Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 25 of 30
Found at i:4135214 original size:13 final size:13
Alignment explanation
Indices: 4135196--4135221 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4135186 TACACAAAGT
4135196 ATGTATTGATACA
1 ATGTATTGATACA
4135209 ATGTATTGATACA
1 ATGTATTGATACA
4135222 CCAAAAAAAT
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:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:4139203 original size:13 final size:13
Alignment explanation
Indices: 4139185--4139220 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
4139175 CATCATTCTT
4139185 TGTATCGATACAC
1 TGTATCGATACAC
4139198 TGTATCGATACAC
1 TGTATCGATACAC
4139211 TGTATCGATA
1 TGTATCGATA
4139221 TAGGGGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:4141151 original size:58 final size:58
Alignment explanation
Indices: 4141035--4141152 Score: 132
Period size: 58 Copynumber: 2.0 Consensus size: 58
4141025 TGTGTGAGAA
* * * ** ** *
4141035 TTACTCTATTAAGGGGGAGATTTTTTATTAAGGGGGAGAATGTGCAAATTTGTTAAAT
1 TTACTCTATTAAGGGGGAAATATTTGATTAAGGGGGAGAATAAGCAAAAATGTAAAAT
4141093 TTAC-CTATTAAGGGGAGAAATATTTGATTAAGGGGGAGAGATAAG-AAAAATGTAAAAT
1 TTACTCTATTAAGGGG-GAAATATTTGATTAAGGGGGAGA-ATAAGCAAAAATGTAAAAT
4141151 TT
1 TT
4141153 TGATTTTTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
57 11 0.22
58 36 0.72
59 3 0.06
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.33
Consensus pattern (58 bp):
TTACTCTATTAAGGGGGAAATATTTGATTAAGGGGGAGAATAAGCAAAAATGTAAAAT
Found at i:4141775 original size:34 final size:32
Alignment explanation
Indices: 4141711--4141775 Score: 85
Period size: 34 Copynumber: 2.0 Consensus size: 32
4141701 TAGCCAAACT
**
4141711 TGTATCGATACACAAAGTATATATCGATACAA
1 TGTATCGATACACAAAAAATATATCGATACAA
*
4141743 TGTATCGATACACCAAAAAAATGTATCGATACA
1 TGTATCGATACA-C-AAAAAATATATCGATACA
4141776 TTGGCTTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 12 0.43
33 1 0.04
34 15 0.54
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATATATCGATACAA
Found at i:4147554 original size:22 final size:21
Alignment explanation
Indices: 4147529--4147636 Score: 78
Period size: 22 Copynumber: 4.9 Consensus size: 21
4147519 CTTGTAAGCA
4147529 TTTTCTTTACTTTTGCTT-CTAT
1 TTTTCTTT-C-TTTGCTTGCTAT
* *
4147551 TTTTTTTTCTTTGCTTGCTGT
1 TTTTCTTTCTTTGCTTGCTAT
*
4147572 TTCTTCTTTCTTTGCTTGCTGT
1 TT-TTCTTTCTTTGCTTGCTAT
* *
4147594 TTCATT-TTTCCTTGCTTGCTGT
1 TT--TTCTTTCTTTGCTTGCTAT
4147616 TTTGGT-TTTGCTTTGCTTGCT
1 TTT--TCTTT-CTTTGCTTGCT
4147637 GGAGTGTTAC
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
20 8 0.11
21 6 0.08
22 48 0.65
23 12 0.16
ACGTcount: A:0.03, C:0.19, G:0.14, T:0.65
Consensus pattern (21 bp):
TTTTCTTTCTTTGCTTGCTAT
Found at i:4147580 original size:44 final size:44
Alignment explanation
Indices: 4147531--4147617 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
4147521 TGTAAGCATT
* *
4147531 TTCTTTACTTTTGCTT-CTATTT-TTTTTTCTTTGCTTGCTGTTTC
1 TTCTTT-C-TTTGCTTGCTATTTCATTTTTCCTTGCTTGCTGTTTC
*
4147575 TTCTTTCTTTGCTTGCTGTTTCATTTTTCCTTGCTTGCTGTTT
1 TTCTTTCTTTGCTTGCTATTTCATTTTTCCTTGCTTGCTGTTT
4147618 TGGTTTTGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 7 0.18
43 6 0.16
44 25 0.66
ACGTcount: A:0.03, C:0.20, G:0.11, T:0.66
Consensus pattern (44 bp):
TTCTTTCTTTGCTTGCTATTTCATTTTTCCTTGCTTGCTGTTTC
Found at i:4147612 original size:26 final size:22
Alignment explanation
Indices: 4147531--4147617 Score: 99
Period size: 22 Copynumber: 4.0 Consensus size: 22
4147521 TGTAAGCATT
*
4147531 TTCTTTACTTTTGCTT-CTATTT-
1 TTCTTT-C-TTTGCTTGCTGTTTC
*
4147553 TTTTTTCTTTGCTTGCTGTTTC
1 TTCTTTCTTTGCTTGCTGTTTC
4147575 TTCTTTCTTTGCTTGCTGTTTC
1 TTCTTTCTTTGCTTGCTGTTTC
*
4147597 ATT-TTTCCTTGCTTGCTGTTT
1 -TTCTTTCTTTGCTTGCTGTTT
4147618 TGGTTTTGCT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.12
21 6 0.10
22 43 0.74
23 2 0.03
