Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 282 of 332
Found at i:94190571 original size:16 final size:16
Alignment explanation
Indices: 94190550--94190613 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
94190540 TTGATTTGCT
*
94190550 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
94190566 ATTACGCCTC-ATTCC
1 ATTACGCCTCTATTCC
*
94190581 ATTACGCTTCTATTCC
1 ATTACGCCTCTATTCC
94190597 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
94190613 A
1 A
94190614 ATACAGCGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
15 14 0.32
16 30 0.68
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:94190585 original size:31 final size:32
Alignment explanation
Indices: 94190550--94190613 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
94190540 TTGATTTGCT
94190550 ATTACGCATCTATTCCATTACGCCTC-ATTCC
1 ATTACGCATCTATTCCATTACGCCTCTATTCC
*
94190581 ATTACGCTTCTATTCCATTACGCCTCTATTCC
1 ATTACGCATCTATTCCATTACGCCTCTATTCC
94190613 A
1 A
94190614 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (32 bp):
ATTACGCATCTATTCCATTACGCCTCTATTCC
Found at i:94190776 original size:14 final size:14
Alignment explanation
Indices: 94190757--94190795 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
94190747 GTTTGACAGA
94190757 TTTCCTGAAAATAT
1 TTTCCTGAAAATAT
94190771 TTTCCTGAAAATAT
1 TTTCCTGAAAATAT
*
94190785 TTTCCAGAAAA
1 TTTCCTGAAAA
94190796 GCTGTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (14 bp):
TTTCCTGAAAATAT
Found at i:94193784 original size:18 final size:18
Alignment explanation
Indices: 94193761--94193802 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
94193751 GTGTTATTTA
94193761 AAAACGAGTATCATTTTG
1 AAAACGAGTATCATTTTG
*
94193779 AAAACGAGTATCGTTTTG
1 AAAACGAGTATCATTTTG
94193797 AAAACG
1 AAAACG
94193803 CGCCCTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (18 bp):
AAAACGAGTATCATTTTG
Found at i:94199016 original size:19 final size:19
Alignment explanation
Indices: 94198992--94199042 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
94198982 AAATTTAGTC
94198992 CTATATTTATTTTATTATT
1 CTATATTTATTTTATTATT
*
94199011 CTATATATATTTTATTATT
1 CTATATTTATTTTATTATT
* *
94199030 -TGTTTTTATTTTA
1 CTATATTTATTTTA
94199043 ATTTTACTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (19 bp):
CTATATTTATTTTATTATT
Found at i:94199098 original size:24 final size:24
Alignment explanation
Indices: 94199064--94199144 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
94199054 TAAAATTATT
* *
94199064 TTATAAGTGTTATTTTTATATGTA
1 TTATAATTGTTATTTTTATATATA
* *
94199088 TTATAATTGTTTATTATATATTAATTCTA
1 TTATAATTG-TTATT-TTTA-T-A-TATA
* *
94199117 TCATAATTATTATTTTTATATATA
1 TTATAATTGTTATTTTTATATATA
94199141 TTAT
1 TTAT
94199145 TATATTTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
24 14 0.32
25 6 0.14
26 4 0.09
27 4 0.09
28 6 0.14
29 10 0.23
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.59
Consensus pattern (24 bp):
TTATAATTGTTATTTTTATATATA
Found at i:94199146 original size:21 final size:21
Alignment explanation
Indices: 94199122--94199186 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
94199112 TTCTATCATA
94199122 ATTATTATTTTTATATATATT
1 ATTATTATTTTTATATATATT
*
94199143 ATTA-TATTTTTACATATATT
1 ATTATTATTTTTATATATATT
* *
94199163 ATATATT-TATTTATACATATT
1 AT-TATTATTTTTATATATATT
94199184 ATT
1 ATT
94199187 TTTACGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 18 0.47
21 19 0.50
22 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTATTTTTATATATATT
Found at i:94199147 original size:18 final size:18
Alignment explanation
Indices: 94199073--94199190 Score: 93
Period size: 18 Copynumber: 6.5 Consensus size: 18
94199063 TTTATAAGTG
*
94199073 TTATTTTTATATGTATTA
1 TTATTTTTATATATATTA
*
94199091 TAATTGTTTAT-TATA-TA
1 TTATT-TTTATATATATTA
* *
94199108 TTAATTCTATCATA-ATTA
1 TTATTTTTAT-ATATATTA
94199126 TTATTTTTATATATATTA
1 TTATTTTTATATATATTA
*
94199144 TTATATTTTTACATATATTA
1 -T-TATTTTTATATATATTA
*
94199164 TATATTTATT-TATACA-TA
1 T-TATTT-TTATATATATTA
94199182 TTATTTTTA
1 TTATTTTTA
94199191 CGTATAAATT
Statistics
Matches: 81, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
16 6 0.07
17 14 0.17
18 26 0.32
19 17 0.21
20 18 0.22
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (18 bp):
TTATTTTTATATATATTA
Found at i:94199179 original size:23 final size:24
Alignment explanation
Indices: 94199133--94199182 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
94199123 TTATTATTTT
*
94199133 TATATATATTATTATATTTTTACA
1 TATATATATTATTATATTTATACA
94199157 TATAT-TATATATT-TATTTATACA
1 TATATATAT-TATTATATTTATACA
94199180 TAT
1 TAT
94199183 TATTTTTACG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATATATTATTATATTTATACA
Found at i:94199568 original size:7 final size:7
Alignment explanation
Indices: 94199556--94199581 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
94199546 ATATTCTTGT
94199556 TATTATA
1 TATTATA
94199563 TATTATA
1 TATTATA
94199570 TATTATA
1 TATTATA
94199577 TATTA
1 TATTA
94199582 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:94211523 original size:16 final size:16
Alignment explanation
Indices: 94211502--94211561 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
94211492 TTATAAATGT
94211502 TTATTCCATTCCTACC
1 TTATTCCATTCCTACC
* * **
94211518 TTATTCCAATCAATAAT
1 TTATTCCATTC-CTACC
*
94211535 TTGTTCCATTCCTACC
1 TTATTCCATTCCTACC
*
94211551 CTATTCCATTC
1 TTATTCCATTC
94211562 AATGAACCAA
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
16 21 0.66
17 11 0.34
ACGTcount: A:0.23, C:0.32, G:0.02, T:0.43
Consensus pattern (16 bp):
TTATTCCATTCCTACC
Found at i:94222697 original size:41 final size:41
Alignment explanation
Indices: 94222635--94222717 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
94222625 TAATGGTGGA
*
94222635 TTGATTTAAATTTTGTTAAGTTACTTATTATTGAAATTTAT
1 TTGACTTAAATTTTGTTAAGTTACTTATTATTGAAATTTAT
94222676 TTGACTTAAATTTTGTTAAGTTACTTATTATTGAAATTTAT
1 TTGACTTAAATTTTGTTAAGTTACTTATTATTGAAATTTAT
94222717 T
1 T
94222718 GGTTCTTATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (41 bp):
TTGACTTAAATTTTGTTAAGTTACTTATTATTGAAATTTAT
Found at i:94223924 original size:31 final size:29
Alignment explanation
Indices: 94223851--94223924 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
94223841 GGTCAAATAT
*
94223851 AAATTTATGTATAAAATTATACAAAATCA
1 AAATTAATGTATAAAATTATACAAAATCA
* * * *
94223880 AAATTCATATATAAAATTATATATTAGATCA
1 AAATTAATGTATAAAATTATACA--AAATCA
*
94223911 AAGTTAATGTATAA
1 AAATTAATGTATAA
94223925 TTTTGAGATT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 20 0.56
31 16 0.44
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (29 bp):
AAATTAATGTATAAAATTATACAAAATCA
Found at i:94230180 original size:59 final size:59
Alignment explanation
Indices: 94230116--94230254 Score: 167
Period size: 60 Copynumber: 2.3 Consensus size: 59
94230106 CCCAACTGTG
*
94230116 CTGATATGGGCAAGGCCCAATAT-ATCTCG-ACTTGTATA-GGGCTACGGCCCAGATTAATA
1 CTGATATGGGCAAGGCCCAATATGCTCT-GTAC-TGTA-AGGGGCTACGGCCCAGATTAATA
* * *
94230175 CTGATATGGGCTAGGCCCAGTATGCTCTGTTACTGTAAGGGGCTATGGCCCAGATTAATA
1 CTGATATGGGCAAGGCCCAATATGCTCTG-TACTGTAAGGGGCTACGGCCCAGATTAATA
*
94230235 TTGATATGGGCTAAGGCCCA
1 CTGATATGGGC-AAGGCCCA
94230255 GTTAACACTA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
59 23 0.33
60 37 0.54
61 9 0.13
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (59 bp):
CTGATATGGGCAAGGCCCAATATGCTCTGTACTGTAAGGGGCTACGGCCCAGATTAATA
Found at i:94231878 original size:13 final size:13
Alignment explanation
Indices: 94231862--94231886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94231852 TTTGAGAAGG
94231862 GATTTGGATATGA
1 GATTTGGATATGA
94231875 GATTTGGATATG
1 GATTTGGATATG
94231887 CTGATGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (13 bp):
GATTTGGATATGA
Found at i:94231985 original size:28 final size:28
Alignment explanation
Indices: 94231932--94232015 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
94231922 CACTTTGTGC
94231932 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
94231961 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
94231989 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
