Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 93 of 153
Found at i:29281560 original size:36 final size:36
Alignment explanation
Indices: 29281382--29281561 Score: 87
Period size: 40 Copynumber: 4.8 Consensus size: 36
29281372 TCTTGGTGAG
* * *
29281382 CAAATCTTTGTTAGTTTACCCT-ACTAGTGCTAGGCA
1 CAAATCTTCGTCAGTTTA-TCTGACTAGTGCTAGGCA
* * * *
29281418 CATCATTATATTCGTC-GATTTATCCGACTAGTGCTGGGCG
1 CA--A--ATCTTCGTCAG-TTTATCTGACTAGTGCTAGGCA
* * ** *
29281458 TAAATCTTCGTCAGCTTGCCTGACTAGTACTAGGCA
1 CAAATCTTCGTCAGTTTATCTGACTAGTGCTAGGCA
* * * **
29281494 CATCATTATATTCAAT-AGTTTCTCCAACTAGTGCTAGGCA
1 CA--A--ATCTTC-GTCAGTTTATCTGACTAGTGCTAGGCA
29281534 CAAATCTTCGTCAGTTTATCTGACTAGT
1 CAAATCTTCGTCAGTTTATCTGACTAGT
29281562 TTTGGGCACA
Statistics
Matches: 101, Mismatches: 30, Indels: 26
0.64 0.19 0.17
Matches are distributed among these distances:
35 1 0.01
36 44 0.44
37 1 0.01
38 4 0.04
39 2 0.02
40 48 0.48
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (36 bp):
CAAATCTTCGTCAGTTTATCTGACTAGTGCTAGGCA
Found at i:29281571 original size:76 final size:76
Alignment explanation
Indices: 29281382--29281561 Score: 202
Period size: 76 Copynumber: 2.4 Consensus size: 76
29281372 TCTTGGTGAG
* * * * * * *
29281382 CAAATCTTTGTTAGTTTACCCT-ACTAGTGCTAGGCACATCATTATATTCGTCGATTTATCCGAC
1 CAAATCTTCGTCAGCTTA-CCTGACTAGTACTAGGCACATCATTATATTCATAGATTTATCCAAC
* *
29281446 TAGTGCTGGGCG
65 TAGTGCTAGGCA
* * *
29281458 TAAATCTTCGTCAGCTTGCCTGACTAGTACTAGGCACATCATTATATTCAATAG-TTTCTCCAAC
1 CAAATCTTCGTCAGCTTACCTGACTAGTACTAGGCACATCATTATATTC-ATAGATTTATCCAAC
29281522 TAGTGCTAGGCA
65 TAGTGCTAGGCA
* *
29281534 CAAATCTTCGTCAGTTTATCTGACTAGT
1 CAAATCTTCGTCAGCTTACCTGACTAGT
29281562 TTTGGGCACA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
75 3 0.03
76 81 0.94
77 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (76 bp):
CAAATCTTCGTCAGCTTACCTGACTAGTACTAGGCACATCATTATATTCATAGATTTATCCAACT
AGTGCTAGGCA
Found at i:29288417 original size:40 final size:40
Alignment explanation
Indices: 29288357--29288475 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 40
29288347 TTAGCAAATC
* *
29288357 TTCGTTAGTTTACCTTACTAGTGTTGGGCACATCAATATA
1 TTCGTCAGTTTACCTAACTAGTGTTGGGCACATCAATATA
* *
29288397 TTCGTC-GATTTATCTAACTAGTGTT--G-A-GTGCAA-ATA
1 TTCGTCAG-TTTACCTAACTAGTGTTGGGCACAT-CAATATA
* *
29288433 TTCGTCAGTTTACCTAACTAGTGCTGGGCACATCATTATA
1 TTCGTCAGTTTACCTAACTAGTGTTGGGCACATCAATATA
29288473 TTC
1 TTC
29288476 ATTGGTTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
36 25 0.40
37 5 0.08
38 2 0.03
39 4 0.06
40 27 0.43
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (40 bp):
TTCGTCAGTTTACCTAACTAGTGTTGGGCACATCAATATA
Found at i:29288450 original size:36 final size:39
Alignment explanation
Indices: 29288350--29288465 Score: 107
Period size: 36 Copynumber: 3.0 Consensus size: 39
29288340 TTTGTGGTTA
* * *
29288350 GCAAATCTTCGTTAGTTTACCTTACTAGTGTTGGGCACAT
1 GCAAATATTCGTCAGTTTACCTAACTAGTGTT-GGCACAT
* *
29288390 -CAATATATTCGTC-GATTTATCTAACTAGTGTT-G-A-GT
1 GCAA-ATATTCGTCAG-TTTACCTAACTAGTGTTGGCACAT
*
29288426 GCAAATATTCGTCAGTTTACCTAACTAGTGCTGGGCACAT
1 GCAAATATTCGTCAGTTTACCTAACTAGTG-TTGGCACAT
29288466 CATTATATTC
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
36 24 0.40
37 6 0.10
38 2 0.03
39 5 0.08
40 23 0.38
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (39 bp):
GCAAATATTCGTCAGTTTACCTAACTAGTGTTGGCACAT
Found at i:29288493 original size:76 final size:76
Alignment explanation
Indices: 29288350--29288548 Score: 218
Period size: 76 Copynumber: 2.6 Consensus size: 76
29288340 TTTGTGGTTA
* * * * *
29288350 GCAAATCTTCGTTAGTTTACCTTACTAGTGTTGGGCACATCAATATATTCGTCGATTTATCTAAC
1 GCAAATCTTCGTTAGTTTACCTAACTAGTGCTGGGCACATCATTATATTCATCGATTTATCCAAC
* * *
29288415 TAGTGTTGAGT
66 TAGAGCTGAGC
* * * * *
29288426 GCAAATATTCGTCAGTTTACCTAACTAGTGCTGGGCACATCATTATATTCATTGGTTTATCCGAC
1 GCAAATCTTCGTTAGTTTACCTAACTAGTGCTGGGCACATCATTATATTCATCGATTTATCCAAC
*
29288491 TAGAGCTGGGC
66 TAGAGCTGAGC
* * * * * *
29288502 ACAAATCTTTGTTAGTTTAACTGACTAGTACTAGGCACATCATTATA
1 GCAAATCTTCGTTAGTTTACCTAACTAGTGCTGGGCACATCATTATA
29288549 ATTTTCAGTT
Statistics
Matches: 101, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 101 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (76 bp):
GCAAATCTTCGTTAGTTTACCTAACTAGTGCTGGGCACATCATTATATTCATCGATTTATCCAAC
TAGAGCTGAGC
Found at i:29288615 original size:76 final size:75
Alignment explanation
Indices: 29288449--29288616 Score: 187
Period size: 76 Copynumber: 2.2 Consensus size: 75
29288439 AGTTTACCTA
* * **
29288449 ACTAGTGCTGGGCACATCATTATATTCATTGGTTTATCCGACTAGAGCTGGGCACAAATCTTTGT
1 ACTAGTGCTGGGCACATCATTATATT-ATTAGTTTATCCAACTAGAGCTGGGCACAAATCTTCAT
* *
29288514 TAGTTTAACTG
65 CACTTTAACTG
* * *
29288525 ACTAGTACTAGGCACATCATTATAATT-TTCAGTTTCTCCAACTAGCA-CTGGGCACAAATCTTC
1 ACTAGTGCTGGGCACATCATTAT-ATTATT-AGTTTATCCAACTAG-AGCTGGGCACAAATCTTC
*
29288588 ATCACTTTATCTG
63 ATCACTTTAACTG
*
29288601 ACTAGTGTTGGGCACA
1 ACTAGTGCTGGGCACA
29288617 ACCTCTATAA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
75 2 0.03
76 70 0.92
77 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (75 bp):
ACTAGTGCTGGGCACATCATTATATTATTAGTTTATCCAACTAGAGCTGGGCACAAATCTTCATC
ACTTTAACTG
Found at i:29291025 original size:63 final size:62
Alignment explanation
Indices: 29290931--29291092 Score: 180
Period size: 63 Copynumber: 2.6 Consensus size: 62
29290921 CGTGTCTTTG
* * * * * *
29290931 GCCCATGTGTCTTTAATTCCAAAACAATGAGTTACACGGCCTGGACACAAGTCCATTTCTCTA
1 GCCCGTGT-TCTTTAATTCCAAAACAGTGAGTTACACGGCCTGAAAACAAGCCCATGTCTCTA
*** *
29290994 GCCCGTGTTCTTATAATTCCAAAACAGTGAGTTACACGGCCTGAAAATTTGCCCGTGTCTCTA
1 GCCCGTGTTCTT-TAATTCCAAAACAGTGAGTTACACGGCCTGAAAACAAGCCCATGTCTCTA
* * *
29291057 GCCCGTGTGCTTCTAATTTCAAAACAGTGTGTTACA
1 GCCCGTGTTCTT-TAATTCCAAAACAGTGAGTTACA
29291093 TGACCTGCCT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 4 0.05
63 80 0.95
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (62 bp):
GCCCGTGTTCTTTAATTCCAAAACAGTGAGTTACACGGCCTGAAAACAAGCCCATGTCTCTA
Found at i:29297313 original size:21 final size:21
Alignment explanation
Indices: 29297282--29297339 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
29297272 TTTAAATAAA
* *
29297282 AAAATAAAAAATTTAATATCT
1 AAAATATAAAATTTAATAACT
**
29297303 CAAAAT-TAAAATGAAATAACT
1 -AAAATATAAAATTTAATAACT
29297324 AAAATATAAAATTTAA
1 AAAATATAAAATTTAA
29297340 AAGAATACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 5 0.17
21 19 0.66
22 5 0.17
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATATAAAATTTAATAACT
Found at i:29299434 original size:20 final size:20
Alignment explanation
Indices: 29299409--29299463 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
29299399 ATATATTTTA
*
29299409 AAAAAATTATAAAAAATTCT
1 AAAAAATTATAAAAAATTAT
*
29299429 AAAAAATTCTAAAAACA-TAT
1 AAAAAATTATAAAAA-ATTAT
29299449 AAAAAA--ATAAAAAAT
1 AAAAAATTATAAAAAAT
29299464 AAAATTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 1 0.03
18 6 0.20
20 22 0.73
21 1 0.03
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAATTATAAAAAATTAT
Found at i:29300574 original size:31 final size:31
Alignment explanation
Indices: 29300539--29300597 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
29300529 ACAAAGAATA
*
29300539 CTTTCAATACTCAATACATTTTCATTCTATT
1 CTTTCAATACTCAATACAATTTCATTCTATT
*
29300570 CTTTCAATACTCAGTACAATTTCATTCT
1 CTTTCAATACTCAATACAATTTCATTCT
29300598 TTCAATACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.46
Consensus pattern (31 bp):
CTTTCAATACTCAATACAATTTCATTCTATT
Found at i:29305645 original size:31 final size:31
Alignment explanation
Indices: 29305610--29305671 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
29305600 AATACAAAGA
* *
29305610 ATTCTTTCAATACTCAATACATTTTCATTCT
1 ATTCTTTCAATACCCAATACAGTTTCATTCT
* * *
29305641 ATTCTTTTAATACCCAGTATAGTTTCATTCT
1 ATTCTTTCAATACCCAATACAGTTTCATTCT
29305672 TTCAATACAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.03, T:0.48
Consensus pattern (31 bp):
ATTCTTTCAATACCCAATACAGTTTCATTCT
Found at i:29308577 original size:30 final size:30
Alignment explanation
Indices: 29308517--29308578 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
29308507 AAACCATGAA
* * *
29308517 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAAATTTT
29308547 AATATTTACAAAAAGA-GCAACCAAAATTTT
1 AATATTTACAAAAAGAGGC-ACCAAAATTTT
29308577 AA
1 AA
29308579 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAAATTTT
Found at i:29317348 original size:54 final size:54
Alignment explanation
Indices: 29317285--29317389 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
29317275 TTCTAAATAA
** * * *
29317285 TAGTCTCCCCCTGAGCAGTAGCTTCCTCTTGAACAATGGTGTTTTTTGGAACAG
1 TAGTCTCCCCCCAAACAGTAGCATCCTCTTGAACAATGATGTTTTTTGGAACAG
*
29317339 TAGTCTCCCCCCAAATAGTAGCATCCTCTTGAACAATGATGTTTTTTGGAA
1 TAGTCTCCCCCCAAACAGTAGCATCCTCTTGAACAATGATGTTTTTTGGAA
29317390 TAAGGTTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (54 bp):
