Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 13 of 250
Found at i:3679536 original size:44 final size:44
Alignment explanation
Indices: 3679400--3679712 Score: 333
Period size: 44 Copynumber: 7.1 Consensus size: 44
3679390 GATCCAAGAT
** * *
3679400 GATTTGGCATCTCTGTATTGTCAGAGAATAAATCAAAGA-AACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* * * * *
3679443 GATTTGACATTTCTGTATTAGACAGGGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCAAAGATAGCA
* * * * *
3679488 GATTTGGCGTCTCTGTATTGTTAGAGAGCTGATCGAAGATAGCC
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
3679532 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
**
3679576 GATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* * * * * *
3679620 AATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGA-AACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
** * * *
3679663 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATC-AA-AGATAGCA
3679710 GAT
1 GAT
3679713 CTGACCTTCA
Statistics
Matches: 221, Mismatches: 43, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
43 35 0.16
44 158 0.71
45 20 0.09
46 2 0.01
47 6 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
Found at i:3679796 original size:78 final size:78
Alignment explanation
Indices: 3679663--3679953 Score: 433
Period size: 78 Copynumber: 3.7 Consensus size: 78
3679653 CGAAGAAACA
* * *
3679663 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
3679728 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
3679741 AATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATTTGACCTTCATTAAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
3679806 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * **
3679819 GATTTGGCATCTCTGTATTAGACGGGGGGCAGATCAAAGACATAATAGAT-TGGA-CTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
3679882 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
3679896 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTT
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTT
3679954 TATGTGTTTA
Statistics
Matches: 190, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
77 70 0.37
78 120 0.63
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:3679951 original size:155 final size:156
Alignment explanation
Indices: 3679663--3679953 Score: 442
Period size: 155 Copynumber: 1.9 Consensus size: 156
3679653 CGAAGAAACA
* * *
3679663 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTAGACGGAGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAA
*
3679728 GCAGATCCAAGATAATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATTT
66 GCAGATCCAAGATAATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
3679793 GACCTTCATTAAAGCAGATCCAAGAT
131 GACCTTCATTAAAGCAGATCCAAGAT
** * * *
3679819 GATTTGGCATCTCTGTATTAGACGGGGGGCAGATCAAAGACATAATAGAT-TGGA-CTTCATTGA
1 GATTTGGCATCTCCATATTAGACGGAGAGCAGATCAAAGACATAACAGATCT-GACCTTCATTGA
* * * *
3679882 AGCAGATCCAAGATGATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
65 AGCAGATCCAAGATAATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATC
3679947 TGACCTT
130 TGACCTT
3679954 TATGTGTTTA
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
155 77 0.64
156 44 0.36
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (156 bp):
GATTTGGCATCTCCATATTAGACGGAGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGATAATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
GACCTTCATTAAAGCAGATCCAAGAT
Found at i:3680022 original size:45 final size:45
Alignment explanation
Indices: 3679973--3680080 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
3679963 ACATCGAAGT
* *
3679973 AGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * ** * *
3680018 AGATCGAATATAACAGATTTGGTGTCTCTGTATTAGATGGGGAGT
1 AGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
*
3680063 AGATCAAAGATAGCAGAT
1 AGATCAAAGATAACAGAT
3680081 ATCATCTTCC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (45 bp):
AGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
Found at i:3680298 original size:22 final size:23
Alignment explanation
Indices: 3680270--3680314 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3680260 GCCCGGGCCC
3680270 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
3680292 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
3680315 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:3683159 original size:19 final size:19
Alignment explanation
Indices: 3683135--3683175 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
3683125 AGGAATTAAA
3683135 CCATTTCTCATCATAATAG
1 CCATTTCTCATCATAATAG
3683154 CCATTTCTCATCATAATAG
1 CCATTTCTCATCATAATAG
3683173 CCA
1 CCA
3683176 CTTGGACCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (19 bp):
CCATTTCTCATCATAATAG
Found at i:3692682 original size:32 final size:32
Alignment explanation
Indices: 3692641--3692705 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
3692631 AATTCTTACC
3692641 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
3692673 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
3692705 A
1 A
3692706 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:3695814 original size:15 final size:15
Alignment explanation
Indices: 3695794--3695825 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3695784 TATTGTGTAG
3695794 ATGTATTTTTTTCAC
1 ATGTATTTTTTTCAC
3695809 ATGTATTTTTTTCAC
1 ATGTATTTTTTTCAC
3695824 AT
1 AT
3695826 TTGCACCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (15 bp):
ATGTATTTTTTTCAC
Found at i:3696789 original size:10 final size:9
Alignment explanation
Indices: 3696763--3696793 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
3696753 TTGTGTGTTC
3696763 TTTATTTTA
1 TTTATTTTA
3696772 TTTATTTTA
1 TTTATTTTA
3696781 TTATATTTTA
1 TT-TATTTTA
3696791 TTT
1 TTT
3696794 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:3708075 original size:17 final size:17
Alignment explanation
Indices: 3708053--3708107 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
3708043 TAAAATGATA
*
3708053 TATATATTATTTTTATT
1 TATATATTATTATTATT
*
3708070 TATATATTATCCATTATT
1 TATATATTAT-TATTATT
3708088 T-TATATCTATTATTATT
1 TATATAT-TATTATTATT
3708105 TAT
1 TAT
3708108 TTTTAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 22 0.69
18 10 0.31
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATATTATTATTATT
Found at i:3708076 original size:21 final size:21
Alignment explanation
Indices: 3708050--3708112 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
3708040 GTATAAAATG
*
3708050 ATATATATATTATTTTTATTT
1 ATATATATATTATTTTTATCT
3708071 ATATATTATCCATTATTTTATATCT
1 ATATA-TAT--ATTATTTT-TATCT
3708096 AT-TAT-TATTTATTTTTA
1 ATATATATA-TTATTTTTA
3708113 AATTATATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
20 3 0.08
21 12 0.33
22 4 0.11
23 1 0.03
24 10 0.28
25 6 0.17
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATATATATTATTTTTATCT
Found at i:3708087 original size:24 final size:24
Alignment explanation
Indices: 3708058--3708103 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3708048 TGATATATAT
*
3708058 ATTATTTT-TATTTATATATTATCC
1 ATTATTTTATATCTAT-TATTATCC
3708082 ATTATTTTATATCTATTATTAT
1 ATTATTTTATATCTATTATTAT
3708104 TTATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTATTTTATATCTATTATTATCC
Found at i:3708143 original size:5 final size:5
Alignment explanation
Indices: 3708050--3708158 Score: 57
Period size: 5 Copynumber: 21.4 Consensus size: 5
3708040 GTATAAAATG
* *
3708050 ATATAT ATATT AT-TT TTATT -TA-T ATATT ATCCATT ATTTT ATATCT
1 ATAT-T ATATT ATATT ATATT ATATT ATATT AT--ATT ATATT ATAT-T
* * * *
3708096 ATTATT AT-TT ATTTTT AAATT ATATGT A-ATT AAATT AAATT ATATT
1 A-TATT ATATT A-TATT ATATT ATAT-T ATATT ATATT ATATT ATATT
*
3708142 ATATG ATATT ATATT AT
1 ATATT ATATT ATATT AT
3708159 TCTATATAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
3 1 0.01
4 12 0.14
5 49 0.59
6 13 0.16
7 8 0.10
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:3718406 original size:40 final size:40
Alignment explanation
Indices: 3718374--3718685 Score: 507
Period size: 40 Copynumber: 7.8 Consensus size: 40
3718364 CCAGCATGAT
* * * *
3718374 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
3718414 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
3718454 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
3718494 TGCTCCTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
3718534 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
3718574 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
3718614 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
3718654 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
3718686 CTCAATTCTC
Statistics
Matches: 252, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 252 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:3719963 original size:37 final size:37
Alignment explanation
Indices: 3719903--3719980 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
3719893 TATTACGAAG
* * *
3719903 TCTTACCCAGACATAATCTCCACACGAAGTTATCGGA
1 TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGA
* * *
3719940 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGA
3719977 TCTT
1 TCTT
3719981 TAGAGCTCGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (37 bp):
TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGA
Found at i:3720168 original size:47 final size:47
Alignment explanation
Indices: 3720099--3720398 Score: 501
Period size: 47 Copynumber: 6.3 Consensus size: 47
3720089 CCCTTCGGGA
* * * * *
