Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 110 of 276
Found at i:34895945 original size:55 final size:56
Alignment explanation
Indices: 34895880--34895994 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
34895870 AGCATGGCTG
* *
34895880 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
34895936 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
34895991 CCAG
1 CCAG
34895995 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:34895957 original size:27 final size:27
Alignment explanation
Indices: 34895905--34895994 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
34895895 GTGACAGAGT
34895905 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
34895934 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
34895961 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
34895989 CACCAG
1 CACCAG
34895995 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:34896147 original size:28 final size:28
Alignment explanation
Indices: 34896100--34896164 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
34896090 AAATTAACCC
*
34896100 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
34896128 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
34896156 TAGGGGTAT
1 TAGGGGTAT
34896165 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:34903840 original size:28 final size:28
Alignment explanation
Indices: 34903792--34903882 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
34903782 GTGACAGAGT
*
34903792 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
34903821 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
34903849 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
34903877 CACCAG
1 CACCAG
34903883 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:34904035 original size:28 final size:28
Alignment explanation
Indices: 34903988--34904051 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
34903978 AAATTAACCC
*
34903988 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
34904016 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
*
34904044 TAAGGGTA
1 TAGGGGTA
34904052 CCCTAGTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:34905875 original size:37 final size:37
Alignment explanation
Indices: 34905822--34905961 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
34905812 CGAATAGTCC
* *
34905822 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
* *
34905859 CCACACATAGTCATCGGGTCTTACCTGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
34905896 CCACACGTAGTCATTGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
34905933 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
34905962 ATACATTTCC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:34906163 original size:48 final size:48
Alignment explanation
Indices: 34906102--34906622 Score: 880
Period size: 48 Copynumber: 10.9 Consensus size: 48
34906092 ATATACACAC
* *
34906102 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
34906150 ATCTCATATATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34906198 ATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
34906246 ATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34906294 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
34906342 ATCTCATATATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
34906390 ATCTTATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34906438 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
34906486 ATCTCATATATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
34906534 ATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34906582 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
34906623 CACATATATA
Statistics
Matches: 444, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 444 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:34917810 original size:49 final size:49
Alignment explanation
Indices: 34917757--34917963 Score: 323
Period size: 49 Copynumber: 4.2 Consensus size: 49
34917747 TGTGAATGTA
* *
34917757 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTG
*
34917806 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTG
*
34917855 TATATATGTGATAAGGCCTAATGGCCGATATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCGAATGGCC-A-ATGTGATGAATGTGAAAGTGTG
34917904 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT-G
34917954 -A-ATATGTGAT
1 TATATATGTGAT
34917964 TTTGTTGTAA
Statistics
Matches: 147, Mismatches: 6, Indels: 11
0.90 0.04 0.07
Matches are distributed among these distances:
47 17 0.12
48 10 0.07
49 101 0.69
50 2 0.01
51 17 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTG
Found at i:34918299 original size:47 final size:47
Alignment explanation
Indices: 34918247--34919256 Score: 1871
Period size: 47 Copynumber: 21.5 Consensus size: 47
34918237 GATAATTGTG
* * *
34918247 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
* *
34918294 ATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCT-AATGGCCGATGTGATGA
*
34918341 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918388 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918435 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918482 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918529 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918576 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918623 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918670 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918717 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918764 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918811 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918858 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918905 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918952 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34918999 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34919046 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34919093 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
34919140 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
* * * * * *
34919187 ATGTGAAAGTGTATATATGTGA-CAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATGA-GGCCTAATGGCCGATGTGATGA
*
34919234 ATGTGAAAGTGTATAAATGTGAT
1 ATGTGAAAGTGTATATATGTGAT
34919257 AAGTCCCGAA
Statistics
Matches: 947, Mismatches: 12, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
46 3 0.00
47 942 0.99
48 2 0.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
Found at i:34922956 original size:36 final size:36
Alignment explanation
Indices: 34922916--34922993 Score: 149
Period size: 35 Copynumber: 2.2 Consensus size: 36
34922906 TTATATATTA
34922916 TTTATTTTTAAATATTAGTTGTATAAAATAGTTTTT
1 TTTATTTTTAAATATTAGTTGTATAAAATAGTTTTT
34922952 TTTA-TTTTAAATATTAGTTGTATAAAATAGTTTTT
1 TTTATTTTTAAATATTAGTTGTATAAAATAGTTTTT
34922987 TTTATTT
1 TTTATTT
34922994 ACATATTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 35 0.85
36 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (36 bp):
TTTATTTTTAAATATTAGTTGTATAAAATAGTTTTT
Found at i:34923035 original size:12 final size:12
Alignment explanation
Indices: 34923020--34923061 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
34923010 ATTATTTTTA
34923020 TTATTATACATT
1 TTATTATACATT
*
34923032 TTATTTATAAATT
1 TTA-TTATACATT
34923045 TTATTATACATT
1 TTATTATACATT
*
34923057 ATATT
1 TTATT
34923062 GTTTTACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTATACATT
Found at i:34923114 original size:20 final size:23
Alignment explanation
Indices: 34923089--34923136 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
34923079 ATTCCTTGCA
*
34923089 TTTTTT-TAAATTCT-T-TTATT
1 TTTTTTATAAATTATGTATTATT
34923109 TTTTTTATAAATTATGTATTATT
1 TTTTTTATAAATTATGTATTATT
34923132 TTTTT
1 TTTTT
34923137 ATTCATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 7 0.29
22 1 0.04
23 10 0.42
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTTATAAATTATGTATTATT
Found at i:34923246 original size:25 final size:29
Alignment explanation
Indices: 34923227--34923339 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 29
34923217 ATATTTCATT
34923227 ATATTTTATTTATATATATTATTACATATC
1 ATATTTTA-TTATATATATTATTACATATC
** *
34923257 ATATTTTATTATATATTACTCCTTATAATATC
1 ATATTTTATTATATA-TA-TTATTA-CATATC
* * *
34923289 TTCCTTTTATTATATATATTATTTCATTATC
1 AT-ATTTTATTATATATATTATTACA-TATC
34923320 -TATTATTTATTACTATATAT
1 ATA-T-TTTATTA-TATATAT
34923340 AAAAATTAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
29 7 0.11
30 13 0.20
31 18 0.28
32 15 0.23
33 12 0.18
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.58
Consensus pattern (29 bp):
ATATTTTATTATATATATTATTACATATC
Found at i:34923287 original size:27 final size:26
Alignment explanation
Indices: 34923235--34923287 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
34923225 TTATATTTTA
* *
34923235 TTTATATATATTATTACATATCATAT
1 TTTATATATATTACTACATATAATAT
* *
34923261 TTTATTATATATTACTCCTTATAATAT
1 TTTA-TATATATTACTACATATAATAT
34923288 CTTCCTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTATATATATTACTACATATAATAT
Found at i:34926962 original size:14 final size:14
Alignment explanation
Indices: 34926945--34926983 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
34926935 AATTCCTTAC
34926945 CCCCTATTCTCTAT
1 CCCCTATTCTCTAT
34926959 CCCCTATTCTCTAT
1 CCCCTATTCTCTAT
*
34926973 CTCCCTTTTCT
1 C-CCCTATTCT
34926984 TCCTCCTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.10, C:0.44, G:0.00, T:0.46
Consensus pattern (14 bp):
CCCCTATTCTCTAT
Found at i:34927526 original size:49 final size:49
Alignment explanation
Indices: 34927422--34927546 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 49
34927412 TACGGTTTAT
* * *
34927422 CAATGCCATGTCCTAGACAGGTCTCACACTGACTTTCATATATCGAGGC
1 CAATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGC
* * * * *
34927471 CAATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTGTCG-GTGT
1 CAATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GC