TAGTCTCCCCCCAAACAGTAGCATCCTCTTGAACAATGATGTTTTTTGGAACAG
Found at i:29325745 original size:49 final size:49
Alignment explanation
Indices: 29325689--29325788 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
29325679 GGGGTTTATA
* *
29325689 TAGGGAAAAATTAGGGCAACATGTAGAAAAAATTTAGCTACATTAAAGT
1 TAGGGAAAAATTAGAGCAACATGTAGAAAAAATTTAGCAACATTAAAGT
*
29325738 TAGGGAAAAATTAGAGCAACATGTAGCAAAAATTTAGCAACATTAAAGT
1 TAGGGAAAAATTAGAGCAACATGTAGAAAAAATTTAGCAACATTAAAGT
29325787 TA
1 TA
29325789 CTTGGGCGGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.24
Consensus pattern (49 bp):
TAGGGAAAAATTAGAGCAACATGTAGAAAAAATTTAGCAACATTAAAGT
Found at i:29331002 original size:19 final size:18
Alignment explanation
Indices: 29330978--29331015 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
29330968 ATTTGGACGG
29330978 TTTAGCCACTTTAATATAA
1 TTTAGCCACTTTAAT-TAA
29330997 TTTAGCCACTTTAATTAA
1 TTTAGCCACTTTAATTAA
29331015 T
1 T
29331016 CAATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (18 bp):
TTTAGCCACTTTAATTAA
Found at i:29334018 original size:54 final size:54
Alignment explanation
Indices: 29333927--29334058 Score: 158
Period size: 54 Copynumber: 2.4 Consensus size: 54
29333917 GGTCACACAA
* * ** * * *
29333927 CCATGTAACTCACTGTGA-CCGTGTAGCTTAGGGTCACACGGTCGTGTCGTCAGG
1 CCATGTAACTCTCTGT-ACCCGTGTAGCTCAGCATCACACGGCCGTGTCGCCAAG
29333981 CCATGTAACTCTCTGTACCCGTGTAGCTCAGCATCACACGGCCGTGTCGCCAAG
1 CCATGTAACTCTCTGTACCCGTGTAGCTCAGCATCACACGGCCGTGTCGCCAAG
* * *
29334035 CCATGTAACTTTCTCTACCTGTGT
1 CCATGTAACTCTCTGTACCCGTGT
29334059 GGACTGACCT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 66 0.99
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.27
Consensus pattern (54 bp):
CCATGTAACTCTCTGTACCCGTGTAGCTCAGCATCACACGGCCGTGTCGCCAAG
Found at i:29334344 original size:18 final size:18
Alignment explanation
Indices: 29334316--29334358 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
29334306 CCTCATTGAT
29334316 ACCACAATTCA-ATTACAAA
1 ACCA-AATTCATATT-CAAA
*
29334335 ACCAAATTCATATTCCAA
1 ACCAAATTCATATTCAAA
29334353 ACCAAA
1 ACCAAA
29334359 GTAATTGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (18 bp):
ACCAAATTCATATTCAAA
Found at i:29358709 original size:30 final size:30
Alignment explanation
Indices: 29358652--29358710 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
29358642 TGCCTTTGAA
* *
29358652 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
*
29358682 AATATTTACATAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
29358711 GAAAAGAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:29366144 original size:22 final size:22
Alignment explanation
Indices: 29366091--29366134 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
29366081 GAATTTGTCG
*
29366091 AAAATAAATTAAAATTTAATAT
1 AAAATAAATTAAAATTTAACAT
29366113 AAAATAAATTAAAATTTAACAT
1 AAAATAAATTAAAATTTAACAT
29366135 GTTAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATAAATTAAAATTTAACAT
Found at i:29368528 original size:54 final size:54
Alignment explanation
Indices: 29368460--29368570 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
29368450 ACAGGCTGTT
** *
29368460 ACACGGCCTTGTGACCCGATTTCGAATTGCACACAGTTTGTCACACGATCTATG
1 ACACGGCCTTGTGACCCGATTTCGAATCACACACAGTTTGGCACACGATCTATG
* * *
29368514 ACACGG-CTATGTGACCCTATTTCGAATCACACACGGTTTGGCACACGATCTGTG
1 ACACGGCCT-TGTGACCCGATTTCGAATCACACACAGTTTGGCACACGATCTATG
29368568 ACA
1 ACA
29368571 TTGCCATATG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
53 2 0.04
54 48 0.96
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (54 bp):
ACACGGCCTTGTGACCCGATTTCGAATCACACACAGTTTGGCACACGATCTATG
Found at i:29368583 original size:54 final size:54
Alignment explanation
Indices: 29368460--29368590 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
29368450 ACAGGCTGTT
* * * ** *
29368460 ACACGGCCTTGTGACCCGATTTCGAATTGCACACAGTTTGTCACACGATCTATG
1 ACACGGCCATATGACCCTATTTCGAATCACACACAGTTTGGCACACGATCTATG
* * * *
29368514 ACACGGCTATGTGACCCTATTTCGAATCACACACGGTTTGGCACACGATCTGTG
1 ACACGGCCATATGACCCTATTTCGAATCACACACAGTTTGGCACACGATCTATG
**
29368568 ACATTGCCATATGACCCTTATTT
1 ACACGGCCATATGACCC-TATTT
29368591 TTTGATTTTC
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
54 59 0.92
55 5 0.08
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (54 bp):
ACACGGCCATATGACCCTATTTCGAATCACACACAGTTTGGCACACGATCTATG
Found at i:29374270 original size:102 final size:102
Alignment explanation
Indices: 29374094--29374490 Score: 724
Period size: 102 Copynumber: 3.9 Consensus size: 102
29374084 CGATACAACA
* * * * * *
29374094 TCCCAAACTTGTATAAAACGAGTTTAAAACACTTAAAA-CATTTTAGATTGACTCAAAAATGTTT
1 TCCCATACTTGTATAAAATGAGTTTAAAACAC-CAAAATCATTTTGGATTGGCTCAAAAATATTT
29374158 AGATAAATTAAAATACATTTAAAATATGTTATATAACT
65 AGATAAATTAAAATACATTTAAAATATGTTATATAACT
29374196 TCCCATACTTGTATAAAATGAGTTTAAAACACCAAAATCATTTTGGATTGGCTCAAAAATATTTA
1 TCCCATACTTGTATAAAATGAGTTTAAAACACCAAAATCATTTTGGATTGGCTCAAAAATATTTA
29374261 GATAAATTAAAATACATTTAAAATATGTTATATAACT
66 GATAAATTAAAATACATTTAAAATATGTTATATAACT
29374298 TCCCATACTTGTATAAAATGAGTTTAAAACACCAAAATCATTTTGGATTGGCTCAAAAATATTTA
1 TCCCATACTTGTATAAAATGAGTTTAAAACACCAAAATCATTTTGGATTGGCTCAAAAATATTTA
29374363 GATAAATTAAAATACATTTAAAATATGTTATATAACT
66 GATAAATTAAAATACATTTAAAATATGTTATATAACT
29374400 TCCCATACTTGTATAAAATGAGTTTAAAACACCAAAATCATTTTGGATTGGCTCAAAAATATTTA
1 TCCCATACTTGTATAAAATGAGTTTAAAACACCAAAATCATTTTGGATTGGCTCAAAAATATTTA
29374465 GATAAATTAAAATACATTTAAAATAT
66 GATAAATTAAAATACATTTAAAATAT
29374491 ATTTTTGAGT
Statistics
Matches: 288, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
101 4 0.01
102 284 0.99
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.35
Consensus pattern (102 bp):
TCCCATACTTGTATAAAATGAGTTTAAAACACCAAAATCATTTTGGATTGGCTCAAAAATATTTA
GATAAATTAAAATACATTTAAAATATGTTATATAACT
Found at i:29375227 original size:23 final size:23
Alignment explanation
Indices: 29375163--29375226 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
29375153 AAGTAATATT
*
29375163 AAATATCAAATAATAAAAGCGTC
1 AAATATCAAATAATAAAATCGTC
*
29375186 AAAAATCAAATAATAAAATC-TC
1 AAATATCAAATAATAAAATCGTC
29375208 AACATATCAAATAAATAAA
1 AA-ATATCAAAT-AATAAA
29375227 TAAATTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.11
23 26 0.72
24 6 0.17
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.22
Consensus pattern (23 bp):
AAATATCAAATAATAAAATCGTC
Found at i:29381726 original size:47 final size:46
Alignment explanation
Indices: 29381657--29381750 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 46
29381647 CCAGTTGGAA
*
29381657 CATCTGTTTCAAATCCAAATCTGAAAATACAACCATGGATCTCTTT
1 CATCTGTTTCAAATCCAAATCTGAAAATACAACCATGGAACTCTTT
29381703 NCATCTGTTTCAAATCCAAATCTGAAAATACAACCATGGAACTCTTT
1 -CATCTGTTTCAAATCCAAATCTGAAAATACAACCATGGAACTCTTT
29381750 C
1 C
29381751 CCTTGCCGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.02
47 45 0.98
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.31
Consensus pattern (46 bp):
CATCTGTTTCAAATCCAAATCTGAAAATACAACCATGGAACTCTTT
Found at i:29387315 original size:20 final size:18
Alignment explanation
Indices: 29387267--29387315 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
29387257 TACAAAAAAT
*
29387267 AAAATAAAAATATATTTG
1 AAAATAAAAATAAATTTG
29387285 AAAATGCAAAAATAAATTTAAG
1 AAAAT--AAAAATAAATTT--G
29387307 AAAATAAAA
1 AAAATAAAA
29387316 TATTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
20 15 0.58
22 6 0.23
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAATAAAAATAAATTTG
Found at i:29390955 original size:101 final size:100
Alignment explanation
Indices: 29390780--29391002 Score: 320
Period size: 101 Copynumber: 2.2 Consensus size: 100
29390770 AATTGACGGA
* * * * *
29390780 TAAGACCATGGTTGGACCATGGAAATGTTTATATGTAAGACCATAGTTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGGCCAT-GAAATATTTATAAGTAAAACCATAGTTGGGCTATGGCATTCTAA
*
29390845 TGAAAAGACCATAACTAGGTTATAGCACTTTGAACG
65 TGAAAAGACCATAACTAGGTTATAGCACTATGAACG
*
29390881 TAAGACCATGGTTGGGCCATGATAGTATTTATAAGTAAAACCATAGTTGGGCTATGGCATTCTAA
1 TAAGACCATGGTTGGGCCATGA-AATATTTATAAGTAAAACCATAGTTGGGCTATGGCATTCTAA
* * * *
29390946 TGATAAGACCATAACTGGGTTATGGCACTATGAATG
65 TGAAAAGACCATAACTAGGTTATAGCACTATGAACG
*
29390982 TAAGACCATGGTTGGGTCATG
1 TAAGACCATGGTTGGGCCATG
29391003 GCAATGCATG
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
100 2 0.02
101 107 0.98
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (100 bp):
TAAGACCATGGTTGGGCCATGAAATATTTATAAGTAAAACCATAGTTGGGCTATGGCATTCTAAT
GAAAAGACCATAACTAGGTTATAGCACTATGAACG
Found at i:29390998 original size:33 final size:33
Alignment explanation
Indices: 29390812--29391039 Score: 124
Period size: 33 Copynumber: 6.8 Consensus size: 33
29390802 AAATGTTTAT
* *
29390812 ATGTAAGACCATAGTTGGGCTATGGCA-TTTTA
1 ATGTAAGACCATAGTTGGGCTATGGCACTATGA
* ** * * * *
29390844 ATGAAAAGACCATAACTAGGTTATAGCACTTTGA
1 ATG-TAAGACCATAGTTGGGCTATGGCACTATGA
* * * ** * *