94232016 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:94232027 original size:23 final size:24
Alignment explanation
Indices: 94231936--94232029 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
94231926 TTGTGCTATT
94231936 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
94231963 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
94231993 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
94232016 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
94232030 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:94232289 original size:21 final size:21
Alignment explanation
Indices: 94232241--94232292 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
94232231 ATGTATCGTA
*
94232241 TTTCAGGCACCTTGTGTGTCG
1 TTTCAGGCACCTCGTGTGTCG
***
94232262 CAGCAGGCACCTCGTGTGTCG
1 TTTCAGGCACCTCGTGTGTCG
94232283 TTTCAGGCAC
1 TTTCAGGCAC
94232293 TTATGTGTCG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.29, G:0.29, T:0.29
Consensus pattern (21 bp):
TTTCAGGCACCTCGTGTGTCG
Found at i:94235422 original size:16 final size:17
Alignment explanation
Indices: 94235397--94235430 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
94235387 TAATGTCTAG
94235397 GAAAAGTA-TTAATTGA
1 GAAAAGTATTTAATTGA
*
94235413 GAAAATTATTTAATTGA
1 GAAAAGTATTTAATTGA
94235430 G
1 G
94235431 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (17 bp):
GAAAAGTATTTAATTGA
Found at i:94240010 original size:11 final size:11
Alignment explanation
Indices: 94239996--94240034 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
94239986 TTTCAATATT
94239996 CTCTCAAATTC
1 CTCTCAAATTC
94240007 CTCTCAAA-T-
1 CTCTCAAATTC
*
94240016 CTCTTAAATTC
1 CTCTCAAATTC
94240027 CTCTCAAA
1 CTCTCAAA
94240035 ACTCTCGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 7 0.29
10 2 0.08
11 15 0.62
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:94240024 original size:20 final size:20
Alignment explanation
Indices: 94239995--94240040 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
94239985 CTTTCAATAT
94239995 TCTCTCAAATTCCTCTCAAA
1 TCTCTCAAATTCCTCTCAAA
*
94240015 TCTCTTAAATTCCTCTCAAA
1 TCTCTCAAATTCCTCTCAAA
*
94240035 ACTCTC
1 TCTCTC
94240041 GTTAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.35, G:0.00, T:0.37
Consensus pattern (20 bp):
TCTCTCAAATTCCTCTCAAA
Found at i:94241209 original size:7 final size:7
Alignment explanation
Indices: 94241197--94241223 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
94241187 TAGTGGATTC
94241197 GTATTTA
1 GTATTTA
94241204 GTATTTA
1 GTATTTA
94241211 GTATTTA
1 GTATTTA
94241218 GTATTT
1 GTATTT
94241224 TTTATTTAAC
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:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:94241862 original size:18 final size:18
Alignment explanation
Indices: 94241839--94241881 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
94241829 TGCCAGGTAC
94241839 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTTTAT
94241857 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTTTAT
*
94241875 GTTTCCT
1 GTATCCT
94241882 TTTTCTAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.28, G:0.12, T:0.47
Consensus pattern (18 bp):
GTATCCTAGCCCTTTTAT
Found at i:94242516 original size:55 final size:56
Alignment explanation
Indices: 94242338--94242520 Score: 162
Period size: 55 Copynumber: 3.2 Consensus size: 56
94242328 AATTGTAATT
* *
94242338 TACTTTTATA-TTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAA
1 TACTTTTATATTTTTTAATAAAATGAAAATTATTTTAAATAAAGCAACATTTTGAA
* * * * * * *
94242393 CATTTTTATATTATTTCATGTAATTAGAT-AAAATGTTGTTTTAAATAAAG-TA-ATTAT-AA
1 TACTTTTATA-T-TTT--T-TAATAAAATGAAAA--TTATTTTAAATAAAGCAACATTTTGAA
94242452 TTTACTTTTATATTTTTTAATAAAATGAAAATTATTTTAAATAAAGCAACATTTTGAA
1 --TACTTTTATATTTTTTAATAAAATGAAAATTATTTTAAATAAAGCAACATTTTGAA
94242510 TA-TTTTATATT
1 TACTTTTATATT
94242521 ATTTCATGTA
Statistics
Matches: 98, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
55 31 0.32
56 10 0.10
57 9 0.09
58 5 0.05
59 5 0.05
60 9 0.09
61 16 0.16
62 13 0.13
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (56 bp):
TACTTTTATATTTTTTAATAAAATGAAAATTATTTTAAATAAAGCAACATTTTGAA
Found at i:94242516 original size:116 final size:115
Alignment explanation
Indices: 94242266--94242532 Score: 435
Period size: 116 Copynumber: 2.3 Consensus size: 115
94242256 TATTTGTACA
* *
94242266 AACATTTTGAATCTTTTTATATTATTTCATATAATTAGATAAAAGGTTGTTTTAAATAAAATAAT
1 AACATTTTGAAT-ATTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAATAAT
* * *
94242331 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
65 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
* * *
94242382 AACATTTTGAACATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATA-TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAATAAT
94242447 TATAATTTACTTTTATATTTTTTAATAAAATGAAAATTATTTTAAATAAAGC
65 TATAATTTACTTTTATA-TTTTTAATAAAATGAAAATTATTTTAAATAAAGC
94242499 AACATTTTGAATATTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTATATTATTTCATGTAAT
94242533 AAAATATAAA
Statistics
Matches: 140, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
116 96 0.69
117 44 0.31
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.48
Consensus pattern (115 bp):
AACATTTTGAATATTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAATAATT
ATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
Found at i:94244401 original size:26 final size:26
Alignment explanation
Indices: 94244372--94244424 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
94244362 CAACGAGGAG
94244372 TAGATTTTCCATGAACAACTTCCGTC
1 TAGATTTTCCATGAACAACTTCCGTC
94244398 TAGATTTTCCATGAACAACTTCCGTC
1 TAGATTTTCCATGAACAACTTCCGTC
94244424 T
1 T
94244425 TGCACTGCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (26 bp):
TAGATTTTCCATGAACAACTTCCGTC
Found at i:94246107 original size:126 final size:126
Alignment explanation
Indices: 94245575--94246121 Score: 776
Period size: 126 Copynumber: 4.3 Consensus size: 126
94245565 GCCCAAGTTA
* * ** * *
94245575 TTTCAGAAACCACTGTAGCAAAAGAGATTCCACGTGGGAGATTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGAAAA
** *
94245640 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACATCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * *
94245701 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
94245766 TGCATCCTGCTTGAAGCGTTTTT-ACCAATATTTGCGCAGACACGTCTTCTTAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
94245827 TTTCAGAGACTACTGTAGCAAAAGAGCGCCCACGT-AGAAGCTTCTTTCAGTACTTTTGCTGACA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGAG-AGCTTCTTTCAGTACTTTTGCTGAAA
* * *
94245891 ATTCATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
65 ATGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
94245953 TTTCAGATACTACTGTAGCAAAATAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * * *
94246018 TGCATCTTGCTTGAAGTGTTTTCGACACTATTTGTGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
94246079 TTTCAGAGACTACTGTAGCAAAAGAGCGTCTACGT-AGAAGCTT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGAG-AGCTT
94246122 TTTTAGATTA
Statistics
Matches: 380, Mismatches: 36, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
125 4 0.01
126 373 0.98
127 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:94246217 original size:15 final size:15
Alignment explanation
Indices: 94246197--94246225 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94246187 TTCTTAAATG
94246197 CCCTAAAATCCTAAA
1 CCCTAAAATCCTAAA
94246212 CCCTAAAATCCTAA
1 CCCTAAAATCCTAA
94246226 TCTATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAAATCCTAAA
Found at i:94246416 original size:16 final size:17
Alignment explanation
Indices: 94246395--94246436 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
94246385 TTTTCCCCTT
94246395 AAAACCCTAAAATT-TA
1 AAAACCCTAAAATTCTA
*
94246411 AAAACCC-AAAATTCTC
1 AAAACCCTAAAATTCTA
94246427 AAAACCCTAA
1 AAAACCCTAA
94246437 CCCTAATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAACCCTAAAATTCTA
Found at i:94247378 original size:15 final size:16
Alignment explanation
Indices: 94247352--94247381 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
94247342 AACAAACCAA
94247352 CAAAACCAAAATAAAG
1 CAAAACCAAAATAAAG