* *
34927520 CGATGCCATGTCCCAG-CAAGTCTTACA
1 CAATGCCATGTCCCAGACAGGTCTTACA
34927547 TTGAAACACA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 11 0.17
49 53 0.83
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (49 bp):
CAATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGC
Found at i:34927758 original size:93 final size:92
Alignment explanation
Indices: 34927599--34927778 Score: 238
Period size: 93 Copynumber: 1.9 Consensus size: 92
34927589 CAGTAGCTGA
* * * *
34927599 TATATCTCGAGGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTTGATGC
1 TATATCTCAAGGACGATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-ATCAATGTCGATGC
* *
34927664 ATTTCCTAGACATGTCTTACACGGGCTT
65 ATGTCCCAGACATGTCTTACACGGGCTT
* *
34927692 TATATCTCAAGGACGATGCATGTCCCAGACATGTCTTATACTGGCTCTC-AT-AATGTAGCCGAT
1 TATATCTCAAGGACGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGATCAATGT---CGAT
34927755 GCATGTCCCAGACATGTCTTACAC
63 GCATGTCCCAGACATGTCTTACAC
34927779 TAGCACACAT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
90 5 0.07
91 1 0.01
93 70 0.92
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (92 bp):
TATATCTCAAGGACGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGATCAATGTCGATGCA
TGTCCCAGACATGTCTTACACGGGCTT
Found at i:34928460 original size:20 final size:20
Alignment explanation
Indices: 34928435--34928473 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34928425 AAAATTTCAA
34928435 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
34928455 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
34928474 AATAGCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:34931506 original size:40 final size:40
Alignment explanation
Indices: 34931462--34931541 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
34931452 TTTAAGCATG
34931462 GGTTTTGTAGTACTCGAAGCAACGATCTCAAAAACGTAAA
1 GGTTTTGTAGTACTCGAAGCAACGATCTCAAAAACGTAAA
*
34931502 GGTTTTGTAGTACTCGAAGCAACGATCTTAAAAACGTAAA
1 GGTTTTGTAGTACTCGAAGCAACGATCTCAAAAACGTAAA
34931542 AATTATCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (40 bp):
GGTTTTGTAGTACTCGAAGCAACGATCTCAAAAACGTAAA
Found at i:34943829 original size:43 final size:40
Alignment explanation
Indices: 34943766--34943919 Score: 168
Period size: 43 Copynumber: 3.7 Consensus size: 40
34943756 AGCTCGTACA
* *
34943766 ATGCC-ATATCCCAGATATGGTCTTACATGATATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGA-ATCA-ATAT-G
* *
34943808 ATGCCAATGTCCCATACATGGTCTTACACGAAATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AATCA-AT-ATG
34943851 ATGCCAATGTCCCAGACATGGTCTTACAT-AATCGTAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAATC--AATATG
* *
34943892 ATGCCACTGTTCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
34943920 CATAATCACA
Statistics
Matches: 98, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
41 33 0.34
42 7 0.07
43 55 0.56
44 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (40 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAATCAATATG
Found at i:34943927 original size:84 final size:85
Alignment explanation
Indices: 34943766--34943920 Score: 210
Period size: 84 Copynumber: 1.8 Consensus size: 85
34943756 AGCTCGTACA
* *
34943766 ATGCCATATCCCAGATATGGTCTTACATGATATCACATATCGATGCCAATGTCCCATACATGGTC
1 ATGCCATATCCCAGACATGGTCTTACATGATATCACATATCGATGCCAATGTCCCAGACATGGTC
34943831 TTACACGAAATCATATAATG
66 TTACACGAAATCATATAATG
* * *
34943851 ATGCCAATGTCCCAGACATGGTCTTACAT-A-ATCGTA-ATAT-GATGCCACTGTTCCAGACATG
1 ATGCC-ATATCCCAGACATGGTCTTACATGATATC--ACATATCGATGCCAATGTCCCAGACATG
34943912 GTCTTACAC
63 GTCTTACAC
34943921 ATAATCACAT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
84 30 0.48
85 10 0.16
86 22 0.35
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (85 bp):
ATGCCATATCCCAGACATGGTCTTACATGATATCACATATCGATGCCAATGTCCCAGACATGGTC
TTACACGAAATCATATAATG
Found at i:34946297 original size:13 final size:13
Alignment explanation
Indices: 34946279--34946305 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34946269 GAAGTAATCG
34946279 CACACGGGCGTGT
1 CACACGGGCGTGT
34946292 CACACGGGCGTGT
1 CACACGGGCGTGT
34946305 C
1 C
34946306 CCCGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:34946413 original size:14 final size:14
Alignment explanation
Indices: 34946394--34946420 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34946384 ACCTTAGAAT
34946394 AGGAGAATAGGGGA
1 AGGAGAATAGGGGA
34946408 AGGAGAATAGGGG
1 AGGAGAATAGGGG
34946421 GTAAGGAATT
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:0.41, C:0.00, G:0.52, T:0.07
Consensus pattern (14 bp):
AGGAGAATAGGGGA
Found at i:34948911 original size:40 final size:40
Alignment explanation
Indices: 34948867--34948983 Score: 148
Period size: 40 Copynumber: 3.0 Consensus size: 40
34948857 GCTACTCGTT
* *
34948867 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
34948907 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
34948947 CAAATGCCTTCGGAACTTAA-CCGGAATTAGTATCTCG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCG
34948984 NNNNNNNNNN
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
39 15 0.21
40 53 0.76
41 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:34950085 original size:56 final size:56
Alignment explanation
Indices: 34950018--34950249 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
34950008 TATTAGTTTA
* *
34950018 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
34950074 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
34950130 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
34950186 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
34950242 TTGCCCAT
1 TTGCCCAT
34950250 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:34972146 original size:20 final size:22
Alignment explanation
Indices: 34972113--34972153 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
34972103 ACACCTGCCC
34972113 AATAAAATAATGAGA-GAGAAG
1 AATAAAATAATGAGAGGAGAAG
34972134 AATAAAA-AATGAGAGGAGAA
1 AATAAAATAATGAGAGGAGAA
34972154 TTTGTGTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.12
Consensus pattern (22 bp):
AATAAAATAATGAGAGGAGAAG
Found at i:34974306 original size:41 final size:42
Alignment explanation
Indices: 34974218--34974360 Score: 146
Period size: 41 Copynumber: 3.4 Consensus size: 42
34974208 ACTCAAGAAA
* * * ** * *
34974218 CTCGCACACTTAGCGCCAATTAAATAGCTGAAGCTATATCGAT
1 CTCGCACACTAAGTGCCAA-TATATAGCCAAAGCAATCTCGAT
* * *
34974261 CTCGCACACTAAGTGCCAATATATAGTC-GAGCTATCTC-AGT
1 CTCGCACACTAAGTGCCAATATATAGCCAAAGCAATCTCGA-T
*
34974302 CTCGCACACTAAGTGCAAATATATAGCCAAAGCAATCTCGAT
1 CTCGCACACTAAGTGCCAATATATAGCCAAAGCAATCTCGAT
*
34974344 TTCGCACACTAAGTGCC
1 CTCGCACACTAAGTGCC
34974361 CATAATTAGC
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 1 0.01
41 35 0.42
42 30 0.36
43 18 0.21
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (42 bp):
CTCGCACACTAAGTGCCAATATATAGCCAAAGCAATCTCGAT
Found at i:34986514 original size:42 final size:42
Alignment explanation
Indices: 34986455--34986573 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
34986445 TAGGGTTAGT
34986455 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCAATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCAATA
** * * * *
34986497 TGAGATTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGAATCAATA
** *
34986540 TGAGATCCCATGTAAGACCATATCTGGGATATGG
1 TGAGATTACGTGTAAGACCATATCTGGGATATGG
34986574 CATTGGTACA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCAATA
Found at i:34993190 original size:5 final size:5
Alignment explanation
Indices: 34993180--34993208 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
34993170 ATTTGAGAAA
34993180 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
34993209 AACTTATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:35005292 original size:140 final size:140
Alignment explanation
Indices: 35005040--35005318 Score: 540
Period size: 140 Copynumber: 2.0 Consensus size: 140
35005030 ATGAAGAGCC
* *
35005040 TCAAGTTGAGTTTTGGTTAGCCGAAGTTTATGAAGAGTCTCAGAGGAATTTTCGGTGTCACCCAT
1 TCAAGTTGAGTTTTGGTTAGCCAAAGTTTATGAAGAGTCTCAGAGGAATTTTCGGCGTCACCCAT
35005105 GGGAGTAGGGTTTCTAACAGAGAAAACAGAACAAGAAAAGAGAAGAAAGAGTAGGATCAACTGAA
66 GGGAGTAGGGTTTCTAACAGAGAAAACAGAACAAGAAAAGAGAAGAAAGAGTAGGATCAACTGAA
35005170 TTCCTGATGT
131 TTCCTGATGT
35005180 TCAAGTTGAGTTTTGGTTAGCCAAAGTTTATGAAGAGTCTCAGAGGAATTTTCGGCGTCACCCAT
1 TCAAGTTGAGTTTTGGTTAGCCAAAGTTTATGAAGAGTCTCAGAGGAATTTTCGGCGTCACCCAT
35005245 GGGAGTAGGGTTTCTAACAGAGAAAACAGAACAAGAAAAGAGAAGAAAGAGTAGGATCAACTGAA
66 GGGAGTAGGGTTTCTAACAGAGAAAACAGAACAAGAAAAGAGAAGAAAGAGTAGGATCAACTGAA
35005310 TTCCTGATG
131 TTCCTGATG
35005319 CTCTTGATAC
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.24
Consensus pattern (140 bp):
TCAAGTTGAGTTTTGGTTAGCCAAAGTTTATGAAGAGTCTCAGAGGAATTTTCGGCGTCACCCAT
GGGAGTAGGGTTTCTAACAGAGAAAACAGAACAAGAAAAGAGAAGAAAGAGTAGGATCAACTGAA
TTCCTGATGT
Found at i:35008741 original size:23 final size:23
Alignment explanation
Indices: 35008674--35008743 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
35008664 TTCGTTTAAG
*
35008674 TTAAATGAACTTGTTTGTGAACA
1 TTAAATGAACATGTTTGTGAACA
* *
35008697 TTAAA-CAATCATGTTTGCGAACA
1 TTAAATGAA-CATGTTTGTGAACA
**
35008720 TTAAATGAACATGTTCATGAACA
1 TTAAATGAACATGTTTGTGAACA
35008743 T
1 T
35008744 ATACTTGAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.05
23 34 0.89
24 2 0.05
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (23 bp):
TTAAATGAACATGTTTGTGAACA
Found at i:35008799 original size:11 final size:11
Alignment explanation
Indices: 35008783--35008816 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
35008773 CTGAATAATG
35008783 AACAAACAAAC
1 AACAAACAAAC
35008794 AACAAACAAAC
1 AACAAACAAAC
* *
35008805 AATAAATAAAC
1 AACAAACAAAC
35008816 A
1 A
35008817 TATATCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.74, C:0.21, G:0.00, T:0.06
Consensus pattern (11 bp):
AACAAACAAAC
Found at i:35009554 original size:2 final size:2
Alignment explanation