29390878 ACGTAAGACCATGGTTGGGCCATGATAGTATTTA
1 ATGTAAGACCATAGTTGGGCTATGGCACTA-TGA
* * * *
29390912 TAAGTAAAACCATAGTTGGGCTATGGCATTCT-A
1 -ATGTAAGACCATAGTTGGGCTATGGCACTATGA
** *
29390945 ATGATAAGACCATAACTGGGTTATGGCACTATGA
1 ATG-TAAGACCATAGTTGGGCTATGGCACTATGA
*
29390979 ATGTAAGACCATGGTTGGG-TCATGGCA--ATGCA
1 ATGTAAGACCATAGTTGGGCT-ATGGCACTATG-A
* *
29391011 TGTGTAAGACCATAGTTGGACTATGGCAC
1 -ATGTAAGACCATAGTTGGGCTATGGCAC
29391040 AAAGAAAATG
Statistics
Matches: 143, Mismatches: 42, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
31 3 0.02
32 7 0.05
33 97 0.68
34 14 0.10
35 22 0.15
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (33 bp):
ATGTAAGACCATAGTTGGGCTATGGCACTATGA
Found at i:29393135 original size:7 final size:7
Alignment explanation
Indices: 29393123--29393147 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29393113 TATTCGATGT
29393123 TAAACCC
1 TAAACCC
29393130 TAAACCC
1 TAAACCC
29393137 TAAACCC
1 TAAACCC
29393144 TAAA
1 TAAA
29393148 TCTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:29402580 original size:7 final size:7
Alignment explanation
Indices: 29402567--29402608 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
29402557 ACCAATGGTC
29402567 TAAATTT
1 TAAATTT
*
29402574 AAAATTT
1 TAAATTT
29402581 TAAATTT
1 TAAATTT
29402588 TAAATTT
1 TAAATTT
29402595 TAAATTT
1 TAAATTT
29402602 TAAATTT
1 TAAATTT
29402609 CATAACAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TAAATTT
Found at i:29404737 original size:26 final size:24
Alignment explanation
Indices: 29404679--29404739 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
29404669 CTCTTTTATC
* * *
29404679 ATTATTTATTTTAAGTTTTTATAT
1 ATTATTTATTTTAACTTTTCACAT
29404703 ATTATTTATTTTAAACTGTTTCACAT
1 ATTATTTATTTT-AACT-TTTCACAT
29404729 ATTATTTATTT
1 ATTATTTATTT
29404740 AAATTTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 12 0.38
25 3 0.09
26 17 0.53
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (24 bp):
ATTATTTATTTTAACTTTTCACAT
Found at i:29404756 original size:26 final size:25
Alignment explanation
Indices: 29404664--29404813 Score: 98
Period size: 24 Copynumber: 6.0 Consensus size: 25
29404654 TTATTTAAAA
29404664 AAATTCTCTTT-TATCATTATTTATTT
1 AAATTCT-TTTATAT-ATTATTTATTT
* *
29404690 TAAGT-TTTTATATATTATTTATTTT
1 AAATTCTTTTATATATTATTTA-TTT
* * * *
29404715 AAACTGTTTCACATATTATTTATTT
1 AAATTCTTTTATATATTATTTATTT
*
29404740 AAATTTCTTTTATATATTATTTAATGT
1 AAA-TTCTTTTATATATTATTT-ATTT
**
29404767 AAA--CCATTATATA-TATATT-TTT
1 AAATTCTTTTATATATTAT-TTATTT
* *
29404789 AAATTGTTTTATATGTTATTT-TTT
1 AAATTCTTTTATATATTATTTATTT
29404813 A
1 A
29404814 TATTATTTAT
Statistics
Matches: 97, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
22 5 0.05
23 3 0.03
24 33 0.34
25 19 0.20
26 31 0.32
27 6 0.06
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (25 bp):
AAATTCTTTTATATATTATTTATTT
Found at i:29404815 original size:38 final size:37
Alignment explanation
Indices: 29404773--29404854 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 37
29404763 ATGTAAACCA
29404773 TTATA-TATATATTTTTAAATTGTTTTATATGTTATTTT
1 TTATATTATATA-TTTTAAATTGTTTTAT-TGTTATTTT
*
29404811 TTATATTATTTATTTTAAATTGTTTTATTGTTATTTT
1 TTATATTATATATTTTAAATTGTTTTATTGTTATTTT
29404848 TTATATT
1 TTATATT
29404855 CTGTTTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
37 16 0.38
38 21 0.50
39 5 0.12
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (37 bp):
TTATATTATATATTTTAAATTGTTTTATTGTTATTTT
Found at i:29404884 original size:39 final size:38
Alignment explanation
Indices: 29404793--29404886 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 38
29404783 ATTTTTAAAT
* *
29404793 TGTTTTA-TATGTTATTTTTTATATTATTTATTTTAAAT
1 TGTTTTATTAT-TTATTTTTTATATTATTTATTTGAAAC
* *
29404831 TGTTTTATT-GTTATTTTTTATATTCTGTTTATTTGAAAC
1 TGTTTTATTATTTATTTTTTATA-T-TATTTATTTGAAAC
29404870 T-TTTTATTATTTATTTT
1 TGTTTTATTATTTATTTT
29404887 GAATTGTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
37 12 0.26
38 15 0.32
39 20 0.43
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.69
Consensus pattern (38 bp):
TGTTTTATTATTTATTTTTTATATTATTTATTTGAAAC
Found at i:29415326 original size:40 final size:40
Alignment explanation
Indices: 29415263--29415347 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
29415253 TAGCTTGAAT
* * **
29415263 ATCAACACTTCAATATTTAATATGTAAGGAATTGTCAAAA
1 ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
*
29415303 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACAAAA
1 ATCAACACTTCAAT-ATTTAATATGCAAGAAATTAACAAAA
29415343 ATCAA
1 ATCAA
29415348 TCTTACAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
Found at i:29415528 original size:86 final size:86
Alignment explanation
Indices: 29415368--29415700 Score: 386
Period size: 86 Copynumber: 3.9 Consensus size: 86
29415358 GTTTATGTGA
* ** ** * *
29415368 AACAAATTAGCAAAAATCAACT-ATTCATAGTTCATATATTTACCGGCAAT-AGGGCTAAATCTT
1 AACAAATTAGCAAAAATCAA-TGGTTCA-AGTTCATGCATTTACCAACAATCA-GACTAAATTTT
* *
29415431 CAAT-TTCTATAACGATTTATATGC
63 CAATATT-TATAACAACTTATATGC
* * * *
29415455 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATTTACGAAAAATCAGACTAATTTTTCAA
1 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGCATTTACCAACAATCAGACTAAATTTTCAA
29415520 TATTTATAACAACTTATATGC
66 TATTTATAACAACTTATATGC
* * *
29415541 AACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTTACCAATAACCAGACTAAATTTTCAA
1 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGCATTTACCAACAATCAGACTAAATTTTCAA
* *
29415606 TTTTTATAACAACTTATGTGC
66 TATTTATAACAACTTATATGC
* ** * *
29415627 AACAAATTAGAAAAAATCAACAGTTCAAGTTCATGCATTCACCAACAATCAGACCAAATTTTCAA
1 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGCATTTACCAACAATCAGACTAAATTTTCAA
29415692 -ATTTCATAA
66 TATTT-ATAA
29415701 AGTAGAAGGA
Statistics
Matches: 214, Mismatches: 28, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
85 3 0.01
86 184 0.86
87 27 0.13
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.32
Consensus pattern (86 bp):
AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGCATTTACCAACAATCAGACTAAATTTTCAA
TATTTATAACAACTTATATGC
Found at i:29416709 original size:62 final size:62
Alignment explanation
Indices: 29416612--29416765 Score: 308
Period size: 62 Copynumber: 2.5 Consensus size: 62
29416602 ATAATCGAAA
29416612 ATGAATTTGTACCTTTTGAGGAGATGCAGATTGTGGTGGCGTGGGATATCCGTAAGGTCTCC
1 ATGAATTTGTACCTTTTGAGGAGATGCAGATTGTGGTGGCGTGGGATATCCGTAAGGTCTCC
29416674 ATGAATTTGTACCTTTTGAGGAGATGCAGATTGTGGTGGCGTGGGATATCCGTAAGGTCTCC
1 ATGAATTTGTACCTTTTGAGGAGATGCAGATTGTGGTGGCGTGGGATATCCGTAAGGTCTCC
29416736 ATGAATTTGTACCTTTTGAGGAGATGCAGA
1 ATGAATTTGTACCTTTTGAGGAGATGCAGA
29416766 GGGCGGCCGA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 92 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (62 bp):
ATGAATTTGTACCTTTTGAGGAGATGCAGATTGTGGTGGCGTGGGATATCCGTAAGGTCTCC
Found at i:29417646 original size:15 final size:14
Alignment explanation
Indices: 29417620--29417657 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
29417610 AACCCTTAAA
29417620 CCATAAACCATAAT
1 CCATAAACCATAAT
*
29417634 CCCTAAACTCATAAT
1 CCATAAAC-CATAAT
29417649 CCATAAACC
1 CCATAAACC
29417658 TTAAGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (14 bp):
CCATAAACCATAAT
Found at i:29418075 original size:41 final size:41
Alignment explanation
Indices: 29418030--29418107 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
29418020 CCGCTAAAGC
* *
29418030 ATTAGCGGCGGCTTTTC-AAAAACGCCACTAAATCCCCGAGT
1 ATTAGCGGC-ACTTTTCTAAAAACGCCACTAAAGCCCCGAGT
*
29418071 ATTAGCGGCACTTTTCTAAAAACGCCGCTAAAGCCCC
1 ATTAGCGGCACTTTTCTAAAAACGCCACTAAAGCCCC
29418108 AAAAGGTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 6 0.18
41 27 0.82
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCACTTTTCTAAAAACGCCACTAAAGCCCCGAGT
Found at i:29418206 original size:39 final size:39
Alignment explanation
Indices: 29418151--29418261 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
29418141 AATTTTTTAG
29418151 AAAAAT-GCCGCTAATGCTC-ATTTTCAGCGGCGTGTTCC
1 AAAAATCGCCGCTAATGCTCGATTTT-AGCGGCGTGTTCC
* * *
29418189 AAAAATCGCCGCAAATGCTCGATCTTTAGCGACGTTTTCC
1 AAAAATCGCCGCTAATGCTCGAT-TTTAGCGGCGTGTTCC
* * * *
29418229 ATAAAGCGCCACTATTGCTCGATTTTTAGCGGC
1 AAAAATCGCCGCTAATGCTCGA-TTTTAGCGGC
29418262 ATTTTTTATC
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
38 6 0.10
39 12 0.20
40 38 0.63
41 4 0.07
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (39 bp):
AAAAATCGCCGCTAATGCTCGATTTTAGCGGCGTGTTCC
Found at i:29418370 original size:15 final size:18
Alignment explanation
Indices: 29418340--29418377 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
29418330 ATAAGTGTTT
29418340 TTTTTCCATCAACATA-C
1 TTTTTCCATCAACATATC
29418357 TTTTT-CAT-AACATATC
1 TTTTTCCATCAACATATC
29418373 TTTTT
1 TTTTT
29418378 GAAGAGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 9 0.45
17 5 0.25
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTTCCATCAACATATC
Found at i:29422413 original size:38 final size:38
Alignment explanation
Indices: 29422370--29422445 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
29422360 AAAACGTATA
*
29422370 GTTAAATCGATTTGGTTCAGTTTAATTACTAGTTATGT
1 GTTAAATCGATTTGGTTAAGTTTAATTACTAGTTATGT
29422408 GTTAAATCGATTTGGTTAAGTTTAATTACTAGTTATGT
1 GTTAAATCGATTTGGTTAAGTTTAATTACTAGTTATGT
29422446 ACTATGTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (38 bp):
GTTAAATCGATTTGGTTAAGTTTAATTACTAGTTATGT
Found at i:29426639 original size:72 final size:72
Alignment explanation
Indices: 29426545--29426693 Score: 205
Period size: 72 Copynumber: 2.1 Consensus size: 72
29426535 TCAAATGTTT
* * *
29426545 TTTTTTCACATATATTTGGGTATGGTA-ACTTCTAATATTGA-AAAATCAAATAATCATTT-CAA
1 TTTTTTCACATACATTTGGGTATGGTAGA-TTCTAATA-TCATAAAATCAAATAATCATTTAAAA
29426607 ATATCATTA
64 ATATCATTA
* *
29426616 TTTTTTCACCTACATTGTGGGTATGGTAGATTCTAATATCATAAAATCAAATAATTATTTAAAAA
1 TTTTTTCACATACATT-TGGGTATGGTAGATTCTAATATCATAAAATCAAATAATCATTTAAAAA
29426681 TATCATTA
65 TATCATTA
29426689 TTTTT
1 TTTTT
29426694 ATATGTGAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
71 16 0.23
72 36 0.52
73 17 0.25
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.44
Consensus pattern (72 bp):
TTTTTTCACATACATTTGGGTATGGTAGATTCTAATATCATAAAATCAAATAATCATTTAAAAAT
ATCATTA
Found at i:29428368 original size:4 final size:4
Alignment explanation
Indices: 29428359--29428409 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
29428349 TTCCATTTAT
29428359 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29428407 ATA
1 ATA
29428410 TGTTTGTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:29434294 original size:21 final size:21
Alignment explanation
Indices: 29434268--29434308 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29434258 ATCTGCTCAA
* *
29434268 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
29434289 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
29434309 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:29440200 original size:4 final size:4
Alignment explanation
Indices: 29440191--29440216 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
29440181 ATGAAGGAAT
29440191 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
29440217 AACCAAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:29441052 original size:127 final size:127
Alignment explanation
Indices: 29440741--29441817 Score: 1743
Period size: 127 Copynumber: 8.5 Consensus size: 127
29440731 ATAAAAATCA
* * * * * * *
29440741 AAGCAGGATGCTTTATTAGAAGAATTTCTGAAGTTGCGCCCACGTGTACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
29440806 AGGTCCTGGAAGAAATAATTTTGACTTGACGTTTCTGAGCAAATAG--TATAAAAATGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * *
29440866 AAGTAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
*
29440931 AGTTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * *
29440993 AAGTAGGATACTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
29441058 AGGTTCTGGAAGAAATAATTTCGACTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGTTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
*
29441120 AAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
29441185 AGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAATGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
29441247 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
29441312 AGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAATGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
29441374 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
29441439 AGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAATGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * * *
29441501 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCCCTCTTGCTACAAT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
29441566 AGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAG--TATAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * * *
29441626 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCCCTCTTGCTACAAT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
29441691 AGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAG--TATAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* *
29441751 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
29441816 AG
66 AG
29441818 CATGTTTGGA
Statistics
Matches: 905, Mismatches: 45, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
125 298 0.33
127 607 0.67
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (127 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
Found at i:29444995 original size:28 final size:27
Alignment explanation
Indices: 29444946--29445005 Score: 93
Period size: 28 Copynumber: 2.2 Consensus size: 27
29444936 AAGGTTAGAA
*
29444946 GGTTTTTAAGTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGTAAGGGTTTAG
*
29444973 GGTTTTTAAGTTAAGGGTCAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTAAGGGTTTAG
29445001 GGTTT
1 GGTTT
29445006 AGGGTTTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (27 bp):
GGTTTTTAAGTTAAGGTAAGGGTTTAG
Found at i:29444997 original size:21 final size:22
Alignment explanation
Indices: 29444956--29444998 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
29444946 GGTTTTTAAG
*
29444956 TTAAGTTAAGGGTTTAGGGTTT
1 TTAAGTTAAGGGTTCAGGGTTT
29444978 TTAAGTTAAGGG-TCAGGGTTT
1 TTAAGTTAAGGGTTCAGGGTTT
29444999 AGGGTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (22 bp):
TTAAGTTAAGGGTTCAGGGTTT
Found at i:29445563 original size:18 final size:18
Alignment explanation
Indices: 29445537--29445579 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
29445527 GACTCGGAAA
* *
29445537 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
29445555 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
29445573 AGGAAAC
1 AGGAAAC
29445580 GCACTTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:29446450 original size:20 final size:20
Alignment explanation
Indices: 29446413--29446450 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29446403 ATTATTTCTA
*
29446413 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
29446433 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
29446451 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:29447411 original size:11 final size:12
Alignment explanation
Indices: 29447397--29447433 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
29447387 AAAAATAGGG
29447397 ATTTAAGAG-AA
1 ATTTAAGAGCAA
29447408 ATTTAAGAGCAA
1 ATTTAAGAGCAA
*
29447420 A-TTGAGAGCAA
1 ATTTAAGAGCAA
29447431 ATT
1 ATT
29447434 GAGATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:29447443 original size:11 final size:11
Alignment explanation
Indices: 29447413--29447437 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29447403 GAGAAATTTA
29447413 AGAGCAAATTG
1 AGAGCAAATTG
29447424 AGAGCAAATTG
1 AGAGCAAATTG
29447435 AGA
1 AGA
29447438 TTAAATATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:29447444 original size:51 final size:51
Alignment explanation
Indices: 29447389--29447488 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
29447379 AATTATTTAA
29447389 AAATAGGGATTTAAGAGAAATTTA-AGAGCAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGCAAATTGAGAGCAAATTGAGATT
* * *
29447440 AAATATGGATTTAAGAGAAATTTAGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGCAAATTGAGAGCAAATTGAGA
29447489 GGAAATTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.24, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGCAAATTGAGAGCAAATTGAGATT
Found at i:29447462 original size:11 final size:11
Alignment explanation
Indices: 29447448--29447507 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 11
29447438 TTAAATATGG
*
29447448 ATTTAAGAGAA
1 ATTTGAGAGAA
*
29447459 ATTT-AGAAGGA
1 ATTTGAG-AGAA
29447470 ATTTGAGAGCAA
1 ATTTGAGAG-AA
29447482 A-TTGAGAGGAA
1 ATTTGAGA-GAA
29447493 ATTTGAGAGAGA
1 ATTTGAGAGA-A
29447505 ATT
1 ATT
29447508 AGTTTGTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
10 2 0.05
11 24 0.59
12 15 0.37
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:29447495 original size:23 final size:22
Alignment explanation
Indices: 29447448--29447507 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
29447438 TTAAATATGG
* *
29447448 ATTTAAGAGAAATTTAGAAGGA
1 ATTTGAGAGAAATTGAGAAGGA
29447470 ATTTGAGAGCAAATTGAG-AGGAA
1 ATTTGAGAG-AAATTGAGAAGG-A
29447493 ATTTGAGAGAGAATT
1 ATTTGAGAGA-AATT
29447508 AGTTTGTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.27
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAAGGA
Found at i:29447498 original size:12 final size:12
Alignment explanation
Indices: 29447456--29447501 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
29447446 GGATTTAAGA
29447456 GAAATTT-AGAAG
1 GAAATTTGAG-AG
29447468 G-AATTTGAGAG
1 GAAATTTGAGAG
*
29447479 CAAA-TTGAGAG
1 GAAATTTGAGAG
29447490 GAAATTTGAGAG
1 GAAATTTGAGAG
