Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 124 of 202
Found at i:38431041 original size:78 final size:77
Alignment explanation
Indices: 38430649--38431042 Score: 195
Period size: 81 Copynumber: 5.0 Consensus size: 77
38430639 AGATTATTAT
* *
38430649 TATCAATAATAAATATTTTAATCATA-TTTAAACATAATTATTATTAAATATATTTTAATTAAAA
1 TATCAATAATAAATAATTTAATCATATTTTAAACATAATTATTATTAAATATATTATAATTAAAA
38430713 TATATAATTTAA
66 TATATAATTTAA
* ** * * * * * * * * *
38430725 TA-AAATTCTTAATAATTAGCAGAAAT-TTGTTTTGGTAA-ATTATTATTGTT-ATTGTTATT-T
1 TATCAATAATAAATAATT-----TAATCATATTTT--AAACATAATTATTATTAAAT-ATATTAT
** * *
38430785 AAATTTTAATA-AGATTATTAA
58 -AATTAAAATATATAAT-TTAA
38430806 TATCAATAATAAATAATTTAATCATA-TTTAAACATAATTATTATTAAATATATTATAATTAAAA
1 TATCAATAATAAATAATTTAATCATATTTTAAACATAATTATTATTAAATATATTATAATTAAAA
38430870 TATATAATTTAA
66 TATATAATTTAA
* ** * * * * * * * * *
38430882 TA-AAATTCTTAATAATTAGCAGAAAT-TTGTTTTGGTAA-ATTATTATTGTT-ATTGTTATT-T
1 TATCAATAATAAATAATT-----TAATCATATTTT--AAACATAATTATTATTAAAT-ATATTAT
** * *
38430942 AAATTTTAATA-AGATTATTAA
58 -AATTAAAATATATAAT-TTAA
38430963 TATCAATAATAAATAATTTAATCATATTTTAAACATAATTTATTATTAAATATATTATAATTAAA
1 TATCAATAATAAATAATTTAATCATATTTTAAACATAA-TTATTATTAAATATATTATAATTAAA
38431028 ATATATAATTTAA
65 ATATATAATTTAA
38431041 TA
1 TA
38431043 AAATTCTTAA
Statistics
Matches: 218, Mismatches: 65, Indels: 68
0.62 0.19 0.19
Matches are distributed among these distances:
75 23 0.11
76 32 0.15
77 18 0.08
78 31 0.14
79 8 0.04
80 24 0.11
81 56 0.26
82 26 0.12
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (77 bp):
TATCAATAATAAATAATTTAATCATATTTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAA
Found at i:38431042 original size:28 final size:28
Alignment explanation
Indices: 38430970--38431042 Score: 65
Period size: 28 Copynumber: 2.6 Consensus size: 28
38430960 TAATATCAAT
* * *
38430970 AATAAATAATTTAATCATATTTTAAACAT
1 AATATATAATTTAAT-ATATTATAAACAA
* * * **
38430999 AATTTATTATTAAATATATTATAATTAA
1 AATATATAATTTAATATATTATAAACAA
38431027 AATATATAATTTAATA
1 AATATATAATTTAATA
38431043 AAATTCTTAA
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
28 22 0.67
29 11 0.33
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
AATATATAATTTAATATATTATAAACAA
Found at i:38435129 original size:2 final size:2
Alignment explanation
Indices: 38435122--38435182 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
38435112 NNNNNNNNNN
38435122 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
38435164 TA TA TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
38435183 GAAATTTATA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38437685 original size:18 final size:18
Alignment explanation
Indices: 38437662--38437697 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38437652 CGCTTCTGAC
38437662 TGTCGATCTCATTTTCCT
1 TGTCGATCTCATTTTCCT
*
38437680 TGTCGATCTCCTTTTCCT
1 TGTCGATCTCATTTTCCT
38437698 CCAAACCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.31, G:0.11, T:0.50
Consensus pattern (18 bp):
TGTCGATCTCATTTTCCT
Found at i:38439447 original size:10 final size:10
Alignment explanation
Indices: 38439430--38439462 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
38439420 TTTTATTTCA
38439430 TTTT-TTTTG
1 TTTTGTTTTG
38439439 TTTTGTTTTG
1 TTTTGTTTTG
38439449 TTTTGTTTTG
1 TTTTGTTTTG
38439459 TTTT
1 TTTT
38439463 TGTGTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTGTTTTG
Found at i:38439452 original size:15 final size:14
Alignment explanation
Indices: 38439430--38439473 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
38439420 TTTTATTTCA
38439430 TTTTTTTTGTTTTG
1 TTTTTTTTGTTTTG
38439444 TTTTGTTTTGTTTTG
1 TTTT-TTTTGTTTTG
*
38439459 -TTTTTGTGTTTTG
1 TTTTTTTTGTTTTG
38439472 TT
1 TT
38439474 AGTTGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 9 0.33
14 8 0.30
15 10 0.37
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:38440226 original size:19 final size:18
Alignment explanation
Indices: 38440184--38440228 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
38440174 TTTACTCTAA
*
38440184 AAAAATCAAAAAAATATAG
1 AAAAAT-AAAAAAATAAAG
*
38440203 AAAAATAAAAAATTAAAG
1 AAAAATAAAAAAATAAAG
38440221 ATAAAATA
1 A-AAAATA
38440229 TATATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAAATAAAAAAATAAAG
Found at i:38440258 original size:31 final size:28
Alignment explanation
Indices: 38440191--38440258 Score: 66
Period size: 31 Copynumber: 2.3 Consensus size: 28
38440181 TAAAAAAATC
38440191 AAAAAAATATAGAAAAATAAAAAATTAA
1 AAAAAAATATAGAAAAATAAAAAATTAA
* *
38440219 AGATAAAATATATATAAAAA-AGGAAAATTGAA
1 A-A-AAAA-ATATAGAAAAATA-AAAAATT-AA
38440251 AAAAAAAT
1 AAAAAAAT
38440259 TGATTTAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
28 1 0.03
29 3 0.09
30 9 0.27
31 17 0.52
32 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (28 bp):
AAAAAAATATAGAAAAATAAAAAATTAA
Found at i:38442510 original size:16 final size:16
Alignment explanation
Indices: 38442489--38442521 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38442479 ATCAGTACTC
38442489 AACATGAAAGAGTTGA
1 AACATGAAAGAGTTGA
38442505 AACATGAAAGAGTTGA
1 AACATGAAAGAGTTGA
38442521 A
1 A
38442522 CTTTTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.24, T:0.18
Consensus pattern (16 bp):
AACATGAAAGAGTTGA
Found at i:38446052 original size:16 final size:16
Alignment explanation
Indices: 38446015--38446054 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
38446005 TTGATAAAAT
* * *
38446015 TAAAACTAATTGTTAT
1 TAAAATTAATTATTAG
38446031 TAAAATTAATTATTAG
1 TAAAATTAATTATTAG
38446047 TAAAATTA
1 TAAAATTA
38446055 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTATTAG
Found at i:38446118 original size:66 final size:70
Alignment explanation
Indices: 38446042--38446188 Score: 221
Period size: 75 Copynumber: 2.1 Consensus size: 70
38446032 AAAATTAATT
38446042 ATTAGTAAAATTATC-A-AA-T-TATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAAC
1 ATTAGTAAAATTATCAATAATTGTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAAC
38446103 ATTTG
66 ATTTG
38446108 ATTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTGTATTAATTGTTGTAACAAAAT
1 ATTAGTAAAATTATC--A--A-TAATTGTATTAATTGTTAATTGTATTAATTGTTGTAACAAAAT
38446173 CTAACATTTG
61 CTAACATTTG
38446183 ATTAGT
1 ATTAGT
38446189 TTACAATTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 9
0.89 0.00 0.11
Matches are distributed among these distances:
66 15 0.21
71 1 0.01
73 2 0.03
74 1 0.01
75 53 0.74
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (70 bp):
ATTAGTAAAATTATCAATAATTGTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAAC
ATTTG
Found at i:38446139 original size:9 final size:9
Alignment explanation
Indices: 38446127--38446161 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
38446117 ATTATCAAAT
38446127 TATTAATTG
1 TATTAATTG
38446136 TATTAATTG
1 TATTAATTG
38446145 --TTAATTG
1 TATTAATTG
38446152 TATTAATTG
1 TATTAATTG
38446161 T
1 T
38446162 TGTAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
9 17 0.71
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:38446148 original size:16 final size:16
Alignment explanation
Indices: 38446124--38446162 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
38446114 AAAATTATCA
*
38446124 AATTATTAATTGTATT
1 AATTGTTAATTGTATT
38446140 AATTGTTAATTGTATT
1 AATTGTTAATTGTATT
38446156 AATTGTT
1 AATTGTT
38446163 GTAACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTGTATT
Found at i:38446631 original size:12 final size:12
Alignment explanation
Indices: 38446598--38446641 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
38446588 TGAAGAAACC
*
38446598 TCATCGTCGCCG
1 TCATCGTCGTCG
* *
38446610 TCGTCATCGTCG
1 TCATCGTCGTCG
38446622 TCATCGTCGTCG
1 TCATCGTCGTCG
38446634 TCATCGTC
1 TCATCGTC
38446642 CTTTTTGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.09, C:0.36, G:0.23, T:0.32
Consensus pattern (12 bp):
TCATCGTCGTCG
Found at i:38446641 original size:9 final size:9
Alignment explanation
Indices: 38446608--38446632 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
38446598 TCATCGTCGC
38446608 CGTCGTCAT
1 CGTCGTCAT
38446617 CGTCGTCAT
1 CGTCGTCAT
38446626 CGTCGTC
1 CGTCGTC
38446633 GTCATCGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.36, G:0.24, T:0.32
Consensus pattern (9 bp):
CGTCGTCAT
Found at i:38448944 original size:92 final size:92
Alignment explanation
Indices: 38448787--38448973 Score: 365
Period size: 92 Copynumber: 2.0 Consensus size: 92
38448777 ATATATATAA
38448787 GTTTATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAG
1 GTTTATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAG
38448852 CTTATATGCATACTTTGATACAAATAG
66 CTTATATGCATACTTTGATACAAATAG
*
38448879 GTTTATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTTTAAATTGTAG
1 GTTTATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAG
38448944 CTTATATGCATACTTTGATACAAATAG
66 CTTATATGCATACTTTGATACAAATAG
38448971 GTT
1 GTT
38448974 AAAAATTTTA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (92 bp):
GTTTATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAG
CTTATATGCATACTTTGATACAAATAG
Found at i:38456272 original size:21 final size:20
Alignment explanation
Indices: 38456225--38456272 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
38456215 CATGTACTCC
*
38456225 ATTTTTTTTTAATTCTTATG
1 ATTTTTTTTTAATTATTATG
* * *
38456245 AACTTTTTTATAATTATTTTG
1 -ATTTTTTTTTAATTATTATG
38456266 ATTTTTT
1 ATTTTTT
38456273 CCATTAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTTTTTTTAATTATTATG
Found at i:38456642 original size:43 final size:42
Alignment explanation
Indices: 38456576--38456924 Score: 376
Period size: 43 Copynumber: 8.2 Consensus size: 42
38456566 TTTTAGAAAT
* * * *
38456576 AAACGCCGTTATAGACCATGACCTTTAGCGGGGCTCTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCT-TTTCCAC
** * *
38456619 AAACGCCGCTATAGATCGGGACCTTTAGCGGCACTTTTGCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAC
*
38456661 AAACGCCGCTATAGATCAAGACCTTTAGTGGCGCCTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCG-CTTTTCCAC
* *** *
38456704 AAATGCCGCTATAGATTGGGACCTGTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTTCCAC
**
38456747 AAACGCCGCTATAGATCGGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCAC
* **
38456790 AAACGCTGCTATAGATCAAGATTTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTTCCAC
** * *
38456833 AAACGCCGCTATATCTCAAGACCTTTAGCAGCACTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCAC
* * * * *
38456876 AAACGCCGCTATAGAACAA-ACCTTTATCGACGCTTCTCGCAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTC-CAC
38456918 AAACGCC
1 AAACGCC
38456925 ACTAAAAACA
Statistics
Matches: 258, Mismatches: 42, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
41 1 0.00
42 66 0.26
43 187 0.72
44 4 0.02
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAC
Found at i:38456856 original size:129 final size:128
Alignment explanation
Indices: 38456576--38456890 Score: 423
Period size: 129 Copynumber: 2.5 Consensus size: 128
38456566 TTTTAGAAAT
* * * * *
38456576 AAACGCCGTTATAGACCATGACCTTTAGCGGGGCTCTTTCCACAAACGCCGCTATAGATCGGGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCGGGAC
* *
38456641 CTTTAGCGGCACTTTTGCACAAACGCCGCTATAGATCAAGACCTTTAGTGGCGCCTTTTCCAC
66 CTTTAGCGGCACTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCCTTTTCCAC
* *** *
38456704 AAATGCCGCTATAGATTGGGACCTGTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCGGGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCGGGAC
* * ** *
38456769 CTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGATCAAGATTTTTAGCGGCGCTTTTTCCAC
66 CTTTAGCGGCACTTTT-CCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCCTTTTCCAC
** * * *
38456833 AAACGCCGCTATATCTCAAGACCTTTAGCAGCACTTTTCCCACAAACGCCGCTATAGA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGA
38456891 ACAAACCTTT
Statistics
Matches: 160, Mismatches: 26, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
128 71 0.44
129 89 0.56
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (128 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCGGGAC
CTTTAGCGGCACTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCCTTTTCCAC
Found at i:38457492 original size:23 final size:23
Alignment explanation
Indices: 38457466--38457638 Score: 110
Period size: 23 Copynumber: 7.6 Consensus size: 23
38457456 TGTGCATATA
*
38457466 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTACAGCACTTT
* *
38457489 AACA-TCTCAATTAACAACA-TTT
1 AACACT-TCAATTTACAGCACTTT
* **
38457511 ATACACCTCAA-TTACA--ACGAT
1 A-ACACTTCAATTTACAGCACTTT
* * *
38457532 AAAACATCTCAATTTCCAGCAAC-TA
1 AACAC-T-TCAATTTACAGC-ACTTT
* *
38457557 AACACTTCAATTTGCAGCACTTA
1 AACACTTCAATTTACAGCACTTT
* *
38457580 AACACTTCAATTTATAACA-TTT
1 AACACTTCAATTTACAGCACTTT
38457602 AAACACTTCAATTTACAGCA-TTT
1 -AACACTTCAATTTACAGCACTTT
38457625 AAACACTTCAATTT
1 -AACACTTCAATTT
38457639 GTAAGGCCAA
Statistics
Matches: 118, Mismatches: 20, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.03
21 2 0.02
22 17 0.14
23 88 0.75
24 1 0.01
25 4 0.03
26 2 0.02
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (23 bp):
AACACTTCAATTTACAGCACTTT
Found at i:38457542 original size:22 final size:23
Alignment explanation
Indices: 38457489--38457545 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
38457479 GCAGCACTTT
*
38457489 AACATCTCAATTAACAACATTTA
1 AACATCTCAATTAACAACATTAA
* *
38457512 TACACCTCAATT-ACAACGA-TAA
1 AACATCTCAATTAACAAC-ATTAA
38457534 AACATCTCAATT
1 AACATCTCAATT
38457546 TCCAGCAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.28
Consensus pattern (23 bp):
AACATCTCAATTAACAACATTAA
Found at i:38457590 original size:46 final size:46
Alignment explanation
Indices: 38457464--38457638 Score: 151
Period size: 46 Copynumber: 3.8 Consensus size: 46
38457454 TTTGTGCATA
* * * **
38457464 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTACAGCACTTAAACACT-TCAATTTACAACAAC
* * * * * *
38457510 TATACACCTCAA-TTACAACGA-TAAAACA-TCTCAATTTCCAGCAAC
1 TAAACACTTCAATTTACAGC-ACTTAAACACT-TCAATTTACAACAAC
* * **
38457555 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTATAACATT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAACAAC
*
38457601 TAAACACTTCAATTTACAGCATTTAAACACTTCAATTT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTT
38457639 GTAAGGCCAA
Statistics
Matches: 102, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
45 33 0.32
46 68 0.67
47 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (46 bp):
TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAACAAC
Found at i:38458034 original size:29 final size:29
Alignment explanation
Indices: 38458000--38458073 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
38457990 CAACCAAATG
38458000 ATATGCATCCAACAAATTGTTCAAATACC
1 ATATGCATCCAACAAATTGTTCAAATACC
38458029 ATATGCATCCAACAAATTGTTCAAATACC
1 ATATGCATCCAACAAATTGTTCAAATACC
*
38458058 ATATGCATCTAACAAA
1 ATATGCATCCAACAAA
38458074 ATGCAAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (29 bp):
ATATGCATCCAACAAATTGTTCAAATACC
Found at i:38458729 original size:14 final size:15
Alignment explanation
Indices: 38458696--38458732 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
38458686 CATTTATTAT
**
38458696 TTTTTATAAATTTTA
1 TTTTTATAAATTGGA
38458711 TTTTTATAAATTGGA
1 TTTTTATAAATTGGA
38458726 TTTTTAT
1 TTTTTAT
38458733 TAAAAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
TTTTTATAAATTGGA
Found at i:38459380 original size:7 final size:7
Alignment explanation
Indices: 38459368--38459461 Score: 53
Period size: 7 Copynumber: 13.1 Consensus size: 7
38459358 ACTAATTAAT
38459368 CTAAACC
1 CTAAACC
38459375 CTAAACC
1 CTAAACC
*
38459382 CTTAACC
1 CTAAACC
***
38459389 CTTTTCC
1 CTAAACC
*
38459396 CTTATACC
1 C-TAAACC
*
38459404 CTAAATC
1 CTAAACC
* *
38459411 ATAAAAC
1 CTAAACC
*
38459418 ATAAACC
1 CTAAACC
38459425 CTAAACC
1 CTAAACC
*
38459432 CTTAACC
1 CTAAACC
***
38459439 CTTTTCC
1 CTAAACC
38459446 CTTAAACC
1 C-TAAACC
38459454 CTAAACC
1 CTAAACC
38459461 C
1 C
38459462 CAACATTTAA
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
7 59 0.87
8 9 0.13
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (7 bp):
CTAAACC
Found at i:38459500 original size:22 final size:22
Alignment explanation
Indices: 38459469--38459517 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
38459459 CCCCAACATT
*
38459469 TAAA-CCATAAAT-CATAATCCC
1 TAAACCCAT-AATCCATAATCCA
38459490 TAAACCCATAATCCATAATCCA
1 TAAACCCATAATCCATAATCCA
38459512 TAAACC
1 TAAACC
38459518 TTAAGATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCATAATCCATAATCCA
Found at i:38459563 original size:14 final size:14
Alignment explanation
Indices: 38459541--38459585 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
38459531 TTCTAAACCT
* *
38459541 TAAATCCTAAATTA
1 TAAACCCTAAACTA
* *
38459555 TATACCCTAAACCA
1 TAAACCCTAAACTA
38459569 TAAACCCTAAACTA
1 TAAACCCTAAACTA
38459583 TAA
1 TAA
38459586 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:38459648 original size:7 final size:7
Alignment explanation
Indices: 38459632--38459811 Score: 53
Period size: 7 Copynumber: 24.6 Consensus size: 7
38459622 TAGTTAATCC
*
38459632 AAACCCT
1 AAACCAT
38459639 AAACCAT
1 AAACCAT
38459646 AAACC-T
1 AAACCAT
*
38459652 AAACCCT
1 AAACCAT
*
38459659 AAAACCCT
1 -AAACCAT
38459667 AAAACCAT
1 -AAACCAT
*
38459675 AAACCCT
1 AAACCAT
*
38459682 TAACACAT
1 AAAC-CAT
*
38459690 -AACCTCT
1 AAACC-AT
*
38459697 AAACCTT
1 AAACCAT
38459704 AAACCCCAACT
1 AAA--CC-A-T
*
38459715 AACCCAT
1 AAACCAT
*
38459722 AACCCAT
1 AAACCAT
38459729 AAACCCAT
1 AAA-CCAT
*
38459737 AATCCAT
1 AAACCAT
*
38459744 AAACCTT
