Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 78 of 343
Found at i:25732520 original size:86 final size:85
Alignment explanation
Indices: 25732371--25732605 Score: 341
Period size: 86 Copynumber: 2.8 Consensus size: 85
25732361 AGAAATTAAA
* * * *
25732371 AGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTGAAAACAGAAATT-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATT-AAAACAGAAATTG
*
25732435 AAAATTACCTCAGCGTGCCCCG
65 AAAA-TACCTCAGCGTGCCACG
* *
25732457 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAAAAATAGAAATTAAAGACAAAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA-ACAGAAATTG
*
25732522 AAAATACCTCAGCGTGCCATG
65 AAAATACCTCAGCGTGCCACG
25732543 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAT-G-AATTAAAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAGAAATTAAAACAGAAATTG
25732606 GAAGAACAGA
Statistics
Matches: 136, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
84 9 0.07
85 10 0.07
86 111 0.82
87 6 0.04
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (85 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAACAGAAATTGA
AAATACCTCAGCGTGCCACG
Found at i:25732741 original size:79 final size:78
Alignment explanation
Indices: 25732610--25732929 Score: 299
Period size: 79 Copynumber: 4.0 Consensus size: 78
25732600 AAATTGGAAG
*
25732610 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
25732675 TTTTGAAAAGCAGA
66 TTTTGAAAAG-AGA
25732689 AACAGAAATT-AAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAA-TACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
25732753 TTCTTTTGAAACATAAATTGAAA
65 -T-TTTTG----A-AAA--GAGA
* * * ** *
25732776 GAACAGAAATTGGAAATACCTCAGTATGTGAACC-GAGGTTCAACTCATATCTCGCAATGTGAGT
1 -AACAGAAATTGAAAATACCTCAGCATGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *** *
25732840 TAATTTTT--TTTGAAA
62 TGATTTTTGAAAAGAGA
* * * * *
25732855 AACAGAAATT-AAAATTACCTCAGCGTGCCCCGAGGATCAACTCACCTCTCACAATATGAGTTGA
1 AACAGAAATTGAAAA-TACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
25732919 TTTTTGAAAAG
65 TTTTTGAAAAG
25732930 TATAAATTAA
Statistics
Matches: 197, Mismatches: 25, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
75 2 0.01
76 32 0.16
77 3 0.02
78 25 0.13
79 62 0.31
80 1 0.01
81 5 0.03
85 1 0.01
86 3 0.02
87 2 0.01
88 27 0.14
89 4 0.02
90 28 0.14
91 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (78 bp):
AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAAGAGA
Found at i:25732897 original size:166 final size:165
Alignment explanation
Indices: 25732593--25732954 Score: 432
Period size: 166 Copynumber: 2.2 Consensus size: 165
25732583 AACATGAATT
* * * *
25732593 AAAACAGAAATTGGAAGAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
1 AAAACATAAATTGAAAGAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACATC
* * * *
25732658 TCGCAATATGAGTTGATTTTTGAAAAGCAGAAACAGAAATTAAAATTACCTCAGCATGTCCTGAG
66 TCGCAATATGAGTTAATTTTT-AAAAGCAAAAACAGAAATTAAAATTACCTCAGCATGCCCCGAG
* *
25732723 GCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTG
130 GATCAACTCACCTCTCACAATATGAGTTGA-T-TTTTG
* * * *
25732761 -AAACATAAATTGAAAGAACAGAAATTGGAAATACCTCAGTATGTGAACC-GAGGTTCAACTCAT
1 AAAACATAAATTGAAAGAACAGAAATTGAAAATACCTCAG--CGTG-ACCTGAGGCTCAACTCAC
* *** *
25732824 ATCTCGCAATGTGAGTTAATTTTT-TTTG-AAAAACAGAAATTAAAATTACCTCAGCGTGCCCCG
63 ATCTCGCAATATGAGTTAATTTTTAAAAGCAAAAACAGAAATTAAAATTACCTCAGCATGCCCCG
25732887 AGGATCAACTCACCTCTCACAATATGAGTTGATTTTTG
128 AGGATCAACTCACCTCTCACAATATGAGTTGATTTTTG
*
25732925 AAAAGTATAAATT-AAA-AACAGAAATT-AAAA
1 AAAA-CATAAATTGAAAGAACAGAAATTGAAAA
25732955 GGCTCAACTC
Statistics
Matches: 168, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
163 3 0.02
164 15 0.09
165 7 0.04
166 68 0.40
167 37 0.22
169 36 0.21
170 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (165 bp):
AAAACATAAATTGAAAGAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACATC
TCGCAATATGAGTTAATTTTTAAAAGCAAAAACAGAAATTAAAATTACCTCAGCATGCCCCGAGG
ATCAACTCACCTCTCACAATATGAGTTGATTTTTG
Found at i:25738283 original size:37 final size:37
Alignment explanation
Indices: 25738233--25738311 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25738223 TTATTACGAA
* * *
25738233 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
25738270 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
25738307 GTCTT
1 GTCTT
25738312 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:25738725 original size:57 final size:47
Alignment explanation
Indices: 25738430--25738852 Score: 657
Period size: 47 Copynumber: 8.8 Consensus size: 47
25738420 CCCTTCGGGA
* * * * * *
25738430 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25738477 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25738524 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25738571 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25738618 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25738665 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATATAAGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACAT----C------GGCCATTAGGC
25738722 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25738769 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25738816 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
25738853 AATCCTAAAT
Statistics
Matches: 352, Mismatches: 14, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
47 304 0.86
51 1 0.00
53 1 0.00
57 46 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25738734 original size:151 final size:151
Alignment explanation
Indices: 25738560--25738852 Score: 568
Period size: 151 Copynumber: 1.9 Consensus size: 151
25738550 TTATCACATC
*
25738560 GGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCA
1 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
25738625 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
66 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
25738690 TTCATCACATCGGCCATATAA
131 TTCATCACATCGGCCATATAA
25738711 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
25738776 CATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
66 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
25738841 TTCATCACATCG
131 TTCATCACATCG
25738853 AATCCTAAAT
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 140 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (151 bp):
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
TTCATCACATCGGCCATATAA
Found at i:25738774 original size:198 final size:188
Alignment explanation
Indices: 25738430--25738852 Score: 675
Period size: 198 Copynumber: 2.2 Consensus size: 188
25738420 CCCTTCGGGA
* * * * * *
25738430 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
25738495 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
25738560 GGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
* *
25738618 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
25738683 TTTCACATTCATCACATCGGCCATATAAGGCCATTAGGCCTTATCACATATATACACTTTCACAT
66 TTTCACATTCATCACAT----C------GGCCATTAGGCCTTATCACATATATACACTTTCACAT
25738748 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACATCGGCCATTA
121 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACATCGGCCATTA
25738813 GGC
186 GGC
25738816 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
25738853 AATCCTAAAT
Statistics
Matches: 216, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
188 74 0.34
192 1 0.00
198 141 0.65
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
Found at i:25741815 original size:40 final size:40
Alignment explanation
Indices: 25741740--25742040 Score: 213
Period size: 40 Copynumber: 7.6 Consensus size: 40
25741730 CCAGCATGAT
* * * *
25741740 TGCTCTT-GGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*** *
25741779 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
25741819 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
25741859 TGCTCTTCAGAACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-TCACTAGCACGAA
* * * * * *
25741900 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-TCACTAGCACGAA
** * * *
25741940 TGC-CTTCGG-GTTTAGCCCGGA-ATTAGTAACTCGCACAAA
1 TGCTCTTCGGAACTTAGCCCGGATA-TA-TCACTAGCACGAA
* * *
25741979 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
* *
25742019 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
25742041 CACCATTCGA
Statistics
Matches: 215, Mismatches: 40, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
39 40 0.19
40 157 0.73
41 18 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:25741907 original size:80 final size:78
Alignment explanation
Indices: 25741753--25742039 Score: 249
Period size: 80 Copynumber: 3.6 Consensus size: 78
25741743 TCTTGGGACC
* * * * * *
25741753 TAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA-TCACTAGCACG
1 TAGCCCGGATATATCACTAGCACGAATGCTCTTC-GGGTTTAGCCCGG-TATAGTAACTCGCACA
25741817 AATGCTCTTCGGAACT
64 AATGC-CTTCGGAACT
* * ***
25741833 TAGCCCGGATACATCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGTTATAGTAACTCGCACA
1 TAGCCCGGATATATCACTAGCACGAATGCTCTTC-GGGTTTAGCCCGG-TATAGTAACTCGCACA
*
25741898 AATGCCTTCGGGACT
64 AATGCCTTCGGAACT
* * * * * *
25741913 TAACCCGGATTTAGTAACTCGCACCAATGC-CTTCGGGTTTAGCCCGGAATTAGTAACTCGCACA
1 TAGCCCGGATATA-TCACTAGCACGAATGCTCTTCGGGTTTAGCCCGGTA-TAGTAACTCGCACA
*
25741977 AATGCCTTCGGATCT
64 AATGCCTTCGGAACT
* * * *
25741992 TAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGG
1 TAGCCCGGATAT-ATCAC-TAGCACGAATGCTCTTCGGG-TTTAGCCCGG
25742040 ACACCATTCG
Statistics
Matches: 166, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
78 1 0.01
79 60 0.36
80 80 0.48
81 25 0.15
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
TAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGTTTAGCCCGGTATAGTAACTCGCACAAA
TGCCTTCGGAACT
Found at i:25742024 original size:79 final size:80
Alignment explanation
Indices: 25741812--25742040 Score: 207
Period size: 79 Copynumber: 2.9 Consensus size: 80
25741802 TATATCACTA
* * * * * ** * * *
25741812 GCACGAATGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGCTCTTCAGAACTTAG
1 GCACAAATGC-CTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGC-CTTCGGGACTTAG
*
25741876 CCCGG-TTATAGTAACTC
64 CCCGGAAT-TAGTAACTC
* * * *
25741893 GCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-TTTAGCC
1 GCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCC
25741957 CGGAATTAGTAACTC
66 CGGAATTAGTAACTC
** * *
25741972 GCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAG
1 GCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAG
25742035 CCCGGA
64 CCCGGA
25742041 CACCATTCGA
Statistics
Matches: 122, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
78 3 0.02
79 59 0.48
80 39 0.32
81 21 0.17
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCC
CGGAATTAGTAACTC
Found at i:25743945 original size:37 final size:37
Alignment explanation
Indices: 25743895--25743973 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25743885 TTATTACGAA
* * *
25743895 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
25743932 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
25743969 GTCTT
1 GTCTT
25743974 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:25744170 original size:47 final size:47
Alignment explanation
Indices: 25744092--25744464 Score: 545
Period size: 47 Copynumber: 7.8 Consensus size: 47
25744082 CCCTTCGGGA
* * * * * *
25744092 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25744139 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25744186 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25744233 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25744280 CTTATCACATATATACACTTTCACATTCATCACATATAACGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCAC--AT--CGGCCATTAGGC
25744331 CTTATTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 C---TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25744381 CTATATCACATATATACACTTTCACATTTCATATACAT--G-CATTAGGC
1 CT-TATCACATATATACACTTTCACA-TTCAT-CACATCGGCCATTAGGC
25744428 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
25744465 AATCCTAAAT
Statistics
Matches: 300, Mismatches: 14, Indels: 25
0.88 0.04 0.07
Matches are distributed among these distances:
44 4 0.01
45 5 0.02
46 23 0.08
47 173 0.58
48 24 0.08
49 7 0.02
50 17 0.06
51 13 0.04
52 2 0.01
54 32 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25744424 original size:148 final size:142
Alignment explanation
Indices: 25744092--25744462 Score: 534
Period size: 148 Copynumber: 2.6 Consensus size: 142
25744082 CCCTTCGGGA
* ** * * * * * *
25744092 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTTATCAC-ATCGCCATTAGGCCTTATCACATATATACAC
25744157 TTTCACATTCATCAC--ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 TTTCACATTCATCACATATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
25744220 TCGGCCATTAGGC
130 TCGGCCATTAGGC
25744233 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTTATCACATC-GCCATTAGGCCTTATCACATATATACAC
25744298 TTTCACATTCATCACATATAACGGCCATTAGGCCTTATTATCACATATATACACTTTCACATTCA
65 TTTCACATTCATCACATAT--CGGCCATTAGGCC---TTATCACATATATACACTTTCACATTCA
25744363 TCACATCGGCCATTAGGC
125 TCACATCGGCCATTAGGC
*
25744381 CTATATCACATATATACACTTTCACATTTCATATACAT-G-CATTAGGCCTTATCACATATATAC
1 CT-TATCACATATATACACTTTCACATTT-AT-CACATCGCCATTAGGCCTTATCACATATATAC
25744444 ACTTTCACATTCATCACAT
63 ACTTTCACATTCATCACAT
25744463 CGAATCCTAA
Statistics
Matches: 209, Mismatches: 10, Indels: 15
0.89 0.04 0.06
Matches are distributed among these distances:
140 1 0.00
141 69 0.33
143 2 0.01
145 13 0.06
148 91 0.44
149 27 0.13
150 2 0.01
151 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTTATCACATCGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:25755467 original size:22 final size:22
Alignment explanation
Indices: 25755442--25755485 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
25755432 ACACTTGATC
25755442 TTGCTACAACCTTTTGTTTCTT
1 TTGCTACAACCTTTTGTTTCTT
25755464 TTGCTACAACCTTTTGTTTCTT
1 TTGCTACAACCTTTTGTTTCTT
25755486 ACTTCGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.09, T:0.55
Consensus pattern (22 bp):
TTGCTACAACCTTTTGTTTCTT
Found at i:25756284 original size:28 final size:29
Alignment explanation
Indices: 25756239--25756293 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
25756229 CAAAAAGTAT
*
25756239 TTTATGTATATATTTATT-ATTTAAATGG
1 TTTATGTATATATTTATTGATTAAAATGG
*
25756267 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATGTATATATT-TATTGATTAAAAT
25756294 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATGTATATATTTATTGATTAAAATGG
Found at i:25756667 original size:28 final size:28
Alignment explanation
Indices: 25756636--25756708 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
25756626 GAGTTGTGGT
*
25756636 TTAAAGTTTAGGGATTAGTGGGTAAAGG
1 TTAAAGGTTAGGGATTAGTGGGTAAAGG
* *
25756664 TTAAGGGTTATGGATTAGTGGGTAAAGG
1 TTAAAGGTTAGGGATTAGTGGGTAAAGG
* *
25756692 TTAAGGGTTATGGATTA
1 TTAAAGGTTAGGGATTA
25756709 CGGGTTTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.34
Consensus pattern (28 bp):
TTAAAGGTTAGGGATTAGTGGGTAAAGG
Found at i:25756719 original size:28 final size:27
Alignment explanation
Indices: 25756660--25756777 Score: 101
Period size: 29 Copynumber: 4.1 Consensus size: 27
25756650 TTAGTGGGTA
* *
25756660 AAGGTTAAGGGTTATGGATTAGTGGGTA
1 AAGGTTAAGGGTTATGGATTAG-GGCTT
*
25756688 AAGGTTAAGGGTTATGGATTACGGGTTT
1 AAGGTTAAGGGTTATGGATTA-GGGCTT
* *
25756716 AAGGATTAAGGGTCATGAATTATGGGCTT
1 AAGG-TTAAGGGTTATGGATTA-GGGCTT
* * * *
25756745 AATGGTTAAAGGGATAGGGGTTAGGGGTT
1 AA-GGTT-AAGGGTTATGGATTAGGGCTT
25756774 AAGG
1 AAGG
25756778 GGTTTAATTA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
28 30 0.41
29 32 0.43
30 12 0.16
ACGTcount: A:0.29, C:0.03, G:0.38, T:0.31
Consensus pattern (27 bp):
AAGGTTAAGGGTTATGGATTAGGGCTT
Found at i:25756737 original size:29 final size:28
Alignment explanation
Indices: 25756660--25756753 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 28
25756650 TTAGTGGGTA
* * * *
25756660 AAGGTTAAGGGTTATGGATTA-GTGGGTA
1 AAGGTTAAGGGTCATGAATTACG-GGCTT
* * *
25756688 AAGGTTAAGGGTTATGGATTACGGGTTT
1 AAGGTTAAGGGTCATGAATTACGGGCTT
*
25756716 AAGGATTAAGGGTCATGAATTATGGGCTT
1 AAGG-TTAAGGGTCATGAATTACGGGCTT
25756745 AATGGTTAA
1 AA-GGTTAA
25756754 AGGGATAGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 28 0.49
29 27 0.47
30 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.34, T:0.33
Consensus pattern (28 bp):
AAGGTTAAGGGTCATGAATTACGGGCTT
Found at i:25756823 original size:7 final size:7
Alignment explanation
Indices: 25756813--25756939 Score: 53
Period size: 7 Copynumber: 17.6 Consensus size: 7
25756803 TGGGAAAGGA
25756813 GTTTATG
1 GTTTATG
25756820 GTTTATG
1 GTTTATG
*
25756827 AGTTAATG
1 -GTTTATG
* *
25756835 TTTTAAG
1 GTTTATG
25756842 GTTTA-G
1 GTTTATG
25756848 AGATTT-TG
1 -G-TTTATG
25756856 GTTTATG
1 GTTTATG
*
25756863 GTTTAAG
1 GTTTATG
* **
25756870 GGTTGGG
1 GTTTATG
*
25756877 GTTTAAG
1 GTTTATG
*
25756884 GTTTAGG
1 GTTTATG
*
25756891 GGTTAGTG
1 GTTTA-TG
* *
25756899 GATTAGG
1 GTTTATG
25756906 GTTTATG
1 GTTTATG
25756913 GTTTCATG
1 GTTT-ATG
*
25756921 ATTTA-G
1 GTTTATG
25756927 GTATTTATG
1 G--TTTATG
25756936 GTTT
1 GTTT
25756940 TGGGTTTAAA
Statistics
Matches: 89, Mismatches: 21, Indels: 20
0.68 0.16 0.15
Matches are distributed among these distances:
6 5 0.06
7 57 0.64
8 25 0.28
9 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (7 bp):
GTTTATG
Found at i:25756865 original size:21 final size:22
Alignment explanation
Indices: 25756813--25756867 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
25756803 TGGGAAAGGA
25756813 GTTTATGGTTTATGAGTTAATG
1 GTTTATGGTTTATGAGTTAATG
* * *
25756835 TTTTAAGGTTTA-GAGATT-TTG
1 GTTTATGGTTTATGAG-TTAATG
25756856 GTTTATGGTTTA
1 GTTTATGGTTTA
25756868 AGGGTTGGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (22 bp):
GTTTATGGTTTATGAGTTAATG
Found at i:25756879 original size:21 final size:21
Alignment explanation
Indices: 25756855--25756894 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25756845 TAGAGATTTT
*
25756855 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGTTTAAGGGTTGG
*
25756876 GGTTTAAGGTTTAGGGGTT
1 GGTTTAAGGTTTAAGGGTT
25756895 AGTGGATTAG
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:0.15, C:0.00, G:0.42, T:0.42
Consensus pattern (21 bp):
GGTTTAAGGTTTAAGGGTTGG
Found at i:25757248 original size:26 final size:27
Alignment explanation
Indices: 25757175--25757249 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 27
25757165 AATAATTTAA
*
25757175 AATTTTAAAGATTTCAAA-TTTAGAAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
25757201 AAATTTCAAGATTTCAAATTTTA-AAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
* *
25757227 AATTTTCAATATTTTAAATTTTA
1 AATTTTCAAGATTTCAAATTTTA
25757250 TCTAATTCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 39 0.91