Indices: 35009547--35009571 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35009537 GGGAGGATCC
35009547 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
35009572 AATGACCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35009891 original size:7 final size:7
Alignment explanation
Indices: 35009881--35009907 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
35009871 TGTTGGCGCT
35009881 TTATTTA
1 TTATTTA
35009888 TTATTTA
1 TTATTTA
35009895 TTATTTA
1 TTATTTA
35009902 TTATTT
1 TTATTT
35009908 TTACCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:35017979 original size:38 final size:38
Alignment explanation
Indices: 35017923--35018100 Score: 230
Period size: 38 Copynumber: 4.6 Consensus size: 38
35017913 ATATTTGATG
*
35017923 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAC
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
** * *
35017961 TATATCCGGGTTTTATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* ** * *
35017999 TATATCTGGGTTTTATCCTGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
35018037 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* *
35018075 TATATTCGAGCTTAAAGTCCCGCAGG
1 TATATCCG-GGTTAAA-TCCCGCAGG
35018101 TTCTATGCTG
Statistics
Matches: 123, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 108 0.88
39 6 0.05
40 9 0.07
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
Found at i:35025699 original size:38 final size:38
Alignment explanation
Indices: 35025648--35025858 Score: 379
Period size: 38 Copynumber: 5.6 Consensus size: 38
35025638 NNNNNNNNNN
*
35025648 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCAC
1 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGC
35025686 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGC
1 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGC
35025724 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGC
1 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGC
35025762 AGGCTTCGTGCTGGTATTATATCCGGG-TTTATCCCGC
1 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGC
**
35025799 AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGC
1 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGC
*
35025837 AGGCTTAGTGCTGGTATTATAT
1 AGGCTTCGTGCTGGTATTATAT
35025859 TCGAGCTTAA
Statistics
Matches: 168, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
37 37 0.22
38 131 0.78
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (38 bp):
AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGC
Found at i:35025835 original size:75 final size:76
Alignment explanation
Indices: 35025648--35025858 Score: 379
Period size: 75 Copynumber: 2.8 Consensus size: 76
35025638 NNNNNNNNNN
*
35025648 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCACAGGCTTCGTGCTGGTATTATATCCGGG
1 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
35025713 TTTTATCCCGC
66 TTTTATCCCGC
35025724 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
1 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
35025789 -TTTATCCCGC
66 TTTTATCCCGC
** *
35025799 AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATAT
1 AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATAT
35025859 TCGAGCTTAA
Statistics
Matches: 131, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 67 0.51
76 64 0.49
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (76 bp):
AGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
TTTTATCCCGC
Found at i:35028066 original size:78 final size:78
Alignment explanation
Indices: 35027933--35028084 Score: 243
Period size: 78 Copynumber: 1.9 Consensus size: 78
35027923 GAGTCACATC
* *
35027933 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
35027998 AATGAATCATAAA
66 AATGAATCATAAA
* *
35028011 TCATGTAAC-GTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCG
1 TCATGTAACTGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
*
35028075 TAGTGAATCA
65 TAATGAATCA
35028085 GGAATAAATC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
77 16 0.24
78 52 0.76
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATAAA
Found at i:35028094 original size:40 final size:40
Alignment explanation
Indices: 35028049--35028186 Score: 195
Period size: 40 Copynumber: 3.5 Consensus size: 40
35028039 CTTTTCAGGT
* * *
35028049 CAAATCCTATCCGCCTTAAGTTACCGTAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * *
35028089 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* **
35028129 CAAATCCTATCCACTTTAAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
35028169 CAAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
35028187 TATTCTCGAG
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
Found at i:35029851 original size:10 final size:10
Alignment explanation
Indices: 35029829--35029861 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
35029819 TTACATATTA
35029829 AATAAATTAAT
1 AATAAA-TAAT
35029840 AATAAATAAT
1 AATAAATAAT
35029850 AATAAATAAT
1 AATAAATAAT
35029860 AA
1 AA
35029862 AATATCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAAATAAT
Found at i:35030674 original size:13 final size:13
Alignment explanation
Indices: 35030656--35030689 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
35030646 CCATGTTCTC
35030656 CACACGGCTGAGA
1 CACACGGCTGAGA
*
35030669 CACACGGCTGATA
1 CACACGGCTGAGA
35030682 CACACGGC
1 CACACGGC
35030690 CGTGTCTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.35, G:0.26, T:0.09
Consensus pattern (13 bp):
CACACGGCTGAGA
Found at i:35031770 original size:49 final size:50
Alignment explanation
Indices: 35031676--35031905 Score: 225
Period size: 49 Copynumber: 4.7 Consensus size: 50
35031666 GGATAAGACA
* * *
35031676 CCGACGCCATGTCCCAGACAGGTTTTACACTGACTTTCATATATCGAG-G
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTG
* * * * *
35031725 CCGATGCCGTGTCCTAGATAGGTCTTACACTGGCTCTCATCTATCG-GTG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTG
* * * * * * *
35031774 TCGATTCCATATCCCAGACAGGTCTTATACTAACTTTTATATATCGAG-G
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTG
* * * *
35031823 CCGATGCCGTGTCCCAGACAGTTCTTACACTGGCTCTCATCTATC-AGTG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTG
* * * *
35031872 TCGATGCCATGTCCCAAATAGGTTTTACACTGAC
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGAC
35031906 ACACAATAAG
Statistics
Matches: 140, Mismatches: 38, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
48 3 0.02
49 136 0.97
50 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTG
Found at i:35031856 original size:98 final size:98
Alignment explanation
Indices: 35031681--35031902 Score: 327
Period size: 98 Copynumber: 2.3 Consensus size: 98
35031671 AGACACCGAC
* * * *
35031681 GCCATGTCCCAGACAGGTTTTACACTGACTTTCATATATCGAGGCCGATGCCGTGTCCTAGATAG
1 GCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCCAGACAG
*
35031746 GTCTTACACTGGCTCTCATCTATCGGTGTCGAT
66 GTCTTACACTGGCTCTCATCTATCAGTGTCGAT
* * * *
35031779 TCCATATCCCAGACAGGTCTTATACTAACTTTTATATATCGAGGCCGATGCCGTGTCCCAGACAG
1 GCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCCAGACAG
*
35031844 TTCTTACACTGGCTCTCATCTATCAGTGTCGAT
66 GTCTTACACTGGCTCTCATCTATCAGTGTCGAT
* * *
35031877 GCCATGTCCCAAATAGGTTTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
35031903 GACACACAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
98 108 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (98 bp):
GCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCCAGACAG
GTCTTACACTGGCTCTCATCTATCAGTGTCGAT
Found at i:35034020 original size:18 final size:18
Alignment explanation
Indices: 35033996--35034037 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
35033986 GCTAAATTTT
*
35033996 ATAATTTAAATAACTCAA
1 ATAATTTAAACAACTCAA
* *
35034014 GTAATTTGAACAACTCAA
1 ATAATTTAAACAACTCAA
35034032 ATAATT
1 ATAATT
35034038 CGAACAACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAATTTAAACAACTCAA
Found at i:35034042 original size:18 final size:18
Alignment explanation
Indices: 35034007--35034045 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
35033997 TAATTTAAAT
* *
35034007 AACTCAAGTAATTTGAAC
1 AACTCAAATAATTCGAAC
35034025 AACTCAAATAATTCGAAC
1 AACTCAAATAATTCGAAC
35034043 AAC
1 AAC
35034046 AAATCGATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.21, G:0.08, T:0.23
Consensus pattern (18 bp):
AACTCAAATAATTCGAAC
Found at i:35034199 original size:18 final size:19
Alignment explanation
Indices: 35034178--35034219 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
35034168 TATATTTTTG
35034178 TAAAAA-ATTATAAAAAAT-
1 TAAAAAGATT-TAAAAAATA
*
35034196 TAAAAAGATTTAAAGAATA
1 TAAAAAGATTTAAAAAATA
35034215 TAAAA
1 TAAAA
35034220 GAAAGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAAAAGATTTAAAAAATA
Found at i:35038912 original size:18 final size:18
Alignment explanation
Indices: 35038867--35038915 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
35038857 AAATATAAAA
35038867 ATAAAA-ATA-AAAATAT
1 ATAAAATATAGAAAATAT
* * *
35038883 ATAATATTTAGAATATAT
1 ATAAAATATAGAAAATAT
35038901 ATAAAATATAGAAAA
1 ATAAAATATAGAAAA
35038916 ACTATTAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 5 0.20
17 2 0.08
18 18 0.72
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (18 bp):
ATAAAATATAGAAAATAT
Found at i:35039305 original size:7 final size:7
Alignment explanation
Indices: 35039284--35039343 Score: 56
Period size: 6 Copynumber: 8.9 Consensus size: 7
35039274 AAAAATGTTT
35039284 TTTAATA
1 TTTAATA
35039291 TTTAAATA
1 TTT-AATA
35039299 TTTAATA
1 TTTAATA
*
35039306 TTATAATT
1 TT-TAATA
*
35039314 TTTTAT-
1 TTTAATA
35039320 TTTAA-A
1 TTTAATA
35039326 TTTAA-A
1 TTTAATA
35039332 TTTAA-A
1 TTTAATA
35039338 TTTAAT
1 TTTAAT
35039344 GTTTTTATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 21 0.46
7 12 0.26
8 13 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTAATA
Found at i:35042303 original size:47 final size:47
Alignment explanation
Indices: 35042225--35042357 Score: 221
Period size: 47 Copynumber: 2.8 Consensus size: 47
35042215 CCGGGATAAG
* * *