ACGTcount: A:0.03, C:0.20, G:0.11, T:0.66
Consensus pattern (22 bp):
TTCTTTCTTTGCTTGCTGTTTC
Found at i:4148885 original size:3 final size:3
Alignment explanation
Indices: 4148877--4148919 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
4148867 TAATTAATTA
* *
4148877 ATT ATT ATT -TT ATT ATT -TT ATT ATT TTT TTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4148920 TTGTTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
ATT
Found at i:4148889 original size:8 final size:8
Alignment explanation
Indices: 4148878--4148921 Score: 61
Period size: 8 Copynumber: 5.2 Consensus size: 8
4148868 AATTAATTAA
4148878 TTATTATT
1 TTATTATT
4148886 TTATTATT
1 TTATTATT
4148894 TTATTATTT
1 TTATTA-TT
*
4148903 TTTTTATT
1 TTATTATT
4148911 ATTATTATT
1 -TTATTATT
4148920 TT
1 TT
4148922 GTTTTTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 18 0.56
9 14 0.44
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTATT
Found at i:4148926 original size:20 final size:20
Alignment explanation
Indices: 4148884--4148927 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4148874 TTAATTATTA
*
4148884 TTTTATTATTTTATTATTTT
1 TTTTATTATTTTATTATTGT
4148904 TTTTATTATTATTATT-TTGT
1 TTTTATTATT-TTATTATTGT
4148924 TTTT
1 TTTT
4148928 GTTTTTCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTATTATTTTATTATTGT
Found at i:4152765 original size:166 final size:165
Alignment explanation
Indices: 4152490--4152967 Score: 532
Period size: 166 Copynumber: 2.9 Consensus size: 165
4152480 ACGGGTTTAA
* * * * * ** *
4152490 AATTTTAAAAATTCATCAAATATTATTATAT-AGTCATCATTAAATCAGTTTGCAAAAATTCACA
1 AATTTTTAAAATTTATCAAATATTATCATTTGATTCA-CATTAAATCAGTTTTAAAAAATTCA-T
* * * * * *
4152554 T-ATTTTCATAAATTTTTCAAATTTTCCTTGAAATTCTCTTATTTTTGAAATACGGAGTTTTCTA
64 TCATTTTCAT-AATTTTTGAATTTTTCCTTTAAATTTTCCTATTTTTGAAAAAC-GAGTTTTCTA
* *
4152618 CTCCATAAATATTTTCGA-GAGAATTTTTCTTAGCTTTT
127 TTTCATAAATATTTTCGAGGAGAATTTTTCTTAGCTTTT
* *
4152656 AATTTTTAAAATTTATCAAATATTATCATTTGATTCACATTAAATTAGTTTTAAAAAAATTTATT
1 AATTTTTAAAATTTATCAAATATTATCATTTGATTCACATTAAATCAGTTTT-AAAAAATTCATT
*
4152721 CATTTTCATGATTTTTGAATTTTTCCTTTAAATTTTCCTATTTTTGAAAAACCGAGATTTT-TAT
65 CATTTTCATAATTTTTGAATTTTTCCTTTAAATTTTCCTATTTTTGAAAAA-CGAG-TTTTCTAT
* * * * * *
4152785 TTCATAAATATTTTTGAGGGGATTTTTTGTTGGTTTTT
128 TTCATAAATATTTTCGAGGAGAATTTTTCTTAGCTTTT
*
4152823 AATTTTTAAAATTTATCAAATATTATCATTTGATTCACATTAAATCACTTTTAAAAAATTCATTC
1 AATTTTTAAAATTTATCAAATATTATCATTTGATTCACATTAAATCAGTTTTAAAAAATTCATTC
* * * * * *
4152888 ATTTTCATTCATGTTTTGTATTTTTTCTTTGAAATTTCCCTACTTCTGAAAAATCGAGTTTTCTA
66 ATTTTCA-TAAT-TTTTGAATTTTTCCTTT-AAATTTTCCTATTTTTGAAAAA-CGAGTTTTCTA
*
4152953 TTTGATAAATATTTT
127 TTTCATAAATATTTT
4152968 TTGGAAGATT
Statistics
Matches: 266, Mismatches: 36, Indels: 17
0.83 0.11 0.05
Matches are distributed among these distances:
166 115 0.43
167 93 0.35
168 19 0.07
169 39 0.15
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (165 bp):
AATTTTTAAAATTTATCAAATATTATCATTTGATTCACATTAAATCAGTTTTAAAAAATTCATTC
ATTTTCATAATTTTTGAATTTTTCCTTTAAATTTTCCTATTTTTGAAAAACGAGTTTTCTATTTC
ATAAATATTTTCGAGGAGAATTTTTCTTAGCTTTT
Found at i:4153576 original size:11 final size:10
Alignment explanation
Indices: 4153560--4153605 Score: 65
Period size: 10 Copynumber: 4.4 Consensus size: 10
4153550 CAAGTAAGCA
4153560 AAAAAAAAGAG
1 AAAAAAAA-AG
4153571 AAAAAAAAAG
1 AAAAAAAAAG
*
4153581 AAAAAGAAAG
1 AAAAAAAAAG
4153591 AAAAAAAAGAG
1 AAAAAAAA-AG
4153602 AAAA
1 AAAA
4153606 TAGAAAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 18 0.56
11 14 0.44
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:4153576 original size:12 final size:12
Alignment explanation
Indices: 4153559--4153598 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
4153549 TCAAGTAAGC
4153559 AAAAAAAAAGAG
1 AAAAAAAAAGAG
4153571 -AAAAAAAA-AG
1 AAAAAAAAAGAG
*
4153581 AAAAAGAAAGA-
1 AAAAAAAAAGAG