27 4 0.09
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (27 bp):
AATTTTCAAGATTTCAAATTTTAGAAT
Found at i:25757395 original size:18 final size:17
Alignment explanation
Indices: 25757364--25757398 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
25757354 AGTTGATTGT
*
25757364 TTTTTTAATTTATATTA
1 TTTTTAAATTTATATTA
25757381 TTTTTAAATTATATATTA
1 TTTTTAAATT-TATATTA
25757399 AATAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAATTTATATTA
Found at i:25757938 original size:14 final size:14
Alignment explanation
Indices: 25757904--25757942 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
25757894 ACCATAAGTG
25757904 TTTTTCCCCTAAAA
1 TTTTTCCCCTAAAA
*
25757918 -CTTTCCCCTAAAA
1 TTTTTCCCCTAAAA
25757931 TTTTTCCCCTAA
1 TTTTTCCCCTAA
25757943 CCCTAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTTTCCCCTAAAA
Found at i:25760325 original size:23 final size:23
Alignment explanation
Indices: 25760295--25760344 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
25760285 AACATTAATC
*
25760295 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATAAATTGCAGCCCTTT
25760318 AAATGTATAAATTGCAGCCCTTT
1 AAATGTATAAATTGCAGCCCTTT
25760341 AAAT
1 AAAT
25760345 AAACTTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (23 bp):
AAATGTATAAATTGCAGCCCTTT
Found at i:25761050 original size:241 final size:241
Alignment explanation
Indices: 25760477--25761446 Score: 1814
Period size: 241 Copynumber: 4.0 Consensus size: 241
25760467 ATGAATTAAT
* *
25760477 TTTATTACCATGCAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
25760542 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
25760607 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGACACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
25760672 AAAAAGACTTAAAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTT-GAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
25760719 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
25760784 ATTTTAAATATTTTAAAGGTTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
25760849 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
25760914 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
25760960 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
25761025 ATTTTAAATATTTTAAAGATTCAAAGTATGTAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
25761090 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAATGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
25761155 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
*
25761201 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAACTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* * * *
25761266 ATTTTAAATATTTTAAAGATTCAGAGTATATAGGCTGGAAAACTGACGGGTTTCCTTATATCGAA
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
25761331 CTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
25761396 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
25761442 TTTAT
1 TTTAT
25761447 ATAACCTTAA
Statistics
Matches: 712, Mismatches: 16, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
241 511 0.72
242 201 0.28
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:25761907 original size:9 final size:9
Alignment explanation
Indices: 25761884--25762011 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
25761874 ATTGATCATT
*
25761884 ACTTAAATA
1 ACTTACATA
*
25761893 AATTACATA
1 ACTTACATA
25761902 ACTTACATA
1 ACTTACATA
* *
25761911 ACTCATATA
1 ACTTACATA
25761920 ACTTACATA
1 ACTTACATA
*
25761929 ATTTACATAACA
1 ACTTACAT---A
25761941 ACTTACATA
1 ACTTACATA
*
25761950 ACTCACATA
1 ACTTACATA
25761959 ACTTACATA
1 ACTTACATA
*
25761968 ATTTACATA
1 ACTTACATA
*
25761977 ACTCACATA
1 ACTTACATA
*
25761986 ACGTACATAACA
1 ACTTACAT---A
25761998 ACTTACATA
1 ACTTACATA
25762007 ACTTA
1 ACTTA
25762012 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:25761953 original size:39 final size:39
Alignment explanation
Indices: 25761901--25761978 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
25761891 TAAATTACAT
*
25761901 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
25761940 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
25761979 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:25761978 original size:57 final size:57
Alignment explanation
Indices: 25761897--25762009 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
25761887 TAAATAAATT
* * **
25761897 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
25761954 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
25762010 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:25762111 original size:15 final size:16
Alignment explanation
Indices: 25762074--25762111 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
25762064 GTTCAAATTT
25762074 CATAACTTACATAATCTA
1 CATAACTTACATAA--TA
25762092 CATAACTTACATAA-A
1 CATAACTTACATAATA
25762107 CATAA
1 CATAA
25762112 ATATATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
18 14 0.70
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:25768984 original size:14 final size:14
Alignment explanation
Indices: 25768965--25768991 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25768955 ATCCTAATTA
25768965 GATATCTTGGTTCT
1 GATATCTTGGTTCT
25768979 GATATCTTGGTTC
1 GATATCTTGGTTC
25768992 CATTTTAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (14 bp):
GATATCTTGGTTCT
Found at i:25773744 original size:16 final size:18
Alignment explanation
Indices: 25773697--25773744 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
25773687 AATTTAAAAT
25773697 TTTTATATATTTTTTAGA
1 TTTTATATATTTTTTAGA
* *
25773715 TTTTATTTACTTTTTA-A
1 TTTTATATATTTTTTAGA
25773732 -TTTATATATTTTT
1 TTTTATATATTTTT
25773745 ATAAAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 11 0.42
17 1 0.04
18 14 0.54
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTATATATTTTTTAGA
Found at i:25777311 original size:22 final size:23
Alignment explanation
Indices: 25777286--25777334 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
25777276 ATCCTCTGAG
*
25777286 GAAGGGATAATATGTA-CTT-TGA
1 GAAGGGAAAAT-TGTACCTTATGA
25777308 GAAGGGAAAATTGTACCTTATGA
1 GAAGGGAAAATTGTACCTTATGA
25777331 GAAG
1 GAAG
25777335 ATGATGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 13 0.54
23 7 0.29
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.27
Consensus pattern (23 bp):
GAAGGGAAAATTGTACCTTATGA
Found at i:25789052 original size:48 final size:49
Alignment explanation
Indices: 25788999--25789094 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
25788989 ATTAAACTCT
* * *
25788999 CTCATAACTTATCTCTCA-AGGATGAAATTCATTCAAATAAATTTGACA
1 CTCATAACTAATCTATCAGAGGATGAAATTCAATCAAATAAATTTGACA
* * * *
25789047 CTCATAACTAATCTATTAGGGGTTGTAATTCAATCAAATAAATTTGAC
1 CTCATAACTAATCTATCAGAGGATGAAATTCAATCAAATAAATTTGAC
25789095 TCTCTCAGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
48 15 0.38
49 25 0.62
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (49 bp):
CTCATAACTAATCTATCAGAGGATGAAATTCAATCAAATAAATTTGACA
Found at i:25801944 original size:16 final size:16
Alignment explanation
Indices: 25801923--25801993 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
25801913 GTTTGGTTCA
*
25801923 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
25801939 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
25801955 CTGTAATGAAATAGGG
1 CTGTAATGGAATAGAG
* *
25801971 TTGTAATGGACTAGAG
1 CTGTAATGGAATAGAG
25801987 CTGTAAT
1 CTGTAAT
25801994 AAGTAATTCA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:25801968 original size:32 final size:32
Alignment explanation
Indices: 25801923--25801993 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
25801913 GTTTGGTTCA
* *
25801923 CTGTAATGGAATAGGGCTGTAATTGAATAGAG
1 CTGTAATGAAATAGGGCTGTAATGGAATAGAG
* *
25801955 CTGTAATGAAATAGGGTTGTAATGGACTAGAG
1 CTGTAATGAAATAGGGCTGTAATGGAATAGAG
25801987 CTGTAAT
1 CTGTAAT
25801994 AAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.30
Consensus pattern (32 bp):
CTGTAATGAAATAGGGCTGTAATGGAATAGAG
Found at i:25802037 original size:46 final size:44
Alignment explanation
Indices: 25801975--25802068 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
25801965 ATAGGGTTGT
* *
25801975 AATGGACTAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAATGG
***
25802021 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGG
25802065 AATG
1 AATG
25802069 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 23 0.53
45 3 0.07
46 17 0.40
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGG
Found at i:25805533 original size:40 final size:40
Alignment explanation
Indices: 25805496--25805681 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
25805486 GCTACTCGTT
* * *
25805496 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
25805536 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25805576 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
25805616 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
25805657 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
25805682 CATCATTCAA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25805600 original size:80 final size:78
Alignment explanation
Indices: 25805463--25805681 Score: 262
Period size: 80 Copynumber: 2.7 Consensus size: 78
25805453 AAATCACGTA
* ** *
25805463 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGAACTTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAG
*
25805527 TAACTCGTACAAATG
64 TAACTCGCACAAATG
* *
25805542 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGAACTTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAG
25805607 TAACTCGCACAAATG
64 TAACTCGCACAAATG
* * * *
25805622 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
25805682 CATCATTCAA
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
79 14 0.12
80 97 0.80
81 10 0.08
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (78 bp):
CCTTCGGAACTTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATG
Found at i:25813593 original size:40 final size:40
Alignment explanation
Indices: 25813556--25813741 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
25813546 GCTACTCGTT
* *
25813556 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
25813596 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25813636 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
25813676 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
25813717 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
25813742 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25817310 original size:5 final size:5
Alignment explanation
Indices: 25817300--25817335 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
25817290 ATTTACCTCC
*
25817300 TTATA TTATA TTATA TTATG TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
25817336 GTTTTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:25818978 original size:4 final size:4
Alignment explanation
Indices: 25818969--25818993 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
25818959 CCCAAGCTAC
25818969 ACAA ACAA ACAA ACAA ACAA ACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA A
25818994 AAGTTGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:25822962 original size:11 final size:12
Alignment explanation
Indices: 25822937--25822966 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
25822927 AAAATGAAGC
25822937 CATTTCTAGCTT
1 CATTTCTAGCTT
25822949 CATTTCTA-CTT
1 CATTTCTAGCTT
25822960 CATTTCT
1 CATTTCT
25822967 TACCCAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.17, C:0.27, G:0.03, T:0.53
Consensus pattern (12 bp):
CATTTCTAGCTT
Found at i:25825667 original size:11 final size:12
Alignment explanation
Indices: 25825642--25825671 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
25825632 AAAATGAAGC
25825642 CATTTCTAGCTT
1 CATTTCTAGCTT
25825654 CATTTCTA-CTT
1 CATTTCTAGCTT
25825665 CATTTCT
1 CATTTCT
25825672 TACCCAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.17, C:0.27, G:0.03, T:0.53
Consensus pattern (12 bp):
CATTTCTAGCTT
Found at i:25830388 original size:40 final size:40
Alignment explanation
Indices: 25830344--25830495 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
25830334 GGATATAGCT
* * *
25830344 ACTCGCTCAAATGCCTTCGGGACATAGCTC-GATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
25830384 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
25830424 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
25830464 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
25830496 TTATCATCCG
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 99 0.96
41 4 0.04
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:25837017 original size:49 final size:48
Alignment explanation
Indices: 25836807--25837028 Score: 284
Period size: 48 Copynumber: 4.6 Consensus size: 48
25836797 ATATCGGTGT
* * * * *
25836807 CGATGTCATGTCCTAGACATGGTCTTACATTAGCACACATATCATCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
25836855 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
** *
25836903 CGAT-CCATGTCCCAGACATCATCTTACACTGGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* * ** * ***
25836950 CGATGCCATGTCCCAGACATGGTCTTACACTTGCTCTTATCTCGGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC-AACGC
25836999 CGATGCCATGTCCCAGACATGGTCTTACAC
1 CGATGCCATGTCCCAGACATGGTCTTACAC
25837029 AGGATCTCAT
Statistics
Matches: 154, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
47 44 0.29
48 78 0.51
49 32 0.21
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
Found at i:25839440 original size:18 final size:20
Alignment explanation
Indices: 25839405--25839444 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
25839395 GGAGATTTGG
25839405 AAATTAATTTTTAGTTTAAA
1 AAATTAATTTTTAGTTTAAA
25839425 AAATT-ATTTTTA-TTTAAA
1 AAATTAATTTTTAGTTTAAA
25839443 AA
1 AA
25839445 TATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 7 0.35
20 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AAATTAATTTTTAGTTTAAA
Found at i:25839464 original size:17 final size:17
Alignment explanation
Indices: 25839440--25839487 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
25839430 ATTTTTATTT
25839440 AAAAATATAAAAA-TAA
1 AAAAATATAAAAAGTAA
25839456 AAAAGATATTAAAAAGTTAA
1 AAAA-ATA-TAAAAAG-TAA
25839476 AAAAAT-TAAAAA
1 AAAAATATAAAAA
25839488 AATTGAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
18 6 0.21
19 2 0.07
20 7 0.25
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (17 bp):
AAAAATATAAAAAGTAA
Found at i:25839570 original size:16 final size:17
Alignment explanation
Indices: 25839549--25839584 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
25839539 CTTTAAAACT
25839549 TTTATAATATTTT-TTA
1 TTTATAATATTTTATTA
*
25839565 TTTATAATTTTTTATTA
1 TTTATAATATTTTATTA
25839582 TTT
1 TTT
25839585 TCAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATAATATTTTATTA
Found at i:25839632 original size:21 final size:21
Alignment explanation
Indices: 25839607--25839646 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25839597 ATATACTTTT
*
25839607 AAATTTATTTACTTTTTAAAA
1 AAATTAATTTACTTTTTAAAA
*
25839628 AAATTAATTTATTTTTTAA
1 AAATTAATTTACTTTTTAA
25839647 TTTAAAAAAA
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:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATTAATTTACTTTTTAAAA
Found at i:25849972 original size:21 final size:21
Alignment explanation
Indices: 25849943--25849987 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
25849933 CAAATCCGAC
* *
25849943 CACCACCACCAGCACCAGCAA
1 CACCACCACAAGCACCAACAA
*
25849964 CACCGCCACAAGCACCAACAA
1 CACCACCACAAGCACCAACAA
25849985 CAC
1 CAC
25849988 AGTCGCCACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.51, G:0.09, T:0.00
Consensus pattern (21 bp):
CACCACCACAAGCACCAACAA
Found at i:25854984 original size:58 final size:58
Alignment explanation
Indices: 25854913--25855090 Score: 157
Period size: 58 Copynumber: 3.3 Consensus size: 58
25854903 TTAATTTGTG
25854913 AATGCAACTCATTTCTCTAACTTCATCATTTTTATTCATTTATGTTGATTTGGTTCTA
1 AATGCAACTCATTTCTCTAACTTCATCATTTTTATTCATTTATGTTGATTTGGTTCTA
* * * **** ** *
25854971 AATGCAATTCATTTCTAT-AC-TCAATGA-GAAAACGCA-TTA-----ATTT-G---TG
1 AATGCAACTCATTTCTCTAACTTC-ATCATTTTTATTCATTTATGTTGATTTGGTTCTA
25855017 AATGCAACTCATTTCTCTAACTTCATCATTTTTATTCATTTATGTTGATTTGGTTCTA
1 AATGCAACTCATTTCTCTAACTTCATCATTTTTATTCATTTATGTTGATTTGGTTCTA
*
25855075 AATGCAATTCATTTCT
1 AATGCAACTCATTTCT
25855091 AGTTTCAACC
Statistics
Matches: 85, Mismatches: 21, Indels: 28
0.63 0.16 0.21
Matches are distributed among these distances:
46 17 0.20
47 5 0.06
48 5 0.06
49 4 0.05
50 4 0.05
54 4 0.05
55 4 0.05
56 5 0.06
57 5 0.06
58 32 0.38
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.46
Consensus pattern (58 bp):
AATGCAACTCATTTCTCTAACTTCATCATTTTTATTCATTTATGTTGATTTGGTTCTA
Found at i:25855056 original size:104 final size:104
Alignment explanation
Indices: 25854876--25855091 Score: 414
Period size: 104 Copynumber: 2.1 Consensus size: 104
25854866 AGTCTCAAGC
*
25854876 CATTTCTATACTTAATGAGAAAACACATTAATTTGTGAATGCAACTCATTTCTCTAACTTCATCA
1 CATTTCTATACTCAATGAGAAAACACATTAATTTGTGAATGCAACTCATTTCTCTAACTTCATCA
25854941 TTTTTATTCATTTATGTTGATTTGGTTCTAAATGCAATT
66 TTTTTATTCATTTATGTTGATTTGGTTCTAAATGCAATT
*
25854980 CATTTCTATACTCAATGAGAAAACGCATTAATTTGTGAATGCAACTCATTTCTCTAACTTCATCA
1 CATTTCTATACTCAATGAGAAAACACATTAATTTGTGAATGCAACTCATTTCTCTAACTTCATCA
25855045 TTTTTATTCATTTATGTTGATTTGGTTCTAAATGCAATT
66 TTTTTATTCATTTATGTTGATTTGGTTCTAAATGCAATT
25855084 CATTTCTA
1 CATTTCTA
25855092 GTTTCAACCA
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 110 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (104 bp):
CATTTCTATACTCAATGAGAAAACACATTAATTTGTGAATGCAACTCATTTCTCTAACTTCATCA
TTTTTATTCATTTATGTTGATTTGGTTCTAAATGCAATT
Found at i:25860970 original size:17 final size:18
Alignment explanation
Indices: 25860948--25860981 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
25860938 AATACTTCTC
25860948 AAAAGTGC-TTTTGGGAA
1 AAAAGTGCTTTTTGGGAA
25860965 AAAAGTGCTTTTTGGGA
1 AAAAGTGCTTTTTGGGA
25860982 GAAGCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (18 bp):
AAAAGTGCTTTTTGGGAA
Found at i:25861105 original size:18 final size:17
Alignment explanation
Indices: 25861077--25861117 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
25861067 CTTGTTTAGG
*
25861077 AATGC-TTTTGTCTCAA
1 AATGCTTTTTGTCGCAA
25861093 AAGTGCTTTTTGTCGCAA
1 AA-TGCTTTTTGTCGCAA
25861111 AATGCTT
1 AATGCTT
25861118 CTTAGAAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 8 0.36
18 12 0.55
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (17 bp):
AATGCTTTTTGTCGCAA
Found at i:25861408 original size:16 final size:16
Alignment explanation
Indices: 25861383--25861418 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25861373 ATAACCAATT