3720099 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3720146 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3720193 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3720240 CTTATCACATATATATACACTTTCACATTCATCAAATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3720289 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3720338 CTTATCACATATATCCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3720385 CTTATCACATATAT
1 CTTATCACATATAT
3720399 TTTCACGTAT
Statistics
Matches: 243, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 149 0.61
49 94 0.39
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:3720296 original size:96 final size:94
Alignment explanation
Indices: 3720099--3720398 Score: 501
Period size: 96 Copynumber: 3.1 Consensus size: 94
3720089 CCCTTCGGGA
* * * * *
3720099 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
3720164 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
3720193 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
3720258 ACTTTCACATTCATCAAATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
3720289 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATCC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
3720354 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
3720385 CTTATCACATATAT
1 CTTATCACATATAT
3720399 TTTCACGTAT
Statistics
Matches: 194, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
94 56 0.29
96 91 0.47
98 47 0.24
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:3720347 original size:22 final size:22
Alignment explanation
Indices: 3720319--3720394 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
3720309 TTTCACATTC
3720319 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
3720341 ATCACATATATCCACTTTCACATT
1 ATCACAT-CGGCCA-TTAGGCCTT
3720365 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
3720388 ATCACAT
1 ATCACAT
3720395 ATATTTTCAC
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:3723752 original size:15 final size:15
Alignment explanation
Indices: 3723720--3723767 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
3723710 TTATTTATTT
3723720 TTAAATTATATGTA-A
1 TTAAATTATAT-TATA
*
3723735 TTAAATTTTATTATA
1 TTAAATTATATTATA
* *
3723750 TTATATGATATTATA
1 TTAAATTATATTATA
3723765 TTA
1 TTA
3723768 TTCTATATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 2 0.07
15 26 0.93
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (15 bp):
TTAAATTATATTATA
Found at i:3730090 original size:801 final size:798
Alignment explanation
Indices: 3728545--3730143 Score: 2856
Period size: 801 Copynumber: 2.0 Consensus size: 798
3728535 TTTTCCATAT
3728545 TGTTCAGCCTCAACGCTTGCACCCATCCCAGCTCCAGAAAGTTGATTTCCTGAAATAATAAATTG
1 TGTTCAGCCTCAACGCTTGCACCCATCCCAGCTCCAGAAAGTTGATTTCCTGAAATAATAAATTG
* *
3728610 ATTAAAATATAATTTGAAAAGTATAATGAAAAATAATCTCATGCAGAGCTTCGGGAAAACAAATT
66 ATTAAAATACAATTCGAAAAGTATAATGAAAAATAATCTCATGCAGAGCTTCGGGAAAACAAATT
* *
3728675 TAGTTACCAAATTCATAAGAATCAACTTTGTATCCCATGGAAATAGTGTACTTCATGAAGTCCCT
131 TAGTTACCAAATTCATAAGAATCAACTTTGTATCCCATGGAAATAGTATACTTCATGAAATCCCT
* *
3728740 TGCATTGTGCGATTGCCAATCGCCAACCCAAAGACCCTTTTCGATTTGTGACTGATTTCTTCCGA
196 TGCATTGTGCGATTGCCAATCGCCAACCCAAAGACCCTTTTCGATTTGTGACCGATTTCTTCCAA
* *
3728805 GAAGAGCATTCAACCCGAACGTAACCTTTACTCTTCAAAATGTCATATCAATAAAGTCAATGTCT
261 GAAGAGCATTCAACCCGAACGTAACCTTTACTATTCAAAATGTCATATCAATAAAGCCAATGTCT
**
3728870 TAACTAAGAAAAAAATGGAATGTTTAATTATTTTTTGGAATAAATAGAAATACCAACCCAGTTTG
326 TAACTAAGAAAAAAATGGAATGTTTAATTATTTTTCAGAATAAATAGAAATACCAACCCAGTTTG
* *
3728935 ATTGAAAAATTTATTGAGTTCGTCCCATCTTTCCATTGGAAGGCATCCCTCAGAGAATCCGAATA
391 ATTGAAAAATTTATTGAGTTCGTCCCATCTTTCCATGGGAAGGCATCCCTCAGAGAATCAGAATA
3729000 AACTATCTTCATTTTTCATGAAATTGGGGAAATTCTTAACTCCTCCTACTCCGTACACCACTTGA
456 AACTATCTTCATTTTTCATGAAATTGGGGAAATTCTTAACTCCTCCTACTCCGTACACCACTTGA
*
3729065 TCTTGCAACGACCCACCAACTTTGATACTTAAAGGATTGAATGCTGAAAGTAATTTCAAAAATTA
521 TCTTGCAACGACCCACCAACTTTGATACTTAAAGAATTGAATGCTGAAAGTAATTTCAAAAATTA
3729130 GTCCAAAATTGTTCTTACCAGCTTTGAACCAAGTTTAGTCCAACTCGTTCACACAACCACTCTTA
586 GTCCAAAATTGTTCTTACCAGCTTTGAACCAAGTTTAGTCCAACTCGTTCACACAACCACTCTTA
*
3729195 CGAGGTGGCTTTTAACAGTATCCGAATCGCAATATTTGCAATCTCTTTTGGACTACCATGGATGA
651 CGAGGTGGCTTTTAACAGTATCCAAATCGCAATATTTGCAATCTCTTTTGGACTACCATGGATGA
3729260 ATTAATGATAGAAACATGTAATATTATATACGTAGAACTCACCTTTTATTGCATTTATCAGACCC
716 ATTAATGATAGAAACATGTAATATTATATACGTAGAACTCACCTTTTATTGCATTTATCAGACCC
3729325 TTCTTTTTCAAATCCTAC
781 TTCTTTTTCAAATCCTAC
* *
3729343 TGTTTAGCCTCAACGCTTGCACCCATCCCAGCTCCAGAGAGTTGATTTCCTGAAATAATAAATTG
1 TGTTCAGCCTCAACGCTTGCACCCATCCCAGCTCCAGAAAGTTGATTTCCTGAAATAATAAATTG
*
3729408 ATTAAAATCCAATTCGAAAAGTATAATGAAAAATAATCTCATGCAGAGCTTCGGGAAAACAAATT
66 ATTAAAATACAATTCGAAAAGTATAATGAAAAATAATCTCATGCAGAGCTTCGGGAAAACAAATT
* *
3729473 TAGTTACCAAATTCATAAGAATCTACTTTGTATCCCCTGGAAATAGTATACTTCATGAAATCCCT
131 TAGTTACCAAATTCATAAGAATCAACTTTGTATCCCATGGAAATAGTATACTTCATGAAATCCCT
* * *
3729538 TGCATTTTGCGATTTCTAATCGCCAACCCAAAGACCCTTTTCGATTTGTGACCGATTTCTTCCAA
196 TGCATTGTGCGATTGCCAATCGCCAACCCAAAGACCCTTTTCGATTTGTGACCGATTTCTTCCAA
3729603 GAAGAGCATTCAACCCGAACGTAACCTTTACTATTCAAAATGTCATATCAATAAAGCCAATGTCT
261 GAAGAGCATTCAACCCGAACGTAACCTTTACTATTCAAAATGTCATATCAATAAAGCCAATGTCT
* *
3729668 TTACTAAGAGAAAAAAAATGGAATGTTTAATTATTTTTCAGAATAAATAGAACTACCAACCCAGT
326 TAACT-A-AG-AAAAAAATGGAATGTTTAATTATTTTTCAGAATAAATAGAAATACCAACCCAGT
*
3729733 TTGATTGAAAAATTTATTGAGTTCGTCCCATCTTTCCATGGGAAGGCATCCCTGAGAGAATCAGA
388 TTGATTGAAAAATTTATTGAGTTCGTCCCATCTTTCCATGGGAAGGCATCCCTCAGAGAATCAGA
* * *
3729798 ATAAACTATCTTCATTTTTCATGAAATTGGGGCAATTCTTAACTCCTTCTACTTCGTACACCACT
453 ATAAACTATCTTCATTTTTCATGAAATTGGGGAAATTCTTAACTCCTCCTACTCCGTACACCACT
*
3729863 TGATCTTGCAACGACCCACCAACTTTGATTCTTAAAGAATTGAATGCTGAAAGTAATTTCAAAAA
518 TGATCTTGCAACGACCCACCAACTTTGATACTTAAAGAATTGAATGCTGAAAGTAATTTCAAAAA
*
3729928 TTAGTCCGAAATTGTTCTTACCAGCTTTGAACCAAGTTTAGTCCAACTCGTTCACACAACCACTC
583 TTAGTCCAAAATTGTTCTTACCAGCTTTGAACCAAGTTTAGTCCAACTCGTTCACACAACCACTC
*
3729993 TTACGAGGTGGCTTTTAACAGTATCCAAATTGCAATATTTGCAATCTCTTTTGGACTACCATGGA
648 TTACGAGGTGGCTTTTAACAGTATCCAAATCGCAATATTTGCAATCTCTTTTGGACTACCATGGA
* * *
3730058 TGAATTAATGATAGAGACATGTAATGTTATATACGTAGAACTCACCTTTTATTGCATTTATTAGA
713 TGAATTAATGATAGAAACATGTAATATTATATACGTAGAACTCACCTTTTATTGCATTTATCAGA
*
3730123 CCCTTTTTTTTCAAATCCTAC
778 CCCTTCTTTTTCAAATCCTAC
3730144 AAAAAACATA
Statistics
Matches: 763, Mismatches: 35, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
798 313 0.41
799 1 0.00
800 2 0.00
801 447 0.59
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (798 bp):
TGTTCAGCCTCAACGCTTGCACCCATCCCAGCTCCAGAAAGTTGATTTCCTGAAATAATAAATTG
ATTAAAATACAATTCGAAAAGTATAATGAAAAATAATCTCATGCAGAGCTTCGGGAAAACAAATT
TAGTTACCAAATTCATAAGAATCAACTTTGTATCCCATGGAAATAGTATACTTCATGAAATCCCT
TGCATTGTGCGATTGCCAATCGCCAACCCAAAGACCCTTTTCGATTTGTGACCGATTTCTTCCAA
GAAGAGCATTCAACCCGAACGTAACCTTTACTATTCAAAATGTCATATCAATAAAGCCAATGTCT
TAACTAAGAAAAAAATGGAATGTTTAATTATTTTTCAGAATAAATAGAAATACCAACCCAGTTTG
ATTGAAAAATTTATTGAGTTCGTCCCATCTTTCCATGGGAAGGCATCCCTCAGAGAATCAGAATA
AACTATCTTCATTTTTCATGAAATTGGGGAAATTCTTAACTCCTCCTACTCCGTACACCACTTGA
TCTTGCAACGACCCACCAACTTTGATACTTAAAGAATTGAATGCTGAAAGTAATTTCAAAAATTA
GTCCAAAATTGTTCTTACCAGCTTTGAACCAAGTTTAGTCCAACTCGTTCACACAACCACTCTTA
CGAGGTGGCTTTTAACAGTATCCAAATCGCAATATTTGCAATCTCTTTTGGACTACCATGGATGA
ATTAATGATAGAAACATGTAATATTATATACGTAGAACTCACCTTTTATTGCATTTATCAGACCC
TTCTTTTTCAAATCCTAC
Found at i:3740223 original size:5 final size:5
Alignment explanation
Indices: 3740215--3740242 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
3740205 TGGAAGACTC
3740215 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
3740243 GAGGATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:3760612 original size:43 final size:43
Alignment explanation
Indices: 3760413--3760589 Score: 273
Period size: 43 Copynumber: 4.1 Consensus size: 43
3760403 AAAAATTTGT
* ** *
3760413 GGCGTTTGTTGGAAAAAAAGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTG-TGGGAAAAGCGCCGCTAAACGTCAAGGCTTTTAGC
*
3760457 GGCGTTTGTGGGAAAAGCGCCGCTAAACGTAAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAGGCTTTTAGC
* *
3760500 GGCGTTTGTGGGAAAAGCGCCGCTAGACGTTAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAGGCTTTTAGC
*
3760543 GGCGTTTGTGGGAAAAGCGCAGCTAAACGTCAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAGGCTTTTAGC
3760586 GGCG
1 GGCG
3760590 CTTTTTTTAC
Statistics
Matches: 123, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
43 115 0.93
44 8 0.07
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAGGCTTTTAGC
Found at i:3761034 original size:21 final size:21
Alignment explanation
Indices: 3760984--3761034 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
3760974 CCATCGCTCG
*
3760984 TGCCTCTGCCTCTCTCGCCGC
1 TGCCTCTGCCTCCCTCGCCGC
* * *
3761005 AG-CTGCTGCCTCCCTCTCTGC
1 TGCCT-CTGCCTCCCTCGCCGC
3761026 TGCCTCTGC
1 TGCCTCTGC
3761035 TCTAGGTTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
20 2 0.09
21 19 0.83
22 2 0.09
ACGTcount: A:0.02, C:0.49, G:0.20, T:0.29
Consensus pattern (21 bp):
TGCCTCTGCCTCCCTCGCCGC
Found at i:3767876 original size:9 final size:9
Alignment explanation
Indices: 3767862--3768078 Score: 134
Period size: 9 Copynumber: 23.6 Consensus size: 9
3767852 TATTTAAGTA
3767862 TTATGTAAG
1 TTATGTAAG
*
3767871 TTATGTAAT
1 TTATGTAAG
*
3767880 TTATGATATG
1 TTATG-TAAG
* * *
3767890 ATATAT-AT
1 TTATGTAAG
*
3767898 TTATGTAAA
1 TTATGTAAG
* *
3767907 TTATAT-AT
1 TTATGTAAG
*
3767915 TTATCTAAG
1 TTATGTAAG
*
3767924 TTATATAAG
1 TTATGTAAG
3767933 TTATGTAAG
1 TTATGTAAG
*
3767942 TTATGTAAA
1 TTATGTAAG
*
3767951 TTATGATATAAAA
1 TTATG---T-AAG
*
3767964 TATATTTAAG
1 T-TATGTAAG
3767974 TATTATGTAAG
1 --TTATGTAAG
3767985 TTATGTAAG
1 TTATGTAAG
* *