35042225 CACATAGTGCTTCATCTGAACAAATCCGGAACTTTAACATTATAATA
1 CACAAAGTACTTCATCAGAACAAATCCGGAACTTTAACATTATAATA
*
35042272 CACAAAGTACTTCATCAGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCAGAACAAATCCGGAACTTTAACATTATAATA
*
35042319 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 CACAAAGTACTTCATCAGAACAAATCCGGAACTTTAACA
35042358 GTAGTCGACA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 81 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.26
Consensus pattern (47 bp):
CACAAAGTACTTCATCAGAACAAATCCGGAACTTTAACATTATAATA
Found at i:35045917 original size:2 final size:2
Alignment explanation
Indices: 35045912--35045953 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
35045902 TTCCATCTAT
35045912 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
35045954 CTGCATTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:35050178 original size:43 final size:43
Alignment explanation
Indices: 35050131--35050238 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
35050121 GATTAACGAG
*
35050131 ATGTGAATATATGTAAGACCATGTCTAGAACATTGGCATCATT
1 ATGTGAATACATGTAAGACCATGTCTAGAACATTGGCATCATT
* * * * *
35050174 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGAATACATGTAAGACCATGTCTAGAACATTGGCATCATT
* * * *
35050217 ATTTGATTTCGTGTAAGACCAT
1 ATGTGAATACATGTAAGACCAT
35050239 AGCTGGGCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (43 bp):
ATGTGAATACATGTAAGACCATGTCTAGAACATTGGCATCATT
Found at i:35050245 original size:43 final size:43
Alignment explanation
Indices: 35050142--35050297 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
35050132 TGTGAATATA
* * *
35050142 TGTAAGACCATGTCTAGAACATTGGCATCATTATGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTACG
* *
35050185 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTACG
* * * *
35050228 TGTAAGACCATAG-CTGGG-CTATCGGCATCGATATGTGATAACA
1 TGTAAGACCAT-GTCTGGGAC-ATTGGCATCGTTATGTGATTACG
* *
35050271 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
35050298 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 6 0.06
43 88 0.93
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTACG
Found at i:35054140 original size:40 final size:39
Alignment explanation
Indices: 35054096--35054200 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
35054086 AGTGACCATA
*
35054096 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
35054136 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
35054174 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
35054201 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35054157 original size:39 final size:40
Alignment explanation
Indices: 35054056--35054219 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
35054046 TTGAATGATG
* *
35054056 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
35054096 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
35054135 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
35054175 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
35054215 TCCGG
1 TCCGG
35054220 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:35054219 original size:79 final size:80
Alignment explanation
Indices: 35054056--35054206 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
35054046 TTGAATGATG
*
35054056 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
35054121 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
35054136 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
35054198 TTGAACGAG
64 TTGAACGAG
35054207 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:35056090 original size:19 final size:19
Alignment explanation
Indices: 35056066--35056103 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
35056056 GTGCTCTTTC
*
35056066 CCTGTTTTATAGATCATCG
1 CCTGTTTTATAGATAATCG
35056085 CCTGTTTTATAGATAATCG
1 CCTGTTTTATAGATAATCG
35056104 AAGCTAGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (19 bp):
CCTGTTTTATAGATAATCG
Found at i:35058765 original size:24 final size:24
Alignment explanation
Indices: 35058720--35058765 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
35058710 CTTATCTCAC
* *
35058720 ATTTTTTTCAAAGGCGATTTGGTT
1 ATTTTTTGCAAAGGCGAGTTGGTT
35058744 ATTTTTTGCAAAGTG-GAGTTGG
1 ATTTTTTGCAAAG-GCGAGTTGG
35058766 AACAAGCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.46
Consensus pattern (24 bp):
ATTTTTTGCAAAGGCGAGTTGGTT
Found at i:35061801 original size:31 final size:31
Alignment explanation
Indices: 35061765--35061831 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
35061755 TTTTTAAAGT
35061765 TTGTTGGATACTAAAATTTTATATG-TTAAGA
1 TTGTTGGATACTAAAATTTTA-ATGCTTAAGA
** * *
35061796 TTGTTGGATGTTGAAATTTTAATGCTTAAGT
1 TTGTTGGATACTAAAATTTTAATGCTTAAGA
35061827 TTGTT
1 TTGTT
35061832 AAGTATTGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.49
Consensus pattern (31 bp):
TTGTTGGATACTAAAATTTTAATGCTTAAGA
Found at i:35061846 original size:31 final size:32
Alignment explanation
Indices: 35061806--35061879 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
35061796 TTGTTGGATG
*
35061806 TTGAAATTTTAATG-CTTAAGTTTGTT-AAGTA
1 TTGAAATTTTAATGTCTTAAGTTGGTTGAA-TA
* * *
35061837 TTGACATTTTTATGTTTTAAGTTGGTTGAATA
1 TTGAAATTTTAATGTCTTAAGTTGGTTGAATA
*
35061869 TTGAAAATTTA
1 TTGAAATTTTA
35061880 TAAGTTTGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
31 12 0.35
32 20 0.59
33 2 0.06
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (32 bp):
TTGAAATTTTAATGTCTTAAGTTGGTTGAATA
Found at i:35065847 original size:40 final size:40
Alignment explanation
Indices: 35065785--35065861 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
35065775 ATGGTACCTT
**
35065785 TTGGTGTGCAGGGTTAGATGGGTTGATTATATCCCCATAC
1 TTGGTGTGCAGGGTTAGATGGGTCAATTATATCCCCATAC
* * * * *
35065825 TTGGTGTGTATGGTTGGGTGGGTCAATTCTATCCCCA
1 TTGGTGTGCAGGGTTAGATGGGTCAATTATATCCCCA
35065862 CATGGTGTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.36
Consensus pattern (40 bp):
TTGGTGTGCAGGGTTAGATGGGTCAATTATATCCCCATAC
Found at i:35072995 original size:40 final size:40
Alignment explanation
Indices: 35072922--35072998 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
35072912 ACGGTACCTT
* *
35072922 TTGGTGTGTAGGGTTAGATGAGTTGATTATATCCCCATAC
1 TTGGTGTGTAGGGTTAGAAGAGTCGATTATATCCCCATAC
* *
35072962 TTGGTGTGTAGGGTT-GAAAGGGTCGATTCTATCCCCA
1 TTGGTGTGTAGGGTTAG-AAGAGTCGATTATATCCCCA
35072999 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 31 0.97
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (40 bp):
TTGGTGTGTAGGGTTAGAAGAGTCGATTATATCCCCATAC
Found at i:35073796 original size:26 final size:24
Alignment explanation
Indices: 35073767--35073828 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
35073757 GATGATAACA
35073767 TGTGATAGTAGAACATATGAAGAAGC
1 TGTGATAGTA-AA-ATATGAAGAAGC
* * *
35073793 TGTGATGGTAAAATGTGACGAAGC
1 TGTGATAGTAAAATATGAAGAAGC
*
35073817 TGTGATGGTAAA
1 TGTGATAGTAAA
35073829 CTTTACATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 22 0.67
25 2 0.06
26 9 0.27
ACGTcount: A:0.37, C:0.06, G:0.31, T:0.26
Consensus pattern (24 bp):
TGTGATAGTAAAATATGAAGAAGC
Found at i:35094678 original size:19 final size:19
Alignment explanation
Indices: 35094654--35094691 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
35094644 GAAATGAATA
35094654 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
*
35094673 ATTTCAGGCAAATATGTTG
1 ATTTCAGGCAAATAGGTTG
35094692 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:35097537 original size:18 final size:18
Alignment explanation
Indices: 35097510--35097545 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35097500 AAAATTCAAA
*
35097510 CCAAATAGTCAAAAAATT
1 CCAAAGAGTCAAAAAATT
*
35097528 CCAAAGAGTCCAAAAATT
1 CCAAAGAGTCAAAAAATT
35097546 ATAAAACTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAGAGTCAAAAAATT
Found at i:35100717 original size:28 final size:28
Alignment explanation
Indices: 35100677--35100733 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
35100667 TGTAATAGAA
35100677 TATTGTGTACTCTTTTTCCTTCATTAGG
1 TATTGTGTACTCTTTTTCCTTCATTAGG
*
35100705 TATTGTGTACTCTTTTTCCTTCTTTAGG
1 TATTGTGTACTCTTTTTCCTTCATTAGG
35100733 T
1 T
35100734 TTTTTATCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.12, C:0.18, G:0.14, T:0.56
Consensus pattern (28 bp):
TATTGTGTACTCTTTTTCCTTCATTAGG
Found at i:35101328 original size:3 final size:3
Alignment explanation
Indices: 35101320--35101364 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
35101310 ACCAAGTGTT
35101320 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35101365 AGTTAGGCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35106677 original size:19 final size:18
Alignment explanation
Indices: 35106645--35106680 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
35106635 GTGCATTAGA
35106645 ACTTTTTTTATTTTATAT
1 ACTTTTTTTATTTTATAT
*
35106663 ACTTTATTTTGTTTTATA
1 ACTTT-TTTTATTTTATA
35106681 GTTTTTAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (18 bp):
ACTTTTTTTATTTTATAT
Found at i:35107350 original size:9 final size:9
Alignment explanation
Indices: 35107334--35107368 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
35107324 TTAATTAAGA
35107334 AATTAATTT
1 AATTAATTT
*
35107343 AGTTAATTT
1 AATTAATTT
*
35107352 AATTAATTA
1 AATTAATTT
35107361 AATTAATT
1 AATTAATT
35107369 GATAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:35109335 original size:100 final size:100
Alignment explanation
Indices: 35109203--35109406 Score: 248
Period size: 100 Copynumber: 2.0 Consensus size: 100
35109193 TTTGGTCGAT
* * * *
35109203 TATAGAAAATCAAATATAATATCACATATGTGCATAACTAT-ATGGCCGAATATGCAAGATCAAA
1 TATACAAAATCAAAAATAATATCACATATGTGCATAACT-TCATGGCAGAATATGCAAAATCAAA
* ** * *
35109267 TTTAACATTAAATATGTACTTACTTATATGGCTGAA
65 TATAACACCAAATATGTACATACTTATATGGCCGAA
* * * * *
35109303 TATACAAATTCAAAAATAATATCACATTTGTGCATACCTTCATGGCAGAATATTCAAAATCCAAT
1 TATACAAAATCAAAAATAATATCACATATGTGCATAACTTCATGGCAGAATATGCAAAATCAAAT
* *
35109368 ATAACACCACATATGTACATACTTATGTGGCCGAA
66 ATAACACCAAATATGTACATACTTATATGGCCGAA