29447502 AGAATTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 17 0.59
12 12 0.41
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.24
Consensus pattern (12 bp):
GAAATTTGAGAG
Found at i:29450879 original size:23 final size:23
Alignment explanation
Indices: 29450799--29450883 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 23
29450789 CCTGATCAGT
*
29450799 ATACGACACA-TAAGTGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
*
29450821 AT--GACACACGAGGTGCC-G--
1 ATACGACACACGAAGTGCCTGAA
*
29450839 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
**
29450862 ATACGACACATAAAGTGCCTGA
1 ATACGACACACGAAGTGCCTGA
29450884 TCAGCAAGGC
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
18 2 0.04
20 22 0.42
21 7 0.13
22 2 0.04
23 19 0.37
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (23 bp):
ATACGACACACGAAGTGCCTGAA
Found at i:29451891 original size:5 final size:6
Alignment explanation
Indices: 29451876--29451906 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
29451866 CAAACCCTAG
*
29451876 TTTTTC TTTTTC TTTTTC TTTTTA TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T
29451907 CGTTTCTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:29452077 original size:18 final size:18
Alignment explanation
Indices: 29452054--29452089 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
29452044 ATTAATAACC
29452054 AATACATATTTATTATTA
1 AATACATATTTATTATTA
*
29452072 AATACATGTTTATTATTA
1 AATACATATTTATTATTA
29452090 CACATGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.50
Consensus pattern (18 bp):
AATACATATTTATTATTA
Found at i:29455709 original size:30 final size:30
Alignment explanation
Indices: 29455672--29455753 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
29455662 TTGGCACATG
* **
29455672 GGCGTGTGTCCAGCCCGTGTGGCTTGCACA
1 GGCGTGTGTCCAGCCCATGTGGCTCACACA
* *
29455702 TGCGTGTGTCTAGCCCATGTGGCTCACACA
1 GGCGTGTGTCCAGCCCATGTGGCTCACACA
* *
29455732 GGCATGTATCCAGCCCATGTGG
1 GGCGTGTGTCCAGCCCATGTGG
29455754 AAATGCTCAG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.15, C:0.29, G:0.32, T:0.24
Consensus pattern (30 bp):
GGCGTGTGTCCAGCCCATGTGGCTCACACA
Found at i:29456709 original size:17 final size:17
Alignment explanation
Indices: 29456687--29456722 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
29456677 AGTATTATAA
29456687 TATTTATCATAA-AATTT
1 TATTTATCA-AATAATTT
29456704 TATTTATCAAATAATTT
1 TATTTATCAAATAATTT
29456721 TA
1 TA
29456723 AAAACAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTATCAAATAATTT
Found at i:29457591 original size:17 final size:18
Alignment explanation
Indices: 29457560--29457601 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
29457550 ATAATATCAT
*
29457560 TAAAAAACTCATAAATAC
1 TAAAAAACTCATAAAAAC
* *
29457578 TAAAAAACT-TTAAAAAT
1 TAAAAAACTCATAAAAAC
29457595 TAAAAAA
1 TAAAAAA
29457602 AAGTTTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAAAACTCATAAAAAC
Found at i:29462198 original size:14 final size:14
Alignment explanation
Indices: 29462179--29462205 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29462169 TTGTTTGCAT
29462179 ATAAAATATTTTTC
1 ATAAAATATTTTTC
29462193 ATAAAATATTTTT
1 ATAAAATATTTTT
29462206 ATTATTGTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAAATATTTTTC
Found at i:29463125 original size:21 final size:22
Alignment explanation
Indices: 29463072--29463125 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
29463062 CTTAATTAAG
29463072 TAAATTAAGATTAATTAAAACTA
1 TAAA-TAAGATTAATTAAAACTA
* *
29463095 -AAACATGATTAATTAAAA-TA
1 TAAATAAGATTAATTAAAACTA
29463115 TAAATAAGATT
1 TAAATAAGATT
29463126 TATGAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 21 0.81
22 3 0.12
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (22 bp):
TAAATAAGATTAATTAAAACTA
Found at i:29463302 original size:19 final size:19
Alignment explanation
Indices: 29463264--29463302 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29463254 TCATCCAAAC
*
29463264 TCCAAAAAATATTAGTTTT
1 TCCAAAAAATATAAGTTTT
29463283 TCCAAAAAA-ATAAGTCTTT
1 TCCAAAAAATATAAGT-TTT
29463302 T
1 T
29463303 TCCAGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (19 bp):
TCCAAAAAATATAAGTTTT
Found at i:29463890 original size:19 final size:19
Alignment explanation
Indices: 29463866--29463905 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
29463856 TAAATGGCTC
29463866 TTCAATTTATTTTTTCATT
1 TTCAATTTATTTTTTCATT
*
29463885 TTCAATTTGTTTTTTCATT
1 TTCAATTTATTTTTTCATT
29463904 TT
1 TT
29463906 GCTTCAGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (19 bp):
TTCAATTTATTTTTTCATT
Found at i:29466657 original size:13 final size:13
Alignment explanation
Indices: 29466641--29466667 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29466631 ACTTCTCAAA
29466641 AGCATTTTTCCAC
1 AGCATTTTTCCAC
29466654 AGCATTTTTCCAC
1 AGCATTTTTCCAC
29466667 A
1 A
29466668 ACACTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (13 bp):
AGCATTTTTCCAC
Found at i:29476213 original size:54 final size:54
Alignment explanation
Indices: 29476150--29476262 Score: 199
Period size: 54 Copynumber: 2.1 Consensus size: 54
29476140 AGTATCATAT
29476150 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAAAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAAAATTTTATTAA
* * *
29476204 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAAAATTTTATTAA
29476258 ATTAT
1 ATTAT
29476263 ATATTTTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAAAATTTTATTAA
Found at i:29476239 original size:28 final size:27
Alignment explanation
Indices: 29476154--29476240 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
29476144 TCATATATTA
29476154 TGATTTGAGTAAATTCATATAAAAATAT
1 TGATTTGAGTAAATTCATAT-AAAATAT
* * * * *
29476182 TAATTATTA-AAAATT-TTATTAAAT-T
1 TGATT-TGAGTAAATTCATATAAAATAT
29476207 ATGATTTGAGTAAATTCATATAAGAATAT
1 -TGATTTGAGTAAATTCATATAA-AATAT
29476236 TGATT
1 TGATT
29476241 ATTAAGAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
25 3 0.07
26 13 0.30
27 7 0.16
28 17 0.40
29 3 0.07
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (27 bp):
TGATTTGAGTAAATTCATATAAAATAT
Found at i:29476282 original size:16 final size:16
Alignment explanation
Indices: 29476261--29476302 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
29476251 TTATTAAATT
*
29476261 ATATATTTTAATTATA
1 ATATATTTTAATAATA
29476277 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
29476292 AT-TATGTTTAA
1 ATATAT-TTTAA
29476303 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:29476287 original size:15 final size:15
Alignment explanation
Indices: 29476252--29476293 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29476242 TTAAGAATTT
*
29476252 TATTAAATTAT-ATA
1 TATTTAATTATAATA
29476266 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
29476280 TATTTAATAATAAT
1 TATTTAATTATAAT
29476294 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:29476527 original size:45 final size:41
Alignment explanation
Indices: 29476429--29476538 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 41
29476419 TTTTCCATTA
29476429 TGCTATTACACCTCTATTCCATT-C-AACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACAAACCAAACACAAGAT
* * ***
29476468 TACTATTACGCCTCTATTCCATTACATTTAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACA---AACCAAACACAAGA-T
* *
29476513 TGCTATTACACCTCTAATCCAATACA
1 TGCTATTACACCTCTATTCCATTACA
29476539 CCTCTAATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 21 0.38
40 1 0.02
44 11 0.20
45 23 0.41
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (41 bp):
TGCTATTACACCTCTATTCCATTACAAACCAAACACAAGAT
Found at i:29476540 original size:16 final size:16
Alignment explanation
Indices: 29476519--29476554 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
29476509 GATTTGCTAT
29476519 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29476535 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29476551 TACA
1 TACA
29476555 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:29476758 original size:16 final size:17
Alignment explanation
Indices: 29476739--29476770 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29476729 TGAACATTAA
29476739 AATCAAAT-TCAAATAC
1 AATCAAATATCAAATAC
29476755 AATCAAATATCAAATA
1 AATCAAATATCAAATA
29476771 GGAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (17 bp):
AATCAAATATCAAATAC
Found at i:29496970 original size:22 final size:22
Alignment explanation
Indices: 29496931--29496977 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
29496921 ACATTAATAT
* *
29496931 AACAGTAGGCATCAAAGTGTAA
1 AACAATAGGCATCAAAGTGCAA
**
29496953 AACAATAGGCATTGAAGTGCAA
1 AACAATAGGCATCAAAGTGCAA
29496975 AAC
1 AAC
29496978 GATAAGCACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (22 bp):
AACAATAGGCATCAAAGTGCAA
Found at i:29498385 original size:22 final size:21
Alignment explanation
Indices: 29498360--29498404 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
29498350 AAGAACCAAG
