Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 87 of 185
Found at i:27520961 original size:101 final size:101
Alignment explanation
Indices: 27520753--27520972 Score: 275
Period size: 101 Copynumber: 2.2 Consensus size: 101
27520743 TGTTCGGTTC
* * *
27520753 ACATAGTAGCCTGCACATGGTACTACACATGTGGCCATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGC
* *
27520818 ACATAGTACTACACACGTGATCGAAACTATCCGTTAT
65 ACATAGTACTACACACATGATCCAAACTATCCGTTAT
* * *
27520855 GCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGC
* *
27520919 ACATAGTACTACACACATGA-CCATCACTTTCAC-TTAT
65 ACATAGTACTACACACATGATCCA-AACTATC-CGTTAT
* *
27520956 ACATAGTGGCCTACACA
1 ACATAGTAGCCTGCACA
27520973 CAATCTGTGC
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
100 6 0.06
101 63 0.62
102 33 0.32
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (101 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACATGATCCAAACTATCCGTTAT
Found at i:27524459 original size:51 final size:51
Alignment explanation
Indices: 27524404--27524687 Score: 324
Period size: 51 Copynumber: 5.6 Consensus size: 51
27524394 GATGAACACG
* * *
27524404 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACA
* * * * * * *
27524455 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGTCACA
* ** *
27524506 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACA
* * * *
27524557 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATG--TTGGTCACA
** *
27524608 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACA
27524658 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
27524688 TATCGAATGA
Statistics
Matches: 192, Mismatches: 35, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
49 1 0.01
50 41 0.21
51 149 0.78
52 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGTCACA
Found at i:27524576 original size:102 final size:102
Alignment explanation
Indices: 27524400--27524681 Score: 467
Period size: 102 Copynumber: 2.8 Consensus size: 102
27524390 TATCGATGAA
27524400 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
27524465 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
*
27524502 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
27524567 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
* * *** *
27524604 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
27524668 TATGTGAAGGCTAC
66 TAAGTGAAGGCTAC
27524682 TACGTGTATC
Statistics
Matches: 169, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 34 0.20
102 135 0.80
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
Found at i:27526480 original size:26 final size:26
Alignment explanation
Indices: 27526451--27526510 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
27526441 GAAAGGTTGT
*
27526451 TAAATGACCGTAATGCCCCTAGAGGG
1 TAAATGACCATAATGCCCCTAGAGGG
* ** *
27526477 TAAATGACTATTTTGCCCCTCGAGGG
1 TAAATGACCATAATGCCCCTAGAGGG
27526503 TAAATGAC
1 TAAATGAC
27526511 TGATTTGTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (26 bp):
TAAATGACCATAATGCCCCTAGAGGG
Found at i:27526511 original size:26 final size:27
Alignment explanation
Indices: 27526464--27526516 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
27526454 ATGACCGTAA
27526464 TGCCCCTAGAGGGTAAATGACT-ATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
*
27526490 TGCCCCTCGAGGGTAAATGACTGATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
27526517 GTGCTATGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (27 bp):
TGCCCCTAGAGGGTAAATGACTGATTT
Found at i:27528768 original size:78 final size:78
Alignment explanation
Indices: 27528543--27528822 Score: 275
Period size: 77 Copynumber: 3.6 Consensus size: 78
27528533 ATAAATTTTA
* * * *
27528543 TTTTGTTTCAAACATAAATTCAATTGAACAATCCTATTTC-AGAATTTTATTCCTGCCATTTAAT
1 TTTTGTTTCAAACAGAAAATCAATTGAACAATCATGTTTCAAG-ATTTTATTCCTGCCATTTAAT
*
27528607 AGGATTTGTTTTA-
65 AGGATTTGTTTGAT
* * * *
27528620 TTTTGTTTCAAATAGAAAAAT-AATTGAACAATCATGTTTTAGGATTTTATTCCTGCCATTTAAC
1 TTTTGTTTCAAACAG-AAAATCAATTGAACAATCATGTTTCAAGATTTTATTCCTGCCATTTAAT
*
27528684 AAGATTTGTTTGAT
65 AGGATTTGTTTGAT
* * ** * ** *
27528698 TTTTGTTTTAAACAGAAAATCAATTTAACAATTTTGTTTCAAGATTTTATTCCTGTCGCTTCATA
1 TTTTGTTTCAAACAGAAAATCAATTGAACAATCATGTTTCAAGATTTTATTCCTGCCATTTAATA
27528763 GGATTT-TTTCGATCT
66 GGATTTGTTT-GA--T
* * *
27528778 TTTTTTTTCAAACAG-AAATCAATTGAATAATTCA-GTTTCACGATT
1 TTTTGTTTCAAACAGAAAATCAATTGAACAA-TCATGTTTCAAGATT
27528823 CTTTCTTGTC
Statistics
Matches: 165, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
77 68 0.41
78 59 0.36
79 23 0.14
80 15 0.09
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (78 bp):
TTTTGTTTCAAACAGAAAATCAATTGAACAATCATGTTTCAAGATTTTATTCCTGCCATTTAATA
GGATTTGTTTGAT
Found at i:27536679 original size:20 final size:20
Alignment explanation
Indices: 27536650--27536700 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
27536640 GTATCGATCT
*
27536650 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCCTAA
*
27536670 GGTATTGATATATTTCCTAA
1 GGTATCGATATATTTCCTAA
*
27536690 GGTATCAATAT
1 GGTATCGATAT
27536701 TCGTACTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (20 bp):
GGTATCGATATATTTCCTAA
Found at i:27538144 original size:58 final size:58
Alignment explanation
Indices: 27538054--27538169 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
27538044 GTGAAGAAGA
27538054 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
1 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
27538112 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
1 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
27538170 GAATCAAGTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (58 bp):
AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
Found at i:27542389 original size:23 final size:23
Alignment explanation
Indices: 27542358--27542417 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
27542348 TGATATATTA
* *
27542358 TAGTTTATTGTTACTGA-AAATGT
1 TAGTATATTGTTA-TGATAAAGGT
*
27542381 TAGTATATTATT-TGATTAAAGGT
1 TAGTATATTGTTATGA-TAAAGGT
27542404 TAGTATATTGTTAT
1 TAGTATATTGTTAT
27542418 ATTCTATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 3 0.10
23 26 0.87
24 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.50
Consensus pattern (23 bp):
TAGTATATTGTTATGATAAAGGT
Found at i:27542499 original size:15 final size:17
Alignment explanation
Indices: 27542466--27542499 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27542456 TGTGTAAATG
27542466 TTTATATACTTTTATAT
1 TTTATATACTTTTATAT
27542483 TTTATATA-TTTTA-AT
1 TTTATATACTTTTATAT
27542498 TT
1 TT
27542500 ATTTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATATACTTTTATAT
Found at i:27542920 original size:26 final size:26
Alignment explanation
Indices: 27542890--27542942 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
27542880 TTATTGTTAG
*
27542890 TTAAATGTTAGTATATTGAGATATTT
1 TTAAATATTAGTATATTGAGATATTT
* **
27542916 TTAAATATTATTATATTGTTATATTT
1 TTAAATATTAGTATATTGAGATATTT
27542942 T
1 T
27542943 AGTTTATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (26 bp):
TTAAATATTAGTATATTGAGATATTT
Found at i:27548518 original size:35 final size:36
Alignment explanation
Indices: 27548409--27548523 Score: 103
Period size: 35 Copynumber: 3.3 Consensus size: 36
27548399 TTATAGCCCT
* * * *
27548409 GAAGGACCTA-TATATTGTTTATATGGTGTTGCCCC
1 GAAGGACCTAGTATATAGTTTACATGGTGTCGCCAC
* * * **
27548444 CAAGGACCT-GTATATAGTTTACACGGAT-TCACCTT
1 GAAGGACCTAGTATATAGTTTACATGG-TGTCGCCAC
*
27548479 GAAGGA-CTAGTATATCGTTTACATGGTGTCGCCAC
1 GAAGGACCTAGTATATAGTTTACATGGTGTCGCCAC
27548514 GAAGGACCTA
1 GAAGGACCTA
27548524 TTGATAACCA
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
34 3 0.05
35 54 0.89
36 4 0.07
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (36 bp):
GAAGGACCTAGTATATAGTTTACATGGTGTCGCCAC
Found at i:27551822 original size:27 final size:27
Alignment explanation
Indices: 27551792--27551969 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27551782 ATATTGAGTC
* * * *
27551792 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27551819 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27551846 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27551874 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27551901 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27551928 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27551955 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27551970 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27551931 original size:82 final size:81
Alignment explanation
Indices: 27551813--27551968 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27551803 TGCTATATAA
* *
27551813 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27551878 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27551895 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27551959 CACTTAGTGC
65 CACTTAGTGC
27551969 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27560011 original size:27 final size:27
Alignment explanation
Indices: 27559981--27560158 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27559971 ATATTGAGTC
* * * *
27559981 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27560008 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27560035 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27560063 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27560090 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27560117 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27560144 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27560159 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27560120 original size:82 final size:81
Alignment explanation
Indices: 27560002--27560157 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27559992 TGCTATATAA
* *
27560002 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27560067 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27560084 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27560148 CACTTAGTGC
65 CACTTAGTGC
27560158 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27566010 original size:45 final size:45
Alignment explanation
Indices: 27565946--27566039 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
