Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold207
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: 1047254
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 71453 characters in sequence are not A, C, G, or T
File 6 of 6
Found at i:872715 original size:23 final size:23
Alignment explanation
Indices: 872672--872715 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
872662 CCTCTCAATC
*
872672 TCTTCAAGAATTATACCCCAAAT
1 TCTTCAAGAATTATACACCAAAT
*
872695 TCTT-AAGAGATTGTACACCAA
1 TCTTCAAGA-ATTATACACCAA
872716 GGTTGAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (23 bp):
TCTTCAAGAATTATACACCAAAT
Found at i:873244 original size:19 final size:18
Alignment explanation
Indices: 873220--873281 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
873210 CAATTCAGTG
873220 TGTATCGATACTAAGAACA
1 TGTATCGATACTAA-AACA
873239 TGTATCGATAC----A-A
1 TGTATCGATACTAAAACA
873252 TGTATCGATACTAAAAACA
1 TGTATCGATACT-AAAACA
*
873271 TATATCGATAC
1 TGTATCGATAC
873282 AATGTATCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
13 12 0.33
14 1 0.03
18 1 0.03
19 22 0.61
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (18 bp):
TGTATCGATACTAAAACA
Found at i:873256 original size:13 final size:13
Alignment explanation
Indices: 873238--873262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
873228 TACTAAGAAC
873238 ATGTATCGATACA
1 ATGTATCGATACA
873251 ATGTATCGATAC
1 ATGTATCGATAC
873263 TAAAAACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:873261 original size:32 final size:32
Alignment explanation
Indices: 873220--873315 Score: 147
Period size: 32 Copynumber: 3.0 Consensus size: 32
873210 CAATTCAGTG
873220 TGTATCGATACTAAGAACATGTATCGATACAA
1 TGTATCGATACTAAGAACATGTATCGATACAA
* *
873252 TGTATCGATACTAAAAACATATATCGATACAA
1 TGTATCGATACTAAGAACATGTATCGATACAA
* *
873284 TGTATCAATACTAAGCAATATGTATCGATACA
1 TGTATCGATACTAAG-AACATGTATCGATACA
873316 TCTGGGTGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 43 0.75
33 14 0.25
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (32 bp):
TGTATCGATACTAAGAACATGTATCGATACAA
Found at i:877420 original size:5 final size:5
Alignment explanation
Indices: 877406--877443 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
877396 TTACAACCCA
*
877406 AAAAG AAAAAG AAAAG AAAAG AATAG AAAAG AAAAG AA
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
877444 GAGGAAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:877451 original size:15 final size:15
Alignment explanation
Indices: 877415--877452 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
877405 AAAAAGAAAA
*
877415 AGAAAAGAAAAGAAT
1 AGAAAAGAAAAGAAG
877430 AGAAAAGAAAAGAAG
1 AGAAAAGAAAAGAAG
*
877445 AGGAAAGA
1 AGAAAAGA
877453 GGACCAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (15 bp):
AGAAAAGAAAAGAAG
Found at i:882764 original size:22 final size:22
Alignment explanation
Indices: 882739--882780 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
882729 AGATAAACAT
882739 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
882761 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
882781 TCTTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:882855 original size:22 final size:22
Alignment explanation
Indices: 882830--882871 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
882820 AAATAAACAT
882830 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
882852 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
882872 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:882862 original size:91 final size:91
Alignment explanation
Indices: 882714--882881 Score: 318
Period size: 91 Copynumber: 1.8 Consensus size: 91
882704 TTGGTTAATG
*
882714 AGATTTTCTCATCCTAGATAAACATATTTCTCCCCCTTTATCAAAGCATTTCTCCCCCTTTGTCA
1 AGATTTTCTCATCCTAAATAAACATATTTCTCCCCCTTTATCAAAGCATTTCTCCCCCTTTGTCA
882779 AATCTTAAAAAATTTATTAGTTAACT
66 AATCTTAAAAAATTTATTAGTTAACT
882805 AGATTTTCTCATCCTAAATAAACATATTTCTCCCCCTTTATCAAAGCATTTCTCCCCCTTTGTCA
1 AGATTTTCTCATCCTAAATAAACATATTTCTCCCCCTTTATCAAAGCATTTCTCCCCCTTTGTCA
*
882870 AATTTTAAAAAA
66 AATCTTAAAAAA
882882 AATTATTTTC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.39
Consensus pattern (91 bp):
AGATTTTCTCATCCTAAATAAACATATTTCTCCCCCTTTATCAAAGCATTTCTCCCCCTTTGTCA
AATCTTAAAAAATTTATTAGTTAACT
Found at i:885516 original size:147 final size:147
Alignment explanation
Indices: 885249--885544 Score: 592
Period size: 147 Copynumber: 2.0 Consensus size: 147
885239 CAACATCCTT
885249 TTTTTGCACATAATCTTTAATAAAGTGATGTCTACTTTCAATGTGCTTAGTCCTAGAATGTTGTA
1 TTTTTGCACATAATCTTTAATAAAGTGATGTCTACTTTCAATGTGCTTAGTCCTAGAATGTTGTA
885314 CCGGATTTTTAGTGAGACAAATTGCACTAGCATTATCATATTTAATGGGAATATGATCCATGGTA
66 CCGGATTTTTAGTGAGACAAATTGCACTAGCATTATCATATTTAATGGGAATATGATCCATGGTA
885379 ATGCCAAAATCCTTTAA
131 ATGCCAAAATCCTTTAA
885396 TTTTTGCACATAATCTTTAATAAAGTGATGTCTACTTTCAATGTGCTTAGTCCTAGAATGTTGTA
1 TTTTTGCACATAATCTTTAATAAAGTGATGTCTACTTTCAATGTGCTTAGTCCTAGAATGTTGTA
885461 CCGGATTTTTAGTGAGACAAATTGCACTAGCATTATCATATTTAATGGGAATATGATCCATGGTA
66 CCGGATTTTTAGTGAGACAAATTGCACTAGCATTATCATATTTAATGGGAATATGATCCATGGTA
885526 ATGCCAAAATCCTTTAA
131 ATGCCAAAATCCTTTAA
885543 TT
1 TT
885545 GTTGTTTTAT
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
147 149 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (147 bp):
TTTTTGCACATAATCTTTAATAAAGTGATGTCTACTTTCAATGTGCTTAGTCCTAGAATGTTGTA
CCGGATTTTTAGTGAGACAAATTGCACTAGCATTATCATATTTAATGGGAATATGATCCATGGTA
ATGCCAAAATCCTTTAA
Found at i:891072 original size:69 final size:70
Alignment explanation
Indices: 890973--891146 Score: 269
Period size: 69 Copynumber: 2.4 Consensus size: 70
890963 TCCCATAGCC
*
890973 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGCTGTTTATAGCCATT
1 ATGTATCGATACAA-T-ATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGCCATT
891038 ATAAGCA
64 ATAAGCA
*
891045 ATGTATCGATACAA-ATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGCCGTTAT
1 ATGTATCGATACAATATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGCCATTAT
891109 AAGCA
66 AAGCA
* *
891114 ATGTATCGATACAATTCATCATATATCGATACA
1 ATGTATCGATACAA-T-ATAATGTATCGATACA
891147 ATGTATCGAT
Statistics
Matches: 95, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
69 67 0.71
72 28 0.29
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (70 bp):
ATGTATCGATACAATATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGCCATTAT
AAGCA
Found at i:891149 original size:33 final size:33
Alignment explanation
Indices: 891112--891180 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
891102 CCGTTATAAG
891112 CAATGTATCGATACAAT-TCATCATATATCGATA
1 CAATGTATCGATACAATGTCAT-ATATATCGATA
* *
891145 CAATGTATCGATACAATGTCCTATGTATCGATA
1 CAATGTATCGATACAATGTCATATATATCGATA
891178 CAA
1 CAA
891181 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATGTCATATATATCGATA
Found at i:891155 original size:13 final size:13
Alignment explanation
Indices: 891137--891163 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
891127 ATTCATCATA
891137 TATCGATACAATG
1 TATCGATACAATG
891150 TATCGATACAATG
1 TATCGATACAATG
891163 T
1 T
891164 CCTATGTATC
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:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:891254 original size:19 final size:18
Alignment explanation
Indices: 891209--891264 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
891199 CTGCAAGTTT
*
891209 CATGTATCGATACAATTGT
1 CATGTATCGATACAA-TGA
891228 CAATGTATCGATACAATGAA
1 C-ATGTATCGATACAATG-A
*
891248 CATGTATCAATACAATG
1 CATGTATCGATACAATG
891265 TATCGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (18 bp):
CATGTATCGATACAATGA
Found at i:896842 original size:20 final size:20
Alignment explanation
Indices: 896789--896844 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
896779 TACCACTGTT
* *
896789 TGTATTGATACATGGTACAA
1 TGTATCGATACATTGTACAA
896809 TGTATCGATACATTGTACAA
1 TGTATCGATACATTGTACAA
896829 TGTATCGATACATTGT
1 TGTATCGATACATTGT
896845 CCTAACGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTGTACAA
Found at i:896980 original size:20 final size:20
Alignment explanation
Indices: 896955--896994 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
896945 AACGGCTACA
896955 AATGTATCAATACATGGTAT
1 AATGTATCAATACATGGTAT
* *
896975 AATGTATCGATACATTGTAT
1 AATGTATCAATACATGGTAT
896995 CGATACATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
AATGTATCAATACATGGTAT
Found at i:896993 original size:13 final size:13
Alignment explanation
Indices: 896977--897002 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
896967 CATGGTATAA
896977 TGTATCGATACAT
1 TGTATCGATACAT
896990 TGTATCGATACAT
1 TGTATCGATACAT
897003 AGTGAAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:897001 original size:33 final size:33
Alignment explanation
Indices: 896957--897025 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
896947 CGGCTACAAA
* *
896957 TGTATCAATACATGGT-ATAATGTATCGATACAT
1 TGTATCAATACATAGTGA-AAAGTATCGATACAT
*
896990 TGTATCGATACATAGTGAAAAGTATCGATACAT
1 TGTATCAATACATAGTGAAAAGTATCGATACAT
897023 TGT
1 TGT
897026 CCTAACAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCAATACATAGTGAAAAGTATCGATACAT
Found at i:897024 original size:181 final size:181
Alignment explanation
Indices: 896804--897138 Score: 600
Period size: 181 Copynumber: 1.9 Consensus size: 181
896794 TGATACATGG
* * *
896804 TACAATGTATCGATACATTGTACAATGTATCGATACATTGTCCTAACGGCTATAAATTTTAAACA
1 TACAATGTATCGATACATAGTACAAAGTATCGATACATTGTCCTAACAGCTATAAATTTTAAACA
* *
896869 CATGTATCGATACATTATGAAAAGTATTGATACATACTAACGAGAATGCATGGAAACAAGCTCCA
66 CATGGATCGATACATTATGAAAAGTATCGATACATACTAACGAGAATGCATGGAAACAAGCTCCA
896934 AACAAGTCAACAACGGCTACAAATGTATCAATACATGGTATAATGTATCGA
131 AACAAGTCAACAACGGCTACAAATGTATCAATACATGGTATAATGTATCGA
*
896985 TACATTGTATCGATACATAGTGA-AAAGTATCGATACATTGTCCTAACAGCTATAAATTTTAAAC
1 TACAATGTATCGATACATAGT-ACAAAGTATCGATACATTGTCCTAACAGCTATAAATTTTAAAC
897049 ACATGGATCGATACATTATGAAAAGTATCGATACATACTAACGAGAATGCATGGAAACAAGCTCC
65 ACATGGATCGATACATTATGAAAAGTATCGATACATACTAACGAGAATGCATGGAAACAAGCTCC
897114 AAACAAGTCAACAACGGCTACAAAT
130 AAACAAGTCAACAACGGCTACAAAT
897139 ACAATCATTC
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
181 146 0.99
182 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (181 bp):
TACAATGTATCGATACATAGTACAAAGTATCGATACATTGTCCTAACAGCTATAAATTTTAAACA
CATGGATCGATACATTATGAAAAGTATCGATACATACTAACGAGAATGCATGGAAACAAGCTCCA
AACAAGTCAACAACGGCTACAAATGTATCAATACATGGTATAATGTATCGA
Found at i:897343 original size:24 final size:24
Alignment explanation
Indices: 897316--897391 Score: 134
Period size: 24 Copynumber: 3.2 Consensus size: 24
897306 TTGAAAGCTC
*
897316 CTTTGTATTTGTTTTGTGTTTATT
1 CTTTGTATTTGTTTTGTGCTTATT
*
897340 CTTTGTATTTATTTTGTGCTTATT
1 CTTTGTATTTGTTTTGTGCTTATT
897364 CTTTGTATTTGTTTTGTGCTTATT
1 CTTTGTATTTGTTTTGTGCTTATT
897388 CTTT
1 CTTT
897392 CACAAACATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.09, C:0.08, G:0.14, T:0.68
Consensus pattern (24 bp):
CTTTGTATTTGTTTTGTGCTTATT
Found at i:897350 original size:13 final size:13
Alignment explanation
Indices: 897316--897373 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 13
897306 TTGAAAGCTC
*
897316 CTTTGTATTT-GT
1 CTTTGTATTTATT
*
897328 -TTTGTGTTTATT
1 CTTTGTATTTATT
