CTTTCA
* * * *
39616751 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
39616816 CTTTCA
65 CTTTCA
* *
39616822 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
39616878 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:39622000 original size:15 final size:15
Alignment explanation
Indices: 39621980--39622048 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
39621970 GTATCTTGGG
39621980 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
39621995 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
39622010 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
39622025 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
39622040 TTTCTTTAT
1 TTTCTTTAT
39622049 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:39622049 original size:30 final size:30
Alignment explanation
Indices: 39621971--39622058 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
39621961 CATAGTATCG
* * * *
39621971 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
39622001 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
39622031 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
39622059 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:39624492 original size:46 final size:46
Alignment explanation
Indices: 39624439--39624614 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
39624429 TATTTGGGCA
39624439 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
39624485 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
39624532 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
39624578 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39624615 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:39624594 original size:93 final size:93
Alignment explanation
Indices: 39624435--39624606 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
39624425 GGGATATTTG
* *
39624435 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39624500 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
39624528 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39624593 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
39624607 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:39627811 original size:339 final size:337
Alignment explanation
Indices: 39626830--39627852 Score: 1449
Period size: 337 Copynumber: 3.0 Consensus size: 337
39626820 GAGAAGAGCA
* * * * * * *
39626830 TGATGCTCATCTACGAACTGTGTTACAAATTTTGCGAGAGAAACAACTATTCGTAAAGTTCAGCA
1 TGATGCTCACCTGCAAACTGTGTTAC-AATTTTACGAGAGAAGCAACTATTCGTGAAGCTCAGCA
** * *
39626895 AGTGTGAATTTTGGTTAAGGGAGGTAGTGTTCTTGGGTTATGT-AGTTTTGCAAAGGGAGTTTGC
65 AGTGTGAATTTTGGTTAAGGGAGGTAGCATTCTTGGGTTATGTGATTTTTGCAGAGGGAGTTTGC
* * * * *
39626959 ATAGACGCAAAGAATATTGAGGAAATTTTAGAGTGTAAATGACCAAAAAGTGTTACTGGGGTGCG
130 GTAGACCCAAAGAAGATTGAGGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCG
* * ** * *
39627024 AAGCTTTAAGAAGTTAGTAGAATACTATGGCAAGTTTGT-AAAAGGGTTCGCCACCATTGCTACA
195 AAGCTTTATGAGGTTAGTAGAATACTATTACAAGTTTGTGGAAA-GGTTCGCCACCATTGCAACA
* * * *
39627088 CCCATAATAAAGCTATTGTAGAAAGATGTGGAGTTCGCATGGATAGAGGAAAGAGAAAAAAGATT
259 CCCATAATAAAGCTACTGTAGAAAGATGTGGAGTTTGCATGGATAGAGGAAAGACAAAAAAGCTT
39627153 TGAAAAACTTAAGG
324 TGAAAAACTTAAGG
* * * *
39627167 TGATGCTCAGCTGTAAACTGTGTTACAAATTCAGCGAGAGAAGCAACTATTCGTGAAGCTCAGCA
1 TGATGCTCACCTGCAAACTGTGTTACAATTTTA-CGAGAGAAGCAACTATTCGTGAAGCTCAGCA
* ***
39627232 AGTGTGAATTTTGGTTAAGGGAGGTAGCATTCTTGGGTTATGTGGTTTTTATGGAGGGAG-TTGC
65 AGTGTGAATTTTGGTTAAGGGAGGTAGCATTCTTGGGTTATGTGATTTTTGCAGAGGGAGTTTGC
* *
39627296 GTAGACCCAAAGAAGATTGAGGAAATTTTAGATTGGAAATGACCAAAAAGTGTTATTGAGGTGCG
130 GTAGACCCAAAGAAGATTGAGGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCG
* * * **
39627361 AAACTTTATGAGGTTAGTAGAATACTATTTCAAGTTTATGGAAAGGTTCGCCACCATTGTGACAC
195 AAGCTTTATGAGGTTAGTAGAATACTATTACAAGTTTGTGGAAAGGTTCGCCACCATTGCAACAC
* *
39627426 CCATAATAAAGCTACTGCAGAAAGATGTGGAGTTTGCATAGATAGAGGAAAGACAAAAAAGCTTT
260 CCATAATAAAGCTACTGTAGAAAGATGTGGAGTTTGCATGGATAGAGGAAAGACAAAAAAGCTTT
39627491 GAAAAACTTAAGG
325 GAAAAACTTAAGG
* * * *
39627504 TGATGCTCACCTGCAAATTGTGTTACATATTTTATGTGAGAAGCAACTATTCATGAAGCTCAGCA
1 TGATGCTCACCTGCAAACTGTGTTACA-ATTTTACGAGAGAAGCAACTATTCGTGAAGCTCAGCA
* * *
39627569 AGTGTGAATTTTTGTTAAGAGAGGTAGCATTCTTGGGTTATGTGATTTTTGCAGAGGGAGTTTAC
65 AGTGTGAATTTTGGTTAAGGGAGGTAGCATTCTTGGGTTATGTGATTTTTGCAGAGGGAGTTTGC
* * * * *
39627634 GTAAACCCAAAAAAAGATTGAGGAGATTTTAGAGTGGAAATGACCAAAAAGTGTTACTAAGGTGT
130 GTAGACCC-AAAGAAGATTGAGGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGC
* * *
39627699 GAAGCTTTATGAGGTTAGTAGAATACTATTACAAATTTGTGGAAATGTTCGCCACCATTGCAATA
194 GAAGCTTTATGAGGTTAGTAGAATACTATTACAAGTTTGTGGAAAGGTTCGCCACCATTGCAACA
39627764 CCCATAATAAAGCTACTGTAGAAAGATGTGGAGTTTGCATGGATAGAGGAAAGACAAAAAAGCTT
259 CCCATAATAAAGCTACTGTAGAAAGATGTGGAGTTTGCATGGATAGAGGAAAGACAAAAAAGCTT
39627829 TGAAAAACTTAAGG
324 TGAAAAACTTAAGG
*
39627843 TGATACTCAC
1 TGATGCTCAC
39627853 TAAAGCACCT
Statistics
Matches: 607, Mismatches: 73, Indels: 10
0.88 0.11 0.01
Matches are distributed among these distances:
336 4 0.01
337 383 0.63
338 27 0.04
339 193 0.32
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (337 bp):
TGATGCTCACCTGCAAACTGTGTTACAATTTTACGAGAGAAGCAACTATTCGTGAAGCTCAGCAA
GTGTGAATTTTGGTTAAGGGAGGTAGCATTCTTGGGTTATGTGATTTTTGCAGAGGGAGTTTGCG
TAGACCCAAAGAAGATTGAGGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCGA
AGCTTTATGAGGTTAGTAGAATACTATTACAAGTTTGTGGAAAGGTTCGCCACCATTGCAACACC
CATAATAAAGCTACTGTAGAAAGATGTGGAGTTTGCATGGATAGAGGAAAGACAAAAAAGCTTTG
AAAAACTTAAGG
Found at i:39629243 original size:81 final size:81
Alignment explanation
Indices: 39629108--39629271 Score: 319
Period size: 81 Copynumber: 2.0 Consensus size: 81
39629098 ACCTTAGCCG
*
39629108 AATACCTTTTTCTCTCCTTATCTCTGTTCTTTCAGCTTTCATCAAGCGCCCCTTCTTGTGTTGCT
1 AATACCTTTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
39629173 AAAATCGAACACTTTC
66 AAAATCGAACACTTTC
39629189 AATACCTTTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
1 AATACCTTTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
39629254 AAAATCGAACACTTTC
66 AAAATCGAACACTTTC
39629270 AA
1 AA
39629272 CTGTTCTTCT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.41
Consensus pattern (81 bp):
AATACCTTTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
AAAATCGAACACTTTC
Found at i:39630407 original size:27 final size:26
Alignment explanation
Indices: 39630335--39630584 Score: 245
Period size: 27 Copynumber: 9.4 Consensus size: 26
39630325 TACCTAGACC
*
39630335 CCCTT-TGTGGTAAAATGACTATATTG
1 CCCTTATGTGGT-AAATGACTATTTTG
* * *
39630361 CTCTTGTGTGATTAAATGACTATTTTG
1 CCCTTATGTG-GTAAATGACTATTTTG
*
39630388 CCCTTATATGGTAAAGTGACTATTTTG
1 CCCTTATGTGGTAAA-TGACTATTTTG
* * *
39630415 CCCTTATATGGTAAAATAACTA-TGTG
1 CCCTTATGTGGT-AAATGACTATTTTG
39630441 CCCTTATGTGGTAGAATGACTATTTTG
1 CCCTTATGTGGTA-AATGACTATTTTG
* *
39630468 CCTTTATGTGGTAGAATGACTGTTTTG
1 CCCTTATGTGGTA-AATGACTATTTTG
* *
39630495 CCCTTATGTGATAGAATGACTGTTTTG
1 CCCTTATGTGGTA-AATGACTATTTTG
39630522 CCCTTATGTGGTAAAATGACTATTTTG
1 CCCTTATGTGGT-AAATGACTATTTTG
* * * * *
39630549 CCTTTATATGATAAGACGACTGTTTTG
1 CCCTTATGTGGTAA-ATGACTATTTTG
39630576 CCC-TATGTG
1 CCCTTATGTG
39630585 ATGTATGTTT
Statistics
Matches: 191, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.01
26 36 0.19
27 149 0.78
28 5 0.03
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (26 bp):
CCCTTATGTGGTAAATGACTATTTTG
Found at i:39630515 original size:107 final size:106
Alignment explanation
Indices: 39630335--39630544 Score: 273
Period size: 107 Copynumber: 2.0 Consensus size: 106
39630325 TACCTAGACC
* * *
39630335 CCCTTTGTGGTAAAATGACTATATTGCTCTTGTGTGATTAAATGACTATTTTGCCCTTATATGGT
1 CCCTTTGTGGTAAAATGACTATATTGCTCTTATGTGAGTAAATGACTATTTTGCCCTTATATGAT
39630400 AAAGTGACTATTTTGCCCTTATATGGTAAAATAACTATGTG
66 AAAGTGACTATTTTGCCCTTATATGGTAAAATAACTATGTG
* * * *
39630441 CCCTTATGTGGTAGAATGACTATTTTGC-CTTTATGTG-GTAGAATGACTGTTTTGCCCTTATGT
1 CCCTT-TGTGGTAAAATGACTATATTGCTC-TTATGTGAGTA-AATGACTATTTTGCCCTTATAT
* * *
39630504 GATAGAA-TGACTGTTTTGCCCTTATGTGGTAAAATGACTAT