27565936 AACAGATACT
* *
27565946 CGGTGGATTCAGCACATAGCAACCACCT-TATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCA-CTATACTAATCAATGATGTC
*
27565991 CGGTGGAATCAGCACATAGCAACCACTATACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACTATACTAATCAATGATGTC
27566036 CGGT
1 CGGT
27566040 TCACATAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 2 0.04
45 43 0.96
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACTATACTAATCAATGATGTC
Found at i:27566182 original size:75 final size:75
Alignment explanation
Indices: 27566052--27566201 Score: 221
Period size: 75 Copynumber: 2.0 Consensus size: 75
27566042 ACATAGTAGC
* * *
27566052 CTGCACATAGTACTACACATGTGGCCATTACCATCCGATACACGTAGTAGCCTGCACATAGTACT
1 CTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTACCCTGCACATAGTACT
27566117 ACACACGTGAT
65 ACACACGTGAT
* * *
27566128 CTGCACATAGTACTACATATGCGACC-TATCATTCCGGTACACGTAGTACCCTGCACATAGTACT
1 CTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTACCCTGCACATAGTACT
27566192 ACACACGTGA
65 ACACACGTGA
27566202 CCATCACTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
74 4 0.06
75 40 0.60
76 23 0.34
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (75 bp):
CTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTACCCTGCACATAGTACTA
CACACGTGAT
Found at i:27569282 original size:417 final size:417
Alignment explanation
Indices: 27568508--27569341 Score: 1605
Period size: 417 Copynumber: 2.0 Consensus size: 417
27568498 AATTTCTTGA
27568508 CTCCAAGTTGATATTCTAGCTCCCTATAGTCTCCTTGTTATCTTTCTCTCTTGATGGATATAGAA
1 CTCCAAGTTGATATTCTAGCTCCCTATAGTCTCCTTGTTATCTTTCTCTCTTGATGGATATAGAA
27568573 ATTCTTTTGATTTCTAGGTGAAAATGGTAAGTTTTTGGAGGAAGGACCAAATTGTAAAGAAAGCA
66 ATTCTTTTGATTTCTAGGTGAAAATGGTAAGTTTTTGGAGGAAGGACCAAATTGTAAAGAAAGCA
27568638 AAACTTTCCTTCTTTCTCTCTTCTCCGCACGTTGGATGCATGGAAGATGATGGGTTGGTTGCTTT
131 AAACTTTCCTTCTTTCTCTCTTCTCCGCACGTTGGATGCATGGAAGATGATGGGTTGGTTGCTTT
27568703 TCATCTTTATTTCCACATATATATACTAAATAAATTAATAATAAAATATCATTTAAAAATCAAAT
196 TCATCTTTATTTCCACATATATATACTAAATAAATTAATAATAAAATATCATTTAAAAATCAAAT
*
27568768 TAAAATATTAATAAACTAATATTTATTTAATTAATTAATCTAAAAAATTACCAACATCATCATTG
261 TAAAATATTAATAAACTAATATTTATTTAATTAATTAATCTAAAAAATCACCAACATCATCATTG
* *
27568833 TCTTCTAGATTTCTCACTCTTCTAATTGACCATTTTTCCCTTTATGTTCTTTTAAAATTCCATCA
326 CCTTCTAGATTTCTCACTCTTCTAATTGACCATTTTACCCTTTATGTTCTTTTAAAATTCCATCA
*
27568898 TTGAGTCATCTTTTAATTTGGTAAAAT
391 TTGAGTCATCCTTTAATTTGGTAAAAT
27568925 CTCCAAGTTGATATTCTAGCTCCCTATAGTCTCCTTGTTATCTTTCTCTCTTGATGGATATAGAA
1 CTCCAAGTTGATATTCTAGCTCCCTATAGTCTCCTTGTTATCTTTCTCTCTTGATGGATATAGAA
27568990 ATTCTTTTGATTTCTAGGTGAAAATGGTAAGTTTTTGGAGGAAGGACCAAATTGTAAAGAAAGCA
66 ATTCTTTTGATTTCTAGGTGAAAATGGTAAGTTTTTGGAGGAAGGACCAAATTGTAAAGAAAGCA
27569055 AAACTTTCCTTCTTTCTCTCTTCTCCGCACGTTGGATGCATGGAAGATGATGGGTTGGTTGCTTT
131 AAACTTTCCTTCTTTCTCTCTTCTCCGCACGTTGGATGCATGGAAGATGATGGGTTGGTTGCTTT
27569120 TCATCTTTATTTCCACATATATATACTAAATAAATTAATAATAAAATATCATTTAAAAATCAAAT
196 TCATCTTTATTTCCACATATATATACTAAATAAATTAATAATAAAATATCATTTAAAAATCAAAT
*
27569185 TAAAATATTAATAAACTAATATTTATTTAATTAATTAATCTAAAATATCACCAACATCATCATTG
261 TAAAATATTAATAAACTAATATTTATTTAATTAATTAATCTAAAAAATCACCAACATCATCATTG
* *
27569250 CCTTCTAGATTTCTCTCTCTTCTAATTGACCATTTTACCCTTTATGTTCTTTTAAAATTCCATCC
326 CCTTCTAGATTTCTCACTCTTCTAATTGACCATTTTACCCTTTATGTTCTTTTAAAATTCCATCA
27569315 TTGAGTCATCCTTTAATTTGGTAAAAT
391 TTGAGTCATCCTTTAATTTGGTAAAAT
27569342 TACGATTTAG
Statistics
Matches: 410, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
417 410 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (417 bp):
CTCCAAGTTGATATTCTAGCTCCCTATAGTCTCCTTGTTATCTTTCTCTCTTGATGGATATAGAA
ATTCTTTTGATTTCTAGGTGAAAATGGTAAGTTTTTGGAGGAAGGACCAAATTGTAAAGAAAGCA
AAACTTTCCTTCTTTCTCTCTTCTCCGCACGTTGGATGCATGGAAGATGATGGGTTGGTTGCTTT
TCATCTTTATTTCCACATATATATACTAAATAAATTAATAATAAAATATCATTTAAAAATCAAAT
TAAAATATTAATAAACTAATATTTATTTAATTAATTAATCTAAAAAATCACCAACATCATCATTG
CCTTCTAGATTTCTCACTCTTCTAATTGACCATTTTACCCTTTATGTTCTTTTAAAATTCCATCA
TTGAGTCATCCTTTAATTTGGTAAAAT
Found at i:27570130 original size:51 final size:50
Alignment explanation
Indices: 27570070--27570251 Score: 224
Period size: 51 Copynumber: 3.6 Consensus size: 50
27570060 GTTGAATACA
* * *
27570070 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA-GTTGGTCACG
* * * **
27570121 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGTCATA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAG--TTGGTCACG
* *
27570172 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAT-AAAGTTGGTCACG
27570222 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
27570252 TATCGAATGA
Statistics
Matches: 112, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
49 1 0.01
50 39 0.35
51 69 0.62
52 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAGTTGGTCACG
Found at i:27570253 original size:101 final size:102
Alignment explanation
Indices: 27570069--27570258 Score: 292
Period size: 101 Copynumber: 1.9 Consensus size: 102
27570059 CGTTGAATAC
* * ** *
27570069 ATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACGTGTGTAGTACTAA
1 ATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACTAA
*
27570134 GTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCAT
66 GTGAAGGCTACTACGTGTACCGAAAAGCTTTGGTCAT
* *
27570171 ATGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTACTAT
1 ATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACTAA
*
27570235 GTGAAGGCTACTACGTGTATCGAA
66 GTGAAGGCTACTACGTGTACCGAA
27570259 TGATAAAAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 45 0.57
102 34 0.43
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (102 bp):
ATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACTAA
GTGAAGGCTACTACGTGTACCGAAAAGCTTTGGTCAT
Found at i:27570280 original size:101 final size:102
Alignment explanation
Indices: 27570067--27570290 Score: 272
Period size: 101 Copynumber: 2.2 Consensus size: 102
27570057 ATCGTTGAAT
* ** *
27570067 ACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACGTGTGTAGTACT
1 ACATGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACT
* * *** *
27570132 AAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTC
66 AAGTGAAGGCTACTACGTGTACCGAAAAGATAAAGTA
* * *
27570169 ATATGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTACT
1 ACATGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACT
* * *
27570233 ATGTGAAGGCTACTACGTGTATCG-AATGATAAAAGTA
66 AAGTGAAGGCTACTACGTGTACCGAAAAGAT-AAAGTA
*
27570270 ACATGGGTAGTACTGTGTGAA
1 ACATGTGTAGTACTGTGTGAA
27570291 AAACCCCAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
100 4 0.04
101 63 0.62
102 35 0.34
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (102 bp):
ACATGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACT
AAGTGAAGGCTACTACGTGTACCGAAAAGATAAAGTA
Found at i:27572045 original size:26 final size:26
Alignment explanation
Indices: 27572016--27572072 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
27572006 GAAAGGTTGT
*
27572016 TAAATGACCGTAATGCCCCTAGAGGG
1 TAAATGACCATAATGCCCCTAGAGGG
* ** *
27572042 TAAATGACTATTTTGCCCCTCGAGGG
1 TAAATGACCATAATGCCCCTAGAGGG
27572068 TAAAT
1 TAAAT
27572073 AACTGATTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
TAAATGACCATAATGCCCCTAGAGGG
Found at i:27572082 original size:26 final size:26
Alignment explanation
Indices: 27572029--27572081 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
27572019 ATGACCGTAA
*
27572029 TGCCCCTAGAGGGTAAATGACTATTT
1 TGCCCCTAGAGGGTAAATAACTATTT
*
27572055 TGCCCCTCGAGGGTAAATAACTGATTT
1 TGCCCCTAGAGGGTAAATAACT-ATTT
27572082 GTGCTATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (26 bp):
TGCCCCTAGAGGGTAAATAACTATTT
Found at i:27574304 original size:77 final size:78
Alignment explanation
Indices: 27574175--27574359 Score: 241
Period size: 77 Copynumber: 2.4 Consensus size: 78
27574165 CAACAATAAA
* * *
27574175 TTTTATTTTGTTTCAAACA-TAAATTCAATTGAACAATCCTATTTCAGAATTTTATTCCTGCCAT
1 TTTTATTTTGTTTCAAACAGAAAAATCAATTGAACAATCATATTTCAGAATTTTATTCCTGCCAT
* *
27574239 TTAATAGGATTTG
66 TTAACAAGATTTG
* * * *
27574252 TTTTATTTTGTTTCAAATAGAAAAAT-AATTGAACAATCATGTTTTAGGATTTTATTCCTGCCAT
1 TTTTATTTTGTTTCAAACAGAAAAATCAATTGAACAATCATATTTCAGAATTTTATTCCTGCCAT
27574316 TTAACAAGATTTG
66 TTAACAAGATTTG
* *
27574329 TTTGATTTTTGTTTTAAACAG-AAAATCAATT
1 TTTTA-TTTTGTTTCAAACAGAAAAATCAATT
27574360 TATCAATTTT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
77 72 0.77
78 21 0.23
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.45
Consensus pattern (78 bp):
TTTTATTTTGTTTCAAACAGAAAAATCAATTGAACAATCATATTTCAGAATTTTATTCCTGCCAT
TTAACAAGATTTG
Found at i:27574386 original size:78 final size:77
Alignment explanation
Indices: 27574179--27574386 Score: 231
Period size: 77 Copynumber: 2.7 Consensus size: 77
27574169 AATAAATTTT
* * * * *
27574179 ATTTTGTTTCAAACA-TAAATTCAATTGAACAATCCTATTTCAGAATTTTATTCCTGCCATTTAA
1 ATTTTGTTTCAAACAGAAAAAT-AATTGAACAATCATGTTTCAGGATTTTATTCCTGCCATTTAA
* * *
27574243 TAGGATTTGTTTT
65 CAAGATTTGTTTG
* *
27574256 ATTTTGTTTCAAATAGAAAAATAATTGAACAATCATGTTTTAGGATTTTATTCCTGCCATTTAAC
1 ATTTTGTTTCAAACAGAAAAATAATTGAACAATCATGTTTCAGGATTTTATTCCTGCCATTTAAC
27574321 AAGATTTGTTTG
66 AAGATTTGTTTG
* * * ** *
27574333 ATTTTTGTTTTAAACAG-AAAATCAATTTATCAATTTTGTTTCATGATTTTATTC
1 A-TTTTGTTTCAAACAGAAAAAT-AATTGAACAATCATGTTTCAGGATTTTATTC
27574387 TTGTTGCTTC
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
77 68 0.62
78 42 0.38
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (77 bp):
ATTTTGTTTCAAACAGAAAAATAATTGAACAATCATGTTTCAGGATTTTATTCCTGCCATTTAAC
AAGATTTGTTTG
Found at i:27582246 original size:20 final size:20
Alignment explanation
Indices: 27582217--27582267 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
27582207 GTATCGATCT
*
27582217 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCCTAA
*
27582237 GGTATTGATATATTTCCTAA
1 GGTATCGATATATTTCCTAA
*
27582257 GGTATCAATAT
1 GGTATCGATAT
27582268 TCGTACTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (20 bp):
GGTATCGATATATTTCCTAA
Found at i:27582772 original size:14 final size:14
Alignment explanation
Indices: 27582753--27582791 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
27582743 AAATCATTAT
27582753 ATTTTTGTTACACA
1 ATTTTTGTTACACA
27582767 ATTTTTGTTACACA