1 AAACCAT
***
38459751 AAAATGGT
1 -AAACCAT
38459759 AACACC-T
1 AA-ACCAT
*
38459766 AAACCTT
1 AAACCAT
38459773 AAACTC-T
1 AAAC-CAT
38459780 AAACCAT
1 AAACCAT
* *
38459787 ATACCCT
1 AAACCAT
*
38459794 AAACCAA
1 AAACCAT
*
38459801 AAACCAA
1 AAACCAT
38459808 AAAC
1 AAAC
38459812 TATAGTGATA
Statistics
Matches: 135, Mismatches: 23, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
6 11 0.08
7 84 0.62
8 33 0.24
9 4 0.03
11 3 0.02
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.17
Consensus pattern (7 bp):
AAACCAT
Found at i:38459665 original size:8 final size:7
Alignment explanation
Indices: 38459632--38459709 Score: 61
Period size: 7 Copynumber: 10.9 Consensus size: 7
38459622 TAGTTAATCC
38459632 AAACCCT
1 AAACCCT
*
38459639 AAACCAT
1 AAACCCT
38459646 AAA-CCT
1 AAACCCT
38459652 AAACCCT
1 AAACCCT
38459659 AAAACCCT
1 -AAACCCT
*
38459667 AAAACCAT
1 -AAACCCT
38459675 AAACCCT
1 AAACCCT
* *
38459682 TAACAC-
1 AAACCCT
38459688 ATAACCTCT
1 A-AACC-CT
*
38459697 AAACCTT
1 AAACCCT
38459704 AAACCC
1 AAACCC
38459710 CAACTAACCC
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
6 5 0.09
7 31 0.55
8 19 0.34
9 1 0.02
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:38459693 original size:29 final size:29
Alignment explanation
Indices: 38459632--38459709 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
38459622 TAGTTAATCC
*
38459632 AAACCCTAAACCATAAA-CCTAAACCCTA
1 AAACCCTAAACCATAAACCCTAAACACTA
*
38459660 AAACCCTAAAACCATAAACCCTTAACAC-A
1 AAACCCT-AAACCATAAACCCTAAACACTA
* *
38459689 TAACCTCTAAACCTTAAACCC
1 AAACC-CTAAACCATAAACCC
38459710 CAACTAACCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 7 0.16
29 27 0.63
30 9 0.21
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (29 bp):
AAACCCTAAACCATAAACCCTAAACACTA
Found at i:38459708 original size:15 final size:14
Alignment explanation
Indices: 38459632--38459805 Score: 103
Period size: 15 Copynumber: 12.4 Consensus size: 14
38459622 TAGTTAATCC
38459632 AAACCCTAAACCAT
1 AAACCCTAAACCAT
*
38459646 AAA-CCTAAACCCT
1 AAACCCTAAACCAT
38459659 AAAACCCTAAAACCAT
1 -AAACCCT-AAACCAT
*
38459675 AAACCCTTAACACAT
1 AAACCCTAAAC-CAT
*
38459690 -AACCTCTAAACCTT
1 AAACC-CTAAACCAT
*
38459704 AAACCC-CAA-C-T
1 AAACCCTAAACCAT
*
38459715 -AACCCATAACCCAT
1 AAACCC-TAAACCAT
*
38459729 AAACCCATAATCCAT
1 AAACCC-TAAACCAT
*
38459744 AAACCTTAAA--AT
1 AAACCCTAAACCAT
* *
38459756 GGTAACACCTAAACCTT
1 --AAAC-CCTAAACCAT
*
38459773 AAACTCTAAACCAT
1 AAACCCTAAACCAT
* *
38459787 ATACCCTAAACCAA
1 AAACCCTAAACCAT
38459801 AAACC
1 AAACC
38459806 AAAAACTATA
Statistics
Matches: 123, Mismatches: 21, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
10 5 0.04
11 1 0.01
12 4 0.03
13 12 0.10
14 46 0.37
15 48 0.39
16 6 0.05
17 1 0.01
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:38460237 original size:41 final size:41
Alignment explanation
Indices: 38460179--38460395 Score: 290
Period size: 41 Copynumber: 5.3 Consensus size: 41
38460169 AAAGCCTTCA
* *
38460179 CTAAAGCCCCGAGCATTAGCGGCGCTTATTGAAAAACGCCG
1 CTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGCCG
* * * * *
38460220 CTAAAGCCTAGAACATTAGTGGCACTTTTTGAAAAACGCTG
1 CTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGCCG
* * * *
38460261 CTAAAGCCTAGAGCATTAGTGGCACTTTTTGAAAAACGCTG
1 CTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGCCG
* *
38460302 CTAAAGCCCAGAGCATTAGCGGCGCTTCTTGAAAAACGTCG
1 CTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGCCG
* * *
38460343 CTAAAGCCCAGAGCATCAGCTGCGCTCTTTGAAAAACGCCG
1 CTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGCCG
38460384 CTAAAGCCCAGA
1 CTAAAGCCCAGA
38460396 AAGCTCAAAA
Statistics
Matches: 157, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 157 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (41 bp):
CTAAAGCCCAGAGCATTAGCGGCGCTTTTTGAAAAACGCCG
Found at i:38460489 original size:40 final size:40
Alignment explanation
Indices: 38460445--38460554 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 40
38460435 GGCACTTCCT
38460445 GAAAAATGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTC
1 GAAAAATGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTC
*** *
38460485 GAAAAGCACCGCTAATGCTCTA-TTTTAGCGGTGTTTTTC
1 GAAAAATGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTC
* * * * *
38460524 TATAACTGTCGCTAATGCTCGATTTTTAGCG
1 GAAAAATGCCGCTAATGCTCTATTTTTAGCG
38460555 ACTTTTTTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 31 0.53
40 27 0.47
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (40 bp):
GAAAAATGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTC
Found at i:38462232 original size:17 final size:18
Alignment explanation
Indices: 38462200--38462234 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38462190 TGAGCGTGCT
38462200 TCTTTTAAAAATAATTTC
1 TCTTTTAAAAATAATTTC
38462218 TCTTTTAAAAA-AATTTC
1 TCTTTTAAAAATAATTTC
38462235 CTGTTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
TCTTTTAAAAATAATTTC
Found at i:38465847 original size:28 final size:26
Alignment explanation
Indices: 38465792--38465903 Score: 79
Period size: 28 Copynumber: 4.2 Consensus size: 26
38465782 CATATATCAC
38465792 TAAGCACAAAGTGC-AAAT-A-ACAA
1 TAAGCACAAAGTGCAAAATAATACAA
*
38465815 TAAGCACAGAAGTGCAAAATAATTACGA
1 TAAGCACA-AAGTGCAAAATAA-TACAA
* *
38465843 TAAGCACCAATGTGCAAATTTTACA-ACAA
1 TAAGCA-CAAAGTGCAAA--ATA-ATACAA
* * *
38465872 TAAGCACTGAAGTACAAAATAATACGA
1 TAAGCAC-AAAGTGCAAAATAATACAA
38465899 TAAGC
1 TAAGC
38465904 GCGCTAATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
23 8 0.12
24 6 0.09
25 4 0.06
26 2 0.03
27 10 0.14
28 18 0.26
29 18 0.26
30 2 0.03
31 1 0.01
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (26 bp):
TAAGCACAAAGTGCAAAATAATACAA
Found at i:38468207 original size:16 final size:16
Alignment explanation
Indices: 38468182--38468212 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38468172 TATTAGAATT
38468182 TTATAAATAATTATAC
1 TTATAAATAATTATAC
*
38468198 TTATATATAATTATA
1 TTATAAATAATTATA
38468213 TGAAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAAATAATTATAC
Found at i:38468365 original size:20 final size:21
Alignment explanation
Indices: 38468337--38468376 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38468327 AAAACTGCAA
*
38468337 ATAAGTTAA-AGAAGATTATT
1 ATAAATTAATAGAAGATTATT
*
38468357 ATAAATTAATAGAAGTTTAT
1 ATAAATTAATAGAAGATTAT
38468377 AAAACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (21 bp):
ATAAATTAATAGAAGATTATT
Found at i:38468414 original size:88 final size:88
Alignment explanation
Indices: 38468303--38468474 Score: 326
Period size: 88 Copynumber: 2.0 Consensus size: 88
38468293 TATAAAATTT
* *
38468303 TAGAAATTATTAAAATTTACAAAAAAAACTGCAAATAAGTTAAAGAAGATTATTATAAATTAATA
1 TAGAAATTATTAAAATTTACAAAAAAAACTACAAATAAGTTAAAGAAGATTATTATAAAATAATA
38468368 GAAGTTTATAAAACAAAAATTAA
66 GAAGTTTATAAAACAAAAATTAA
38468391 TAGAAATTATTAAAATTTACAAAAAAAACTACAAATAAGTTAAAGAAGATTATTATAAAATAATA
1 TAGAAATTATTAAAATTTACAAAAAAAACTACAAATAAGTTAAAGAAGATTATTATAAAATAATA
38468456 GAAGTTTATAAAACAAAAA
66 GAAGTTTATAAAACAAAAA
38468475 ATTATTGCAA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 82 1.00
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (88 bp):
TAGAAATTATTAAAATTTACAAAAAAAACTACAAATAAGTTAAAGAAGATTATTATAAAATAATA
GAAGTTTATAAAACAAAAATTAA
Found at i:38468445 original size:43 final size:42
Alignment explanation
Indices: 38468304--38468445 Score: 139
Period size: 43 Copynumber: 3.3 Consensus size: 42
38468294 ATAAAATTTT
*
38468304 AGAAATTATTAAAATTTACAAAAAAAACTGCAAATAAGTTAA
1 AGAAATTATTAAAATTTACAAAAAAAACTACAAATAAGTTAA
* * *
38468346 AGAAGATTATTATAAATTAATAGAAGTTTATAAA--ACAAA-AA-TTAA
1 AGAA-ATTATTA-AAATT--TACAA---AAAAAACTACAAATAAGTTAA
38468391 TAGAAATTATTAAAATTTACAAAAAAAACTACAAATAAGTTAA
1 -AGAAATTATTAAAATTTACAAAAAAAACTACAAATAAGTTAA
38468434 AGAAGATTATTA
1 AGAA-ATTATTA
38468446 TAAAATAATA
Statistics
Matches: 80, Mismatches: 7, Indels: 25
0.71 0.06 0.22
Matches are distributed among these distances:
39 4 0.05
41 5 0.06
42 14 0.17
43 18 0.22
44 10 0.12
45 11 0.14
46 10 0.12
47 4 0.05
49 4 0.05
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (42 bp):
AGAAATTATTAAAATTTACAAAAAAAACTACAAATAAGTTAA
Found at i:38469093 original size:16 final size:16
Alignment explanation
Indices: 38469046--38469095 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
38469036 TTATGAACTT
*
38469046 TTTATATTTTTTTAAT-
1 TTTA-ATTTTTTTATTA
**
38469062 TTTAATTTTGAT-TTA
1 TTTAATTTTTTTATTA
38469077 TTTAATTTTTTTATTA
1 TTTAATTTTTTTATTA
38469093 TTT
1 TTT
38469096 TTTGACATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 1 0.04
15 16 0.59
16 10 0.37
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTAATTTTTTTATTA
Found at i:38469405 original size:13 final size:14
Alignment explanation