63 GATA-AAGTGACTATTTTGCCCTTATATGGTAAAATAACTAT
39630545 TTTGCCTTTA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
106 8 0.09
107 80 0.89
108 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (106 bp):
CCCTTTGTGGTAAAATGACTATATTGCTCTTATGTGAGTAAATGACTATTTTGCCCTTATATGAT
AAAGTGACTATTTTGCCCTTATATGGTAAAATAACTATGTG
Found at i:39630583 original size:107 final size:107
Alignment explanation
Indices: 39630375--39630584 Score: 255
Period size: 107 Copynumber: 2.0 Consensus size: 107
39630365 TGTGTGATTA
*
39630375 AATGACTATTTTGCCCTTATATGGTAAAGTGACTATTTTGCCCTTATATGGTAAAATAACTATGT
1 AATGACTATTTTGCCCTTATATGATAAAGTGACTATTTTGCCCTTATATGGTAAAATAACTATGT
* * * *
39630440 GCCCTTATGTGGTAGAATGACTATTTTGCCTTTATGTGGTAG
66 GCCCTTATATGATAGAACGACTATTTTGCCTCTATGTGGTAG
* * * * *
39630482 AATGACTGTTTTGCCCTTATGTGATAGAA-TGACTGTTTTGCCCTTATGTGGTAAAATGACTATT
1 AATGACTATTTTGCCCTTATATGATA-AAGTGACTATTTTGCCCTTATATGGTAAAATAACTA-T
* * *
39630546 TTGCCTTTATATGATA-AGACGACTGTTTTGCC-CTATGTG
64 GTGCCCTTATATGATAGA-ACGACTATTTTGCCTCTATGTG
39630585 ATGTATGTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
107 60 0.69
108 27 0.31
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (107 bp):
AATGACTATTTTGCCCTTATATGATAAAGTGACTATTTTGCCCTTATATGGTAAAATAACTATGT
GCCCTTATATGATAGAACGACTATTTTGCCTCTATGTGGTAG
Found at i:39630947 original size:18 final size:18
Alignment explanation
Indices: 39630924--39630963 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
39630914 TTTACTGTTT
39630924 TGCACTGTTTACCATTAC
1 TGCACTGTTTACCATTAC
**
39630942 TGCACTGTTTACTGTTAC
1 TGCACTGTTTACCATTAC
39630960 TGCA
1 TGCA
39630964 ATGGCTAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (18 bp):
TGCACTGTTTACCATTAC
Found at i:39635540 original size:27 final size:26
Alignment explanation
Indices: 39635490--39635701 Score: 228
Period size: 27 Copynumber: 7.9 Consensus size: 26
39635480 CTTTGTGGGA
* * * *
39635490 AAATGACTATATTGCCCCTGTGTGATT
1 AAATGACTATTTTGCCCTTATGTG-GT
39635517 AAATGACTATTTTGCCCTTATGTGGT
1 AAATGACTATTTTGCCCTTATGTGGT
*
39635543 AGAATGACTGTTTTGCCCTTATGTGGT
1 A-AATGACTATTTTGCCCTTATGTGGT
* * *
39635570 AGAATGACTGTTTTACCCTTGTGTGGT
1 A-AATGACTATTTTGCCCTTATGTGGT
*
39635597 AGAATGACTATTTTACCCTTATGTGGT
1 A-AATGACTATTTTGCCCTTATGTGGT
*
39635624 AAAATGACTATTTTTCCCTTATGTGGT
1 -AAATGACTATTTTGCCCTTATGTGGT
* *
39635651 AAAATGACTGTTTTGCCCTTATATGGT
1 -AAATGACTATTTTGCCCTTATGTGGT
* *
39635678 AAGATGACTGTTTTTCCC-TATGTG
1 AA-ATGACTATTTTGCCCTTATGTG
39635702 ATGTATGTTT
Statistics
Matches: 167, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.05
27 157 0.94
28 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (26 bp):
AAATGACTATTTTGCCCTTATGTGGT
Found at i:39635603 original size:81 final size:80
Alignment explanation
Indices: 39635516--39635701 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 80
39635506 CCTGTGTGAT
* * * *
39635516 TAAATGACTATTTTGCCCTTATGTGGTAGAATGACTGTTTTGCCCTTATGTGGTAGAATGACTGT
1 TAAATGACTATTTTACCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGT
* *
39635581 TTTACCCTTGTGTGG
66 TTTACCCTTATATGG
*
39635596 TAGAATGACTATTTTACCCTTATGTGGTAAAATGACTATTTTTCCCTTATGTGGTAAAATGACTG
1 TA-AATGACTATTTTACCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTG
*
39635661 TTTTGCCCTTATATGG
65 TTTTACCCTTATATGG
* *
39635677 TAAGATGACTGTTTTTCCC-TATGTG
1 TAA-ATGACTATTTTACCCTTATGTG
39635702 ATGTATGTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 9 0.10
81 85 0.90
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (80 bp):
TAAATGACTATTTTACCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGT
TTTACCCTTATATGG
Found at i:39636077 original size:18 final size:18
Alignment explanation
Indices: 39636044--39636078 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39636034 ACTGTTTCTG
*
39636044 CACTGTTTACCGTTACTA
1 CACTGTTTACCATTACTA
*
39636062 CACTGTTTACTATTACT
1 CACTGTTTACCATTACT
39636079 GCAATGGGCC
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:0.23, C:0.26, G:0.09, T:0.43
Consensus pattern (18 bp):
CACTGTTTACCATTACTA
Found at i:39637516 original size:16 final size:16
Alignment explanation
Indices: 39637497--39637527 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39637487 CTTCTTCACT
39637497 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
39637513 TACTTACTTACTTAA
1 TACTCACTTACTTAA
39637528 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:39637533 original size:20 final size:20
Alignment explanation
Indices: 39637494--39637533 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39637484 AAACTTCTTC
* *
39637494 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
39637514 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
39637534 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:39637914 original size:55 final size:53
Alignment explanation
Indices: 39637771--39637979 Score: 215
Period size: 55 Copynumber: 3.9 Consensus size: 53
39637761 ATCCTTTTGA
* *
39637771 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
39637824 AACTCACCAATGCCATGCCTT-AGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGA-CATGGTCTTACATGGGATCC-TTGCCTTAT-G
* *** * **
39637878 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTCAAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
** * *
39637932 AACCTTACCAATTGCCATACCTTGGCATGGTCTTACATGGTATCCTTG
1 AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTTG
39637980 AACCCTAATG
Statistics
Matches: 129, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
52 3 0.02
53 45 0.35
54 8 0.06
55 70 0.54
56 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:39637915 original size:108 final size:110
Alignment explanation
Indices: 39637771--39637971 Score: 298
Period size: 108 Copynumber: 1.8 Consensus size: 110
39637761 ATCCTTTTGA
* * * **
39637771 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA-CTCACCAA-
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTCAAAAACCTCACCAAT
*
39637834 TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
66 TGCCATACCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
39637879 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTCAAAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTCAAAAACCTCACCAAT
*
39637944 TGCCATACCTTGGCATGGTCTTACATGG
66 TGCCATACCTTAGCATGGTCTTACATGG
39637972 TATCCTTGAA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 48 0.59
109 7 0.09
110 26 0.32
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTCAAAAACCTCACCAAT
TGCCATACCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:39642758 original size:120 final size:120
Alignment explanation
Indices: 39642526--39642784 Score: 285
Period size: 120 Copynumber: 2.2 Consensus size: 120
39642516 TCGAATGATG
* *
39642526 TCCGGGCTAAGCCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
* **
39642591 GTACAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTACAAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAA
* * * * **
39642646 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTAGTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGCCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
39642709 TTGTGCGAGTTACTATAA-CCGGGCTATGTCCTGAAGGCATTTGAACGAGTAGCTATA
64 TTGTACAAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAA
* *
39642766 TCC-GGTTAAACTCCGAAGG
1 TCCGGGTTAAGCCCCGAAGG
39642785 TACGTGATTC
Statistics
Matches: 116, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
119 16 0.14
120 91 0.78
121 9 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGCCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTACAAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:39642765 original size:40 final size:40
Alignment explanation
Indices: 39642526--39642751 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
39642516 TCGAATGATG
* * * * *
39642526 TCCGGGCTAAGCCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
39642566 TCCGGACTAAGAT-CCGAAGGCATTTGTACAAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
39642606 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39642646 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAGTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