4153592 AAAAAAA
1 AAAAAAA
4153599 GAGAAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 2 0.08
11 21 0.88
12 1 0.04
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:4153610 original size:22 final size:20
Alignment explanation
Indices: 4153569--4153613 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 20
4153559 AAAAAAAAAG
4153569 AGAAAAAAAAAGAAAAAGAA
1 AGAAAAAAAAAGAAAAAGAA
4153589 AGAAAAAAAAGAGAAAATAGAA
1 AGAAAAAAAA-AGAAAA-AGAA
4153611 AGA
1 AGA
4153614 TTAAGCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.43
21 6 0.26
22 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (20 bp):
AGAAAAAAAAAGAAAAAGAA
Found at i:4154514 original size:18 final size:19
Alignment explanation
Indices: 4154476--4154514 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4154466 TAAACAATGC
* *
4154476 ATAAATATTATTTTACCCA
1 ATAAAAATTATTATACCCA
4154495 ATAAAAATTATTAT-CCCA
1 ATAAAAATTATTATACCCA
4154513 AT
1 AT
4154515 TTTTGAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAAATTATTATACCCA
Found at i:4158850 original size:21 final size:20
Alignment explanation
Indices: 4158826--4158894 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
4158816 TTCTCTAAAT
4158826 AAGAAAAACAAAAAAATGAAA
1 AAGAAAAA-AAAAAAATGAAA
4158847 AAGAAAAAGAAAGAGAAA--AAA
1 AAGAAAAA-AAA-A-AAATGAAA
* *
4158868 GAGAAAAAAAAAACATG-AA
1 AAGAAAAAAAAAAAATGAAA
4158887 AAGAAAAA
1 AAGAAAAA
4158895 GTGTAGATAG
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 2 0.05
19 10 0.25
20 3 0.08
21 21 0.52
22 1 0.03
23 3 0.08
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (20 bp):
AAGAAAAAAAAAAAATGAAA
Found at i:4158866 original size:13 final size:13
Alignment explanation
Indices: 4158826--4158894 Score: 52
Period size: 13 Copynumber: 5.1 Consensus size: 13
4158816 TTCTCTAAAT
*
4158826 AAGAAAAACAAAAA
1 AAGAAAAA-GAAAA
4158840 AATGAAAAAG-AAA
1 AA-GAAAAAGAAAA
*
4158853 AAGAAAGAGAAAA
1 AAGAAAAAGAAAA
4158866 AAGAGAAAA-AAAA
1 AAGA-AAAAGAAAA
*
4158879 AACATGAAAAGAAAA
1 AAGA--AAAAGAAAA
4158894 A
1 A
4158895 GTGTAGATAG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
12 6 0.13
13 19 0.41
14 10 0.22
15 11 0.24
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (13 bp):
AAGAAAAAGAAAA
Found at i:4158873 original size:27 final size:26
Alignment explanation
Indices: 4158830--4158894 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
4158820 CTAAATAAGA
* *
4158830 AAAACAAAAAAATGAAAAAGAAAAAG
1 AAAAGAAAAAAATGAAAAAAAAAAAG
4158856 AAAGAGAAAAAAGA-GAAAAAAAAAACATG
1 AAA-AGAAAAAA-ATGAAAAAAAAAA-A-G
4158885 AAAAGAAAAA
1 AAAAGAAAAA
4158895 GTGTAGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.09
27 17 0.52
28 9 0.27
29 4 0.12
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (26 bp):
AAAAGAAAAAAATGAAAAAAAAAAAG
Found at i:4159685 original size:112 final size:111
Alignment explanation
Indices: 4159481--4159697 Score: 249
Period size: 112 Copynumber: 1.9 Consensus size: 111
4159471 TGATAAGAAT
* * * **
4159481 ATCAAATTTGTCTGATTTTCAAAGAAATTCACATTTTATATATCTTGATCCATTCGTTCCTAAGA
1 ATCAAATTTATCTGATTTT-AAAGAAATTCACATTTAATACATCTTGATCCATTCGCGCCTAAGA
* * * *
4159546 AAATGGGGCACATATCCTATGAGTTTTGAAAATTTTGAGCCTAACAAC
65 AAATGAGGCACATACCCTATCAATTTTG-AAATTTTGAGCCTAACAAC
* * * *
4159594 ATCAAATTTATCTGATATTT-AAGAAATTCATATTTAATACATTTTGATCCATTCGCGCTTAGGA
1 ATCAAATTTATCTGAT-TTTAAAGAAATTCACATTTAATACATCTTGATCCATTCGCGCCTAAGA
* *
4159658 AAATGAGGCATGA-ACCCTATCAATTTTGAAATTTTTAGCC
65 AAATGAGGCA-CATACCCTATCAATTTTGAAATTTTGAGCC
4159698 CACCAAAATT
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
111 11 0.13
112 57 0.66
113 16 0.18
114 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (111 bp):
ATCAAATTTATCTGATTTTAAAGAAATTCACATTTAATACATCTTGATCCATTCGCGCCTAAGAA
AATGAGGCACATACCCTATCAATTTTGAAATTTTGAGCCTAACAAC
Found at i:4160099 original size:18 final size:20
Alignment explanation