Indices: 38469382--38469410 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
38469372 AATTTATTTT
38469382 TATATAAAAATTAA
1 TATATAAAAATTAA
38469396 TATA-AAAAATTAA
1 TATATAAAAATTAA
38469409 TA
1 TA
38469411 CGGGTCAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TATATAAAAATTAA
Found at i:38470335 original size:14 final size:15
Alignment explanation
Indices: 38470318--38470369 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
38470308 AAAATGTTTT
38470318 TTAATTATTTAATT-
1 TTAATTATTTAATTA
* *
38470332 TTAAATAGTTAATTA
1 TTAATTATTTAATTA
*
38470347 TTATATTGTTTAAATTA
1 TTA-ATTATTT-AATTA
38470364 TTAATT
1 TTAATT
38470370 TGTATGTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 12 0.40
15 3 0.10
16 7 0.23
17 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
TTAATTATTTAATTA
Found at i:38483233 original size:20 final size:20
Alignment explanation
Indices: 38483210--38483248 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38483200 ACCTTCGAGG
38483210 AATGTCTCAGAAGTTCGAAA
1 AATGTCTCAGAAGTTCGAAA
*
38483230 AATGTCTTAGAAGTTCGAA
1 AATGTCTCAGAAGTTCGAA
38483249 GCTTTCTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (20 bp):
AATGTCTCAGAAGTTCGAAA
Found at i:38485700 original size:28 final size:26
Alignment explanation
Indices: 38485656--38485707 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
38485646 ATATTATTAA
38485656 TATAATATATAAATGTTATAATAAGG
1 TATAATATATAAATGTTATAATAAGG
*
38485682 TATAATATATTATTATGTTATAATAA
1 TATAATATA-TA-AATGTTATAATAA
38485708 ACATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 2 0.09
28 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (26 bp):
TATAATATATAAATGTTATAATAAGG
Found at i:38486725 original size:41 final size:41
Alignment explanation
Indices: 38486609--38486732 Score: 185
Period size: 41 Copynumber: 3.0 Consensus size: 41
38486599 TTAGTGATAT
* * *
38486609 TCAGGCTTTATGCCTAGCAGGCTTTATGTCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCATA
* * *
38486650 TCAAGCTTTATGCCTAGCAGGCTTCATGCCGGTGTACCATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCATA
*
38486691 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGTATCATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCATA
38486732 T
1 T
38486733 TTGGATTTGT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCATA
Found at i:38491644 original size:22 final size:22
Alignment explanation
Indices: 38491616--38491669 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
38491606 TTCAACTTTC
* *
38491616 TTAATTAAGCTTTAA-TAAATCA
1 TTAATTAAGC-CTAATTAAACCA
38491638 TTAATTAAGCCTAATTAAACCA
1 TTAATTAAGCCTAATTAAACCA
38491660 TTAATTAAGC
1 TTAATTAAGC
38491670 ATAACCTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (22 bp):
TTAATTAAGCCTAATTAAACCA
Found at i:38494532 original size:19 final size:18
Alignment explanation
Indices: 38494504--38494539 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
38494494 TTTAGAATGT
*
38494504 AAAAATTAAATTAAAAAC
1 AAAAATTAAAATAAAAAC
38494522 AAAATATTAAAATAAAAA
1 AAAA-ATTAAAATAAAAA
38494540 TTAAAATGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAATTAAAATAAAAAC
Found at i:38497636 original size:25 final size:25
Alignment explanation
Indices: 38497605--38497656 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
38497595 TATTTAAAAA
*
38497605 ATTAAATATAATA-ATTTATTTTTAT
1 ATTAAATA-AATATAATTATTTTTAT
38497630 ATTAAATAAATATAATTATTTTTAT
1 ATTAAATAAATATAATTATTTTTAT
38497655 AT
1 AT
38497657 ATAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTAAATAAATATAATTATTTTTAT
Found at i:38497662 original size:25 final size:25
Alignment explanation
Indices: 38497605--38497667 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 25
38497595 TATTTAAAAA
38497605 ATTAAAT-ATAATAATTTATTTTTAT
1 ATTAAATAAT-ATAATTTATTTTTAT
38497630 ATTAAATAAATATAA-TTATTTTTAT
1 ATTAAAT-AATATAATTTATTTTTAT
38497655 A-TATAATAATATA
1 ATTA-AATAATATA
38497668 GCGTAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
24 8 0.23
25 21 0.60
26 4 0.11
27 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTAAATAATATAATTTATTTTTAT
Found at i:38498513 original size:26 final size:26
Alignment explanation
Indices: 38498473--38498522 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
38498463 TCAATTAAAT
* *
38498473 TAGTCATATATGTAGTTATTTTTTAA
1 TAGTCAAATAGGTAGTTATTTTTTAA
*
38498499 TAGTCAAATAGGTAGTTTTTTTTT
1 TAGTCAAATAGGTAGTTATTTTTT
38498523 TTAAAAGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.54
Consensus pattern (26 bp):
TAGTCAAATAGGTAGTTATTTTTTAA
Found at i:38504208 original size:30 final size:29
Alignment explanation
Indices: 38504174--38504237 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
38504164 ATTGCAGCAA
* *
38504174 CATGCAAGAAACCATGCAACACAGCTGCAG
1 CATGCAACAAACCA-GCAACACAGCTGAAG
* *
38504204 CATGCAACTAACCAGGAACACAGCTGAAG
1 CATGCAACAAACCAGCAACACAGCTGAAG
38504233 CATGC
1 CATGC
38504238 TAATGTCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.39, C:0.30, G:0.20, T:0.11
Consensus pattern (29 bp):
CATGCAACAAACCAGCAACACAGCTGAAG
Found at i:38505202 original size:44 final size:44
Alignment explanation
Indices: 38505148--38505237 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
38505138 TTTGCCAAAA
38505148 CTTTTAACCAAGTTTAGTTTGAGGTATTCAAAGGCCGAAACTAT
1 CTTTTAACCAAGTTTAGTTTGAGGTATTCAAAGGCCGAAACTAT
* * *
38505192 CTTTTGACCAAGTTTAGTTTGAGGTCTTCAAAGGCCGAAGCTAT
1 CTTTTAACCAAGTTTAGTTTGAGGTATTCAAAGGCCGAAACTAT
38505236 CT
1 CT
38505238 ACCTAAACCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (44 bp):
CTTTTAACCAAGTTTAGTTTGAGGTATTCAAAGGCCGAAACTAT
Found at i:38509200 original size:2 final size:2
Alignment explanation
Indices: 38509154--38509182 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
38509144 TAGCACAGAT
38509154 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38509183 TCAGCCGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38509737 original size:41 final size:41
Alignment explanation
Indices: 38509675--38509859 Score: 327
Period size: 41 Copynumber: 4.5 Consensus size: 41
38509665 GACTTTAAGT
*
38509675 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
38509716 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
38509757 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
38509797 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
38509838 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
38509860 ATATGTTAAA
Statistics
Matches: 138, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
40 38 0.28
41 100 0.72
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:38509835 original size:81 final size:82
Alignment explanation
Indices: 38509675--38509859 Score: 336
Period size: 81 Copynumber: 2.3 Consensus size: 82
38509665 GACTTTAAGT
38509675 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
38509740 TGAATCAGGTTATAAAC
66 TGAATCAGGCTATAAAC
38509757 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AACCTAGCAGGCTAAGTGCCGGTGATC
1 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
38509821 TGAATCAGGCTATAAGC
66 TGAATCAGGCTATAAAC
*
38509838 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGTAGGCTAAGTGCCGGTGA
38509860 ATATGTTAAA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 63 0.63
82 37 0.37
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (82 bp):
CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
TGAATCAGGCTATAAAC
Found at i:38516816 original size:67 final size:66
Alignment explanation
Indices: 38516537--38516826 Score: 215
Period size: 65 Copynumber: 4.4 Consensus size: 66
38516527 TCCATAAGCA
* * *
38516537 AAAATACAATGGTATGAATTGTATAAATATGTTAGCCGAATGTATACATATGTTTTGAA-TTTAT
1 AAAATAAAAT-GTATGAA-T-TATATATATGTTAGCCG-ATGTATATATATGTTTTGAATTTTAT
38516601 AAGTT
62 AAGTT
* * * * * * *
38516606 AAAATAAAATGTATGAATTGTATATAT-ATATG-TGTTAGTCA-ATGTAT-ATTTGAGTTTTATA
1 AAAATAAAATGTATGAATTATATATATGTTA-GCCGAT-GT-ATATATATGTTTTGAATTTTATA
38516667 AGTT
63 AGTT
* * * * * *
38516671 AAAATAAAGTGCATAAATTATATATATATATAGCCGA---ATATATATG--TTGAGTTTTGTAAG
1 AAAATAAAATGTATGAATTATATATATGT-TAGCCGATGTATATATATGTTTTGAATTTTATAAG
38516731 TT
65 TT
* * * * *
38516733 -GAATGAAATTTAATGAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTATGA
1 AAAATAAAATGT-ATGAATTATATATATGTTAGCCG-ATGTATATATATGTTTTGAATTTTATAA
38516797 GTT
64 GTT
*
38516800 AAAATAAAATGTATGAATTGTATATAT
1 AAAATAAAATGTATGAATTATATATAT
38516827 ATGTGTTAGT
Statistics
Matches: 169, Mismatches: 35, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
61 12 0.07
62 31 0.18
63 5 0.03
64 6 0.04
65 51 0.30
66 10 0.06
67 30 0.18
68 15 0.09
69 9 0.05
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.41
Consensus pattern (66 bp):
AAAATAAAATGTATGAATTATATATATGTTAGCCGATGTATATATATGTTTTGAATTTTATAAGT
T
Found at i:38516956 original size:201 final size:192
Alignment explanation