*
25861383 TTCATATCATTATTAA
1 TTCATATCATTATCAA
*
25861399 TTCATTTCATTATCAA
1 TTCATATCATTATCAA
25861415 TTCA
1 TTCA
25861419 CATATAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (16 bp):
TTCATATCATTATCAA
Found at i:25865202 original size:72 final size:72
Alignment explanation
Indices: 25865085--25865246 Score: 254
Period size: 72 Copynumber: 2.2 Consensus size: 72
25865075 TAACTTTACC
* * *
25865085 CTTCTCCCTCTTTTTCGTTCTCATGTCTGAAACATCTTCTTTTTTTCATTCTTCTTCCCATTTCC
1 CTTCTCCATCTTTTTCATTCTCACGTCTGAAACATCTTCTTTTTTTCATTCTTCTTCCCATTTCC
25865150 TTCCAAA
66 TTCCAAA
*
25865157 CTTCTCTATCTTTTTCATTCTCACGTCT-AAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
1 CTTCTCCATCTTTTTCATTCTCACGTCTGAAA-CATCTTCTTTTTTTCATTCTTCTTCCCATTTC
*
25865221 CTTCCAAC
65 CTTCCAAA
*
25865229 CTTCTCCCTCTTTTTCAT
1 CTTCTCCATCTTTTTCAT
25865247 GCTTCTATAC
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
71 3 0.04
72 79 0.96
ACGTcount: A:0.14, C:0.33, G:0.03, T:0.51
Consensus pattern (72 bp):
CTTCTCCATCTTTTTCATTCTCACGTCTGAAACATCTTCTTTTTTTCATTCTTCTTCCCATTTCC
TTCCAAA
Found at i:25868396 original size:43 final size:43
Alignment explanation
Indices: 25868335--25868419 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
25868325 TCAGGAATTG
* *
25868335 GTTGGGTATCAAGTTGGAAAAGACATCAAATTGGTTGCCTTAA
1 GTTGGATATCAAGTTGGAAAAGACATCAAATTGGTTACCTTAA
* *
25868378 GTTGGATATTAAGTTGGAAAAGGCATCAAATTGGTTACCTTA
1 GTTGGATATCAAGTTGGAAAAGACATCAAATTGGTTACCTTA
25868420 TGTATTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (43 bp):
GTTGGATATCAAGTTGGAAAAGACATCAAATTGGTTACCTTAA
Found at i:25877578 original size:46 final size:46
Alignment explanation
Indices: 25877528--25877700 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
25877518 TGGTTGAGCA
*
25877528 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
25877574 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
25877621 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
25877667 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
25877701 GGGCGGGTTA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 62 0.59
47 29 0.28
48 3 0.03
50 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:25877684 original size:93 final size:93
Alignment explanation
Indices: 25877525--25877695 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
25877515 GGATGGTTGA
* * *
25877525 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
25877590 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
25877618 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
25877683 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
25877696 ACTTAGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:25885200 original size:46 final size:45
Alignment explanation
Indices: 25885035--25885201 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
25885025 GGTTGAGCAT
25885035 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGC
* * * * * * *
25885078 -TGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCGAAGC
25885121 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GC
*
25885169 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
25885202 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
41 3 0.03
42 30 0.30
46 62 0.62
47 3 0.03
48 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGC
Found at i:25891544 original size:21 final size:21
Alignment explanation
Indices: 25891499--25891545 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
25891489 GGGACTAAAT
*
25891499 TGAAAACTTTAGAAAAATTTG
1 TGAAAACTTTAGAAAAATTTA
*
25891520 TGAAAAC-TTAGAAAACTTTCA
1 TGAAAACTTTAGAAAAATTT-A
25891541 TGAAA
1 TGAAA
25891546 TAGGGTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.30
Consensus pattern (21 bp):
TGAAAACTTTAGAAAAATTTA
Found at i:25892958 original size:48 final size:48
Alignment explanation
Indices: 25892902--25893122 Score: 238
Period size: 48 Copynumber: 4.7 Consensus size: 48
25892892 CACATGGTAG
* ** *
25892902 GATGCCAATGCCATATCCTGGAGATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
** *
25892950 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
25892998 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
25893046 GATGCCGAT---A-G-CCTAG-CTATGGTCTTATATGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* * *
25893089 GATGCCAAAGCCATGTCCCAGGCATAGTCTTACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACA
25893123 CAGGATCGTA
Statistics
Matches: 143, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
42 1 0.01
43 31 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 106 0.74
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:25894587 original size:19 final size:19
Alignment explanation
Indices: 25894565--25894603 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25894555 GCAATTTAAT
25894565 TTAATTCTA-TTTTTATTTA
1 TTAATT-TACTTTTTATTTA
*
25894584 TTAATTTACTTTTTCTTTA
1 TTAATTTACTTTTTATTTA
25894603 T
1 T
25894604 CTTGGCAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (19 bp):
TTAATTTACTTTTTATTTA
Found at i:25902042 original size:14 final size:13
Alignment explanation
Indices: 25902022--25902053 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
25902012 AATATTTAAC
25902022 TTGTTCTTAATTA
1 TTGTTCTTAATTA
25902035 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
25902049 TTGTT
1 TTGTT
25902054 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:25908060 original size:40 final size:38
Alignment explanation
Indices: 25907933--25908068 Score: 132
Period size: 38 Copynumber: 3.5 Consensus size: 38
25907923 AAAGACCTGC
* * **
25907933 AGGCTATA-TGCTGGAATTATATCCAGGTTAAATCCCAC
1 AGGCT-TAGTGCTGGTATTATATCGAGGTTAAATCCCGT
* *
25907971 AGGCTTCGTGCTGGTAATATATCCG-GGTTAAATCCCGT
1 AGGCTTAGTGCTGGTATTATAT-CGAGGTTAAATCCCGT
* *
25908009 AGGCCTAGTGCTGGTATTATATCTGAGTTTAAAGTCCCGT
1 AGGCTTAGTGCTGGTATTATATC-GAGGTTAAA-TCCCGT
* *
25908049 AGGCTTTGTGCTGGTGTTAT
1 AGGCTTAGTGCTGGTATTAT
25908069 GTTTGGGTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
37 2 0.03
38 48 0.60
39 7 0.09
40 23 0.29
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (38 bp):
AGGCTTAGTGCTGGTATTATATCGAGGTTAAATCCCGT
Found at i:25915857 original size:12 final size:13
Alignment explanation
Indices: 25915826--25915861 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
25915816 GTCTTAAAAT
25915826 AAAATAAAAGTAA
1 AAAATAAAAGTAA
*
25915839 AACATAAAA-TAA
1 AAAATAAAAGTAA
25915851 AAAATAAAAGT
1 AAAATAAAAGT
25915862 TTTTAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (13 bp):
AAAATAAAAGTAA
Found at i:25917820 original size:50 final size:50
Alignment explanation
Indices: 25917717--25917948 Score: 371
Period size: 50 Copynumber: 4.7 Consensus size: 50
25917707 CTGGTACGCA
*
25917717 TAGTAG-CTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAATTATCCGATACACG
* * *
25917765 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAATTATCCGATACACG
*
25917815 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAATTATCCGATACACG
* * *
25917864 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAATTATCCGATACACG
25917914 TAGTAGCCTGCACTTAGTACTACACATGCGACCTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTA
25917949 GCTACATATA
Statistics
Matches: 167, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
48 6 0.04
49 69 0.41
50 92 0.55
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAATTATCCGATACACG
Found at i:25917835 original size:99 final size:99
Alignment explanation
Indices: 25917717--25917946 Score: 453
Period size: 99 Copynumber: 2.3 Consensus size: 99
25917707 CTGGTACGCA
25917717 TAGTAG-CTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
25917781 GTACTACACACGTGACCTAATTATCTGATACACG
66 GTACTACACACGTGACCTAATTATCTGATACACG
25917815 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
25917880 GTACTACACACGTGACCTAATTATCTGATACACG
66 GTACTACACACGTGACCTAATTATCTGATACACG
25917914 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
25917947 TAGCTACATA
Statistics
Matches: 131, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 6 0.05
99 125 0.95
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
GTACTACACACGTGACCTAATTATCTGATACACG
Found at i:25918780 original size:30 final size:30
Alignment explanation
Indices: 25918746--25918806 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25918736 TCCTTAACTC
*
25918746 AAACTTTTACAAAATTACAATTTTTCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
* * * *
25918776 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
25918806 A
1 A
25918807 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:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTACAAAATTACAATTTTGCCCCT
Found at i:25925473 original size:30 final size:30
Alignment explanation
Indices: 25925437--25925496 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
25925427 TTCTCGAGCC
*
25925437 TAGGGGCAAAAGTGTAA-TTATGCAAAAGTT
1 TAGGGGCAAAAATGTAACTT-TGCAAAAGTT
25925467 TAGGGGCAAAAATGTAACTTTGCAAAAGTT
1 TAGGGGCAAAAATGTAACTTTGCAAAAGTT
25925497 CATATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAACTTTGCAAAAGTT
Found at i:25931727 original size:29 final size:28
Alignment explanation
Indices: 25931673--25931728 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
25931663 TTGGGTTTTT
25931673 GGACACGGGTGTGTCTAGGCCGTGTGAG
1 GGACACGGGTGTGTCTAGGCCGTGTGAG
*
25931701 GGACACGGGCATGTG-CTTGGCCGTGTGA
1 GGACACGGG--TGTGTCTAGGCCGTGTGA