Indices: 4160059--4160100 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4160049 TTGATGCCTG
*
4160059 TATTTGCATTTTTTCATGCA
1 TATTTGCATTTTATCATGCA
4160079 TATTTGCATTTTAT-ATG-A
1 TATTTGCATTTTATCATGCA
4160097 TATT
1 TATT
4160101 AGTATTTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 3 0.14
20 13 0.62
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (20 bp):
TATTTGCATTTTATCATGCA
Found at i:4160867 original size:90 final size:90
Alignment explanation
Indices: 4160709--4161181 Score: 565
Period size: 90 Copynumber: 5.2 Consensus size: 90
4160699 ATTGTGAAAA
* * *
4160709 CCACACATTCCCAATCATATCTTTC-CTATCCAACCACTAGATAATATTGATGCATCACAAAGCC
1 CCACACATTCCCAATCATATTTTTCTC-ATCCAACCGCTAGATGATATTGATGCATCACAAAGCC
*
4160773 TAATTTCCTTGGGGCAAGGGTGCAGT
65 TAATTTCCTTGGGGCAAGGGTGCAGC
* * *
4160799 CCACACATTCCTAATCATATTTTTCTCATCCAACTGCTAGATGATATTGATGCATCACAAAGCTT
1 CCACACATTCCCAATCATATTTTTCTCATCCAACCGCTAGATGATATTGATGCATCACAAAGCCT
*
4160864 AATTTCCTTGGGGCAGGGGTGCAGC
66 AATTTCCTTGGGGCAAGGGTGCAGC
* * * * * *
4160889 CCACACATTCTCAATCATATCTTCCTCATCCAACCACTAAATGATATCGATGCATCACAAAGCCT
1 CCACACATTCCCAATCATATTTTTCTCATCCAACCGCTAGATGATATTGATGCATCACAAAGCCT
* *
4160954 AATTTCCTTAGGGCAAAGGTGCAGC
66 AATTTCCTTGGGGCAAGGGTGCAGC
* ** * *
4160979 CTACACATTCCCAATCATA-TTCCCTTCACCCAACCGCTAGATGATATTGATGCATCATAAAGCC
1 CCACACATTCCCAATCATATTTTTC-TCATCCAACCGCTAGATGATATTGATGCATCACAAAGCC
*
4161043 TAATTTCCTTGGGGCAAGGGTGCAAC
65 TAATTTCCTTGGGGCAAGGGTGCAGC
* ** * * * * *
4161069 CCACACTTTCCCAATCATATTCCAT-TCACCCGACCGCTAGATGGTATTGATGCACCACAAAGCT
1 CCACACATTCCCAATCATATT-TTTCTCATCCAACCGCTAGATGATATTGATGCATCACAAAGCC
* * * *
4161133 TGATATCCTTGGGGCAAGGATATCCAGC
65 TAATTTCCTTGGGGCAAGG--GTGCAGC
*
4161161 CCACAAATTCCCAATCATATT
1 CCACACATTCCCAATCATATT
4161182 CCCTTCACCC
Statistics
Matches: 328, Mismatches: 49, Indels: 10
0.85 0.13 0.03
Matches are distributed among these distances:
89 3 0.01
90 300 0.91
91 2 0.01
92 23 0.07
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (90 bp):
CCACACATTCCCAATCATATTTTTCTCATCCAACCGCTAGATGATATTGATGCATCACAAAGCCT
AATTTCCTTGGGGCAAGGGTGCAGC
Found at i:4161020 original size:180 final size:179
Alignment explanation
Indices: 4160709--4161218 Score: 627
Period size: 180 Copynumber: 2.8 Consensus size: 179
4160699 ATTGTGAAAA
*
4160709 CCACACATTCCCAATCATATCTTTCCT-ATCCAACCACTAGATAATATTGATGCATCACAAAGCC
1 CCACACATTCCCAATCATATC-TTCCTCATCCAACCACTAGATGATATTGATGCATCACAAAGCC
* * ** * *
4160773 TAATTTCCTTGGGGCAAGGGTGCAGTCCACACATTCCTAATCATATT-TTTCTCATCCAACTGCT
65 TAATTTCCTTGGGGCAAAGGTGCAG-CCACACATTCCCAATCATATTCCCT-TCACCCAACCGCT
* * *
4160837 AGATGATATTGATGCATCACAAAGCTTAATTTCCTTGGGGCAGGGGTGCAGC
128 AGATGATATTGATGCATCACAAAGCCTAATTTCCTTGGGGCAAGGGTGCAAC
* * *
4160889 CCACACATTCTCAATCATATCTTCCTCATCCAACCACTAAATGATATCGATGCATCACAAAGCCT
1 CCACACATTCCCAATCATATCTTCCTCATCCAACCACTAGATGATATTGATGCATCACAAAGCCT
*
4160954 AATTTCCTTAGGGCAAAGGTGCAGCCTACACATTCCCAATCATATTCCCTTCACCCAACCGCTAG
66 AATTTCCTTGGGGCAAAGGTGCAGCC-ACACATTCCCAATCATATTCCCTTCACCCAACCGCTAG
*
4161019 ATGATATTGATGCATCATAAAGCCTAATTTCCTTGGGGCAAGGGTGCAAC
130 ATGATATTGATGCATCACAAAGCCTAATTTCCTTGGGGCAAGGGTGCAAC
* * * * * *
4161069 CCACACTTTCCCAATCATA--TTCCATTCACCCGACCGCTAGATGGTATTGATGCACCACAAAGC
1 CCACACATTCCCAATCATATCTTCC--TCATCCAACCACTAGATGATATTGATGCATCACAAAGC
* * * * *
4161132 TTGATATCCTTGGGGC-AAGGATATCCAGCCCACAAATTCCCAATCATATTCCCTTCACCCAACC
64 CTAATTTCCTTGGGGCAAAGG---TGCAG-CCACACATTCCCAATCATATTCCCTTCACCCAACC
* *
4161196 ACTAGATCATATT-AGTGCATCAC
125 GCTAGATGATATTGA-TGCATCAC
4161219 TCTCGCTAGG
Statistics
Matches: 287, Mismatches: 33, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
178 4 0.01
179 11 0.04
180 214 0.75
181 2 0.01
182 54 0.19
183 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (179 bp):
CCACACATTCCCAATCATATCTTCCTCATCCAACCACTAGATGATATTGATGCATCACAAAGCCT
AATTTCCTTGGGGCAAAGGTGCAGCCACACATTCCCAATCATATTCCCTTCACCCAACCGCTAGA