94247368 CAAAA-CAAAATAAA
1 CAAAACCAAAATAAA
94247382 AAATATCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.17, G:0.03, T:0.07
Consensus pattern (16 bp):
CAAAACCAAAATAAAG
Found at i:94249922 original size:49 final size:48
Alignment explanation
Indices: 94249850--94249942 Score: 159
Period size: 49 Copynumber: 1.9 Consensus size: 48
94249840 TGCTATACAA
*
94249850 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATATGT
1 TGCTAAACTTAGTCTTCCACTGTC-ACACTCTTATCACTATTTATATGT
*
94249899 TGCTAAACTTAGTCTTCCACTGTCACATTCTTATCACTATTTAT
1 TGCTAAACTTAGTCTTCCACTGTCACACTCTTATCACTATTTAT
94249943 CCCTTATTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 19 0.45
49 23 0.55
ACGTcount: A:0.24, C:0.25, G:0.09, T:0.43
Consensus pattern (48 bp):
TGCTAAACTTAGTCTTCCACTGTCACACTCTTATCACTATTTATATGT
Found at i:94251277 original size:43 final size:43
Alignment explanation
Indices: 94251227--94251312 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
94251217 TCATATCTCA
94251227 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
* * *
94251270 TTTCTCATCTCATATTCATTTCTCATCTTTGCCGTTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
94251313 CAATCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.22, C:0.24, G:0.03, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
Found at i:94255116 original size:52 final size:52
Alignment explanation
Indices: 94255018--94255116 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 52
94255008 ACATGTGAAG
* *
94255018 CATCCGAGCTCGTTGAGTTGGTTCGAGTTCATAATGGATACGATACAAGTGA
1 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATACAATACAAGTGA
* * * *
94255070 CATCTGAGCTCGTTGAGTTGGTCCGATTTCATTATGGATGCAATACA
1 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATACAATACA
94255117 TGTAATTAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (52 bp):
CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATACAATACAAGTGA
Found at i:94259199 original size:21 final size:22
Alignment explanation
Indices: 94259155--94259199 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
94259145 TTAAGTATTT
*
94259155 AAACTTTTAAAATGTATTAAAA
1 AAACTTTTAAAATGTATAAAAA
*
94259177 AAACTTTTAAACT-T-TAAAAA
1 AAACTTTTAAAATGTATAAAAA
94259197 AAA
1 AAA
94259200 TAATTAAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 12 0.57
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (22 bp):
AAACTTTTAAAATGTATAAAAA
Found at i:94259310 original size:20 final size:20
Alignment explanation
Indices: 94259287--94259403 Score: 77
Period size: 19 Copynumber: 6.2 Consensus size: 20
94259277 TTAAATTTTA
94259287 ATAAAAAAATTATTAAAAAT
1 ATAAAAAAATTATTAAAAAT
* *
94259307 AT--AAAAATTGTAAAAAAT
1 ATAAAAAAATTATTAAAAAT
* *
94259325 AT-AAAAAATT-GTAAAATT
1 ATAAAAAAATTATTAAAAAT
* * *
94259343 TTATAAAAATCA-TAAAAAT
1 ATAAAAAAATTATTAAAAAT
* * *
94259362 ATTATAAAA-TATATAGAAAT
1 ATAAAAAAATTAT-TAAAAAT
*
94259382 ATAAAAAAATTA-TAAAATT
1 ATAAAAAAATTATTAAAAAT
94259401 ATA
1 ATA
94259404 TTAAGTCTTA
Statistics
Matches: 72, Mismatches: 19, Indels: 13
0.69 0.18 0.12
Matches are distributed among these distances:
18 23 0.32
19 32 0.44
20 15 0.21
21 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAAAAAAATTATTAAAAAT
Found at i:94259312 original size:18 final size:18
Alignment explanation
Indices: 94259286--94259388 Score: 68
Period size: 18 Copynumber: 5.6 Consensus size: 18
94259276 ATTAAATTTT
*
94259286 AATAAAAAAATTATTAAA
1 AATATAAAAATTATTAAA
* *
94259304 AATATAAAAATTGTAAAA
1 AATATAAAAATTATTAAA
*
94259322 AATATAAAAAATT-GTAAA
1 AATAT-AAAAATTATTAAA
* *
94259340 ATTTTATAAAAATCA-TAAA
1 A--ATATAAAAATTATTAAA
*
94259359 AATATTATAAAA-TATATAGA
1 AATA-TA-AAAATTAT-TAAA
94259379 AATATAAAAA
1 AATATAAAAA
94259389 AATTATAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
17 2 0.03
18 31 0.46
19 24 0.36
20 10 0.15
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (18 bp):
AATATAAAAATTATTAAA
Found at i:94259313 original size:9 final size:9
Alignment explanation
Indices: 94259286--94259389 Score: 61
Period size: 9 Copynumber: 11.2 Consensus size: 9
94259276 ATTAAATTTT
94259286 AATA-AAAA
1 AATATAAAA
*
94259294 AATTATTAAA
1 AA-TATAAAA
94259304 AATATAAAA
1 AATATAAAA
* *
94259313 ATTGTAAAA
1 AATATAAAA
94259322 AATATAAAA
1 AATATAAAA
*
94259331 AAT-TGTAAA
1 AATAT-AAAA
* *
94259340 ATTTTATAAA
1 AATATA-AAA
94259350 AATCAT-AAA
1 AAT-ATAAAA
*
94259359 AATATTATAA
1 AATA-TAAAA
*
94259369 AATATATAGA
1 AATATA-AAA
94259379 AATATAAAA
1 AATATAAAA
94259388 AA
1 AA
94259390 ATTATAAAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 17
0.69 0.14 0.16
Matches are distributed among these distances:
8 4 0.06
9 43 0.60
10 24 0.33
11 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (9 bp):
AATATAAAA
Found at i:94259372 original size:10 final size:10
Alignment explanation
Indices: 94259269--94259399 Score: 71
Period size: 10 Copynumber: 13.4 Consensus size: 10
94259259 TAAAAGCTAT
*
94259269 AAATATTATT
1 AAATATTATA
*
94259279 AAATTTTAATAA
1 AAATATT-AT-A
*
94259291 AAAAATTATTA
1 AAATATTA-TA
94259302 AAA-A-TATA
1 AAATATTATA
*
94259310 AAA-ATTGTA
1 AAATATTATA
*
94259319 AAA-AATATA
1 AAATATTATA
* *
94259328 AAAAATTGTA
1 AAATATTATA
*
94259338 AAATTTTATA
1 AAATATTATA
*
94259348 AAA-ATCATAA
1 AAATATTAT-A
94259358 AAATATTATA
1 AAATATTATA
94259368 AAATA-TATA
1 AAATATTATA
94259377 GAAATA-TA-A
1 -AAATATTATA
*
94259386 AAAAATTATA
1 AAATATTATA
94259396 AAAT
1 AAAT
94259400 TATATTAAGT
Statistics
Matches: 94, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
8 10 0.11
9 25 0.27
10 42 0.45
11 11 0.12
12 6 0.06
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (10 bp):
AAATATTATA
Found at i:94259385 original size:28 final size:28
Alignment explanation
Indices: 94259291--94259404 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 28
94259281 ATTTTAATAA
* *
94259291 AAAAATTATTAAAAA-TATAAAAATTGTA-
1 AAAAA-TATAAAAAATTAT-AAAATTATAT
* *
94259319 AAAAATATAAAAAATTGTAAAATTTTAT
1 AAAAATATAAAAAATTATAAAATTATAT
94259347 AAAAATCATAAAAATATTATAAAA-TATAT
1 AAAAAT-ATAAAAA-ATTATAAAATTATAT
*
94259376 AGAAATATAAAAAAATTATAAAATTATAT
1 AAAAATAT-AAAAAATTATAAAATTATAT
94259405 TAAGTCTTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
27 16 0.22
28 24 0.32
29 26 0.35
30 8 0.11
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAATATAAAAAATTATAAAATTATAT
Found at i:94259676 original size:37 final size:38
Alignment explanation
Indices: 94259608--94259701 Score: 95
Period size: 38 Copynumber: 2.5 Consensus size: 38
94259598 AGTCGTTAAT
* * * *
94259608 TTTTTTATGATTTTT-ATAAAATTTTACAATTTTT-TTTA
1 TTTTTTA-GATTTTTAAAAAAATTCTA-AATTTTTAATAA
94259646 TTTTTTACGATTTTTAAAAAAATTCT-AATTTTTAATAA
1 TTTTTTA-GATTTTTAAAAAAATTCTAAATTTTTAATAA
*
94259684 TTTTTTAAATTTTTAAAA
1 TTTTTTAGATTTTTAAAA
94259702 TTTTTATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
37 17 0.35
38 23 0.48
39 8 0.17
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (38 bp):
TTTTTTAGATTTTTAAAAAAATTCTAAATTTTTAATAA
Found at i:94259686 original size:10 final size:10
Alignment explanation
Indices: 94259671--94259727 Score: 64
Period size: 10 Copynumber: 5.9 Consensus size: 10
94259661 AAAAAAATTC
94259671 TAATTTTTAA
1 TAATTTTTAA
*
94259681 TAATTTTTTA
1 TAATTTTTAA
94259691 -AATTTTTAA
1 TAATTTTTAA
*
94259700 -AATTTTTAT
1 TAATTTTTAA
**
94259709 TAAAATTTAA
1 TAATTTTTAA
94259719 TAATTTTTA
1 TAATTTTTA
94259728 TAAAATTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
9 16 0.42
10 22 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:94259694 original size:9 final size:9
Alignment explanation
Indices: 94259672--94259707 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
94259662 AAAAAATTCT
94259672 AATTTTTAA
1 AATTTTTAA
*
94259681 TAATTTTTTA
1 -AATTTTTAA
94259691 AATTTTTAA
1 AATTTTTAA
94259700 AATTTTTA
1 AATTTTTA
94259708 TTAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
AATTTTTAA
Found at i:94259732 original size:19 final size:19
Alignment explanation
Indices: 94259676--94259765 Score: 87
Period size: 19 Copynumber: 4.7 Consensus size: 19
94259666 AATTCTAATT
*
94259676 TTTAATAATTTTT-TAAATT
1 TTTAATAATTTTTATAAA-A
94259695 TTTAA-AATTTTTATTAAAA
1 TTTAATAATTTTTA-TAAAA
94259714 TTTAATAATTTTTATAAAA