897340 CTTTGTATTTA-T
1 CTTTGTATTTATT
**
897352 -TTTGTGCTTATT
1 CTTTGTATTTATT
897364 CTTTGTATTT
1 CTTTGTATTT
897374 GTTTTGTGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
11 16 0.46
12 3 0.09
13 16 0.46
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (13 bp):
CTTTGTATTTATT
Found at i:905801 original size:20 final size:20
Alignment explanation
Indices: 905778--905826 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
905768 TCCAGATGTA
905778 TCGATACATTATGCTTTGTG
1 TCGATACATTATGCTTTGTG
905798 TCGATACATTATGCTTTGTG
1 TCGATACATTATGCTTTGTG
905818 TCGATACAT
1 TCGATACAT
905827 GTTCATTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (20 bp):
TCGATACATTATGCTTTGTG
Found at i:910465 original size:166 final size:164
Alignment explanation
Indices: 910052--910786 Score: 544
Period size: 166 Copynumber: 4.4 Consensus size: 164
910042 AATATATACT
* * * * * *
910052 AAAAAAATTCAAAACTCAT-AAAATAATTTGAATTTTTCAAGACTAATTAAATAGGATTTC-AAT
1 AAAAAAATTAAAAACTCATGAAAATAAATT-AATTTTTCAAAACTAATTTAATATGA-ATCAAAT
* * ** * * *
910115 AACAATATTAGATTAATTTTAAAAATTTTAAA-TAGAGAAAAATCACTCCAAAAACATTTATAAA
64 AATAATATT-GATGAATTTTAAAAATTAAAAACTA-AGAAAAATCCCT-CGAAAACATTTATAGA
** * * * * * *
910179 ACAGAAAACTTGGTTTTTTAGAAAGAGGA-AATTTC--G
126 GTAGAAAACTTCGTATTTCAAAAACAAGAGAATTTCAAG
* * *
910215 AAGAAAAATTCAAAACTCATGAAAATAAATTAATTTTTCAAAACTAATTTAATATGAATTAAATG
1 AA-AAAAATTAAAAACTCATGAAAATAAATTAATTTTTCAAAACTAATTTAATATGAATCAAATA
* * *
910280 ATGATATTTGATAAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCTGAAAACATTTATGGAGT
65 ATAATA-TTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTC-GAAAACATTTATAGAGT
*
910345 AGAAAAC-TCTATATTTCAAAAACAAGAGAATTTCAAG
128 AGAAAACTTC-GTATTTCAAAAACAAGAGAATTTCAAG
* * *
910382 AAAAAAATAAAAAACTCATGAAAATAAATTAATTTTTCAAGACTGATTTAATATGAATCAAATAA
1 AAAAAAATTAAAAACTCATGAAAATAAATTAATTTTTCAAAACTAATTTAATATGAATCAAATAA
* * *** * *
910447 TAATAGTTGATGAATTTTAAAAATTGAAATCCGTGAAAAATCCCATCGAAAAAATTTACAGAGTA
66 TAATA-TTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCC-TCGAAAACATTTATAGAGTA
* * * *
910512 GAAAATTTCGTATTTCAAAAACAAGGGATTTTTAAG
129 GAAAACTTCGTATTTCAAAAACAAGAGAATTTCAAG
* ** * * * * * * *
910548 GAAAAAATTGAAAATTTTATGAAAATAAATGAATTTTTGAAAACTGATTTAACATTAATTAAATA
1 AAAAAAATT-AAAAACTCATGAAAATAAATTAATTTTTCAAAACTAATTTAATATGAATCAAATA
**** * *
910613 ATAATAATTGATGAATTTTAAAAATTTTGGA-TCAATG-AAAAT-CCTCCTAAAAAAATTTAT-G
65 ATAAT-ATTGATGAATTTTAAAAATTAAAAACT-AA-GAAAAATCCCT-C-GAAAACATTTATAG
* ** *
910674 AAGTAGAAAACTCCGTATTTTGAAAACAAAACGAATTTCAA-
125 -AGTAGAAAACTTCGTATTTCAAAAACAAGA-GAATTTCAAG
* * * * * * * * *
910715 AAGAAAATTAACAAGTTAT-AAAATAAAAATAATTTTTCAAAACTGATTTTATGGTG-ATTAAAT
1 AAAAAAATTAAAAACTCATGAAAAT-AAATTAATTTTTCAAAACTAATTTAAT-ATGAATCAAAT
910778 AATAATATT
64 AATAATATT
910787 TAAGGAATTT
Statistics
Matches: 462, Mismatches: 88, Indels: 42
0.78 0.15 0.07
Matches are distributed among these distances:
163 5 0.01
164 107 0.23
165 28 0.06
166 189 0.41
167 124 0.27
168 9 0.02
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (164 bp):
AAAAAAATTAAAAACTCATGAAAATAAATTAATTTTTCAAAACTAATTTAATATGAATCAAATAA
TAATATTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCGAAAACATTTATAGAGTAGA
AAACTTCGTATTTCAAAAACAAGAGAATTTCAAG
Found at i:913873 original size:164 final size:163
Alignment explanation
Indices: 913665--914248 Score: 448
Period size: 166 Copynumber: 3.5 Consensus size: 163
913655 AATATATACT
* * *
913665 AAAAAATTC-AAACTCAT--AAATAATTTGAATTTTTCAAGACTAATTAAATAGGATTTCAATAA
1 AAAAAATTCAAAACTCATGAAAATAAATT-AATTTTTCAAGACTAATTTAATATGA-TTCAATAA
* * **
913727 CAATATTAGATTAATTTTAAAAATTTTAAA-TAGAGAAAAATCACTCCAAAAACATTTATAAAAC
64 TAATATT-GATAAATTTTAAAAATTAAAAACTA-AGAAAAATCACTCCAAAAACATTTATAAAAC
* * * * * *
913791 AGAAAACT-TGGTTTTTTAGAAAGAGGA-AATTTCGAAG
127 AGAAAACTCT-ATATTTCAAAAACAAGAGAATTTC-AAG
* * *
913828 -AAAAATTCAAAACTCATGAAAATAAATTAATTTTTCAAAACTAATTTAATATGAATTAAATGAT
1 AAAAAATTCAAAACTCATGAAAATAAATTAATTTTTCAAGACTAATTTAATATG-ATTCAATAAT
* * ** ** **
913892 GATATTTGATAAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCTGAAAACATTTATGGAGTAG
65 AATA-TTGATAAATTTTAAAAATTAAAAACTAAGAAAAATCACTCCAAAAACATTTATAAAACAG
913957 AAAACTCTATATTTCAAAAACAAGAGAATTTCAAG
129 AAAACTCTATATTTCAAAAACAAGAGAATTTCAAG
** * *
913992 AAAAAAATAAAAAACTCATGAAAATAAATTAATTTTTCAAGACTGATTTAATATGAATCAAATAA
1 -AAAAAATTCAAAACTCATGAAAATAAATTAATTTTTCAAGACTAATTTAATATGATTC-AATAA
* * * *** * * * * **
914057 TAATAGTTGATGAATTTTAAAAATTGAAATCCGTGAAAAATCCCATCGAAAAA-ATTTACAGAGT
64 TAATA-TTGATAAATTTTAAAAATTAAAAACTAAGAAAAATCAC-TCCAAAAACATTTATAAAAC
* * * * *
914121 AGAAAA-TTTCGTATTTCAAAAACAAGGGATTTTTAAGG
127 AGAAAACTCT-ATATTTCAAAAACAAGAGAATTTCAA-G
* * * * * * * * * *
914159 AAAAAATTGAAAATTTTATGAAAATAAATGAATTTTTGAAAACTGATTTAACATTAATTAAATAA
1 AAAAAATTCAAAA-CTCATGAAAATAAATTAATTTTTCAAGACTAATTTAATA-TGATTCAATAA
*
914224 TAATAATTGATGAATTTTAAAAATT
64 TAAT-ATTGATAAATTTTAAAAATT
914249 TTGGATCAAT
Statistics
Matches: 345, Mismatches: 59, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
162 8 0.02
163 8 0.02
164 96 0.28
165 24 0.07
166 137 0.40
167 68 0.20
168 4 0.01
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (163 bp):
AAAAAATTCAAAACTCATGAAAATAAATTAATTTTTCAAGACTAATTTAATATGATTCAATAATA
ATATTGATAAATTTTAAAAATTAAAAACTAAGAAAAATCACTCCAAAAACATTTATAAAACAGAA
AACTCTATATTTCAAAAACAAGAGAATTTCAAG
Found at i:914237 original size:167 final size:166
Alignment explanation
Indices: 913836--914394 Score: 531
Period size: 166 Copynumber: 3.4 Consensus size: 166
913826 AGAAAAATTC
* * * *
913836 AAAACTCATGAAAATAAATTAATTTTTCAAAACTAATTTAATATGAATTAAATGATGATATTTGA
1 AAAACTCATGAAAATAAATTAATTTTTCAAAACTGATTTAATATGAATTAAATAATAATAATTGA
* * * **
913901 TAAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCTGAAAACATTTATGGAGTAGAAAACTCTA
66 TGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCTGAAAAAATTTACAGAGTAGAAAACTCTA
913966 TATTTCAAAAACAAGAGAATTTCAAGAAAAAAATAA
131 TATTTCAAAAACAAGAGAATTTCAAGAAAAAAATAA
* * *
914002 AAAACTCATGAAAATAAATTAATTTTTCAAGACTGATTTAATATGAATCAAATAATAATAGTTGA
1 AAAACTCATGAAAATAAATTAATTTTTCAAAACTGATTTAATATGAATTAAATAATAATAATTGA
* * ** *
914067 TGAATTTTAAAAATTGAAATCCGTGAAAAATCCCATC-GAAAAAATTTACAGAGTAGAAAA-TTT
66 TGAATTTTAAAAATTAAAAACCAAGAAAAATCCC-TCTGAAAAAATTTACAGAGTAGAAAACTCT
* * * * * *
914130 CGTATTTCAAAAACAAGGGATTTTTAAGGAAAAAATTGA
130 -ATATTTCAAAAACAAGAGAATTTCAA-GAAAAAAATAA
** * * * * *
914169 AAATTTTATGAAAATAAATGAATTTTTGAAAACTGATTTAACATTAATTAAATAATAATAATTGA
1 AAAACTCATGAAAATAAATTAATTTTTCAAAACTGATTTAATATGAATTAAATAATAATAATTGA
**** * * *
914234 TGAATTTTAAAAATTTTGGATCAATG-AAAAT-CCTCCTAAAAAAATTTA-TGAAGTAGAAAACT
66 TGAATTTTAAAAATTAAAAACCAA-GAAAAATCCCT-CTGAAAAAATTTACAG-AGTAGAAAACT
** ** * * *
914296 CCGTATTTTGAAAACAAAACGAATTTCAA-AAGAAAATTA
128 CTATATTTCAAAAACAAGA-GAATTTCAAGAAAAAAATAA
* * * * * *
914335 ACAAGTTAT-AAAATAAAAATAATTTTTCAAAACTGATTTTATGGTG-ATTAAATAATAATA
1 AAAACTCATGAAAAT-AAATTAATTTTTCAAAACTGATTTAAT-ATGAATTAAATAATAATA
914395 TTTAAGGAAT
Statistics
Matches: 319, Mismatches: 63, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
165 8 0.03
166 182 0.57
167 120 0.38
168 9 0.03
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (166 bp):
AAAACTCATGAAAATAAATTAATTTTTCAAAACTGATTTAATATGAATTAAATAATAATAATTGA
TGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCTGAAAAAATTTACAGAGTAGAAAACTCTA
TATTTCAAAAACAAGAGAATTTCAAGAAAAAAATAA
Found at i:923294 original size:15 final size:18
Alignment explanation
Indices: 923259--923294 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
923249 TTAAGTAAAT
923259 TTTTATTATAATATGTTA
1 TTTTATTATAATATGTTA
923277 TTTT-TTAT-ATAT-TTA
1 TTTTATTATAATATGTTA
923292 TTT
1 TTT
923295 ATTGAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.33
16 4 0.22
17 4 0.22
18 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATTATAATATGTTA
Found at i:924500 original size:2 final size:2
Alignment explanation
Indices: 924493--924524 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
924483 CTTTATACGC
924493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
924525 GAGTCAGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:924710 original size:141 final size:141
Alignment explanation
Indices: 924547--924811 Score: 478
Period size: 141 Copynumber: 1.9 Consensus size: 141
924537 GGCATCATTG
*
924547 TTGGATGATATATTCTTAGCTTATGAGCATGTGGAGTTATCAAAATGGAGATGTGCACTTTTTAT
1 TTGGATGATATATTCCTAGCTTATGAGCATGTGGAGTTATCAAAATGGAGATGTGCACTTTTTAT
924612 ATGAAGAATTAAAAATAAATCATGTTATTTAAAATTTTTTATATTGGATA-ATCTTTTTTTTTTT
66 ATGAAGAATTAAAAATAAATCATGTTATTTAAAATTTTTTATATTGGATACAT-TTTTTTTTTTT
924676 GTAGCTTTAGTA
130 GTAGCTTTAGTA
*
924688 TTGGATGATATATTCCTAGCTTATGGGCATGTGGAGTTATCAAAATGGAGATGTGCACTTTTTAT
1 TTGGATGATATATTCCTAGCTTATGAGCATGTGGAGTTATCAAAATGGAGATGTGCACTTTTTAT
* *
924753 ATGAAGAATTAAAAATAAATCATGTTATTTTAATTTTTTTATATTGGATACATTTTTTT
66 ATGAAGAATTAAAAATAAATCATGTTATTTAAAATTTTTTATATTGGATACATTTTTTT
924812 GTAGTTGTAG
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
141 117 0.98
142 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (141 bp):
TTGGATGATATATTCCTAGCTTATGAGCATGTGGAGTTATCAAAATGGAGATGTGCACTTTTTAT
ATGAAGAATTAAAAATAAATCATGTTATTTAAAATTTTTTATATTGGATACATTTTTTTTTTTTG
TAGCTTTAGTA
Found at i:928111 original size:14 final size:13
Alignment explanation
Indices: 928077--928123 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
928067 GATGAAAAGA
*
928077 ATTTTTTAATTAT
1 ATTTTTTTATTAT
*
928090 -TTTATTTTGTTATT
1 ATTT-TTTTATTA-T
928104 ATTTTTTTATTAT
1 ATTTTTTTATTAT
928117 ATTTTTT
1 ATTTTTT
928124 AAATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.11
13 14 0.50
14 8 0.29
15 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
ATTTTTTTATTAT
Found at i:929065 original size:24 final size:24
Alignment explanation
Indices: 929020--929065 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
929010 GCAGCTATCG
* *
929020 TGTTCATGGATGCTACTGCTGTCA
1 TGTTCATGGATACTACTACTGTCA
* *
929044 TGTTCATGGATATTGCTACTGT
1 TGTTCATGGATACTACTACTGT
929066 GTTCGTGGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (24 bp):
TGTTCATGGATACTACTACTGTCA
Found at i:929139 original size:31 final size:31
Alignment explanation
Indices: 929104--929192 Score: 115
Period size: 31 Copynumber: 2.9 Consensus size: 31
929094 TGCTGCCGTG
* * *
929104 GAAGCTGGAAGAGGCTCGAGCTGTTGGCACA
1 GAAGCTGAAAGAAGCTCGAGCTGCTGGCACA
***
929135 GAAGCTGAAAGAAGCTCGAGCTGCTGGCGTG
1 GAAGCTGAAAGAAGCTCGAGCTGCTGGCACA
*
929166 GAAGCTGAAAGAAGCTTGAGCTGCTGG
1 GAAGCTGAAAGAAGCTCGAGCTGCTGG
929193 TTTTGGGTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.27, C:0.18, G:0.38, T:0.17
Consensus pattern (31 bp):
GAAGCTGAAAGAAGCTCGAGCTGCTGGCACA
Found at i:929782 original size:31 final size:31
Alignment explanation
Indices: 929737--929797 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
929727 TCCATTTACT
929737 TGTGTCCCCTATGATTGCATGCTACATTGCA
1 TGTGTCCCCTATGATTGCATGCTACATTGCA
929768 TGTGTCTCCC-ATGATTGCATGCTACATTGC
1 TGTGTC-CCCTATGATTGCATGCTACATTGC
929798 CTTGTATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (31 bp):
TGTGTCCCCTATGATTGCATGCTACATTGCA
Found at i:930450 original size:20 final size:20
Alignment explanation
Indices: 930425--930663 Score: 127
Period size: 20 Copynumber: 10.8 Consensus size: 20
930415 TTTTACCTAG