TGATATTGATGCATCACAAAGCCTAATTTCCTTGGGGCAAGGGTGCAAC
Found at i:4161429 original size:35 final size:35
Alignment explanation
Indices: 4161314--4161433 Score: 138
Period size: 35 Copynumber: 3.5 Consensus size: 35
4161304 TTTTCTCTCG
* * *
4161314 TTTGACTATATCTGGTCAAA-TTCTTTCCATCATCG
1 TTTGACTATATCTGGTCAAACTT-ATTCCACCATCA
* *
4161349 TTTGACTGTATCTGGTCAAAC-TATTCAGACCATCA
1 TTTGACTATATCTGGTCAAACTTATTC-CACCATCA
* *
4161384 TTTAATTATATCTGGTCAAACTTATTCCACCATCA
1 TTTGACTATATCTGGTCAAACTTATTCCACCATCA
4161419 TTTGACTATAT-TGGT
1 TTTGACTATATCTGGT
4161434 GTTAGGGCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
34 7 0.10
35 59 0.83
36 5 0.07
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.41
Consensus pattern (35 bp):
TTTGACTATATCTGGTCAAACTTATTCCACCATCA
Found at i:4161474 original size:48 final size:48
Alignment explanation
Indices: 4161395--4161841 Score: 341
Period size: 48 Copynumber: 9.4 Consensus size: 48
4161385 TTAATTATAT
*
4161395 CTGGTCAAACT-TATTCCA-CCATCATTTGACTATATTGGTGTTAGGGC
1 CTGGTCAAACTCT-TTTCATCCATCATTTGACTATATTGGTGTTAGGGC
* * ** * *
4161442 CTAGTCAAACTCTTTTCATCCGTTGTTTGACTATATTAGTGTCAGGGC
1 CTGGTCAAACTCTTTTCATCCATCATTTGACTATATTGGTGTTAGGGC
* * * * *
4161490 CTAGTCAAACTCTTTTCATCCCTCTTTTGACTGTATTGGTGTTAGGAC
1 CTGGTCAAACTCTTTTCATCCATCATTTGACTATATTGGTGTTAGGGC
*** ** * * * * * * **
4161538 CTGGTCAAAAAATAGGTGA--AATCATTTAACTGTATTAGCGTT-GCAAC
1 CTGGTCAAACTCT-TTTCATCCATCATTTGACTATATTGGTGTTAG-GGC
* * *
4161585 CTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTGGTGTTAAGGC
1 CTGGTCAAACTCTTTTCATCCATCATTTGACTATATTGGTGTTAGGGC
* *
4161633 TTGGTCAAACTCTTTTCATCCCTCATTTGACTATATTGGTGTTAGGGC
1 CTGGTCAAACTCTTTTCATCCATCATTTGACTATATTGGTGTTAGGGC
* * * ** * * *
4161681 CTAGTCAAACTTTTTTTATCTGTCATTTGACTATATTGATGCTAAGGC
1 CTGGTCAAACTCTTTTCATCCATCATTTGACTATATTGGTGTTAGGGC
* * * *
4161729 CTAGTCAAACTCTTTGCATCCAAT-GTTTGACTATATTGGTGTTAGGAC
1 CTGGTCAAACTCTTTTCATCC-ATCATTTGACTATATTGGTGTTAGGGC
* * * * * * * * *
4161777 TTGGTCGAACGT-TATTCATTCATCGTTTGACTGTATTAGCGTTAGGAC
1 CTGGTCAAAC-TCTTTTCATCCATCATTTGACTATATTGGTGTTAGGGC
4161825 CTGGTCAAACTCTTTTC
1 CTGGTCAAACTCTTTTC
4161842 TCTCGTGTTC
Statistics
Matches: 313, Mismatches: 76, Indels: 21
0.76 0.19 0.05
Matches are distributed among these distances:
46 3 0.01
47 46 0.15
48 260 0.83
49 4 0.01
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (48 bp):
CTGGTCAAACTCTTTTCATCCATCATTTGACTATATTGGTGTTAGGGC
Found at i:4162088 original size:42 final size:40
Alignment explanation
Indices: 4161958--4162093 Score: 105
Period size: 42 Copynumber: 3.2 Consensus size: 40
4161948 CCTTTACCCT
* * *
4161958 TTGTTGACTTATTCGTTTAGCCCTGATCAACCTTTTATCCC
1 TTGTTGACTTA-TCGTTTAGCCCTGGTCAACCTTTCATCTC
* * * * *
4161999 TTGTTTACCTAGCGGTTTAGTGCCTGGTAAACTCCTTTACA-CT-
1 TTGTTGACTTATC-GTTTAG-CCCTGGTCAA--CCTTT-CATCTC
4162042 TTGTTGACTTATCGATTTAGCCCTGGTCAACCTTTCATCTC
1 TTGTTGACTTATCG-TTTAGCCCTGGTCAACCTTTCATCTC
*
4162083 ATTGTTTACTT
1 -TTGTTGACTT
4162094 GTCGGCTCTG
Statistics
Matches: 72, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
39 2 0.03
40 8 0.11
41 15 0.21
42 25 0.35
43 15 0.21
44 6 0.08
45 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (40 bp):
TTGTTGACTTATCGTTTAGCCCTGGTCAACCTTTCATCTC
Found at i:4162219 original size:85 final size:85
Alignment explanation
Indices: 4162058--4162225 Score: 212
Period size: 85 Copynumber: 2.0 Consensus size: 85
4162048 ACTTATCGAT
* * * * * *
4162058 TTAGCCCTGGTCAACCTTTCATCTCATTGTTTACTTGTCGGCTCTGTCCCCAGTAAACCCATTAC
1 TTAGCCCCGGTCAACCTTTCATCTCACTATTTACCTGTCGACTCAGTCCCCAGTAAACCCATTAC
**
4162123 CTTTACAGTGACCTGTCAGC
66 CACTACAGTGACCTGTCAGC
**
4162143 TTAGCCTCCGGTCAACC-TTCATCTCACTATTTACCTGTCGACTCAGTCCTTAGTAAACCCATTA
1 TTAGCC-CCGGTCAACCTTTCATCTCACTATTTACCTGTCGACTCAGTCCCCAGTAAACCCATTA
**
4162207 CCACTATGGTGACCTGTCA
65 CCACTACAGTGACCTGTCA