3767994 TTATAT-AT
1 TTATGTAAG
*
3768002 TTATCTAAG
1 TTATGTAAG
*
3768011 TTATATAAG
1 TTATGTAAG
*
3768020 TTATGTATG
1 TTATGTAAG
*
3768029 TTATATAAG
1 TTATGTAAG
3768038 TTATGTAAG
1 TTATGTAAG
* *
3768047 TTATATATG
1 TTATGTAAG
*
3768056 TTATATAAG
1 TTATGTAAG
*
3768065 TTATGTAAA
1 TTATGTAAG
3768074 TTATG
1 TTATG
3768079 ATATCAAATA
Statistics
Matches: 162, Mismatches: 35, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
8 16 0.10
9 122 0.75
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:3767941 original size:18 final size:18
Alignment explanation
Indices: 3767862--3768078 Score: 162
Period size: 18 Copynumber: 12.3 Consensus size: 18
3767852 TATTTAAGTA
* *
3767862 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
3767880 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
3767898 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
3767915 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
3767933 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
*
3767951 TTATG--A--TATA-AAA
1 TTATGTAAGTTATATAAG
* *
3767964 TATATTTAAGTATTATGTAAG
1 T-TATGTAAG--TTATATAAG
*
3767985 TTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAG
*
3768002 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
3768020 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
3768038 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
3768056 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
3768074 TTATG
1 TTATG
3768079 ATATCAAATA
Statistics
Matches: 158, Mismatches: 30, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
13 4 0.03
14 6 0.04
16 2 0.01
17 37 0.23
18 89 0.56
19 7 0.04
20 10 0.06
21 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:3767972 original size:114 final size:120
Alignment explanation
Indices: 3767838--3768109 Score: 351
Period size: 123 Copynumber: 2.3 Consensus size: 120
3767828 ACTAGTTATG
* *
3767838 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAA-TT-TATGA-TA-T-GATATAT-A
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATAT-ATTACTAGATATATAA
* * *
3767897 TTTATGTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
65 GTTATGTAAATTATATAAGTTATCTAAGTTATATAAGTTATATAAGTTATGTAAAT
*
3767952 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATA-TTA-CT-AGATATAT
** * *
3768017 AAGTTATGTATGTTATATAAGTTATGTAAGTTATATATGTTATATAAGTTATGTAAAT
63 AAGTTATGTAAATTATATAAGTTATCTAAGTTATATAAGTTATATAAGTTATGTAAAT
* *
3768075 TATGATATCAAATATATTTATGTATTATGTAAGTT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTT
3768110 TTTTATTTCA
Statistics
Matches: 136, Mismatches: 12, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
114 39 0.29
115 3 0.02
116 3 0.02
117 2 0.01
119 1 0.01
121 6 0.04
122 14 0.10
123 68 0.50
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (120 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTACTAGATATATAAG
TTATGTAAATTATATAAGTTATCTAAGTTATATAAGTTATATAAGTTATGTAAAT
Found at i:3768203 original size:15 final size:15
Alignment explanation
Indices: 3768183--3768238 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
3768173 AAGTAGCGGG
3768183 ATTAAATAATATTTA
1 ATTAAATAATATTTA
3768198 ATTAAATAATATTT-
1 ATTAAATAATATTTA
3768212 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
3768227 ATTAAATAATAT
1 ATTAAATAATAT
3768239 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:3768442 original size:24 final size:24
Alignment explanation
Indices: 3768414--3768481 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
3768404 ACTTAAATGG
3768414 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
3768438 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
3768462 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
3768482 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:3774010 original size:13 final size:15
Alignment explanation
Indices: 3773972--3774006 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3773962 AAATAATAAT
*
3773972 TTATATATATTTATC
1 TTATATACATTTATC
3773987 TTATATACATTTATC
1 TTATATACATTTATC
3774002 TTATA
1 TTATA
3774007 CATTAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:3774823 original size:41 final size:41
Alignment explanation
Indices: 3774778--3775049 Score: 364
Period size: 41 Copynumber: 6.6 Consensus size: 41
3774768 TTACTTTTTT
* *
3774778 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* * * *
3774819 GCGGCATTTTTCCAAAAGCGCCGCTAAAACATCGGCATATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* * *
3774860 GCGGCATTTTTACAAAAGCGCCGCTAAAACCTCTACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* * * * *
3774901 GCAGCGTTTCTCCAGAAGCCCCACTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* * *
3774942 GCGGCGATTTTGCAAAAGCGCCGCTAAAACCTCTACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* *
3774983 GCAGCGTTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
*
3775024 GCGGCGATTTTCCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
3775050 TTGTTCAGTT
Statistics
Matches: 200, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 200 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.22
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
Found at i:3775080 original size:41 final size:41
Alignment explanation
Indices: 3775035--3775133 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
3775025 CGGCGATTTT
*
3775035 CCAAAAGCGCCGCTATTG-TTCAGTTTTTACCAGCGTTTAGG
1 CCAAAAACGCCGCTATTGCTT-AGTTTTTACCAGCGTTTAGG
* * * * *
3775076 CCAAAAATGCCGCTATTGCTTAGTTTTTAGCGGCGTTTTGA
1 CCAAAAACGCCGCTATTGCTTAGTTTTTACCAGCGTTTAGG
* *
3775117 TCAAAAACACCGCTATT
1 CCAAAAACGCCGCTATT
3775134 ACTCTGTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
41 46 0.96
42 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (41 bp):
CCAAAAACGCCGCTATTGCTTAGTTTTTACCAGCGTTTAGG
Found at i:3812991 original size:24 final size:24
Alignment explanation
Indices: 3812940--3813133 Score: 291
Period size: 24 Copynumber: 8.0 Consensus size: 24
3812930 GTTTTATCAT
*
3812940 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
3812965 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
3812989 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
3813013 ATAACTGGGGCATAAGCCATTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
3813037 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
3813062 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
3813086 ATAACTGGGGCAAAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
3813111 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
3813134 GCACTTCCTC
Statistics
Matches: 155, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
24 96 0.62
25 59 0.38
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:3813085 original size:49 final size:49
Alignment explanation
Indices: 3812960--3813133 Score: 296
Period size: 49 Copynumber: 3.6 Consensus size: 49
3812950 GCCTAGCCTC
* *
3812960 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
* *
3813008 TTTTGATAACTGGGGCATAAGCCATTTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
*
3813057 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
3813106 TTTTAATAACTGGGGCATAAGCCCTTTT
1 TTTTAATAACTGGGGCATAAGCCCTTTT
3813134 GCACTTCCTC
Statistics
Matches: 118, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
48 44 0.37
49 74 0.63
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (49 bp):
TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
Found at i:3813208 original size:20 final size:20
Alignment explanation
Indices: 3813183--3813249 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
3813173 TTATGAAGAC
3813183 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
3813203 ATCATGTGCACATCATACAT
1 ATCATGTGCATATCATACAT
*
3813223 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
3813243 ACCATGT
1 ATCATGT
3813250 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:3824120 original size:46 final size:50
Alignment explanation
Indices: 3824053--3824274 Score: 166
Period size: 46 Copynumber: 4.7 Consensus size: 50
3824043 TTTGTGTGCT
3824053 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAAATGT-A-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAATGTGAGAGCC
* * ** *
3824099 AGTGTAAGA-CATGTCTAGGACAT-GCATCAG-CTAAAAAATGT----GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAAATGTGAGAGCC
* **** *
3824143 AGTGTAAGACCATGTTTGGGACATGGCATCGGTAGGGATAA-GTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-AATGTGAGAGCC
* * * * *
3824193 AGTGTAAGACCATGTCTGGGACATCGCGTCGGCCTC--AATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAATGT-GAGAGCC
*
3824242 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
3824275 ATTACACCCT
Statistics
Matches: 137, Mismatches: 28, Indels: 19
0.74 0.15 0.10
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 43 0.31
47 4 0.03
48 1 0.01
49 34 0.25
50 30 0.22
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAATGTGAGAGCC
Found at i:3827905 original size:40 final size:40
Alignment explanation
Indices: 3827857--3828059 Score: 200
Period size: 40 Copynumber: 5.1 Consensus size: 40
3827847 CGGGATTTAA
*
3827857 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACGAATGCCTTCGGGACATAGC
* *
3827897 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACATAGC
* * *
3827937 CCAGACATAATAACTCGCACGAATGCCTTCGGGA-ATTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACA-TAGC
* * * * *
3827977 CCGGGTACAATAACTCGCAC-AATTGCCTTCGAG-CTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGACATAGC
* * * *
3828016 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACGAATGCCTTCGGGACATAGC
3828056 CCGG
1 CCGG
3828060 TTATCATCCG
Statistics
Matches: 136, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 29 0.21