1 TTTAATAATTTTTATAAAA
* *
94259733 TTT-ATTATTTGTTATAAAT
1 TTTAATAATTT-TTATAAAA
**
94259752 TTTTCTAATTTTTA
1 TTTAATAATTTTTA
94259766 ATATTAGCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
18 13 0.21
19 31 0.51
20 17 0.28
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (19 bp):
TTTAATAATTTTTATAAAA
Found at i:94259765 original size:29 final size:28
Alignment explanation
Indices: 94259671--94259770 Score: 78
Period size: 29 Copynumber: 3.5 Consensus size: 28
94259661 AAAAAAATTC
*
94259671 TAATTTTTAATAATTTTT-TAAATTTTTA
1 TAATTTTT-ATTATTTTTATAAATTTTTA
* **
94259699 AAATTTTTATTAAAATTTA-ATAATTTTTA
1 TAATTTTTATT-ATTTTTATA-AATTTTTA
** *
94259728 TAAAATTTATTATTTGTTATAAATTTTTC
1 TAATTTTTATTATTT-TTATAAATTTTTA
*
94259757 TAATTTTTAATATT
1 TAATTTTTATTATT
94259771 AGCATGGGCT
Statistics
Matches: 54, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
27 2 0.04
28 14 0.26
29 37 0.69
30 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (28 bp):
TAATTTTTATTATTTTTATAAATTTTTA
Found at i:94259907 original size:90 final size:90
Alignment explanation
Indices: 94259776--94259955 Score: 227
Period size: 90 Copynumber: 2.0 Consensus size: 90
94259766 ATATTAGCAT
* * * * * * * *
94259776 GGGCTTAATTGTTTTTTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAACTTTAAGT
1 GGGCTTAATTG-TCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTAATACATTTTAAAAATTTAAAT
94259841 ACCCAATTGAGTGAAAAAGAAAAGAAA
65 ACCCAATTGAGTGAAAAA-AAAAGAAA
*
94259868 GGGCTTAATTG-CTTTTTTTGAAGAAGTTTGAGGGCCTTTTTAATACATTTTAAAAATTTAAATA
1 GGGCTTAATTGTCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTAATACATTTTAAAAATTTAAATA
** *
94259932 TTCAATTGAGTGCAAAAAAAAGAA
66 CCCAATTGAGTGAAAAAAAAAGAA
94259956 GAGATTTGAT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
89 7 0.09
90 58 0.76
92 11 0.14
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (90 bp):
GGGCTTAATTGTCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTAATACATTTTAAAAATTTAAATA
CCCAATTGAGTGAAAAAAAAAGAAA
Found at i:94260338 original size:22 final size:22
Alignment explanation
Indices: 94260296--94260336 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
94260286 TTTTTATACA
94260296 ATTTATTATTATTATATAAATT
1 ATTTATTATTATTATATAAATT
94260318 ATTT-TTATATATTA-ATAAA
1 ATTTATTAT-TATTATATAAA
94260337 ATCGATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTATTATTATTATATAAATT
Found at i:94261741 original size:4 final size:4
Alignment explanation
Indices: 94261732--94261764 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
94261722 AAGCTTCTAC
94261732 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
94261765 TTTCTATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:94270878 original size:27 final size:26
Alignment explanation
Indices: 94270836--94270905 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
94270826 TAGTACAAAT
*
94270836 AATAAAAATAAAAATAAAAACAAAAAA
1 AATAAGAAT-AAAATAAAAACAAAAAA
* *
94270863 AATAAGAATAAGAATAAATACCAAAAA
1 AATAAGAATAA-AATAAAAACAAAAAA
*
94270890 GA-AAG-ATAAAATAAAA
1 AATAAGAATAAAATAAAA
94270906 TAAATCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 6 0.16
25 4 0.11
26 5 0.14
27 22 0.59
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (26 bp):
AATAAGAATAAAATAAAAACAAAAAA
Found at i:94275140 original size:14 final size:14
Alignment explanation
Indices: 94275121--94275147 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94275111 GCAAACAAAA
94275121 TAAAAATTAAATTG
1 TAAAAATTAAATTG
94275135 TAAAAATTAAATT
1 TAAAAATTAAATT
94275148 AAAACAAAAA
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:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
TAAAAATTAAATTG
Found at i:94279797 original size:56 final size:56
Alignment explanation
Indices: 94279708--94279861 Score: 202
Period size: 56 Copynumber: 2.8 Consensus size: 56
94279698 GGAATGTTAG
* ** * * *
94279708 GATATTATTATGAGATATTATATTTTAGTAATTTGATTCCTAATGGGATGTTATAA
1 GATATTATTATGAGATATTATCTCCTAGCAATTTGATTCCTAATGAGATATTATAA
* *
94279764 GATATTATTATTG-GATATTCTCTCCTAGCAATTTGATTCCTAATGAGATATTATAT
1 GATATTATTA-TGAGATATTATCTCCTAGCAATTTGATTCCTAATGAGATATTATAA
**
94279820 GATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTA
1 GATATTATTATGAGATATTATCTCCTAGCAATTTGATTCCTA
94279862 TACATCTCCT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
55 2 0.02
56 81 0.95
57 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (56 bp):
GATATTATTATGAGATATTATCTCCTAGCAATTTGATTCCTAATGAGATATTATAA
Found at i:94280000 original size:10 final size:12
Alignment explanation
Indices: 94279974--94280023 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
94279964 CTATCACATA
94279974 ATATTTAATAAT
1 ATATTTAATAAT
94279986 ATATTTAA-AAT
1 ATATTTAATAAT
*
94279997 -TATTT-TTAAT
1 ATATTTAATAAT
94280007 ATCAGTTTAATAAT
1 AT-A-TTTAATAAT
94280021 ATA
1 ATA
94280024 ATAAAGAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
10 8 0.26
11 4 0.13
12 9 0.29
13 4 0.13
14 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:94289708 original size:15 final size:15
Alignment explanation
Indices: 94289688--94289739 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
94289678 ACTACAAAAC
94289688 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
94289703 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
94289722 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
94289737 ATT
1 ATT
94289740 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:94289809 original size:13 final size:14
Alignment explanation
Indices: 94289771--94289812 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
94289761 TATGTGAATA
94289771 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
94289786 ATAATTTTTAAAATT
1 AT-ATTATTAAAATT
94289801 -TATTATTAAAAT
1 ATATTATTAAAAT
94289813 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:94289847 original size:16 final size:15
Alignment explanation
Indices: 94289828--94289857 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
94289818 TAAAATATTA
94289828 AATAATTTATTATTTT
1 AATAATTTA-TATTTT
94289844 AATAATTTATATTT
1 AATAATTTATATTT
94289858 ATTATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATAATTTATATTTT
Found at i:94289857 original size:22 final size:22
Alignment explanation
Indices: 94289832--94289875 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
94289822 ATATTAAATA
*
94289832 ATTTATTATTTTAATAATTTAT
1 ATTTATTATATTAATAATTTAT
*
94289854 ATTTATTATATTAATAGTTTAT
1 ATTTATTATATTAATAATTTAT
94289876 TATATGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTATTATATTAATAATTTAT
Found at i:94290417 original size:31 final size:32
Alignment explanation
Indices: 94290375--94290435 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
94290365 TTTTATTTTA
* *
94290375 TCAATTTTAGTCCTTATA-TTTTTCAAATTGG
1 TCAATTCTAGTCATTATACTTTTTCAAATTGG
*
94290406 TCAATTCTAGTCATTGTACTTTTTCAAATT
1 TCAATTCTAGTCATTATACTTTTTCAAATT
94290436 TGAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (32 bp):
TCAATTCTAGTCATTATACTTTTTCAAATTGG
Found at i:94296455 original size:46 final size:46
Alignment explanation
Indices: 94296403--94296766 Score: 502
Period size: 46 Copynumber: 8.0 Consensus size: 46
94296393 GCTATCTGAA
** *
94296403 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
94296449 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-ACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
94296494 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
94296540 ATGAAA-GAATAAGACCATGGTTGAAAGATACTATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
94296585 -TGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 AT-GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
94296631 ATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
94296677 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
94296723 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
94296767 TCAAAGATAA
Statistics
Matches: 291, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
44 1 0.00
45 83 0.29
46 206 0.71
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:94305390 original size:29 final size:29
Alignment explanation
Indices: 94305357--94305421 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