4162226 ACCTTCATCT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
85 61 0.87
86 9 0.13
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.33
Consensus pattern (85 bp):
TTAGCCCCGGTCAACCTTTCATCTCACTATTTACCTGTCGACTCAGTCCCCAGTAAACCCATTAC
CACTACAGTGACCTGTCAGC
Found at i:4162473 original size:84 final size:85
Alignment explanation
Indices: 4162298--4162797 Score: 499
Period size: 85 Copynumber: 5.9 Consensus size: 85
4162288 CAGTTGACTT
* * * * **
4162298 AGTCCCTGGTAAACCCATTACCCCTACGATGACCTATTTGCTCAGTCTCTGGTCAACCTTCATCT
1 AGTCCCTAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCTGGTCAACCTTCATCT
* * *
4162363 TATTATTTACGTGTCGGCTC
66 CACTATTTACCTGTCGGCTC
* * * * *
4162383 AATCCCTAGTAAACCCATTACCCTTA-GGTGATCTGTCAGCTCAGTCTCCGGTCAACCTTTATCT
1 AGTCCCTAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCTGGTCAACCTTCATCT
* * *
4162447 CACTATTTAGCTGTTGGCTT
66 CACTATTTACCTGTCGGCTC
* * * *
4162467 AGTCCCTAGTAAACCCATT-CCCAATATGGTGACCTGTCAGTTCAGTCTCTAGTCAACCTTCGTC
1 AGTCCCTAGTAAACCCATTACCC-CTATGGTGACCTGTCAGCTCAGTCTCTGGTCAACCTTCATC
* *
4162531 TCACTGTTTACCTATCGGCTC
65 TCACTATTTACCTGTCGGCTC
* *
4162552 AGTCTCT-GATAAACCCATTA-CCCTATGGTGACCTGTCAGCTTAGTCTCTGGTCAACCTTCATC
1 AGTCCCTAG-TAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCTGGTCAACCTTCATC
* * *
4162615 TCACTGTTTACTTGTCGACTC
65 TCACTATTTACCTGTCGGCTC
* * * * * * * * * * *
4162636 GGTCCCTGGTAAACCAATTACCCCTATGTTGACTTGTTAACTTAGTCTTTGGTTAACCTTCATCC
1 AGTCCCTAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCTGGTCAACCTTCATCT
*
4162701 CACTATTTACCTGTCAGCTCC
66 CACTATTTACCTGTCGGCT-C
* * * * *
4162722 A-TCCCCAATAAACCCATTACCCCTATGGTGACCTGTTAGCTCAGTCT-TCGGTCAGCCTTTATC
1 AGTCCCTAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCT-GGTCAACCTTCATC
* *
4162785 TCATTGTTTACCT
65 TCACTATTTACCT
4162798 ATCGACCTAG
Statistics
Matches: 340, Mismatches: 67, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
83 3 0.01
84 136 0.40
85 200 0.59
86 1 0.00
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (85 bp):
AGTCCCTAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCTGGTCAACCTTCATCT
CACTATTTACCTGTCGGCTC
Found at i:4162551 original size:169 final size:168
Alignment explanation
Indices: 4162252--4162787 Score: 549
Period size: 169 Copynumber: 3.2 Consensus size: 168
4162242 TTACTAGTCG
** * * * *
4162252 GCTCAGTCTCCAATCAACTTTTATCTTATTATTTACCAGTTGACTTAGTCCCTGGTAAACCCATT
1 GCTCAGTCTCCGGTCAACCTTTATCTCACTATTTA-CTGTTGACTTAGTCCCTGGTAAACCCATT
* * ** * * * *
4162317 ACCCCTACGATGACCTATTTGCTCAGTCTCTGGTCAACCTTCATCTTATTATTTACGTGTCGGCT
65 ACCCCTATGATGACCTGTAAGTTCAGTCTCTGGTCAACCTTCATCTCACTATTTACCTGTCGGCT
*
4162382 CAATCCCTAGTAAACCCATTACCCT-TAGGTGATCTGTCA
130 CAATCCCTAGTAAACCCATTACCCTAT-GGTGACCTGTCA
* *
4162421 GCTCAGTCTCCGGTCAACCTTTATCTCACTATTTAGCTGTTGGCTTAGTCCCTAGTAAACCCATT
1 GCTCAGTCTCCGGTCAACCTTTATCTCACTATTTA-CTGTTGACTTAGTCCCTGGTAAACCCATT
* * * * * * *
4162486 -CCCAATATGGTGACCTGTCAGTTCAGTCTCTAGTCAACCTTCGTCTCACTGTTTACCTATCGGC
65 ACCC-CTATGATGACCTGTAAGTTCAGTCTCTGGTCAACCTTCATCTCACTATTTACCTGTCGGC
* *
4162550 TCAGTCTCT-GATAAACCCATTACCCTATGGTGACCTGTCA
129 TCAATCCCTAG-TAAACCCATTACCCTATGGTGACCTGTCA
* * * * * ** *
4162590 GCTTAGTCTCTGGTCAACCTTCATCTCACTGTTTACTTGTCGACTCGGTCCCTGGTAAACCAATT
1 GCTCAGTCTCCGGTCAACCTTTATCTCACTATTTAC-TGTTGACTTAGTCCCTGGTAAACCCATT
* * * * * * *
4162655 ACCCCTATGTTGACTTGTTAACTT-AGTCTTTGGTTAACCTTCATCCCACTATTTACCTGTCAGC
65 ACCCCTATGATGACCTG-TAAGTTCAGTCTCTGGTCAACCTTCATCTCACTATTTACCTGTCGGC
* * * *
4162719 TCCATCCCCAATAAACCCATTACCCCTATGGTGACCTGTTA
129 TCAATCCCTAGTAAACCCATTA-CCCTATGGTGACCTGTCA
* *
4162760 GCTCAGTCTTCGGTCAGCCTTTATCTCA
1 GCTCAGTCTCCGGTCAACCTTTATCTCA
4162788 TTGTTTACCT
Statistics
Matches: 299, Mismatches: 60, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
168 5 0.02
169 246 0.82
170 48 0.16
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (168 bp):