40 106 0.78
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGACATAGC
Found at i:3827977 original size:80 final size:79
Alignment explanation
Indices: 3827869--3828059 Score: 226
Period size: 80 Copynumber: 2.4 Consensus size: 79
3827859 GGATATAGCT
* * * *
3827869 ACTCGCTCGAATGCCTTCGGGACA-TAGCCCGGATATAGTAACTCGCACCAA-TGCCTTCGGGAC
1 ACTCGCACGAATGCCTTCGGGA-ATTAGCCCGGATACAATAACTCGCA-CAATTGCCTTCGAG-C
3827932 TTAGCCCAGACA-TAATA
63 TTAGCCCAGA-ATTAATA
*
3827949 ACTCGCACGAATGCCTTCGGGAATTAGCCCGGGTACAATAACTCGCACAATTGCCTTCGAGCTTA
1 ACTCGCACGAATGCCTTCGGGAATTAGCCCGGATACAATAACTCGCACAATTGCCTTCGAGCTTA
* * *
3828014 GCCCGGAATTAGTC
66 GCCCAGAATTAATA
* * *
3828028 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACGAATGCCTTCGGGAATTAGCCCGG
3828060 TTATCATCCG
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 46 0.47
80 50 0.52
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (79 bp):
ACTCGCACGAATGCCTTCGGGAATTAGCCCGGATACAATAACTCGCACAATTGCCTTCGAGCTTA
GCCCAGAATTAATA
Found at i:3828055 original size:79 final size:80
Alignment explanation
Indices: 3827878--3828059 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
3827868 TACTCGCTCG
* * * *
3827878 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCAGAC
1 AATGCCTTCGGGACTTAGCCCGGATACAATAACTCGCACCAATGCCTTCGAGACTTAGCCCAGAC
* *
3827943 ATAATAACTCGCACG
66 ATAATAACTAGCACA
* * *
3827958 AATGCCTTCGGGAATTAGCCCGGGTACAATAACTCGCA-CAATTGCCTTCGAG-CTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATACAATAACTCGCACCAA-TGCCTTCGAGACTTAGCCCAGA
* *
3828021 -ATTAGTCACTAGCACA
65 CA-TAATAACTAGCACA
3828037 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
3828060 TTATCATCCG
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 45 0.51
80 42 0.48
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATACAATAACTCGCACCAATGCCTTCGAGACTTAGCCCAGAC
ATAATAACTAGCACA
Found at i:3841080 original size:56 final size:56
Alignment explanation
Indices: 3841018--3841129 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
3841008 AAAAAAATAC
3841018 AATCTAACTCTTAGTACAAAGGTCTTCATGATATTTTTACTACTTTTTTTATGTAT
1 AATCTAACTCTTAGTACAAAGGTCTTCATGATATTTTTACTACTTTTTTTATGTAT
*
3841074 AATCTAACTCTTAGTACAAAGGTCTTCATGATATTTTTACTATTTTTTTTATGTAT
1 AATCTAACTCTTAGTACAAAGGTCTTCATGATATTTTTACTACTTTTTTTATGTAT
3841130 TCAAAACGGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (56 bp):
AATCTAACTCTTAGTACAAAGGTCTTCATGATATTTTTACTACTTTTTTTATGTAT
Found at i:3844232 original size:28 final size:29
Alignment explanation
Indices: 3844201--3844256 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
3844191 TTAGTCATAA
*
3844201 TTTTTAAAAAAAATTAACCCTTAACTTAT
1 TTTTTAAAAAAAATTAACCCTCAACTTAT
* * *
3844230 TTTTTTAACAAATTTAACCCTCAACTT
1 TTTTTAAAAAAAATTAACCCTCAACTT
3844257 TTATATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (29 bp):
TTTTTAAAAAAAATTAACCCTCAACTTAT
Found at i:3844434 original size:22 final size:22
Alignment explanation
Indices: 3844388--3844436 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
3844378 ATATATATTT
*
3844388 TTTATTTTTATATATTTTAAAA
1 TTTATTCTTATATATTTTAAAA
*
3844410 TTTATTCTTGTAT-TTTTAAATA
1 TTTATTCTTATATATTTTAAA-A
3844432 TTTAT
1 TTTAT
3844437 GTATTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATTCTTATATATTTTAAAA
Found at i:3847492 original size:20 final size:17
Alignment explanation
Indices: 3847476--3847510 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3847466 ATAAAATATG
3847476 TATAATAAAATTAAAATA
1 TATAA-AAAATTAAAATA
*
3847494 TATAAAATATTAAAATA
1 TATAAAAAATTAAAATA
3847511 AAACTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAAAAAATTAAAATA
Found at i:3850886 original size:33 final size:33
Alignment explanation
Indices: 3850843--3850965 Score: 121
Period size: 33 Copynumber: 3.8 Consensus size: 33
3850833 GTGAATAACA
* *
3850843 CAGTATCAGTACAATCTGGGCCAAAGCCTTATT
1 CAGTAACAGTACAATCTGGGCCTAAGCCTTATT
* * * *
3850876 CAGTAACAGTACAGTCTGGGCTTTAGCC--CTT
1 CAGTAACAGTACAATCTGGGCCTAAGCCTTATT
*
3850907 -A--AACAGTAGCAATATGGGCCTAAGCCTTATT
1 CAGTAACAGTA-CAATCTGGGCCTAAGCCTTATT
* *
3850938 CAGTAACAGTACAGTCTGGGCCTTAGCC
1 CAGTAACAGTACAATCTGGGCCTAAGCC
3850966 CGTAAACAGT
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
28 7 0.10
29 13 0.19
30 1 0.01
31 4 0.06
32 1 0.01
33 37 0.53
34 7 0.10
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (33 bp):
CAGTAACAGTACAATCTGGGCCTAAGCCTTATT
Found at i:3850932 original size:62 final size:62
Alignment explanation
Indices: 3850849--3850994 Score: 240
Period size: 62 Copynumber: 2.4 Consensus size: 62
3850839 AACACAGTAT
* * * *
3850849 CAGTA-CAATCTGGGCCAAAGCCTTATTCAGTAACAGTACAGTCTGGGCTTTAGCCCTTAAA
1 CAGTAGCAATATGGGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCGTAAA
3850910 CAGTAGCAATATGGGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCGTAAA
1 CAGTAGCAATATGGGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCGTAAA
*
3850972 CAGTAGCAATATGGGCTTAAGCC
1 CAGTAGCAATATGGGCCTAAGCC
3850995 CAAATTCAGT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
61 5 0.06
62 74 0.94
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (62 bp):
CAGTAGCAATATGGGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCGTAAA
Found at i:3850934 original size:28 final size:28
Alignment explanation
Indices: 3850903--3850994 Score: 69
Period size: 33 Copynumber: 3.1 Consensus size: 28
3850893 GGGCTTTAGC
3850903 CCTTAAACAGTAGCAATATGGGCCTAAG
1 CCTTAAACAGTAGCAATATGGGCCTAAG
* * *
3850931 CCTTATTCAGTAACAGTA-CAGTCTGGGCCTTAG
1 CC---TT-A--AACAGTAGCAATATGGGCCTAAG
* *
3850964 CCCGTAAACAGTAGCAATATGGGCTTAAG
1 -CCTTAAACAGTAGCAATATGGGCCTAAG
3850993 CC
1 CC
3850995 CAAATTCAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
28 11 0.23
29 11 0.23
30 1 0.02
31 3 0.06
32 1 0.02
33 12 0.25
34 9 0.19
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (28 bp):
CCTTAAACAGTAGCAATATGGGCCTAAG
Found at i:3851320 original size:25 final size:25
Alignment explanation
Indices: 3851283--3851352 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
3851273 CTCTTTTAAT
*
3851283 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
3851308 AACTGGGGTAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
3851333 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
3851353 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:3852315 original size:27 final size:27
Alignment explanation
Indices: 3852285--3852391 Score: 83
Period size: 27 Copynumber: 3.9 Consensus size: 27
3852275 GTAAATCTAC
3852285 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
***
3852312 AAACCATTTGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
3852338 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
3852368 AAATCAGGGGTATTTTGGTAATTT
1 AAACCAAGGGTATTTCAGTAATTT
3852392 AACAAATTGA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
26 1 0.02
27 38 0.60
28 7 0.11
29 16 0.25
30 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:3852390 original size:56 final size:55
Alignment explanation
Indices: 3852270--3852451 Score: 165
Period size: 54 Copynumber: 3.3 Consensus size: 55
3852260 TACAAGGGTG
* * * * *
3852270 TTTTGGTAAATCT-ACAAACCAAGGGTATTTCAGTAATTTTGTAAACCATTTGTA
1 TTTTGGTAATTTTAACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTA
* * * * * *
3852324 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAATTTTAACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTA
** * ***
3852380 TTTTGGTAA-TTTAACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTAACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTA
3852434 TTTTGGTAATTTT-ACAAA
1 TTTTGGTAATTTTAACAAA
3852452 CTAGGGGTAT
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
54 50 0.49
55 16 0.16
56 36 0.35
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (55 bp):
TTTTGGTAATTTTAACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTA
Found at i:3852398 original size:27 final size:27
Alignment explanation
Indices: 3852368--3852504 Score: 127
Period size: 27 Copynumber: 5.1 Consensus size: 27
3852358 GTAATTTTGT
3852368 AAATCAGGGGTATTTTGGTAATTTAAC
1 AAATCAGGGGTATTTTGGTAATTTAAC
* * *
3852395 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTAAC
* * *
3852422 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTAAC
*
3852449 AAA-CTAGGGGTATTTTGGTAATTCTACC
1 AAATC-AGGGGTATTTTGGTAATT-TAAC
** * *
3852477 CTAT-AGGGGTATTTTAGTAATTTCAC
1 AAATCAGGGGTATTTTGGTAATTTAAC
3852503 AA
1 AA
3852505 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 18, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
26 4 0.05
27 79 0.91
28 4 0.05
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTAAC
Found at i:3852491 original size:54 final size:54
Alignment explanation
Indices: 3852347--3852471 Score: 153
Period size: 54 Copynumber: 2.3 Consensus size: 54
3852337 TAGAAAGTCA
* *** * *
3852347 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTAACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTAACAAATAG
* *
3852401 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTAACAAA-TAG
*
3852456 -GGGTATTTTGGTAATT
1 AGGGTATTTCGGTAATT
3852472 CTACCCTATA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 59 0.97
55 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTAACAAATAG
Found at i:3852640 original size:81 final size:81
Alignment explanation
Indices: 3852503--3852836 Score: 456
Period size: 81 Copynumber: 4.1 Consensus size: 81
3852493 GTAATTTCAC
* * * * *
3852503 AATCGAGGGTAAAACGATAATTC-GTAACTTGAGGGTAAAACGATAATTCCATAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTTCGTAAATCGAGGGTA
3852567 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