94305347 TTGACCCAGA
* *
94305357 GTGTGTCTTACA-TGGTCTAGCATATGGTC
1 GTGTGTCTTACACT-GTCTAGCATACGGCC
* *
94305386 GTGTGTCTTATACTGTCTAGTATACGGCC
1 GTGTGTCTTACACTGTCTAGCATACGGCC
94305415 GTGTGTC
1 GTGTGTC
94305422 ACACATGGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.38
Consensus pattern (29 bp):
GTGTGTCTTACACTGTCTAGCATACGGCC
Found at i:94312470 original size:30 final size:30
Alignment explanation
Indices: 94312413--94312470 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
94312403 AATAGTCTTT
**
94312413 ATCTTTATAATTTTTAAAAGATTAAATTAA
1 ATCTTTATAATTTTTAAAAGAACAAATTAA
* **
94312443 ATCTTTATCATTTTTAAGGGAACAAATT
1 ATCTTTATAATTTTTAAAAGAACAAATT
94312471 GTAATTTTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (30 bp):
ATCTTTATAATTTTTAAAAGAACAAATTAA
Found at i:94319897 original size:22 final size:22
Alignment explanation
Indices: 94319872--94319914 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
94319862 TATCCAAACA
94319872 ATAAAAATAAAATAATAGCAAC
1 ATAAAAATAAAATAATAGCAAC
* * *
94319894 ATAATAGTAAAATAGTAGCAA
1 ATAAAAATAAAATAATAGCAA
94319915 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAAAAATAAAATAATAGCAAC
Found at i:94319919 original size:11 final size:11
Alignment explanation
Indices: 94319880--94319918 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
94319870 CAATAAAAAT
94319880 AAAATAATAGC
1 AAAATAATAGC
* *
94319891 AACATAATAGT
1 AAAATAATAGC
*
94319902 AAAATAGTAGC
1 AAAATAATAGC
94319913 AAAATA
1 AAAATA
94319919 GGGAGAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.21
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:94323476 original size:21 final size:20
Alignment explanation
Indices: 94323452--94323505 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
94323442 CATAAGTATT
94323452 TAAAATTAAATAAAAGAAAAA
1 TAAAATTAAATAAAA-AAAAA
*
94323473 TAAAATTAAAATTAAAAAATAA
1 TAAAATT-AAA-TAAAAAAAAA
94323495 TAAAA-TAAATA
1 TAAAATTAAATA
94323506 GACTCAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 3 0.10
21 8 0.27
22 12 0.40
23 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (20 bp):
TAAAATTAAATAAAAAAAAA
Found at i:94325326 original size:24 final size:24
Alignment explanation
Indices: 94325281--94325327 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
94325271 GAGGAAAAGA
*
94325281 AAGAAGAAAAGAGGGGAGAGGAAG
1 AAGAAGAAAAGAAGGGAGAGGAAG
*
94325305 AAGAGGAAAAGAAAGGGA-AGGAA
1 AAGAAGAAAAG-AAGGGAGAGGAA
94325328 AGGGAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (24 bp):
AAGAAGAAAAGAAGGGAGAGGAAG
Found at i:94331848 original size:16 final size:16
Alignment explanation
Indices: 94331824--94331890 Score: 107
Period size: 16 Copynumber: 4.2 Consensus size: 16
94331814 GGTTCACTGA
*
94331824 AATGGAATAGGGTTGT
1 AATGGAATAGAGTTGT
* *
94331840 AATGTAATAGAGATGT
1 AATGGAATAGAGTTGT
94331856 AATGGAATAGAGTTGT
1 AATGGAATAGAGTTGT
94331872 AATGGAATAGAGTTGT
1 AATGGAATAGAGTTGT
94331888 AAT
1 AAT
94331891 AAAAAATTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.31
Consensus pattern (16 bp):
AATGGAATAGAGTTGT
Found at i:94331959 original size:44 final size:44
Alignment explanation
Indices: 94331872--94331981 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 44
94331862 ATAGAGTTGT
* **
94331872 AATGGAATAGAGTTGTAATAAAAAATTCAATTGTTTGATTGAATGA
1 AATGGAATAGAATTGTAAT--AGTATTCAATTGTTTGATTGAATGA
*
94331918 AATGGAATAGAATTGTAATAGTATTC-ATGTGTTTGATTGAATGG
1 AATGGAATAGAATTGTAATAGTATTCAAT-TGTTTGATTGAATGA
94331962 AAT--AA-AG-ATTGTAATAGTAT
1 AATGGAATAGAATTGTAATAGTAT
94331982 ATGAAGAAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
40 13 0.22
41 2 0.03
42 2 0.03
43 2 0.03
44 22 0.37
46 18 0.31
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAATTGTAATAGTATTCAATTGTTTGATTGAATGA
Found at i:94332843 original size:12 final size:12
Alignment explanation
Indices: 94332826--94332859 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
94332816 CGGCCTGTCC
94332826 ATATTAATTTTT
1 ATATTAATTTTT
*
94332838 ATATTATTTTTT
1 ATATTAATTTTT
94332850 ATA-TAATTTT
1 ATATTAATTTT
94332860 AAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:94332884 original size:18 final size:18
Alignment explanation
Indices: 94332861--94332900 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
94332851 TATAATTTTA
*
94332861 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
94332879 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
94332897 AAAA
1 AAAA
94332901 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:94333019 original size:30 final size:30
Alignment explanation
Indices: 94332983--94333045 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
94332973 ATTTAACAAG
*
94332983 CAAATGTCTTTAAAATAATAAGAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
94333013 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
94333043 CAA
1 CAA
94333046 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:94333154 original size:14 final size:14
Alignment explanation
Indices: 94333135--94333162 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
94333125 AGAAAACAAC
94333135 AAGAAAAGAATTTT
1 AAGAAAAGAATTTT
94333149 AAGAAAAGAATTTT
1 AAGAAAAGAATTTT
94333163 TTTGTCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (14 bp):
AAGAAAAGAATTTT
Found at i:94346270 original size:39 final size:39
Alignment explanation
Indices: 94346214--94346344 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 39
94346204 TTCAGTGATG
*
94346214 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTAAGGGTCCGCAGGCTATGTGCTGGAAT
94346253 TATATCCGGACTAAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTAAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
94346292 TATATCTGAACTTAA-GGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGAC-TAAGGGTCCGCAGGCTATGTGCTGGAAT
* *
94346331 TATGTCCGGGCTAA
1 TATATCCGGACTAA
94346345 AGTCCCGTAG
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
38 3 0.04
39 76 0.93
40 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTAAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:94346366 original size:78 final size:78
Alignment explanation
Indices: 94346214--94346373 Score: 189
Period size: 78 Copynumber: 2.1 Consensus size: 78
94346204 TTCAGTGATG
* * * * *
94346214 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTAAGGGTCCGCAGGC
1 TATATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAGAGTCCGCAGGC
*
94346279 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * *
94346292 TATATCTGAACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAA-AGTCCCGTAGG
1 TATATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAGAGT-CCGCAGG
*
94346356 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
94346370 TATA
1 TATA
94346374 CCGGGTTTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 3 0.04
78 66 0.96
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (78 bp):
TATATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAGAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:94347912 original size:13 final size:13
Alignment explanation
Indices: 94347894--94347918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94347884 AGCAGAGAAG
94347894 ATCGAAGAAAACA
1 ATCGAAGAAAACA
94347907 ATCGAAGAAAAC
1 ATCGAAGAAAAC
94347919 CATCAGAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (13 bp):
ATCGAAGAAAACA
Found at i:94350538 original size:25 final size:25
Alignment explanation
Indices: 94350509--94350566 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
94350499 CACGCCACAA
*
94350509 CTCGCATGAGCTT-TCCGATACTCAG
1 CTCGCATGAGCTTCT-CGATAATCAG
94350534 CTCGCATGAGCTTCTCGATAATCAG
1 CTCGCATGAGCTTCTCGATAATCAG
94350559 CTCGCATG
1 CTCGCATG
94350567 GGCTCCCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (25 bp):
CTCGCATGAGCTTCTCGATAATCAG
Found at i:94352898 original size:13 final size:13
Alignment explanation
Indices: 94352880--94352919 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
94352870 CGGGCATATA
94352880 AAGCTAGAGATTG
1 AAGCTAGAGATTG
*
94352893 AAGCTAGAGATTC
1 AAGCTAGAGATTG
94352906 AAG-TGAGAGATTG
1 AAGCT-AGAGATTG
94352919 A
1 A
94352920 CGAGAAAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 1 0.04
13 23 0.96