GCTCAGTCTCCGGTCAACCTTTATCTCACTATTTACTGTTGACTTAGTCCCTGGTAAACCCATTA
CCCCTATGATGACCTGTAAGTTCAGTCTCTGGTCAACCTTCATCTCACTATTTACCTGTCGGCTC
AATCCCTAGTAAACCCATTACCCTATGGTGACCTGTCA
Found at i:4164417 original size:165 final size:162
Alignment explanation
Indices: 4163837--4164417 Score: 563
Period size: 164 Copynumber: 3.5 Consensus size: 162
4163827 ACAGGTTTAG
* * * ** *
4163837 AATTTTAAAAATTCATCAAATATTATTATTT-AGTCATCATTAAATCATTTTGCAAAAATTCACA
1 AATTTTTAAAATTCATCAAATATTATCATTTAATTCA-CATTAAATCATTTTTAAAAAATTCA-T
* * * *
4163901 T-ATTTTCATAAATTTTTAATTTTT-TCTTGAAATTTTCCTATTTTTGAAATA-CGAAGTTTT-T
64 TCATTTTCATGAATGTTGAATTTTTCT-TTGAAA-TTTCCTATTTTTGAAAAATCG-AGTTTTCT
** * ** *
4163962 AACTCCTAAAATAGTTTGGGGGGATTTTTCTTTGTTTTT
126 ATTTCAT-AAATA-TTTTCGGGGATTTTTCTTAGTTTTT
* * * *
4164001 AATTTTTAAAATTAATCAAATATTATCATTTGATTCACATTAAATCAATTTTAAAAAATTTATTC
1 AATTTTTAAAATTCATCAAATATTATCATTTAATTCACATTAAATCATTTTTAAAAAATTCATTC
* * *
4164066 ATTTTCATG-A-GTTGAATTTTTTCTTTAAAATTTCTTTACTTTTGAAAAATCGAGTTTTCTATT
66 ATTTTCATGAATGTTGAA-TTTTTCTTTGAAATTTC-CTATTTTTGAAAAATCGAGTTTTCTATT
* *
4164129 TTATAAATATTTTCGGAGAGATTTTTCTTGGTTTTT
129 TCATAAATATTTTCGG-G-GATTTTTCTTAGTTTTT
* * *
4164165 AATTTTTAAAATTCATAAAATATTATCATTTAATTCACATTAAATCA-ATTTAAAAAAATCATTC
1 AATTTTTAAAATTCATCAAATATTATCATTTAATTCACATTAAATCATTTTTAAAAAATTCATTC
*
4164229 ATTTTCATGAGTGTTGTAATTTTTCTTTGAAATTCTCCTATTTTTGAAAAATCGAGTTTTCTATT
66 ATTTTCATGAATGTTG-AATTTTTCTTTGAAATT-TCCTATTTTTGAAAAATCGAGTTTTCTATT
* * **
4164294 TCATAAATATTTTTTGGGGAATTTTCTTCAGTTTAA
129 TCATAAATA-TTTTCGGGGATTTTTCTT-AGTTTTT
* * * * * *
4164330 AATTTTTAAAATTCATCTAATATTGTCATTAAACTT-ACATTAAATTATTTTTCAGAAATTCAAC
1 AATTTTTAAAATTCATCAAATATTATCATTTAA-TTCACATTAAATCATTTTTAAAAAATTC-A-
*
4164394 TT-A-TTTCATGAATTTTGAATTTTT
63 TTCATTTTCATGAATGTTGAATTTTT
4164418 TTGTATATCC
Statistics
Matches: 348, Mismatches: 50, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
162 13 0.04
163 58 0.17
164 133 0.38
165 107 0.31
166 33 0.09
167 2 0.01
168 2 0.01
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.49
Consensus pattern (162 bp):
AATTTTTAAAATTCATCAAATATTATCATTTAATTCACATTAAATCATTTTTAAAAAATTCATTC
ATTTTCATGAATGTTGAATTTTTCTTTGAAATTTCCTATTTTTGAAAAATCGAGTTTTCTATTTC
ATAAATATTTTCGGGGATTTTTCTTAGTTTTT
Found at i:4168307 original size:34 final size:34
Alignment explanation
Indices: 4168276--4168350 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
4168266 TTTAAATTGT
4168276 ATGAAATTTGATAAAAAATTGATAAAAAAATTTA
1 ATGAAATTTGATAAAAAATTGATAAAAAAATTTA
* * *
4168310 ATTAAATTTGATCAAAATTTGAT--AAAAATTTA
1 ATGAAATTTGATAAAAAATTGATAAAAAAATTTA
*
4168342 ATTAAATTT
1 ATGAAATTT
4168351 AATTAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 18 0.47
34 20 0.53
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (34 bp):
ATGAAATTTGATAAAAAATTGATAAAAAAATTTA
Found at i:4168316 original size:10 final size:10
Alignment explanation
Indices: 4168303--4168356 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
4168293 ATTGATAAAA
4168303 AAATTTAATT
1 AAATTTAATT
* *
4168313 AAATTTGATCA
1 AAATTTAAT-T
* *
4168324 AAATTTGATAA
1 AAATTTAAT-T
4168335 AAATTTAATT
1 AAATTTAATT
4168345 AAATTTAATT
1 AAATTTAATT
4168355 AA
1 AA
4168357 TTTTTAGGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
10 20 0.53
11 18 0.47
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (10 bp):
AAATTTAATT
Found at i:4168329 original size:11 final size:11
Alignment explanation
Indices: 4168279--4168340 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
4168269 AAATTGTATG
4168279 AAATTTGATAA
1 AAATTTGATAA
*
4168290 AAAATTGATAAAA
1 AAATTTGAT--AA
* *
4168303 AAATTTAAT-T
1 AAATTTGATAA
*
4168313 AAATTTGATCA
1 AAATTTGATAA
4168324 AAATTTGATAA
1 AAATTTGATAA
4168335 AAATTT
1 AAATTT
4168341 AATTAAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 8 0.20
11 24 0.59
13 9 0.22
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (11 bp):