* * * *
3852583 AATCGAGGGTAAAATGATAATTTTGTAAATCGATGGTAAAACGATAATTTCGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTTCGTAAATCGAGGGTA
* *
3852648 AAATAGTAATTTTATA
66 AAACAGTAATTCTATA
** * * ** *
3852664 AATTAAGGGTAAAAGGGTAATTCTATAAATCGAGGGTAAAACGGCAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTTCGTAAATCGAGGGTA
3852729 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
*
3852745 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAA-TTCTGTAAATCGAGGGT
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTTC-GTAAATCGAGGGT
* *
3852809 AAAACGGTAATTCTGTA
65 AAAACAGTAATTCTATA
3852826 AATCGAGGGTA
1 AATCGAGGGTA
3852837 CTTTGGTAAT
Statistics
Matches: 223, Mismatches: 29, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
80 23 0.10
81 200 0.90
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (81 bp):
AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTTCGTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:3852847 original size:27 final size:27
Alignment explanation
Indices: 3852503--3852836 Score: 402
Period size: 27 Copynumber: 12.4 Consensus size: 27
3852493 GTAATTTCAC
* *
3852503 AATCGAGGGTAAAACGATAATTC-GTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
3852529 ACTTGAGGGTAAAACGATAATTCCATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
3852556 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
3852583 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
3852610 AATCGATGGTAAAACGATAATT-TCGTA
1 AATCGAGGGTAAAACGGTAATTCT-ATA
** *
3852637 AATCGAGGGTAAAATAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
3852664 AATTAAGGGTAAAAGGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
3852691 AATCGAGGGTAAAACGGCAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
3852718 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
3852745 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
3852772 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
3852799 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
3852826 AATCGAGGGTA
1 AATCGAGGGTA
3852837 CTTTGGTAAT
Statistics
Matches: 266, Mismatches: 39, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
26 22 0.08
27 243 0.91
28 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:3856025 original size:39 final size:38
Alignment explanation
Indices: 3855935--3856034 Score: 103
Period size: 39 Copynumber: 2.6 Consensus size: 38
3855925 ACACTGGCAT
* * *
3855935 GAAGCCTACTAGGCATCAAGCCCGATAAACACCGACAC
1 GAAGCCTACTAGGCTTAAAGCCTGATAAACACCGACAC
** *
3855973 GAAGCCTGTTAGGCTTAAAGCCTGATAAGTCACC-AGCAC
1 GAAGCCTACTAGGCTTAAAGCCTGATAA-ACACCGA-CAC
* *
3856012 GAGGCCTACTAGGCTTAAGGCCT
1 GAAGCCTACTAGGCTTAAAGCCT
3856035 AATACAATAC
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
38 24 0.48
39 26 0.52
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (38 bp):
GAAGCCTACTAGGCTTAAAGCCTGATAAACACCGACAC
Found at i:3861245 original size:37 final size:37
Alignment explanation
Indices: 3861195--3861268 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
3861185 GACGTTAGCT
3861195 ACGGAATAAAACAATTAAATCACATTAATATTACATA
1 ACGGAATAAAACAATTAAATCACATTAATATTACATA
3861232 ACGGAATAAAACAATTAAATCACATTAATATTACATA
1 ACGGAATAAAACAATTAAATCACATTAATATTACATA
3861269 TTTTAATTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (37 bp):
ACGGAATAAAACAATTAAATCACATTAATATTACATA
Found at i:3861308 original size:19 final size:18
Alignment explanation
Indices: 3861266--3861308 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
3861256 TTAATATTAC
* *
3861266 ATATTTTAATTTCACATT
1 ATATTTCAATTTCACACT
*
3861284 AAATTTCAATTTTCACACT
1 ATATTTCAA-TTTCACACT
3861303 ATATTT
1 ATATTT
3861309 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTCAATTTCACACT
Found at i:3861861 original size:11 final size:11
Alignment explanation
Indices: 3861845--3861869 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3861835 TAAAGTTAAC
3861845 ATATATATAAT
1 ATATATATAAT
3861856 ATATATATAAT
1 ATATATATAAT
3861867 ATA
1 ATA
3861870 CACATGCATA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATATAAT
Found at i:3865108 original size:42 final size:42
Alignment explanation
Indices: 3865008--3865138 Score: 158
Period size: 42 Copynumber: 3.1 Consensus size: 42
3864998 GGATTACCGA
*
3865008 GATATGAGATTTGTGTACGACCATGTCTGGGACATTGGCATC
1 GATATGAGATTTGTGTAAGACCATGTCTGGGACATTGGCATC
* ** * * *
3865050 AACCTAATATTTGTGTAAGACTATGTCTGGGACATTGGCATC
1 GATATGAGATTTGTGTAAGACCATGTCTGGGACATTGGCATC
*
3865092 GATATGAGATTCGTGTAAGACCATAG-CTGGG-CTATTGGCATC
1 GATATGAGATTTGTGTAAGACCAT-GTCTGGGAC-ATTGGCATC
3865134 GATAT
1 GATAT
3865139 ATGATAACAT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 71 0.97
43 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
GATATGAGATTTGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:3865165 original size:43 final size:42
Alignment explanation
Indices: 3865063--3865171 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
3865053 CTAATATTTG
* * * *
3865063 TGTAAGACTATGTCTGGGAC-ATTGGCATCGATATGAGATTCG
1 TGTAAGACCATATCTGGG-CTATTGGCATCGATATGAGATACA
*
3865105 TGTAAGACCATAGCTGGGCTATTGGCATCGATAT-ATGATAACA
1 TGTAAGACCATATCTGGGCTATTGGCATCGATATGA-GAT-ACA
*
3865148 TGTAAGACCATATCTGGGATATTG
1 TGTAAGACCATATCTGGGCTATTG
3865172 CATTGTACGA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.04
42 32 0.56
43 23 0.40
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGCTATTGGCATCGATATGAGATACA
Found at i:3867197 original size:69 final size:69
Alignment explanation
Indices: 3867089--3867288 Score: 215
Period size: 69 Copynumber: 2.9 Consensus size: 69
3867079 GTGTGCCTAG
* ** ** *
3867089 CACTAGTCGAACGAATCAACAAATTATTATGCCTGGTGCTAGTCGGATAATCGATGATAGTTGTG
1 CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTGCTAGTCGGATAACCGATGATAGTT-TG
3867154 CCCAA
65 CCCAA
* * *
3867159 TACTAGTCTAA-AAATTGACAAATTATTATGCCCAGTGCTAGTCGGATAACCGACGATAGCTTTG
1 CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTGCTAGTCGGATAACCGATGATAG-TTTG
3867223 CCCAA
65 CCCAA
* * * ** * **
3867228 CATTAGTCGAACAAATTG-TAAATTATTACGCCCAACGCTAATTAGATAACCGATGATAGTT
1 CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTGCTAGTCGGATAACCGATGATAGTT
3867289 ACTCAATAGA
Statistics
Matches: 108, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
68 2 0.02
69 89 0.82
70 17 0.16
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (69 bp):
CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTGCTAGTCGGATAACCGATGATAGTTTGC
CCAA
Found at i:3869126 original size:13 final size:13
Alignment explanation
Indices: 3869108--3869147 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 13
3869098 TAGATTTTCC
3869108 CTAAATATTATCA
1 CTAAATATTATCA
3869121 CTAAATA--ATC-
1 CTAAATATTATCA
3869131 CTAAATATTATCA
1 CTAAATATTATCA
3869144 -TAAA
1 CTAAA
3869148 ATAATTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 7 0.29
13 7 0.29
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:3869137 original size:23 final size:23
Alignment explanation
Indices: 3869107--3869152 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
3869097 CTAGATTTTC
3869107 CCTAAATATTATCACT-AAATAAT
1 CCTAAATATTATCA-TAAAATAAT
3869130 CCTAAATATTATCATAAAATAAT
1 CCTAAATATTATCATAAAATAAT
3869153 TCAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (23 bp):
CCTAAATATTATCATAAAATAAT
Found at i:3869159 original size:23 final size:23
Alignment explanation
Indices: 3869110--3869159 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
3869100 GATTTTCCCT
*
3869110 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
3869133 AAATATTATCA-TAAAATAATTCA
1 AAATATTATCACT-AAATAATCCA
3869156 AAAT
1 AAAT
3869160 TAAAAAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:3871997 original size:11 final size:11
Alignment explanation
Indices: 3871981--3872014 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
3871971 TTGTTATTTA
3871981 TATTTTTTTTT
1 TATTTTTTTTT
3871992 TA-TTTTTTTT
1 TATTTTTTTTT
3872002 TATTTTTATTTT
1 TATTTTT-TTTT
3872014 T
1 T
3872015 TTCAAACGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 6 0.29
12 5 0.24
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (11 bp):
TATTTTTTTTT
Found at i:3876782 original size:43 final size:44
Alignment explanation
Indices: 3876734--3876892 Score: 191
Period size: 43 Copynumber: 3.7 Consensus size: 44
3876724 GATTACCGAG
* *
3876734 ATGTGATTACATGAAAGACCATGTCTGGGACATTGAAATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
*
3876778 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
* * * * *
3876820 ATATGATTTCGTGTAATACCATGTCTGGGACATT-AGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGA-CATTGTAT
* *
3876863 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
3876893 TATGGCGTTG
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
43 96 0.99
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
Found at i:3888295 original size:22 final size:23
Alignment explanation
Indices: 3888238--3888319 Score: 87
Period size: 23 Copynumber: 3.5 Consensus size: 23
3888228 CAAGTTGATG
* *
3888238 AACAGTAAGCTCTATATTGACCTGA
1 AACAGTAAGCTC--TATCGAGCTGA
*
3888263 AACGGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTATCGAGCTGA
3888285 AACAGTAAGCTC-ATACGAGCTGA
1 AACAGTAAGCTCTAT-CGAGCTGA
*
3888308 AACGGTAAGCTC
1 AACAGTAAGCTC
3888320 CAAAGAGCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
21 2 0.04
22 18 0.36
23 19 0.38
25 11 0.22
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:3888319 original size:23 final size:23
Alignment explanation
Indices: 3888259--3888319 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
3888249 CTATATTGAC