39642686 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
39642727 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
39642752 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.95
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39648389 original size:16 final size:16
Alignment explanation
Indices: 39648370--39648400 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39648360 CTTATTCACT
39648370 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
39648386 TACTTACTTACTTAA
1 TACTCACTTACTTAA
39648401 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:39648406 original size:20 final size:20
Alignment explanation
Indices: 39648367--39648406 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39648357 AAACTTATTC
* *
39648367 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
39648387 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
39648407 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:39651734 original size:27 final size:28
Alignment explanation
Indices: 39651689--39651752 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
39651679 TGGCGAGTTT
* * *
39651689 GCCAGAAGGCTTGACGAGT-TGGTGTTC
1 GCCAAAAGGCTTGACGAGTAGGGGGTTC
**
39651716 GCCAAAAGGCTTGGTGAGTAGGGGGTTC
1 GCCAAAAGGCTTGACGAGTAGGGGGTTC
*
39651744 ACCAAAAGG
1 GCCAAAAGG
39651753 ATTAGAGAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.25, C:0.17, G:0.38, T:0.20
Consensus pattern (28 bp):
GCCAAAAGGCTTGACGAGTAGGGGGTTC
Found at i:39654388 original size:51 final size:51
Alignment explanation
Indices: 39654318--39654484 Score: 149
Period size: 51 Copynumber: 3.3 Consensus size: 51
39654308 ATGTGTGTAG
* * *** *
39654318 TACTAAGTGCATGCTACTATGCGTACCCGATAGCTTTGATCACATGTGTGC
1 TACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTTGATCACAAGTGTGC
* * *
39654369 TACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCACAAGTGTGG
1 TACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTTGATCACAAGTGTGC
* * * * * * *
39654420 TACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTGA-CTACAAGGGTGG
1 TACTAAGTGCAGGCCACTATGCGTAA-AAGATAGCTTTGATC-ACAAGTGTGC
*
39654471 TACTATGTGCAGGC
1 TACTAAGTGCAGGC
39654485 TACCGGGCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
50 3 0.03
51 95 0.97
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (51 bp):
TACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTTGATCACAAGTGTGC
Found at i:39666458 original size:21 final size:21
Alignment explanation
Indices: 39666434--39666473 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39666424 TTAATCTTCC
*
39666434 ATCATTCAACCATATTAAGTT
1 ATCAATCAACCATATTAAGTT
*
39666455 ATCAATCAACCATTTTAAG
1 ATCAATCAACCATATTAAG
39666474 GCTACTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (21 bp):
ATCAATCAACCATATTAAGTT
Found at i:39673401 original size:16 final size:16
Alignment explanation
Indices: 39673379--39673418 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
39673369 CGTTTGGTTG
39673379 GCTGTAATGGAATAG-
1 GCTGTAATGGAATAGA
*
39673394 GACTGTAATTGAATAGA
1 G-CTGTAATGGAATAGA
39673411 GCTGTAAT
1 GCTGTAAT
39673419 AAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:39673489 original size:44 final size:46
Alignment explanation
Indices: 39673404--39673493 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
39673394 GACTGTAATT
*
39673404 GAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
***
39673450 GAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
39673494 ATGTTGTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 23 0.57
45 3 0.08
46 14 0.35
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.36
Consensus pattern (46 bp):
GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
Found at i:39678208 original size:24 final size:22
Alignment explanation
Indices: 39678157--39678201 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
39678147 AATTGTTCGT
39678157 ACAACTCTCAAAGTTTTTTCTC
1 ACAACTCTCAAAGTTTTTTCTC
39678179 ACAACTCTCAAAGTTTTTTCTC
1 ACAACTCTCAAAGTTTTTTCTC
39678201 A
1 A
39678202 TCAAACTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.04, T:0.40
Consensus pattern (22 bp):
ACAACTCTCAAAGTTTTTTCTC
Found at i:39680862 original size:40 final size:40
Alignment explanation
Indices: 39680807--39681031 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
39680797 CTTGCACAAG
* * ** * *
39680807 GCCTTTGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
*
39680847 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
* *
39680887 ACCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
* * * *
39680927 GCCTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATC-GCTAGCACAAAT
* * * * * *
39680967 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAATC-GCTAGCACAAAT
* *
39681008 GCCTTCGGGACTTAGCCCGTATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
39681032 CATTCGAATA
Statistics
Matches: 155, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 124 0.80
41 29 0.19
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
Found at i:39680972 original size:80 final size:78
Alignment explanation
Indices: 39680780--39681031 Score: 263
Period size: 80 Copynumber: 3.2 Consensus size: 78
39680770 TCCTCGGGAT
* * * * * *
39680780 TTAG-CCGGATATAACTACTTGCACAAGGCCTTTGGGTCTTAGCCCGGATGTGGTCACTAGCATA
1 TTAGCCCGGATATAAC-ACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACA
*
39680844 AATGCCTTCGGGTT
65 AATGCCTTCGGGTC
* * * * *
39680858 TTAGCCCGGATATAATCGCTAGCACAAATACCTTCGGGTTTTAGCCCGGATATAATCGCTAGCAC
1 TTAGCCCGGATATAA-CACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC
39680923 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
* * * * *
39680938 TTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCA
1 TTAGCCCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCA
* *
39681003 CAAAAGCCTTCGGGAC
63 CAAATGCCTTCGGGTC
*
39681019 TTAGCCCGTATAT
1 TTAGCCCGGATAT
39681032 CATTCGAATA
Statistics
Matches: 143, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
78 4 0.03
79 17 0.12
80 90 0.63
81 32 0.22
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (78 bp):
TTAGCCCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAA
ATGCCTTCGGGTC
Found at i:39691674 original size:30 final size:30
Alignment explanation
Indices: 39691640--39691701 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
39691630 CTTAACAAGT
*
39691640 AAATGCCTCTAAAGTAATAAAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
* *
39691670 AAATGCCTTTAAAATAATAAGAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
39691700 AA
1 AA
39691702 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAAC
Found at i:39692526 original size:157 final size:157
Alignment explanation
Indices: 39692274--39692594 Score: 403
Period size: 158 Copynumber: 2.0 Consensus size: 157
39692264 GTTTGGATAA
*
39692274 AAAAACGCCACTATAGATCAAGCATTAGTGACGCTTTTTAAAAAATGCCGCTATAGGTAGACCAT
1 AAAAACGCCACTATAGATCAAGCATTAGCGACGCTTTTTAAAAAATGCCGCTATAGGTAGACCAT
* * * * * * **
39692339 TAGCGGCATTTTTTGAAAAATACCAC-AAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTAAG
66 TAACAGCACTTTCTGAAAAACACCACAAAAAAAAAGTAAGCACAACGCAATCGTTTTATGTTAAG
*
39692403 CTTTAGTGGCATTAGCAGCACTTTTTG
131 CGTTAGTGGCATTAGCAGCACTTTTTG
* * * * *
39692430 AAAAATGCCGCTATAGATCGAGCATTAGCGATGCTTTTTAAAAAAATGCCGCTATAGGTTGACCA
1 AAAAACGCCACTATAGATCAAGCATTAGCGACGCTTTTT-AAAAAATGCCGCTATAGGTAGACCA
* * * * * *
39692495 TTAATAGCGCTTTCTGAAAAGCGCCGCAAAAAAAAAGTAAGCACAACGCAATCGTTTTATGTTGA
65 TTAACAGCACTTTCTGAAAAACACCACAAAAAAAAAGTAAGCACAACGCAATCGTTTTATGTTAA
* *
39692560 GCGTTAGTGGCATTAGC-GACGCTTTTTA
130 GCGTTAGTGGCATTAGCAG-CACTTTTTG
39692588 AAAAACG
1 AAAAACG
39692595 TCGCAAAAAT
Statistics
Matches: 138, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
156 34 0.25
157 42 0.30
158 62 0.45
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (157 bp):
AAAAACGCCACTATAGATCAAGCATTAGCGACGCTTTTTAAAAAATGCCGCTATAGGTAGACCAT
TAACAGCACTTTCTGAAAAACACCACAAAAAAAAAGTAAGCACAACGCAATCGTTTTATGTTAAG
CGTTAGTGGCATTAGCAGCACTTTTTG