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (13 bp):
AAGCTAGAGATTG
Found at i:94355445 original size:47 final size:47
Alignment explanation
Indices: 94355355--94355454 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
94355345 CTTGTGTGAT
* * * * *
94355355 GTACTGTTACTGTTACTTCGATTTAATCCGATGAGGTACTGAGTACC
1 GTACTGTTACTGTTAATTCGAGTAAAGCCGATGAGGCACTGAGTACC
* **
94355402 GTACTGTTACTGTTTAATTCG-GTAAAGCCGATGAGGCATTGAGTGTC
1 GTACTGTTACTG-TTAATTCGAGTAAAGCCGATGAGGCACTGAGTACC
94355449 GTACTG
1 GTACTG
94355455 GTGTGTAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 37 0.84
48 7 0.16
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (47 bp):
GTACTGTTACTGTTAATTCGAGTAAAGCCGATGAGGCACTGAGTACC
Found at i:94366093 original size:25 final size:25
Alignment explanation
Indices: 94366038--94366124 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
94366028 GACACACCAT
** *
94366038 AGCTCGCATGAGCTTCTTGA-TACTC
1 AGCTCGCATGAGCTTC-CCATTATTC
*
94366063 AACTCGCATGAGCTTCCCATTATTC
1 AGCTCGCATGAGCTTCCCATTATTC
* * *
94366088 AGCTCGGAGGAGCTTCCCATT-TAC
1 AGCTCGCATGAGCTTCCCATTATTC
*
94366112 AGCTCGTATGAGC
1 AGCTCGCATGAGC
94366125 ATACATGTAC
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
24 14 0.27
25 37 0.73
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCTCGCATGAGCTTCCCATTATTC
Found at i:94367391 original size:16 final size:16
Alignment explanation
Indices: 94367367--94367398 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94367357 TGATTTTGAT
*
94367367 TATTTTATGATATGAA
1 TATTATATGATATGAA
94367383 TATTATATGATATGAA
1 TATTATATGATATGAA
94367399 GTGTTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
TATTATATGATATGAA
Found at i:94368326 original size:55 final size:54
Alignment explanation
Indices: 94368224--94368334 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 54
94368214 AAACATAATT
* *
94368224 ATTAAATTATATATTTTATTAAATTATATTTAATAATAATTATATTAAAATATA
1 ATTAAATTATATATTTTATTAAATTATATGTAATAATAATCATATTAAAATATA
* * *
94368278 ATTAAATTTTTTATTTTTATTAAATTATATGTAATAATAATCCA-ATTAAAATTTA
1 ATTAAATTATATA-TTTTATTAAATTATATGTAATAATAAT-CATATTAAAATATA
94368333 AT
1 AT
94368335 AACAATAACA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 11 0.22
55 38 0.76
56 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (54 bp):
ATTAAATTATATATTTTATTAAATTATATGTAATAATAATCATATTAAAATATA
Found at i:94368470 original size:44 final size:46
Alignment explanation
Indices: 94368419--94368514 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 46
94368409 TATTACAATC
* *
94368419 TCCATTCCATTCAATCAAACACA-AGAA-TACT-ATTACAGTTCTAT
1 TCCATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTAT
* *
94368463 TCCATTCCATTCAACCAAACAATTGAATTATTGATTACAGCTCTAT
1 TCCATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTAT
94368509 TCCATT
1 TCCATT
94368515 ACGTCTCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 3 0.07
46 18 0.40
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.34
Consensus pattern (46 bp):
TCCATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTAT
Found at i:94368522 original size:16 final size:16
Alignment explanation
Indices: 94368496--94368546 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
94368486 TGAATTATTG
*
94368496 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
** *
94368512 ATTACGTCTCTATTAC
1 ATTACAACTCTATTCC
*
94368528 ATTACAACCCTATTCC
1 ATTACAACTCTATTCC
94368544 ATT
1 ATT
94368547 TCGGTGAACC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.27, C:0.29, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:94370812 original size:30 final size:30
Alignment explanation
Indices: 94370776--94370838 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
94370766 ATTTATTTTA
94370776 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
94370806 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
94370836 TTG
1 TTG
94370839 CTTGTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:94370943 original size:18 final size:18
Alignment explanation
Indices: 94370922--94370961 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
94370912 GAAATATTTA
*
94370922 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
94370940 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
94370958 TTTT
1 TTTT
94370962 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:94375617 original size:20 final size:20
Alignment explanation
Indices: 94375594--94375632 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94375584 CCCCCACCCA
94375594 TTCTTTCCCTTTCCTTCCTT
1 TTCTTTCCCTTTCCTTCCTT
* *
94375614 TTCTTTTCCTTTTCTTCCT
1 TTCTTTCCCTTTCCTTCCT
94375633 CTCCCCTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTTCCCTTTCCTTCCTT
Found at i:94377452 original size:21 final size:21
Alignment explanation
Indices: 94377428--94377479 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
94377418 TTTGAGTCTA
94377428 TTTATTTTATTATTT-TTTAAT
1 TTTATTTTATT-TTTCTTTAAT
*
94377449 TTTAATTTTATTTTTCTTTTAT
1 TTT-ATTTTATTTTTCTTTAAT
*
94377471 TTAATTTTA
1 TTTATTTTA
94377480 AATACTTACG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTATTTTATTTTTCTTTAAT
Found at i:94396526 original size:15 final size:15
Alignment explanation
Indices: 94396506--94396534 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94396496 GTATTGTTGC
94396506 TTGATAACACGGTGA
1 TTGATAACACGGTGA
94396521 TTGATAACACGGTG
1 TTGATAACACGGTG
94396535 TGTGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:94398090 original size:56 final size:56
Alignment explanation
Indices: 94397995--94398100 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 56
94397985 GTATAAGGTT
* * * *
94397995 GATATTGTGACACCCTAGTGTCTATGTCGCGACAATGAAGGCAGTATGCTCAGGCC
1 GATATTGCGACACCCTAGTGTCTACGTCACGACAATGAAGACAGTATGCTCAGGCC
* * *
94398051 GATATTGCGACACCCTAGTGTCTGCGTCACTACATTGAAGACAGTATGCT
1 GATATTGCGACACCCTAGTGTCTACGTCACGACAATGAAGACAGTATGCT
94398101 TAGCTTCATG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 43 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (56 bp):
GATATTGCGACACCCTAGTGTCTACGTCACGACAATGAAGACAGTATGCTCAGGCC
Found at i:94400494 original size:21 final size:22
Alignment explanation
Indices: 94400468--94400514 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
94400458 CTCTGCTCAA
*
94400468 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
94400489 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
94400511 ACTC
1 ACTC
94400515 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:94411424 original size:13 final size:13
Alignment explanation
Indices: 94411406--94411448 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
94411396 AAATTAGAAT
94411406 TATTTAGTGATAA
1 TATTTAGTGATAA
94411419 TATTTAG-GAT--
1 TATTTAGTGATAA
*
94411429 TATTTAGTGACAA
1 TATTTAGTGATAA
94411442 TATTTAG
1 TATTTAG
94411449 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 3 0.12
13 14 0.54
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:94411449 original size:23 final size:23
Alignment explanation
Indices: 94411399--94411450 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
94411389 AATTTTAAAA
* *
94411399 TTAGAATTATTTAGTGATAATAT
1 TTAGGATTATTTAGTGACAATAT
94411422 TTAGGATTATTTAGTGACAATAT
1 TTAGGATTATTTAGTGACAATAT
94411445 TTAGGA
1 TTAGGA
94411451 AAAATCTAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (23 bp):
TTAGGATTATTTAGTGACAATAT
Found at i:94418585 original size:16 final size:16
Alignment explanation
Indices: 94418558--94418628 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
94418548 TTTGGTTTAG
* *
94418558 TGTAATAAAATAGAGC
1 TGTAATAGAATAGAAC
* *
94418574 TGTAGTACAATAGAAC
1 TGTAATAGAATAGAAC
* **
94418590 TGTAATGGAATAGAGT
1 TGTAATAGAATAGAAC
94418606 TGTAATAGAATAGAAC
1 TGTAATAGAATAGAAC
94418622 TGTAATA
1 TGTAATA
94418629 ACAATTCAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (16 bp):
TGTAATAGAATAGAAC
Found at i:94418595 original size:32 final size:32
Alignment explanation
Indices: 94418558--94418629 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
94418548 TTTGGTTTAG
*
94418558 TGTAATAAAATAGAGCTGTAGTACAATAGAAC
1 TGTAATAAAATAGAGCTGTAATACAATAGAAC
** * *
94418590 TGTAATGGAATAGAGTTGTAATAGAATAGAAC
1 TGTAATAAAATAGAGCTGTAATACAATAGAAC