*
930425 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
930445 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
930465 ATGTATCGATACATTTTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
930495 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * * *
930516 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * * *
930536 ATTTATTGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
930556 ATGTATCGATACATTTTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
930586 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * *
930607 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
930627 ATTTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
930647 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
930664 ATCTTTTTAC
Statistics
Matches: 164, Mismatches: 33, Indels: 44
0.68 0.14 0.18
Matches are distributed among these distances:
20 114 0.70
21 4 0.02
24 10 0.06
27 7 0.04
30 3 0.02
31 26 0.16
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:930530 original size:71 final size:71
Alignment explanation
Indices: 930414--930546 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
930404 AAAAGTCACA
* * *
930414 TTTTTACCTAGATGTATTGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
930479 TTTGTC
66 TTTGTC
* *
930485 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATTTATTGATA
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATCGATA
930547 TATTCTTCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (71 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
TTTGTC
Found at i:930580 original size:91 final size:91
Alignment explanation
Indices: 930464--930691 Score: 420
Period size: 91 Copynumber: 2.5 Consensus size: 91
930454 TACATGTATG
930464 AATGTATCGATACATTTTGTCTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACA
1 AATGTATCGATACATTTTGTCTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACA
* *
930529 TGTATGAATTTATTGATATATTCTTC
66 TGTATGAATTTATCGATACATTCTTC
*
930555 AATGTATCGATACATTTTGTCTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACA
1 AATGTATCGATACATTTTGTCTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACA
930620 TGTATGAATTTATCGATACATTCTTC
66 TGTATGAATTTATCGATACATTCTTC
*
930646 AATGTATCGATACATTTTATCTTTTTACCCAGATGTATCGATACAT
1 AATGTATCGATACATTTTGTCTTTTTACCCAGATGTATCGATACAT
930692 CTAGATAAAA
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 133 1.00
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.43
Consensus pattern (91 bp):
AATGTATCGATACATTTTGTCTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACA
TGTATGAATTTATCGATACATTCTTC
Found at i:935142 original size:13 final size:13
Alignment explanation
Indices: 935124--935149 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
935114 TACACAAAGT
935124 ATGTATCGATACA
1 ATGTATCGATACA
935137 ATGTATCGATACA
1 ATGTATCGATACA
935150 CCAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:935149 original size:32 final size:33
Alignment explanation
Indices: 935106--935169 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
935096 TAGCCAAACT
** *
935106 TGTATCCATACA-CAAAGTATGTATCGATACAA
1 TGTATCCATACACCAAAAAATGTATCAATACAA
*
935138 TGTATCGATACACCAAAAAATGTATCAATACA
1 TGTATCCATACACCAAAAAATGTATCAATACA
935170 TTAGCTTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.27
Consensus pattern (33 bp):
TGTATCCATACACCAAAAAATGTATCAATACAA
Found at i:941345 original size:20 final size:20
Alignment explanation
Indices: 941273--941352 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
941263 AATTTCCAAA
*
941273 ATGTATCGATACATATTTCT
1 ATGTATCGATACATCTTTCT
* *
941293 GTGTATCGATACATCTGGAAAATTCA
1 ATGTATCGATACATCT------TTCT
941319 ATGTATCGATACATCTTTCT
1 ATGTATCGATACATCTTTCT
*
941339 TTGTATCGATACAT
1 ATGTATCGATACAT
941353 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
20 30 0.62
26 18 0.38
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATCTTTCT
Found at i:941357 original size:13 final size:13
Alignment explanation
Indices: 941339--941377 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
941329 ACATCTTTCT
941339 TTGTATCGATACA
1 TTGTATCGATACA
941352 TTGTATCGATACA
1 TTGTATCGATACA
*
941365 CTGTATCGATACA
1 TTGTATCGATACA
941378 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:941545 original size:21 final size:20
Alignment explanation
Indices: 941499--941545 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
941489 AAATCTTTTA
941499 CAAAATTCTTGTTTTTAACT
1 CAAAATTCTTGTTTTTAACT
* *
941519 CCAAATTACATTGTTTTTCA-T
1 CAAAATT-C-TTGTTTTTAACT
941540 CAAAAT
1 CAAAAT
941546 CAGCTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 9 0.41
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATTCTTGTTTTTAACT
Found at i:943221 original size:19 final size:19
Alignment explanation
Indices: 943197--943233 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
943187 GTTGAATAAC
*
943197 TTTATTAAGGGGGAGATTT
1 TTTATTAAGAGGGAGATTT
943216 TTTATTAAGAGGGAGATT
1 TTTATTAAGAGGGAGATT
943234 GCGCAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (19 bp):
TTTATTAAGAGGGAGATTT
Found at i:943294 original size:22 final size:22
Alignment explanation
Indices: 943248--943288 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
943238 AAATTTGTTA
943248 AAATTATCTTATTAAGGGGGAG
1 AAATTATCTTATTAAGGGGGAG
943270 AAATTAT-TT-TTAAGGGGGA
1 AAATTATCTTATTAAGGGGGA
943289 AAGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (22 bp):
AAATTATCTTATTAAGGGGGAG
Found at i:943947 original size:13 final size:13
Alignment explanation
Indices: 943929--943954 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
943919 TACACAAAGT
943929 ATGTATCGATACA
1 ATGTATCGATACA
943942 ATGTATCGATACA
1 ATGTATCGATACA
943955 CCAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:943952 original size:32 final size:33
Alignment explanation
Indices: 943911--943974 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
943901 TAGCCAAACT
**
943911 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
943943 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
943975 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:948602 original size:22 final size:22
Alignment explanation
Indices: 948550--948592 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
948540 AAAGCTCATG
*
948550 ATATAATTTATTTTTTGATAAT
1 ATATAATTTACTTTTTGATAAT
948572 ATATAATTTACTTTTTGATAA
1 ATATAATTTACTTTTTGATAA
948593 ATTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
ATATAATTTACTTTTTGATAAT
Found at i:949258 original size:20 final size:21
Alignment explanation
Indices: 949214--949259 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
949204 TTATATTAAA
*
949214 AATATTTATGTAAATTGTAAT
1 AATATTTATGTAAATTATAAT
*
949235 -ATATTTATGT-AATTATATT
1 AATATTTATGTAAATTATAAT
949254 AATATT
1 AATATT
949260 GTGTATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (21 bp):
AATATTTATGTAAATTATAAT
Found at i:949905 original size:39 final size:39
Alignment explanation
Indices: 949828--949907 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
949818 ATATATACAC
**
949828 TTTTATAAAATTAAATTAATTTTATATATTTTCAAATAT
1 TTTTATAAAATTAAATTAATTTTATATATAATCAAATAT
* *
949867 TTTTATAAAATTTATATTTA-TTTA-ATATAATCATAATAT
1 TTTTATAAAA-TTAAATTAATTTTATATATAATCA-AATAT
949906 TT
1 TT
949908 CATCATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
38 7 0.20
39 21 0.60
40 7 0.20
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (39 bp):
TTTTATAAAATTAAATTAATTTTATATATAATCAAATAT
Found at i:950920 original size:2 final size:2
Alignment explanation
Indices: 950913--950945 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
950903 TCTAATTTGA
950913 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
950946 CATACTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:952138 original size:26 final size:25
Alignment explanation
Indices: 952109--952171 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
952099 ATATTTTTAA
952109 TTAATAATAAAAAATGTAAT-TCAAAT
1 TTAA-AATAAAAAAT-TAATATCAAAT
* * *
952135 TTAAAGTTAAATATTAATAATCAAAT
1 TTAAAATAAAAAATTAAT-ATCAAAT
952161 TTAAAATAAAA
1 TTAAAATAAAA
952172 TACAACAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 4 0.13
25 7 0.23
26 19 0.63
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (25 bp):
TTAAAATAAAAAATTAATATCAAAT
Found at i:952181 original size:25 final size:26
Alignment explanation
Indices: 952129--952184 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
952119 AAAATGTAAT
* * * *
952129 TCAAATTTAAAGTTAAATATTAATAA
1 TCAAATTTAAAATAAAATATCAACAA
952155 TCAAATTTAAAATAAAATA-CAACAA
1 TCAAATTTAAAATAAAATATCAACAA
952180 TCAAA
1 TCAAA
952185 CTTGTTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (26 bp):
TCAAATTTAAAATAAAATATCAACAA
Found at i:952447 original size:7 final size:7
Alignment explanation
Indices: 952415--952455 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
952405 AAAAGATGAT
952415 AAAATATA
1 AAAATA-A
*
952423 AAGATAA
1 AAAATAA
952430 AAAATAA
1 AAAATAA
952437 AAAATAA
1 AAAATAA
*
952444 AAAACAA
1 AAAATAA
952451 AAAAT
1 AAAAT
952456 TTGTATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:955103 original size:41 final size:41
Alignment explanation
Indices: 955013--955094 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
955003 ATAAAGTCTG
* * * * *
955013 AAAAATAAGAACATGATTTATTTTGATATTTAGTAAGTTTA
1 AAAAATAAAAATATGATTTATTTTAATATTTAATAAATTTA
955054 AAAAATAAAAATATGATTTATTTTAATATTTAATAAATTTA
1 AAAAATAAAAATATGATTTATTTTAATATTTAATAAATTTA
955095 GAGTATAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (41 bp):
AAAAATAAAAATATGATTTATTTTAATATTTAATAAATTTA
Found at i:957783 original size:13 final size:13
Alignment explanation
Indices: 957765--957789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
957755 ATATAAATAA
957765 TTTAATATTTATT
1 TTTAATATTTATT
957778 TTTAATATTTAT
1 TTTAATATTTAT
957790 ACTATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTAATATTTATT
Found at i:958003 original size:30 final size:31
Alignment explanation
Indices: 957954--958012 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
957944 CATGTTTTAT
957954 TTTTTATTCAAATTTTTTTTTAAAT-TTAATA
1 TTTTTATTCAAA-TTTTTTTTAAATATTAATA
*
957985 TTTTTATTTAAA-TTTTTTTAAATATTAA
1 TTTTTATTCAAATTTTTTTTAAATATTAA
958013 ATAAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 4 0.15
31 11 0.42
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (31 bp):
TTTTTATTCAAATTTTTTTTAAATATTAATA
Found at i:958429 original size:19 final size:19
Alignment explanation
Indices: 958400--958462 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
958390 CATGATAATA
958400 TTAATTATAATTATATAAAT
1 TTAA-TATAATTATATAAAT
* *
958420 TTAATATAATAAAAT-AAT
1 TTAATATAATTATATAAAT
*
958438 TAAAATATAA-TATA-AAA-
1 T-TAATATAATTATATAAAT
958455 TTAATATA
1 TTAATATA
958463 TAAATATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
16 6 0.17
17 1 0.03
18 8 0.23
19 16 0.46
20 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAATATAATTATATAAAT
Found at i:958447 original size:11 final size:12
Alignment explanation
Indices: 958394--958469 Score: 66
Period size: 12 Copynumber: 6.2 Consensus size: 12
958384 ATTAAGCATG
* *
958394 ATAATATTAATT
1 ATAATATAAAAT
958406 ATAATTATATAAAT
1 ATAA-TATA-AAAT
* *
958420 TTAATATAATAAA