1 ATTTTTGTTACACA
27582781 ATTTTTGTTAC
1 ATTTTTGTTAC
27582792 TTACACCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.54
Consensus pattern (14 bp):
ATTTTTGTTACACA
Found at i:27583724 original size:58 final size:58
Alignment explanation
Indices: 27583634--27583749 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
27583624 GTGAAGAAGA
27583634 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
1 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
*
27583692 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACTACTAATAATGATAGT
1 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
27583750 GAATCAAGTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.27
Consensus pattern (58 bp):
AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
Found at i:27588471 original size:26 final size:26
Alignment explanation
Indices: 27588441--27588493 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
27588431 TTATTGTTAG
*
27588441 TTAAATGTTAGTATATTGAGATATTT
1 TTAAATATTAGTATATTGAGATATTT
* **
27588467 TTAAATATTATTATATTGTTATATTT
1 TTAAATATTAGTATATTGAGATATTT
27588493 T
1 T
27588494 AGTTTATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (26 bp):
TTAAATATTAGTATATTGAGATATTT
Found at i:27607027 original size:26 final size:26
Alignment explanation
Indices: 27606989--27607043 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
27606979 AACACACTAA
* *
27606989 TATCCCAGTAAAGCTGCCAGTAATAG
1 TATCCCAGCAAAGCTGCCAGTAACAG
* *
27607015 TATCGCAGCAAAGTTGCCAGTAACAG
1 TATCCCAGCAAAGCTGCCAGTAACAG
27607041 TAT
1 TAT
27607044 ACTTCCTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (26 bp):
TATCCCAGCAAAGCTGCCAGTAACAG
Found at i:27607270 original size:27 final size:26
Alignment explanation
Indices: 27607209--27607534 Score: 314
Period size: 27 Copynumber: 12.3 Consensus size: 26
27607199 GGGTATAACA
* *
27607209 GTCATTTTACCCTATAAGGTATTTTG
1 GTCATTTTACCCTATAGGGTATTTCG
*
27607235 GTCAGTTTACCCTATAGGGTTATTTCG
1 GTCATTTTACCCTATAGGG-TATTTCG
*
27607262 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTAT-AGGGTATTTCG
* * * * *
27607289 ATCA-TTTAACCTATGGGGCATTTCA
1 GTCATTTTACCCTATAGGGTATTTCG
* * *
27607314 ATCATTTTACCCTAAGAGGGTATTTTG
1 GTCATTTTACCCT-ATAGGGTATTTCG
*
27607341 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTAT-AGGGTATTTCG
* * *
27607368 ATCATTTTACCCTATGGAGGTATTTTG
1 GTCATTTTACCCTATAG-GGTATTTCG
* *
27607395 TTCATTTTACCCTAT-GGGTTATTTCA
1 GTCATTTTACCCTATAGGG-TATTTCG
* *
27607421 GTCATTTTATCATATGAGGGTATTTCG
1 GTCATTTTACCCTAT-AGGGTATTTCG
* * *
27607448 GTCATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-AGGGTATTTCG
*
27607475 GTCATTTTACCCTATAAGGGTATTGCG
1 GTCATTTTACCCTAT-AGGGTATTTCG
* *
27607502 GTCATTTTATCCTATGGGGTATTTCG
1 GTCATTTTACCCTATAGGGTATTTCG
*
27607528 ATCATTT
1 GTCATTT
27607535 ATTGACCTCT
Statistics
Matches: 248, Mismatches: 43, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
25 15 0.06
26 68 0.27
27 158 0.64
28 7 0.03
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTATAGGGTATTTCG
Found at i:27607294 original size:80 final size:81
Alignment explanation
Indices: 27607210--27607534 Score: 403
Period size: 80 Copynumber: 4.1 Consensus size: 81
27607200 GGTATAACAG
* *
27607210 TCATTTTACCCTAT-AAGGTATTTTGGTCAGTTTACCCTATAGGGTTATTTCGGTCATTTTACCC
1 TCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATAGGGTTATTTCGGTCATTTTACCC
27607274 TATGAGGGTATTTCAA
66 TATGAGGGTATTTCAA
* * *** * *
27607290 TCA-TTTAACCTATGG-GGCATTTCAATCATTTTACCCTA-AGAGGGTATTTTGGTCATTTTACC
1 TCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATAG-GGTTATTTCGGTCATTTTACC
27607352 CTATGAGGGTATTTCAA
65 CTATGAGGGTATTTCAA
* * * *
27607369 TCATTTTACCCTATGGAGGTATTTTGTTCATTTTACCCTAT-GGGTTATTTCAGTCATTTTATCA
1 TCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATAGGGTTATTTCGGTCATTTTACCC
**
27607433 TATGAGGGTATTTCGG
66 TATGAGGGTATTTCAA
* * * *
27607449 TCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTATAAGGG-TATTGCGGTCATTTTATC
1 TCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTAT-AGGGTTATTTCGGTCATTTTACC
*
27607513 CTATG-GGGTATTTCGA
65 CTATGAGGGTATTTCAA
27607529 TCATTT
1 TCATTT
27607535 ATTGACCTCT
Statistics
Matches: 210, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
78 2 0.01
79 66 0.31
80 99 0.47
81 40 0.19
82 3 0.01
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATAGGGTTATTTCGGTCATTTTACCC
TATGAGGGTATTTCAA
Found at i:27607451 original size:107 final size:107
Alignment explanation
Indices: 27607194--27607534 Score: 397
Period size: 107 Copynumber: 3.2 Consensus size: 107
27607184 CATTTCATCT
** * *
27607194 CCTA-GGGGTATAACAGTCATTTTACCCTAT-AAGGTATTTTGGTCAGTTTACCCTAT-AGGGTT
1 CCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGG-T
*
27607256 ATTTCGGTCATTTTACCCTATGAGGGTATTTCAATCA-TTTAA
65 ATTTCGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAA
* * *
27607298 CCTATGGGGCATTTCAATCATTTTACCCTAAGAGGGTATTTTGGTCATTTTACCCTATGAGGGTA
1 CCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGGTA
** * * *
27607363 TTTCAATCATTTTACCCTATG-GAGGTATTTTGTTCATTTTAC
66 TTTCGGTCATTTTACCCTATGAG-GGTATTTCGATCATTTTAA
* * * * * *
27607405 CCTATGGGTTATTTCAGTCATTTTATCATATGAGGGTATTTCGGTCATTTTACCTTATGGGGGTA
1 CCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGGTA
* * * * *
27607470 TTTTGGTCATTTTACCCTATAAGGGTATTGCGGTCATTTTAT
66 TTTCGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAA
27607512 CCTATGGGGTATTTC-GATCATTT
1 CCTATGGGGTATTTCAG-TCATTT
27607535 ATTGACCTCT
Statistics
Matches: 199, Mismatches: 31, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
104 4 0.02
105 22 0.11
106 56 0.28
107 116 0.58
108 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.42
Consensus pattern (107 bp):
CCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGGTA
TTTCGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAA
Found at i:27608380 original size:51 final size:50
Alignment explanation
Indices: 27608304--27608405 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 50
27608294 TGAGAGAAAG
*
27608304 GTTTCGACAATTTTAATATCACTTGCTACACGTTTACTCCTCGAGGAAATC
1 GTTTCGACAATTTTAATATCACTTGCTACAC-CTTACTCCTCGAGGAAATC
* *
27608355 GTTTCGACGATTTTAATATCACTTGCTACACCTTACTCCTTGAGGAAATC
1 GTTTCGACAATTTTAATATCACTTGCTACACCTTACTCCTCGAGGAAATC
27608405 G
1 G
27608406 AACCGTCAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 18 0.38
51 30 0.62
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (50 bp):
GTTTCGACAATTTTAATATCACTTGCTACACCTTACTCCTCGAGGAAATC
Found at i:27613061 original size:12 final size:11
Alignment explanation
Indices: 27613038--27613095 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 11
27613028 TAGTTCACTT
*
27613038 AAAAACAAGAA
1 AAAAAAAAGAA
27613049 AAATAAAAAGAAA
1 AAA-AAAAAG-AA
27613062 AGAAAAAAGAGAA
1 A-AAAAAA-AGAA
27613075 AAAAAAAAGAA
1 AAAAAAAAGAA
27613086 AAAGAAAAAG
1 AAA-AAAAAG
27613096 GAGAGGCCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
11 10 0.24
12 17 0.41
13 10 0.24
14 4 0.10
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:27613062 original size:6 final size:6
Alignment explanation
Indices: 27613044--27613095 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
27613034 ACTTAAAAAC
* *
27613044 AAGAAA AATAAA AAG-AA AAGAAAA AAGAGAA AAAAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAG-AAA AAGA-AA AAGAAA AAGAAA AAGAAA
27613093 AAG
1 AAG
27613096 GAGAGGCCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 5 0.13
6 24 0.62
7 10 0.26
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:27613094 original size:25 final size:26
Alignment explanation
Indices: 27613045--27613099 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
27613035 CTTAAAAACA
27613045 AGAAAAATAAAAAGAAAAGAAAAAAG
1 AGAAAAATAAAAAGAAAAGAAAAAAG
*
27613071 AGAAAAA-AAAAAGAAAAAGAAAAAGG
1 AGAAAAATAAAAAG-AAAAGAAAAAAG
27613097 AGA
1 AGA
27613100 GGCCAAGGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (26 bp):
AGAAAAATAAAAAGAAAAGAAAAAAG
Found at i:27614200 original size:143 final size:142
Alignment explanation
Indices: 27613942--27614453 Score: 625
Period size: 143 Copynumber: 3.6 Consensus size: 142
27613932 GATTGAACTC
* * ** *
27613942 ATTATGGTGAATCTCATCAGCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCT
1 ATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-AGCCTTATCTCC
* * * * * *
27614007 GTGAAGTTGCAGTGGAGTACACTGAAGAAAGCGAATCGTATTTCCCTAGCGTTGCAGTGGAACAG
65 CTGAAGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACAG
*
27614072 ATTAAAGCTAAAA
130 ATTAAAGCTACAA
* * * *
27614085 ATTATGGCGAATCTTATCTTCCTAAAGTTGCAGTGGAGTAGATTGAAGTCATCAGTCTTATCTCC
1 ATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAGCCTTATCTCC
* *
27614150 CT-ACAGTTGCATTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAAGA
65 CTGA-AGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACA
27614214 GATTAAAGCTACAA
129 GATTAAAGCTACAA
* * * * *
27614228 ATTATGG-AAGATATTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGTCAGCAGCCTTATCTC
1 ATTATGGCGA-ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAGCCTTATCTC
* * * * * *
27614292 CCTGAAGTTGCAGTGGAGCAAACTAAAGGCAGCGAATATTATTTCCCTGGAGTTACAGTGGAATA
64 CCTGAAGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACA
27614357 GATTAAAGCTACAA
129 GATTAAAGCTACAA
* * * *
27614371 ATTATGACGGATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAATCC-TATCTC
1 ATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C-AGCCTTATCTC
* *
27614435 CCTGAAGTTGAAGTTGAGC
64 CCTGAAGTTGCAGTGGAGC
27614454 GGATTAAAAC
Statistics
Matches: 318, Mismatches: 45, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
142 2 0.01
143 311 0.98
144 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (142 bp):
ATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAGCCTTATCTCCC
TGAAGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACAGA
TTAAAGCTACAA
Found at i:27615897 original size:4 final size:4
Alignment explanation
Indices: 27615883--27615916 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
27615873 TTATTATTTC
27615883 TATT ATATT TATT TATT TATT TATT TATT TATT T
1 TATT -TATT TATT TATT TATT TATT TATT TATT T
27615917 GCCTAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:27615961 original size:18 final size:19