Found at i:39692920 original size:14 final size:14
Alignment explanation
Indices: 39692898--39693038 Score: 54
Period size: 14 Copynumber: 9.9 Consensus size: 14
39692888 TTAATTATCA
*
39692898 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
**
39692912 TTATGGTTTATAGT
1 TTATGGTTTAGGGT
* *
39692926 ATATGGTTTAGGAT
1 TTATGGTTTAGGGT
* *
39692940 TTAAGATTTAGGAGT
1 TTATGGTTTAGG-GT
* *
39692955 TACAAT--TTTAAGGT
1 T--TATGGTTTAGGGT
* *
39692969 ATATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
39692984 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
*
39692998 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
* *
39693012 TTAAGGGTT-GGGAT
1 TTATGGTTTAGGG-T
*
39693026 TTAAGGTTTAGGG
1 TTATGGTTTAGGG
39693039 GTTAGAGGTT
Statistics
Matches: 92, Mismatches: 27, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
12 2 0.02
13 2 0.02
14 66 0.72
15 21 0.23
17 1 0.01
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:39692922 original size:21 final size:21
Alignment explanation
Indices: 39692898--39692951 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
39692888 TTAATTATCA
39692898 TTATAGTTTAGGGTTTATGG-T
1 TTATAGTTTAGGGTTTA-GGAT
* *
39692919 TTATAGTATATGGTTTAGGAT
1 TTATAGTTTAGGGTTTAGGAT
39692940 TTA-AGATTTAGG
1 TTATAG-TTTAGG
39692952 AGTTACAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (21 bp):
TTATAGTTTAGGGTTTAGGAT
Found at i:39692986 original size:22 final size:22
Alignment explanation
Indices: 39692961--39693007 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
39692951 GAGTTACAAT
*
39692961 TTTAAGGTA-TATGGATTATGGG
1 TTTAAGGGATTATGGATTAT-GG
*
39692983 TTT-AGGGATTATGGTTTATGG
1 TTTAAGGGATTATGGATTATGG
39693004 TTTA
1 TTTA
39693008 TGGTTTAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
TTTAAGGGATTATGGATTATGG
Found at i:39693003 original size:7 final size:7
Alignment explanation
Indices: 39692970--39693014 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
39692960 TTTTAAGGTA
*
39692970 TATGGAT
1 TATGGTT
39692977 TATGGGTT
1 TAT-GGTT
* *
39692985 TAGGGAT
1 TATGGTT
39692992 TATGGTT
1 TATGGTT
39692999 TATGGTT
1 TATGGTT
39693006 TATGGTT
1 TATGGTT
39693013 TA
1 TA
39693015 AGGGTTGGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
TATGGTT
Found at i:39695229 original size:48 final size:48
Alignment explanation
Indices: 39695158--39695297 Score: 190
Period size: 48 Copynumber: 2.9 Consensus size: 48
39695148 GGGTAAATTA
39695158 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGG
* * * * * *
39695206 CCGATGCCATGTCCCAAATATGGTCTTACATTGGCTCTCATAACGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGG
** * *
39695254 CCGATTTCATGTCCCAGACATGGTCTTACACTAGCGCACATATC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
39695298 ACCCAAACGT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGG
Found at i:39698987 original size:9 final size:9
Alignment explanation
Indices: 39698973--39699310 Score: 248
Period size: 9 Copynumber: 37.9 Consensus size: 9
39698963 TTCTTTAAAA
39698973 TTACATAAC
1 TTACATAAC
*
39698982 TTACATATC
1 TTACATAAC
*
39698991 TTACATAAA
1 TTACATAAC
*
39699000 TGT--ATATC
1 T-TACATAAC
*
39699008 ATATCATAAC
1 TTA-CATAAC
*
39699018 TTACATACC
1 TTACATAAC
*
39699027 TCACATAAC
1 TTACATAAC
*
39699036 ATACATAAC
1 TTACATAAC
39699045 TTACATAAC
1 TTACATAAC
39699054 TT--ATAA-
1 TTACATAAC
* * *
39699060 ATATATATC
1 TTACATAAC
* *
39699069 ATATCAAAAC
1 TTA-CATAAC
39699079 TTACATAAC
1 TTACATAAC
39699088 TTACATAA-
1 TTACATAAC
39699096 -TACATAA-
1 TTACATAAC
* * *
39699103 ATATATATC
1 TTACATAAC
* *
39699112 ATATCATAAA
1 TTA-CATAAC
39699122 TGT-CATAAC
1 T-TACATAAC
39699131 TTACATAAC
1 TTACATAAC
39699140 TTACATAAC
1 TTACATAAC
*
39699149 TTACATAAT
1 TTACATAAC
39699158 TTACATAAC
1 TTACATAAC
*
39699167 TTACATAAT
1 TTACATAAC
*
39699176 TTACATAAT
1 TTACATAAC
39699185 TTACATAAC
1 TTACATAAC
*
39699194 TTACATAAT
1 TTACATAAC
39699203 TTACATAA-
1 TTACATAAC
*
39699211 TGTACATAAT
1 T-TACATAAC
*
39699221 TTACATAAT
1 TTACATAAC
*
39699230 TTTCATAAC
1 TTACATAAC
39699239 TTACATAAC
1 TTACATAAC
*
39699248 TTACATAAT
1 TTACATAAC
* *
39699257 TTACATGAT
1 TTACATAAC
*
39699266 TTACATTAAT
1 TTACA-TAAC
*
39699276 TTTCATAAC
1 TTACATAAC
**
39699285 TTACATATT
1 TTACATAAC
39699294 TTACATAA-
1 TTACATAAC
39699302 TTGACATAA
1 TT-ACATAA
39699311 ATAAATATCA
Statistics
Matches: 267, Mismatches: 45, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
6 1 0.00
7 12 0.04
8 15 0.06
9 215 0.81
10 23 0.09
11 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.38
Consensus pattern (9 bp):
TTACATAAC
Found at i:39699017 original size:36 final size:34
Alignment explanation
Indices: 39698976--39699095 Score: 112
Period size: 34 Copynumber: 3.6 Consensus size: 34
39698966 TTTAAAATTA
*
39698976 CATAACTTACATATCTTACATAAATGTATATCATAT
1 CATAACTTACATAACTT-CATAAAT-TATATCATAT
* *
39699012 CATAACTTACAT-ACCTC--ACA-TA-A-CATA-
1 CATAACTTACATAACTTCATAAATTATATCATAT
39699039 CATAACTTACATAACTT-ATAAATATATATCATAT
1 CATAACTTACATAACTTCATAAAT-TATATCATAT
*
39699073 CAAAACTTACATAACTTACATAA
1 CATAACTTACATAACTT-CATAA
39699096 TACATAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
27 12 0.18
28 7 0.10
29 3 0.04
30 2 0.03
31 2 0.03
32 3 0.04
33 4 0.06
34 17 0.25
35 2 0.03
36 16 0.24
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (34 bp):
CATAACTTACATAACTTCATAAATTATATCATAT
Found at i:39699071 original size:61 final size:60
Alignment explanation
Indices: 39698974--39699228 Score: 215
Period size: 61 Copynumber: 4.3 Consensus size: 60
39698964 TCTTTAAAAT
* * *
39698974 TACATAACTTACATATCTTACATAAATGTATATCATATCATAACTTACATACCTCACATAACA
1 TACATAACTTACATAACTT--ATAAATGTATATCATATCATAACTTACATAACTTACATAA-A
* *
39699037 TACATAACTTACATAACTTATAAATATATATCATATCAAAACTTACATAACTTACAT-AA
1 TACATAACTTACATAACTTATAAATGTATATCATATCATAACTTACATAACTTACATAAA
* * * * * *
39699096 TACATAAATATATATCATA-TCATAAATGTCATAACTTA-CATAACTTACATAACTTACATAATT
1 TACATAACT-TACAT-A-ACTTATAAATGT-ATATCATATCATAACTTACATAACTTACATAA-A
* * * *
39699159 TACATAACTTACATAA-TT-TACA--TA-AT-TTA-CATAACTTACATAATTTACATAATG
1 TACATAACTTACATAACTTATAAATGTATATCATATCATAACTTACATAACTTACATAA-A
*
39699213 TACATAATTTACATAA
1 TACATAACTTACATAA
39699229 TTTTCATAAC
Statistics
Matches: 165, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
54 41 0.25
55 1 0.01
56 1 0.01
57 1 0.01
59 12 0.07
60 7 0.04
61 64 0.39
62 12 0.07
63 26 0.16
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (60 bp):
TACATAACTTACATAACTTATAAATGTATATCATATCATAACTTACATAACTTACATAAA
Found at i:39699086 original size:43 final size:44
Alignment explanation
Indices: 39699037--39699142 Score: 157
Period size: 43 Copynumber: 2.5 Consensus size: 44
39699027 TCACATAACA
39699037 TACATAACTTACATAACTTATAAATATATATCATATCA-AAACT-
1 TACATAACTTACATAACTTATAAATATATATCATATCATAAA-TG
*
39699080 TACATAACTTACATAA-TACATAAATATATATCATATCATAAATG
1 TACATAACTTACATAACT-TATAAATATATATCATATCATAAATG
39699124 T-CATAACTTACATAACTTA
1 TACATAACTTACATAACTTA
39699143 CATAACTTAC
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
42 1 0.02
43 51 0.89
44 5 0.09
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (44 bp):
TACATAACTTACATAACTTATAAATATATATCATATCATAAATG
Found at i:39701783 original size:11 final size:11
Alignment explanation
Indices: 39701769--39701802 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
39701759 AAAGGATTAT
39701769 AGAAAAACAAA
1 AGAAAAACAAA
39701780 AGAAAAACAAA
1 AGAAAAACAAA
39701791 AGAAAAACAAA
1 AGAAAAACAAA
39701802 A
1 A
39701803 TGTTGGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (11 bp):
AGAAAAACAAA
Found at i:39703632 original size:21 final size:20
Alignment explanation
Indices: 39703603--39703646 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
39703593 CCTCCTATTT
39703603 TTTTATTTATTCTAATTTTTA
1 TTTTATTTATT-TAATTTTTA
* *
39703624 TTTTCTTTATTTTATTTTTA
1 TTTTATTTATTTAATTTTTA
39703644 TTT
1 TTT
39703647 CACTTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTATTTATTTAATTTTTA
Found at i:39703665 original size:24 final size:25
Alignment explanation