25931729 AAACCCCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 12 0.48
30 4 0.16
ACGTcount: A:0.14, C:0.20, G:0.45, T:0.21
Consensus pattern (28 bp):
GGACACGGGTGTGTCTAGGCCGTGTGAG
Found at i:25933484 original size:48 final size:48
Alignment explanation
Indices: 25933328--25933480 Score: 151
Period size: 48 Copynumber: 3.3 Consensus size: 48
25933318 CCCGGATATA
*
25933328 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCTAGACATG
*
25933376 GCCTTACATGGGATCACAT-T-GA-G---ATGCCGATAG-CCTAG-CTATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCC-AT-GTCCTAGAC-ATG
* ** * * *
25933419 GTCTTACACGAAATTACATATCGATGCCAAAGCCATGTCCTGGACATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCTAGACATG
25933467 GTCTTACATGGGAT
1 GTCTTACATGGGAT
25933481 TACACATAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
42 6 0.07
43 23 0.28
44 2 0.02
45 3 0.04
46 3 0.04
47 2 0.02
48 38 0.46
49 5 0.06
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCTAGACATG
Found at i:25945430 original size:13 final size:13
Alignment explanation
Indices: 25945412--25945442 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
25945402 CTTTATTTCA
25945412 CATTTCTACTACT
1 CATTTCTACTACT
25945425 CATTTCTACTACT
1 CATTTCTACTACT
25945438 CATTT
1 CATTT
25945443 TAAAAATCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (13 bp):
CATTTCTACTACT
Found at i:25946779 original size:52 final size:52
Alignment explanation
Indices: 25946717--25946822 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
25946707 TGTCCAATAC
25946717 AAAGGTGTTTGGCACTTACGTCCGTATAATGCCTCATAAGGCACCATTTTCA
1 AAAGGTGTTTGGCACTTACGTCCGTATAATGCCTCATAAGGCACCATTTTCA
25946769 AAAGGTGTTTGGCACTTACGTCCGTATAATGCCTCATAAGGCACCATTTTCA
1 AAAGGTGTTTGGCACTTACGTCCGTATAATGCCTCATAAGGCACCATTTTCA
25946821 AA
1 AA
25946823 GTCGACTGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (52 bp):
AAAGGTGTTTGGCACTTACGTCCGTATAATGCCTCATAAGGCACCATTTTCA
Found at i:25952339 original size:21 final size:21
Alignment explanation
Indices: 25952313--25952354 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25952303 TAAACAATGA
25952313 CAAAAAATATCAATACCTTTT
1 CAAAAAATATCAATACCTTTT
* *
25952334 CAAAAAGTATCAATATCTTTT
1 CAAAAAATATCAATACCTTTT
25952355 ACTAGGTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (21 bp):
CAAAAAATATCAATACCTTTT
Found at i:25953448 original size:19 final size:21
Alignment explanation
Indices: 25953410--25953449 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
25953400 TCGAATTTCT
25953410 AATTTATTCAATAATTCAACTC
1 AATTTATTCAAT-ATTCAACTC
25953432 AATTTA-TCAAT-TTCAACT
1 AATTTATTCAATATTCAACT
25953450 TTCTTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTATTCAATATTCAACTC
Found at i:25955456 original size:13 final size:13
Alignment explanation
Indices: 25955438--25955462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25955428 ACGAGGCTCT
25955438 TTCGTTCCTTTGC
1 TTCGTTCCTTTGC
25955451 TTCGTTCCTTTG
1 TTCGTTCCTTTG
25955463 TTGATGGCTC
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:0.00, C:0.28, G:0.16, T:0.56
Consensus pattern (13 bp):
TTCGTTCCTTTGC
Found at i:25957900 original size:28 final size:28
Alignment explanation
Indices: 25957853--25957973 Score: 224
Period size: 28 Copynumber: 4.3 Consensus size: 28
25957843 AAATCAACCC
* *
25957853 TAGGGGTATAAAGGTGATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25957881 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25957909 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25957937 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25957965 TAGGGGTAT
1 TAGGGGTAT
25957974 TCTAGTACAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 91 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:25958236 original size:8 final size:8
Alignment explanation
Indices: 25958220--25958251 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
25958210 CCCAAAATAC
25958220 CGGCTTTT
1 CGGCTTTT
*
25958228 CGGCATTT
1 CGGCTTTT
25958236 CGGCTTTT
1 CGGCTTTT
25958244 CGGCTTTT
1 CGGCTTTT
25958252 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:25961617 original size:48 final size:48
Alignment explanation
Indices: 25961540--25961778 Score: 236
Period size: 48 Copynumber: 5.0 Consensus size: 48
25961530 GGTTATGTGT
* * * *
25961540 GAGCCAGTGTAAGACAATGTTTGGAACATGGCATCAGCATTGTTACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGA
* * **
25961588 AAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAATATAC--
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGT-TACGA
* * * *
25961636 TAGCCAGTGTAAGACCATGT-TTGGACCATGGCATCGGCATTGTTATGT
1 GAGCCAGTGTAAGACCATGTCTGGGA-CATGGCATCGGCATTGTTACGA
* * * *
25961684 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACCAATG-TATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGTTACGA
*
25961734 GAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATT-TTAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTAC
25961779 CCTTTTTGTA
Statistics
Matches: 156, Mismatches: 25, Indels: 21
0.77 0.12 0.10
Matches are distributed among these distances:
46 2 0.01
47 10 0.06
48 94 0.60
49 5 0.03
50 41 0.26
51 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGA
Found at i:25961705 original size:96 final size:96
Alignment explanation
Indices: 25961540--25961778 Score: 322
Period size: 96 Copynumber: 2.5 Consensus size: 96
25961530 GGTTATGTGT
* *
25961540 GAGCCAGTGTAAGACAATGTTTGGAACATGGCATCAGCATTGTTACGAAAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGG-ACATGGCATCGGCATTGTTACGAAAGCTAGTGTAAGACCA
* *
25961605 TGTCTGGGACATGGCATCGGCATCAA-TAT-A
65 TGTCTGGGACATGGCATCGACACCAAGTATGA
* * **
25961635 CTAGCCAGTGTAAGACCATGTTTGGACCATGGCATCGGCATTGTTATGTGAGCTAGTGTAAGACC
1 -GAGCCAGTGTAAGACCATGTTTGGA-CATGGCATCGGCATTGTTACGAAAGCTAGTGTAAGACC
25961700 ATGTCTGGGACATGGCATCGACACCAATGTATGA
64 ATGTCTGGGACATGGCATCGACACCAA-GTATGA
**
25961734 GAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATT-TTAC
1 GAGCCAGTGTAAGACCATGT-TTGGACATGGCATCGGCATTGTTAC
25961779 CCTTTTTGTA
Statistics
Matches: 126, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
95 1 0.01
96 81 0.64
97 3 0.02
98 37 0.29
99 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTTGGACATGGCATCGGCATTGTTACGAAAGCTAGTGTAAGACCAT
GTCTGGGACATGGCATCGACACCAAGTATGA
Found at i:25964946 original size:46 final size:47
Alignment explanation
Indices: 25964795--25964972 Score: 227
Period size: 47 Copynumber: 3.8 Consensus size: 47
25964785 GGAAATTGAG
* * *
25964795 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCATGA-GAATTATGAAGC
1 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCATTATGGA-TGTGAAGC
* *
25964842 ATCCGAACTCGTTGAGTTGCATTCTGAGTTCACTTATGGATG-CAAGC
1 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCA-TTATGGATGTGAAGC
**
25964889 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGTGAA-C
1 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCATTATGGATGTGAAGC
* * *
25964935 ACCCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCATTATGG
25964973 GTGAAATTAT
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
46 45 0.39
47 66 0.57
48 3 0.03
49 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGCATTCCGAGTTCATTATGGATGTGAAGC
Found at i:25966658 original size:13 final size:13
Alignment explanation
Indices: 25966640--25966670 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
25966630 TGTAAAAGTT
25966640 GTAAAAATGAGTA
1 GTAAAAATGAGTA
25966653 GTAAAAATGAGTA
1 GTAAAAATGAGTA
25966666 GTAAA
1 GTAAA
25966671 GATCTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
GTAAAAATGAGTA
Found at i:25970812 original size:20 final size:20
Alignment explanation
Indices: 25970787--25970828 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
25970777 TCGAGACCAA
25970787 TTTGAAACAATTTAGAAAGT
1 TTTGAAACAATTTAGAAAGT
25970807 TTTGAAACAATTTAGAAAGT
1 TTTGAAACAATTTAGAAAGT
25970827 TT
1 TT
25970829 AGGAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (20 bp):
TTTGAAACAATTTAGAAAGT
Found at i:25974239 original size:35 final size:35
Alignment explanation
Indices: 25974200--25974271 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
25974190 AAGCATATGA
25974200 ACTTTTTTAATCAAGCATTCATTATGGCATACATC
1 ACTTTTTTAATCAAGCATTCATTATGGCATACATC
25974235 ACTTTTTTAATCAAGCATTCATTATGGCATACATC
1 ACTTTTTTAATCAAGCATTCATTATGGCATACATC
25974270 AC
1 AC
25974272 ATGGTCATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (35 bp):
ACTTTTTTAATCAAGCATTCATTATGGCATACATC
Found at i:25976413 original size:14 final size:14
Alignment explanation
Indices: 25976391--25976476 Score: 82
Period size: 14 Copynumber: 6.1 Consensus size: 14
25976381 TACGGACTCT
25976391 TACATGTGGATTCA
1 TACATGTGGATTCA
*
25976405 TAGATGTGGATTCA
1 TACATGTGGATTCA
* *
25976419 TACATGCGAATTCA
1 TACATGTGGATTCA
* *
25976433 TACATGTGAATCCA
1 TACATGTGGATTCA
* * * *
25976447 TATAGGCGAATTCA
1 TACATGTGGATTCA
*
25976461 TACATGTGAATTCA
1 TACATGTGGATTCA
25976475 TA
1 TA
25976477 AATGCAGATT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 59 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33
Consensus pattern (14 bp):
TACATGTGGATTCA
Found at i:25976431 original size:28 final size:28
Alignment explanation
Indices: 25976391--25976481 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
25976381 TACGGACTCT
* * * *
25976391 TACATGTGGATTCATAGATGTGGATTCA
1 TACATGCGAATTCATACATGTGAATTCA
*