Indices: 38516563--38516975 Score: 607
Period size: 201 Copynumber: 2.1 Consensus size: 192
38516553 AATTGTATAA
38516563 ATATGTTAGCCGAATGTATACATATGTTTTGAATTTATAAGTTAAAATAAAATGTATGAATTGTA
1 ATATGTTAGCCGAATGTATACATATGTTTTGAATTTATAAGTTAAAATAAAATGTATGAATTG-A
38516628 TATATATATGTGTTAGTCAATGTATATTTGAGTTTTATAAGTTAAAATAAAGTGCATAAATTATA
65 TATATATATGTGTTAGTCAATGTATATTTGAGTTTTATAAGTTAAAATAAAGTGCATAAATTATA
* * *
38516693 TATATATATAGCCGAATATATATGTTGAGTTTTGTAAGTTGAATGAAATTTAATGAATTACAT
130 TATATATATAACCGAATATATATGCTGAATTTTGTAAGTTGAATGAAATTTAATGAATTACAT
* *
38516756 ATATGTTAGCCGAATGTATATATATGTTTTGAATTTTATGAGTTAAAATAAAATGTATGAATTG-
1 ATATGTTAGCCGAATGTATACATATGTTTTGAA-TTTATAAGTTAAAATAAAATGTATGAATTGA
* * *
38516820 TATATATATGTGTTAGTTAATGTATATTTGAG-TTTATAAGTTAAAATAAATTGCACAGATTATA
65 TATATATATGTGTTAGTCAATGTATATTTGAGTTTTATAAGTTAAAATAAAGTG--C--A-TAAA
*
38516884 TATATATATATATATTCAACCGAATATATATATGCTGAATTTTGTAAGTTGGATGAAATTTAAT-
125 T-TATATATATATA-T-AACCG-A-ATATATATGCTGAATTTTGTAAGTTGAATGAAATTTAATG
38516948 AGATTACAT
185 A-ATTACAT
38516957 ATATGTTAGCCGAATGTAT
1 ATATGTTAGCCGAATGTAT
38516976 GTATTGAATT
Statistics
Matches: 199, Mismatches: 9, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
191 20 0.10
192 31 0.16
193 33 0.17
194 29 0.15
195 1 0.01
196 4 0.02
197 12 0.06
198 1 0.01
199 4 0.02
200 2 0.01
201 62 0.31
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.42
Consensus pattern (192 bp):
ATATGTTAGCCGAATGTATACATATGTTTTGAATTTATAAGTTAAAATAAAATGTATGAATTGAT
ATATATATGTGTTAGTCAATGTATATTTGAGTTTTATAAGTTAAAATAAAGTGCATAAATTATAT
ATATATATAACCGAATATATATGCTGAATTTTGTAAGTTGAATGAAATTTAATGAATTACAT
Found at i:38517441 original size:41 final size:41
Alignment explanation
Indices: 38517391--38517529 Score: 233
Period size: 41 Copynumber: 3.4 Consensus size: 41
38517381 GACTTTAAGT
* *
38517391 CTAGTAGGCTAAGTGCTGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
38517432 CTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
38517473 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
38517514 CTAGCAGGCTAAGTGC
1 CTAGCAGGCTAAGTGC
38517530 TAGTGAATAT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:38520670 original size:26 final size:26
Alignment explanation
Indices: 38520631--38520691 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
38520621 CCGTTATTTG
*
38520631 GTGGATTCAACACTTAGCAACTACCA
1 GTGGATTCAGCACTTAGCAACTACCA
*
38520657 GTGGATTCAGCACTTAGCAACTACTA
1 GTGGATTCAGCACTTAGCAACTACCA
38520683 GT-GATTCAG
1 GTGGATTCAG
38520692 GGAATCAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 7 0.21
26 26 0.79
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (26 bp):
GTGGATTCAGCACTTAGCAACTACCA
Found at i:38520928 original size:76 final size:75
Alignment explanation
Indices: 38520764--38520952 Score: 254
Period size: 76 Copynumber: 2.5 Consensus size: 75
38520754 AAGAAATATG
* * ** * *
38520764 CCACCAATGATTCGGGGAATCAACACTTAGCAACCCC-TTACACAATCGGTTACGGTGGGATCAA
1 CCACCGATGATTTGGGGAATCAACACTTAGCAACCCCTTTACACAATAAGTTACAGTGGAATCAA
38520828 CACTTAGCAA
66 CACTTAGCAA
* * * *
38520838 CCACCGATGATTTGGGGAATCAGCAGTTAGCAACCCCTTTTCACATTTAAGTTACAGTGGAATCA
1 CCACCGATGATTTGGGGAATCAACACTTAGCAACCCCTTTACACA-ATAAGTTACAGTGGAATCA
*
38520903 GCACTTAGCAA
65 ACACTTAGCAA
*
38520914 CCACCGATGTTTTGGGGAATCAACACTTAGCAACCCCTT
1 CCACCGATGATTTGGGGAATCAACACTTAGCAACCCCTT
38520953 GGGGGAATCA
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
74 33 0.33
75 6 0.06
76 60 0.61
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (75 bp):
CCACCGATGATTTGGGGAATCAACACTTAGCAACCCCTTTACACAATAAGTTACAGTGGAATCAA
CACTTAGCAA
Found at i:38522918 original size:129 final size:125
Alignment explanation
Indices: 38522528--38522972 Score: 649
Period size: 125 Copynumber: 3.5 Consensus size: 125
38522518 CCCAAACATG
* * * *
38522528 CTACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
38522593 TTGAAGCATTTTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCAAGAC
66 TTGAAGCATTTTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCAAGAC
* *
38522653 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCAATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* ** * *
38522718 TTGAAGCATTTTTTATACTATTTGCTCAGAAATGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCATTTTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCAAGAC
* *
38522778 CTACTGTAGCAAAAGCACGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* ** * *
38522843 TTGGAGTGTTTTTTTTTTATACTATTTTCTCAAAAACATCAACTCGAAATTATTTTTTCAAGAC
66 TT-GA-AG--CATTTTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCAAGAC
* * * *
38522907 CTACTGTAGCAAAAGCGCGTCCACCTGGGCGCGA-TTCAGAAATTCTTTTGTTAAAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
38522971 TT
66 TT
38522973 TGATTTTATC
Statistics
Matches: 286, Mismatches: 30, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
125 177 0.62
126 2 0.01
127 1 0.00
128 28 0.10
129 78 0.27
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCATTTTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCAAGAC
Found at i:38524672 original size:17 final size:17
Alignment explanation
Indices: 38524638--38524681 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
38524628 CATAATTCAT
* * *
38524638 AAAAATAAAGAAATAAC
1 AAAAAAAAAAAAAAAAC
38524655 AAAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAAC
38524672 AAAAACAAAA
1 AAAAA-AAAA
38524682 TGCTCCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.86, C:0.07, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAC
Found at i:38525483 original size:18 final size:18
Alignment explanation
Indices: 38525400--38525495 Score: 51
Period size: 18 Copynumber: 5.3 Consensus size: 18
38525390 TTCATATTTT
38525400 AAATT-AAAAA-TA-AAA
1 AAATTCAAAAATTATAAA
*
38525415 AAATTTAAAAATTATAATCTAA
1 AAATTCAAAAATTAT-A---AA
38525437 CAAATTCAAAAATTATAAA
1 -AAATTCAAAAATTATAAA
* * *
38525456 AAA-TAAAAAAATATTTAA
1 AAATTCAAAAATTA-TAAA
38525474 AAATTC-AAAATTA-AAA
1 AAATTCAAAAATTATAAA
38525490 ACAATT
1 A-AATT
38525496 TTTTAAAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
15 5 0.08
16 8 0.13
17 14 0.22
18 15 0.24
19 4 0.06
22 3 0.05
23 14 0.22
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATTCAAAAATTATAAA
Found at i:38525483 original size:27 final size:29
Alignment explanation
Indices: 38525444--38525505 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
38525434 TAACAAATTC
*
38525444 AAAAATTATAAAAAATAAAAA-AA-TATTT
1 AAAAATTA-CAAAAATAAAAACAATTATTT
* *
38525472 AAAAATT-CAAAATTAAAAACAATTTTTT
1 AAAAATTACAAAAATAAAAACAATTATTT
38525500 AAAAAT
1 AAAAAT
38525506 CATTTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.34
27 2 0.07
28 17 0.59
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAAATTACAAAAATAAAAACAATTATTT
Found at i:38525511 original size:39 final size:38
Alignment explanation
Indices: 38525462--38525544 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 38
38525452 TAAAAAATAA
*
38525462 AAAAATATTTAAAAA-TTCAAAATTAAAAACAATTTTTT
1 AAAAATATTTAAAAAGTTCAAAATTAAAAA-AATTATTT
* **
38525500 AAAAATCATTTAAAAAGTTTAAAATTATTAAAATTATTT
1 AAAAAT-ATTTAAAAAGTTCAAAATTAAAAAAATTATTT
38525539 AAAAAT
1 AAAAAT
38525545 TAAAAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 6 0.15
39 22 0.56
40 11 0.28
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (38 bp):
AAAAATATTTAAAAAGTTCAAAATTAAAAAAATTATTT
Found at i:38530153 original size:20 final size:20
Alignment explanation
Indices: 38530106--38530154 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
38530096 TTTTCCTTTT
38530106 AATTTTCTTTTATTGCACCAC
1 AATTTTC-TTTATTGCACCAC
* * * *
38530127 AAATTTCTTTCTTGTACTAC
1 AATTTTCTTTATTGCACCAC
38530147 AATTTTCT
1 AATTTTCT
38530155 AACAGAGGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.51
Consensus pattern (20 bp):
AATTTTCTTTATTGCACCAC
Found at i:38533685 original size:23 final size:22
Alignment explanation
Indices: 38533643--38533686 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
38533633 GATATATATA
*
38533643 ATATATTATGTTAACTTAATAC
1 ATATATTATGTTAACATAATAC
38533665 ATATATATATGTTATA-ATAATA
1 ATATAT-TATGTTA-ACATAATA
38533687 ATAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 12 0.63
24 1 0.05
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATATTATGTTAACATAATAC
Found at i:38533686 original size:3 final size:3
Alignment explanation
Indices: 38533678--38533726 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
38533668 TATATATGTT
38533678 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
38533723 ATA A
1 ATA A
38533727 ATAAAAGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
4 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:38538680 original size:65 final size:65
Alignment explanation
Indices: 38538575--38538720 Score: 166
Period size: 65 Copynumber: 2.2 Consensus size: 65
38538565 GCGGTCGTAC