3888259 CTGAAACGGTAAGCTCTATCGAG
1 CTGAAACGGTAAGCTCTATCGAG
*
3888282 CTG-AACAGTAAGCTC-ATACGAG
1 CTGAAACGGTAAGCTCTAT-CGAG
3888304 CTGAAACGGTAAGCTC
1 CTGAAACGGTAAGCTC
3888320 CAAAGAGCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 2 0.06
22 18 0.53
23 14 0.41
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.20
Consensus pattern (23 bp):
CTGAAACGGTAAGCTCTATCGAG
Found at i:3888327 original size:23 final size:23
Alignment explanation
Indices: 3888259--3888328 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
3888249 CTATATTGAC
* *
3888259 CTGAAACGGTAAGCTCTATCGAG
1 CTGAAACGGTAAGCTCCAACGAG
*
3888282 CTG-AACAGTAAGCT-CATACGAG
1 CTGAAACGGTAAGCTCCA-ACGAG
*
3888304 CTGAAACGGTAAGCTCCAAAGAG
1 CTGAAACGGTAAGCTCCAACGAG
3888327 CT
1 CT
3888329 AAAAATAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.03
22 17 0.44
23 19 0.49
24 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (23 bp):
CTGAAACGGTAAGCTCCAACGAG
Found at i:3888328 original size:45 final size:47
Alignment explanation
Indices: 3888236--3888328 Score: 127
Period size: 45 Copynumber: 2.0 Consensus size: 47
3888226 CCCAAGTTGA
* * **
3888236 TGAACAGTAAGCTCTATATTGACCTGAAACGGTAAGCTCTATCGAGC
1 TGAACAGTAAGCTCTATATCGACCTGAAACGGTAAGCTCCAAAGAGC
*
3888283 TGAACAGTAAGCTC-ATA-CGAGCTGAAACGGTAAGCTCCAAAGAGC
1 TGAACAGTAAGCTCTATATCGACCTGAAACGGTAAGCTCCAAAGAGC
3888328 T
1 T
3888329 AAAAATAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
45 24 0.59
46 3 0.07
47 14 0.34
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (47 bp):
TGAACAGTAAGCTCTATATCGACCTGAAACGGTAAGCTCCAAAGAGC
Found at i:3891143 original size:99 final size:99
Alignment explanation
Indices: 3890956--3891137 Score: 241
Period size: 99 Copynumber: 1.9 Consensus size: 99
3890946 AATTAGGTAC
* * * * *
3890956 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTACCGTCATCGAGGCCGACGCCATGTCCCA
1 CCGATGCCATGTGCCAAACATGGTCTTACACTGACTACCATCATCGAGGCCGACGCCATATCCCA
* *
3891021 TACATAGTCTTACACTAGCTCTCACATATCTGTG
66 GACATAGTCTTAAACTAGCTCTCACATATCTGTG
*
3891055 CCGATGCCATGTGCCAAACATGGTCTTACACTGAC-A-CATC-TCGTA-GCCGATG-CATATCCC
1 CCGATGCCATGTGCCAAACATGGTCTTACACTGACTACCATCATCG-AGGCCGACGCCATATCCC
3891115 AGACAT-GTCTTAAACTAGCTCTC
65 AGACATAGTCTTAAACTAGCTCTC
3891138 GTCTCAACAC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
94 16 0.22
95 12 0.16
96 9 0.12
97 4 0.05
98 1 0.01
99 32 0.43
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (99 bp):
CCGATGCCATGTGCCAAACATGGTCTTACACTGACTACCATCATCGAGGCCGACGCCATATCCCA
GACATAGTCTTAAACTAGCTCTCACATATCTGTG
Found at i:3891151 original size:46 final size:46
Alignment explanation
Indices: 3890956--3891229 Score: 156
Period size: 49 Copynumber: 5.8 Consensus size: 46
3890946 AATTAGGTAC
* *
3890956 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTAC-CGTCAT--CGAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-CTC-TCATAAC-A-G
* * * * *
3891005 CCGACGCCATGTCCCATACATAGTCTTACACTAGCTCTCACATATCTGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCTCATAAC--AG
* * * *
3891055 CCGATGCCATGTGCCAAACATGGTCTTACACT-GACACATCTCGT---AG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTC-TCTCATAACAG
* *
3891101 CCGATGCATATCCCAGACATGTCTTAAACTAGCTCTCGTC-TCAACA-
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCAT-AACAG
* *
3891147 CCGATGCCATGTCCCGGACATGGTCTTACACT-G-TCTCTCATAATATGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCTCATAACA--G
3891195 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC
3891230 ACACAAGTGA
Statistics
Matches: 180, Mismatches: 25, Indels: 41
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.02
44 13 0.07
45 17 0.09
46 28 0.16
47 28 0.16
48 21 0.12
49 33 0.18
50 32 0.18
51 5 0.03
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCATAACAG
Found at i:3891168 original size:92 final size:93
Alignment explanation
Indices: 3891055--3891229 Score: 237
Period size: 92 Copynumber: 1.9 Consensus size: 93
3891045 CATATCTGTG
* **
3891055 CCGATGCCATGTGCCAAACATGGTCTTACACTGACACATC-TCGTA-GCCGATGCATATCCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGACAC-TCATAATAGGCCGATGCATATCCCAGA
3891118 CATGTCTTAAACTAGCTCTCGTCTCAACA
65 CATGTCTTAAACTAGCTCTCGTCTCAACA
** * * *
3891147 CCGATGCCATGTCCCGGACATGGTCTTACACTGTCTCTCATAATATGGCCGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGACACTCATAATA-GGCCGATGCATATCCCAGA
*
3891212 CATGTCTTACACTAGCTC
65 CATGTCTTAAACTAGCTC
3891230 ACACAAGTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
91 2 0.03
92 35 0.49
94 34 0.48
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (93 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGACACTCATAATAGGCCGATGCATATCCCAGAC
ATGTCTTAAACTAGCTCTCGTCTCAACA
Found at i:3895985 original size:13 final size:13
Alignment explanation
Indices: 3895967--3895995 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3895957 GATATAAATG
3895967 AAATCAACTCATT
1 AAATCAACTCATT
3895980 AAATCAACTCATT
1 AAATCAACTCATT
3895993 AAA
1 AAA
3895996 CCTGAGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATCAACTCATT
Found at i:3896016 original size:4 final size:4
Alignment explanation
Indices: 3896007--3896033 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3895997 CTGAGAATCA
3896007 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
3896034 GATGAATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:3897018 original size:12 final size:12
Alignment explanation
Indices: 3897001--3897025 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3896991 ATGTAAGTGA
3897001 TCTTGATGATTT
1 TCTTGATGATTT
3897013 TCTTGATGATTT
1 TCTTGATGATTT
3897025 T
1 T
3897026 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:3897765 original size:46 final size:45
Alignment explanation
Indices: 3897707--3897879 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 45
3897697 TTTGGGTTGT
* *
3897707 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTATGA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATC-GCCATATGATGA
** * *
3897753 GAGCCAGTGTAAGACCATGTCCGGGAAATTGCATCGACAT-TGAGATGA
1 GAGCCAGTGTAAGA-CATGTTTGGGACA-TGCATCGCCATAT--GATGA
* * *
3897801 GTGCTAGCGTAAGACATGTTTGGGACATGCATCAGCC-TCGA-GATGTA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATC-GCCAT--ATGATG-A
*
3897848 -AGCCAGTGGAAGACATGTTTGGGACATGCATC
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATC
3897880 AGCTACGAGA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
46 53 0.52
47 27 0.27
48 21 0.21
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTTTGGGACATGCATCGCCATATGATGA
Found at i:3899682 original size:147 final size:147
Alignment explanation
Indices: 3899512--3899875 Score: 394
Period size: 147 Copynumber: 2.5 Consensus size: 147
3899502 AATAGCATAG
* * * **
3899512 AACTACAAGTGTTAATGGATCCCATCCATTTAAAGCTCTAAGTGGGTCAAAGAGACGATCACTGA
1 AACTACAAGGGTTGATGAATCCCATCTGTTTAAAGCTCTAAGTGGGTCAAAGAGACGATCACTGA
* ** * * *
3899577 GTGGGCTACCAAGTTATAATTGAGCTAGAAATAGTTTAGTGACTTAGTTGTCGGAACATGAAACT
66 GTGGACTACCAAGTTATAATTGAAATAGAAAGAGGTTAGTGACTTAGTTGTCAGAACATGAAACT
* * **
3899642 CCACACTAGTTGTTTGC
131 CCACAATAGTCGCCTGC
* * * *
3899659 AACTATC-AGGGTTGATGAATCCCATTTGTTTAAAGCTAC-AAGTAGGT-AAGTGAGATGATCAC
1 AACTA-CAAGGGTTGATGAATCCCATCTGTTTAAAGCT-CTAAGTGGGTCAA-AGAGACGATCAC
* * * * * *
3899721 TAAGTGGACTACCGAGTTATAGTTGAAATAGACAGAGGTTAGTGACTTAGTTGTTAGAACATGCA
63 TGAGTGGACTACCAAGTTATAATTGAAATAGAAAGAGGTTAGTGACTTAGTTGTCAGAACATGAA
*
3899786 ACTCCACAATAGTCGCCTGG
128 ACTCCACAATAGTCGCCTGC
* * * *
3899806 AACTACAAGTGTTGATGGATCTCATCTGTTTAAATCT-TCAAGTGGGTCAAAGAGACGATCACTG
1 AACTACAAGGGTTGATGAATCCCATCTGTTTAAAGCTCT-AAGTGGGTCAAAGAGACGATCACTG
3899870 AGTGGA
65 AGTGGA
3899876 TGATAACTCT
Statistics
Matches: 175, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
146 3 0.02
147 168 0.96
148 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (147 bp):
AACTACAAGGGTTGATGAATCCCATCTGTTTAAAGCTCTAAGTGGGTCAAAGAGACGATCACTGA
GTGGACTACCAAGTTATAATTGAAATAGAAAGAGGTTAGTGACTTAGTTGTCAGAACATGAAACT
CCACAATAGTCGCCTGC
Found at i:3909314 original size:12 final size:12
Alignment explanation
Indices: 3909297--3909326 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3909287 CTGTGTGTCG
*
3909297 CACACGGCCTAC
1 CACACGGCCAAC
3909309 CACACGGCCAAC
1 CACACGGCCAAC
3909321 CACACG
1 CACACG
3909327 ACCGTGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.50, G:0.17, T:0.03
Consensus pattern (12 bp):
CACACGGCCAAC
Found at i:3916567 original size:47 final size:48
Alignment explanation
Indices: 3916513--3916644 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 48
3916503 CAAAATCGAT
* *
3916513 AAGTACCTATACCATGATCCGTAGCCAAATCAAGGTAACTTATCTC-G
1 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTCATCTCTG
* * * * *
3916560 GAGTACCTATACCATGGCCCATAGCCAAATTAAGGTAACTCCTCTCTG
1 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTCATCTCTG
* *
3916608 AAATAACTATACCATGACCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTA
3916645 TCACTCGCAC
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 39 0.55
48 32 0.45
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (48 bp):
AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTCATCTCTG
Found at i:3919829 original size:21 final size:21
Alignment explanation
Indices: 3919804--3919843 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3919794 TATCCACATC
3919804 GAGTGGTTCACCCACAACGAT
1 GAGTGGTTCACCCACAACGAT
* *
3919825 GAGTGGTTTATCCACAACG
1 GAGTGGTTCACCCACAACG
3919844 TGGTGTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (21 bp):
GAGTGGTTCACCCACAACGAT
Found at i:3920641 original size:23 final size:23
Alignment explanation
Indices: 3920590--3920634 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