94418622 TGTAATAA
1 TGTAATAA
94418630 CAATTCAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (32 bp):
TGTAATAAAATAGAGCTGTAATACAATAGAAC
Found at i:94418664 original size:45 final size:43
Alignment explanation
Indices: 94418609--94418704 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 43
94418599 ATAGAGTTGT
94418609 AATAGAATAGAACTGTAATAACAATTCAAT-TGTTTGGTTGAATGG
1 AATAGAATAGAACTGTAAT-ACAATT--ATGTGTTTGGTTGAATGG
** *
94418654 AATAGAATAGAACTGTAATAGTATTTTGTGTTTGGTTGAATGG
1 AATAGAATAGAACTGTAATACAATTATGTGTTTGGTTGAATGG
94418697 AATAGAAT
1 AATAGAAT
94418705 TGTAATAGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 1 0.02
43 23 0.49
44 4 0.09
45 19 0.40
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (43 bp):
AATAGAATAGAACTGTAATACAATTATGTGTTTGGTTGAATGG
Found at i:94419105 original size:12 final size:12
Alignment explanation
Indices: 94419075--94419109 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
94419065 TCTATGTTAC
94419075 TTAAAGAATAAT
1 TTAAAGAATAAT
*
94419087 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
94419100 TTAAAGAATA
1 TTAAAGAATA
94419110 TCTTGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:94423128 original size:5 final size:5
Alignment explanation
Indices: 94423120--94423149 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
94423110 TAAAATAGTT
*
94423120 GTTTG GTTTA GTTTA GTTTA GTTTA GTTTA
1 GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA
94423150 TGGTTACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (5 bp):
GTTTA
Found at i:94432417 original size:21 final size:20
Alignment explanation
Indices: 94432391--94432436 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
94432381 CGCGACTCTT
*
94432391 TTTTTTCATATTAAAATATTA
1 TTTTTTCA-AATAAAATATTA
*
94432412 TTTTTTTAAATAAAATATTA
1 TTTTTTCAAATAAAATATTA
94432432 TTTTT
1 TTTTT
94432437 ATTTTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTCAAATAAAATATTA
Found at i:94433979 original size:26 final size:26
Alignment explanation
Indices: 94433950--94434023 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
94433940 CCTATGCTTT
94433950 TATTTATTATTTTAA-ATTGATTA-AAA
1 TATTTATTATTTTAATATT--TTACAAA
* *
94433976 TATTTA-TAATATAATATTTTATCAAA
1 TATTTATTATTTTAATATTTTA-CAAA
*
94434002 TATTTATTATTTTACTATTTTA
1 TATTTATTATTTTAATATTTTA
94434024 TCATTTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 3 0.08
25 6 0.15
26 18 0.46
27 12 0.31
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (26 bp):
TATTTATTATTTTAATATTTTACAAA
Found at i:94434026 original size:27 final size:26
Alignment explanation
Indices: 94433973--94434026 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
94433963 AAATTGATTA
94433973 AAATATTTATAATATAATATTTTATC
1 AAATATTTATAATATAATATTTTATC
* * *
94433999 AAATATTTATTATTTTACTATTTTATC
1 AAATATTTA-TAATATAATATTTTATC
94434026 A
1 A
94434027 TTTTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (26 bp):
AAATATTTATAATATAATATTTTATC
Found at i:94440733 original size:47 final size:47
Alignment explanation
Indices: 94440624--94440726 Score: 181
Period size: 47 Copynumber: 2.2 Consensus size: 47
94440614 GTCACAGTAA
94440624 TGCAGATAAATTGTCACTTAATAATATTGTGAGCAAGCCACCACTTT
1 TGCAGATAAATTGTCACTTAATAATATTGTGAGCAAGCCACCACTTT
94440671 TGCAGATAAATTGTCACTTAATAATATTGTG-GACAAGCCACCACTTT
1 TGCAGATAAATTGTCACTTAATAATATTGTGAG-CAAGCCACCACTTT
*
94440718 TGTAGATAA
1 TGCAGATAA
94440727 TCTGTCATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
46 1 0.02
47 53 0.98
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (47 bp):
TGCAGATAAATTGTCACTTAATAATATTGTGAGCAAGCCACCACTTT
Found at i:94446114 original size:15 final size:15
Alignment explanation
Indices: 94446094--94446131 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
94446084 GAGAGCAGGG
*
94446094 GGAAGAAAGAAGGAA
1 GGAAGAAAGAAAGAA
94446109 GGAAGAAAGAAAGAA
1 GGAAGAAAGAAAGAA
94446124 GGAA-AAAG
1 GGAAGAAAG
94446132 GGAAAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (15 bp):
GGAAGAAAGAAAGAA
Found at i:94447332 original size:18 final size:18
Alignment explanation
Indices: 94447292--94447335 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
94447282 TTGCTACGAA
* *
94447292 ATAAATGACTGTTATTGT
1 ATAACTGACTGTTATAGT
94447310 ATAACTGACTGTTATAG-
1 ATAACTGACTGTTATAGT
94447327 AGTAACTGA
1 A-TAACTGA
94447336 ATGCTACTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (18 bp):
ATAACTGACTGTTATAGT
Found at i:94449348 original size:20 final size:20
Alignment explanation
Indices: 94449311--94449348 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
94449301 TGATGGGGAG
*
94449311 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
94449331 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
94449349 GGAGAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:94451298 original size:46 final size:46
Alignment explanation
Indices: 94451246--94451519 Score: 397
Period size: 46 Copynumber: 6.0 Consensus size: 46
94451236 AGTGTGCTCT
*
94451246 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
94451292 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94451338 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGTCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94451384 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ***
94451430 GTGTTATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
94451476 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
94451520 TCATGTCAAA
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 208 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94460962 original size:3 final size:3
Alignment explanation
Indices: 94460954--94461055 Score: 56
Period size: 3 Copynumber: 36.0 Consensus size: 3
94460944 CCTAGGCAGT
* *
94460954 AGA AGA AGA AG- AGA A-A AAA AGA ACA AG- AGA AGA A-A CAG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
* * * * * *
94460995 AGA AAA AGA AG- AGG AGG AGA AAA AGA AGA AGA AGA AG- AGG AGA AGG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* *
94461041 AGA AAA AGA ATA AGA
1 AGA AGA AGA AGA AGA
94461056 TAAAATGGAA
Statistics
Matches: 76, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
2 13 0.17
3 63 0.83
ACGTcount: A:0.66, C:0.02, G:0.31, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:94460997 original size:16 final size:16
Alignment explanation
Indices: 94460956--94461029 Score: 71
Period size: 16 Copynumber: 4.6 Consensus size: 16
94460946 TAGGCAGTAG
94460956 AAGAAGAAGAGAAAAA
1 AAGAAGAAGAGAAAAA
*
94460972 AAGAACAAGAGAAGAAA
1 AAGAAGAAGAGAA-AAA
* *
94460989 CAG-AGAAGA-AAAAG
1 AAGAAGAAGAGAAAAA
* *
94461003 AAGAGGAGGAGAAAAA
1 AAGAAGAAGAGAAAAA
94461019 GAAGAAGAAGA
1 -AAGAAGAAGA
94461030 AGAGGAGAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
14 4 0.09
15 6 0.14
16 21 0.48
17 13 0.30
ACGTcount: A:0.68, C:0.03, G:0.30, T:0.00
Consensus pattern (16 bp):
AAGAAGAAGAGAAAAA
Found at i:94461024 original size:29 final size:29
Alignment explanation
Indices: 94460954--94461060 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 29
94460944 CCTAGGCAGT
* * * * *
94460954 AGAAGAAGAAGAGAAAAAAAGAACAAGAGA
1 AGAAAAAGAAGA-AGAAAAAGAAGAGGAGG
*
94460984 AGAAACAG-AGAAGAAAAAGAAGAGGAGG
1 AGAAAAAGAAGAAGAAAAAGAAGAGGAGG
* * *
94461012 AGAAAAAGAAGAAGAAGAAGAGGAGAAGG
1 AGAAAAAGAAGAAGAAAAAGAAGAGGAGG
*
94461041 AGAAAAAGAATAAGATAAAA
1 AGAAAAAGAAGAAGA-AAAA
94461061 TGGAAGGAGA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 20 0.32
29 34 0.54
30 9 0.14
ACGTcount: A:0.66, C:0.02, G:0.30, T:0.02
Consensus pattern (29 bp):
AGAAAAAGAAGAAGAAAAAGAAGAGGAGG
Found at i:94461026 original size:23 final size:23
Alignment explanation
Indices: 94460956--94461055 Score: 82
Period size: 23 Copynumber: 4.4 Consensus size: 23
94460946 TAGGCAGTAG
*
94460956 AAGAAGAAGA-GAAAAAAAGAACA
1 AAGAAGAAGAGGAGAAAAAGAA-A
* *
94460979 AGAGAAGAA-A-CAG-AGAAGAAA
1 A-AGAAGAAGAGGAGAAAAAGAAA
* *
94461000 AAGAAGAGGAGGAGAAAAAGAAG
1 AAGAAGAAGAGGAGAAAAAGAAA
**
94461023 AAGAAGAAGAGGAGAAGGAGAAA
1 AAGAAGAAGAGGAGAAAAAGAAA
*
94461046 AAGAATAAGA
1 AAGAAGAAGA
94461056 TAAAATGGAA
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
20 6 0.10
21 3 0.05
22 8 0.13
23 37 0.61
24 7 0.11