25976419 TACATGCGAATTCATACATGTGAATCCA
1 TACATGCGAATTCATACATGTGAATTCA
* *
25976447 TATAGGCGAATTCATACATGTGAATTCA
1 TACATGCGAATTCATACATGTGAATTCA
*
25976475 TAAATGC
1 TACATGC
25976482 AGATTGTACT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (28 bp):
TACATGCGAATTCATACATGTGAATTCA
Found at i:25979095 original size:28 final size:28
Alignment explanation
Indices: 25979060--25979215 Score: 124
Period size: 28 Copynumber: 5.6 Consensus size: 28
25979050 TTGCGGACTG
25979060 TTGCTTG-AAGAATAGTTCATGTGAACTC
1 TTGCTTGAAAG-ATAGTTCATGTGAACTC
* * * *
25979088 TTGTTTGAAAGATTGTACATG-CAGACTC
1 TTGCTTGAAAGATAGTTCATGTGA-ACTC
* *
25979116 TTGTTTGAAAGATAG-TCTATG-CAGACTC
1 TTGCTTGAAAGATAGTTC-ATGTGA-ACTC
*
25979144 TTGCTTGAAAGATAG-TCAATGTGGACTC
1 TTGCTTGAAAGATAGTTC-ATGTGAACTC
* * *
25979172 TTGCTTGAGAGATAGTTTATGTGGACTC
1 TTGCTTGAAAGATAGTTCATGTGAACTC
* *
25979200 TTACTTGAAAGGTAGT
1 TTGCTTGAAAGATAGT
25979216 CCTTGTAGAG
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.02
28 102 0.94
29 4 0.04
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.36
Consensus pattern (28 bp):
TTGCTTGAAAGATAGTTCATGTGAACTC
Found at i:25979152 original size:56 final size:56
Alignment explanation
Indices: 25979084--25979216 Score: 151
Period size: 56 Copynumber: 2.4 Consensus size: 56
25979074 GTTCATGTGA
* * *
25979084 ACTCTTGTTTGAAAGATTGT-ACATGCAGACTCTTGTTTGAAAGATAGTCTATGCAG
1 ACTCTTGCTTGAAAGATAGTCA-ATGCAGACTCTTGCTTGAAAGATAGTCTATGCAG
** * * **
25979140 ACTCTTGCTTGAAAGATAGTCAATGTGGACTCTTGCTTGAGAGATAGTTTATGTGG
1 ACTCTTGCTTGAAAGATAGTCAATGCAGACTCTTGCTTGAAAGATAGTCTATGCAG
* *
25979196 ACTCTTACTTGAAAGGTAGTC
1 ACTCTTGCTTGAAAGATAGTC
25979217 CTTGTAGAGT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 64 0.98
57 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.35
Consensus pattern (56 bp):
ACTCTTGCTTGAAAGATAGTCAATGCAGACTCTTGCTTGAAAGATAGTCTATGCAG
Found at i:25993764 original size:43 final size:41
Alignment explanation
Indices: 25993650--25993756 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 41
25993640 GTAATTCAAT
*
25993650 ATCGATGCCTCTGTCCCAGACAAGGTCTTATACAAAATCAG
1 ATCGATGCCTATGTCCCAGACAAGGTCTTATACAAAATCAG
* * * *
25993691 ATACGATGCCGATGTCCCACACATGGTCTTATACGTAAATCTCA-
1 AT-CGATGCCTATGTCCCAGACAAGGTCTTATAC--AAA-ATCAG
*
25993735 ATCGAGGCCTATGTCCCAGACA
1 ATCGATGCCTATGTCCCAGACA
25993757 CGATCTTACA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.04
42 27 0.50
43 17 0.31
44 5 0.09
45 3 0.06
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
ATCGATGCCTATGTCCCAGACAAGGTCTTATACAAAATCAG
Found at i:25995537 original size:15 final size:14
Alignment explanation
Indices: 25995499--25995545 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
25995489 TTAAAACGAA
*
25995499 TTTTATAATTTAA-A
1 TTTTAT-ATTTAATT
*
25995513 TTTAATATTTATATT
1 TTTTATATTTA-ATT
25995528 TTTTATATTTAATT
1 TTTTATATTTAATT
25995542 TTTT
1 TTTT
25995546 TAACACTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 5 0.18
14 13 0.46
15 10 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTATATTTAATT
Found at i:25995546 original size:15 final size:15
Alignment explanation
Indices: 25995517--25995577 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
25995507 TTTAAATTTA
25995517 ATATTT-ATATTTTTT
1 ATATTTAAT-TTTTTT
25995532 ATATTTAATTTTTTT
1 ATATTTAATTTTTTT
* * *
25995547 AACACTAAATTTTTTT
1 -ATATTTAATTTTTTT
*
25995563 AGTATTTGATTTTTT
1 A-TATTTAATTTTTT
25995578 CAGTTTATCA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
15 13 0.36
16 23 0.64
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (15 bp):
ATATTTAATTTTTTT
Found at i:25995950 original size:13 final size:13
Alignment explanation
Indices: 25995906--25995957 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
25995896 CTAGAAGAAG
25995906 AAAAAGGAGAAAA
1 AAAAAGGAGAAAA
*
25995919 AAGAAGAGAGAAAA
1 AAAAAG-GAGAAAA
*
25995933 TAAAAGGA-AAAA
1 AAAAAGGAGAAAA
25995945 GAAAAAGG-GAAAA
1 -AAAAAGGAGAAAA
25995958 TTGTTAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 4 0.12
13 17 0.53
14 11 0.34
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (13 bp):
AAAAAGGAGAAAA
Found at i:25998853 original size:22 final size:21
Alignment explanation
Indices: 25998827--25998871 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
25998817 GGTTGACTGT
25998827 TTGGATCGTGAATAGGTTGTGG
1 TTGGATCGTGAATAGGTTG-GG
*
25998849 TTGGATCGTGGATAGGTTGGG
1 TTGGATCGTGAATAGGTTGGG
25998870 TT
1 TT
25998872 ATCGGTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.16, C:0.04, G:0.42, T:0.38
Consensus pattern (21 bp):
TTGGATCGTGAATAGGTTGGG
Found at i:25999299 original size:21 final size:21
Alignment explanation
Indices: 25999253--25999300 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
25999243 AGCTTCAGAA
* *
25999253 AAGAAAAAGGGTGGAGGTTTG
1 AAGAGAAAGGATGGAGGTTTG
*
25999274 AAGAGAAAGGATGGTGGTTTG
1 AAGAGAAAGGATGGAGGTTTG
25999295 AAGAGA
1 AAGAGA
25999301 CCATCCAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.19
Consensus pattern (21 bp):
AAGAGAAAGGATGGAGGTTTG
Found at i:26001185 original size:14 final size:13
Alignment explanation
Indices: 26001147--26001185 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
26001137 CTCGTGGTTA
26001147 TATATATATATAT
1 TATATATATATAT
26001160 TA-ATATATATAT
1 TATATATATATAT
*
26001172 TATAGATATCATAT
1 TATATATAT-ATAT
26001186 CTTATTGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 12 0.52
13 7 0.30
14 4 0.17
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (13 bp):
TATATATATATAT
Found at i:26001687 original size:19 final size:19
Alignment explanation
Indices: 26001665--26001702 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
26001655 ATTTTTATAC
*
26001665 TTTTTAAAAATATTTAATT
1 TTTTTAAAAATAATTAATT
*
26001684 TTTTTAAAATTAATTAATT
1 TTTTTAAAAATAATTAATT
26001703 GTTGGCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTAAAAATAATTAATT
Found at i:26003710 original size:19 final size:21
Alignment explanation
Indices: 26003686--26003726 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26003676 TTTACTAAAA
26003686 AGAA-TTT-AAAAGAGTAATT
1 AGAATTTTCAAAAGAGTAATT
*
26003705 AGAATTTTCAAAAGAGTGATT
1 AGAATTTTCAAAAGAGTAATT
26003726 A
1 A
26003727 TGTGTGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.49, C:0.02, G:0.17, T:0.32
Consensus pattern (21 bp):
AGAATTTTCAAAAGAGTAATT
Found at i:26004689 original size:7 final size:7
Alignment explanation
Indices: 26004677--26004706 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
26004667 AATTATTGGA
26004677 TTTCTTT
1 TTTCTTT
26004684 TTTCTTT
1 TTTCTTT
26004691 TTTCTTT
1 TTTCTTT
26004698 TTT-TTT
1 TTTCTTT
26004704 TTT
1 TTT
26004707 ATAAATACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTCTTT
Found at i:26008816 original size:21 final size:21
Alignment explanation
Indices: 26008779--26008818 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26008769 ACAGGTTTTT
**
26008779 AATAATTTTTATGATTTTTAA
1 AATAATTTTTAAAATTTTTAA
26008800 AATAATTTTTAAAATTTTT
1 AATAATTTTTAAAATTTTT
26008819 TTAAATTAAA
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:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
AATAATTTTTAAAATTTTTAA
Found at i:26009394 original size:25 final size:26
Alignment explanation
Indices: 26009365--26009433 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
26009355 AGTACGTGGC
26009365 AATTTTAATAAAAATATATAGAA-TTT
1 AATTTTAATAAAAATATATA-AACTTT
* * *
26009391 -ATTTTATTAAACATATGTAAACTTT
1 AATTTTAATAAAAATATATAAACTTT
26009416 AAATTTT-ATAAAAATATA
1 -AATTTTAATAAAAATATA
26009434 AATATAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
24 2 0.06
25 19 0.56
26 8 0.24
27 5 0.15
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (26 bp):
AATTTTAATAAAAATATATAAACTTT
Found at i:26016363 original size:146 final size:146
Alignment explanation
Indices: 26016099--26016389 Score: 564
Period size: 146 Copynumber: 2.0 Consensus size: 146
26016089 CATAATATAT
26016099 GCTTATCGGATACCATTTAACTGCACTACAAGTGCCACAATAGTGATAATTGAGCTATCATATAT
1 GCTTATCGGATACCATTTAACTGCACTACAAGTGCCACAATAGTGATAATTGAGCTATCATATAT
26016164 TAAACCTTATATATGTGCATTAAAATTAGTAAATCACATGTCACATTAATGTATTTTCACATATT
66 TAAACCTTATATATGTGCATTAAAATTAGTAAATCACATGTCACATTAATGTATTTTCACATATT
26016229 ACTTGTTGTATTAGCC
131 ACTTGTTGTATTAGCC
*
26016245 GCTTATCGGATACCATTTAACTGCACTATAAGTGCCACAATAGTGATAATTGAGCTATCATATAT
1 GCTTATCGGATACCATTTAACTGCACTACAAGTGCCACAATAGTGATAATTGAGCTATCATATAT
*
26016310 TAAACCTTATATATGTGCGTTAAAATTAGTAAATCACATGTCACATTAATGTATTTTCACATATT
66 TAAACCTTATATATGTGCATTAAAATTAGTAAATCACATGTCACATTAATGTATTTTCACATATT
26016375 ACTTGTTGTATTAGC
131 ACTTGTTGTATTAGC
26016390 ATCATATATA
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 143 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (146 bp):
GCTTATCGGATACCATTTAACTGCACTACAAGTGCCACAATAGTGATAATTGAGCTATCATATAT
TAAACCTTATATATGTGCATTAAAATTAGTAAATCACATGTCACATTAATGTATTTTCACATATT
ACTTGTTGTATTAGCC
Found at i:26021686 original size:15 final size:17
Alignment explanation
Indices: 26021654--26021686 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26021644 ATTTATATTT
26021654 TAAAAATATTATAAAAA
1 TAAAAATATTATAAAAA
26021671 TAAAAAT-TTA-AAAAA
1 TAAAAATATTATAAAAA
26021686 T
1 T
26021687 TCTAAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAAATATTATAAAAA
Found at i:26021840 original size:74 final size:75
Alignment explanation
Indices: 26021705--26021858 Score: 265