Alignment explanation
Indices: 27615938--27615977 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
27615928 TTAAATACAT
*
27615938 TTATTTTA-TTATATCATG
1 TTATTTTATTTATATCATC
27615956 TTA-TTTATTTATATCATC
1 TTATTTTATTTATATCATC
27615974 TTAT
1 TTAT
27615978 ATAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATTTTATTTATATCATC
Found at i:27621820 original size:45 final size:45
Alignment explanation
Indices: 27621767--27621974 Score: 152
Period size: 45 Copynumber: 4.4 Consensus size: 45
27621757 CTTATCTTCT
27621767 TGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCC
* * * * *
27621812 TGACGTTGCAGTGGAACAGATTAAAGCTACAAATTATG-GCAGATCTTATCTT-CT
1 TGAAGTTGCAGTGGAGCAGACTGAAG--AC-----A-GCG-A-ATCTTAT-TTCCC
* * * * ** * *
27621866 TGAAGTTGCAGTGGAGCATATTGAAGCCA-CTAGCCTTATCTACC
1 TGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCC
27621910 TGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCC
** *
27621955 TGGCGTTGCAGTGGAACAGA
1 TGAAGTTGCAGTGGAGCAGA
27621975 TTAAAGCTAC
Statistics
Matches: 123, Mismatches: 26, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
43 1 0.01
44 32 0.26
45 50 0.41
47 3 0.02
52 3 0.02
53 2 0.02
54 30 0.24
55 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (45 bp):
TGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCC
Found at i:27621891 original size:99 final size:99
Alignment explanation
Indices: 27621670--27621883 Score: 401
Period size: 99 Copynumber: 2.2 Consensus size: 99
27621660 TATCTCCCTA
* * *
27621670 AAGTTGCAGCGAAGTAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATT
1 AAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATT
27621735 AAAGCTACAAATTATGGCAGATCTTATCTTCTTG
66 AAAGCTACAAATTATGGCAGATCTTATCTTCTTG
27621769 AAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATT
1 AAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATT
27621834 AAAGCTACAAATTATGGCAGATCTTATCTTCTTG
66 AAAGCTACAAATTATGGCAGATCTTATCTTCTTG
27621868 AAGTTGCAGTGGAGCA
1 AAGTTGCAGTGGAGCA
27621884 TATTGAAGCC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 112 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (99 bp):
AAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATT
AAAGCTACAAATTATGGCAGATCTTATCTTCTTG
Found at i:27621904 original size:143 final size:143
Alignment explanation
Indices: 27621759--27622202 Score: 694
Period size: 143 Copynumber: 3.2 Consensus size: 143
27621749 TGGCAGATCT
* *
27621759 TATCTTCTTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGT
1 TATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGT
* * * ** *
27621824 GGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCTTGAAGTTGCAGTGGAGCATATTG
66 GGAACAGATTAAAGCTACAAATTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTG
* *
27621889 AAGCCA-CTAGCC
131 AAGCCACCAATCC
*
27621901 TTATCTACCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAG
1 -TATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAG
27621966 TGGAACAGATTAAAGCTACAAATTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATT
65 TGGAACAGATTAAAGCTACAAATTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATT
27622031 GAAGCCACCAATCC
130 GAAGCCACCAATCC
*
27622045 TATCTTCCTG-A-----A---GA-CAGGCTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGT
1 TATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGT
27622100 GGAACAGATTAAAGCTACAAATTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTG
66 GGAACAGATTAAAGCTACAAATTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTG
27622165 AAGCCACCAATCC
131 AAGCCACCAATCC
27622178 TATCTTCCTGAAGTTGCAGTGGAGC
1 TATCTTCCTGAAGTTGCAGTGGAGC
27622203 GGATTAAAAC
Statistics
Matches: 277, Mismatches: 13, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
133 128 0.46
134 3 0.01
137 1 0.00
139 1 0.00
142 3 0.01
143 137 0.49
144 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (143 bp):
TATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGT
GGAACAGATTAAAGCTACAAATTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTG
AAGCCACCAATCC
Found at i:27622168 original size:133 final size:134
Alignment explanation
Indices: 27621780--27622190 Score: 619
Period size: 133 Copynumber: 3.0 Consensus size: 134
27621770 AGTTGCAGTG
*
27621780 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTACAAA
1 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAA
* * * ** * * * *
27621845 TTATGGCAGATCTTATCTTCTTGAAGTTGCAGTGGAGCATATTGAAGCCA-CTAGCCTTATCTAC
66 TTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTGAAGCCACCAATCC-TATCTTC
27621909 CTGAAGTTGCA
130 CTG-A-----A
27621920 GTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAC
1 ---GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAC
27621985 AAATTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTGAAGCCACCAATCCTATCT
63 AAATTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTGAAGCCACCAATCCTATCT
27622050 TCCTGAA
128 TCCTGAA
*
27622057 GA-CAGGCTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAA
1 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAA
27622121 TTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTGAAGCCACCAATCCTATCTTCC
66 TTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTGAAGCCACCAATCCTATCTTCC
27622186 TGAA
131 TGAA
27622190 G
1 G
27622191 TTGCAGTGGA
Statistics
Matches: 256, Mismatches: 11, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
133 131 0.51
134 2 0.01
137 1 0.00
142 1 0.00
143 117 0.46
144 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (134 bp):
GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAA
TTATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTGAAGCCACCAATCCTATCTTCC
TGAA
Found at i:27623454 original size:12 final size:12
Alignment explanation
Indices: 27623431--27623462 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
27623421 ATTAAAATTA
27623431 ATTATT-TTACT
1 ATTATTATTACT
27623442 ATTATTATTACT
1 ATTATTATTACT
27623454 ATTATTATT
1 ATTATTATT
27623463 TTACTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:27623482 original size:26 final size:26
Alignment explanation
Indices: 27623416--27623474 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
27623406 TTTTGCTATT
**
27623416 TTATTATTAAAATTAATTATTTTACTA
1 TTATTATTACTATT-ATTATTTTACTA
27623443 TTATTATTACTATTATTATTTTACT-
1 TTATTATTACTATTATTATTTTACTA
27623468 TT-TTATT
1 TTATTATT
27623475 TATTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 5 0.17
25 2 0.07
26 11 0.37
27 12 0.40
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATTATTACTATTATTATTTTACTA
Found at i:27624639 original size:18 final size:18
Alignment explanation
Indices: 27624618--27624661 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
27624608 TGGTTCTTAC
27624618 TATTTTTAAAATTAAAT-A
1 TATTTTTAAAA-TAAATCA
*
27624636 TA-TTTTAAAATAATTCA
1 TATTTTTAAAATAAATCA
27624653 TATTTTTAA
1 TATTTTTAA
27624662 TCAAACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTTTTAAAATAAATCA
Found at i:27626918 original size:23 final size:22
Alignment explanation
Indices: 27626867--27626923 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
27626857 ATTTATATAG
27626867 CAAATTGTAACAAAAAATAACAAT
1 CAAATT-TAA-AAAAAATAACAAT
*
27626891 AAAATTTAAAAAAACCATAA-AAT
1 CAAATTTAAAAAAA--ATAACAAT
27626914 CAAATTTAAA
1 CAAATTTAAA
27626924 TTTAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 5 0.17
23 15 0.52
24 9 0.31
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.23
Consensus pattern (22 bp):
CAAATTTAAAAAAAATAACAAT
Found at i:27629871 original size:50 final size:50
Alignment explanation
Indices: 27629803--27629991 Score: 204
Period size: 50 Copynumber: 3.7 Consensus size: 50
27629793 TTTTCTGTAC
* * * *
27629803 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCAG
*
27629853 TGCTC-ATGCCATGTCCCAGACATGGTCTTAC--GGGAGACCTCTCATCTCAG
1 TGC-CAATGCCATGTCCCAGACATGGTCTTACATGGGAG--CTCTCATATCAG
* * *
27629903 TGCCAACGCCATGTCCCAGACATGGTCTCACATGGGACCTCTCATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC-A-G
27629958 ATGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAT
27629992 CGGATCTCAT
Statistics
Matches: 116, Mismatches: 11, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
48 5 0.04
49 1 0.01
50 70 0.60
51 1 0.01
52 4 0.03
53 2 0.02
54 1 0.01
55 1 0.01
56 31 0.27
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCAG
Found at i:27629936 original size:100 final size:103
Alignment explanation
Indices: 27629803--27629989 Score: 247
Period size: 100 Copynumber: 1.8 Consensus size: 103
27629793 TTTTCTGTAC
* * * ** *
27629803 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT-A-TC-GGTGCTC-ATGCCA
1 TGCCAACGCCATATCCCAGACATGGTCTCACATGGGACCTCTCATAACTCAGATGC-CAATGCCA
27629864 TGTCCCAGACATGGTCTTACGGGAGACCTCTCATCTCAG
65 TGTCCCAGACATGGTCTTACGGGAGACCTCTCATCTCAG
*
27629903 TGCCAACGCCATGTCCCAGACATGGTCTCACATGGGACCTCTCATAATCTCAATGATGCCAATGC
1 TGCCAACGCCATATCCCAGACATGGTCTCACATGGGACCTCTCATAA-CTC-A-GATGCCAATGC
27629968 CATGTCCCAGACATGGTCTTAC
63 CATGTCCCAGACATGGTCTTAC
27629990 ATCGGATCTC
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
100 39 0.53
101 1 0.01
103 2 0.03
105 1 0.01
106 30 0.41
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (103 bp):
TGCCAACGCCATATCCCAGACATGGTCTCACATGGGACCTCTCATAACTCAGATGCCAATGCCAT
GTCCCAGACATGGTCTTACGGGAGACCTCTCATCTCAG
Found at i:27637394 original size:26 final size:26
Alignment explanation
Indices: 27637358--27637435 Score: 138
Period size: 26 Copynumber: 3.0 Consensus size: 26
27637348 TCCCAGACAT
*
27637358 AGTCTTACATGGGATATTTTCTGTAC
1 AGTCTTACATGGGATGTTTTCTGTAC
27637384 AGTCTTACATGGGATGTTTTCTGTAC
1 AGTCTTACATGGGATGTTTTCTGTAC
*
27637410 AGTCTTACATGGGATGCTTTCTGTAC
1 AGTCTTACATGGGATGTTTTCTGTAC
27637436 TACCAATGTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.41
Consensus pattern (26 bp):
AGTCTTACATGGGATGTTTTCTGTAC
Found at i:27643796 original size:49 final size:49
Alignment explanation
Indices: 27643741--27643836 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
27643731 TAGCACACAG
*
27643741 TGTGTGAGATTCTCGCGTATCTGATATTATTCTAGTGGTCCAAAGGGAC
1 TGTGTGAGATTCTCCCGTATCTGATATTATTCTAGTGGTCCAAAGGGAC
27643790 TGTGTGAGATTCTCCCGTATCTGATATTATTCTAGTGGTCCAAAGGG
1 TGTGTGAGATTCTCCCGTATCTGATATTATTCTAGTGGTCCAAAGGG