35109403 TATA
1 TATA
35109407 TGCAAGGTCA
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 1 0.01
100 86 0.99
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (100 bp):
TATACAAAATCAAAAATAATATCACATATGTGCATAACTTCATGGCAGAATATGCAAAATCAAAT
ATAACACCAAATATGTACATACTTATATGGCCGAA
Found at i:35109404 original size:50 final size:50
Alignment explanation
Indices: 35109203--35109406 Score: 187
Period size: 50 Copynumber: 4.1 Consensus size: 50
35109193 TTTGGTCGAT
* * *
35109203 TATAGAAAATCAAATATAATATCACATATGTGCATAAC-TATATGGCCGAA
1 TATACAAAATCAAATATAACATCACATATGTACAT-ACTTATATGGCCGAA
* * * * * * *
35109253 TATGCAAGATCAAATTTAACATTAAATATGTACTTACTTATATGGCTGAA
1 TATACAAAATCAAATATAACATCACATATGTACATACTTATATGGCCGAA
* * * * * * *
35109303 TATACAAATTCAAAAATAATATCACATTTGTGCATACCTT-CATGGCAGAA
1 TATACAAAATCAAATATAACATCACATATGTACATA-CTTATATGGCCGAA
* * * *
35109353 TATTCAAAATCCAATATAACACCACATATGTACATACTTATGTGGCCGAA
1 TATACAAAATCAAATATAACATCACATATGTACATACTTATATGGCCGAA
35109403 TATA
1 TATA
35109407 TGCAAGGTCA
Statistics
Matches: 116, Mismatches: 35, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
49 5 0.04
50 108 0.93
51 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (50 bp):
TATACAAAATCAAATATAACATCACATATGTACATACTTATATGGCCGAA
Found at i:35117215 original size:50 final size:48
Alignment explanation
Indices: 35117073--35117242 Score: 155
Period size: 50 Copynumber: 3.5 Consensus size: 48
35117063 CGATTATAGA
*
35117073 AAATT-AAATATAATATCACATATGTGCATAACTATATGGCCGAATATGC
1 AAATTCAAATATAATATCACATATGTGCAT-ACT-TATGGCCGAATATAC
* * * * * * *
35117122 AAGA-TCAAATTTAACATTAAATATGTACTTACATATGGCCGAATATAC
1 AA-ATTCAAATATAATATCACATATGTGCATACTTATGGCCGAATATAC
* *
35117170 AAATTCAAATATAATATCACATTTGTGCATACCTTCATGGCCGAATATTC
1 AAATTCAAATATAATATCACATATGTGCATA-CTT-ATGGCCGAATATAC
* * * *
35117220 AAAATCCAATATAACACCACATA
1 AAATTCAAATATAATATCACATA
35117243 GGTACAAACC
Statistics
Matches: 94, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
47 1 0.01
48 36 0.38
49 7 0.07
50 50 0.53
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (48 bp):
AAATTCAAATATAATATCACATATGTGCATACTTATGGCCGAATATAC
Found at i:35122112 original size:29 final size:29
Alignment explanation
Indices: 35122080--35122164 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
35122070 GTGAGCATGA
35122080 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
35122109 ATATCCAA-GTGATTTGGGCCTAATGGGTC
1 ATAT-GAATGTGATTTGGGCCTAATGGGCC
* *
35122138 ATATGAATATGA-TTGGGCTTAATGGGC
1 ATATGAATGTGATTTGGGCCTAATGGGC
35122165 TAGATACAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
28 15 0.31
29 31 0.65
30 2 0.04
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:35123515 original size:465 final size:465
Alignment explanation
Indices: 35122644--35123573 Score: 1842
Period size: 465 Copynumber: 2.0 Consensus size: 465
35122634 TCATGGATCC
35122644 GCCAACGGCTTTTAAAGCCCACTATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATGGTGTG
1 GCCAACGGCTTTTAAAGCCCACTATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATGGTGTG
35122709 TAGGCTGGGTGGATCAATATTTATATCCCCACATGGTGTGACGAAGGACGGAGCTGGTGTGTAAC
66 TAGGCTGGGTGGATCAATATTTATATCCCCACATGGTGTGACGAAGGACGGAGCTGGTGTGTAAC
35122774 AGATGGATAATTTGGATGGGATTGTATTGCATGATTGATGAATGATGTTTTTTTCTTACATGCTT
131 AGATGGATAATTTGGATGGGATTGTATTGCATGATTGATGAATGATGTTTTTTTCTTACATGCTT
35122839 GTTTTTGCCAAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCCTCTTTATTTTATTTTCA
196 GTTTTTGCCAAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCCTCTTTATTTTATTTTCA
* *
35122904 GGTGATGCTCAGTAGAAGGTTCGATGTTTGGAGGGACTCTGGGTGGCCAGCTGGCACGATAATTT
261 GGTGATGCTCAGTAGAAGGTTCGATGTTTGGAGGGACTCTGGGTGGCCAGCTAGCAAGATAATTT
35122969 GAACTTGGTTTTTTTTAAGCATTTAAGTTTTTATTTCTTTTTAAGTGTGTTCAGACTAGATTGTA
326 GAACTTGGTTTTTTTTAAGCATTTAAGTTTTTATTTCTTTTTAAGTGTGTTCAGACTAGATTGTA
35123034 ATAAGGTTTTCAATTACTGGTTGAATTATTATTATTTTCATTGTAATTATGAGAAGTTGAACATG
391 ATAAGGTTTTCAATTACTGGTTGAATTATTATTATTTTCATTGTAATTATGAGAAGTTGAACATG
35123099 GATTTCTTAA
456 GATTTCTTAA
35123109 GCCAACGGCTTTTAAAGCCCACTATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATGGTGTG
1 GCCAACGGCTTTTAAAGCCCACTATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATGGTGTG
35123174 TAGGCTGGGTGGATCAATATTTATATCCCCACATGGTGTGACGAAGGACGGAGCTGGTGTGTAAC
66 TAGGCTGGGTGGATCAATATTTATATCCCCACATGGTGTGACGAAGGACGGAGCTGGTGTGTAAC
35123239 AGATGGATAATTTGGATGGGATTGTATTGCATGATTGATGAATGATGTTTTTTTCTTACATGCTT
131 AGATGGATAATTTGGATGGGATTGTATTGCATGATTGATGAATGATGTTTTTTTCTTACATGCTT
35123304 GTTTTTGCCAAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCCTCTTTATTTTATTTTCA
196 GTTTTTGCCAAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCCTCTTTATTTTATTTTCA
35123369 GGTGATGCTCAGTAGAAGGTTCGATGTTTGGAGGGACTCTGGGTGGCCAGCTAGCAAGATAATTT
261 GGTGATGCTCAGTAGAAGGTTCGATGTTTGGAGGGACTCTGGGTGGCCAGCTAGCAAGATAATTT
35123434 GAACTTGGTTTTTTTTAAGCATTTAAGTTTTTATTTCTTTTTAAGTGTGTTCAGACTAGATTGTA
326 GAACTTGGTTTTTTTTAAGCATTTAAGTTTTTATTTCTTTTTAAGTGTGTTCAGACTAGATTGTA
35123499 ATAAGGTTTTCAATTACTGGTTGAATTATTATTATTTTCATTGTAATTATGAGAAGTTGAACATG
391 ATAAGGTTTTCAATTACTGGTTGAATTATTATTATTTTCATTGTAATTATGAGAAGTTGAACATG
35123564 GATTTCTTAA
456 GATTTCTTAA
35123574 ATTATAATAT
Statistics
Matches: 463, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
465 463 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (465 bp):
GCCAACGGCTTTTAAAGCCCACTATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATGGTGTG
TAGGCTGGGTGGATCAATATTTATATCCCCACATGGTGTGACGAAGGACGGAGCTGGTGTGTAAC
AGATGGATAATTTGGATGGGATTGTATTGCATGATTGATGAATGATGTTTTTTTCTTACATGCTT
GTTTTTGCCAAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCCTCTTTATTTTATTTTCA
GGTGATGCTCAGTAGAAGGTTCGATGTTTGGAGGGACTCTGGGTGGCCAGCTAGCAAGATAATTT
GAACTTGGTTTTTTTTAAGCATTTAAGTTTTTATTTCTTTTTAAGTGTGTTCAGACTAGATTGTA
ATAAGGTTTTCAATTACTGGTTGAATTATTATTATTTTCATTGTAATTATGAGAAGTTGAACATG
GATTTCTTAA
Found at i:35126187 original size:41 final size:41
Alignment explanation
Indices: 35126142--35126220 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
35126132 ATGATATTTG
35126142 TTATTGATTGTTCTGAATTGTGCGGTAATACTCCATAACCC
1 TTATTGATTGTTCTGAATTGTGCGGTAATACTCCATAACCC
* *
35126183 TTATTGATTGTTCTGAATTGTGCGGTGATACTCTATAA
1 TTATTGATTGTTCTGAATTGTGCGGTAATACTCCATAA
35126221 TCCTAACGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (41 bp):
TTATTGATTGTTCTGAATTGTGCGGTAATACTCCATAACCC
Found at i:35126690 original size:67 final size:67
Alignment explanation
Indices: 35126540--35126693 Score: 168
Period size: 67 Copynumber: 2.3 Consensus size: 67
35126530 TTGAAATAGG
* * * * * *
35126540 GCCACACAG-CCGTGTTCCAGCCCGTGTTTTCACTTGTGTAACTCTCTGAGTTGGGTCACTCGGC
1 GCCACAC-GCCCGTGTCCCAGCCCGTATTCTCACTCGTGTAACTCTCTAAGTTGGGCCACTCGGC
*
35126604 GAA
65 CAA
* * * *
35126607 GCCATAGGCCCATGTCCCAGCTCGTATTCTCACTCGTGTAACTCTCTAAGTTGGGCCACAT-GGC
1 GCCACACGCCCGTGTCCCAGCCCGTATTCTCACTCGTGTAACTCTCTAAGTTGGGCCAC-TCGGC
35126671 CAA
65 CAA
*
35126674 GCTACACGCCCGTGTCCCAG
1 GCCACACGCCCGTGTCCCAG
35126694 GCTATGTAAC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
66 1 0.01
67 68 0.97
68 1 0.01
ACGTcount: A:0.18, C:0.33, G:0.23, T:0.25
Consensus pattern (67 bp):
GCCACACGCCCGTGTCCCAGCCCGTATTCTCACTCGTGTAACTCTCTAAGTTGGGCCACTCGGCC
AA
Found at i:35127599 original size:41 final size:41
Alignment explanation
Indices: 35127551--35127724 Score: 116
Period size: 41 Copynumber: 4.2 Consensus size: 41
35127541 GGCACATCTA
* **
35127551 TGCAATTCA-GTGTTACCGAAATACAAACATGGGCACGTATG
1 TGCAATTCATG-GGTACCGAAATACAAACAAAGGCACGTATG
* * *
35127592 TGTAATTCATGGGTATCGAAGTACAAACAAAGGCACGTATG
1 TGCAATTCATGGGTACCGAAATACAAACAAAGGCACGTATG
* * ** * *** ** * *
35127633 TGCAATTAAAGGGTATTGAAGTATGGACAGGGGTATGTATG
1 TGCAATTCATGGGTACCGAAATACAAACAAAGGCACGTATG
* * * * **
35127674 TGCAACTCAGGGGTACCGAAGTACAAATAGGGGCACGTATG
1 TGCAATTCATGGGTACCGAAATACAAACAAAGGCACGTATG
35127715 TGCAATTCAT
1 TGCAATTCAT
35127725 CGTTATATTT
Statistics
Matches: 102, Mismatches: 30, Indels: 2
0.76 0.22 0.01
Matches are distributed among these distances:
41 101 0.99
42 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (41 bp):
TGCAATTCATGGGTACCGAAATACAAACAAAGGCACGTATG
Found at i:35129914 original size:23 final size:23
Alignment explanation
Indices: 35129888--35129956 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
35129878 TAAATGGCAT
*
35129888 TCTATTTGGCCTTTGTGGTGTAC
1 TCTATTTGGCCTTTGTGGTATAC
* * *
35129911 TCTA-ATAGCCTTTGTGGTATAT
1 TCTATTTGGCCTTTGTGGTATAC
* *
35129933 TCTATTTGGCCCTTGTGGCATAC
1 TCTATTTGGCCTTTGTGGTATAC
35129956 T
1 T
35129957 TTGATAAGCC
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.45
Consensus pattern (23 bp):
TCTATTTGGCCTTTGTGGTATAC
Found at i:35134794 original size:85 final size:85
Alignment explanation
Indices: 35134692--35134862 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
35134682 AAAAAGATTC
*
35134692 GGGTGTGAATGTATATGTAACATGATGGTATGGATCGGACTTTTGAGTACATGAGCTTTCTGGTA
1 GGGTGCGAATGTATATGTAACATGATGGTATGGATCGGACTTTTGAGTACATGAGCTTTCTGGTA
35134757 GAGATTAAGTTTCAGTAAAA
66 GAGATTAAGTTTCAGTAAAA
*
35134777 GGGTGCGAATGTGTATGTAACATGATGGTATGGATCGGACTTTTGAGTACATGAGCTTTCTGGTA
1 GGGTGCGAATGTATATGTAACATGATGGTATGGATCGGACTTTTGAGTACATGAGCTTTCTGGTA
35134842 GAGATTAAGTTTCAGTAAAA
66 GAGATTAAGTTTCAGTAAAA
35134862 G
1 G
35134863 CATTGTAAAG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.33
Consensus pattern (85 bp):
GGGTGCGAATGTATATGTAACATGATGGTATGGATCGGACTTTTGAGTACATGAGCTTTCTGGTA
GAGATTAAGTTTCAGTAAAA
Found at i:35140996 original size:28 final size:28
Alignment explanation
Indices: 35140964--35141019 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
35140954 TTTTTGTGGT
*
35140964 TTGAAGAGATTAATTAAAGAAAAATATA
1 TTGAAGAGATTAATAAAAGAAAAATATA
*
35140992 TTGAAGAGATTAATAAAAGTAAAATATA
1 TTGAAGAGATTAATAAAAGAAAAATATA
35141020 CTTTAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (28 bp):
TTGAAGAGATTAATAAAAGAAAAATATA
Found at i:35142553 original size:60 final size:60
Alignment explanation