29498360 TTGTAAAGAAAAATTTTTTCTT
1 TTGTAAAG-AAAATTTTTTCTT
**
29498382 TTGTAAAGAATTTTTTTTCTT
1 TTGTAAAGAAAATTTTTTCTT
29498403 TT
1 TT
29498405 TCTCACGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.58
Consensus pattern (21 bp):
TTGTAAAGAAAATTTTTTCTT
Found at i:29504551 original size:5 final size:5
Alignment explanation
Indices: 29504541--29504576 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
29504531 GGAAAGAAAA
*
29504541 AGAAG AGAAG AGAAG AGAAG AGAAG CGAAG AGAAG A
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A
29504577 AAACTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.58, C:0.03, G:0.39, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:29519788 original size:29 final size:30
Alignment explanation
Indices: 29519715--29519780 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
29519705 ATCAAATCAT
* * *
29519715 TTAAATAAGAATTTATAAATAATTTAATGAC
1 TTAAATAAAAATTT-CAAATAATTTAATGAA
29519746 TTAAATAAAAATTTCAAATAATTTAAT-AA
1 TTAAATAAAAATTTCAAATAATTTAATGAA
29519775 TTAAAT
1 TTAAAT
29519781 TGTAATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 7 0.22
30 12 0.38
31 13 0.41
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (30 bp):
TTAAATAAAAATTTCAAATAATTTAATGAA
Found at i:29529495 original size:30 final size:30
Alignment explanation
Indices: 29529445--29529501 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
29529435 CTGGCAAATG
*
29529445 GCCATGTGGTAGCCCTTGTGG-ATCACACA
1 GCCATGTGCTAGCCCTTGTGGAATCACACA
29529474 GCCATGTGCCTAG-CCTGTGTGGAATCAC
1 GCCATGTG-CTAGCCCT-TGTGGAATCAC
29529502 CCAACCTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 11 0.46
30 8 0.33
31 5 0.21
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (30 bp):
GCCATGTGCTAGCCCTTGTGGAATCACACA
Found at i:29538293 original size:16 final size:16
Alignment explanation
Indices: 29538272--29538305 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
29538262 TCAATCCTGA
*
29538272 GTAAGTGATGAGCTAT
1 GTAAGTGATGAACTAT
29538288 GTAAGTGATGAACTAT
1 GTAAGTGATGAACTAT
29538304 GT
1 GT
29538306 GTGCATCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (16 bp):
GTAAGTGATGAACTAT
Found at i:29546389 original size:21 final size:20
Alignment explanation
Indices: 29546359--29546445 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
29546349 AATAAATACC
*
29546359 AAAAATTTATTTTAAAAATTA
1 AAAAAATTATTTT-AAAATTA
29546380 AAAAAATTATTTTAAAATTA
1 AAAAAATTATTTTAAAATTA
**** *
29546400 AAAAAATTAAAAAAAATATTT
1 AAAAAATTATTTTAAA-ATTA
*
29546421 TAAAAA-TATTTTAAAATTA
1 AAAAAATTATTTTAAAATTA
29546440 AAAAAA
1 AAAAAA
29546446 ATTTAAAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
19 8 0.15
20 24 0.46
21 20 0.38
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATTATTTTAAAATTA
Found at i:29546416 original size:10 final size:9
Alignment explanation
Indices: 29546372--29546414 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
29546362 AATTTATTTT
29546372 AAAAATTAA
1 AAAAATTAA
*
29546381 AAAAATTATTT
1 AAAAATTA--A
*
29546392 TAAAATTAA
1 AAAAATTAA
29546401 AAAAATTAA
1 AAAAATTAA
29546410 AAAAA
1 AAAAA
29546415 ATATTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 21 0.75
11 7 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATTAA
Found at i:29546425 original size:11 final size:11
Alignment explanation
Indices: 29546411--29546478 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
29546401 AAAAATTAAA
29546411 AAAAATATTTT
1 AAAAATATTTT
29546422 AAAAATATTTT
1 AAAAATATTTT
*
29546433 --AAA-A-TTA
1 AAAAATATTTT
* *
29546440 AAAAAAATTTAA
1 AAAAATATTT-T
29546452 AAAAAGTATTTT
1 AAAAA-TATTTT
*
29546464 AAAAGTATTTT
1 AAAAATATTTT
29546475 AAAA
1 AAAA
29546479 TTAAAAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.13
10 1 0.02
11 23 0.49
12 10 0.21
13 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:29546442 original size:17 final size:17
Alignment explanation
Indices: 29546420--29546453 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29546410 AAAAAATATT
* *
29546420 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
29546437 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
29546454 AAAGTATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:29546442 original size:29 final size:30
Alignment explanation
Indices: 29546366--29546467 Score: 102
Period size: 30 Copynumber: 3.3 Consensus size: 30
29546356 ACCAAAAATT
29546366 TATTTTAAAAATTAAAAAAATTATTTT-AAAA
1 TATTTT-AAAATTAAAAAAA-TATTTTAAAAA
***
29546397 T-TAAAAAAATTAAAAAAAATATTTTAAAAA
1 TATTTTAAAATT-AAAAAAATATTTTAAAAA
*
29546427 TATTTTAAAATTAAAAAAA-ATTTAAAAAAA
1 TATTTTAAAATTAAAAAAATATTT-TAAAAA
29546457 GTATTTTAAAA
1 -TATTTTAAAA
29546468 GTATTTTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
29 16 0.27
30 25 0.42
31 18 0.31
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (30 bp):
TATTTTAAAATTAAAAAAATATTTTAAAAA
Found at i:29546452 original size:42 final size:41
Alignment explanation
Indices: 29546381--29546495 Score: 173
Period size: 42 Copynumber: 2.8 Consensus size: 41
29546371 TAAAAATTAA
29546381 AAAAATTATTTTAAAATT-AAAAAAATTAAAAAAAATATTTT
1 AAAAA-TATTTTAAAATTAAAAAAAATTAAAAAAAATATTTT
*
29546422 AAAAATATTTTAAAATTAAAAAAAATTTAAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAAA-TTAAAAAAAATATTTT
*
29546464 AAAAGTATTTTAAAATT-AAAAAAA-TAAAAAAA
1 AAAAATATTTTAAAATTAAAAAAAATTAAAAAAA
29546496 TAAAAATATT
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
39 8 0.11
40 12 0.17
41 19 0.27
42 31 0.44
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (41 bp):
AAAAATATTTTAAAATTAAAAAAAATTAAAAAAAATATTTT
Found at i:29558568 original size:29 final size:28
Alignment explanation
Indices: 29558526--29558635 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 28
29558516 TCCCAGACCA
* * * * *
29558526 TGTGTCTGATACGGTCCAACACATAGTTG
1 TGTGTCTCACACGGTCTAGCACAT-GTCG
*
29558555 TGTGTCTCACACGGTCTAGCATATGGTCG
1 TGTGTCTCACACGGTCTAGCACAT-GTCG
*
29558584 TGTGTCTCACATGGTCTAGCACATGATCG
1 TGTGTCTCACACGGTCTAGCACATG-TCG
* * *
29558613 TGTGTCACACACGGCCTGGCACA
1 TGTGTCTCACACGGTCTAGCACA
29558636 CATTTGTGTG
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 1 0.01
29 66 0.99
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.28
Consensus pattern (28 bp):
TGTGTCTCACACGGTCTAGCACATGTCG
Found at i:29562602 original size:51 final size:51
Alignment explanation
Indices: 29562526--29562736 Score: 334
Period size: 51 Copynumber: 4.2 Consensus size: 51
29562516 CGGATCACAT
*
29562526 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* ** * *
29562577 TTATCACTTGTCACTTATCACTGATCAGATATGTACAACTAAAGCTATCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
29562628 TTATCACTTGTCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
29562679 TTATCACTAGTCACTTATCACTGATCACATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
29562729 TTATCACT
1 TTATCACT
29562737 GATCACATAA
Statistics
Matches: 145, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 15 0.10
51 130 0.90
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:29562696 original size:102 final size:101
Alignment explanation
Indices: 29562526--29562835 Score: 342
Period size: 102 Copynumber: 3.2 Consensus size: 101
29562516 CGGATCACAT
* * *
29562526 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTAGTCAC
* * *
29562591 TTATCACTGATCAGATATGTACAACTAAAGCTATCAC
66 TTATCACTGATCACATAAGTACAACTAAA-CTACCAC
29562628 TTATCACTTGTCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTAGTCAC
1 TTATCACTTGTCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTAGTCAC
** *
29562693 TTATCACTGATCACATAAGTGTAGCTAAACTACCAC
66 TTATCACTGATCACATAAGTACAACTAAACTACCAC
* * *
29562729 TTATCAC-TG------AT--C--A-C--ATAAGTGTATCTAAAGCTACCATTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTAGTCAC
* * * ** *
29562780 TTATCACTGATTAGATAAATGTAGCTAAACTACCAC
66 TTATCACTGATCACATAAGTACAACTAAACTACCAC
*
29562816 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
29562836 AAAGTACTCA
Statistics
Matches: 184, Mismatches: 15, Indels: 24
0.83 0.07 0.11
Matches are distributed among these distances:
87 74 0.40
88 2 0.01
89 1 0.01
90 1 0.01
92 1 0.01
94 4 0.02
100 2 0.01
101 13 0.07
102 86 0.47
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.33
Consensus pattern (101 bp):
TTATCACTTGTCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTAGTCAC
TTATCACTGATCACATAAGTACAACTAAACTACCAC
Found at i:29562737 original size:36 final size:37
Alignment explanation
Indices: 29562690--29562773 Score: 143
Period size: 36 Copynumber: 2.3 Consensus size: 37
29562680 TATCACTAGT
29562690 CACTTATCACTGATCACATAAGTGTAGCTAAA-CTAC
1 CACTTATCACTGATCACATAAGTGTAGCTAAAGCTAC
*
29562726 CACTTATCACTGATCACATAAGTGTATCTAAAGCTAC
1 CACTTATCACTGATCACATAAGTGTAGCTAAAGCTAC
*
29562763 CATTTATCACT
1 CACTTATCACT
29562774 TGTCACTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 31 0.69
37 14 0.31
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.31