1 ATAATATAA-AAT
958433 ATAAT-TAAAAT
1 ATAATATAAAAT
958444 ATAATATAAAAT
1 ATAATATAAAAT
958456 -TAATATATAAAT
1 ATAATATA-AAAT
958468 AT
1 AT
958470 TTAAAAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
11 14 0.27
12 18 0.35
13 14 0.27
14 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:958467 original size:24 final size:26
Alignment explanation
Indices: 958406--958469 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 26
958396 AATATTAATT
*
958406 ATAATTATATAAATTTAATATAATAAA
1 ATAA-TATATAAATATAATATAATAAA
958433 ATAAT-TA-AAATATAATAT-A-AAA
1 ATAATATATAAATATAATATAATAAA
*
958455 TTAATATATAAATAT
1 ATAATATATAAATAT
958470 TTAAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 7 0.21
23 3 0.09
24 16 0.48
25 2 0.06
26 1 0.03
27 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAATATATAAATATAATATAATAAA
Found at i:958468 original size:19 final size:19
Alignment explanation
Indices: 958394--958469 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 19
958384 ATTAAGCATG
*
958394 ATAATATTAAT-TATAATTAT
1 ATAAAATTAATATATAA--AT
*
958414 ATAAATTTAATATAATAAA-
1 ATAAAATTAATAT-ATAAAT
*
958433 AT--AATTAAAATAT-AAT
1 ATAAAATTAATATATAAAT
958449 ATAAAATTAATATATAAAT
1 ATAAAATTAATATATAAAT
958468 AT
1 AT
958470 TTAAAAATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
15 2 0.04
16 4 0.09
17 7 0.16
18 10 0.22
19 7 0.16
20 10 0.22
21 1 0.02
22 4 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAAATTAATATATAAAT
Found at i:963337 original size:19 final size:20
Alignment explanation
Indices: 963310--963347 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
963300 ATTTTTTTCT
963310 TAAAGTGATGATTT-TTCATC
1 TAAAGTGAT-ATTTATTCATC
963330 TAAA-TGATATTTATTCAT
1 TAAAGTGATATTTATTCAT
963348 TGAGAGATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (20 bp):
TAAAGTGATATTTATTCATC
Found at i:964780 original size:2 final size:2
Alignment explanation
Indices: 964773--964803 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
964763 TAGATGAGAT
964773 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
964804 AATTAGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:965402 original size:2 final size:2
Alignment explanation
Indices: 965395--965430 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
965385 TCTTATGGCA
965395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
965431 GATAGCTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:969689 original size:11 final size:11
Alignment explanation
Indices: 969673--969702 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
969663 ATGCAACCCA
969673 CTTTCAAAGTT
1 CTTTCAAAGTT
969684 CTTTCAAAGTT
1 CTTTCAAAGTT
*
969695 GTTTCAAA
1 CTTTCAAA
969703 AATTTATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (11 bp):
CTTTCAAAGTT
Found at i:970307 original size:15 final size:14
Alignment explanation
Indices: 970277--970311 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
970267 GATTCTTTTA
970277 AATTTT-AAAAATT
1 AATTTTAAAAAATT
970290 AATTTTAAAAAGATT
1 AATTTTAAAAA-ATT
970305 AATTTTA
1 AATTTTA
970312 TTATGACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 4 0.20
15 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
AATTTTAAAAAATT
Found at i:970706 original size:25 final size:26
Alignment explanation
Indices: 970650--970698 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
970640 GTCCTAATCC
* *
970650 AAAAATATTATCTTAATTTATATTTT
1 AAAAATAATATCTTAATTTAAATTTT
970676 AAAAATAATA-CTTAA-TTAAATTT
1 AAAAATAATATCTTAATTTAAATTT
970699 CTATAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 5 0.24
26 9 0.43
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (26 bp):
AAAAATAATATCTTAATTTAAATTTT
Found at i:972601 original size:24 final size:22
Alignment explanation
Indices: 972542--972623 Score: 71
Period size: 24 Copynumber: 3.6 Consensus size: 22
972532 GAAAAATAAA
972542 AATAACAAAAA-AA-AA-AAAAT
1 AATAA-AAAAATAATAATAAAAT
972562 AAATAAATAAAATAATAATAAAAT
1 -AATAAA-AAAATAATAATAAAAT
* *
972586 AATAAAAAATAGTAATAATTAATT
1 AATAAAAAA-A-TAATAATAAAAT
972610 AATTAAAAAAATAA
1 AA-TAAAAAAATAA
972624 AAAGAAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.02
21 9 0.17
22 5 0.10
23 12 0.23
24 18 0.35
25 7 0.13
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (22 bp):
AATAAAAAAATAATAATAAAAT
Found at i:972603 original size:36 final size:31
Alignment explanation
Indices: 972535--972596 Score: 79
Period size: 34 Copynumber: 1.9 Consensus size: 31
972525 TTAACATGAA
972535 AAATAAAAATAACAAAAAAAAAAAAATAAAT
1 AAATAAAAATAACAAAAAAAAAAAAATAAAT
* *
972566 AAATAAAATAATAATAAAATAATAAAAAATA
1 AAAT-AAA-AATAACAAAA-AAAAAAAAATA
972597 GTAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.15
32 3 0.12
33 9 0.35
34 10 0.38
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.18
Consensus pattern (31 bp):
AAATAAAAATAACAAAAAAAAAAAAATAAAT
Found at i:972888 original size:12 final size:12
Alignment explanation
Indices: 972865--972899 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
972855 CGAAACATTT
972865 CATGCATTTCATG
1 CATGC-TTTCATG
972878 CATGCTTTCATG
1 CATGCTTTCATG
*
972890 CATGTTTTCA
1 CATGCTTTCA
972900 CACGTGAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (12 bp):
CATGCTTTCATG
Found at i:973045 original size:29 final size:29
Alignment explanation
Indices: 972998--973057 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
972988 AAGCTGCAGT
**
972998 AATGAAGACAAAAAAGAAACTGCTGCTGC
1 AATGAAGACAAAAAAGAAACAACTGCTGC
** *
973027 AATGAAGACACTAATGAAACAACTGCTGC
1 AATGAAGACAAAAAAGAAACAACTGCTGC
973056 AA
1 AA
973058 ATTGAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.15
Consensus pattern (29 bp):
AATGAAGACAAAAAAGAAACAACTGCTGC
Found at i:973607 original size:22 final size:22
Alignment explanation
Indices: 973582--973628 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
973572 CCAGCAATGA
*
973582 CAGTAGCCATAACAACCAACAC
1 CAGTAGCCACAACAACCAACAC
973604 CAGTAGCCACAACAACCAACAC
1 CAGTAGCCACAACAACCAACAC
973626 CAG
1 CAG
973629 CAGCAGCAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.38, G:0.11, T:0.06
Consensus pattern (22 bp):
CAGTAGCCACAACAACCAACAC
Found at i:987568 original size:44 final size:44
Alignment explanation
Indices: 987469--987554 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
987459 TTCCCATTAT
** *
987469 TTCTGATTTGATGTGTGGTTACCACCCTAGTCAGATTTTTCTTA
1 TTCTGATTTGACATGTGGTTACCACCCTAGTCAAATTTTTCTTA
*
987513 TTCTGATTTGACATGTGGTTACCACCCTAGTTAAATCTTTTC
1 TTCTGATTTGACATGTGGTTACCACCCTAGTCAAAT-TTTTC
987555 CCTTTTTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 32 0.86
45 5 0.14
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (44 bp):
TTCTGATTTGACATGTGGTTACCACCCTAGTCAAATTTTTCTTA
Found at i:987872 original size:42 final size:42
Alignment explanation
Indices: 987602--988226 Score: 329
Period size: 42 Copynumber: 14.9 Consensus size: 42
987592 ATTTTCTTAC
* * *
987602 CCTCAAGTCTACTTGTCGACTTTGACCTTGGAGACT---TTT
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTT
** * * * *
987641 CTACTTTTAGTCTGCTTGTTGGCTTTGACCCTAGAGACTGCCTTAT
1 C--C-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT-T
* * **
987687 -CTCAAGTCTGCTTGTCGGCTTTGACCTTAGAGACT-TTTTT
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTT
** * * * **
987727 ACCCTTTAGTCTACCTGTCGGCTTTGACCCTAGAGACTGCCTCA
1 --CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTT
* * * * ** *
987771 CCTAAAGTTTCCCTGACGGCTTTGA-CTTGGGAGACTTTCTTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTT-GGAGACTGCCTTT
*
987813 CCTTC-AGTTTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTT
1 CC-TCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTT
** * * ** *
987855 CCTCAAGTCTGTTTGTCGACTTTGACCTTAGAGACTTTCTTAC
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT-T
* * * * *
987898 CCTTAAGTCTGTCTGTCGGCTTTGACCCTGAAGACTACCTTAT
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT-T
* * * *** *
987941 -CTCAAGTCTGTCTATCGGCTTTGACCTTGAAGACTTTGTTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTT
** * * * *
987982 CCTTTAGTCTGCCTGTTGGCTTTGACCCTAGAAACTG-CTTAT
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT-T
* * * * * *
988024 -CTCAAGTTTACCTATCGGTTTTGACCTTGGAGACTTTCCTAT
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCCTTT
* * * * * *
988066 CTTC-AGTCTGCTTGTCGGTTTTGACCTTAGAGACTTTCC-TA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCCTTT
** ** * * * * **
988107 CCTTTAGTCTGTTTGTCGGTTTTGACCCTAGAGACTACCTCA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTT
* * **
988149 CCTCAAGTTTGCCTGTCGGCATTGACCTTGGAGACTGCCTCA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTT
*
988191 CCTCAAGTCTGCCTGTTGGCTTTGACCTTGGAGACT
1 CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACT
988227 TTTCCACCTT
Statistics
Matches: 450, Mismatches: 113, Indels: 43
0.74 0.19 0.07
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 38 0.08
42 333 0.74
43 73 0.16
44 1 0.00
45 2 0.00
46 1 0.00
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (42 bp):
CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTT
Found at i:987900 original size:169 final size:168
Alignment explanation
Indices: 987621--988228 Score: 575
Period size: 169 Copynumber: 3.6 Consensus size: 168
987611 TACTTGTCGA
* * * *
987621 CTTTGACCTTGGAGACTTT-TCTACTTTTAGTCTGCTTGTTGGCTTTGACCCTAGAGACTGCCTT
1 CTTTGACCTTGGAGACTTTCT-TACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTT
* * * *
987685 ATCTCAAGTCTGCTTGTCGGCTTTGACCTTAGAGACTTTTTTACCCTTTAGTCTACCTGTCGGCT
65 ATCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCCTTAAGTCTGCCTGTCGGCT
* * **
987750 TTGACCCTAGAGACTGCCTCACCTAAAGTTTCCCTGACGG
130 TTGACCCTAGAGACTACCT-ACCTAAAGTCTGTCTGACGG
* * *
987790 CTTTGA-CTTGGGAGACTTTCTTACCTTCAGTTTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
1 CTTTGACCTT-GGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTT
** * *
987854 -TCCTCAAGTCTGTTTGTCGACTTTGACCTTAGAGACTTTCTTACCCTTAAGTCTGTCTGTCGGC
65 AT-CTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCCTTAAGTCTGCCTGTCGGC
* *
987918 TTTGACCCT-GAAGACTACCTTATCTCAAGTCTGTCT-ATCGG
129 TTTGACCCTAG-AGACTACC-TACCTAAAGTCTGTCTGA-CGG
* * * * *
987959 CTTTGACCTTGAAGACTTTGTTACCTTTAGTCTGCCTGTTGGCTTTGACCCTAGAAACTG-CTTA
1 CTTTGACCTTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTTA
* * * * * * * * * *
988023 TCTCAAGTTTACCTATCGGTTTTGACCTTGGAGACTTTCCTA-TCTTCAGTCTGCTTGTCGGTTT
66 TCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCCTTAAGTCTGCCTGTCGGCTT
* * ** * *
988087 TGACCTTAGAGACTTTCCTACCTTTAGTCTGTTTGTCGG
131 TGACCCTAGAGAC-TACCTACCTAAAGTCTGTCTGACGG
* * * ** * * * * * *
988126 TTTTGACCCTAGAGACTACCTCACC-TCAAGTTTGCCTGTCGGCATTGACCTTGGAGACTGCCTC
1 CTTTGACCTTGGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTT
* * *
988190 ACCTCAAGTCTGCCTGTTGGCTTTGACCTTGGAGACTTT
65 ATCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTT
988229 TCCACCTTTT
Statistics
Matches: 356, Mismatches: 70, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
166 1 0.00
167 85 0.24
168 80 0.22
169 185 0.52
170 5 0.01
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (168 bp):
CTTTGACCTTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTTA
TCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCTTACCCTTAAGTCTGCCTGTCGGCTT