Indices: 35142481--35142599 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
35142471 CGGCCATATT
* *
35142481 TGGGGTCACACAAGCTTGTCTCTATCACACGGCCATGTAACCCCTGTTGGCACTTTTTAA
1 TGGGGTCACACAAGCTTGTCTCTATCAAACGGCCATGTAACCCCTGTTGACACTTTTTAA
*
35142541 TGGGGTCACACAAGCTTGTCTCTGTCAAACGGCCATGTAACCCCTGTTGACACTTTTTA
1 TGGGGTCACACAAGCTTGTCTCTATCAAACGGCCATGTAACCCCTGTTGACACTTTTTA
35142600 CTCAAAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (60 bp):
TGGGGTCACACAAGCTTGTCTCTATCAAACGGCCATGTAACCCCTGTTGACACTTTTTAA
Found at i:35143878 original size:75 final size:75
Alignment explanation
Indices: 35143785--35144291 Score: 383
Period size: 75 Copynumber: 6.7 Consensus size: 75
35143775 AGAGTTTGTC
* * * * *
35143785 GATTTACGATCACAACCTTTGGCTTTCTAACAGTTCGCTAATTTATGATTACGATTATCATTTTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTATCATTTTT
**
35143850 ACGGTCTGTT
66 ACGGTCTACT
* * * * * * * * * * *
35143860 GAGTTACAATCACGACCTTCGATTTTCTAACAGTTTGCTGATTTACAATTATGAATGTCATTTTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTATCATTTTT
* *
35143925 ATGGTCTATT
66 ACGGTCTACT
* * * * * * * * *
35143935 GATTTATGATCACGATCTTTGGCTTCCTAACAGTTCGTTGATTTAGGCTCACGAC-AGTTATTTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTA-TCATTTT
* **
35143999 TACAGTCCGCT
65 TACGGTCTACT
* * * *
35144010 GATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCTGATTTACGATCACGACTATCATTTTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTATCATTTTT
35144075 ACGGT-TCACT
66 ACGGTCT-ACT
* * * * * * * **
35144085 GATTTATGATCATGACCTTAGATTTTCTAACAGTTCACACTAATTTATGATAACGACTGGCATTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTT--CGCTAATTTACGATCACGACTATCATTT
* *
35144150 TTACTGTCCGA-T
64 TTACGGT-CTACT
** * * * * * *
35144162 GATTTTTGATCACGACCTTTAGTTTTCTAGCAGTTCGCTAATTTATGATCATGACTGTTATTTTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTATCATTTTT
*
35144227 ACGAT-TCACT
66 ACGGTCT-ACT
* * * * *
35144237 GATTTACGATCATGACCTTTGGCTTTCTAACAGTTCACTAATTTACAATTACGAC
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGAC
35144292 CTTTTACTCA
Statistics
Matches: 334, Mismatches: 89, Indels: 18
0.76 0.20 0.04
Matches are distributed among these distances:
74 1 0.00
75 273 0.82
76 1 0.00
77 58 0.17
78 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (75 bp):
GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTATCATTTTT
ACGGTCTACT
Found at i:35143906 original size:39 final size:39
Alignment explanation
Indices: 35143785--35144120 Score: 150
Period size: 39 Copynumber: 8.9 Consensus size: 39
35143775 AGAGTTTGTC
* * **
35143785 GATTTACGATCACAACCTTTGGCTTTCTAACAGTTCGCT
1 GATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCT
* * * * * *
35143824 AATTTATGATTACGA-TTATC-ATTTT-T-AC-GGTCTGTT
1 GATTTACGATCACGACCT-TCGATTTTCTAACAGTTC-GCT
* * *
35143860 GAGTTACAATCACGACCTTCGATTTTCTAACAGTTTGCT
1 GATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCT
* * * * * * **
35143899 GATTTACAATTATGA-ATGTC-ATTTT-T-A-TGGTCTATT
1 GATTTACGATCACGACCT-TCGATTTTCTAACAGTTC-GCT
* * * ** * *
35143935 GATTTATGATCACGATCTTTGGCTTCCTAACAGTTCGTT
1 GATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCT
* * * *
35143974 GATTTAGGCTCACGACAGTT--ATTTT-T-ACAGTCCGCT
1 GATTTACGATCACGAC-CTTCGATTTTCTAACAGTTCGCT
*
35144010 GATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCT
1 GATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCT
* *
35144049 GATTTACGATCACGA-CTATC-ATTTT-T-ACGGTTCACT
1 GATTTACGATCACGACCT-TCGATTTTCTAACAGTTCGCT
* * *
35144085 GATTTATGATCATGACCTTAGATTTTCTAACAGTTC
1 GATTTACGATCACGACCTTCGATTTTCTAACAGTTC
35144121 ACACTAATTT
Statistics
Matches: 212, Mismatches: 61, Indels: 48
0.66 0.19 0.15
Matches are distributed among these distances:
35 7 0.03
36 73 0.34
37 25 0.12
38 23 0.11
39 77 0.36
40 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (39 bp):
GATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCT
Found at i:35143965 original size:150 final size:149
Alignment explanation
Indices: 35143785--35144290 Score: 512
Period size: 150 Copynumber: 3.4 Consensus size: 149
35143775 AGAGTTTGTC
* *
35143785 GATTTACGATCACAACCTTTGGCTTTCTAACAGTTCGCTAATTTATGATTACGATTATCATTTTT
1 GATTTACGATCACGACCTTTGGCTTTCTAACAGTTCACTAATTTATGATTACGA-TATCATTTTT
* * * * * * * *
35143850 ACGGTCTGTTGAGTTACAATCACGACCTTCGATTTTCTAACAGTTTGCTGATTTACAATTATGAA
65 ACAGTCCGATGATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCTGATTTACGATCATGAC
* *
35143915 TGTCATTTTTATGG-TCTATT
130 TGTCATTTTTACGGTTC-ACT
* * * ** * * * * * *
35143935 GATTTATGATCACGATCTTTGGCTTCCTAACAGTTCGTTGATTTAGGCTCACGACAGTTATTTTT
1 GATTTACGATCACGACCTTTGGCTTTCTAACAGTTCACTAATTTATGATTACGATA-TCATTTTT
* *
35144000 ACAGTCCGCTGATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCTGATTTACGATCACGAC
65 ACAGTCCGATGATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCTGATTTACGATCATGAC
*
35144065 TATCATTTTTACGGTTCACT
130 TGTCATTTTTACGGTTCACT
* * * ** * **
35144085 GATTTATGATCATGACCTTAGATTTTCTAACAGTTCACACTAATTTATGATAACGACTGGCATTT
1 GATTTACGATCACGACCTTTGGCTTTCTAACAGTT--CACTAATTTATGATTACGA-TATCATTT
* *** * * * *
35144150 TTACTGTCCGATGATTTTTGATCACGACCTT-TAGTTTTCTAGCAGTTCGCTAATTTATGATCAT
63 TTACAGTCCGATGATTTACAATCACGACCTTCGA-TTTTCTAACAGTTCGCTGATTTACGATCAT
* *
35144214 GACTGTTATTTTTACGATTCACT
127 GACTGTCATTTTTACGGTTCACT
* **
35144237 GATTTACGATCATGACCTTTGGCTTTCTAACAGTTCACTAATTTACAATTACGA
1 GATTTACGATCACGACCTTTGGCTTTCTAACAGTTCACTAATTTATGATTACGA
35144291 CCTTTTACTC
Statistics
Matches: 291, Mismatches: 59, Indels: 12
0.80 0.16 0.03
Matches are distributed among these distances:
149 1 0.00
150 167 0.57
151 3 0.01
152 120 0.41
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (149 bp):
GATTTACGATCACGACCTTTGGCTTTCTAACAGTTCACTAATTTATGATTACGATATCATTTTTA
CAGTCCGATGATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCTGATTTACGATCATGACT
GTCATTTTTACGGTTCACT
Found at i:35144023 original size:36 final size:35
Alignment explanation
Indices: 35143964--35144090 Score: 110
Period size: 36 Copynumber: 3.5 Consensus size: 35
35143954 TGGCTTCCTA
* ***
35143964 ACAGTTCGTTGATTTAGGCTCACGACAGTTATTTTT
1 ACAGTTCGCTGATTTACAATCACGACA-TTATTTTT
* *
35144000 ACAGTCCGCTGATTTACAATCACGACCTTCGATTTTCT
1 ACAGTTCGCTGATTTACAATCACGACATT--ATTTT-T
* *
35144038 AACAGTTCGCTGATTTACGATCACGACTATCATTTTT
1 -ACAGTTCGCTGATTTACAATCACGAC-ATTATTTTT
* *
35144075 ACGGTTCACTGATTTA
1 ACAGTTCGCTGATTTA
35144091 TGATCATGAC
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
35 2 0.03
36 35 0.47
37 6 0.08
38 6 0.08
39 24 0.32
40 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (35 bp):
ACAGTTCGCTGATTTACAATCACGACATTATTTTT
Found at i:35144096 original size:36 final size:35
Alignment explanation
Indices: 35143994--35144248 Score: 136
Period size: 36 Copynumber: 6.8 Consensus size: 35
35143984 CACGACAGTT
* * **
35143994 ATTTTTACAGTCCGCTGATTTACAATCACGACCTTC
1 ATTTTTACAGTTCACTGATTTATGATCACGA-CTTC
* *
35144030 GATTTTCTAACAGTTCGCTGATTTACGATCACGACTATC
1 -ATTTT-T-ACAGTTCACTGATTTATGATCACGACT-TC
* * *
35144069 ATTTTTACGGTTCACTGATTTATGATCATGACCTTAG
1 ATTTTTACAGTTCACTGATTTATGATCACGA-CTT-C
* * *
35144106 ATTTTCTAACAGTTCACACTAATTTATGATAACGACTGGC
1 ATTTT-T-ACAGTT--CACTGATTTATGATCACGACT-TC
* * * *
35144146 ATTTTTACTGTCCGA-TGATTTTTGATCACGACCTTT
1 ATTTTTACAGTTC-ACTGATTTATGATCACGA-CTTC
* * * *
35144182 AGTTTTCTAGCAGTTCGCTAATTTATGATCATGACTGTT
1 A-TTTT-TA-CAGTTCACTGATTTATGATCACGACT-TC
*
35144221 ATTTTTAC-GATTCACTGATTTACGATCA
1 ATTTTTACAG-TTCACTGATTTATGATCA
35144249 TGACCTTTGG
Statistics
Matches: 171, Mismatches: 29, Indels: 37
0.72 0.12 0.16
Matches are distributed among these distances:
35 1 0.01
36 53 0.31
37 22 0.13
38 21 0.12
39 51 0.30
40 7 0.04
41 16 0.09
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (35 bp):
ATTTTTACAGTTCACTGATTTATGATCACGACTTC
Found at i:35144545 original size:21 final size:21
Alignment explanation
Indices: 35144519--35144560 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
35144509 AAGTTTCAAG
35144519 GTAAATATTATATAGTAAGCT
1 GTAAATATTATATAGTAAGCT
35144540 GTAAATATTATATAGTAAGCT
1 GTAAATATTATATAGTAAGCT
35144561 CCAAATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (21 bp):
GTAAATATTATATAGTAAGCT
Found at i:35144566 original size:21 final size:21
Alignment explanation
Indices: 35144521--35144566 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
35144511 GTTTCAAGGT
**
35144521 AAATATTATATAGTAAGCTGT
1 AAATATTATATAGTAAGCTCC
35144542 AAATATTATATAGTAAGCTCC
1 AAATATTATATAGTAAGCTCC
35144563 AAAT
1 AAAT
35144567 TACACGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.35
Consensus pattern (21 bp):
AAATATTATATAGTAAGCTCC
Found at i:35154290 original size:137 final size:137
Alignment explanation
Indices: 35154095--35154367 Score: 465
Period size: 137 Copynumber: 2.0 Consensus size: 137
35154085 GGCATTAGAC
* * * *
35154095 AACTCAAAAACCATTTGCTTAACTAGTTTAAAACATGATCAAATACATTTAAAACATGTCAAAAC
1 AACTCAAAAACCATTTGCTTAACCAGTTCAAAACACGATCAAATACATTCAAAACATGTCAAAAC
*
35154160 AATTATCCTAGGTGCCTAACCAATGTACGCTCAATGGTACCACATTTATATCATCTATTCATATC
66 AATTATCCTAGGTGCCTAACCAATGTACGCTCAATGGTACCACAATTATATCATCTATTCATATC
35154225 ATCAAAT
131 ATCAAAT
** *
35154232 AACTCAAAAACTGTTTGTTTAACCAGTTCAAAACACGATCAAATACATTCAAAACATGTCAAAAC
1 AACTCAAAAACCATTTGCTTAACCAGTTCAAAACACGATCAAATACATTCAAAACATGTCAAAAC
*
35154297 AATTATCCTAGGTGCCTAACCAATGTACGCTCATTGGTACCACAATTATATCATCTATTCATATC
66 AATTATCCTAGGTGCCTAACCAATGTACGCTCAATGGTACCACAATTATATCATCTATTCATATC
35154362 ATCAAA
131 ATCAAA
35154368 GTATCATTCA
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
137 127 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (137 bp):
AACTCAAAAACCATTTGCTTAACCAGTTCAAAACACGATCAAATACATTCAAAACATGTCAAAAC
AATTATCCTAGGTGCCTAACCAATGTACGCTCAATGGTACCACAATTATATCATCTATTCATATC
ATCAAAT
Found at i:35154995 original size:28 final size:25
Alignment explanation
Indices: 35154959--35155025 Score: 64
Period size: 28 Copynumber: 2.6 Consensus size: 25
35154949 ACAATGGCAC
*
35154959 TATCTATTCCATATTT-AATTCAACATA
1 TATCAATTCCAT-TTTCAATTC-AC-TA