Period size: 74 Copynumber: 2.1 Consensus size: 75
26021695 ATATATAGAA
26021705 AAAGTTAACAAAAAATTCAAAAAGAATAATTTTAGGACTTAAATAAGTAACTTAACGATTCAAAT
1 AAAGTTAACAAAAAATTCAAAAAGAATAATTTTAGGACTTAAATAAGTAACTTAACGATTCAAAT
*
26021770 TTATTATATT
66 TTATTATACT
* * *
26021780 AAAGTTAATAAAAAATTCAAAAAGAATAA-TTTGGGACTTAAATAAGTAACTTAACTATTCAAAT
1 AAAGTTAACAAAAAATTCAAAAAGAATAATTTTAGGACTTAAATAAGTAACTTAACGATTCAAAT
26021844 TTATTATACT
66 TTATTATACT
26021854 AAAGT
1 AAAGT
26021859 ATTTTTTTCT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
74 47 0.63
75 28 0.37
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (75 bp):
AAAGTTAACAAAAAATTCAAAAAGAATAATTTTAGGACTTAAATAAGTAACTTAACGATTCAAAT
TTATTATACT
Found at i:26025202 original size:24 final size:24
Alignment explanation
Indices: 26025175--26025267 Score: 91
Period size: 24 Copynumber: 3.9 Consensus size: 24
26025165 GGTTATATAA
26025175 CGGGAAGCTCAT-AAGAGCCATAAT
1 CGGGAAGCTCATAAAGAGCCAT-AT
** **
26025199 CGGGAATTTCATAAAGAATCATAT
1 CGGGAAGCTCATAAAGAGCCATAT
*
26025223 CGGGAAGCTCATGAAGAGCC-TAT
1 CGGGAAGCTCATAAAGAGCCATAT
** *
26025246 CAAGAAGCTCACAAAGAGCCAT
1 CGGGAAGCTCATAAAGAGCCAT
26025268 GTAATAAGAA
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 19 0.35
24 28 0.52
25 7 0.13
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (24 bp):
CGGGAAGCTCATAAAGAGCCATAT
Found at i:26034787 original size:14 final size:15
Alignment explanation
Indices: 26034761--26034789 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26034751 CAGTTTTTGG
26034761 AATTATACGATTTAT
1 AATTATACGATTTAT
26034776 AATTAT-CGATTTAT
1 AATTATACGATTTAT
26034790 GGTTTTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
AATTATACGATTTAT
Found at i:26043046 original size:32 final size:32
Alignment explanation
Indices: 26042979--26043059 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
26042969 TGTGTGGCCT
* * *
26042979 ACACGGCCTAAAATGGCTCACCCGTATGGCTC
1 ACACGACCTAAAATGGCTCACCCGTATAGCCC
* * *
26043011 ACACGACCTAAAATGGCTTATCCGTCTAGCCC
1 ACACGACCTAAAATGGCTCACCCGTATAGCCC
* *
26043043 ACACAACCCAAAATGGC
1 ACACGACCTAAAATGGC
26043060 CTAGACCTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.31, C:0.35, G:0.17, T:0.17
Consensus pattern (32 bp):
ACACGACCTAAAATGGCTCACCCGTATAGCCC
Found at i:26045107 original size:17 final size:16
Alignment explanation
Indices: 26045085--26045127 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
26045075 ACTATTAAGA
*
26045085 TAAATAATAAATTTAAT
1 TAAATAATAAATCT-AT
*
26045102 TAAATATTAAATCTAT
1 TAAATAATAAATCTAT
26045118 TAAAATAATA
1 T-AAATAATA
26045128 TTATTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAATAATAAATCTAT
Found at i:26051981 original size:21 final size:20
Alignment explanation
Indices: 26051947--26051987 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
26051937 GTTAAGATTT
26051947 ATTTTAATAAAATAT-TTAA
1 ATTTTAATAAAATATATTAA
26051966 ATTTTATATAAAAATATATTAA
1 ATTTTA-AT-AAAATATATTAA
26051988 TAACATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 2 0.11
21 7 0.37
22 4 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTAATAAAATATATTAA
Found at i:26052644 original size:21 final size:20
Alignment explanation
Indices: 26052620--26052658 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26052610 AAAGTTTTGA
*
26052620 ATTTGTATATGTCATTATAAC
1 ATTTGTAT-TGTAATTATAAC
*
26052641 ATTTTTATTGTAATTATA
1 ATTTGTATTGTAATTATA
26052659 TCTATTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (20 bp):
ATTTGTATTGTAATTATAAC
Found at i:26053242 original size:49 final size:48
Alignment explanation
Indices: 26053138--26053242 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 48
26053128 AAACTTGAAC
* * * *
26053138 CTATGACCACATAACCACTGTCAACTAGGGGCTCGAGTTATACTTTAA
1 CTATGACCACATAAACACCGTCAACTAGGGGCCCGAGTTATACTTAAA
*
26053186 CTCATGACCACATAAACACCGTCAACT-GGGGTCCCTAGTTATACTTCAAA
1 CT-ATGACCACATAAACACCGTCAACTAGGGG-CCCGAGTTATACTT-AAA
26053236 CTATGAC
1 CTATGAC
26053243 TATATAACTG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
48 6 0.12
49 39 0.80
50 4 0.08
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (48 bp):
CTATGACCACATAAACACCGTCAACTAGGGGCCCGAGTTATACTTAAA
Found at i:26053874 original size:23 final size:22
Alignment explanation
Indices: 26053844--26053888 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
26053834 GCCACATTAT
* *
26053844 CTTAGTTTTTTCTTTAGTTTTTC
1 CTTAGTTTTCT-TTTAGGTTTTC
26053867 CTTAGTTTTCTTTTAGGTTTTC
1 CTTAGTTTTCTTTTAGGTTTTC
26053889 TAATCCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.09, C:0.13, G:0.11, T:0.67
Consensus pattern (22 bp):
CTTAGTTTTCTTTTAGGTTTTC
Found at i:26057317 original size:44 final size:41
Alignment explanation
Indices: 26057240--26057367 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 41
26057230 TTCCGGTACG
* ** *
26057240 TGATTTCATGTAAGACCATGTCTGGGATGTTGGCATCGATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
* *
26057281 TGATAATTGCGTGTAAAACCATATCTGGGACATTGGCATCGTATA
1 TGAT--TT-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATA
* *
26057326 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATA
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
26057367 T
1 T
26057368 TTTATTACAT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
41 8 0.11
42 28 0.38
43 4 0.05
44 27 0.37
45 6 0.08
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
Found at i:26057350 original size:42 final size:42
Alignment explanation
Indices: 26057240--26057404 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 42
26057230 TTCCGGTACG
**
26057240 TGATTTCATGTAAGACCATGTCTGGGATGTTGGCATCG-ATT
1 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * * *
26057281 TGATAATTGCGTGTAAAACCATATCTGGGACATTGGCATCGTATA
1 TGAT--TT-CATGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * *
26057326 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATCG-TATT
* * * *
26057369 TTATTACATGTAAGACC-TCGTCTGGAACGTTGGCAT
1 TGATTTCATGTAAGACCAT-GTCTGGGACATTGGCAT
26057405 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 4 0.04
42 29 0.29
43 35 0.35
44 27 0.27
45 6 0.06
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:26059496 original size:91 final size:91
Alignment explanation
Indices: 26059341--26059522 Score: 346
Period size: 91 Copynumber: 2.0 Consensus size: 91
26059331 CCTCGTAACC
* *
26059341 TTAATCTGGAAATGGATACTGGTTAGGGGTGTTACAGATGCACAATTGATGGAATAATGCTAGAA
1 TTAATCCGGAAATGGATACTAGTTAGGGGTGTTACAGATGCACAATTGATGGAATAATGCTAGAA
26059406 AATAAGATGTTATTGACAGAGAACAA
66 AATAAGATGTTATTGACAGAGAACAA
26059432 TTAATCCGGAAATGGATACTAGTTAGGGGTGTTACAGATGCACAATTGATGGAATAATGCTAGAA
1 TTAATCCGGAAATGGATACTAGTTAGGGGTGTTACAGATGCACAATTGATGGAATAATGCTAGAA
26059497 AATAAGATGTTATTGACAGAGAACAA
66 AATAAGATGTTATTGACAGAGAACAA
26059523 GAGATTAAGA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (91 bp):
TTAATCCGGAAATGGATACTAGTTAGGGGTGTTACAGATGCACAATTGATGGAATAATGCTAGAA
AATAAGATGTTATTGACAGAGAACAA
Found at i:26060712 original size:26 final size:26
Alignment explanation
Indices: 26060646--26060753 Score: 101
Period size: 26 Copynumber: 4.1 Consensus size: 26
26060636 AAACAGTCAC
* * * * *
26060646 TTTACCCTTTAGGGGTATTTTGGTCAT
1 TTTACCCTATAAGGGTATTTCGAT-AA
* * *
26060673 TTTACACTACAAGGTTATTTCGATAA
1 TTTACCCTATAAGGGTATTTCGATAA
26060699 TTTACCCTATAAGGGTATTTC-AGTAA
1 TTTACCCTATAAGGGTATTTCGA-TAA
* *
26060725 TTTACCCTATAAGGGTATTTTGGTAA
1 TTTACCCTATAAGGGTATTTCGATAA
26060751 TTT
1 TTT
26060754 TACTATTTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.02
26 48 0.73
27 17 0.26
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.44
Consensus pattern (26 bp):
TTTACCCTATAAGGGTATTTCGATAA
Found at i:26060756 original size:53 final size:53
Alignment explanation
Indices: 26060646--26060753 Score: 119
Period size: 52 Copynumber: 2.1 Consensus size: 53
26060636 AAACAGTCAC
* * ** * *
26060646 TTTACCCTTTAGGGGTATTTTGGTCATTTTACACTACAAGGTTATTTCGATAA
1 TTTACCCTATAAGGGTATTTCAGTCAATTTACACTACAAGGGTATTTCGATAA
* * * *
26060699 TTTACCCTATAAGGGTATTTCAGT-AATTTACCCTATAAGGGTATTTTGGTAA
1 TTTACCCTATAAGGGTATTTCAGTCAATTTACACTACAAGGGTATTTCGATAA
26060751 TTT
1 TTT
26060754 TACTATTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
52 25 0.56
53 20 0.44
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.44
Consensus pattern (53 bp):
TTTACCCTATAAGGGTATTTCAGTCAATTTACACTACAAGGGTATTTCGATAA
Found at i:26063115 original size:25 final size:26
Alignment explanation
Indices: 26063085--26063133 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
26063075 TGTCCATAAA
*
26063085 TTGAACCATCCATTACAA-ACAAAAT
1 TTGAACCATCCATTAAAATACAAAAT
26063110 TTGAACCATCCATTAAAATACAAA
1 TTGAACCATCCATTAAAATACAAA
26063134 CATCAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (26 bp):
TTGAACCATCCATTAAAATACAAAAT
Found at i:26064230 original size:34 final size:34
Alignment explanation
Indices: 26064157--26064231 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
26064147 ACCACATAAT
* * * *
26064157 ATACAT-ACATTAAACATGACATCCATAATATAC
1 ATACATAACAGTAAACATAACATACATAACATAC
* *
26064190 AAACATAACAGTAAACATAACATACATAACGTAC
1 ATACATAACAGTAAACATAACATACATAACATAC
26064224 ATACATAA
1 ATACATAA
26064232 TATGCATAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 5 0.15
34 29 0.85
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.23
Consensus pattern (34 bp):
ATACATAACAGTAAACATAACATACATAACATAC
Done.