Indices: 39703630--39703690 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
39703620 TTTATTTTCT
* *
39703630 TTATTTTATTTTTATTTCACTTTTGA
1 TTATTTTATTTTCATTTCAATTTT-A
39703656 -T-TTTTATTTTCATTTCAATTTTA
1 TTATTTTATTTTCATTTCAATTTTA
39703679 TTATTTTATTTT
1 TTATTTTATTTT
39703691 GAAAGACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 1 0.03
24 20 0.65
25 10 0.32
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (25 bp):
TTATTTTATTTTCATTTCAATTTTA
Found at i:39707180 original size:28 final size:26
Alignment explanation
Indices: 39707111--39707181 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 26
39707101 TATAGTGAGT
*
39707111 CCGCACACTTAGTGCTATATAATCAA
1 CCGCACACTTAGTGCTACATAATCAA
*
39707137 CCAGCACACTTAGTGCTACATGATCAAA
1 CC-GCACACTTAGTGCTACATAATC-AA
39707165 CTCGCACACTTAGTGCT
1 C-CGCACACTTAGTGCT
39707182 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 2 0.05
27 20 0.50
28 17 0.43
29 1 0.03
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (26 bp):
CCGCACACTTAGTGCTACATAATCAA
Found at i:39709726 original size:13 final size:13
Alignment explanation
Indices: 39709710--39709734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39709700 TTAAATCAGT
39709710 TAATTAGTTTAAA
1 TAATTAGTTTAAA
39709723 TAATTAGTTTAA
1 TAATTAGTTTAA
39709735 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:39718849 original size:39 final size:40
Alignment explanation
Indices: 39718774--39718957 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
39718764 TACACATTCA
* *
39718774 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
39718814 AATGCCTTCGGGA-TTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
* *
39718853 AAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * ** * *
39718893 TATGCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
39718933 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAT
39718958 ATCATTCGAA
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 3 0.03
39 26 0.22
40 81 0.69
41 8 0.07
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
Found at i:39723119 original size:46 final size:46
Alignment explanation
Indices: 39723052--39723225 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
39723042 TGTAACCCGC
*
39723052 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
39723098 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
39723148 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
39723190 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
39723226 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:39723218 original size:92 final size:93
Alignment explanation
Indices: 39723060--39723229 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
39723050 GCCCATAAGT
* *
39723060 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
39723125 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
39723153 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
39723217 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39723230 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 46 0.62
93 28 0.38
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:39729676 original size:40 final size:40
Alignment explanation
Indices: 39729496--39729677 Score: 165
Period size: 40 Copynumber: 4.5 Consensus size: 40
39729486 ACATTCAAAT
* * *
39729496 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAAA
* * *
39729536 GCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCGAAA
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAAA
* * * *
39729576 GCCTTC-GGATCTTAGTCCAGATTTAGTAACTCGCACGTAT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAAA
* ** * *
39729616 GCCATC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-AAA
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACGAAA
39729656 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
39729678 ATCATTCGAA
Statistics
Matches: 115, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.89
41 10 0.09
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAAA
Found at i:39738734 original size:29 final size:29
Alignment explanation
Indices: 39738702--39738921 Score: 187
Period size: 29 Copynumber: 7.6 Consensus size: 29
39738692 TAGTCACCAC
* *
39738702 CCCTTTTCATAATCGATAGCCAAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
* *
39738731 CCC-TTTCATATACAATAGCCGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
* * * *
39738759 CCCTTTTCATATTCGATGGTCGTCA-CCAT
1 CCCTTTTCATATTCGATAGCCG-AAGCTAT
* * * * *
39738788 CTCTTTTCATAGTT-GATGGTCGTCA-CCAT
1 CCCTTTTCATA-TTCGATAGCCG-AAGCTAT
* *
39738817 CTCTTTTCATAATCGATAGCCGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
*
39738846 CCCTTTTTATATTCGATAGCCGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
*** * **
39738875 TAGTTTTCATATTTGATAGATGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
39738904 CCCTTTTCATATTCGATA
1 CCCTTTTCATATTCGATA
39738922 ATCGTCGATA
Statistics
Matches: 156, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
28 26 0.17
29 127 0.81
30 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.37
Consensus pattern (29 bp):
CCCTTTTCATATTCGATAGCCGAAGCTAT
Found at i:39738823 original size:115 final size:116
Alignment explanation
Indices: 39738666--39738874 Score: 330
Period size: 115 Copynumber: 1.8 Consensus size: 116
39738656 TTGATTGTCA
39738666 TCACCATCCCTTTTCATAGCTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
1 TCACCATCCCTTTTCATAGCTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
39738731 CCC-TTTCATATACAATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCG
66 CCCTTTTCATATACAATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCG
* * * * * *
39738781 TCACCATCTCTTTTCATAGTTGATGGTCGTCACCATCTCTTTTCATAATCGATAGCCGAAGCTAT
1 TCACCATCCCTTTTCATAGCTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
* * *
39738846 CCCTTTTTATATTCGATAGCCGAAGCTAT
66 CCCTTTTCATATACAATAGCCGAAGCTAT
39738875 TAGTTTTCAT
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
115 62 0.74
116 22 0.26
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.34
Consensus pattern (116 bp):
TCACCATCCCTTTTCATAGCTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
CCCTTTTCATATACAATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCG
Found at i:39740738 original size:24 final size:24
Alignment explanation
Indices: 39740710--39740757 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
39740700 CTTGACAACA
39740710 ACACCTTTACGCTTGATCTTAGGT
1 ACACCTTTACGCTTGATCTTAGGT
39740734 ACACCTTTACGCTTGATCTTAGGT
1 ACACCTTTACGCTTGATCTTAGGT
39740758 GTGTTCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (24 bp):
ACACCTTTACGCTTGATCTTAGGT
Found at i:39742565 original size:13 final size:13
Alignment explanation
Indices: 39742547--39742571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39742537 ATACATTTAG
39742547 AGACACACGGCCA
1 AGACACACGGCCA
39742560 AGACACACGGCC
1 AGACACACGGCC
39742572 GTGTGTCTAG
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:0.36, C:0.40, G:0.24, T:0.00
Consensus pattern (13 bp):
AGACACACGGCCA
Found at i:39745173 original size:44 final size:44
Alignment explanation
Indices: 39745123--39745221 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 44
39745113 TAACATTCCC
* *
39745123 ACACTTAGTGCTTTAAGGGTTAGCCTATGCTAGAACAATTTCGT
1 ACACTTAGTGCTTTAAGGGTTAGCCGATGCTAGAACAATTCCGT
39745167 ACACTTAGTGCTTTAAGGGTTAGCCGATGCTAGAACAATTCCGT
1 ACACTTAGTGCTTTAAGGGTTAGCCGATGCTAGAACAATTCCGT
39745211 ACACTTAGTGC
1 ACACTTAGTGC
39745222 CATTTCAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (44 bp):
ACACTTAGTGCTTTAAGGGTTAGCCGATGCTAGAACAATTCCGT
Found at i:39749820 original size:43 final size:43
Alignment explanation
Indices: 39749755--39750029 Score: 412
Period size: 43 Copynumber: 6.4 Consensus size: 43
39749745 ACATATCATT
* *
39749755 TCACCGGCATTAAGCCTACTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
39749798 TCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
39749841 TCATCGGCA-TGAAGCCTACTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACT-AAGCCTGCTAGGCACGAAGGCCCGAATACACA