* *
35154986 TTTCACATTCTATTTTCAATTCACTA
1 TATCA-ATTCCATTTTCAATTCACTA
35155012 TATCAATTCCATTT
1 TATCAATTCCATTT
35155026 CTCATACCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
25 8 0.24
26 6 0.18
27 8 0.24
28 11 0.33
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (25 bp):
TATCAATTCCATTTTCAATTCACTA
Found at i:35156208 original size:14 final size:13
Alignment explanation
Indices: 35156189--35156219 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
35156179 TTTTTTCCCT
35156189 TTTCTTTCTATTTC
1 TTTCTTTCT-TTTC
35156203 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
35156216 TTTC
1 TTTC
35156220 AAATTTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:35157606 original size:18 final size:19
Alignment explanation
Indices: 35157565--35157600 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35157555 CTAAAAATTC
*
35157565 TAAAAAATATTAAAATTTA
1 TAAAAAATATCAAAATTTA
35157584 TAAAAAA-ATCAAAATTT
1 TAAAAAATATCAAAATTT
35157601 TCAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAAATATCAAAATTTA
Found at i:35160863 original size:69 final size:69
Alignment explanation
Indices: 35160769--35160902 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 69
35160759 CTATGACAAT
*
35160769 TATAAACATAAGACCATAGCAAGGCTATGACAATTGTTCAGATATAAGATCATGGTTGGACCATG
1 TATAAACATAAGACCATAGCAAGGCTATGACAATTGTTCAGATATAAGACCATGGTTGGACCATG
35160834 GCAA
66 GCAA
* ** * * *
35160838 TATATACATAAGACCATAGTGAGGCTATGACAGTTGTTTAGATGTAAGACCATGGTTGGACCATG
1 TATAAACATAAGACCATAGCAAGGCTATGACAATTGTTCAGATATAAGACCATGGTTGGACCATG
35160903 ACAGTGTGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (69 bp):
TATAAACATAAGACCATAGCAAGGCTATGACAATTGTTCAGATATAAGACCATGGTTGGACCATG
GCAA
Found at i:35166276 original size:21 final size:21
Alignment explanation
Indices: 35166250--35166289 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
35166240 CACTTGACAT
35166250 AGGGGCACACGCCCGTGTGAA
1 AGGGGCACACGCCCGTGTGAA
35166271 AGGGGCACACGCCCGTGTG
1 AGGGGCACACGCCCGTGTG
35166290 GCCAATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGAA
Found at i:35167514 original size:47 final size:46
Alignment explanation
Indices: 35167446--35167546 Score: 107
Period size: 47 Copynumber: 2.2 Consensus size: 46
35167436 CCTAGACACA
* * ** *
35167446 GTCTTATACTGGCTCATATCTCA-AGTCGATGCTGTGTCCCAAACAT
1 GTCTTACACTGACTCATATCTCACACCCGATGC-ATGTCCCAAACAT
*
35167492 GGTCTTACACTGACT-ATCATCTCACACCCGATGCATGTCCCAGACAT
1 -GTCTTACACTGACTCAT-ATCTCACACCCGATGCATGTCCCAAACAT
35167539 GTCTTACA
1 GTCTTACA
35167547 TTGGCTTACG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
46 10 0.22
47 29 0.63
48 7 0.15
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (46 bp):
GTCTTACACTGACTCATATCTCACACCCGATGCATGTCCCAAACAT
Found at i:35167666 original size:41 final size:41
Alignment explanation
Indices: 35167610--35167767 Score: 158
Period size: 41 Copynumber: 3.7 Consensus size: 41
35167600 TCGTCTCAAT
*
35167610 GCCGATGCCATGTCCCAGACATGGTCTTACTCTCATAATGTG
1 GCCGATGCCATGTCCCAAACAT-GTCTTACTCTCATAATGTG
* * ** * *
35167652 GCCGATG-CATGTCCCAAACATGTCTTACACTAGCCCTTGTCTCAAT
1 GCCGATGCCATGTCCCAAACATGTCTTACTCT---CATAATGT---G
*
35167698 GCCGATGCCATGTCCCAGACATGGTCTTACTCTCATAATGTG
1 GCCGATGCCATGTCCCAAACAT-GTCTTACTCTCATAATGTG
35167740 GCCGATG-CATGTCCCAAACATGTCTTAC
1 GCCGATGCCATGTCCCAAACATGTCTTAC
35167768 ACTAGCTCAC
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
40 16 0.17
41 26 0.28
42 14 0.15
43 4 0.04
45 4 0.04
46 7 0.08
47 13 0.14
48 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (41 bp):
GCCGATGCCATGTCCCAAACATGTCTTACTCTCATAATGTG
Found at i:35167679 original size:88 final size:88
Alignment explanation
Indices: 35167569--35167773 Score: 392
Period size: 88 Copynumber: 2.3 Consensus size: 88
35167559 TTGAGGTCTT
*
35167569 TGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGACATGG
1 TGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGACATGG
35167634 TCTTACTCTCATAATGTGGCCGA
66 TCTTACTCTCATAATGTGGCCGA
*
35167657 TGCATGTCCCAAACATGTCTTACACTAGCCCTTGTCTCAATGCCGATGCCATGTCCCAGACATGG
1 TGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGACATGG
35167722 TCTTACTCTCATAATGTGGCCGA
66 TCTTACTCTCATAATGTGGCCGA
35167745 TGCATGTCCCAAACATGTCTTACACTAGC
1 TGCATGTCCCAAACATGTCTTACACTAGC
35167774 TCACACACGA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 115 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (88 bp):
TGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGACATGG
TCTTACTCTCATAATGTGGCCGA
Found at i:35167713 original size:47 final size:48
Alignment explanation
Indices: 35167571--35167727 Score: 179
Period size: 47 Copynumber: 3.5 Consensus size: 48
35167561 GAGGTCTTTG
*
35167571 CATGTCCCAGACAT-GTCTTACACTAGCCCTCGTCTCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCCCTAGTCTCAATGCCGATGC
* * * * *
35167618 CATGTCCCAGACATGGTCTTACTCT---CATAATGT---GGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTAGCCCTAGTCTCAATGCCGATGC
* *
35167659 CATGTCCCAAACAT-GTCTTACACTAGCCCTTGTCTCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCCCTAGTCTCAATGCCGATGC
35167706 CATGTCCCAGACATGGTCTTAC
1 CATGTCCCAGACATGGTCTTAC
35167728 TCTCATAATG
Statistics
Matches: 87, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
40 9 0.10
41 13 0.15
42 7 0.08
43 4 0.05
45 4 0.05
46 7 0.08
47 27 0.31
48 16 0.18
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTAGCCCTAGTCTCAATGCCGATGC
Found at i:35173485 original size:25 final size:25
Alignment explanation
Indices: 35173457--35173508 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
35173447 TTTGGCTTGA
**
35173457 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
35173482 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
35173507 CA
1 CA
35173509 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:35178842 original size:43 final size:42
Alignment explanation
Indices: 35178780--35178877 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 42
35178770 TTGGTACCTC
35178780 AGTGCATCATCGAAAAAACCCCAAA-AAATATATTGGCACACAT
1 AGTGCATCATCGAAAAAA--CCAAACAAATATATTGGCACACAT
* * * **
35178823 AGTGCATCATTGGACAAACCAAAGCATTTATATTGGCACACAT
1 AGTGCATCATCGAAAAAACCAAA-CAAATATATTGGCACACAT
*
35178866 AGTACATCATCG
1 AGTGCATCATCG
35178878 GATAAATTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 5 0.11
43 41 0.89
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.22
Consensus pattern (42 bp):
AGTGCATCATCGAAAAAACCAAACAAATATATTGGCACACAT
Found at i:35178897 original size:43 final size:42
Alignment explanation
Indices: 35178815--35179056 Score: 187
Period size: 43 Copynumber: 5.6 Consensus size: 42
35178805 AAATATATTG
* * * * * *
35178815 GCACACATAGTGCATCATTGGACAAACCAAAGCATTTATATTG
1 GCACACATAGTGCATCATCGGATAAACGAAA-CAATTATACTA
* *
35178858 GCACACATAGTACATCATCGGATAAATTGAAACAATTATACTA
1 GCACACATAGTGCATCATCGGATAAA-CGAAACAATTATACTA
* * * * * **
35178901 GCATATACAGTGCATCATTGGATATACCGAAGTAATTATACTA
1 GCACACATAGTGCATCATCGGATA-AACGAAACAATTATACTA
* * * * *
35178944 GCATACATAGTGCATCATTGGATATACCAAAGTAATTATACTA
1 GCACACATAGTGCATCATCGGATAAACGAAA-CAATTATACTA
* * * * * * *
35178987 GCATAGATAGTTCATCATCGGATATACCGAAAAAATTATATTG
1 GCACACATAGTGCATCATCGGATA-AACGAAACAATTATACTA
*
35179030 GCACACATTGTGCATCATCGGATAAAC
1 GCACACATAGTGCATCATCGGATAAAC
35179057 TAAAGTATAA
Statistics
Matches: 158, Mismatches: 37, Indels: 9
0.77 0.18 0.04
Matches are distributed among these distances:
42 5 0.03
43 145 0.92
44 8 0.05
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (42 bp):
GCACACATAGTGCATCATCGGATAAACGAAACAATTATACTA
Found at i:35178952 original size:86 final size:86
Alignment explanation
Indices: 35178823--35179061 Score: 264
Period size: 86 Copynumber: 2.8 Consensus size: 86
35178813 TGGCACACAT
* * * * * * **
35178823 AGTGCATCATTGGACAAACCAAAGCATTTATATTGGCACACATAGTACATCATCGGATAAATTGA
1 AGTGCATCATTGGATATACCGAAGAAATTATATTGGCACACATAGTGCATCATCGGATAAA-CCA
*
35178888 AA-CAATTATACTAGCATATAC
65 AAGCAATTATACTAGCATAGAC
* * * * * *
35178909 AGTGCATCATTGGATATACCGAAGTAATTATACTAGCATACATAGTGCATCATTGGATATACCAA
1 AGTGCATCATTGGATATACCGAAGAAATTATATTGGCACACATAGTGCATCATCGGATAAACCAA
* *
35178974 AGTAATTATACTAGCATAGAT
66 AGCAATTATACTAGCATAGAC
* * * * *
35178995 AGTTCATCATCGGATATACCGAAAAAATTATATTGGCACACATTGTGCATCATCGGATAAACTAA
1 AGTGCATCATTGGATATACCGAAGAAATTATATTGGCACACATAGTGCATCATCGGATAAACCAA
35179060 AG
66 AG
35179062 TATAACATGT
Statistics
Matches: 125, Mismatches: 27, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
85 3 0.02
86 122 0.98
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (86 bp):
AGTGCATCATTGGATATACCGAAGAAATTATATTGGCACACATAGTGCATCATCGGATAAACCAA
AGCAATTATACTAGCATAGAC
Found at i:35179043 original size:129 final size:129
Alignment explanation
Indices: 35178819--35179053 Score: 290
Period size: 129 Copynumber: 1.8 Consensus size: 129
35178809 ATATTGGCAC
* * *
35178819 ACATAGTGCATCATTGGACAAACCAAAGCATTTATATTGGCACACATAGTACATCATCGGATAAA
1 ACATAGTGCATCATTGGACAAACCAAAGCAATTATACTAGCACACATAGTACATCATCGGATAAA
** * * * *
35178884 TTGAAACAATTATACTAGCATATACAGTGCATCATTGGATATACCGAAGTAATTATACTAGCAT
66 CCGAAAAAATTATACTAGCACACACAGTGCATCATCGGATATACCGAAGTAATTATACTAGCAT
* * * * * * *
35178948 ACATAGTGCATCATTGGATATACCAAAGTAATTATACTAGCATAGATAGTTCATCATCGGATATA
1 ACATAGTGCATCATTGGACAAACCAAAGCAATTATACTAGCACACATAGTACATCATCGGATAAA
* * **
35179013 CCGAAAAAATTATATTGGCACACATTGTGCATCATCGGATA
66 CCGAAAAAATTATACTAGCACACACAGTGCATCATCGGATA
35179054 AACTAAAGTA
Statistics
Matches: 86, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
129 86 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (129 bp):
ACATAGTGCATCATTGGACAAACCAAAGCAATTATACTAGCACACATAGTACATCATCGGATAAA
CCGAAAAAATTATACTAGCACACACAGTGCATCATCGGATATACCGAAGTAATTATACTAGCAT
Found at i:35179062 original size:86 final size:86
Alignment explanation
Indices: 35178850--35179063 Score: 268
Period size: 86 Copynumber: 2.5 Consensus size: 86
35178840 ACCAAAGCAT
* * * *
35178850 TTATATTGGCACACATAGTACATCATCGGATAAATTGAAA-CAATTATACTAGCATATACAGTGC