3920580 TGTTAACTCA
*
3920590 TAAG-TTT-TTCTGAAAATAAGT
1 TAAGTTTTCTTCTGAAAATAAAT
3920611 TAAGTTTTCTTCT-AAAATAAAT
1 TAAGTTTTCTTCTGAAAATAAAT
3920633 TA
1 TA
3920635 TTGTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 13 0.62
23 4 0.19
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (23 bp):
TAAGTTTTCTTCTGAAAATAAAT
Found at i:3921924 original size:30 final size:30
Alignment explanation
Indices: 3921842--3921929 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 30
3921832 TTTTTTTATT
* *
3921842 AAAATAATATAAAA-ATAAATTTAATTT-TC
1 AAAATAATATAAAAGATAAAATT-ATTTACC
* *
3921871 AAAATAATGT--AAGTTATAAATTATTTACC
1 AAAATAATATAAAAGATA-AAATTATTTACC
*
3921900 AAAATAATATAAAAGCTAAAATTATTTACC
1 AAAATAATATAAAAGATAAAATTATTTACC
3921930 GACATTCCTA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.04
28 6 0.12
29 23 0.48
30 12 0.25
31 5 0.10
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATAATATAAAAGATAAAATTATTTACC
Found at i:3940062 original size:21 final size:20
Alignment explanation
Indices: 3940038--3940108 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
3940028 GCATGTGCCC
*
3940038 CCTCCACACTGGCTTGTGGGG
1 CCTCCACAC-GGCTTGTGAGG
* *
3940059 CCTCCACACGGGCATGTAAGG
1 CCTCCACAC-GGCTTGTGAGG
* * *
3940080 CCTTCACACGGGTGTGTGTGG
1 CCTCCACACGGCT-TGTGAGG
3940101 CCTCCACA
1 CCTCCACA
3940109 TGGGCGTGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.15, C:0.34, G:0.30, T:0.21
Consensus pattern (20 bp):
CCTCCACACGGCTTGTGAGG
Found at i:3944433 original size:15 final size:16
Alignment explanation
Indices: 3944392--3944435 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
3944382 GTACACTACC
*
3944392 ATATATTTCAATTTTTTT
1 ATATATTT--ATTTTTTA
3944410 ATATATTTATTTTTTA
1 ATATATTTATTTTTTA
3944426 ATAT-TTTATT
1 ATATATTTATT
3944436 ATACTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 6 0.24
16 11 0.44
18 8 0.32
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
ATATATTTATTTTTTA
Found at i:3944703 original size:21 final size:21
Alignment explanation
Indices: 3944679--3944718 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3944669 AAAAATTCCA
3944679 ATATCTTTTA-AAGTTTTATAT
1 ATAT-TTTTACAAGTTTTATAT
*
3944700 ATATTTTTACAATTTTTAT
1 ATATTTTTACAAGTTTTAT
3944719 TTTTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
ATATTTTTACAAGTTTTATAT
Found at i:3944755 original size:9 final size:9
Alignment explanation
Indices: 3944743--3944793 Score: 52
Period size: 8 Copynumber: 5.7 Consensus size: 9
3944733 TTGTTTTTTC
3944743 ATTTTTATA
1 ATTTTTATA
*
3944752 A-TTTTACA
1 ATTTTTATA
3944760 ATTTTTAT-
1 ATTTTTATA
3944768 ATTTTTAATA
1 ATTTTT-ATA
3944778 ATTTCTTATA
1 ATTT-TTATA
*
3944788 GTTTTT
1 ATTTTT
3944794 TTAAAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
8 13 0.37
9 10 0.29
10 10 0.29
11 2 0.06
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:3944756 original size:17 final size:17
Alignment explanation
Indices: 3944743--3944793 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
3944733 TTGTTTTTTC
*
3944743 ATTTTTATAATTTTACA
1 ATTTTTATATTTTTACA
*
3944760 ATTTTTATATTTTTAATA
1 ATTTTTATATTTTT-ACA
3944778 ATTTCTTATAGTTTTT
1 ATTT-TTATA-TTTTT
3944794 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 13 0.45
18 6 0.21
19 5 0.17
20 5 0.17
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTTATATTTTTACA
Found at i:3947270 original size:51 final size:51
Alignment explanation
Indices: 3947214--3947323 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
3947204 ACCCTTAAAG
* * *
3947214 TTTACATATTCTGTCAATTTGGTTTTGTTTTAACAAATTCAGTCTT-CAACA
1 TTTACATATTCTATCAATTTGATTTTGATTTAACAAATTCAG-CTTGCAACA
* * *
3947265 TTTACATATTCTATCATTTTGATTTTGATTTAACAAATTTAGCTTGTAACA
1 TTTACATATTCTATCAATTTGATTTTGATTTAACAAATTCAGCTTGCAACA
3947316 TTTACATA
1 TTTACATA
3947324 GAATATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 3 0.06
51 49 0.94
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (51 bp):
TTTACATATTCTATCAATTTGATTTTGATTTAACAAATTCAGCTTGCAACA
Found at i:3948269 original size:20 final size:18
Alignment explanation
Indices: 3948240--3948278 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
3948230 GCATCCATTG
*
3948240 TAAAATAATATATTTATTTA
1 TAAAAAAATA-ATTT-TTTA
3948260 TAAAAAAATAATTTTTTA
1 TAAAAAAATAATTTTTTA
3948278 T
1 T
3948279 CATAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAAAAATAATTTTTTA
Found at i:3948283 original size:21 final size:23
Alignment explanation
Indices: 3948241--3948283 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
3948231 CATCCATTGT
*
3948241 AAAATAATATATTTATTTATAAA
1 AAAATAATATATTTATTCATAAA
*
3948264 AAAATAAT-TTTTTA-TCATAA
1 AAAATAATATATTTATTCATAA
3948284 TTTATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 5 0.28
23 8 0.44
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATAATATATTTATTCATAAA
Found at i:3949507 original size:29 final size:30
Alignment explanation
Indices: 3949474--3949534 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
3949464 TTTCACGTAC
3949474 ATAATTACA-TCAAATTAAAATTTATTTAT
1 ATAATTACACTCAAATTAAAATTTATTTAT
* *
3949503 ATAATTACACGTTAAATTAAAGTTTATTTAT
1 ATAATTACAC-TCAAATTAAAATTTATTTAT
3949534 A
1 A
3949535 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.32
31 19 0.68
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (30 bp):
ATAATTACACTCAAATTAAAATTTATTTAT
Found at i:3954974 original size:21 final size:22
Alignment explanation
Indices: 3954945--3954991 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
3954935 CAGAAGGAGT
*
3954945 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
3954967 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
3954988 GAGT
1 GAGT
3954992 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:3958882 original size:31 final size:27
Alignment explanation
Indices: 3958835--3958902 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
3958825 AAAGTTTTAC
* *
3958835 ATATATAATTATATTAATTTAAAATTT
1 ATATATAATTATATTAAATCAAAATTT
3958862 ATGTATATAATTATACATTAAATCAAAATTT
1 A--TATATAATTAT--ATTAAATCAAAATTT
3958893 ATATATAATT
1 ATATATAATT
3958903 TTAAGATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 1 0.03
29 20 0.57
31 14 0.40
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (27 bp):
ATATATAATTATATTAAATCAAAATTT
Found at i:3963366 original size:49 final size:49
Alignment explanation
Indices: 3963313--3963419 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 49
3963303 CCACCCGGTC
* * * * *
3963313 GTGTGAAATCGTGCAGACCT-TGTGGGTAGA-TAGTGTGTACCACATGATT
1 GTGTGAAATCGTACAG-CCTGTGCGGGTAGACT-GTGTGGACCACACGACT
*
3963362 GTGTGAAATCGTACAGGCTGTGCGGGTAGACTGTGTGGACCACACGACT
1 GTGTGAAATCGTACAGCCTGTGCGGGTAGACTGTGTGGACCACACGACT
3963411 GTGTGAAAT
1 GTGTGAAAT
3963420 AGTGTAGTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 2 0.04
49 47 0.94
50 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (49 bp):
GTGTGAAATCGTACAGCCTGTGCGGGTAGACTGTGTGGACCACACGACT
Found at i:3963455 original size:80 final size:80
Alignment explanation
Indices: 3963358--3963514 Score: 233
Period size: 80 Copynumber: 2.0 Consensus size: 80
3963348 TGTACCACAT
* * * *
3963358 GATTGTGTGAAATCGTACAGGCTGTGCGGGTAGACTGTGTGGACCACACGACTGTGTGAAATAGT
1 GATTGCGTGAAATCGTACAGACCGTGCGGGTAGACTGTGTGGACCACACAACTGTGTGAAATAGT
* *
3963423 GTAGTCTGTGTAGGA
66 GCAGACTGTGTAGGA
* * *
3963438 GATTGCGTGAAATCGTACAGACCGTGTGGGTAGACTGTGTGGACCACATAACTGTGTGAAATCGT
1 GATTGCGTGAAATCGTACAGACCGTGCGGGTAGACTGTGTGGACCACACAACTGTGTGAAATAGT
3963503 GCAGACTGTGTA
66 GCAGACTGTGTA
3963515 AAACACACAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (80 bp):
GATTGCGTGAAATCGTACAGACCGTGCGGGTAGACTGTGTGGACCACACAACTGTGTGAAATAGT
GCAGACTGTGTAGGA
Found at i:3965024 original size:22 final size:24
Alignment explanation
Indices: 3964980--3965027 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
3964970 CATGTTAGTT
*
3964980 TAATTTTATATTTTATAAATTTAA
1 TAATTTTATATTATATAAATTTAA
3965004 TAATTTTA-ATTATA-AAATTTAA
1 TAATTTTATATTATATAAATTTAA
3965026 TA
1 TA
3965028 TTATTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.43
23 5 0.22
24 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TAATTTTATATTATATAAATTTAA
Found at i:3967528 original size:22 final size:21
Alignment explanation
Indices: 3967496--3967542 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
3967486 AAAAGAAGCT
*
3967496 TTGTATCAAGACATGGAGACCA
1 TTGTATCAAGAAATGGAGA-CA
* *
3967518 TTGTATTAAGAAATGGTGACA
1 TTGTATCAAGAAATGGAGACA
3967539 TTGT
1 TTGT
3967543 CTCGAGACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (21 bp):
TTGTATCAAGAAATGGAGACA
Found at i:3971534 original size:19 final size:19
Alignment explanation
Indices: 3971510--3971547 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3971500 TTGAGATTGC
*
3971510 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
3971529 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
3971548 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:3983410 original size:23 final size:23
Alignment explanation
Indices: 3983384--3983428 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3983374 TGGGTATGTG
*
3983384 ATGACTTTATCTT-ATAAATATGC
1 ATGAATTTATCTTGA-AAATATGC
3983407 ATGAATTTATCTTGAAAATATG
1 ATGAATTTATCTTGAAAATATG
3983429 TTGAATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAATTTATCTTGAAAATATGC
Found at i:3990317 original size:30 final size:30
Alignment explanation
Indices: 3990276--3990349 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
3990266 TTCTCAATCC
*
3990276 CAAGATCCTGAATGAGATATCGAGTTTTCT
1 CAAGATCCTGAATGAGATATCAAGTTTTCT
* **
3990306 CAAGCTCCTGAACAAGATATCAAGTTTTCT