TGACCCTAGAGACTACCTACCTAAAGTCTGTCTGACGG
Found at i:988176 original size:209 final size:210
Alignment explanation
Indices: 987818--988217 Score: 527
Period size: 209 Copynumber: 1.9 Consensus size: 210
987808 TCTTACCTTC
* * * *
987818 AGTTTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTTCCTCAAGTCTGTTTGTCGACTTTGACCT
1 AGTTTACCTATCGGCTTTGACCTTGGAGACTGCCTATCCTCAAGTCTGCTTGTCGACTTTGACCT
* * *
987883 TAGAGACTTTCTTACCCTTAAGTCTGTCTGTCGGCTTTGACCCTGAAGACTACCTTATCTCAAGT
66 TAGAGACTTTCCTACCCTTAAGTCTGTCTGTCGGCTTTGACCCTGAAGACTACCTCACCTCAAGT
* * *** * **
987948 CTGTCTATCGGCTTTGACCTTGAAGACTTTGTTACCTTTAGTCTGCCTGTTGGCTTTGACCCTAG
131 CTGCCTATCGGCATTGACCTTGAAGACTGCCTCACCTCAAGTCTGCCTGTTGGCTTTGACCCTAG
988013 AAACTGCTTATCTCA
196 AAACTGCTTATCTCA
* * * **
988028 AGTTTACCTATCGGTTTTGACCTTGGAGACTTTCCTATCTTC-AGTCTGCTTGTCGGTTTTGACC
1 AGTTTACCTATCGGCTTTGACCTTGGAGAC-TGCCTATCCTCAAGTCTGCTTGTCGACTTTGACC
* * *
988092 TTAGAGACTTTCCTA-CCTTTAGTCTGTTTGTCGGTTTTGACCCT-AGAGACTACCTCACCTCAA
65 TTAGAGACTTTCCTACCCTTAAGTCTGTCTGTCGGCTTTGACCCTGA-AGACTACCTCACCTCAA
* * *
988155 GTTTGCCTGTCGGCATTGACCTTGGAGACTGCCTCACCTCAAGTCTGCCTGTTGGCTTTGACC
129 GTCTGCCTATCGGCATTGACCTTGAAGACTGCCTCACCTCAAGTCTGCCTGTTGGCTTTGACC
988218 TTGGAGACTT
Statistics
Matches: 162, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
208 1 0.01
209 93 0.57
210 60 0.37
211 8 0.05
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (210 bp):
AGTTTACCTATCGGCTTTGACCTTGGAGACTGCCTATCCTCAAGTCTGCTTGTCGACTTTGACCT
TAGAGACTTTCCTACCCTTAAGTCTGTCTGTCGGCTTTGACCCTGAAGACTACCTCACCTCAAGT
CTGCCTATCGGCATTGACCTTGAAGACTGCCTCACCTCAAGTCTGCCTGTTGGCTTTGACCCTAG
AAACTGCTTATCTCA
Found at i:988235 original size:84 final size:83
Alignment explanation
Indices: 987597--988242 Score: 553
Period size: 84 Copynumber: 7.7 Consensus size: 83
987587 TATGAATTTT
* * * * * *
987597 CTTACCCTCAAGTCTACTTGTCGACTTTGACCTTGGAGACTTTTCTACTTTTAGTCTGCTTGTTG
1 CTTA-CCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TTTCTACCTTTAGTCTGCCTGTCG
987662 GCTTTGACCCTAGAGACTGC
64 GCTTTGACCCTAGAGACTGC
* * * * *
987682 CTTATCTCAAGTCTGCTTGTCGGCTTTGACCTTAGAGACTTTTTTACCCTTTAGTCTACCTGTCG
1 CTTACCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TTTCTA-CCTTTAGTCTGCCTGTCG
987747 GCTTTGACCCTAGAGACTGC
64 GCTTTGACCCTAGAGACTGC
* * * * * * *
987767 CTCACCTAAAGTTTCCCTGACGGCTTTGA-CTTGGGAGACTTTCTTACCTTCAGTTTGCCTGTCG
1 CTTACCTCAAGTCTGCCTGTCGGCTTTGACCTT-GGAGACTTTC-TACCTTTAGTCTGCCTGTCG
* *
987831 GCTTTGACCTTGGAGACTGC
64 GCTTTGACCCTAGAGACTGC
* ** * * * *
987851 CTTTCCTCAAGTCTGTTTGTCGACTTTGACCTTAGAGACTTTCTTACCCTTAAGTCTGTCTGTCG
1 CTTACCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTC-TA-CCTTTAGTCTGCCTGTCG
*
987916 GCTTTGACCCT-GAAGACTAC
64 GCTTTGACCCTAG-AGACTGC
* * * * * *
987936 CTTATCTCAAGTCTGTCTATCGGCTTTGACCTTGAAGACTTTGTTACCTTTAGTCTGCCTGTTGG
1 CTTACCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTT-CTACCTTTAGTCTGCCTGTCGG
*
988001 CTTTGACCCTAGAAACTG-
65 CTTTGACCCTAGAGACTGC
* * * * * * * *
988019 CTTATCTCAAGTTTACCTATCGGTTTTGACCTTGGAGACTTTCCTATCTTCAGTCTGCTTGTCGG
1 CTTACCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTT-CTACCTTTAGTCTGCCTGTCGG
* * *
988084 TTTTGACCTTAGAGACTTTC
65 CTTTGACCCTAGAGAC-TGC
** ** * * * ** ** *
988104 C-TACCTTTAGTCTGTTTGTCGGTTTTGACCCTAGAGACTACCTCACCTCAAGTTTGCCTGTCGG
1 CTTACCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCT-ACCTTTAGTCTGCCTGTCGG
* * *
988168 CATTGACCTTGGAGACTGC
65 CTTTGACCCTAGAGACTGC
* * * *
988187 CTCACCTCAAGTCTGCCTGTTGGCTTTGACCTTGGAGACTTTTCCACCTTTTGTCT
1 CTTACCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TTTCTACCTTTAGTCT
988243 ACCCGTCGAC
Statistics
Matches: 445, Mismatches: 103, Indels: 27
0.77 0.18 0.05
Matches are distributed among these distances:
83 72 0.16
84 231 0.52
85 142 0.32
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.38
Consensus pattern (83 bp):
CTTACCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTACCTTTAGTCTGCCTGTCGGC
TTTGACCCTAGAGACTGC
Found at i:988996 original size:5 final size:5
Alignment explanation
Indices: 988986--989015 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
988976 AAACGACAAA
*
988986 CATTG CATTG CATTG CATTG CATTT CATTG
1 CATTG CATTG CATTG CATTG CATTG CATTG
989016 TTTTCATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (5 bp):
CATTG
Found at i:989692 original size:22 final size:22
Alignment explanation
Indices: 989642--989696 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
989632 GAAGAGAGCG
* *
989642 AGCACCAACCAAAACTCCAGTA
1 AGCAGCAACCAAAACTCCAGCA
**
989664 AATAGCAACCAAAACTCCAGCA
1 AGCAGCAACCAAAACTCCAGCA
989686 AGCAGCAACCA
1 AGCAGCAACCA
989697 TACCAGCAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.35, G:0.11, T:0.07
Consensus pattern (22 bp):
AGCAGCAACCAAAACTCCAGCA
Found at i:996351 original size:22 final size:23
Alignment explanation
Indices: 996323--996366 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
996313 GTGAGCAAGC
996323 AAAAAAATAGA-AAAAAAGAAAG
1 AAAAAAATAGAGAAAAAAGAAAG
*
996345 AAAAAAATAGAGAAAATAGAAA
1 AAAAAAATAGAGAAAAAAGAAA
996367 ATTTAAGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (23 bp):
AAAAAAATAGAGAAAAAAGAAAG
Found at i:997670 original size:149 final size:148
Alignment explanation
Indices: 997260--997696 Score: 557
Period size: 145 Copynumber: 3.0 Consensus size: 148
997250 ATTTTATCAC
** * *
997260 TAAATAAAAATTATT-TCCTTAATTTTTCAAGGCTTTAATATTCTTATGGGTATCCGTAGAGGTA
1 TAAATAAAAATTATTAT-CTTAATTTTTCAAGATTTTAATATTCTTATGGTTTTCCGTAGAGGTA
* * * * * *
997324 TA-AAAGTCTCCAAAACTTTTCATATCTTTTCAGTTCTCCATTAAGGTATGAACTAAATTTTTTC
65 TAGAAA-TCTTCAAAACTTTTCGTATCTTTTTAGTTTTCCATTAAGGTACGAAATAAATTTTTT-
997388 AAAAATTTAAAAAA-TTAAAT
128 AAAAATTTAAAAAATTTAAAT
** * *
997408 T--A-AAAAATTATTATCTTAATTTTTCAAGATTCCCAATATTCTTATGGTTTCCCGTTG-GGTA
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATT-TTAATATTCTTATGGTTTTCCGTAGAGGTA
* * *
997469 TAGAAATCTTCAAAACTTTTCGTATC-TTTTCGATTTTTCGTTAAGGTACGAAATAAATTTTTTA
65 TAGAAATCTTCAAAACTTTTCGTATCTTTTTAG-TTTTCCATTAAGGTACGAAATAAATTTTTTA
*
997533 AAAATTAAAAAAATTTAAAT
129 AAAATTTAAAAAATTTAAAT
* *
997553 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTGTAATATTCTTATGGTTTTCCATAGAAGTA
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTT-TAATATTCTTATGGTTTTCCGTAGAGGTA
* *
997618 TAGAAATCTTCAAAACTTTTCGTATCTTTTTAGTTTTCCATTAAGATCCGAAATAAATTTTTTAA
65 TAGAAATCTTCAAAACTTTTCGTATCTTTTTAGTTTTCCATTAAGGTACGAAATAAATTTTTTAA
*
997683 AAATTTTAAAAATT
130 AAATTTAAAAAATT
997697 ATTATCTTAA
Statistics
Matches: 247, Mismatches: 31, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
144 17 0.07
145 81 0.33
146 24 0.10
147 1 0.00
148 50 0.20
149 69 0.28
150 5 0.02
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (148 bp):
TAAATAAAAATTATTATCTTAATTTTTCAAGATTTTAATATTCTTATGGTTTTCCGTAGAGGTAT
AGAAATCTTCAAAACTTTTCGTATCTTTTTAGTTTTCCATTAAGGTACGAAATAAATTTTTTAAA
AATTTAAAAAATTTAAAT
Found at i:997785 original size:132 final size:132
Alignment explanation
Indices: 997556--998085 Score: 528
Period size: 141 Copynumber: 3.9 Consensus size: 132
997546 TTTAAATTAA
* * *
997556 ATAAAAATTATTATCTTAATTTTTCAAGATTTGTAATATTCTTATGGTTTTCCATAGAAGTATAG
1 ATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCTATAGAGGTATAG
* *
997621 AAATCTTCAAAACTTTTCGTATCTTTTTAGTTTTCCATTAAGATCCGAAATAAATTTTTTAAAAA
66 AAATCTTCAAAACTTTTCGTATCTTTTTAGTTTTCCATTAAGGTGCGAAATAAATTTTTTAAAAA
997686 TT
131 TT
* * ** * * *
997688 TTAAAAATTATTATCTTAATTTTTCAAAATTTCTAATATTCAAATGATTTTCTGTAGGGGTATAG
1 ATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCTATAGAGGTATAG
* * *
997753 AAATCTTCAAAACTTTTCGTAT-TTTTTCAGTTTTCTATTAAGGTGCGGAATGAATTTTTCAAAA
66 AAATCTTCAAAACTTTTCGTATCTTTTT-AGTTTTCCATTAAGGTGCGAAAT-AAATTTT-----
997817 ATTAAAAATT
124 -TTAAAAATT
* * *
997827 AAATAAAAATTATCATCTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTT-TCATAG-GGAT
1 --ATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCT-ATAGAGG-T
* * * * * * * *
997890 ATAGAAATATT-AAAACAATTTCATATCTTTTTGGTTTTTCATGAAGGTACGAAATGAATTTTTC
62 ATAGAAATCTTCAAAAC-TTTTCGTATCTTTTTAGTTTTCCATTAAGGTGCGAAATAAATTTTT-
*
997954 AAAAAATAAAAAGTAA
125 ------TAAAAA-T-T
* * *
997970 ATAAAAATTACTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCTGTAGAGGTATAA
1 ATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCTATAGAGGTATAG
* * * *
998035 AAATCTTGAAAACTTTTCGTATCTTTTCAATTCTCCATTAAGGTGCGAAAT
66 AAATCTTCAAAACTTTTCGTATCTTTTTAGTTTTCCATTAAGGTGCGAAAT
998086 GACATTTCGA
Statistics
Matches: 321, Mismatches: 51, Indels: 43
0.77 0.12 0.10
Matches are distributed among these distances:
131 5 0.02
132 96 0.30
133 6 0.02
134 1 0.00
139 9 0.03
140 13 0.04
141 177 0.55
142 14 0.04
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (132 bp):
ATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCTATAGAGGTATAG
AAATCTTCAAAACTTTTCGTATCTTTTTAGTTTTCCATTAAGGTGCGAAATAAATTTTTTAAAAA
TT
Found at i:998077 original size:282 final size:281
Alignment explanation
Indices: 997260--998092 Score: 866
Period size: 273 Copynumber: 2.9 Consensus size: 281
997250 ATTTTATCAC
* ** * * * * * *
997260 TAAATAAAAATTAT-TTCCTTAATTTTTCAAGGCTT-TAATATTCTTATGGGTATCCGTAGAGGT
1 TAAATAAAAATTATCAT-CTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTTCCATAGAAGT
* * * * * * *
997323 ATA-AAAGTCTCCAAAACTTTTCATATCTTTTCAGTTCTCCATTAAGGTATGAACTAAATTTTTT
65 ATAGAAA-TATTCAAAACATTTCATATCTTTTTAGTTTTCCATTAAGGTACGAAATAAA-TTTTT
* *
997387 CAAAAATTTAAAAAATTAAATTAAAAAATTATTATCTTAATTTTTCAAGATTCCCAATATTCTTA
128 CAAAAA--T-AAAAA-TAAA-T-AAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTA
* * * * * * *
997452 TGGTTTCCCGTTGGGTATAGAAATCTTCAAAACTTTTCGTATCTTTTCGATTTTTCGTTAAGGTA
187 TGGTTTTCTGTAGGGTATAGAAATCTTCAAAACTTTTCGTATCTTTTCAATTTTCCATTAAGGTG
* *
997517 CGAAATAAATTTTTTAAAAATTAAAAAAATTTAAAT
252 CGAAATGAATTTTTCAAAAATT----AAA--TAAAT
* * * *
997553 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTGTAATATTCTTATGGTTTTCCATAGAAGTA
1 TAAATAAAAATTATCATCTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTTCCATAGAAGTA
* * * * *
997618 TAGAAATCTTCAAAACTTTTCGTATCTTTTTAGTTTTCCATTAAGATCCGAAATAAATTTTT---
66 TAGAAATATTCAAAACATTTCATATCTTTTTAGTTTTCCATTAAGGTACGAAATAAATTTTTCAA
** * ** *
997680 ---TAAAAAT-TTTAAAAATTATTATCTTAATTTTTCAAAATTTCTAATATTCAAATGATTTTCT
131 AAATAAAAATAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCT
* * * *
997741 GTAGGGGTATAGAAATCTTCAAAACTTTTCGTATTTTTTCAGTTTTCTATTAAGGTGCGGAATGA
196 GTA-GGGTATAGAAATCTTCAAAACTTTTCGTATCTTTTCAATTTTCCATTAAGGTGCGAAATGA
997806 ATTTTTCAAAAATT-AA-AAAT
260 ATTTTTCAAAAATTAAATAAAT
* *
997826 TAAATAAAAATTATCATCTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTTTCATAG-GGAT
1 TAAATAAAAATTATCATCTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTTCCATAGAAG-T
* * * *
997890 ATAGAAATATT-AAAACAATTTCATATCTTTTTGGTTTTTCATGAAGGTACGAAATGAATTTTTC
65 ATAGAAATATTCAAAAC-ATTTCATATCTTTTTAGTTTTCCATTAAGGTACGAAATAAATTTTTC
*
997954 AAAAAATAAAAAGTAAATAAAAATTACTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTT
129 -AAAAATAAAAA-TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTT
* * *
998019 TTCTGTAGAGGTATAAAAATCTTGAAAACTTTTCGTATCTTTTCAATTCTCCATTAAGGTGCGAA
192 TTCTGTAG-GGTATAGAAATCTTCAAAACTTTTCGTATCTTTTCAATTTTCCATTAAGGTGCGAA
998084 ATGACATTT
256 ATGA-ATTT
998093 CGAAATTTAC
Statistics