1 TTATATTGGCACACATAGTGCATCATCGGATAAACT-AAAGTAATTATACTAGCATAGACAGTGC
* **
35178914 ATCATTGGATATACCGAAGTAA
65 ATCATCGGATATACCGAAAAAA
* * * * * * * *
35178936 TTATACTAGCATACATAGTGCATCATTGGATATACCAAAGTAATTATACTAGCATAGATAGTTCA
1 TTATATTGGCACACATAGTGCATCATCGGATAAACTAAAGTAATTATACTAGCATAGACAGTGCA
35179001 TCATCGGATATACCGAAAAAA
66 TCATCGGATATACCGAAAAAA
*
35179022 TTATATTGGCACACATTGTGCATCATCGGATAAACTAAAGTA
1 TTATATTGGCACACATAGTGCATCATCGGATAAACTAAAGTA
35179064 TAACATGTAC
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
85 3 0.03
86 102 0.97
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (86 bp):
TTATATTGGCACACATAGTGCATCATCGGATAAACTAAAGTAATTATACTAGCATAGACAGTGCA
TCATCGGATATACCGAAAAAA
Found at i:35180021 original size:15 final size:15
Alignment explanation
Indices: 35180003--35180043 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
35179993 TTATAATTAA
35180003 CTTAATTAACCTAAG
1 CTTAATTAACCTAAG
* *
35180018 CTTAGTTAAACTTAAG
1 CTTAATT-AACCTAAG
35180034 CTTAATTAAC
1 CTTAATTAAC
35180044 AATTTTGGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (15 bp):
CTTAATTAACCTAAG
Found at i:35181690 original size:27 final size:27
Alignment explanation
Indices: 35181613--35181726 Score: 97
Period size: 27 Copynumber: 4.2 Consensus size: 27
35181603 CATGGCTGCC
* * * *
35181613 AGAACAGATA-TTGTGACAGAGTCACC
1 AGAACAGATATTTGTGGCATAGCCACA
* * *
35181639 AGATACAGATA-TTATGGCAAAGCCACT
1 AGA-ACAGATATTTGTGGCATAGCCACA
*
35181666 AGAACAGATATTTGTGGCGTAGCCACCA
1 AGAACAGATATTTGTGGCATAGCCA-CA
* * *
35181694 AAAATAGATATTTGTGGCATAGCCACC
1 AGAACAGATATTTGTGGCATAGCCACA
35181721 AGAACA
1 AGAACA
35181727 CTTCCTCTAT
Statistics
Matches: 70, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
26 10 0.14
27 37 0.53
28 23 0.33
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (27 bp):
AGAACAGATATTTGTGGCATAGCCACA
Found at i:35181726 original size:55 final size:53
Alignment explanation
Indices: 35181611--35181726 Score: 126
Period size: 54 Copynumber: 2.2 Consensus size: 53
35181601 AACATGGCTG
* * *
35181611 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTATGGCAAAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAAAAACAGATATTATGGCAAAGCCA
* * * * *
35181664 CTAGAACAGATATTTGTGGC-GTAGCCACCAAAAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAG-AGCCACCAAAAACAGATA-TTATGGCAAAGCCA
35181719 CCAGAACA
1 CCAGAACA
35181727 CTTCCTCTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 12 0.24
54 20 0.39
55 19 0.37
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAAAAACAGATATTATGGCAAAGCCA
Found at i:35181912 original size:28 final size:27
Alignment explanation
Indices: 35181855--35181914 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
35181845 ATTTTGCACC
*
35181855 TAGGGGTATAATAGTAATTTTTATTCT
1 TAGGGGTATAATAGTAATTTCTATTCT
**
35181882 TAGGGGTATTTTAGTAAATTTACTATT-T
1 TAGGGGTATAATAGT-AATTT-CTATTCT
35181910 TAGGG
1 TAGGG
35181915 TTTTCATGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.46
28 11 0.39
29 4 0.14
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (27 bp):
TAGGGGTATAATAGTAATTTCTATTCT
Found at i:35186175 original size:20 final size:20
Alignment explanation
Indices: 35186152--35186201 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
35186142 AAATTCAAAT
**
35186152 TAAAATACTAAAATTTTGGA
1 TAAAATACTAAAATTCAGGA
* *
35186172 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
35186192 TAAGAATACT
1 TAA-AATACT
35186202 GATGTGGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:35190865 original size:20 final size:20
Alignment explanation
Indices: 35190842--35190891 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
35190832 AAATTCAAAT
**
35190842 TAAAATACTAAAATTTTGGA
1 TAAAATACTAAAATTCAGGA
* *
35190862 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
35190882 TAAGAATACT
1 TAA-AATACT
35190892 GATGTGGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:35200360 original size:48 final size:48
Alignment explanation
Indices: 35200307--35200405 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
35200297 TTTTTCGAGT
*
35200307 GTTAGGTTGACTTAGATTTGAAGAGAAGCAATCGCCTAAGGCCTTGTG
1 GTTAGGTTGACTTAGATTTGAAGAGAAGCAATCGCCTAAGGCCGTGTG
35200355 GTTAGGTTGACTTAGATTTGAAGAGAAGCAATCGCCTAAGGCCGTGTG
1 GTTAGGTTGACTTAGATTTGAAGAGAAGCAATCGCCTAAGGCCGTGTG
35200403 GTT
1 GTT
35200406 TGCTAGACTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.29
Consensus pattern (48 bp):
GTTAGGTTGACTTAGATTTGAAGAGAAGCAATCGCCTAAGGCCGTGTG
Found at i:35201658 original size:18 final size:18
Alignment explanation
Indices: 35201616--35201658 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
35201606 CTTCTATTTG
* *
35201616 CTCCTCTTTAACACCTTG
1 CTCCTCTTTAAAACCTTC
* *
35201634 TTTCTCTTTAAAACCTTC
1 CTCCTCTTTAAAACCTTC
35201652 CTCCTCT
1 CTCCTCT
35201659 AGAAGGTATT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.37, G:0.02, T:0.44
Consensus pattern (18 bp):
CTCCTCTTTAAAACCTTC
Found at i:35202215 original size:24 final size:24
Alignment explanation
Indices: 35202187--35202239 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
35202177 TTAGTAAGTC
* *
35202187 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
35202211 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
35202235 AAATA
1 AAATA
35202240 TTCTAGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:35204165 original size:24 final size:24
Alignment explanation
Indices: 35204137--35204189 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
35204127 TTAGTAAGTC
* *
35204137 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
35204161 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
35204185 AAATA
1 AAATA
35204190 TTTTAGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:35216157 original size:25 final size:25
Alignment explanation
Indices: 35216107--35216184 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
35216097 GTACATGTAT
*
35216107 GCTCATATGAGCTGTAA-A-CGGTAA
1 GCTCATACGAGCTG-AATATCGGTAA
* *
35216131 GCTCATACGAGTTGAATATTGGTAA
1 GCTCATACGAGCTGAATATCGGTAA
*
35216156 GCTCATGCGAGCTGAATATCGGTAA
1 GCTCATACGAGCTGAATATCGGTAA
35216181 GCTC
1 GCTC
35216185 TCTCAAGTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 2 0.04
24 13 0.28
25 31 0.67
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGAATATCGGTAA
Found at i:35217082 original size:21 final size:21
Alignment explanation
Indices: 35217058--35217098 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35217048 GAAATTAAAT
35217058 TGTTTTAATTT-CACTTTAATA
1 TGTTTTAATTTCCA-TTTAATA
35217079 TGTTTTAATTTCCATTTAAT
1 TGTTTTAATTTCCATTTAAT
35217099 TATAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.59
Consensus pattern (21 bp):
TGTTTTAATTTCCATTTAATA
Found at i:35219414 original size:30 final size:31
Alignment explanation
Indices: 35219390--35219448 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
35219380 GTAAATACTC
*
35219390 AAAATTTGAGAGG-CTAA-AGTGTAAATATGA
1 AAAATTTGA-AGGACCAATAGTGTAAATATGA
35219420 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAATAGTGTAAATAT
35219449 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.12
30 12 0.46
31 11 0.42
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAATTTGAAGGACCAATAGTGTAAATATGA
Found at i:35219772 original size:176 final size:176
Alignment explanation
Indices: 35219478--35219830 Score: 697
Period size: 176 Copynumber: 2.0 Consensus size: 176
35219468 AGAAACTAAG
35219478 AAAAATGGATGAATTAGGAACAAATTGAATAGGTGAAGAACTATGAGGGACTAAATTGTAATTTT
1 AAAAATGGATGAATTAGGAACAAATTGAATAGGTGAAGAACTATGAGGGACTAAATTGTAATTTT
35219543 ACCAAATTAAATAATGGCTCAAGGATGGAATTTTAAAAGATAGTAAAGGGCAAAACGATCAATTG
66 ACCAAATTAAATAATGGCTCAAGGATGGAATTTTAAAAGATAGTAAAGGGCAAAACGATCAATTG
35219608 GAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGATGATATTTT
131 GAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGATGATATTTT
35219654 AAAAATGGATGAATTAGGAACAAATTGAATAGGTGAAGAACTATGAGGGACTAAATTGTAATTTT
1 AAAAATGGATGAATTAGGAACAAATTGAATAGGTGAAGAACTATGAGGGACTAAATTGTAATTTT
*
35219719 ACCAAATTAAATAATGGCTCGAGGATGGAATTTTAAAAGATAGTAAAGGGCAAAACGATCAATTG
66 ACCAAATTAAATAATGGCTCAAGGATGGAATTTTAAAAGATAGTAAAGGGCAAAACGATCAATTG
35219784 GAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGATGATATTTT
131 GAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGATGATATTTT
35219830 A
1 A
35219831 TAATTATTTA
Statistics
Matches: 176, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 176 1.00
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (176 bp):
AAAAATGGATGAATTAGGAACAAATTGAATAGGTGAAGAACTATGAGGGACTAAATTGTAATTTT
ACCAAATTAAATAATGGCTCAAGGATGGAATTTTAAAAGATAGTAAAGGGCAAAACGATCAATTG
GAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGATGATATTTT
Found at i:35219877 original size:21 final size:21
Alignment explanation
Indices: 35219851--35219899 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
35219841 ATTAGATAAA
35219851 TATTATTTTAATGAGA-TATTT
1 TATTATTTT-ATGAGATTATTT
* *
35219872 TATTATTTTATTATATTATTT
1 TATTATTTTATGAGATTATTT
35219893 TATTATT
1 TATTATT
35219900 ATTTATTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (21 bp):
TATTATTTTATGAGATTATTT
Found at i:35219883 original size:13 final size:13
Alignment explanation
Indices: 35219867--35219907 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
35219857 TTTAATGAGA
35219867 TATTTTATTATTT
1 TATTTTATTATTT
*
35219880 TATTATATTATTT
1 TATTTTATTATTT
35219893 TATTATTATTTATTT
1 TATT-TTA-TTATTT
35219908 AGTATAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.67
14 2 0.08
15 6 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TATTTTATTATTT
Found at i:35220476 original size:23 final size:22
Alignment explanation
Indices: 35220446--35220489 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
35220436 AAAATTGTAG
35220446 AAATTG-AATTACAAGTTGAATA
1 AAATTGAAATTA-AAGTTGAATA
*
35220468 AAATATGAAATTAAATTTGAAT
1 AAAT-TGAAATTAAAGTTGAAT
35220490 CTAGTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (22 bp):
AAATTGAAATTAAAGTTGAATA
Done.