Consensus pattern (37 bp):
CACTTATCACTGATCACATAAGTGTAGCTAAAGCTAC
Found at i:29562757 original size:87 final size:87
Alignment explanation
Indices: 29562639--29562823 Score: 298
Period size: 87 Copynumber: 2.1 Consensus size: 87
29562629 TATCACTTGT
*
29562639 CACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTAGTCACTTATCACTGAT
1 CACTTATCACTAATCACATAAGTGTAGCTAAAGCTACCACTTATCACTAGTCACTTATCACTGAT
*
29562704 CACATAAGTGTAGCTAAACTAC
66 CACATAAATGTAGCTAAACTAC
* * * *
29562726 CACTTATCACTGATCACATAAGTGTATCTAAAGCTACCATTTATCACTTGTCACTTATCACTGAT
1 CACTTATCACTAATCACATAAGTGTAGCTAAAGCTACCACTTATCACTAGTCACTTATCACTGAT
* *
29562791 TAGATAAATGTAGCTAAACTAC
66 CACATAAATGTAGCTAAACTAC
29562813 CACTTATCACT
1 CACTTATCACT
29562824 TGTCACTGAT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (87 bp):
CACTTATCACTAATCACATAAGTGTAGCTAAAGCTACCACTTATCACTAGTCACTTATCACTGAT
CACATAAATGTAGCTAAACTAC
Found at i:29562828 original size:50 final size:51
Alignment explanation
Indices: 29562726--29562835 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 51
29562716 GCTAAACTAC
* * *
29562726 CACTTATCACTGATCACATAAGTGTATCTAAAGCTACCATTTATCACTTGT
1 CACTTATCACTGATCACATAAATGTAGCTAAAGCTACCACTTATCACTTGT
* *
29562777 CACTTATCACTGATTAGATAAATGTAGCTAAA-CTACCACTTATCACTTGT
1 CACTTATCACTGATCACATAAATGTAGCTAAAGCTACCACTTATCACTTGT
*
29562827 CACTGATCA
1 CACTTATCA
29562836 AAAGTACTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 25 0.47
51 28 0.53
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.34
Consensus pattern (51 bp):
CACTTATCACTGATCACATAAATGTAGCTAAAGCTACCACTTATCACTTGT
Found at i:29562931 original size:17 final size:17
Alignment explanation
Indices: 29562909--29562941 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29562899 TATTCTCAAT
29562909 TCATCAATA-AATATATC
1 TCATC-ATACAATATATC
29562926 TCATCATACAATATAT
1 TCATCATACAATATAT
29562942 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:29566522 original size:15 final size:16
Alignment explanation
Indices: 29566497--29566527 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
29566487 ATGAGTCTCT
29566497 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
29566513 TTTTTT-AAATATTTA
1 TTTTTTAAAATATTTA
29566528 CTACACCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:29585356 original size:29 final size:30
Alignment explanation
Indices: 29585310--29585373 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
29585300 GTTTAGCCTT
*
29585310 GGAAGAAAATTTTGAGATTTGGTCAAAAAG
1 GGAAGAAAATTTTAAGATTTGGTCAAAAAG
29585340 GGAA-AAAATTTTAAGATTTGGTCAAAAAG
1 GGAAGAAAATTTTAAGATTTGGTCAAAAAG
29585369 GGAAG
1 GGAAG
29585374 TTGAGCCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.45, C:0.03, G:0.27, T:0.25
Consensus pattern (30 bp):
GGAAGAAAATTTTAAGATTTGGTCAAAAAG
Found at i:29594112 original size:21 final size:21
Alignment explanation
Indices: 29594053--29594120 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
29594043 AATCAATAGT
* *
29594053 TCAAAAACTAACTACGAAAAA
1 TCAAATACTAACTAAGAAAAA
* * * * *
29594074 TC-TATAGTCAGTAGGAAAAA
1 TCAAATACTAACTAAGAAAAA
29594094 TCAAATACTAACTAAGAAAAA
1 TCAAATACTAACTAAGAAAAA
29594115 TCAAAT
1 TCAAAT
29594121 TGGTGTGAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.56, C:0.15, G:0.09, T:0.21
Consensus pattern (21 bp):
TCAAATACTAACTAAGAAAAA
Found at i:29596350 original size:18 final size:18
Alignment explanation
Indices: 29596316--29596350 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29596306 ATAAATAATT
* *
29596316 TTTTTAATATTTTAAAAC
1 TTTTAAATATTTAAAAAC
29596334 TTTTAAATATTTAAAAA
1 TTTTAAATATTTAAAAA
29596351 AATTTAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAATATTTAAAAAC
Found at i:29596356 original size:18 final size:19
Alignment explanation
Indices: 29596321--29596371 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
29596311 TAATTTTTTT
* **
29596321 AATATTTTAAAACTTTTA-
1 AATATTTAAAAAAATTTAG
29596339 AATATTTAAAAAAATTTAG
1 AATATTTAAAAAAATTTAG
* *
29596358 AAAATCTAAAAAAA
1 AATATTTAAAAAAA
29596372 AAGTTAGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
AATATTTAAAAAAATTTAG
Found at i:29597497 original size:20 final size:19
Alignment explanation
Indices: 29597460--29597498 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
29597450 TATTTACAGC
* *
29597460 TTTTAATATTTTTTTATTT
1 TTTTAATATTTATGTATTT
29597479 TTTTAAATATTTATGTATTT
1 TTTT-AATATTTATGTATTT
29597499 ATATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTAATATTTATGTATTT
Found at i:29598140 original size:16 final size:16
Alignment explanation
Indices: 29598119--29598151 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29598109 TTATATATAT
29598119 ATTTTTA-AAGATTTTA
1 ATTTTTATAA-ATTTTA
29598135 ATTTTTATAAATTTTA
1 ATTTTTATAAATTTTA
29598151 A
1 A
29598152 ATCATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
ATTTTTATAAATTTTA
Found at i:29600040 original size:5 final size:5
Alignment explanation
Indices: 29600030--29600060 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
29600020 TTTGCATTGT
*
29600030 TTTTA TTTTA TTTTA TTTTA TTTTT TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
29600061 AACATTTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:29609833 original size:21 final size:21
Alignment explanation
Indices: 29609809--29609853 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
29609799 TCTTCGGATC
*
29609809 TTTAATAGGAGTATAATACA-A
1 TTTAATA-GAATATAATACATA
*
29609830 TTTATTAGAATATAATACATA
1 TTTAATAGAATATAATACATA
29609851 TTT
1 TTT
29609854 TAAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (21 bp):
TTTAATAGAATATAATACATA
Found at i:29610318 original size:32 final size:28
Alignment explanation
Indices: 29610299--29610369 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
29610289 ATTAATTTAT
29610299 AATTTATTATCTAAAATATTAAAATTGA
1 AATTTATTATCTAAAATATTAAAATTGA
* * *
29610327 AATTTATTATCTAAATTA-TACAATTTA
1 AATTTATTATCTAAAATATTAAAATTGA
*
29610354 AACATTATTATCTAAA
1 AA-TTTATTATCTAAA
29610370 CATTAATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 9 0.24
28 29 0.76
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (28 bp):
AATTTATTATCTAAAATATTAAAATTGA
Found at i:29612050 original size:16 final size:16
Alignment explanation
Indices: 29612029--29612062 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
29612019 TTATAAGAAA
29612029 TCAAAAAAAAATAGTC
1 TCAAAAAAAAATAGTC
29612045 TC--AAAAAAATAGTC
1 TCAAAAAAAAATAGTC
29612059 TCAA
1 TCAA
29612063 TCGGACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 4
0.80 0.00 0.20
Matches are distributed among these distances:
14 14 0.88
16 2 0.12
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.21
Consensus pattern (16 bp):
TCAAAAAAAAATAGTC
Found at i:29612052 original size:14 final size:14
Alignment explanation
Indices: 29612033--29612062 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
29612023 AAGAAATCAA
29612033 AAAAAAATAGTCTC
1 AAAAAAATAGTCTC
29612047 AAAAAAATAGTCTC
1 AAAAAAATAGTCTC
29612061 AA
1 AA
29612063 TCGGACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAAAATAGTCTC
Found at i:29613328 original size:21 final size:21
Alignment explanation
Indices: 29613302--29613342 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
29613292 ATAGTATCCC
29613302 CCATGTG-CAACATGATGAGCT
1 CCATGTGACAA-ATGATGAGCT
*
29613323 CCATGTGACAAATGGTGAGC
1 CCATGTGACAAATGATGAGC
29613343 CCCGTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
CCATGTGACAAATGATGAGCT
Found at i:29613575 original size:18 final size:18
Alignment explanation
Indices: 29613549--29613609 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
29613539 TGAGGTGGAT
*
29613549 GAGGGTATCCTCCATGAG
1 GAGGATATCCTCCATGAG
*
29613567 GAGGATATCCTGCA-G-G
1 GAGGATATCCTCCATGAG
*
29613583 TG-GG-TATCCGCCATGAG
1 -GAGGATATCCTCCATGAG
29613600 GAGGATATCC
1 GAGGATATCC
29613610 CGCTGGTGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 5 0.15
18 17 0.50
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.21
Consensus pattern (18 bp):
GAGGATATCCTCCATGAG
Found at i:29613597 original size:33 final size:33
Alignment explanation
Indices: 29613551--29613618 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
29613541 AGGTGGATGA
* *
29613551 GGGTATCCTCCATGAGGAGGATATCCTGCAGGT
1 GGGTATCCGCCATGAGGAGGATATCCCGCAGGT
*
29613584 GGGTATCCGCCATGAGGAGGATATCCCGCTGGT
1 GGGTATCCGCCATGAGGAGGATATCCCGCAGGT
29613617 GG
1 GG
29613619 AGGATATCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.19, C:0.22, G:0.37, T:0.22
Consensus pattern (33 bp):
GGGTATCCGCCATGAGGAGGATATCCCGCAGGT
Found at i:29613635 original size:18 final size:18
Alignment explanation
Indices: 29613599--29613636 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
29613589 TCCGCCATGA
* *
29613599 GGAGGATATCCCGCTGGT
1 GGAGGATATCCAGCCGGT
29613617 GGAGGATATCCAGCCGGT
1 GGAGGATATCCAGCCGGT
29613635 GG
1 GG
29613637 GTATCCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.42, T:0.18