Matches: 458, Mismatches: 65, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
272 6 0.01
273 108 0.24
276 2 0.00
280 51 0.11
281 68 0.15
282 103 0.22
283 5 0.01
284 5 0.01
285 1 0.00
293 35 0.08
294 71 0.16
295 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (281 bp):
TAAATAAAAATTATCATCTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTTCCATAGAAGTA
TAGAAATATTCAAAACATTTCATATCTTTTTAGTTTTCCATTAAGGTACGAAATAAATTTTTCAA
AAATAAAAATAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCT
GTAGGGTATAGAAATCTTCAAAACTTTTCGTATCTTTTCAATTTTCCATTAAGGTGCGAAATGAA
TTTTTCAAAAATTAAATAAAT
Found at i:998127 original size:282 final size:278
Alignment explanation
Indices: 997277--998112 Score: 805
Period size: 282 Copynumber: 3.0 Consensus size: 278
997267 AAATTATTTC
** * * * * * * * *
997277 CTTAATTTTTCAAGGCTT-TAATATTCTTATGGGTATCCGTAGAGGTATA-AAAGTCTCCAAAAC
1 CTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTTCCATAGAAGTATAGAAA-TATTCAAAAC
* * * * *
997340 TTTTCATATCTTTTCAGTTCTCCATTAAGGTATGAACTAAATTTTTTCAAAAATTTAAAAAATTA
65 ATTTCATATCTTTTTAGTTTTCCATTAAGGTACGAAATAAA-TTTTTCAAAAA--T-AAAAA-TA
* * * * *
997405 AATTAAAAAATTATTATCTTAATTTTTCAAGATTCCCAATATTCTTATGGTTTCCCGTTGGGTAT
125 AA-T-AAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCTGTAGGGTAT
* * * * * *
997470 AGAAATCTTCAAAACTTTTCGTATCTTTTCGATTTTTCGTTAAGGTACGAAATAAATTTTTTAAA
188 AGAAATCTTCAAAACTTTTCGTATCTTTTCAATTTTCCATTAAGGTGCGAAATGAA--TTTTCAA
* *
997535 AATTAAAAAAATTTAAATTAAATAAAAATTATTAT
251 AATT-TAAAAATTT-AA-T--AT--AAATTATCAT
* * * * *
997570 CTTAATTTTTCAAGATTTGTAATATTCTTATGGTTTTCCATAGAAGTATAGAAATCTTCAAAACT
1 CTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTTCCATAGAAGTATAGAAATATTCAAAACA
* * * **
997635 TTTCGTATCTTTTTAGTTTTCCATTAAGATCCGAAATAAATTTTT------TAAAAAT-TTTAAA
66 TTTCATATCTTTTTAGTTTTCCATTAAGGTACGAAATAAATTTTTCAAAAATAAAAATAAATAAA
* ** *
997693 AATTATTATCTTAATTTTTCAAAATTTCTAATATTCAAATGATTTTCTGTAGGGGTATAGAAATC
131 AATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCTGTA-GGGTATAGAAATC
* * * * *
997758 TTCAAAACTTTTCGTATTTTTTCAGTTTTCTATTAAGGTGCGGAATGAATTTTTCAAAAATTAAA
195 TTCAAAACTTTTCGTATCTTTTCAATTTTCCATTAAGGTGCGAAATGAA-TTTTCAAAATTTAAA
* *
997823 AATTAAATAAAAATTATCAT
259 AATTTAATATAAATTATCAT
* *
997843 CTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTTTCATAG-GGATATAGAAATATT-AAAAC
1 CTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTTCCATAGAAG-TATAGAAATATTCAAAAC
* * * *
997906 AATTTCATATCTTTTTGGTTTTTCATGAAGGTACGAAATGAATTTTTCAAAAAATAAAAAGTAAA
65 -ATTTCATATCTTTTTAGTTTTCCATTAAGGTACGAAATAAATTTTTC-AAAAATAAAAA-TAAA
* *
997971 TAAAAATTACTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCTGTAGAGGTATAAA
127 TAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCTGTAG-GGTATAGA
* * *
998036 AATCTTGAAAACTTTTCGTATCTTTTCAATTCTCCATTAAGGTGCGAAATGACA-TTTCGAAATT
191 AATCTTCAAAACTTTTCGTATCTTTTCAATTTTCCATTAAGGTGCGAAATGA-ATTTTCAAAATT
* *
998100 TACAACTTTAATA
255 TAAAAATTTAATA
998113 CTATTTTCTC
Statistics
Matches: 454, Mismatches: 73, Indels: 44
0.80 0.13 0.08
Matches are distributed among these distances:
272 6 0.01
273 97 0.21
275 1 0.00
277 1 0.00
278 2 0.00
279 7 0.02
280 61 0.13
281 74 0.16
282 103 0.23
283 2 0.00
284 5 0.01
285 1 0.00
293 21 0.05
294 70 0.15
295 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (278 bp):
CTTAATTTTTCAAGATTTCTAATATTCTCATAGTTTTCCATAGAAGTATAGAAATATTCAAAACA
TTTCATATCTTTTTAGTTTTCCATTAAGGTACGAAATAAATTTTTCAAAAATAAAAATAAATAAA
AATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTCTGTAGGGTATAGAAATCT
TCAAAACTTTTCGTATCTTTTCAATTTTCCATTAAGGTGCGAAATGAATTTTCAAAATTTAAAAA
TTTAATATAAATTATCAT
Found at i:1001907 original size:20 final size:20
Alignment explanation
Indices: 1001884--1001924 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1001874 TATATACGGC
1001884 TAAGGAAAT-CTATCGATACA
1 TAAGGAAATGC-ATCGATACA
*
1001904 TAAGTAAATGCATCGATACA
1 TAAGGAAATGCATCGATACA
1001924 T
1 T
1001925 TTACTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (20 bp):
TAAGGAAATGCATCGATACA
Found at i:1004458 original size:79 final size:79
Alignment explanation
Indices: 1004325--1004688 Score: 392
Period size: 79 Copynumber: 4.6 Consensus size: 79
1004315 TCATTGATGT
* * * * * * *
1004325 TTTTATTTCCAAAATATGATTTTCTTCACCATCGGGGATATTCCAACCCTGTTATTTTTGAGGGG
1 TTTTATTTCTAAAATATCAATTT-TTCACCATCGGGGATACTCTAACCCTGTTATTTTTGAAGAG
* *
1004390 ATACTCCAACTTCGA
65 ATACTCTAACCTCGA
* *
1004405 TTTTATTTCTAAAATATCAATTTTTTACCATCGGGGACACTCTAA-CCTCGTTATTTTTG-AGAG
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCT-GTTATTTTTGAAGA-
* *
1004468 GGTACTCTAACCTCAA
64 GATACTCTAACCTCGA
* * * * * *
1004484 TTTTCTTTCTAAAACATCGATTTTTCACCATCGAGAATACTCTAACCCTGTTATTTTCGAAGAGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCTGTTATTTTTGAAGAGA
*
1004549 TACTCTAACCTCGG
66 TACTCTAACCTCGA
* * * * ** *
1004563 TTTTATTTCTAAAACATCAATTTTTCACCATTGGGGATATTCCAACCCCATTGTTTTTGAAGAGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCTGTTATTTTTGAAGAGA
*
1004628 TACTCTAACATCGA
66 TACTCTAACCTCGA
* * * *
1004642 TTTTATTTC-AAAATATTAACTTTTCACAATTGGGGATACTCTAACCC
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCTAACCC
1004689 ATTTTTATTT
Statistics
Matches: 237, Mismatches: 43, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
78 36 0.15
79 175 0.74
80 26 0.11
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (79 bp):
TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCTGTTATTTTTGAAGAGA
TACTCTAACCTCGA
Found at i:1009569 original size:237 final size:235
Alignment explanation
Indices: 1009125--1009868 Score: 804
Period size: 237 Copynumber: 3.1 Consensus size: 235
1009115 TATTTTAGAG
* ** * * * * *
1009125 ATAAAAATGGGGTCAGAGTA-CCCTCTCAAAAATAACGGGGTTGGAGTATCCCT-AGTGGTGGAA
1 ATAAAACTGGGGTTGGAGTATCCC-CTCAGAAATAACGAGGTTGGAGTATCCTTGA-TTGTGAAA
* * * * * *
1009188 AATCAATGTTTTGAAAATAAAATTGGGGTTGAAGTATCCCTT-TAGAAATAATGGGGTTAGAGTA
64 AATTAGTGTTTTGGAAATAAAACTGGGGTTGAAGTATCCCTTCGA-AAATAATGGGGTTGGAGTA
* * * * * * *
1009252 TCCCCGATTGTAGAAAATTGGTCTTTTGAAAATAAAACTGGAGTTAGAGTATCCCCTCGAAAATA
128 TCCCCGATTGTAAAAAATTGGTGTTTTGGAAATAAATCAGG-GTTAGAGTATTCCTTCGAAAATA
* * *
1009317 ATGGGCTTGGAGTATCCTCGATTCTGAAAAACTGGTGTTTTGGAA
192 ATGGGGTTGGAGTATCC-CGATTGTGAAAAATTGGTGTTTTGGAA
* *
1009362 ATAAAACTAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCTTTGATTGTGAAAAA
1 ATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCTTGATTGTGAAAAA
* * *
1009427 TTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAATAGGGTTGGAGTATCC
66 TTAGTGTTTTGGAAATAAAACTGGGGTTGAAGTATCCCTTCGAAAATAATGGGGTTGGAGTATCC
* * * *
1009492 CCGATTGTAAAAAATTGATGTTTTGGAAATACAATCAAGGTTGGAATATTCCTTCGAAAATAATG
131 CCGATTGTAAAAAATTGGTGTTTTGGAAATA-AATCAGGGTTAGAGTATTCCTTCGAAAATAATG
1009557 GGGTTGGAGTATCCCAGATTGTGAAAAATTGGTGTTTTGGAA
195 GGGTTGGAGTATCCC-GATTGTGAAAAATTGGTGTTTTGGAA
* * * * *
1009599 TTAAAA-TCGGGGTTGGAGTATCCCCTC-GAAAACAAC-AGGGTTAGAGTATCCTCGATTATGAA
1 ATAAAACT-GGGGTTGGAGTATCCCCTCAG-AAATAACGA-GGTTGGAGTATCCTTGATTGTGAA
* * * * *
1009661 AAATTGGTGTTTTGGAACTAAAACTAGGGTTGAAATATCCCTTCGAAAATAACGGGGTTGGAGTA
63 AAATTAGTGTTTTGGAAATAAAACTGGGGTTGAAGTATCCCTTCGAAAATAATGGGGTTGGAGTA
** * *
1009726 TCCCCGATTGGGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTTAGAGTA-TCTTTC-AGAAAT
128 TCCCCGATTGTAAAAAATTGGTGTTTTGGAAAT-AAATCAGGGTTAGAGTATTCCTTCGA-AAAT
*** * * *
1009789 ACCAGAGTTGGAGTATCCACAATTGTGAAAAATTGATGTTTTGGAA
191 AATGGGGTTGGAGTATCC-CGATTGTGAAAAATTGGTGTTTTGGAA
* * *
1009835 ATAAAACCGGGGTTTGAGTAT-CCCTGAGAAATAA
1 ATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAA
1009869 AAACATGAAT
Statistics
Matches: 427, Mismatches: 67, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
235 10 0.02
236 69 0.16
237 338 0.79
238 10 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (235 bp):
ATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCTTGATTGTGAAAAA
TTAGTGTTTTGGAAATAAAACTGGGGTTGAAGTATCCCTTCGAAAATAATGGGGTTGGAGTATCC
CCGATTGTAAAAAATTGGTGTTTTGGAAATAAATCAGGGTTAGAGTATTCCTTCGAAAATAATGG
GGTTGGAGTATCCCGATTGTGAAAAATTGGTGTTTTGGAA
Found at i:1009584 original size:79 final size:79
Alignment explanation
Indices: 1009140--1009859 Score: 674
Period size: 79 Copynumber: 9.1 Consensus size: 79
1009130 AATGGGGTCA
* * * *** *
1009140 GAGTA-CCCTCTCAAAAATAACGGGGTTGGAGTATCCCTAG-TGGTGGAAAATCAATGTTTTGAA
1 GAGTATCCCT-TCGAAAATAACGGGGTTGGAGTATCCC-AGATTGTGAAAAATTGGTGTTTTGGA
**
1009203 AATAAAATTGGGGTTG
64 AATAAAATCAGGGTTG
* * * * * * *
1009219 AAGTATCCCTT-TAGAAATAATGGGGTTAGAGTATCCCCGATTGT-AGAAAATTGGTCTTTTGAA
1 GAGTATCCCTTCGA-AAATAACGGGGTTGGAGTATCCCAGATTGTGA-AAAATTGGTGTTTTGGA
* *
1009282 AATAAAA-CTGGAGTTA
64 AATAAAATCAGG-GTTG
* * * * *
1009298 GAGTATCCCCTCGAAAATAATGGGCTTGGAGTATCCTC-GATTCTGAAAAACTGGTGTTTTGGAA
1 GAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCC-CAGATTGTGAAAAATTGGTGTTTTGGAA
1009362 ATAAAA-CTAGGGTTG
65 ATAAAATC-AGGGTTG
* * *** *
1009377 GAGTATCCCCTC-AGAAATAACGAGGTTGGAGTATCTTTGATTGTGAAAAATTAGTGTTTTGGAA
1 GAGTATCCCTTCGA-AAATAACGGGGTTGGAGTATCCCAGATTGTGAAAAATTGGTGTTTTGGAA
* *
1009441 ATAAAACCGGGGTTG
65 ATAAAATCAGGGTTG
** * * *
1009456 GAGTATCCCTTCGAAAATAATAGGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTGGAAA
1 GAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCAGATTGTGAAAAATTGGTGTTTTGGAAA
* *
1009521 TACAATCAAGGTTG
66 TAAAATCAGGGTTG
* * * *
1009535 GAATATTCCTTCGAAAATAATGGGGTTGGAGTATCCCAGATTGTGAAAAATTGGTGTTTTGGAAT
1 GAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCAGATTGTGAAAAATTGGTGTTTTGGAAA
*
1009600 TAAAATCGGGGTTG
66 TAAAATCAGGGTTG
* * * * *
1009614 GAGTATCCCCTCGAAAACAACAGGGTTAGAGTATCCTC-GATTATGAAAAATTGGTGTTTTGGAA
1 GAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCC-CAGATTGTGAAAAATTGGTGTTTTGGAA
*
1009678 CTAAAA-CTAGGGTTG
65 ATAAAATC-AGGGTTG
* * * * *
1009693 AAATATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGGGAAAAATTGGTGTTTTAGAAA
1 GAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCAGATTGTGAAAAATTGGTGTTTTGGAAA
*
1009758 TAAAATCAGGGTTA
66 TAAAATCAGGGTTG
* * * * *
1009772 GAGTAT-CTTTC-AGAAATACCAGAGTTGGAGTATCCACA-ATTGTGAAAAATTGATGTTTTGGA
1 GAGTATCCCTTCGA-AAATAACGGGGTTGGAGTATCC-CAGATTGTGAAAAATTGGTGTTTTGGA
* * *
1009834 AATAAAACCGGGGTTT
64 AATAAAATCAGGGTTG
1009850 GAGTATCCCT
1 GAGTATCCCT
1009860 GAGAAATAAA
Statistics
Matches: 528, Mismatches: 93, Indels: 40
0.80 0.14 0.06
Matches are distributed among these distances:
77 1 0.00
78 70 0.13
79 444 0.84
80 13 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (79 bp):
GAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCAGATTGTGAAAAATTGGTGTTTTGGAAA
TAAAATCAGGGTTG
Found at i:1012294 original size:20 final size:20
Alignment explanation
Indices: 1012269--1012306 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1012259 TGATATAATA
1012269 AACAATATATCAATACAATG
1 AACAATATATCAATACAATG
* *
1012289 AACAATGTATCGATACAA
1 AACAATATATCAATACAA
1012307 ACTGTGGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (20 bp):
AACAATATATCAATACAATG
Found at i:1013011 original size:43 final size:42
Alignment explanation
Indices: 1012945--1013051 Score: 153
Period size: 42 Copynumber: 2.5 Consensus size: 42
1012935 AAAAGGAGTA
* *
1012945 TGTCCTGCTCTTCGAGGATAAAAGAAAAGAAGGAAATTAAA-TG
1 TGTCCTGCTCTTTGAGGACAAAAGAAAA-AAGGAAA-TAAAGTG
*