27643837 TATACAAAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (49 bp):
TGTGTGAGATTCTCCCGTATCTGATATTATTCTAGTGGTCCAAAGGGAC
Found at i:27653691 original size:16 final size:16
Alignment explanation
Indices: 27653670--27653700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27653660 ATATTTAGTC
27653670 ATATAATAAATTATTA
1 ATATAATAAATTATTA
*
27653686 ATATAATTAATTATT
1 ATATAATAAATTATT
27653701 TTTAATAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:27653770 original size:16 final size:17
Alignment explanation
Indices: 27653734--27653770 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
27653724 AAATTTATTT
*
27653734 TAATAGTAAGTTTTAAA
1 TAATAATAAGTTTTAAA
27653751 -AATAATAA-TTTTAAA
1 TAATAATAAGTTTTAAA
27653766 TAATA
1 TAATA
27653771 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAATAATAAGTTTTAAA
Found at i:27657489 original size:38 final size:38
Alignment explanation
Indices: 27657438--27657516 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
27657428 TTGGTAGGGA
27657438 TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
1 TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
*
27657476 TTTAACATGTCTTTATTATGAAGTATTTAGTCTATTTT
1 TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
27657514 TTT
1 TTT
27657517 CTATCATAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.25, C:0.09, G:0.10, T:0.56
Consensus pattern (38 bp):
TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
Found at i:27661438 original size:15 final size:15
Alignment explanation
Indices: 27661418--27661447 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27661408 TTAATATTCG
27661418 AATATTTATTTGATT
1 AATATTTATTTGATT
27661433 AATATTTATTTGATT
1 AATATTTATTTGATT
27661448 CATTCTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
AATATTTATTTGATT
Found at i:27661739 original size:18 final size:18
Alignment explanation
Indices: 27661718--27661759 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
27661708 TAATTTAGCC
27661718 ATTTTTATTTTTA-TTATA
1 ATTTTTATTTTTAGTT-TA
*
27661736 ATTTTTGTTTTTAGTTTA
1 ATTTTTATTTTTAGTTTA
27661754 ATTTTT
1 ATTTTT
27661760 TCATTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (18 bp):
ATTTTTATTTTTAGTTTA
Found at i:27661779 original size:31 final size:30
Alignment explanation
Indices: 27661725--27661788 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
27661715 GCCATTTTTA
*
27661725 TTTTTATTATAATTTTTGTTTTTAGTTTAAT
1 TTTTTATTATAATTTTTGCTTTTA-TTTAAT
* *
27661756 TTTTTCATTCTAATTTTT-CTTTTATTTTAT
1 TTTTT-ATTATAATTTTTGCTTTTATTTAAT
27661786 TTT
1 TTT
27661789 GGTAGGTTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 8 0.28
31 10 0.34
32 11 0.38
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (30 bp):
TTTTTATTATAATTTTTGCTTTTATTTAAT
Found at i:27689589 original size:22 final size:22
Alignment explanation
Indices: 27689564--27689607 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27689554 GTTATCTAGG
27689564 GATAGTCTTCTCCATTCGATTC
1 GATAGTCTTCTCCATTCGATTC
27689586 GATAGTCTTCTCCATTCGATTC
1 GATAGTCTTCTCCATTCGATTC
27689608 TTTCTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (22 bp):
GATAGTCTTCTCCATTCGATTC
Found at i:27696676 original size:21 final size:21
Alignment explanation
Indices: 27696635--27696676 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27696625 TTATTTTTGA
*
27696635 ACATTTTAAATTTTACTTAAT
1 ACATTTTAAATTTTACATAAT
27696656 ACATTTATAAATTTTA-ATAAT
1 ACATTT-TAAATTTTACATAAT
27696677 GTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
ACATTTTAAATTTTACATAAT
Found at i:27699307 original size:30 final size:30
Alignment explanation
Indices: 27699273--27699334 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
27699263 ATAATTTAAC
* *
27699273 ATATTAATTGCTTAAAAATATATAAATTTT
1 ATATTAATTACTTAAAAATATATAAAATTT
*
27699303 ATATTAATTACTTAAAAATATTTAAAATTT
1 ATATTAATTACTTAAAAATATATAAAATTT
27699333 AT
1 AT
27699335 TTCATATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (30 bp):
ATATTAATTACTTAAAAATATATAAAATTT
Found at i:27705625 original size:157 final size:157
Alignment explanation
Indices: 27705389--27706017 Score: 1080
Period size: 157 Copynumber: 4.0 Consensus size: 157
27705379 GTTGTGTGTT
* * * * * * *
27705389 CATGTTTGAGGAGAGAGAAAATTAGGTTAATGTTTGAAATCGAGAGAAAAAGGTATGAATATCAA
1 CATGTTTGAGGAGAGAGAAAATCATGTTAAGGTTTTAAATCAAGAGAACAAGATATGAATATCAA
* *
27705454 GGTTTCATAATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAATTGATGTTGAAGTAAAGAT
66 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
* *
27705519 TTCTCTTGGAAATTTTTATGTTTTTGA
131 TTCTCATGGAAAGTTTTATGTTTTTGA
* * *
27705546 CATGTTTGAGGAGAGAGAAAATAATGCTAAGGTTTTAAATCAGGAGAACAATG-TATGAATATCA
1 CATGTTTGAGGAGAGAGAAAATCATGTTAAGGTTTTAAATCAAGAGAACAA-GATATGAATATCA
* *
27705610 AGGTTACATTATGTTTTTAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGA
65 AGGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGA
27705675 TTTCTCATGGAAAGTTTTATGTTTTTGA
130 TTTCTCATGGAAAGTTTTATGTTTTTGA
27705703 CATGTTTGAGGAGAGAGAAAATCATGTTAAGGTTTTAAATCAAGAGAACAAGATATGAATATCAA
1 CATGTTTGAGGAGAGAGAAAATCATGTTAAGGTTTTAAATCAAGAGAACAAGATATGAATATCAA
27705768 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
66 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
27705833 TTCTCATGGAAAGTTTTATGTTTTTGA
131 TTCTCATGGAAAGTTTTATGTTTTTGA
27705860 CATGTTTGAGGAGAGAGAAAATCATGTTAAGGTTTTAAATCAAGAGAACAAGATATGAATATCAA
1 CATGTTTGAGGAGAGAGAAAATCATGTTAAGGTTTTAAATCAAGAGAACAAGATATGAATATCAA
27705925 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
66 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
*
27705990 TTCTCATGGAAAGTTTTTTTGTTTTTGA
131 TTCTCATGGAAAG-TTTTATGTTTTTGA
27706018 ATAAAGAAAT
Statistics
Matches: 449, Mismatches: 20, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
156 1 0.00
157 434 0.97
158 14 0.03
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.38
Consensus pattern (157 bp):
CATGTTTGAGGAGAGAGAAAATCATGTTAAGGTTTTAAATCAAGAGAACAAGATATGAATATCAA
GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
TTCTCATGGAAAGTTTTATGTTTTTGA
Found at i:27709824 original size:95 final size:95
Alignment explanation
Indices: 27709661--27709849 Score: 315
Period size: 95 Copynumber: 2.0 Consensus size: 95
27709651 TCATGTCTTG
* * *
27709661 AGACATATTGGACTTTGTCTCGGGACATAAATCCTTTTGTTGAGACATTCAAGCTTTTGTCTCGA
1 AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGCTCTTGTCTCGA
* *
27709726 GACAAATAGACTTAGAACTAAAATTTTTTT
66 GACAAATAGACCTAGAACTAAAAGTTTTTT
27709756 AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGCTCTTGTCTCGA
1 AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGCTCTTGTCTCGA
* *
27709821 GACAGATAGACCTAGAACTGAAAGTTTTT
66 GACAAATAGACCTAGAACTAAAAGTTTTT
27709850 AATTTAGCCA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (95 bp):
AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGCTCTTGTCTCGA
GACAAATAGACCTAGAACTAAAAGTTTTTT
Found at i:27720037 original size:16 final size:16
Alignment explanation
Indices: 27720016--27720047 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27720006 ATTTTGTTGC
*
27720016 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
27720032 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
27720048 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:27720244 original size:46 final size:47
Alignment explanation
Indices: 27720177--27720268 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 47
27720167 AACAGATACA
* *
27720177 CGGTGGATTCAGCACACAGCAACCACC-CTTTGTAATCAATGATATC
1 CGGTGGATTCAGCACACAGCAACCACCACCTTATAATCAATGATATC
* *
27720223 CGGTGGGA-TCAGCACATAGCAACCACCACCTTATAATTAATGATAT
1 CGGT-GGATTCAGCACACAGCAACCACCACCTTATAATCAATGATAT
27720269 TGGTTCACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 22 0.55
47 18 0.45
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (47 bp):
CGGTGGATTCAGCACACAGCAACCACCACCTTATAATCAATGATATC
Found at i:27720341 original size:51 final size:51
Alignment explanation
Indices: 27720278--27720468 Score: 226
Period size: 51 Copynumber: 3.8 Consensus size: 51
27720268 TTGGTTCACA
* * *
27720278 TAGTAGCCTGCACATAGTGCTACACATGTGAACATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGGTACACG
* * * * * *
27720329 TAGTAGCTTGCACATAGTACTACACACGTGATCA-AAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTATCCGGTACACG
* * *
27720380 TAGTAGCCTGCACATACTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCCGGTACACG
*
27720430 TAGTAGCCTACACATAGTACTACACATGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
27720469 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 4 0.03
50 40 0.34
51 70 0.60
52 1 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGGTACACG
Found at i:27720453 original size:101 final size:102
Alignment explanation
Indices: 27720276--27720460 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
27720266 TATTGGTTCA
* * * * *
27720276 CATAGTAGCCTGCACATAGTGCTACACATGTGAACATCACTATCCGATACACGTAGTAGCTTGCA
1 CATAGTAGCCTGCACATACTACTACACATGCGAACATCACTATCCGATACACGTAGTAGCCTACA
27720341 CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
* * *
27720378 CATAGTAGCCTGCACATACTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATACTACTACACATGCGAAC-ATCACTATCCGATACACGTAGTAGCCTAC
*
27720441 ACATAGTACTACACATGTGA
65 ACATAGTACTACACACGTGA
27720461 CCATCACTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 37 0.51
102 32 0.44
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATACTACTACACATGCGAACATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
Found at i:27724952 original size:18 final size:18
Alignment explanation
Indices: 27724929--27724964 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
27724919 TGCACACTCA
27724929 CACTTATCA-TGTTCATAT
1 CACTTATCACT-TTCATAT
27724947 CACTTATCACTTTCATAT
1 CACTTATCACTTTCATAT
27724965 AATGCACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (18 bp):
CACTTATCACTTTCATAT
Found at i:27728405 original size:28 final size:28
Alignment explanation
Indices: 27728342--27728464 Score: 158
Period size: 28 Copynumber: 4.4 Consensus size: 28
27728332 ATATTAAGTC
*
27728342 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
27728369 TGCACACTTAGCGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27728397 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