* * * * * * **
38538575 CACAGCTCTTTGTGAACGTCTTATTATATGATCGGTTGTGATCTTGCATATATAGGGGACACAAA
1 CACAGCTCTTTGTGAGCATCTTATTATACGATCGATTGTGATCCTACATATATAGCAGACACAAA
* * * * *
38538640 TACAGCTCTTTGTGAGCATCTTGTTTTACGATCGATTGTGATCCTACATATGTCGCAGACACAAA
1 CACAGCTCTTTGTGAGCATCTTATTATACGATCGATTGTGATCCTACATATATAGCAGACACAAA
*
38538705 CACAACTCTTTGTGAG
1 CACAGCTCTTTGTGAG
38538721 TGTCCTGATA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (65 bp):
CACAGCTCTTTGTGAGCATCTTATTATACGATCGATTGTGATCCTACATATATAGCAGACACAAA
Found at i:38542960 original size:5 final size:5
Alignment explanation
Indices: 38542950--38542975 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
38542940 TGAGCATTCG
38542950 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
38542976 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:38544057 original size:9 final size:9
Alignment explanation
Indices: 38544043--38544079 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
38544033 TATAGTTTGA
38544043 TATTCGAAT
1 TATTCGAAT
38544052 TATTCGAAT
1 TATTCGAAT
38544061 TATTC-AAGT
1 TATTCGAA-T
38544070 TATTCGAAT
1 TATTCGAAT
38544079 T
1 T
38544080 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:38544148 original size:9 final size:9
Alignment explanation
Indices: 38544131--38544161 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38544121 TCGAGTTGAT
38544131 TCGAATAAC
1 TCGAATAAC
*
38544140 TCGATTAAC
1 TCGAATAAC
38544149 TCGAATAAC
1 TCGAATAAC
38544158 TCGA
1 TCGA
38544162 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:38555410 original size:26 final size:26
Alignment explanation
Indices: 38555380--38555437 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
38555370 TTGGAGCTCT
*
38555380 TGATTAAAAGCTCTTCATGAGCTTCC
1 TGATTAAAAGCTCTTCATGAACTTCC
* **
38555406 TGATTAAAAGTTCTTTGTGAACTTCC
1 TGATTAAAAGCTCTTCATGAACTTCC
38555432 TGATTA
1 TGATTA
38555438 TGCCTCTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (26 bp):
TGATTAAAAGCTCTTCATGAACTTCC
Found at i:38555522 original size:26 final size:26
Alignment explanation
Indices: 38555486--38555542 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
38555476 TTTCCCAATA
38555486 GGCTCTTTGTGAGCTTCATGATTA-AT
1 GGCTCTTTGTGAGCTTCATG-TTATAT
* *
38555512 GGCTCTTTGTGAGTTTCCTGTTATAT
1 GGCTCTTTGTGAGCTTCATGTTATAT
38555538 GGCTC
1 GGCTC
38555543 GAGAGAGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.44
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCATGTTATAT
Found at i:38560381 original size:44 final size:43
Alignment explanation
Indices: 38560318--38560467 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 43
38560308 TAGGGGTAAG
* * *
38560318 ATATGCTATGCTATGATATGTGATAAGAAAAGTTTCGATATGCA
1 ATATGATATGCTATGATATGTAATAAGAAAAGTTCCGATATG-A
* * * * *
38560362 ATATGATATGCTATGATATGTTACTAAGTATA-CTCCAATATGAA
1 ATATGATATGCTATGATATG-TAATAAGAAAAGTTCCGATATG-A
* * * * * *
38560406 ATTTGATATGATGTGATATGTAATAAGATATGTCCCGATATGA
1 ATATGATATGCTATGATATGTAATAAGAAAAGTTCCGATATGA
38560449 CATATGATATGCTATGATA
1 -ATATGATATGCTATGATA
38560468 CATTCCATTA
Statistics
Matches: 80, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
43 7 0.09
44 66 0.82
45 7 0.09
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (43 bp):
ATATGATATGCTATGATATGTAATAAGAAAAGTTCCGATATGA
Found at i:38566981 original size:13 final size:13
Alignment explanation
Indices: 38566958--38567002 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
38566948 AAAGTACTTA
38566958 TCAAAAGCACTTTT
1 TCAAAA-CACTTTT
*
38566972 TCACAACACTTTT
1 TCAAAACACTTTT
*
38566985 TAAAAACA-TTTT
1 TCAAAACACTTTT
38566997 TCAAAA
1 TCAAAA
38567003 GTAATGCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 9 0.33
13 13 0.48
14 5 0.19
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (13 bp):
TCAAAACACTTTT
Found at i:38570182 original size:47 final size:46
Alignment explanation
Indices: 38570113--38570204 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 46
38570103 CTGCCAATTA
*
38570113 ATAATATTATGGACAAGCCACCACTTTTGTAGATAAACTACCACTTT
1 ATAATATTATAGACAAGCCACCAC-TTTGTAGATAAACTACCACTTT
* * *
38570160 ATAATATTGTAGACAAGCCACCACTTTGTATATAAACTGCCACTT
1 ATAATATTATAGACAAGCCACCACTTTGTAGATAAACTACCACTT
38570205 CTTGCTCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 19 0.46
47 22 0.54
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.32
Consensus pattern (46 bp):
ATAATATTATAGACAAGCCACCACTTTGTAGATAAACTACCACTTT
Found at i:38570283 original size:20 final size:21
Alignment explanation
Indices: 38570250--38570290 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
38570240 ATATGGCCAC
*
38570250 AAAAATTTACTTTTTCACTTT
1 AAAAATTTAATTTTTCACTTT
38570271 AAAAA-TTAATTTTTCACTTT
1 AAAAATTTAATTTTTCACTTT
38570291 GGCATGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
AAAAATTTAATTTTTCACTTT
Found at i:38576899 original size:29 final size:29
Alignment explanation
Indices: 38576866--38576929 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
38576856 TAATCCTCCA
38576866 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
38576895 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
38576925 CCCAA
1 CCCAA
38576930 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:38576903 original size:30 final size:30
Alignment explanation
Indices: 38576873--38576929 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
38576863 CCACCCAACT
38576873 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
38576902 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
38576930 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:38581750 original size:11 final size:10
Alignment explanation
Indices: 38581729--38581767 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
38581719 ATTTTACAAT
*
38581729 ATTTTTAATA
1 ATTTTTTATA
38581739 ATTTCTTTATA
1 ATTT-TTTATA
38581750 ATTTTTTATA
1 ATTTTTTATA
*
38581760 ATGTTTTA
1 ATTTTTTA
38581768 GATAACTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:38588002 original size:18 final size:18
Alignment explanation
Indices: 38587976--38588014 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
38587966 AGGAATAAGA
38587976 AATTCAATTAGGTTAATT
1 AATTCAATTAGGTTAATT
* *
38587994 AATTTAATTAGTTTAATT
1 AATTCAATTAGGTTAATT
38588012 AAT
1 AAT
38588015 ACTTTAATTT
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:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (18 bp):
AATTCAATTAGGTTAATT
Found at i:38591857 original size:16 final size:16
Alignment explanation
Indices: 38591836--38591881 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
38591826 AAGGGCTTAT
38591836 ATTTTAATTTGTTTTA
1 ATTTTAATTTGTTTTA
38591852 ATTTTAATTT-TCTTTA
1 ATTTTAATTTGT-TTTA
* *
38591868 TTTTTCATTTGTTT
1 ATTTTAATTTGTTT
38591882 GTTTTCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (16 bp):
ATTTTAATTTGTTTTA
Found at i:38593284 original size:18 final size:17
Alignment explanation
Indices: 38593250--38593282 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38593240 TAACCGTTAG
38593250 CCGAATCGATTTTTTTA
1 CCGAATCGATTTTTTTA
38593267 CCGAATCGATTTTTTT
1 CCGAATCGATTTTTTT
38593283 TAAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (17 bp):
CCGAATCGATTTTTTTA
Found at i:38602087 original size:92 final size:87
Alignment explanation
Indices: 38601937--38602111 Score: 287
Period size: 92 Copynumber: 2.0 Consensus size: 87
38601927 ATAAGAGAAA
*
38601937 AGACACAAGTAAGCTTAATTGAGCTTAGTAAACGGTTAAAATAATAAACTTACCGAATAAGCATA
1 AGACACAAGTAAGCTTAATTGAGCTTAGTAAACGGTTAAAATAATAAACTTACCGAATAAACATA
*
38602002 TCTATTACAGAATACAGAATAG
66 TCTATTACAAAATACAGAATAG
38602024 AGACACAAGTAAGCTTAATTGAGCTTAGTAAGTTCAACGGTTAAAATAATAAACTTACCGAATAA
1 AGACACAAGTAAGCTTAATTGAGCTTAGT-A----AACGGTTAAAATAATAAACTTACCGAATAA
38602089 ACATATCTATTACAAAATACAGA
61 ACATATCTATTACAAAATACAGA
38602112 TAATAAATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
87 29 0.36
88 1 0.01
92 51 0.63
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (87 bp):
AGACACAAGTAAGCTTAATTGAGCTTAGTAAACGGTTAAAATAATAAACTTACCGAATAAACATA
TCTATTACAAAATACAGAATAG
Found at i:38603860 original size:20 final size:19
Alignment explanation
Indices: 38603800--38603860 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
38603790 GAAAAATTTA
**
38603800 TTTATATTAATTTAGCCATT
1 TTTATATTAATTTA-AAATT
**
38603820 TTTATATTAATTTAATGTT
1 TTTATATTAATTTAAAATT
*
38603839 TTTATTTTTAATTTAAAATT
1 TTTA-TATTAATTTAAAATT
38603859 TT
1 TT
38603861 ACATTCTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 6 0.18
20 28 0.82
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTATATTAATTTAAAATT
Found at i:38606712 original size:14 final size:14
Alignment explanation
Indices: 38606685--38606721 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
38606675 ATATTATTTT
38606685 AAAAAATATTTGAAA
1 AAAAAAT-TTTGAAA
*