Consensus pattern (18 bp):
GGAGGATATCCAGCCGGT
Found at i:29613656 original size:15 final size:15
Alignment explanation
Indices: 29613638--29613681 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
29613628 AGCCGGTGGG
*
29613638 TATCCTTGTGGGGGA
1 TATCCTTGTGGAGGA
*
29613653 TATCCTTGAGGAGGA
1 TATCCTTGTGGAGGA
29613668 TATCCTTGTGGAGG
1 TATCCTTGTGGAGG
29613682 GTAGGATCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.32
Consensus pattern (15 bp):
TATCCTTGTGGAGGA
Found at i:29623534 original size:51 final size:50
Alignment explanation
Indices: 29623475--29623571 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 50
29623465 CAGGAATCGA
29623475 TTTCAAATACTCTTACAAAGGACTAAACTTAGATTTATGAACCATAACAAT
1 TTTCAAATACTCTTACAAAGGACTAAACTTAGA-TTATGAACCATAACAAT
*
29623526 TTTCAAATACTCTTACAAAGGGCTAAACTTAGATTATGAACCATAA
1 TTTCAAATACTCTTACAAAGGACTAAACTTAGATTATGAACCATAA
29623572 AAATCCAATC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 13 0.29
51 32 0.71
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (50 bp):
TTTCAAATACTCTTACAAAGGACTAAACTTAGATTATGAACCATAACAAT
Found at i:29651056 original size:18 final size:18
Alignment explanation
Indices: 29651034--29651079 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
29651024 TTGATGATAT
29651034 CGATATTGATGA-TAGTGA
1 CGATATTGAT-ACTAGTGA
*
29651052 TGATATTGATACTAGTGA
1 CGATATTGATACTAGTGA
*
29651070 CGCTATTGAT
1 CGATATTGAT
29651080 CGTGACTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (18 bp):
CGATATTGATACTAGTGA
Found at i:29653031 original size:15 final size:15
Alignment explanation
Indices: 29653011--29653043 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
29653001 ATTAAAATAC
29653011 AAAACC-AAATTTTAT
1 AAAACCAAAATTTT-T
29653026 AAAACCAAAATTTTT
1 AAAACCAAAATTTTT
29653041 AAA
1 AAA
29653044 CACTTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAACCAAAATTTTT
Found at i:29663511 original size:16 final size:17
Alignment explanation
Indices: 29663471--29663512 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
29663461 ATTATCGAAT
29663471 ATTTATAAGGGAAAACTTGG
1 ATTT-TAAGGGAAAAC-T-G
29663491 ATTTTAAGGGAAAAC-G
1 ATTTTAAGGGAAAACTG
29663507 ATTTTA
1 ATTTTA
29663513 TCTTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
19 11 0.50
20 4 0.18
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (17 bp):
ATTTTAAGGGAAAACTG
Found at i:29664123 original size:45 final size:46
Alignment explanation
Indices: 29664073--29664168 Score: 158
Period size: 45 Copynumber: 2.1 Consensus size: 46
29664063 TCATTGACCA
*
29664073 AGTATAAATAATTAATAATAAATAATATGTAAATTAGTTAA-ATTT
1 AGTATAAATAATTAATAATAAATAATATGTAAATTAATTAACATTT
*
29664118 AGTATAAATAATTAATAATAAATACTATGTAAATTAATTAACTATTT
1 AGTATAAATAATTAATAATAAATAATATGTAAATTAATTAAC-ATTT
29664165 AGTA
1 AGTA
29664169 GGTCAACATA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 39 0.83
47 8 0.17
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (46 bp):
AGTATAAATAATTAATAATAAATAATATGTAAATTAATTAACATTT
Found at i:29666834 original size:28 final size:28
Alignment explanation
Indices: 29666771--29666874 Score: 136
Period size: 28 Copynumber: 3.7 Consensus size: 28
29666761 TGACTTTCGA
*
29666771 CACTAAGTGTGTGAGTTTAATTTGTAAAG
1 CACTAAGTGTGCGAGTTTAA-TTGTAAAG
*
29666800 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
29666828 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
29666856 CACTAAGTGTGCGAATTTA
1 CACTAAGTGTGCGAGTTTA
29666875 TTAAATATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 47 0.71
29 19 0.29
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.34
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:29667644 original size:23 final size:23
Alignment explanation
Indices: 29667597--29667655 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
29667587 TTATGCTTAA
* *
29667597 ATGCTGCCC-AATTGATGTATTT
1 ATGCTGCCCAAATTGATATATAT
29667619 ATGCTGCCCAAATTG-TCATATAT
1 ATGCTGCCCAAATTGAT-ATATAT
*
29667642 ATGCTGTCCAAATT
1 ATGCTGCCCAAATT
29667656 TTTGATGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.31
23 22 0.69
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (23 bp):
ATGCTGCCCAAATTGATATATAT
Found at i:29667672 original size:49 final size:48
Alignment explanation
Indices: 29667619--29667901 Score: 131
Period size: 48 Copynumber: 6.0 Consensus size: 48
29667609 TGATGTATTT
*
29667619 ATGCTGCCCAA-ATTGTCATATATATGCTGTCCAAATTTT-TGATGTAAAA
1 ATGCTGCCCAATATTGT-ATATACATGCTGT-CAAATTTTGTG-TGTAAAA
* * *
29667668 ATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTGTGTGT--AA
1 ATGCTGCCCAATATTGTATATACATGCTGTCAAATTTTGTGTGTAAAA
* * * * ** * * *
29667714 GTGTTGTCCAA-ATTGGTGTATGTATGCTGCCTAATTTT-TG-GTGAATTA
1 ATGCTGCCCAATATT-GTATATACATGCTGTCAAATTTTGTGTGT-AA-AA
** * *
29667762 ATGCTATCCAATTTTGTATATACATGCTGTTAAATTTTGTGTGT--AA
1 ATGCTGCCCAATATTGTATATACATGCTGTCAAATTTTGTGTGTAAAA
* * * * ** * * *
29667808 GTGTTGTCCAA-ATTGGTGTATGTATGCTGCCTAATTTT-TG-GTGAATTA
1 ATGCTGCCCAATATT-GTATATACATGCTGTCAAATTTTGTGTGT-AA-AA
** * *
29667856 ATGCTATCCAATTTTGTATATACATGCTGTTAAATTTTGTGTGTAA
1 ATGCTGCCCAATATTGTATATACATGCTGTCAAATTTTGTGTGTAA
29667902 GTGTTGTCCA
Statistics
Matches: 170, Mismatches: 46, Indels: 36
0.67 0.18 0.14
Matches are distributed among these distances:
44 4 0.02
45 8 0.05
46 54 0.32
48 62 0.36
49 34 0.20
50 8 0.05
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (48 bp):
ATGCTGCCCAATATTGTATATACATGCTGTCAAATTTTGTGTGTAAAA
Found at i:29667772 original size:94 final size:94
Alignment explanation
Indices: 29667641--29668167 Score: 831
Period size: 94 Copynumber: 5.6 Consensus size: 94
29667631 TTGTCATATA
* *
29667641 TATGCTGTCCAAATTTTTGATGTAA-AAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTT
1 TATGCTG-CCTAATTTTTGGTG-AATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTT
29667705 TGTGTGTAAGTGTTGTCCAAATTGGTGTATG
64 TGTGTGTAAGTGTTGTCCAAATTGGTGTATG
* *
29667736 TATGCTGCCTAATTTTTGGTGAATTAATGCTATCCAATTTTGTATATACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
29667801 TGTGTAAGTGTTGTCCAAATTGGTGTATG
66 TGTGTAAGTGTTGTCCAAATTGGTGTATG
* *
29667830 TATGCTGCCTAATTTTTGGTGAATTAATGCTATCCAATTTTGTATATACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
29667895 TGTGTAAGTGTTGTCCAAATTGGTGTATG
66 TGTGTAAGTGTTGTCCAAATTGGTGTATG
* * *
29667924 TATGCTGCCTAATTTTTGGTGAATCAATGTTGTCCAATTTTGTATACACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
* *
29667989 TGTATAAGTGCTGTCCAAATTGGTGTATG
66 TGTGTAAGTGTTGTCCAAATTGGTGTATG
* * *
29668018 TATGCTGCCTAATTTTTGGTGAATCAATGTTGTCCAATTTTGTATACACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
* * *
29668083 TGTATAAGTGCTGTCCAAATTGGTATATG
66 TGTGTAAGTGTTGTCCAAATTGGTGTATG
* * *
29668112 TATGCTGCCTAATTTTTGGTGAAAAAAAATGCTGTCCAATTTTATATATATATGCT
1 TATGCTGCCTAATTTTTGGTG--AATAAATGCTGTCCAATTTTGTATATACATGCT
29668168 ACTCAATTTT
Statistics
Matches: 412, Mismatches: 17, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
93 2 0.00
94 376 0.91
95 7 0.02
96 27 0.07
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (94 bp):
TATGCTGCCTAATTTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
TGTGTAAGTGTTGTCCAAATTGGTGTATG
Found at i:29668000 original size:23 final size:22
Alignment explanation
Indices: 29667667--29668096 Score: 103
Period size: 23 Copynumber: 18.4 Consensus size: 22
29667657 TTGATGTAAA
** *
29667667 AATGCTGTCCAATTTTGTATAT
1 AATGCTGTTAAATTTTGTGTAT
*
29667689 ACATGCTGTTAAATTTTGTGTGT
1 A-ATGCTGTTAAATTTTGTGTAT
* * *
29667712 AAGTGTTGTCCAAA-TTGGTGTAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
29667735 GTATGCTGCCTAATTTTTGGTGAATT
1 -AATGCTG-TTAAATTTT-GTGTA-T
* ** *
29667761 AATGCTATCCAATTTTGTATAT
1 AATGCTGTTAAATTTTGTGTAT
*
29667783 ACATGCTGTTAAATTTTGTGTGT
1 A-ATGCTGTTAAATTTTGTGTAT
* * *
29667806 AAGTGTTGTCCAAA-TTGGTGTAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
29667829 GTATGCTGCCTAATTTTTGGTGAATT
1 -AATGCTG-TTAAATTTT-GTGTA-T
* ** *
29667855 AATGCTATCCAATTTTGTATAT
1 AATGCTGTTAAATTTTGTGTAT
*
29667877 ACATGCTGTTAAATTTTGTGTGT
1 A-ATGCTGTTAAATTTTGTGTAT
* * *
29667900 AAGTGTTGTCCAAA-TTGGTGTAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
29667923 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
* ** * *
29667948 CAATGTTGTCCAATTTTGTATAC
1 -AATGCTGTTAAATTTTGTGTAT
29667971 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
* *
29667994 AAGTGCTGTCCAAA-TTGGTGTAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
29668017 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
* ** * *
29668042 CAATGTTGTCCAATTTTGTATAC
1 -AATGCTGTTAAATTTTGTGTAT
29668065 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
29668088 AAGTGCTGT
1 AA-TGCTGT
29668097 CCAAATTGGT
Statistics
Matches: 275, Mismatches: 101, Indels: 63
0.63 0.23 0.14
Matches are distributed among these distances:
22 12 0.04
23 179 0.65
24 44 0.16
25 38 0.14
26 2 0.01
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (22 bp):
AATGCTGTTAAATTTTGTGTAT
Done.