27728425 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
27728454 CGCACACTTAG
1 CGCACACTTAG
27728465 CGCCAATCTC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
27 20 0.24
28 47 0.57
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27728412 original size:55 final size:57
Alignment explanation
Indices: 27728341--27728464 Score: 162
Period size: 55 Copynumber: 2.2 Consensus size: 57
27728331 TATATTAAGT
* * * *
27728341 CCGCACACTCAGTGCTATATAATC-AACTTGCACACTTAGCGCTATATAA-TCAAAC
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGCGCTATACAATTCAAAC
* * * *
27728396 TCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGCGCTATACAATTCAAAC
27728453 CCGCACACTTAG
1 CCGCACACTTAG
27728465 CGCCAATCTC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 21 0.36
56 21 0.36
57 16 0.28
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (57 bp):
CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGCGCTATACAATTCAAAC
Found at i:27734383 original size:54 final size:54
Alignment explanation
Indices: 27734301--27734412 Score: 224
Period size: 54 Copynumber: 2.1 Consensus size: 54
27734291 TAGACATTCA
27734301 TCGGGTGTGCATGACAGTTCATCAAACACCCGAATGGTGTTATCAAGCCAGAAC
1 TCGGGTGTGCATGACAGTTCATCAAACACCCGAATGGTGTTATCAAGCCAGAAC
27734355 TCGGGTGTGCATGACAGTTCATCAAACACCCGAATGGTGTTATCAAGCCAGAAC
1 TCGGGTGTGCATGACAGTTCATCAAACACCCGAATGGTGTTATCAAGCCAGAAC
27734409 TCGG
1 TCGG
27734413 CCCTTTCAGC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (54 bp):
TCGGGTGTGCATGACAGTTCATCAAACACCCGAATGGTGTTATCAAGCCAGAAC
Found at i:27736575 original size:28 final size:28
Alignment explanation
Indices: 27736512--27736662 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
27736502 ATATTAAGTC
*
27736512 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
27736539 TGCACACTTAGCGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27736567 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27736595 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
27736623 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
27736652 CGCACACTTAG
1 CGCACACTTAG
27736663 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 20 0.18
28 75 0.68
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27743298 original size:6 final size:6
Alignment explanation
Indices: 27743289--27743315 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
27743279 TCTTCCATTT
27743289 CCCTTC CCCTTC CCCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCC
27743316 CATCCTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCTTC
Found at i:27746530 original size:34 final size:35
Alignment explanation
Indices: 27746464--27746530 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
27746454 CAAACACCAG
*
27746464 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
27746499 AAAATCTTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
27746531 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:27750854 original size:93 final size:93
Alignment explanation
Indices: 27750695--27751063 Score: 668
Period size: 93 Copynumber: 4.0 Consensus size: 93
27750685 AATTTGAAAT
* *
27750695 TGCTACTATCACTAAAGGGGGCATAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
1 TGCTACTGTCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
*
27750760 CTAGGAGTTCTATATCCCTTACTCATAC
66 CTAGGAGTTCTATATCCCTTATTCATAC
*
27750788 TGCTACTGTCACTAAAGGGGGCATAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
1 TGCTACTGTCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
27750853 CTAGGAGTTCTATATCCCTTATTCATAC
66 CTAGGAGTTCTATATCCCTTATTCATAC
*
27750881 TGCTACTGTCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACT
1 TGCTACTGTCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
27750946 CTAGGAGTTCTATATCCCTTATTCATAC
66 CTAGGAGTTCTATATCCCTTATTCATAC
27750974 TGCTACTGTCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
1 TGCTACTGTCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
*
27751039 CATA-GAATTCTATATCCCTTATTCA
66 C-TAGGAGTTCTATATCCCTTATTCA
27751064 ATTGGAAATC
Statistics
Matches: 269, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
93 267 0.99
94 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (93 bp):
TGCTACTGTCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
CTAGGAGTTCTATATCCCTTATTCATAC
Found at i:27752210 original size:23 final size:23
Alignment explanation
Indices: 27752184--27752227 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27752174 TAAGGAAAGC
*
27752184 ATGCAGCTGGACATTCGTGCATA
1 ATGCAGCTGGACATTCATGCATA
* *
27752207 ATGCGGTTGGACATTCATGCA
1 ATGCAGCTGGACATTCATGCA
27752228 CATTGCCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (23 bp):
ATGCAGCTGGACATTCATGCATA
Found at i:27754512 original size:12 final size:12
Alignment explanation
Indices: 27754497--27754551 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
27754487 AAAAGTTGAG
27754497 AGAAAATAAACA
1 AGAAAATAAACA
*
27754509 AGAAAA-AAAGA
1 AGAAAATAAACA
*
27754520 ATGAAAATGAACA
1 A-GAAAATAAACA
*
27754533 AGAAAAGAAA-A
1 AGAAAATAAACA
27754544 ATGAAAAT
1 A-GAAAAT
27754552 GAAAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 7 0.21
12 23 0.68
13 4 0.12
ACGTcount: A:0.73, C:0.04, G:0.15, T:0.09
Consensus pattern (12 bp):
AGAAAATAAACA
Found at i:27754566 original size:24 final size:24
Alignment explanation
Indices: 27754498--27754554 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
27754488 AAAGTTGAGA
*
27754498 GAAAATAAACAAGAAAA-AAAGAAT
1 GAAAATGAACAAGAAAAGAAA-AAT
27754522 GAAAATGAACAAGAAAAGAAAAAT
1 GAAAATGAACAAGAAAAGAAAAAT
27754546 GAAAATGAA
1 GAAAATGAA
27754555 AAAAAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.72, C:0.04, G:0.16, T:0.09
Consensus pattern (24 bp):
GAAAATGAACAAGAAAAGAAAAAT
Found at i:27760222 original size:19 final size:20
Alignment explanation
Indices: 27760188--27760226 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
27760178 GATTAATATT
*
27760188 AGTTAATATTTTATTAATTA
1 AGTTAATATTTAATTAATTA
27760208 AGTTAAT-TTTAATTAATTA
1 AGTTAATATTTAATTAATTA
27760227 TAAACTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
AGTTAATATTTAATTAATTA
Found at i:27763932 original size:22 final size:20
Alignment explanation
Indices: 27763898--27763955 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
27763888 ATGCTAACAG
*
27763898 AGGCACCGTAGTGCAAATACAA
1 AGGCACCGAAGTGCAAAT--AA
* *
27763920 AGGCACTGAAGTGCAAATAT
1 AGGCACCGAAGTGCAAATAA
27763940 AGGCACCGAAGTGCAA
1 AGGCACCGAAGTGCAA
27763956 TCCCGTACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 16 0.50
22 16 0.50
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.14
Consensus pattern (20 bp):
AGGCACCGAAGTGCAAATAA
Found at i:27767471 original size:27 final size:27
Alignment explanation
Indices: 27767440--27767496 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
27767430 TTGAATTAGT
27767440 TTAGTTAATTT-GATTTCAATTTATTTG
1 TTAGTTAATTTGGATTT-AATTTATTTG
* * *
27767467 TTAGTTAGTTTGGCTTTAGTTTATTTG
1 TTAGTTAATTTGGATTTAATTTATTTG
27767494 TTA
1 TTA
27767497 CAAATTATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.21, C:0.04, G:0.16, T:0.60
Consensus pattern (27 bp):
TTAGTTAATTTGGATTTAATTTATTTG
Found at i:27773731 original size:30 final size:30
Alignment explanation
Indices: 27773678--27773745 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
27773668 TTCCGATAAC
* *
27773678 ATAATTAATGTTAAAATGTTTTCTCA-TACT
1 ATAATTAATGATAAAATGCTTTCTCATTA-T
*
27773708 ATAATTAAT-ATAAACATGCTTTCTTATTAT
1 ATAATTAATGATAAA-ATGCTTTCTCATTAT
27773738 ATAATTAA
1 ATAATTAA
27773746 AAAAAGTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.12
30 27 0.82
31 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (30 bp):
ATAATTAATGATAAAATGCTTTCTCATTAT
Found at i:27779359 original size:42 final size:42
Alignment explanation
Indices: 27779311--27779409 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 42
27779301 AAAATGGGTT
* *
27779311 TGCTCACACAAGCTGCCGGTAAGAATGTAAGCTATACGATGC
1 TGCTCACACAAGCTGCCAGTAAGAATGTAAGCTACACGATGC
*** ** *
27779353 TGCTCACACAAGCTATTAGTCGGAATGTAAGCTACATGATGC
1 TGCTCACACAAGCTGCCAGTAAGAATGTAAGCTACACGATGC
27779395 TGCTCACACAAGCTG
1 TGCTCACACAAGCTG
27779410 TCAAGTATCC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (42 bp):
TGCTCACACAAGCTGCCAGTAAGAATGTAAGCTACACGATGC
Found at i:27779547 original size:137 final size:138
Alignment explanation
Indices: 27779352--27779621 Score: 364
Period size: 137 Copynumber: 2.0 Consensus size: 138
27779342 CTATACGATG
* * * *
27779352 CTGCTCACACAAGCTATTAGTCGGAATGTAAGCTACATGATGCTGCTCACACAAGCTGTCAAGTA
1 CTGCTCACACAAGCTATCAGTCGAAACGTAAGCTACAAGATGCTGCTCACACAAGCTGTCAAGTA
* * *** ** *
27779417 TCCGCAACTA-ATGTCAGACCTCAGCCATTGGTAGGAAAACCAAGACCAGCACCTGAAACTTGGT
66 TCCGCAAC-ACATGCCAGAACTCAGCCACCAGTAGGAAAACCAAGACCAGCACCCAAAACATGGT
27779481 AACCTAGGT
130 AACCTAGGT
* *
27779490 CTGCTCACACAAGCTATCAGTCGAAACGT-AGCTACAAGGTGCTGCTCACACTAGCTGTCAAGTA
1 CTGCTCACACAAGCTATCAGTCGAAACGTAAGCTACAAGATGCTGCTCACACAAGCTGTCAAGTA
* **
27779554 TCCGCAACACATGCCAGAACTCAGCCACCAGTAGGACATTCAAGACCAGCACCCAAAACATGGTA
66 TCCGCAACACATGCCAGAACTCAGCCACCAGTAGGAAAACCAAGACCAGCACCCAAAACATGGTA
27779619 ACC
131 ACC
27779622 CTAATGACAT
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
136 1 0.01
137 87 0.76
138 26 0.23
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (138 bp):
CTGCTCACACAAGCTATCAGTCGAAACGTAAGCTACAAGATGCTGCTCACACAAGCTGTCAAGTA
TCCGCAACACATGCCAGAACTCAGCCACCAGTAGGAAAACCAAGACCAGCACCCAAAACATGGTA
ACCTAGGT
Found at i:27790807 original size:52 final size:52
Alignment explanation
Indices: 27790711--27790828 Score: 147
Period size: 51 Copynumber: 2.3 Consensus size: 52
27790701 AAAATTTTAA
* *
27790711 TTTAAAAGAGTTTTAGATAAATAATAATTAAACATAATTTAATTATTATTAT
1 TTTAAAAGAGTTTTAAATAAATAATAATTAAACAGAATTTAATTATTATTAT
* *
27790763 TTTAAAA-AGTTTTAAATAAA-ATATAATTAAATAGAATTTCA--ATTATTA-
1 TTTAAAAGAGTTTTAAATAAATA-ATAATTAAACAGAATTTAATTATTATTAT
27790811 TTTAAAAGAGGTTTTAAA
1 TTTAAAAGA-GTTTTAAA
27790829 ATTTAGGATA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
48 7 0.12
49 8 0.14
50 9 0.15
51 28 0.47
52 7 0.12
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (52 bp):