38606700 AAGAAATTTTGAAA
1 AAAAAATTTTGAAA
38606714 AAAAAATT
1 AAAAAATT
38606722 GAAAATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (14 bp):
AAAAAATTTTGAAA
Found at i:38606723 original size:26 final size:25
Alignment explanation
Indices: 38606680--38606731 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
38606670 ATTTCATATT
* *
38606680 ATTTTAAAAAATATTTGAAAAAGAA
1 ATTTTAAAAAAAAATTGAAAAAGAA
*
38606705 ATTTTGAAAAAAAAATTGAAAATGAA
1 ATTTT-AAAAAAAAATTGAAAAAGAA
38606731 A
1 A
38606732 GAAAAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (25 bp):
ATTTTAAAAAAAAATTGAAAAAGAA
Found at i:38607240 original size:6 final size:6
Alignment explanation
Indices: 38607229--38607268 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
38607219 TTGTCTTTTA
* *
38607229 TTTATT TTTATT TTTATT TTTATC CTTATT ATTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT TTT
38607269 TCTTCCTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:38608411 original size:24 final size:22
Alignment explanation
Indices: 38608384--38608435 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
38608374 TTTGCTTTAG
*
38608384 TTATTTTTACTTTTGGTTGTACTT
1 TTATTTTTACTTTTAGTTGT--TT
*
38608408 TTATTTTTATTTTTAGTTGTTT
1 TTATTTTTACTTTTAGTTGTTT
38608430 TTATTT
1 TTATTT
38608436 ATATTTGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 8 0.31
24 18 0.69
ACGTcount: A:0.13, C:0.04, G:0.10, T:0.73
Consensus pattern (22 bp):
TTATTTTTACTTTTAGTTGTTT
Found at i:38608572 original size:22 final size:22
Alignment explanation
Indices: 38608531--38608572 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
38608521 TTGTAATCTC
*
38608531 TTTATCTTCTTTTTTATTTTTG
1 TTTATCTTCTTTATTATTTTTG
*
38608553 TTTATCTTC-TTATTAGTTTT
1 TTTATCTTCTTTATTATTTTT
38608573 CTTGGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTATCTTCTTTATTATTTTTG
Found at i:38613954 original size:47 final size:48
Alignment explanation
Indices: 38613889--38613982 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 48
38613879 TCGCATATCA
* * * *
38613889 CACACCGTAGCCATATCCCGGCTATGGTTTTACACGGAAA-CACATAT
1 CACACCGTAGCCATATCCCAGATATGGTCTTACAAGGAAATCACATAT
38613936 CACACCG-ATGCCATATCCCAGATATGGTCTTACAAGGAAATCACATA
1 CACACCGTA-GCCATATCCCAGATATGGTCTTACAAGGAAATCACATA
38613983 ATCATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
46 1 0.02
47 34 0.83
48 6 0.15
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (48 bp):
CACACCGTAGCCATATCCCAGATATGGTCTTACAAGGAAATCACATAT
Found at i:38619813 original size:10 final size:10
Alignment explanation
Indices: 38619787--38619827 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
38619777 GATCAAGTAA
38619787 AATT-AAATT
1 AATTAAAATT
38619796 AA-TAAAATT
1 AATTAAAATT
38619805 AATTAAAATT
1 AATTAAAATT
38619815 AATTAAAATT
1 AATTAAAATT
38619825 AAT
1 AAT
38619828 GATATTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 1 0.03
9 9 0.30
10 20 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATTAAAATT
Found at i:38633961 original size:5 final size:5
Alignment explanation
Indices: 38633951--38633981 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
38633941 CTTAAGTAAG
38633951 TATTT TATTT TATTT TATTT TATTCT TATTT
1 TATTT TATTT TATTT TATTT TATT-T TATTT
38633982 ATTCTAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:38633982 original size:10 final size:11
Alignment explanation
Indices: 38633951--38633986 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
38633941 CTTAAGTAAG
38633951 TATT-TTATTT
1 TATTCTTATTT
38633961 TATT-TTATTT
1 TATTCTTATTT
38633971 TATTCTTA-TT
1 TATTCTTATTT
38633981 TATTCT
1 TATTCT
38633987 AATCCCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 22 0.88
11 3 0.12
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (11 bp):
TATTCTTATTT
Found at i:38635129 original size:20 final size:20
Alignment explanation
Indices: 38635104--38635142 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38635094 AACATTCAAA
38635104 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
38635124 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
38635143 ACCATATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:38637872 original size:25 final size:25
Alignment explanation
Indices: 38637824--38637873 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
38637814 TACATTAAAG
* **
38637824 TCCATAATTCAACCATTTTGTATAC
1 TCCATAATTCAACCAGTTCATATAC
38637849 TCCATAATTCAACCAGTTCATATAC
1 TCCATAATTCAACCAGTTCATATAC
38637874 GTTTGCATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (25 bp):
TCCATAATTCAACCAGTTCATATAC
Found at i:38638265 original size:26 final size:26
Alignment explanation
Indices: 38638229--38638282 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
38638219 TGTTGAATTG
38638229 ATAGTTAATTAAGGTACATAGACCAA
1 ATAGTTAATTAAGGTACATAGACCAA
38638255 ATAGTTAATTAAGGTACATAGACCAA
1 ATAGTTAATTAAGGTACATAGACCAA
38638281 AT
1 AT
38638283 TGTAAAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (26 bp):
ATAGTTAATTAAGGTACATAGACCAA
Found at i:38641947 original size:16 final size:16
Alignment explanation
Indices: 38641910--38641951 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38641900 TTAATCATAT
*
38641910 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
38641926 TT-AAATATATTATAA
1 TTAAAATATATTATAA
38641941 TTAAAATATAT
1 TTAAAATATAT
38641952 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:38641958 original size:14 final size:15
Alignment explanation
Indices: 38641919--38641960 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38641909 TTTAAACATA
*
38641919 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38641934 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
38641948 A-TATAATTTAATA
1 ATTATAATTAAATA
38641961 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:38642053 original size:120 final size:120
Alignment explanation
Indices: 38641908--38642333 Score: 728
Period size: 120 Copynumber: 3.5 Consensus size: 120
38641898 ATTTAATCAT
*
38641908 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAACA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * * * *
38641973 GTGAATATTGTTATATGAATTTACTCAAATCAAAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * * *
38642029 AATTAACATAATTACTATTAAATATATTATAATTAAAATCTATAACTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
38642094 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
38642149 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
38642214 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
38642269 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
38642333 T
66 T
38642334 ATGATACTAT
Statistics
Matches: 290, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
119 7 0.02
120 280 0.97
121 3 0.01
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:38642191 original size:18 final size:17
Alignment explanation
Indices: 38642170--38642204 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38642160 TTATTATTAA
*
38642170 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38642188 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38642205 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38642311 original size:18 final size:17
Alignment explanation
Indices: 38642290--38642324 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38642280 TTATTATTAA
*
38642290 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38642308 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38642325 TCTAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38642311 original size:83 final size:84
Alignment explanation
Indices: 38642224--38642415 Score: 281
Period size: 83 Copynumber: 2.3 Consensus size: 84
38642214 TTAATATTCT
* * *
38642224 TATATGAATTTACTCAAA-TCATAAT-ATATGATACTATAAAAGATAATTT-AACATAATTATTA
1 TATATGAATTTAATAAAATTC-TAATAATATGATACTATAAAAGATAATTTGAA-ATAATTAATA
38642286 TTAAATATATTTTAATTAAAA
64 TTAAATATATTTTAATTAAAA
*
38642307 TATAT-AATTTAATAAAATTCTAATAATATGATACTATAAAATATAATTTGAAATAATTAATATT
1 TATATGAATTTAATAAAATTCTAATAATATGATACTATAAAAGATAATTTGAAATAATTAATATT
38642371 AAATATATTTTAATTAAAA
66 AAATATATTTTAATTAAAA
38642390 TATATG-ATTTAATAAAATT-TAA-AATA
1 TATATGAATTTAATAAAATTCTAATAATA
38642416 ATTATCTAGA
Statistics
Matches: 101, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
81 4 0.04
82 17 0.17
83 78 0.77
84 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (84 bp):
TATATGAATTTAATAAAATTCTAATAATATGATACTATAAAAGATAATTTGAAATAATTAATATT
AAATATATTTTAATTAAAA
Found at i:38642409 original size:29 final size:28
Alignment explanation
Indices: 38642284--38642409 Score: 82
Period size: 29 Copynumber: 4.5 Consensus size: 28
38642274 ACATAATTAT
*
38642284 TATTAAAT-ATATTTTAATTAAAATATA
1 TATTAAATAAAATTTTAATTAAAATATA
* * *
38642311 TAATTTAATAAAATTCTAA-TAATATGATA
1 T-ATTAAATAAAATTTTAATTAAAAT-ATA
* * * * *