1 CAAGATCCTGAATGAGATATCAAGTTTTCT
*
3990336 CAAGTTCCTGAATG
1 CAAGATCCTGAATG
3990350 TCCTCATAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (30 bp):
CAAGATCCTGAATGAGATATCAAGTTTTCT
Found at i:3991817 original size:11 final size:11
Alignment explanation
Indices: 3991801--3991827 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3991791 TTTAAAGTAA
3991801 AAAAGAAGAAG
1 AAAAGAAGAAG
3991812 AAAAGAAGAAG
1 AAAAGAAGAAG
3991823 AAAAG
1 AAAAG
3991828 TAATTGCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAAG
Found at i:3992758 original size:26 final size:26
Alignment explanation
Indices: 3992729--3992779 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
3992719 AAATTACAAG
*
3992729 TTATTAGCAATTAATATTAATTAATA
1 TTATTAGCAATTAATATTAAGTAATA
* **
3992755 TTATTTGTTATTAATATTAAGTAAT
1 TTATTAGCAATTAATATTAAGTAAT
3992780 TAATAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (26 bp):
TTATTAGCAATTAATATTAAGTAATA
Found at i:3992816 original size:14 final size:14
Alignment explanation
Indices: 3992778--3992818 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
3992768 ATATTAAGTA
3992778 ATTAATAATATTTAT
1 ATTAA-AATATTTAT
**
3992793 ATTATTATATTTAT
1 ATTAAAATATTTAT
3992807 ATTAAAATATTT
1 ATTAAAATATTT
3992819 TGATTTATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTAAAATATTTAT
Found at i:3992859 original size:8 final size:8
Alignment explanation
Indices: 3992848--3992885 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
3992838 ACTATATTAT
*
3992848 TTATTTTA
1 TTATTCTA
3992856 TTATTCTA
1 TTATTCTA
3992864 TTA-TCTA
1 TTATTCTA
*
3992871 TTATTATA
1 TTATTCTA
3992879 TTATTCT
1 TTATTCT
3992886 TACAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (8 bp):
TTATTCTA
Found at i:3992860 original size:15 final size:16
Alignment explanation
Indices: 3992842--3992885 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
3992832 TATATTACTA
*
3992842 TATTAT-TTATTTTAT
1 TATTATATTATTCTAT
*
3992857 TATTCTATTA-TCTAT
1 TATTATATTATTCTAT
3992872 TATTATATTATTCT
1 TATTATATTATTCT
3992886 TACAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTATATTATTCTAT
Found at i:3992918 original size:12 final size:12
Alignment explanation
Indices: 3992842--3992918 Score: 57
Period size: 12 Copynumber: 6.1 Consensus size: 12
3992832 TATATTACTA
*
3992842 TATTATTTATTT
1 TATTATTTATAT
3992854 TATTATTCTATTAT
1 TATTATT-TA-TAT
3992868 CTATTA-TTATAT
1 -TATTATTTATAT
* *
3992880 TATTCTTACAATAT
1 TATTATT--TATAT
*
3992894 TATTATATATAT
1 TATTATTTATAT
*
3992906 TATTATTTCTAT
1 TATTATTTATAT
3992918 T
1 T
3992919 TAGTACATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
11 4 0.08
12 26 0.51
13 4 0.08
14 12 0.24
15 5 0.10
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTTATAT
Found at i:3992981 original size:32 final size:33
Alignment explanation
Indices: 3992945--3993018 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
3992935 TATTATTATT
*
3992945 TAATTTAAGTTAAAGT-TAAATAGAA-AAATTAA
1 TAATTTAA-TTAAAGTATAAATAAAATAAATTAA
* * *
3992977 TAATTTAATTTAAGTATAATTAAAATAAATTAT
1 TAATTTAATTAAAGTATAAATAAAATAAATTAA
3993010 TAATTTAAT
1 TAATTTAAT
3993019 AATTTAGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 6 0.17
32 15 0.42
33 15 0.42
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (33 bp):
TAATTTAATTAAAGTATAAATAAAATAAATTAA
Found at i:3993014 original size:33 final size:31
Alignment explanation
Indices: 3992939--3993018 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
3992929 AGAATTTATT
*
3992939 ATTATTTAATTTAAGTTAAAGTTAAATAGAAAA
1 ATTA-TTAATTTAA-TTAAAGTTAAATAAAAAA
* * *
3992972 ATTAATAATTTAATTTAAGTATAATTAAAATAA
1 ATTATTAATTTAATTAAAGT-TAAATAAAA-AA
3993005 ATTATTAATTTAAT
1 ATTATTAATTTAAT
3993019 AATTTAGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 6 0.15
32 15 0.38
33 19 0.47
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (31 bp):
ATTATTAATTTAATTAAAGTTAAATAAAAAA
Found at i:3994112 original size:21 final size:22
Alignment explanation
Indices: 3994071--3994118 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
3994061 ATAGGTAGAT
*
3994071 TAAATTAATTGTTTGTTAATAA
1 TAAATTAATTGTTTGTAAATAA
3994093 TAAATTAATT-TTTGTAAATAA
1 TAAATTAATTGTTTGTAAATAA
3994114 TAAAT
1 TAAAT
3994119 ATCACTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
TAAATTAATTGTTTGTAAATAA
Found at i:3994179 original size:45 final size:46
Alignment explanation
Indices: 3994083--3994180 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
3994073 AATTAATTGT
*
3994083 TTGTTAATAATAAATTAATTTTTGTAAATAATAAATATCACTAAAA
1 TTGTTAATAATAAACTAATTTTTGTAAATAATAAATATCACTAAAA
* *
3994129 TTGTTAATAATAAACTAACTTTTT-T-TATAATAAATATCATTGAAAA
1 TTGTTAATAATAAACTAA-TTTTTGTAAATAATAAATATCACT-AAAA
3994175 -TGTTAA
1 TTGTTAA
3994181 AATTAATCGA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
45 20 0.43
46 22 0.47
47 5 0.11
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (46 bp):
TTGTTAATAATAAACTAATTTTTGTAAATAATAAATATCACTAAAA
Found at i:3995932 original size:22 final size:22
Alignment explanation
Indices: 3995889--3995932 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3995879 ACCACTTAAC
* * * *
3995889 TCTTAATTTTTTTAATTTAAAT
1 TCTTAAATTTTTAAAATCAAAT
3995911 TCTTAAATTTTTAAAATCAAAT
1 TCTTAAATTTTTAAAATCAAAT
3995933 ATTTTAATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (22 bp):
TCTTAAATTTTTAAAATCAAAT
Found at i:3998345 original size:4 final size:4
Alignment explanation
Indices: 3998336--3998382 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
3998326 TGTTTAACAA
3998336 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
3998383 AAGAAGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:3998387 original size:6 final size:7
Alignment explanation
Indices: 3998336--3998397 Score: 65
Period size: 8 Copynumber: 8.4 Consensus size: 7
3998326 TGTTTAACAA
3998336 AAAGAAAG
1 AAAG-AAG
3998344 AAAGAAAG
1 AAAG-AAG
3998352 AAAGAAAG
1 AAAG-AAG
3998360 AAAGAAAG
1 AAAG-AAG
3998368 AAAGAAAG
1 AAAG-AAG
3998376 AAAGAA-
1 AAAGAAG
3998382 AAAGAAG
1 AAAGAAG
3998389 AAA-AAG
1 AAAGAAG
3998395 AAA
1 AAA
3998398 CCTTGTACAT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.23
7 5 0.09
8 36 0.68
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:3999082 original size:21 final size:21
Alignment explanation
Indices: 3999058--3999098 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3999048 TTAACAGGTA
3999058 TTATAATAAAATTAA-AAAAAT
1 TTATAATAAAA-TAATAAAAAT
3999079 TTATAATAAAATAATAAAAA
1 TTATAATAAAATAATAAAAA
3999099 CAAAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TTATAATAAAATAATAAAAAT
Found at i:4019032 original size:30 final size:31
Alignment explanation
Indices: 4018996--4019055 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
4018986 TAATAGCTAG
4018996 TGACTTAAAT-AAAACTTTTAAATAATTTAA
1 TGACTTAAATGAAAACTTTTAAATAATTTAA
* *
4019026 TGACTTAAATGAAAATTTTTGAATAATTTA
1 TGACTTAAATGAAAACTTTTAAATAATTTA
4019056 GTGATCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTTAAATAATTTAA
Found at i:4021845 original size:21 final size:21
Alignment explanation
Indices: 4021820--4021888 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
4021810 TATAATGATT
4021820 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
4021841 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
4021861 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
4021881 ATTATTAT
1 ATTATTAT
4021889 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:4021901 original size:15 final size:14
Alignment explanation
Indices: 4021875--4021905 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4021865 TATGGTTTTA
4021875 TATTAGATTATTAT
1 TATTAGATTATTAT
4021889 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
4021904 TA
1 TA
4021906 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:4029417 original size:21 final size:21
Alignment explanation
Indices: 4029392--4029460 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
4029382 TATAATGATT
4029392 ATTATTATAGTTTTATATTAA
1 ATTATTATAGTTTTATATTAA
*
4029413 ATTATTATAATTATTA-ATT-A
1 ATTATTATAGTT-TTATATTAA
* *
4029433 A-TATTATGGTTTTATATTAG
1 ATTATTATAGTTTTATATTAA
4029453 ATTATTAT
1 ATTATTAT
4029461 TAGCATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.28
20 3 0.08
21 20 0.50
22 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
ATTATTATAGTTTTATATTAA
Found at i:4033073 original size:16 final size:16
Alignment explanation
Indices: 4033037--4033075 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4033027 ATTAAGATTG
*
4033037 TATGCAAGCTATATTA
1 TATGCAAGCTATATCA
* *
4033053 CATGCGAGCTATATCA
1 TATGCAAGCTATATCA
4033069 TATGCAA
1 TATGCAA
4033076 ACCATGATAT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (16 bp):
TATGCAAGCTATATCA
Found at i:4039375 original size:20 final size:19
Alignment explanation
Indices: 4039341--4039383 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
4039331 TTAAAAACTT
4039341 ATATAATAATATATATACC
1 ATATAATAATATATATACC
* *
4039360 ATATAATGATTATATATATC
1 ATATAAT-AATATATATACC
4039380 ATAT
1 ATAT
4039384 GGTAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATAATAATATATATACC
Found at i:4041879 original size:20 final size:22
Alignment explanation
Indices: 4041836--4041885 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
4041826 ATTCTACTTT
*
4041836 TTTC-ATAAAAATTACATTTAA
1 TTTCAATAAAAATTACATATAA
4041857 TTTCAATAAAAATTA-A-ATAA
1 TTTCAATAAAAATTACATATAA
*
4041877 TTTAAATAA
1 TTTCAATAA
4041886 TATTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 11 0.42
21 5 0.19
22 10 0.38
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTCAATAAAAATTACATATAA
Done.