39749884 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
39749927 TCACCGGCACTAGGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
39749970 TCACCGGCACTAAGCCTGGTAGGCATGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
39750012 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
39750030 GGGATTTATC
Statistics
Matches: 212, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
41 14 0.07
42 2 0.01
43 195 0.92
44 1 0.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:39753839 original size:27 final size:28
Alignment explanation
Indices: 39753783--39753852 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
39753773 AAATTTGTAC
39753783 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
39753811 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
39753838 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
39753853 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:39761761 original size:27 final size:28
Alignment explanation
Indices: 39761705--39761774 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
39761695 AAATTTGTAC
39761705 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
39761733 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
39761760 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
39761775 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:39766991 original size:43 final size:43
Alignment explanation
Indices: 39766917--39767148 Score: 351
Period size: 43 Copynumber: 5.4 Consensus size: 43
39766907 ACATATCATT
* *
39766917 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
39766960 TCACTGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
39767003 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATCCACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
39767046 TCATCGGCACTAAGCCTGCTAGGCACGAAGGCTCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
39767089 TCACCGGTACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
39767131 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
39767149 GGGATTTATC
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 14 0.08
42 2 0.01
43 156 0.91
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:39767168 original size:38 final size:38
Alignment explanation
Indices: 39767120--39767203 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
39767110 GGCACGAAGG
* * *
39767120 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
39767158 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
39767196 CCCGAATA
1 CCCGAATA
39767204 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:39770789 original size:46 final size:46
Alignment explanation
Indices: 39770736--39770911 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
39770726 TATTTGGGCA
39770736 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39770782 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39770827 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39770875 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39770912 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39770891 original size:93 final size:93
Alignment explanation
Indices: 39770732--39770904 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
39770722 GGGATATTTG
* *
39770732 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39770797 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
39770825 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39770890 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
39770905 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:39772585 original size:40 final size:40
Alignment explanation
Indices: 39772531--39772688 Score: 264
Period size: 40 Copynumber: 4.0 Consensus size: 40
39772521 CGGATGTAAC
* *
39772531 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
39772571 AACCCGCACGAATGCCTTCGGGACTT-ACCCTGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCC-GGTTATAAT
*
39772611 AACCCACACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
39772651 AACCCGCACGAATGCCTTCAGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
39772689 TTTTTTTCCA
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 4 0.04
40 103 0.93
41 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:39777793 original size:26 final size:26
Alignment explanation
Indices: 39777759--39777811 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
39777749 CTTCTTTTTT
*
39777759 AATAATGCATTTGGAAATAATTTTGA
1 AATAATGCACTTGGAAATAATTTTGA
*
39777785 AATAGTGCACTTGGAAATAATTTTGA
1 AATAATGCACTTGGAAATAATTTTGA
39777811 A
1 A
39777812 CTCTTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.36
Consensus pattern (26 bp):
AATAATGCACTTGGAAATAATTTTGA
Found at i:39783079 original size:46 final size:46
Alignment explanation
Indices: 39782974--39783195 Score: 195
Period size: 46 Copynumber: 4.7 Consensus size: 46
39782964 TGGGCAAGGT
* *
39782974 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAC-TATCTTCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTTTTACACTAG-CTTA-CATCTCG-AG
39783022 GCCGATGCATGTCCCAGACATGTTTTACACTAGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTTTTACACTAGCTTACATCTCGAG
* * * * * *
39783068 GCTGATACATGTCCCAGACATGTCTTACACTAACACT-CGTCTC-AG
1 GCCGATGCATGTCCCAGACATGTTTTACACTAGC-TTACATCTCGAG
* * **
39783113 TGCCGATGCCATGTCCCAGACATGGTTTTACACTAGCTTCCATAAT-TTG
1 -GCCGATG-CATGTCCCAGACAT-GTTTTACACTAGCTTACAT-CTCGAG
*
39783162 GCCGATGCATGTCCCAAACATGTTTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTTTTACACTAGC
39783196 ACACACAAGT
Statistics
Matches: 147, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
45 3 0.02
46 69 0.47
47 46 0.31
48 27 0.18
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTTTTACACTAGCTTACATCTCGAG
Found at i:39783183 original size:94 final size:92
Alignment explanation
Indices: 39782974--39783193 Score: 266
Period size: 94 Copynumber: 2.3 Consensus size: 92
39782964 TGGGCAAGGT
* *
39782974 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCTTCTCGTAGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACTATCGTCTCGTAGCCGATGCATGTCCCAG
*
39783039 ACATGTTTTACACTAGCTTACATCTCGAG
64 ACATGTTTTACACTAGCTTACATATCGAG
* *
39783068 GCTGATACATGTCCCAGACATGTCTTACACTAAC-ACTCGTCTCAGT-GCCGATGCCATGTCCCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAACTA-TCGTCTC-GTAGCCGATG-CATGTCCCA
* **
39783131 GACATGGTTTTACACTAGCTTCCATAAT-TTG
63 GACAT-GTTTTACACTAGCTTACAT-ATCGAG
* *
39783162 GCCGATGCATGTCCCAAACATGTTTTACACTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTA
39783194 GCACACACAA
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
91 1 0.01
92 25 0.23
93 30 0.28
94 52 0.48
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACTATCGTCTCGTAGCCGATGCATGTCCCAGAC
ATGTTTTACACTAGCTTACATATCGAG
Found at i:39790306 original size:43 final size:43
Alignment explanation
Indices: 39790236--39790319 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
39790226 TACATGAATC
* ** *
39790236 GCATCCATTATGAACTTGGACCACTCAACGAGCTCGGATGCTT
1 GCATCCATAATGAACTTAAACCACTCAACGAGCTAGGATGCTT
*
39790279 GCATCCATAATGAACTTAAACCTCTCAACGAGCTAGGATGC
1 GCATCCATAATGAACTTAAACCACTCAACGAGCTAGGATGC
39790320 CACATAGATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
GCATCCATAATGAACTTAAACCACTCAACGAGCTAGGATGCTT
Found at i:39790349 original size:42 final size:43
Alignment explanation
Indices: 39790247--39790349 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 43
39790237 CATCCATTAT
* ** * *
39790247 GAACTTGGACCACTCAACGAGCTCGGATGCTTGCATCCATAAT
1 GAACTTGGACCACTCAACGAGCTAGGATGCTCACATACATAAC
** * * *
39790290 GAACTTAAACCTCTCAACGAGCTAGGATGC-CACATAGATCAC
1 GAACTTGGACCACTCAACGAGCTAGGATGCTCACATACATAAC
39790332 GAACTTGGACCACTCAAC
1 GAACTTGGACCACTCAAC
39790350 AAGTTCAGAT
Statistics
Matches: 47, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
42 21 0.45
43 26 0.55
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.20
Consensus pattern (43 bp):
GAACTTGGACCACTCAACGAGCTAGGATGCTCACATACATAAC
Found at i:39793056 original size:15 final size:15
Alignment explanation