1012988 TGTCCTGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTG
1 TGTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAATAAAGTG
*
1013030 CGTCCTGCTCTTTGAGGACAAA
1 TGTCCTGCTCTTTGAGGACAAA
1013052 GGGAAAAGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
41 4 0.07
42 30 0.51
43 25 0.42
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (42 bp):
TGTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAATAAAGTG
Found at i:1013035 original size:42 final size:42
Alignment explanation
Indices: 1012946--1013089 Score: 168
Period size: 41 Copynumber: 3.4 Consensus size: 42
1012936 AAAGGAGTAT
* * * *
1012946 GTCCTGCTCTTCGAGGATAAAAGAAAAGAAGGAAATTAAA-TGT
1 GTCCTGCTCTTTGAGGACAAAAGAGAA-AAGGAAA-TAAAGTGC
1012989 GTCCTGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTGC
* *
1013031 GTCCTGCTCTTTGAGGAC-AAAGGGAAAAGGAAA-AGAAGCGC
1 GTCCTGCTCTTTGAGGACAAAAGAGAAAAGGAAATA-AAGTGC
* *
1013072 ATCCTGCTCTTTGGGGAC
1 GTCCTGCTCTTTGAGGAC
1013090 TAGAAGCTGC
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
40 1 0.01
41 39 0.43
42 27 0.30
43 24 0.26
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (42 bp):
GTCCTGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTGC
Found at i:1013232 original size:122 final size:121
Alignment explanation
Indices: 1013073--1013554 Score: 593
Period size: 120 Copynumber: 4.0 Consensus size: 121
1013063 AAGAAGCGCA
* * * *
1013073 TCCTGCTCTTTGGGGACTAGAAGCTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCGTCCT
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCCT
* * * * *
1013138 GCTCTTTGGGGA-TGAAAAGGTGCCTA-CAGTTCATATGGGCTTTAAAAAGG-AAAGGCG
66 GCTCTTTGAGGACTG-AAAGGTGCC-ACCAATT-GTGTGGGCTTT-AAAAGGAAAAGGAG
* * * *
1013195 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGGAGAAGGCATCC
1 TCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCC
* *
1013259 TGCTCTTTGAGGACTGAAAGGTGCCACCAATTTGTGTGGACTTTAAAAGGAAAAGGTG
65 TGCTCTTTGAGGACTGAAAGGTGCCACCAA-TTGTGTGGGCTTTAAAAGGAAAAGGAG
* * *
1013317 TCCTACTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGA-AAA-TGTTCT
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCCT
* * *
1013380 GCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAATGAG
66 GCTCTTTGAGGACTGAAAGGTGCCACCAA-TTGTGTGGGCTTTAAAAGGAAAAGGAG
* * * *
1013437 TCCTACTTTTTGAGGACTAGAAGATGCCACCAACTTGTGTAGGCTTTGAAA-G-GAAAGCGTCTT
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCCT
* *
1013500 GCTCTTTGAGGATTGAAAAGTGCCACCAAATTGTGTGGGCTTTAAAAGGAAAAGG
66 GCTCTTTGAGGACTGAAAGGTGCCACC-AATTGTGTGGGCTTTAAAAGGAAAAGG
1013555 TATCTTGCTC
Statistics
Matches: 312, Mismatches: 39, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
119 4 0.01
120 151 0.48
121 12 0.04
122 140 0.45
123 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (121 bp):
TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCCT
GCTCTTTGAGGACTGAAAGGTGCCACCAATTGTGTGGGCTTTAAAAGGAAAAGGAG
Found at i:1013243 original size:61 final size:60
Alignment explanation
Indices: 1013073--1013551 Score: 497
Period size: 61 Copynumber: 7.9 Consensus size: 60
1013063 AAGAAGCGCA
* * ** *
1013073 TCCTGCTCTTTGGGGACT-AGAAGCTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGGCG
* * * *
1013134 TCCTGCTCTTTGGGGA-TGAAAAGGTGCCTA-C-AGTTCATATGGGCTTTAAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAAGGTGCC-ACCAACTT-GTGTGGGCTTT-AAAAGGAAAGGCG
* * *
1013195 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGGCG
* * *
1013256 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAATTTGTGTGGACTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCG
* * * **
1013317 TCCTACTCTTTGAGGACT-AGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGAAA-ATG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCG
* * * * *
1013376 TTCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAATGAG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCG
* * * * *
1013437 TCCTACTTTTTGAGGACT-AGAAGATGCCACCAACTTGTGTAGGCTTTGAAAGGAAA-GCG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCG
* * * *
1013496 TCTTGCTCTTTGAGGATTGAAAAGTGCCACCAAATTGTGTGGGCTTTAAAAGGAAA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
1013552 AGGTATCTTG
Statistics
Matches: 352, Mismatches: 50, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
59 95 0.27
60 23 0.07
61 221 0.63
62 13 0.04
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCG
Found at i:1014558 original size:7 final size:7
Alignment explanation
Indices: 1014528--1014582 Score: 58
Period size: 7 Copynumber: 7.6 Consensus size: 7
1014518 AAGCAGGTTC
1014528 TTTTCTT
1 TTTTCTT
*
1014535 TTCTCTT
1 TTTTCTT
*
1014542 TTCTCTT
1 TTTTCTT
1014549 TTTTCTT
1 TTTTCTT
1014556 TTTTCATT
1 TTTTC-TT
1014564 TTTT-TT
1 TTTTCTT
1014570 GTTGTTCTT
1 -TT-TTCTT
1014579 TTTT
1 TTTT
1014583 GTTTCGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
6 2 0.05
7 28 0.67
8 10 0.24
9 2 0.05
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.80
Consensus pattern (7 bp):
TTTTCTT
Found at i:1027024 original size:33 final size:32
Alignment explanation
Indices: 1026982--1027044 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
1026972 CATCCAGATG
*
1026982 TATCGATACATGATGCTTTGTATCGATACATTA
1 TATCGATACATG-TGCATTGTATCGATACATTA
* *
1027015 TATCGATACATGTTCATTGTGTCGATACAT
1 TATCGATACATGTGCATTGTATCGATACAT
1027045 GATAAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (32 bp):
TATCGATACATGTGCATTGTATCGATACATTA
Found at i:1027039 original size:19 final size:20
Alignment explanation
Indices: 1027017--1027064 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1027007 ATACATTATA
**
1027017 TCGATACATG-TTCATTGTG
1 TCGATACATGATAAATTGTG
*
1027036 TCGATACATGATAAATTGTT
1 TCGATACATGATAAATTGTG
1027056 TCGATACAT
1 TCGATACAT
1027065 TGCTTCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (20 bp):
TCGATACATGATAAATTGTG
Found at i:1033239 original size:13 final size:13
Alignment explanation
Indices: 1033221--1033253 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1033211 ACAATGTTCT
1033221 TTGTATCGATACA
1 TTGTATCGATACA
1033234 TTGTATCGATACA
1 TTGTATCGATACA
*
1033247 ATGTATC
1 TTGTATC
1033254 AATATATGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1034841 original size:33 final size:33
Alignment explanation
Indices: 1034799--1034863 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1034789 TACCACTGTT
* *
1034799 TGTATCGATACATGGTACATTGTATCAATACAA
1 TGTATCGATACATGATAAATTGTATCAATACAA
1034832 TGTATCGATACATGATAAATTGTATCAATACA
1 TGTATCGATACATGATAAATTGTATCAATACA
1034864 TTGCTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATAAATTGTATCAATACAA
Found at i:1035956 original size:130 final size:130
Alignment explanation
Indices: 1035803--1036056 Score: 366
Period size: 130 Copynumber: 2.0 Consensus size: 130
1035793 ATCCCCTATG
* * * *
1035803 GTGGAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCATCGGAAATAACGGGGTTA
1 GTGGAAAATCGATGTTTTAGAAATAAAATCGGGGCTAGAGTATCCCATCAGAAATAACGGGGTTA
* * **
1035868 AAGTATCCCTGATTGTGAAAATTTTGTGTCTTGAAAATAAAACAGGGGTTGGAGTATCCTTGATT
66 AAGTATCCCCGATTGTGAAAAATTAATGTCTTGAAAATAAAACAGGGGTTGGAGTATCCTTGATT
*
1035933 GTGGAAAATTCG-TGTTTTAGAAATAAAATCGGGGCTAGAGTATCCCCTCAGAAATAACGGGGTT
1 GTGGAAAA-TCGATGTTTTAGAAATAAAATCGGGGCTAGAGTATCCCATCAGAAATAACGGGGTT
** * * *
1035997 GGAGTATCCCCGATTGTGAAAAATTAATGTTTTGGAAATAAAACCGGGGTTGGAGTATCC
65 AAAGTATCCCCGATTGTGAAAAATTAATGTCTTGAAAATAAAACAGGGGTTGGAGTATCC
1036057 CCTCGAAAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
130 106 0.97
131 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (130 bp):
GTGGAAAATCGATGTTTTAGAAATAAAATCGGGGCTAGAGTATCCCATCAGAAATAACGGGGTTA
AAGTATCCCCGATTGTGAAAAATTAATGTCTTGAAAATAAAACAGGGGTTGGAGTATCCTTGATT
Found at i:1035957 original size:51 final size:51
Alignment explanation
Indices: 1035860--1035978 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 51
1035850 TCGGAAATAA
* * *
1035860 CGGGGTTAAAGTATCCCTGATTGTGAAAATTTTGTGTCTTGAAAATAAAA-
1 CGGGGCTAGAGTATCCCTGATTGTGAAAATTTCGTGTCTTGAAAATAAAAT
* * * *
1035910 CAGGGGTTGGAGTATCCTTGATTGTGGAAAA-TTCGTGT-TTTAGAAATAAAAT
1 C-GGGGCTAGAGTATCCCTGATTGT-GAAAATTTCGTGTCTTGA-AAATAAAAT
1035962 CGGGGCTAGAGTATCCC
1 CGGGGCTAGAGTATCCC
1035979 CTCAGAAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
50 4 0.07
51 47 0.82
52 6 0.11
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (51 bp):
CGGGGCTAGAGTATCCCTGATTGTGAAAATTTCGTGTCTTGAAAATAAAAT
Found at i:1035995 original size:79 final size:78
Alignment explanation
Indices: 1035912--1036224 Score: 362
Period size: 79 Copynumber: 4.0 Consensus size: 78
1035902 AAATAAAACA
* ** * *
1035912 GGGGTTGGAGTATCCTTGATTGTGGAAAATTCGTGTTTTAGAAATAAAATCGGGGCTAGAGTATC
1 GGGGTTAGAGTATCCCCGATTGT-GAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATC
1035977 CCCTCAGAAATAAC
65 CCCTCAGAAATAAC
* ** * * *
1035991 GGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTGGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTAGAGTATCCCCGATTGTG-AAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATC
1036056 CCCTC-GAAAATAAC
65 CCCTCAG-AAATAAC
* ***
1036070 GAGGTTAGAGTATCTTTGATTGTGAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCC
1 GGGGTTAGAGTATCCCCGATTGTGAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCC
* *
1036135 CTTGA-AAATAAC
66 CCTCAGAAATAAC
* * ** *
1036147 AGGGTTAGAGTATCCCCGATTGTGAAAATTTGGTGTTTTGGAAATAAAA-CTAAGGTTGGAGTAT
1 GGGGTTAGAGTATCCCCGATTGTGAAAA-TTGGTGTTTTAGAAATAAAATC-GGGGTTAGAGTAT
1036211 CCCCTCAGAAATAA
64 CCCCTCAGAAATAA
1036225 AAACATGAAT
Statistics
Matches: 197, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
77 31 0.16
78 74 0.38
79 92 0.47
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (78 bp):
GGGGTTAGAGTATCCCCGATTGTGAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCC
CCTCAGAAATAAC
Found at i:1036069 original size:209 final size:208
Alignment explanation
Indices: 1035739--1036139 Score: 558
Period size: 209 Copynumber: 1.9 Consensus size: 208
1035729 AAATTTAATA
* *
1035739 TTTTGGAAATAAAAATGGGGCCAGAGTATCCCCTCAGAAATAACAGAGTTGGATATCCCCTATGG
1 TTTTAGAAATAAAAATGGGGCCAGAGTATCCCCTCAGAAATAACAGAGTTGGATATCCCCGATGG
* * * * *
1035804 TGGAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCATCGGAAATAACGGGGTTAA
66 TGAAAAATCAATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCATCGAAAATAACGAGGTTAA
* *
1035869 AGTATCCCTGATTGTGAAAATTTTGTGTCTTGA-AAATAAAA-CAGGGGTTGGAGTAT-CCTTGA
131 AGTATCCCTGATTGTGAAAA-TTGGTGT-TTGAGAAATAAAATC-GGGGTTAGAGTATCCCTTGA
1035931 TTGTGGAAAATTCGTG
193 TTGTGGAAAATTCGTG
* * *
1035947 TTTTAGAAAT-AAAATCGGGGCTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGAT
1 TTTTAGAAATAAAAAT-GGGGCCAGAGTATCCCCTCAGAAATAACAGAGTTGGA-TATCCCCGAT
* * *
1036011 TGTGAAAAATTAATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTT
64 GGTGAAAAATCAATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCATCGAAAATAACGAGGTT
* ** *
1036076 AGAGTATCTTTGATTGTGAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCTTGA
129 AAAGTATCCCTGATTGTGAAAATTGGTGTTTGAGAAATAAAATCGGGGTTAGAGTATCCCTTGA
1036140 AAATAACAGG
Statistics
Matches: 169, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
207 8 0.05
208 69 0.41
209 92 0.54
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (208 bp):
TTTTAGAAATAAAAATGGGGCCAGAGTATCCCCTCAGAAATAACAGAGTTGGATATCCCCGATGG
TGAAAAATCAATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCATCGAAAATAACGAGGTTAA
AGTATCCCTGATTGTGAAAATTGGTGTTTGAGAAATAAAATCGGGGTTAGAGTATCCCTTGATTG
TGGAAAATTCGTG
Found at i:1036224 original size:156 final size:158
Alignment explanation
Indices: 1035914--1036221 Score: 467
Period size: 156 Copynumber: 2.0 Consensus size: 158
1035904 ATAAAACAGG
*
1035914 GGTTGGAGTATCCTTGATTGTGGAAAATTCGTGTTTTAGAAATAAAATCGGGGCTAGAGTATCCC
1 GGTTAGAGTATCCTTGATTGTGGAAAATTCGTGTTTTAGAAATAAAATCGGGGCTAGAGTATCCC
* * **
1035979 CTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTGGAAATAAAACCGG
66 CTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTAATGTTTTGGAAATAAAACCAA
1036044 GGTTGGAGTATCCCCTCGAAAATAACGA
131 GGTTGGAGTATCCCCTCGAAAATAACGA
* * *
1036072 GGTTAGAGTATCTTTGATTGT-GAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCC
1 GGTTAGAGTATCCTTGATTGTGGAAAATTCGTGTTTTAGAAATAAAATCGGGGCTAGAGTATCCC
* * * ** *
1036136 TTGA-AAATAACAGGGTTAGAGTATCCCCGATTGTGAAAATTTGGTGTTTTGGAAATAAAACTAA
66 CTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTAATGTTTTGGAAATAAAACCAA
1036200 GGTTGGAGTATCCCCTCAGAAA
131 GGTTGGAGTATCCCCTC-GAAA
1036222 TAAAAACATG
Statistics
Matches: 135, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
156 69 0.51
157 47 0.35
158 19 0.14
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (158 bp):
GGTTAGAGTATCCTTGATTGTGGAAAATTCGTGTTTTAGAAATAAAATCGGGGCTAGAGTATCCC
CTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTAATGTTTTGGAAATAAAACCAA
GGTTGGAGTATCCCCTCGAAAATAACGA
Found at i:1041179 original size:52 final size:52
Alignment explanation
Indices: 1040979--1041159 Score: 308
Period size: 52 Copynumber: 3.5 Consensus size: 52
1040969 CGCAATATGA
*
1040979 AAATTTGCCTTCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
*
1041031 AAATTTGCCTTCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
** *
1041083 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
*
1041135 AAATTTACCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1041160 AAGATCAGTG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
Found at i:1041270 original size:33 final size:33
Alignment explanation
Indices: 1041233--1041299 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1041223 AGTAGCTTGA
1041233 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1041266 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1041299 A
1 A
1041300 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1041273 original size:13 final size:13
Alignment explanation
Indices: 1041255--1041279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1041245 CAAAAAAATA
1041255 TGTATCGATACAT
1 TGTATCGATACAT
1041268 TGTATCGATACA
1 TGTATCGATACA
1041280 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1042332 original size:91 final size:93
Alignment explanation
Indices: 1042160--1042339 Score: 283
Period size: 91 Copynumber: 1.9 Consensus size: 93
1042150 AAAAGGATGT
*
1042160 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCGGATTCAAGGCCAGCTACATTGAACTTAAAGATGG-AAAGGTGCCAATATGCTGATT
*
1042225 CAAGGCCAGCTATATTGGACTTAAGGTGC
65 CAAGGCCAGCGATATTGGACTTAAGGTGC
* * * *
1042254 CAATGTGCGGATTCAAGGTCAGCTACATTGGACTTAAATAT-G-AAGGTGCCAATATGCTGATTT
1 CAATGTGCGGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
1042317 AAGGCCAGCGATATTGGACTTAA
66 AAGGCCAGCGATATTGGACTTAA
1042340 AGGCAAGGTG
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
91 42 0.52
93 1 0.01
94 37 0.46
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (93 bp):
CAATGTGCGGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAGGTGC
Found at i:1042333 original size:49 final size:49
Alignment explanation
Indices: 1042247--1042391 Score: 186
Period size: 49 Copynumber: 3.0 Consensus size: 49
1042237 TATTGGACTT
* * * * *
1042247 AAGGTGCCAATGTGCGGATTCAAGGTCAGCTACATTGGACTTAAATATG-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AGGC
* *
1042296 AAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT-AAAGGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGGC
* *
1042344 AAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGGCTTAAAAGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGG
1042392 AGACGCCACC
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 2 0.02
48 40 0.48
49 41 0.49
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGGC
Found at i:1042355 original size:48 final size:47
Alignment explanation
Indices: 1042160--1042388 Score: 243
Period size: 48 Copynumber: 4.8 Consensus size: 47
1042150 AAAAGGATGT
* * *
1042160 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-GG--AAGGTGC
1042212 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGAAGGTGC
* * * * *
1042254 CAATGTGCGGATTCAAGGTCAGCTACATTGGACTTAAATATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-AGGAAGGTGC
* *
1042303 CAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGCAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGG-AAGGTGC
* *
1042351 CAATATGCTAATTCAAGGCCAGCTATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1042389 AGGAGACGCC
Statistics
Matches: 151, Mismatches: 18, Indels: 20
0.80 0.10 0.11
Matches are distributed among these distances:
42 38 0.25
47 2 0.01
48 43 0.28
49 36 0.24
52 32 0.21
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (47 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGAAGGTGC
Found at i:1042491 original size:30 final size:30
Alignment explanation
Indices: 1042432--1042662 Score: 181
Period size: 30 Copynumber: 7.7 Consensus size: 30
1042422 AGGTTTGCAT
* *
1042432 CACTAACTTGTGGGCTTTT--AAAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
1042460 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
*
1042490 CACTAACTTGTGGGCTTTTGAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
* ** *
1042520 CACTAACTTGTGGGCTTAAAAAGAAAAAGAGTGC
1 CACTGACTTGTGGGCTT---TTG-AAAAGGGTGC
* * * * *
1042554 TA-TAGAGTTGTGAGCTTTGGAAAA-GATGC
1 CACT-GACTTGTGGGCTTTTGAAAAGGGTGC
* * *
1042583 CACCGACTTATGGGC-TTCGAAAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTG--AAAAGGGTGC
* *
1042614 CACTGATTTGTGGGC-TTTG--AAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
*
1042641 CACTGACTTGTGGACTTTTGAA
1 CACTGACTTGTGGGCTTTTGAA
1042663 GGGTGATAAA
Statistics
Matches: 161, Mismatches: 28, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
27 20 0.12
28 25 0.16
29 12 0.07
30 62 0.39
31 20 0.12
33 2 0.01
34 20 0.12
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (30 bp):
CACTGACTTGTGGGCTTTTGAAAAGGGTGC
Found at i:1042502 original size:58 final size:59
Alignment explanation
Indices: 1042432--1042662 Score: 200
Period size: 60 Copynumber: 3.8 Consensus size: 59
1042422 AGGTTTGCAT
1042432 CACTAACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTG-AAAAGGGTGC
1 CACTAACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAGGGTGC
* * ** *
1042490 CACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAAGAAAAAGAGTGC
1 CACTAACTTGTGGGCTTTT--AAAGGTTGCCACTGACTTGTGGGCTT---TTGAAAAAGGGTGC
* * * * * * * * *
1042554 TA-TAGAGTTGTGAGCTTTGGAAAAGATGCCACCGACTTATGGGC-TTCGAAAAAAGGGTGC
1 CACTA-ACTTGTGGGCTTT-TAAAGGTTGCCACTGACTTGTGGGCTTTTG-AAAAAGGGTGC
* * * *
1042614 CACTGATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGACTTTTGAA
1 CACTAACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAA
1042663 GGGTGATAAA
Statistics
Matches: 133, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
58 39 0.29
59 6 0.05
60 43 0.32
61 1 0.01
62 1 0.01
63 22 0.17
64 21 0.16
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (59 bp):
CACTAACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAGGGTGC
Found at i:1042644 original size:27 final size:28
Alignment explanation
Indices: 1042606--1042667 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
1042596 GCTTCGAAAA
* *
1042606 AAGGGTGCCACTGATTTGTGGGC-TTTG
1 AAGGGTGCCACTGACTTGTGGACTTTTG
*
1042633 AAGGTTGCCACTGACTTGTGGACTTTTG
1 AAGGGTGCCACTGACTTGTGGACTTTTG
1042661 AAGGGTG
1 AAGGGTG
1042668 ATAAATGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.18, C:0.15, G:0.35, T:0.32
Consensus pattern (28 bp):
AAGGGTGCCACTGACTTGTGGACTTTTG
Found at i:1044103 original size:1 final size:1
Alignment explanation
Indices: 1044099--1044240 Score: 104
Period size: 1 Copynumber: 142.0 Consensus size: 1
1044089 CCGGACCCCC
* * * * * * * * *
1044099 TTTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTGTTTGTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * ** * * **
1044164 TTTTGTTTTTTTTTTGTTTGTTTTTTTTTCGTTTTTTTTTTGTTTGTTTTTTTTCGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1044229 GTTTTGTTTTTT
1 TTTTTTTTTTTT
1044241 GGAGGACGCC
Statistics
Matches: 103, Mismatches: 38, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 103 1.00
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (1 bp):
T
Found at i:1044128 original size:11 final size:10
Alignment explanation
Indices: 1044099--1044239 Score: 144
Period size: 10 Copynumber: 13.7 Consensus size: 10
1044089 CCGGACCCCC
1044099 TTTTTTTGTT
1 TTTTTTTGTT
*
1044109 TTTGTTTGTT
1 TTTTTTTGTT
1044119 TTTTTATTGTT
1 TTTTT-TTGTT
1044130 TTTGTTTT-TT
1 TTT-TTTTGTT
*
1044140 TTTGTTTGTT
1 TTTTTTTGTT
*
1044150 TTTTGTTTTTT
1 TTTT-TTTGTT
1044161 TTTTTTTGTTT
1 TTTTTTTG-TT
1044172 TTTTTTTGTT
1 TTTTTTTGTT
1044182 TGTTTTTT-TT
1 T-TTTTTTGTT
*
1044192 TCGTTTTT-TT
1 T-TTTTTTGTT
*
1044202 TTTGTTTGTT
1 TTTTTTTGTT
*
1044212 TTTTTTCGTT
1 TTTTTTTGTT
1044222 TTTTTTTGTT
1 TTTTTTTGTT
1044232 TTGTTTTT
1 TT-TTTTT
1044240 TGGAGGACGC
Statistics
Matches: 110, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
9 7 0.06
10 61 0.55
11 40 0.36
12 2 0.02
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:1044168 original size:25 final size:24
Alignment explanation
Indices: 1044101--1044240 Score: 163
Period size: 26 Copynumber: 5.5 Consensus size: 24
1044091 GGACCCCCTT
1044101 TTTTTGTTTTTGTTTGTTTTTTTATTG
1 TTTTT-TTTTT-TTTGTTTTTTT-TTG
1044128 TTTTTGTTTTTTTTTGTTTGTTTTTTG
1 -TTTT-TTTTTTTTTGTTT-TTTTTTG
1044155 TTTTTTTTTTTTTGTTTTTTTTTTG
1 TTTTTTTTTTTTTG-TTTTTTTTTG
*
1044180 TTTGTTTTTTTTTCGTTTTTTTTTTG
1 TTT-TTTTTTTTTTG-TTTTTTTTTG
* *
1044206 TTTGTTTTTTTTCGTTTTTTTTTG
1 TTTTTTTTTTTTTGTTTTTTTTTG
*
1044230 TTTTGTTTTTT
1 TTTTTTTTTTT
1044241 GGAGGACGCC
Statistics
Matches: 104, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
24 19 0.18
25 30 0.29
26 31 0.30
27 10 0.10
28 13 0.12
29 1 0.01
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (24 bp):
TTTTTTTTTTTTTGTTTTTTTTTG
Found at i:1044189 original size:51 final size:51
Alignment explanation
Indices: 1044101--1044240 Score: 185
Period size: 51 Copynumber: 2.7 Consensus size: 51
1044091 GGACCCCCTT
*
1044101 TTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTT-GTTTGTTTTTTG
1 TTTTT-TTTTT-TTTGTTTTTTT-TT-TGTTTGTTTTTTTTTCGTTTGTTTTTTG
*
1044155 TTTTTTTTTTTTTGTTTTTTTTTTGTTTGTTTTTTTTTCGTTTTTTTTTTG
1 TTTTTTTTTTTTTGTTTTTTTTTTGTTTGTTTTTTTTTCGTTTGTTTTTTG
* *
1044206 TTTGTTTTTTTTCG-TTTTTTTTTGTTTTGTTTTTT
1 TTTTTTTTTTTTTGTTTTTTTTTTG-TTTGTTTTTT
1044241 GGAGGACGCC
Statistics
Matches: 80, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
50 24 0.30
51 35 0.44
52 11 0.14
53 5 0.06
54 5 0.06
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (51 bp):
TTTTTTTTTTTTTGTTTTTTTTTTGTTTGTTTTTTTTTCGTTTGTTTTTTG
Done.