TTTAAAAGAGTTTTAAATAAATAATAATTAAACAGAATTTAATTATTATTAT
Found at i:27792061 original size:18 final size:19
Alignment explanation
Indices: 27792038--27792083 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
27792028 CGGTGTGTTT
27792038 ATTAAATATGTTT-CATGA
1 ATTAAATATGTTTGCATGA
27792056 ATTAAAT-T-TTTGCATGA
1 ATTAAATATGTTTGCATGA
*
27792073 CTTGAAATATG
1 ATT-AAATATG
27792084 GTGATTGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 11 0.48
19 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (19 bp):
ATTAAATATGTTTGCATGA
Found at i:27792180 original size:17 final size:17
Alignment explanation
Indices: 27792158--27792194 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
27792148 AGGATAAAAG
27792158 TATGTCCTTGTTATTGA
1 TATGTCCTTGTTATTGA
27792175 TATGTCCTTGTTATTGA
1 TATGTCCTTGTTATTGA
27792192 TAT
1 TAT
27792195 ATGGAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.54
Consensus pattern (17 bp):
TATGTCCTTGTTATTGA
Found at i:27792805 original size:6 final size:6
Alignment explanation
Indices: 27792794--27792819 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
27792784 TATTTAAAGT
27792794 TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
27792820 AATTTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:27817240 original size:40 final size:40
Alignment explanation
Indices: 27817185--27817413 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
27817175 TTATTGTATA
* * *
27817185 AATGCACATACGTGCCCCTATTTGTACTCCGGTACCCTTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * ** *
27817225 AATGCCCATATGTGCCTTTGTTTGTACTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * *
27817265 AATGCACATATGTGGCCCTGTTTGTACTTCAGTACCCTTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* ** * *
27817305 AATGCACATATGTGCCCCTGTTCATACTTTGATACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * *
27817345 AATGCACATACATGCCCCTATTTGTACTTCAGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
27817385 AATGCACATACGTGCCCCTGTTTGTACTT
1 AATGCACATACGTGCCCCTGTTTGTACTT
27817414 TAATACTCCT
Statistics
Matches: 157, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
Found at i:27817362 original size:20 final size:20
Alignment explanation
Indices: 27817339--27817404 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
27817329 TACTTTGATA
27817339 CCCCTGAATGCACATACATG
1 CCCCTGAATGCACATACATG
* * * *
27817359 CCCCT-ATTTGTAC-TTCAGTA
1 CCCCTGA-ATGCACATACA-TG
*
27817379 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACATG
27817399 CCCCTG
1 CCCCTG
27817405 TTTGTACTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 4 0.12
20 26 0.79
21 3 0.09
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (20 bp):
CCCCTGAATGCACATACATG
Found at i:27817414 original size:80 final size:80
Alignment explanation
Indices: 27817185--27817436 Score: 324
Period size: 80 Copynumber: 3.1 Consensus size: 80
27817175 TTATTGTATA
* * * **
27817185 AATGCACATACGTGCCCCTATTTGTACTCCGGTACCCTTGAATGCCCATATGTGCCTTTGTTTGT
1 AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTTGT
* * *
27817250 ACTTCGGTACCCCTA
66 ACTTTGATACCCCTG
* * * **
27817265 AATGCACATATGTGGCCCTGTTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTCAT
1 AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTTGT
27817330 ACTTTGATACCCCTG
66 ACTTTGATACCCCTG
* * *
27817345 AATGCACATACATGCCCCTATTTGTACTTCAGTACCCCTGAATGCACATACGTGCCCCTGTTTGT
1 AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTTGT
* *
27817410 ACTTTAATACTCCTG
66 ACTTTGATACCCCTG
*
27817425 AAGGCAACATAC
1 AATGC-ACATAC
27817437 TTGCTGTTGA
Statistics
Matches: 147, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 141 0.96
81 6 0.04
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (80 bp):
AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTTGT
ACTTTGATACCCCTG
Found at i:27825692 original size:40 final size:38
Alignment explanation
Indices: 27825626--27825776 Score: 167
Period size: 40 Copynumber: 3.8 Consensus size: 38
27825616 AATTATTGTA
* *
27825626 TGAATGCACATATGTGCCCCTATTTGTACTTCGATAGCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTT-GATA-CCC
* ** *
27825666 TGAATGCACACACGTGCTTCTGTTTGTACTATGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACT-TGATA-CCC
*
27825706 TGAATGAACATACGTGCCCCTGTTTGTACCTTGATACCC
1 TGAATGCACATACGTGCCCCTGTTTGTA-CTTGATACCC
* *
27825745 TTGAATGCGCATATGTGCCCCTGTTTGTACTT
1 -TGAATGCACATACGTGCCCCTGTTTGTACTT
27825777 CGGTACTCCT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 6 0.06
40 84 0.90
41 3 0.03
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (38 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTGATACCC
Found at i:27825782 original size:80 final size:80
Alignment explanation
Indices: 27825626--27825775 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
27825616 AATTATTGTA
* * **
27825626 TGAATGCACATATGTGCCCCTATTTGTACTTCGATAGCCCTGAATGCACACACGTGCTTCTGTTT
1 TGAATGAACATACGTGCCCCTATTTGTACTTCGATAGCCCTGAATGCACACACGTGCCCCTGTTT
27825691 GTACTATGGTACCCC
66 GTACTATGGTACCCC
* * * *
27825706 TGAATGAACATACGTGCCCCTGTTTGTACCTT-GATA-CCCTTGAATGCGCATATGTGCCCCTGT
1 TGAATGAACATACGTGCCCCTATTTGTA-CTTCGATAGCCC-TGAATGCACACACGTGCCCCTGT
27825769 TTGTACT
64 TTGTACT
27825776 TCGGTACTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 54 0.90
81 3 0.05
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (80 bp):
TGAATGAACATACGTGCCCCTATTTGTACTTCGATAGCCCTGAATGCACACACGTGCCCCTGTTT
GTACTATGGTACCCC
Found at i:27827454 original size:24 final size:24
Alignment explanation
Indices: 27827425--27827472 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
27827415 GAATTTGATG
27827425 TTGCCATAAAATG-GAAAGATGTTC
1 TTGCCATAAAA-GAGAAAGATGTTC
*
27827449 TTGCCATAGAAGAGAAAGATGTTC
1 TTGCCATAAAAGAGAAAGATGTTC
27827473 AGCAGGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (24 bp):
TTGCCATAAAAGAGAAAGATGTTC
Found at i:27828343 original size:20 final size:20
Alignment explanation
Indices: 27828318--27828366 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
27828308 TGAGTTATTT
27828318 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
27828338 AAGTAAG-ACAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
27828358 AAG-AAGCAA
1 AAGTAAGCAA
27828367 ATACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.08, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:27830552 original size:15 final size:15
Alignment explanation
Indices: 27830532--27830564 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
27830522 CTGATCAGTT
27830532 TTAACGTAGCTTAAG
1 TTAACGTAGCTTAAG
27830547 TTAACGTAGCTTAAG
1 TTAACGTAGCTTAAG
27830562 TTA
1 TTA
27830565 CTTCCACACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (15 bp):
TTAACGTAGCTTAAG
Found at i:27837161 original size:2 final size:2
Alignment explanation
Indices: 27837154--27837178 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27837144 TAGTATTAGC
27837154 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27837179 CAGGATCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27840256 original size:9 final size:9
Alignment explanation
Indices: 27840242--27840272 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27840232 GTTAAACGAA
27840242 TCGAGTTAT
1 TCGAGTTAT
*
27840251 TCGAGTTAA
1 TCGAGTTAT
27840260 TCGAGTTAT
1 TCGAGTTAT
27840269 TCGA
1 TCGA
27840273 ATCAACTCGA
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:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:27840615 original size:30 final size:30
Alignment explanation
Indices: 27840568--27840626 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27840558 AACCTTTTAT
* *
27840568 TTTCTCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
*
27840597 TTTCCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTCCCCC-AAAACTTTTACTCCCTTCCCA
27840627 TCCCCCCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:27841887 original size:21 final size:21
Alignment explanation
Indices: 27841867--27841906 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27841857 TTGTTGTTCA
*
27841867 AAATTT-TGAGATTATAATTC
1 AAATTTGTGAGATTAAAATTC
27841887 AAATTTGTGAGATTAAAATT
1 AAATTTGTGAGATTAAAATT
27841907 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (21 bp):
AAATTTGTGAGATTAAAATTC
Found at i:27843401 original size:4 final size:4
Alignment explanation
Indices: 27843384--27843418 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
27843374 TAATTTTTGT
*
27843384 TTAG TTAA TTAG TTAG TTAG TTAG TTAG TTAG TTA
1 TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTA
27843419 ACACTGTAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (4 bp):
TTAG
Found at i:27844726 original size:40 final size:40
Alignment explanation
Indices: 27844596--27844703 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
27844586 CGTTTGGACA
* * * **
27844596 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTAAACA-
1 AAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCT-TTCAG
* *
27844636 TAAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTTCAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTTTCAG
**
27844676 AAAAGTGCCGCTAAAAAT-GAGCATTAGC
1 AAAAACGCCGCTAAAAATCGAGCATTAGC
27844704 GGTGTTTTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 12 0.21
40 44 0.79
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTTTCAG
Found at i:27844826 original size:41 final size:39
Alignment explanation
Indices: 27844769--27845083 Score: 353
Period size: 41 Copynumber: 7.7 Consensus size: 39
27844759 ACCTTTCGGG
* * *
27844769 GCTTTAGCGGCATTTTTTCAAAAGCGCTGCTAATGCTCTA
1 GCTTTAGCGGC-GTTTTTAAAAAGCGCCGCTAATGCTCTA
*
27844809 GCTTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTCAGA
1 GC-TTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTC-TA
* *
27844851 GCTTTAGCGGCGTTTTTAGAAATGCGCTGCTAATGCTCTA
1 GCTTTAGCGGCGTTTTTA-AAAAGCGCCGCTAATGCTCTA
*
27844891 GCTTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTCAGA
1 GC-TTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTC-TA
* *
27844933 GCTTTAGCGGCGTTTTTAGAAATGCGCTGCTAATGCTCTA
1 GCTTTAGCGGCGTTTTTA-AAAAGCGCCGCTAATGCTCTA
*
27844973 GCTTTTAGCGGCGTTCTTAAGAAAGCGCCGCTAATGCT-TA
1 GC-TTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCTA
* * * *
27845013 GACCTTTAGCGGCATTTTTGAAAAAGCGCAGCTAATGCTAATG