Indices: 39793022--39793081 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
39793012 TATAGATAAC
* * *
39793022 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
39793037 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
39793052 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
39793067 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
39793082 CAATATCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:39793230 original size:2 final size:2
Alignment explanation
Indices: 39793223--39793260 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
39793213 GTACCTTCCC
39793223 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39793261 CGAATAGAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39795057 original size:20 final size:20
Alignment explanation
Indices: 39795032--39795083 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
39795022 ATTGAGAACT
*
39795032 TTAGAAAGTTTTAGGAAAAC
1 TTAGAAAATTTTAGGAAAAC
*
39795052 TTAGAAAATTTTGGGAAAAC
1 TTAGAAAATTTTAGGAAAAC
39795072 TTAGAAAATTTT
1 TTAGAAAATTTT
39795084 CCTGAAACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (20 bp):
TTAGAAAATTTTAGGAAAAC
Found at i:39798190 original size:22 final size:23
Alignment explanation
Indices: 39798145--39798199 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
39798135 ATTCACTAAT
* *
39798145 TCATCACAATATCATCTATTTCA
1 TCATCACAAAATCATCTATATCA
39798168 T-ATCACAAAACTCATC-ATATCA
1 TCATCACAAAA-TCATCTATATCA
*
39798190 TCATCTCAAA
1 TCATCACAAA
39798200 CCAAACCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (23 bp):
TCATCACAAAATCATCTATATCA
Found at i:39798885 original size:41 final size:43
Alignment explanation
Indices: 39798795--39798886 Score: 116
Period size: 44 Copynumber: 2.2 Consensus size: 43
39798785 TGTTTAGCCG
** *
39798795 AAGCTATAACGATATCGCACACTTAGTGCCATCACATTGAACTA
1 AAGCTATAACGATATCGCACACTTAGTGCCA-CACATAAAACCA
* *
39798839 GAGCTATATCGATATCGCACACTTAGTG-C-CACATAAAACCA
1 AAGCTATAACGATATCGCACACTTAGTGCCACACATAAAACCA
39798880 AAGCTAT
1 AAGCTAT
39798887 TTCAATTCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 15 0.36
43 1 0.02
44 26 0.62
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (43 bp):
AAGCTATAACGATATCGCACACTTAGTGCCACACATAAAACCA
Found at i:39804178 original size:42 final size:42
Alignment explanation
Indices: 39804052--39804199 Score: 172
Period size: 42 Copynumber: 3.4 Consensus size: 42
39804042 GCTTGAGAAA
* * * *
39804052 CTCGTACACTTAGTGCCAAATAAATAGCCGAAGCTATATCAGT
1 CTCGCACACTAAGTGCCAAATATATAGCCGAAGCTATCTCA-T
*
39804095 CTCGTACACTAAGTGCCAATATATATATAGCCGAAGCTATCTCGAT
1 CTCGCACACTAAGTGCC-A-A-ATATATAGCCGAAGCTATCTC-AT
*
39804141 CTCGCACACTAAGTG-CAAATATATAGCCGAAGTTATCTCAAT
1 CTCGCACACTAAGTGCCAAATATATAGCCGAAGCTATCTC-AT
*
39804183 TTCGCACACTAAGTGCC
1 CTCGCACACTAAGTGCC
39804200 TAAAATTAGT
Statistics
Matches: 93, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
42 36 0.39
43 18 0.19
44 2 0.02
45 2 0.02
46 34 0.37
47 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
CTCGCACACTAAGTGCCAAATATATAGCCGAAGCTATCTCAT
Found at i:39804887 original size:25 final size:25
Alignment explanation
Indices: 39804859--39804936 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
39804849 AAAATGAGTT
39804859 AAAATTGCTTACCTAATTGAAGGAG
1 AAAATTGCTTACCTAATTGAAGGAG
* ** * ***
39804884 AAAA--GCTTGCAAAAATTCAAGCCC
1 AAAATTGCTTAC-CTAATTGAAGGAG
*
39804908 TAAATTGCTTACCTAATTGAAGGAG
1 AAAATTGCTTACCTAATTGAAGGAG
39804933 AAAA
1 AAAA
39804937 GCTTGCCAAA
Statistics
Matches: 34, Mismatches: 16, Indels: 6
0.61 0.29 0.11
Matches are distributed among these distances:
23 5 0.15
24 10 0.29
25 14 0.41
26 5 0.15
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (25 bp):
AAAATTGCTTACCTAATTGAAGGAG
Found at i:39804917 original size:49 final size:49
Alignment explanation
Indices: 39804860--39804961 Score: 195
Period size: 49 Copynumber: 2.1 Consensus size: 49
39804850 AAATGAGTTA
39804860 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
1 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
*
39804909 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCCAAAATTCAAGCCCT
1 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
39804958 AAAT
1 AAAT
39804962 GGATTTTCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (49 bp):
AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
Found at i:39804949 original size:24 final size:24
Alignment explanation
Indices: 39804873--39804949 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
39804863 TTGCTTACCT
*
39804873 AATTGAAGGAGAAAAGCTTGCAAA
1 AATTGAAGGAGAAAAGCTTGCCAA
* *** * * *
39804897 AATTCAAGCCCTAAATTGCTTACC-T
1 AATTGAAG-GAGAAA-AGCTTGCCAA
39804922 AATTGAAGGAGAAAAGCTTGCCAA
1 AATTGAAGGAGAAAAGCTTGCCAA
39804946 AATT
1 AATT
39804950 CAAGCCCTAA
Statistics
Matches: 35, Mismatches: 15, Indels: 6
0.62 0.27 0.11
Matches are distributed among these distances:
23 6 0.17
24 14 0.40
25 10 0.29
26 5 0.14
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (24 bp):
AATTGAAGGAGAAAAGCTTGCCAA
Found at i:39805908 original size:10 final size:10
Alignment explanation
Indices: 39805895--39805942 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
39805885 TTATTTCTAT
39805895 TTATCTTTAA
1 TTATCTTTAA
39805905 TTATCTTTAA
1 TTATCTTTAA
39805915 TTATCTTTAA
1 TTATCTTTAA
*
39805925 TTAT-TTGTAT
1 TTATCTT-TAA
39805935 TTATCTTT
1 TTATCTTT
39805943 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:39805918 original size:20 final size:20
Alignment explanation
Indices: 39805885--39805942 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
39805875 AATTTAAGAT
* *
39805885 TTATTTCTATTTATCTTTAA
1 TTATTTGTAATTATCTTTAA
39805905 TTATCTT-TAATTATCTTTAA
1 TTAT-TTGTAATTATCTTTAA
*
39805925 TTATTTGTATTTATCTTT
1 TTATTTGTAATTATCTTT
39805943 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTGTAATTATCTTTAA
Found at i:39806687 original size:17 final size:17
Alignment explanation
Indices: 39806665--39806697 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39806655 TATTCTCCAT
*
39806665 TTTAATTTTGCAATTTA
1 TTTAATTTCGCAATTTA
39806682 TTTAATTTCGCAATTT
1 TTTAATTTCGCAATTT
39806698 CAATTCGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTAATTTCGCAATTTA
Found at i:39812301 original size:16 final size:14
Alignment explanation
Indices: 39812280--39812356 Score: 79
Period size: 16 Copynumber: 5.4 Consensus size: 14
39812270 AGGCAACCCA
39812280 ATTTTTATTTCTCTTT
1 ATTTTTATTT-T-TTT
*
39812296 ATTTTTCTTTATTTTT
1 ATTTTT-ATT-TTTTT
39812312 ATTTTTA-TTTTTT
1 ATTTTTATTTTTTT
39812325 ATTTTTA--TTTTT
1 ATTTTTATTTTTTT
39812337 ATTTTTATTTTTATT
1 ATTTTTATTTTT-TT
39812352 ATTTT
1 ATTTT
39812357 ATCTTAATGA
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.22
13 12 0.22
14 4 0.07
15 7 0.13
16 15 0.28
17 3 0.06
18 1 0.02
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:39812314 original size:6 final size:6
Alignment explanation
Indices: 39812280--39812351 Score: 90
Period size: 6 Copynumber: 11.5 Consensus size: 6
39812270 AGGCAACCCA
* * *
39812280 ATTTTT ATTTCT CTTTATT TTTCTTT ATTTTT ATTTTT ATTTTTT ATTTTT
1 ATTTTT ATTTTT ATTT-TT ATT-TTT ATTTTT ATTTTT A-TTTTT ATTTTT
39812331 ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATT
39812352 ATTTTATCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
6 44 0.76
7 13 0.22
8 1 0.02
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:39812331 original size:25 final size:25
Alignment explanation
Indices: 39812280--39812348 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 25
39812270 AGGCAACCCA
* *
39812280 ATTTTTATTTCTCTTTATTTTTCTTT
1 ATTTTTATTTTTATTT-TTTTTCTTT
39812306 ATTTTTATTTTTATTTTTTATT-TTT
1 ATTTTTATTTTTATTTTTT-TTCTTT
39812331 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTTATTTTT
39812349 ATTATTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
25 24 0.60
26 16 0.40
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.81
Consensus pattern (25 bp):
ATTTTTATTTTTATTTTTTTTCTTT
Found at i:39812783 original size:21 final size:22
Alignment explanation