38642340 CTATAAAATATAATTTGAAAT-AATTA-A
1 -TATTAAATAAAATTTTAATTAAAATATA
*
38642367 TATTAAAT-ATATTTTAATTAAAATATA
1 TATTAAATAAAATTTTAATTAAAATATA
*
38642394 TGATTTAATAAAATTT
1 T-ATTAAATAAAATTT
38642410 AAAATAATTA
Statistics
Matches: 71, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
25 7 0.10
26 11 0.15
27 4 0.06
28 18 0.25
29 29 0.41
30 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (28 bp):
TATTAAATAAAATTTTAATTAAAATATA
Found at i:38644762 original size:28 final size:28
Alignment explanation
Indices: 38644726--38644782 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
38644716 GAAAATAAAC
*
38644726 AAAGGAACAGAGGGAGCAAATCGGCAGA
1 AAAGAAACAGAGGGAGCAAATCGGCAGA
38644754 AAAGAAACAGAGGGAGCAAATCGGCAGA
1 AAAGAAACAGAGGGAGCAAATCGGCAGA
38644782 A
1 A
38644783 GCTAGAAGGA
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:0.49, C:0.14, G:0.33, T:0.04
Consensus pattern (28 bp):
AAAGAAACAGAGGGAGCAAATCGGCAGA
Found at i:38656893 original size:25 final size:25
Alignment explanation
Indices: 38656858--38656924 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
38656848 TCTCGAGCCA
* **
38656858 TATAACAGGAAGCTCATGTAAGCTG
1 TATAACGGGAAGCTCATCCAAGCTG
* ** *
38656883 TATAACGGGAAGCTTATCCGGGTTG
1 TATAACGGGAAGCTCATCCAAGCTG
38656908 TATAACGGGAAGCTCAT
1 TATAACGGGAAGCTCAT
38656925 AAGAGCCATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (25 bp):
TATAACGGGAAGCTCATCCAAGCTG
Found at i:38657120 original size:26 final size:26
Alignment explanation
Indices: 38656996--38657121 Score: 93
Period size: 26 Copynumber: 5.0 Consensus size: 26
38656986 CAAGAAGTTC
* *
38656996 CGAATAGCCATATATCGGGAAGTTCA
1 CGAAGAGCCATATATCGGGAAGCTCA
* *
38657022 AG-CGAGCC--ATATCGGGAAGCTC-
1 CGAAGAGCCATATATCGGGAAGCTCA
* **
38657044 CGGAGAGCCAT-TAATTAGGAAGCTCA
1 CGAAGAGCCATAT-ATCGGGAAGCTCA
* * *
38657070 CAAAGAGCC-TTTAATCAGGAAGCTCA
1 CGAAGAGCCATAT-ATCGGGAAGCTCA
*
38657096 CGAAGAGCCATATATCGGGACGCTCA
1 CGAAGAGCCATATATCGGGAAGCTCA
38657122 TAAGAGTTGC
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
22 1 0.01
23 18 0.23
24 1 0.01
25 15 0.19
26 41 0.53
27 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
CGAAGAGCCATATATCGGGAAGCTCA
Found at i:38657583 original size:16 final size:15
Alignment explanation
Indices: 38657562--38657595 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
38657552 AAATTTAACA
*
38657562 TCAATTCATGTTCATT
1 TCAATTCA-GTTCAGT
38657578 TCAATTCAGTTCAGT
1 TCAATTCAGTTCAGT
38657593 TCA
1 TCA
38657596 CCTCTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (15 bp):
TCAATTCAGTTCAGT
Found at i:38660651 original size:24 final size:24
Alignment explanation
Indices: 38660619--38660666 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38660609 AGAAGGGAGA
38660619 TAGTCTAGCCCAGGGGTACACGTC
1 TAGTCTAGCCCAGGGGTACACGTC
38660643 TAGTCTAGCCCAGGGGTACACGTC
1 TAGTCTAGCCCAGGGGTACACGTC
38660667 AGAATTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (24 bp):
TAGTCTAGCCCAGGGGTACACGTC
Found at i:38670932 original size:24 final size:24
Alignment explanation
Indices: 38670905--38670961 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
38670895 GTCCCAAAGG
* *
38670905 TTACAGTGGATTGAACTTTGAGGA
1 TTACAGTGGATTGAACCTTGAAGA
*
38670929 TTACAGTAGATTGAACCTTGAAGA
1 TTACAGTGGATTGAACCTTGAAGA
38670953 TTACAGTGG
1 TTACAGTGG
38670962 GGGCAATCCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (24 bp):
TTACAGTGGATTGAACCTTGAAGA
Found at i:38671382 original size:43 final size:41
Alignment explanation
Indices: 38671321--38671581 Score: 157
Period size: 44 Copynumber: 6.1 Consensus size: 41
38671311 ACCCCAATCC
* *
38671321 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTACAGACT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAAC--CAGACT
* * ** *
38671364 TATCTCTCTAAAGTTGCAGTAGAGCAGATCGCAACCAGTCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCAGACT
* * *
38671405 TATCTCCCTAAAGTTGTAGTGGAGCAGACACAAGAAACCA-ATCC
1 TATCTCCCTAAAGTTGCAGTGGAGCAGA-TC-A-AAACCAGA-CT
* * * * * * *
38671449 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAGAACCGCAAATCC
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATCA-AAAC-CAGA-CT
* * *
38671493 TATCTCCCTAAAGTTGCAGTGAAGCGGATCAAAATCATGGATCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCA--GA-CT
* * * * * * *
38671537 CATCTCTCTGAAGTTGCAGTAGAGTAGATC-ACATCAGACT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCAGACT
38671577 TATCT
1 TATCT
38671582 TTAAAATTGC
Statistics
Matches: 171, Mismatches: 39, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
40 6 0.04
41 32 0.19
42 8 0.05
43 38 0.22
44 87 0.51
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCAGACT
Found at i:38673084 original size:14 final size:14
Alignment explanation
Indices: 38673065--38673091 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38673055 TTATCATACT
38673065 TATTCTTATTATTG
1 TATTCTTATTATTG
38673079 TATTCTTATTATT
1 TATTCTTATTATT
38673092 TTTTATATAT
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:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (14 bp):
TATTCTTATTATTG
Found at i:38675306 original size:27 final size:27
Alignment explanation
Indices: 38675247--38675306 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
38675237 TTTATGACAG
**
38675247 TTTTTGAATTTTTTATAATTATTTTTA
1 TTTTTGAATTTTTTATAATTATTTAAA
38675274 TTTTTGAATGTTTTTATAA-T-TTTAAA
1 TTTTTGAAT-TTTTTATAATTATTTAAA
38675300 TTGTTTG
1 TT-TTTG
38675307 TTGACATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 14 0.48
28 9 0.31
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (27 bp):
TTTTTGAATTTTTTATAATTATTTAAA
Found at i:38679878 original size:28 final size:28
Alignment explanation
Indices: 38679847--38679906 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
38679837 AAAAATCGTT
*
38679847 TTTTTCAA-AATTTATCGAAATGGGTCGA
1 TTTTTCAATAATTTATCGAAAT-GGTCCA
* * *
38679875 TTTTTTAATTATTTATCGATATGGTCCA
1 TTTTTCAATAATTTATCGAAATGGTCCA
38679903 TTTT
1 TTTT
38679907 CCGGGAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (28 bp):
TTTTTCAATAATTTATCGAAATGGTCCA
Found at i:38679878 original size:29 final size:28
Alignment explanation
Indices: 38679846--38679906 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
38679836 TAAAAATCGT
*
38679846 TTTTTTCAA-AATTTATCGAAATGGGTCGA
1 TTTTTT-AATAATTTATCGAAAT-GGTCCA
* *
38679875 TTTTTTAATTATTTATCGATATGGTCCA
1 TTTTTTAATAATTTATCGAAATGGTCCA
38679903 TTTT
1 TTTT
38679907 CCGGGAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (28 bp):
TTTTTTAATAATTTATCGAAATGGTCCA
Found at i:38680179 original size:51 final size:51
Alignment explanation
Indices: 38680103--38680226 Score: 196
Period size: 51 Copynumber: 2.4 Consensus size: 51
38680093 TCTCTAATCC
*
38680103 TATCAATTTCCTTCTAAATTTCCTTCCAAAATTCTCTCAAA-CCTATATTTAA
1 TATCAATTTCC-TCTCAATTTCCTTCCAAAATTCTCTCAAATCC-ATATTTAA
*
38680155 TTTCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAA
1 TATCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAA
*
38680206 TATCAATTTCCCCTCAATTTC
1 TATCAATTTCCTCTCAATTTC
38680227 ATTTTTTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 55 0.82
52 12 0.18
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (51 bp):
TATCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAA
Found at i:38680262 original size:31 final size:31
Alignment explanation
Indices: 38680227--38680293 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
38680217 CCTCAATTTC
**
38680227 ATTTTTT-AAAATACTTTTAAATTTTTTTTAT
1 ATTTTTTAAAAATAAATTTAAA-TTTTTTTAT
38680258 ATTTTTTAAAAATAAATTTAAATTTTTTTAT
1 ATTTTTTAAAAATAAATTTAAATTTTTTTAT
38680289 ATTTT
1 ATTTT
38680294 CATCAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTTAAAAATAAATTTAAATTTTTTTAT
Found at i:38681387 original size:7 final size:7
Alignment explanation
Indices: 38681375--38681399 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38681365 AGTCGATTGA
38681375 TATTTAG
1 TATTTAG
38681382 TATTTAG
1 TATTTAG
38681389 TATTTAG
1 TATTTAG
38681396 TATT
1 TATT
38681400 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:38682595 original size:71 final size:71
Alignment explanation
Indices: 38682477--38682661 Score: 325
Period size: 71 Copynumber: 2.6 Consensus size: 71
38682467 TATTTAAATT
*
38682477 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATATAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
38682542 TTTTGA
66 TTTTGA
* *
38682548 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
38682613 TTTTGA
66 TTTTGA
*
38682619 TATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAATA
1 TATTATTTGATGTAATAAAATAGAAGTT-TATTTGATGTAATA
38682662 AAAANNNNNN
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 95 0.88
72 13 0.12
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.45
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
TTTTGA
Done.