1 G--CTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCT-CTA
27845056 GCTTTAGCGGCGTTTTTCAAAAAGCGCC
1 GCTTTAGCGGCGTTTTT-AAAAAGCGCC
27845084 ACAAAAACAC
Statistics
Matches: 237, Mismatches: 23, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
40 19 0.08
41 205 0.86
42 11 0.05
43 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (39 bp):
GCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCTA
Found at i:27844906 original size:82 final size:82
Alignment explanation
Indices: 27844769--27845083 Score: 465
Period size: 82 Copynumber: 3.8 Consensus size: 82
27844759 ACCTTTCGGG
**
27844769 GCTTTAGCGGCATTTTTTCAAAAGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAATAAAG
1 GCTTTAGCGGCATTTTTAGAAAAGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAATAAAG
27844834 CGCCGCTAATGCTCAGA
66 CGCCGCTAATGCTCAGA
* *
27844851 GCTTTAGCGGCGTTTTTAGAAATGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAATAAAG
1 GCTTTAGCGGCATTTTTAGAAAAGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAATAAAG
27844916 CGCCGCTAATGCTCAGA
66 CGCCGCTAATGCTCAGA
* * * *
27844933 GCTTTAGCGGCGTTTTTAGAAATGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTCTTAAGAAAG
1 GCTTTAGCGGCATTTTTAGAAAAGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAATAAAG
*
27844998 CGCCGCTAATGCTTAGA
66 CGCCGCTAATGCTCAGA
* * * *
27845015 CCTTTAGCGGCATTTTT-GAAAAAGCGCAGCTAATGCTAATGGC-TTTAGCGGCGTTTTTCAA-A
1 GCTTTAGCGGCATTTTTAG-AAAAGCGCTGCTAATGCT-CTAGCTTTTAGCGGCGTTTTT-AATA
27845077 AAGCGCC
63 AAGCGCC
27845084 ACAAAAACAC
Statistics
Matches: 216, Mismatches: 14, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
81 1 0.00
82 210 0.97
83 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (82 bp):
GCTTTAGCGGCATTTTTAGAAAAGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAATAAAG
CGCCGCTAATGCTCAGA
Found at i:27845897 original size:7 final size:7
Alignment explanation
Indices: 27845885--27845927 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
27845875 ATTGTAAAAG
27845885 AGGGGTT
1 AGGGGTT
27845892 AGGGGTT
1 AGGGGTT
*
27845899 AAGGGTT
1 AGGGGTT
*
27845906 AGAGGTT
1 AGGGGTT
27845913 AGGGGTT
1 AGGGGTT
27845920 AGGGGTT
1 AGGGGTT
27845927 A
1 A
27845928 AAGGGTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.21, C:0.00, G:0.51, T:0.28
Consensus pattern (7 bp):
AGGGGTT
Found at i:27845906 original size:14 final size:14
Alignment explanation
Indices: 27845887--27845934 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
27845877 TGTAAAAGAG
27845887 GGGTTAGGGGTTAA
1 GGGTTAGGGGTTAA
* *
27845901 GGGTTAGAGGTTAG
1 GGGTTAGGGGTTAA
27845915 GGGTTAGGGGTTAAA
1 GGGTTAGGGGTT-AA
27845930 GGGTT
1 GGGTT
27845935 TATGTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 23 0.79
15 6 0.21
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (14 bp):
GGGTTAGGGGTTAA
Found at i:27849157 original size:43 final size:43
Alignment explanation
Indices: 27849036--27849253 Score: 199
Period size: 43 Copynumber: 5.1 Consensus size: 43
27849026 AAATTTTTTT
* * *** *
27849036 TAAAAGTCATG-TTTTTAGTGGCGTTTGTCAAAAAAGCGCCTC
1 TAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
* * * * * *
27849078 TAAAAGTCAT-CT-TTATAGTGGCGTTTGTTGTAGAAGCGTCGC
1 TAAAGGTCATGATCTT-TAGTGGCGTTTGTGGGAAAAGCGCCGC
* * * *
27849120 TAAAGGTCATGATCTTTAGTTGCATTTGTGGTAGAAGCGCCGC
1 TAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
27849163 TAAAGATCATGACCTTTAGCGGCGCTTGTGGGAAAAGCGCCAC
1 TAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
* *
27849206 TAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
27849249 TAAAG
1 TAAAG
27849254 TTAGCGACAC
Statistics
Matches: 144, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.01
42 41 0.28
43 99 0.69
44 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
Found at i:27849640 original size:43 final size:43
Alignment explanation
Indices: 27849583--27849738 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
27849573 CAATGCCATA
* * * *
27849583 TCCTAGATATGGTCTTACATGTTATCACATATCGATGCCT-TTG
1 TCCTAGACATGGTCTTACACGTAATCACATATCGATG-CTAATG
* * *
27849626 TCCTAGACAGGGTCTTACACG-AATCATATAT-GGTGCTAATG
1 TCCTAGACATGGTCTTACACGTAATCACATATCGATGCTAATG
* *
27849667 TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCTAATG
1 TCCTAGACATGGTCTTACACGTAATCACATATCGATGCTAATG
*
27849710 T-CTCAGACATGGTCTTACATGTAATCACA
1 TCCT-AGACATGGTCTTACACGTAATCACA
27849739 CCTCGAAAGT
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.02
41 24 0.26
42 17 0.18
43 51 0.54
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (43 bp):
TCCTAGACATGGTCTTACACGTAATCACATATCGATGCTAATG
Found at i:27853747 original size:15 final size:16
Alignment explanation
Indices: 27853711--27853747 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
27853701 TTTTAACTCG
*
27853711 ATCGGAGCTATTCTAT
1 ATCGGAGCTATTCGAT
27853727 AT-GGAGCTATT-GAT
1 ATCGGAGCTATTCGAT
27853741 ATCGGAG
1 ATCGGAG
27853748 TAGTTCTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 13 0.68
16 2 0.11
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (16 bp):
ATCGGAGCTATTCGAT
Found at i:27862013 original size:25 final size:25
Alignment explanation
Indices: 27861979--27862031 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
27861969 GTTATTTTTG
*
27861979 TTTTCCTTTTTTTACTTCTTTCCTT
1 TTTTCCTTTTTTTACTTCTTTCCAT
* **
27862004 TTTTCTTTTTTTTGTTTCTTTCCAT
1 TTTTCCTTTTTTTACTTCTTTCCAT
27862029 TTT
1 TTT
27862032 CCATTTTCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTTCCTTTTTTTACTTCTTTCCAT
Found at i:27862031 original size:24 final size:25
Alignment explanation
Indices: 27861979--27862038 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
27861969 GTTATTTTTG
*
27861979 TTTTCCTTTTTTTACTTCTTTCCTT
1 TTTTCCTTTTTTTACTTCTTTCCTA
* **
27862004 TTTTCTTTTTTTTGTTTCTTTCC-A
1 TTTTCCTTTTTTTACTTCTTTCCTA
*
27862028 TTTTCCATTTT
1 TTTTCCTTTTT
27862039 CTCATTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTCCTTTTTTTACTTCTTTCCTA
Found at i:27862630 original size:30 final size:27
Alignment explanation
Indices: 27862573--27862664 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 27
27862563 TTCTATTATT
* *
27862573 AAAAAAAGGGAAAAAAGAAAATTGAAAGAA
1 AAAAAAAAGGAAAAGAG-AAA--GAAAGAA
27862603 AAAAATTAAAGGAAAGAGAGAAAGAAAGTAA
1 AAAAA--AAAGGAAA-AGAGAAAGAAAG-AA
27862634 AAAAAAAAGGAAAAGAGAAA-AAGAGAA
1 AAAAAAAAGGAAAAGAGAAAGAA-AGAA
27862661 AAAA
1 AAAA
27862665 TATTTTAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
27 8 0.15
28 9 0.16
29 8 0.15
30 10 0.18
31 7 0.13
32 10 0.18
33 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (27 bp):
AAAAAAAAGGAAAAGAGAAAGAAAGAA
Found at i:27862709 original size:20 final size:20
Alignment explanation
Indices: 27862666--27862709 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
27862656 GAGAAAAAAT
*
27862666 ATTTTAAATGATTTTCTATT
1 ATTTTAAATGATTTTCTATA
*
27862686 ATTTTAAAT-ATTTTTTTATA
1 ATTTTAAATGA-TTTTCTATA
27862706 ATTT
1 ATTT
27862710 CTATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTTAAATGATTTTCTATA
Found at i:27862718 original size:16 final size:16
Alignment explanation
Indices: 27862694--27862728 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
27862684 TTATTTTAAA
27862694 TATTTTTTTATAATTTC
1 TATTTTTTTA-AATTTC
27862711 TATTTTTTTAAATTTC
1 TATTTTTTTAAATTTC
27862727 TA
1 TA
27862729 AAAATTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTTTTTAAATTTC
Found at i:27865200 original size:38 final size:38
Alignment explanation
Indices: 27865149--27865226 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
27865139 CGTTCTATTC
27865149 ATAATCAGAGTTTTAATCAAGAAGACATAACTAACAAT
1 ATAATCAGAGTTTTAATCAAGAAGACATAACTAACAAT
*
27865187 ATAATCAGAGTTTTAATCAAGATGACATAACTAACAAT
1 ATAATCAGAGTTTTAATCAAGAAGACATAACTAACAAT
27865225 AT
1 AT
27865227 TGACATAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (38 bp):
ATAATCAGAGTTTTAATCAAGAAGACATAACTAACAAT
Found at i:27865232 original size:18 final size:18
Alignment explanation
Indices: 27865209--27865244 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27865199 TTAATCAAGA
27865209 TGACATAACTAACAATAT
1 TGACATAACTAACAATAT
27865227 TGACATAACTAACAATAT
1 TGACATAACTAACAATAT
27865245 ACTATGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
TGACATAACTAACAATAT
Found at i:27866997 original size:50 final size:54
Alignment explanation
Indices: 27866901--27867030 Score: 178
Period size: 50 Copynumber: 2.4 Consensus size: 54
27866891 GAGATCTCAT
* * *
27866901 GTAAGACCATGTCTGAGAAATGGCATTGGCATTATTGAAGTTATGAGAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCA-TGAAG-TATGAGAGGTCCCAC
*
27866957 GTAAGACCATGTCTGGGACATGGCATTGGCA-CA-G-AG-ATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCATGAAGTATGAGAGGTCCCAC
27867007 GTAAGACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
27867031 GTGAGCGCCG
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
50 37 0.53
52 2 0.03
53 1 0.01
55 1 0.01
56 29 0.41
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (54 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCATCATGAAGTATGAGAGGTCCCAC
Found at i:27867047 original size:50 final size:50
Alignment explanation
Indices: 27866942--27867071 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
27866932 TTATTGAAGT
*
27866942 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACAGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCAGTGGCACAGA
* * * *
27866992 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGC-GTGAGCGCCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCAGTG-GCACAGA
** * * *
27867042 TATGAGAACTCTCATGTAAGACCATATCTG
1 TATGAGAGGTCCCACGTAAGACCATGTCTG
27867072 AGATATGACA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 2 0.03
50 65 0.97
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCAGTGGCACAGA
Found at i:27867365 original size:19 final size:19
Alignment explanation
Indices: 27867341--27867377 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
27867331 TGAGTTATTT
27867341 AAGTAAGCA-AGTAAGTAAC
1 AAGTAAG-AGAGTAAGTAAC
27867360 AAGTAAGAGAGTAAGTAA
1 AAGTAAGAGAGTAAGTAA
27867378 AGAAGAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.54, C:0.05, G:0.24, T:0.16
Consensus pattern (19 bp):
AAGTAAGAGAGTAAGTAAC
Done.