Indices: 39812748--39812789 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
39812738 TCGTTTTAGA
*
39812748 TGCTGATTTTTGTTGTTGTTGT
1 TGCTGATTTTGGTTGTTGTTGT
39812770 TGCTG-TTTTGGTTGTTGTTG
1 TGCTGATTTTGGTTGTTGTTG
39812790 CCCATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.02, C:0.05, G:0.31, T:0.62
Consensus pattern (22 bp):
TGCTGATTTTGGTTGTTGTTGT
Found at i:39814096 original size:14 final size:13
Alignment explanation
Indices: 39814077--39814114 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
39814067 ATTTAATTTT
39814077 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
39814091 TAATTATTAAGGA
1 TAATTATTTAGGA
39814104 TAATTATTTAG
1 TAATTATTTAG
39814115 CTTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:39814153 original size:10 final size:10
Alignment explanation
Indices: 39814140--39814187 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
39814130 TTATTTCTAT
39814140 TTATCTTTAA
1 TTATCTTTAA
39814150 TTATCTTTAA
1 TTATCTTTAA
39814160 TTATCTTTAA
1 TTATCTTTAA
*
39814170 TTAT-TTGTAT
1 TTATCTT-TAA
39814180 TTATCTTT
1 TTATCTTT
39814188 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:39814163 original size:20 final size:20
Alignment explanation
Indices: 39814130--39814187 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
39814120 AATTTAAGAT
* *
39814130 TTATTTCTATTTATCTTTAA
1 TTATTTGTAATTATCTTTAA
39814150 TTATCTT-TAATTATCTTTAA
1 TTAT-TTGTAATTATCTTTAA
*
39814170 TTATTTGTATTTATCTTT
1 TTATTTGTAATTATCTTT
39814188 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTGTAATTATCTTTAA
Found at i:39823468 original size:47 final size:49
Alignment explanation
Indices: 39823354--39823524 Score: 207
Period size: 47 Copynumber: 3.6 Consensus size: 49
39823344 GCCAAAAAGT
* * *
39823354 GAACTCGGACTCAACTCAACGAGCTCGG--GC-GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACATCCATAAGC
*
39823400 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACATCCATAAGC
* *
39823447 GAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACATCCATAAGC
39823494 GAACTCGGACTCAACTCAACGAGTTCGGATG
1 GAACTCGGACTCAACTCAACGAGTTCGGATG
39823525 TTCAACCATC
Statistics
Matches: 107, Mismatches: 7, Indels: 19
0.80 0.05 0.14
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 1 0.01
46 29 0.27
47 58 0.54
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACATCCATAAGC
Found at i:39823514 original size:94 final size:93
Alignment explanation
Indices: 39823354--39823524 Score: 297
Period size: 94 Copynumber: 1.8 Consensus size: 93
39823344 GCCAAAAAGT
* *
39823354 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
39823419 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
39823447 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
39823512 ACGAGTTCGGATG
65 ACGAGTTCGGATG
39823525 TTCAACCATC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 28 0.38
94 45 0.62
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:39823977 original size:30 final size:30
Alignment explanation
Indices: 39823943--39824003 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
39823933 TCCTTAATAC
39823943 AAACTTTGGCAAAATTAC-CATTTTGCCCCT
1 AAACTTTGGCAAAATTACAC-TTTTGCCCCT
* * *
39823973 AAACTTTTGCATAATTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
39824003 A
1 A
39824004 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:39831042 original size:47 final size:49
Alignment explanation
Indices: 39830928--39831098 Score: 207
Period size: 47 Copynumber: 3.6 Consensus size: 49
39830918 GCCAAAAAGT
* * *
39830928 GAACTCGGACTCAACTCAACGAGCTCGG--GC-GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACATCCATAAGC
*
39830974 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACATCCATAAGC
* *
39831021 GAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACATCCATAAGC
39831068 GAACTCGGACTCAACTCAACGAGTTCGGATG
1 GAACTCGGACTCAACTCAACGAGTTCGGATG
39831099 TTCAACCATC
Statistics
Matches: 107, Mismatches: 7, Indels: 19
0.80 0.05 0.14
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 1 0.01
46 29 0.27
47 58 0.54
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACATCCATAAGC
Found at i:39831088 original size:94 final size:93
Alignment explanation
Indices: 39830928--39831098 Score: 297
Period size: 94 Copynumber: 1.8 Consensus size: 93
39830918 GCCAAAAAGT
* *
39830928 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
39830993 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
39831021 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
39831086 ACGAGTTCGGATG
65 ACGAGTTCGGATG
39831099 TTCAACCATC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 28 0.38
94 45 0.62
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:39831552 original size:30 final size:30
Alignment explanation
Indices: 39831518--39831578 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
39831508 TCCTTAATAC
*
39831518 AAACTTTGGCAAAATTAC-CATTTTGCCCCT
1 AAACTTTGGCAAAATTACAC-TTTTCCCCCT
* *
39831548 AAACTTTTGCATAATTACACTTTTCCCCCT
1 AAACTTTGGCAAAATTACACTTTTCCCCCT
39831578 A
1 A
39831579 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTCCCCCT
Found at i:39833195 original size:40 final size:40
Alignment explanation
Indices: 39833146--39833312 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
39833136 TCTTCGGAAT
* *
39833146 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
39833185 TTAACCCGGAT-TTGGTAGCTTGCACAAATGCCTTCGGGT-
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * ** *
39833224 TTAGCCCGGATATAACAACTCGCATGAATGCCTTCGAGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
39833264 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
39833304 TTAGCCCGG
1 TTAGCCCGG
39833313 GTATCATTCA
Statistics
Matches: 101, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
39 32 0.32
40 69 0.68
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:39838277 original size:33 final size:33
Alignment explanation
Indices: 39838249--39838316 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
39838239 TAAAGATATA
*
39838249 AACCTTAATGCTTGTCTAATCTCAAAAGAAACT
1 AACCTTAATGCATGTCTAATCTCAAAAGAAACT
*
39838282 AACCTTCATGCATGTCTAATCTCAAAAGAAACT
1 AACCTTAATGCATGTCTAATCTCAAAAGAAACT
39838315 AA
1 AA
39838317 GTTTTCATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (33 bp):
AACCTTAATGCATGTCTAATCTCAAAAGAAACT
Found at i:39842964 original size:54 final size:54
Alignment explanation
Indices: 39842905--39843014 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
39842895 CCATAGAAAC
*
39842905 CAAGGTTTCTATCTCTTCCATAACTGAACACTCTTTTTCCGGATTGAGAAATTT
1 CAAGGTTTCTATCTCTTCCATAACTGAACACTCTTTTTCCGGATCGAGAAATTT
39842959 CAAGGTTTCTATCTCTTCCATAACTGAACACTCTTTTTCCGGATCGAGAAATTT
1 CAAGGTTTCTATCTCTTCCATAACTGAACACTCTTTTTCCGGATCGAGAAATTT
39843013 CA
1 CA
39843015 TCGCTTTAAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (54 bp):
CAAGGTTTCTATCTCTTCCATAACTGAACACTCTTTTTCCGGATCGAGAAATTT
Found at i:39848770 original size:21 final size:21
Alignment explanation
Indices: 39848732--39848780 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
39848722 ATGATTGAGT
**
39848732 TTTTGAATGATTTTTGATAAA
1 TTTTGAATGATTGATGATAAA
* *
39848753 TTTTGAATGCTTGATGATAGA
1 TTTTGAATGATTGATGATAAA
*
39848774 TATTGAA
1 TTTTGAA
39848781 GTTTTGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (21 bp):
TTTTGAATGATTGATGATAAA
Found at i:39849441 original size:43 final size:42
Alignment explanation
Indices: 39849355--39849512 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
39849345 TAATTACATA
* * *
39849355 TAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTACT-AGATTACGTG
* *
39849398 TAAGACCATGTATGGGACATTGGCATCGTTAACT-GATTTCGTG
1 TAAGACCATGTCTGGGACATTGGCATCG-T-ACTAGATTACGTG
* * * * *
39849441 TAAGACC-TATCTGGGACAGTGGCATCGATA-TGTGATAACATG
1 TAAGACCATGTCTGGGACATTGGCATCG-TACT-AGATTACGTG
* * *
39849483 TAAGACCATATCTGGGATA-TGGCATTGTAC
1 TAAGACCATGTCTGGGACATTGGCATCGTAC
39849513 GAGCTTATGT
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 38 0.40
43 50 0.53
44 1 0.01
45 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCGTACTAGATTACGTG
Done.