ACGTcount: A:0.66, C:0.02, G:0.31, T:0.01
Consensus pattern (23 bp):
AAGAAGAAGAGGAGAAAAAGAAA
Found at i:94479754 original size:15 final size:14
Alignment explanation
Indices: 94479718--94479759 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
94479708 CGTGCTAGAT
94479718 AAGAAAATAGAAGAAG
1 AAGAAAATA-AA-AAG
94479734 AA-AAAATAAAAAG
1 AAGAAAATAAAAAG
94479747 AAAGAAAATAAAA
1 -AAGAAAATAAAA
94479760 CATTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.12
14 4 0.17
15 15 0.62
16 2 0.08
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAGAAAATAAAAAG
Found at i:94492488 original size:28 final size:27
Alignment explanation
Indices: 94492387--94492488 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
94492377 TCAGTGTTAA
* *
94492387 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
94492415 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
94492447 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
94492475 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
94492489 TAGTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:94492521 original size:60 final size:59
Alignment explanation
Indices: 94492388--94492524 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 59
94492378 CAGTGTTAAC
*
94492388 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAG-ATCAGAGTATAT
* * *
94492449 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAG-CCCTAGTACA-AGTC-GAGATATAT
1 TGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCCT--TACAGA-TCAGAG-TATAT
*
94492509 TGGGTCTTGCCCATAT
1 TGGGCCTTGCCCATAT
94492525 TAACACAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
59 8 0.12
60 47 0.71
61 11 0.17
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (59 bp):
TGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAGATCAGAGTATAT
Found at i:94492560 original size:19 final size:20
Alignment explanation
Indices: 94492517--94492572 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
94492507 ATTGGGTCTT
94492517 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* * *
94492537 GCCCATTTTAATACA-TTTG
1 GCCCATATTAACACAGTTGG
* *
94492556 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
94492573 CTCATATGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:94503250 original size:25 final size:25
Alignment explanation
Indices: 94503202--94503250 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
94503192 CATAATTGAA
* *
94503202 ATGAAATAGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
94503227 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
94503251 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:94503693 original size:43 final size:43
Alignment explanation
Indices: 94503645--94503730 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
94503635 TATGTGATTG
*
94503645 ATATTGAAATGGTAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
* *
94503688 ATATTGAAATGGCAAAGATGAGCAATGATTATGAGATGAGAAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
94503731 TGAAATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.49, C:0.02, G:0.26, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:94504609 original size:17 final size:17
Alignment explanation
Indices: 94504566--94504609 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
94504556 ACGGCCTAGC
*
94504566 CACATGGGCGTGTGTCA
1 CACATGGGCATGTGTCA
*
94504583 CACATAGGCATGTGTCA
1 CACATGGGCATGTGTCA
*
94504600 CACACGGGCA
1 CACATGGGCA
94504610 GTACACATGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.18
Consensus pattern (17 bp):
CACATGGGCATGTGTCA
Found at i:94504795 original size:42 final size:43
Alignment explanation
Indices: 94504741--94504838 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
94504731 ACGACCTGAG
* * *
94504741 ACACAGGCGTGTGTCTCAACCGTGTGAGGCACACGGC-TGGCC
1 ACACGGGCGTGTGTCTCAACCGTGTGAGACACACGGCTTAGCC
* * ***
94504783 ACATGGGTGTGTGTCTCGGTCGTGTGAGACACACGGCTTAGCC
1 ACACGGGCGTGTGTCTCAACCGTGTGAGACACACGGCTTAGCC
94504826 ACACGGGCGTGTG
1 ACACGGGCGTGTG
94504839 ATCCCTACAG
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 30 0.67
43 15 0.33
ACGTcount: A:0.17, C:0.27, G:0.36, T:0.20
Consensus pattern (43 bp):
ACACGGGCGTGTGTCTCAACCGTGTGAGACACACGGCTTAGCC
Found at i:94513919 original size:11 final size:11
Alignment explanation
Indices: 94513905--94513942 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
94513895 ATTTTTTTTG
94513905 TTATTTTGTTA
1 TTATTTTGTTA
*
94513916 TTATATTGTTA
1 TTATTTTGTTA
*
94513927 CTATTTTGTTA
1 TTATTTTGTTA
94513938 TTATT
1 TTATT
94513943 ATTTGAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (11 bp):
TTATTTTGTTA
Found at i:94513953 original size:22 final size:22
Alignment explanation
Indices: 94513906--94513953 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
94513896 TTTTTTTTGT
* *
94513906 TATTTTGTTATTATATTGTTAC
1 TATTTTGTTATTATATTGTGAA
94513928 TATTTTGTTATTATTATT-TGAA
1 TATTTTGTTATTA-TATTGTGAA
94513950 TATT
1 TATT
94513954 GTATAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (22 bp):
TATTTTGTTATTATATTGTGAA
Found at i:94514650 original size:6 final size:6
Alignment explanation
Indices: 94514639--94514725 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
94514629 CTTTTGTACA
* * * *
94514639 TCTTTT TCTTTT TC-TTT CCTTTT TCATTTCCC TCATTT TC-TTT CCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TC-TTT--T TCTTTT TCTTTT TCTTTT
*
94514688 TC-TTT TC-TTT TCTTCTCT TCCTTT TCTTTT TCTTTT TC
1 TCTTTT TCTTTT TCTT-T-T TCTTTT TCTTTT TCTTTT TC
94514726 CTACCCGTGT
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 18 0.28
6 33 0.52
7 5 0.08
8 6 0.09
9 2 0.03
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.71
Consensus pattern (6 bp):
TCTTTT
Found at i:94514706 original size:26 final size:27
Alignment explanation
Indices: 94514642--94514723 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 27
94514632 TTGTACATCT
* *
94514642 TTTTCTTTTTCTTTCCTTTTTCATTTC
1 TTTTCATTTTCTTTCCTTTTTCTTTTC
**
94514669 -CCTCATTTTCTTTCCTTTTTCTTTTC
1 TTTTCATTTTCTTTCCTTTTTCTTTTC
*
94514695 TTTTC-TTCTC-TTCC-TTTTCTTTTTC
1 TTTTCATTTTCTTTCCTTTTTC-TTTTC
94514720 TTTT
1 TTTT
94514724 TCCTACCCGT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 5 0.11
25 13 0.28
26 26 0.57
27 2 0.04
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTCATTTTCTTTCCTTTTTCTTTTC
Found at i:94514708 original size:25 final size:24
Alignment explanation
Indices: 94514676--94514723 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
94514666 TTCCCTCATT
94514676 TTCTTTCCTTTT-TCTTTTCTTTTC
1 TTCTTTCCTTTTCT-TTTTCTTTTC
94514700 TTCTCTTCCTTTTCTTTTTCTTTT
1 TTCT-TTCCTTTTCTTTTTCTTTT
94514724 TCCTACCCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 17 0.77
26 1 0.05
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCTTTCCTTTTCTTTTTCTTTTC
Found at i:94515827 original size:178 final size:177
Alignment explanation
Indices: 94515523--94515863 Score: 497
Period size: 178 Copynumber: 1.9 Consensus size: 177
94515513 ACTTTGTTGG
* * *
94515523 AAAGATGTCTTCTTTGACAAACCCCTTATGGTGGAAGAAGATGTTAAATCCTAGGTTTCGAGTTA
1 AAAGATGTCTTCTTTGACAAACCCCTTATGGTGGAAAAAAATGTTAAATCCCAGGTTTCGAGTTA
* * *
94515588 GAAATTTGATGGGTTTGGGAGAGTTCCTTGAAAATCTAGTCTGATCAAAGAGAAGAGGGGAAGGA
66 GAAATTCGATGGGTTTGGGAGAGATCCTTGAAAATCTAGTCTGATCAAAGAGAAAAGGGGAAGGA
*
94515653 GAAGATCATTTTGGAAGGCAGCAGTAAGCCGAAAGGCATCGGTAGAAC
131 GAAGATCA-TTCGGAAGGCAGCAGTAAGCCGAAAGGCATCGGTAGAAC
* * *
94515701 AAAGATGTCTTCTTTGGCAAACCCCTTATGGTGGAAAAAAATGTTGAATCCCAGGTTTCGGGTTA
1 AAAGATGTCTTCTTTGACAAACCCCTTATGGTGGAAAAAAATGTTAAATCCCAGGTTTCGAGTTA
* *
94515766 GGAATTCGATGGGTTT-GGAGGAGATCCTT-AGAAATCTAGTCTGATCAAAGGGAAAAGGGGAAG
66 GAAATTCGATGGGTTTGGGA-GAGATCCTTGA-AAATCTAGTCTGATCAAAGAGAAAAGGGGAAG
* * * *
94515829 GAGAGGATCATTCGGAAGGGAGTAGTAAGTCGAAA
129 GAGAAGATCATTCGGAAGGCAGCAGTAAGCCGAAA
94515864 AGTCACCAAC
Statistics
Matches: 145, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
177 25 0.17
178 120 0.83
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.25
Consensus pattern (177 bp):
AAAGATGTCTTCTTTGACAAACCCCTTATGGTGGAAAAAAATGTTAAATCCCAGGTTTCGAGTTA
GAAATTCGATGGGTTTGGGAGAGATCCTTGAAAATCTAGTCTGATCAAAGAGAAAAGGGGAAGGA
GAAGATCATTCGGAAGGCAGCAGTAAGCCGAAAGGCATCGGTAGAAC
Done.