AAATTTGATAA
Found at i:4168662 original size:72 final size:72
Alignment explanation
Indices: 4168358--4168675 Score: 245
Period size: 72 Copynumber: 4.4 Consensus size: 72
4168348 TTTAATTAAT
* * * *
4168358 TTTTAGGGTATTATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTAGGTATGATTATATGAG
1 TTTTAGGGTATTATTTATTTTTATTTGTAAAAATTTAAATGTACTTTTAGGTATGATTATACGAG
4168423 -TTAAAA
66 TTTAAAA
* * ** * * ** * *
4168429 TTTTTAAGGTATAATTTAACTTTATTTATAAAAGTTTAAATGTGTTTTTGGGGTAT-ATTTATAT
1 -TTTTAGGGTATTATTTATTTTTATTTGTAAAAATTTAAATGTACTTTT-AGGTATGA-TTATAC
*
4168493 GAGTTTAAAT
63 GAGTTTAAAA
* * * * * * * *
4168503 TTTTATGGTATAATAT-TTTTTATTTATAGAAATTTAAATGT-CTTCTTTGACTATAATTATACG
1 TTTTAGGGTATTATTTATTTTTATTTGTAAAAATTTAAATGTACTT-TTAG-GTATGATTATACG
*
4168566 AGTTT-ATA
64 AGTTTAAAA
* * * * *
4168574 TTTT-CGATCATATATTTTTTTTTTATTTGTAAAAATTTAAATTTACTTTTAGGT-TGATTACAC
1 TTTTAGGGT-AT-TA-TTTATTTTTATTTGTAAAAATTTAAATGTACTTTTAGGTATGATTATAC
4168637 GAGTTTAAAA
63 GAGTTTAAAA
*
4168647 TTTTAGGGTATTATTTATCTTTATTTGTA
1 TTTTAGGGTATTATTTATTTTTATTTGTA
4168676 GTAGTTTAAA
Statistics
Matches: 196, Mismatches: 37, Indels: 27
0.75 0.14 0.10
Matches are distributed among these distances:
70 2 0.01
71 24 0.12
72 95 0.48
73 40 0.20
74 32 0.16
75 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (72 bp):
TTTTAGGGTATTATTTATTTTTATTTGTAAAAATTTAAATGTACTTTTAGGTATGATTATACGAG
TTTAAAA
Found at i:4169490 original size:13 final size:13
Alignment explanation
Indices: 4169450--4169502 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
4169440 CCGTTAGAAG
4169450 CAATGTATCGATA
1 CAATGTATCGATA
4169463 CAA--T-TC-AT-
1 CAATGTATCGATA
4169471 C-ATGTATCGATA
1 CAATGTATCGATA
*
4169483 CAATGTATTGATA
1 CAATGTATCGATA
4169496 CAATGTA
1 CAATGTA
4169503 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4169496 original size:33 final size:33
Alignment explanation
Indices: 4169450--4169518 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
4169440 CCGTTAGAAG
*
4169450 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCGATA
*
4169483 CAATGTATTGATACAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATGTATCGATA
4169516 CAA
1 CAA
4169519 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCGATA
Found at i:4169601 original size:28 final size:29
Alignment explanation
Indices: 4169569--4169623 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
4169559 TAATTGTCCA
* *
4169569 TGTATCGATACAATG-ATCATGTATCGGT
1 TGTATCGATACAAAGCATAATGTATCGGT
4169597 TGTATCGATACAAAGCATAATGTATCG
1 TGTATCGATACAAAGCATAATGTATCG
4169624 ATACATATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (29 bp):
TGTATCGATACAAAGCATAATGTATCGGT
Found at i:4170330 original size:23 final size:23
Alignment explanation
Indices: 4170257--4170330 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
4170247 AAAAAATTTA
*
4170257 TTTTCAAACCAATATTTCTCCCCC
1 TTTTCAAAGCAATATTTCT-CCCC
* * ****
4170281 TTTTCAAAGCAAAATTTATTTTA
1 TTTTCAAAGCAATATTTCTCCCC
4170304 TTTTCAAAGCAATATTTCTCCCC
1 TTTTCAAAGCAATATTTCTCCCC
4170327 TTTT
1 TTTT
4170331 TTGTTATAGC
Statistics
Matches: 37, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
23 21 0.57
24 16 0.43
ACGTcount: A:0.28, C:0.24, G:0.03, T:0.45
Consensus pattern (23 bp):
TTTTCAAAGCAATATTTCTCCCC
Found at i:4172211 original size:20 final size:20
Alignment explanation
Indices: 4172186--4172248 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
4172176 CGATACAATA
4172186 TATCGATACAAGGAATATTG
1 TATCGATACAAGGAATATTG
*
4172206 TATCGAT-------ATAATG
1 TATCGATACAAGGAATATTG
*
4172219 TATCGATATAAGGAATATTG
1 TATCGATACAAGGAATATTG
4172239 TATCGATACA
1 TATCGATACA
4172249 TCTGGGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
13 12 0.36
20 21 0.64
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (20 bp):
TATCGATACAAGGAATATTG
Found at i:4172213 original size:33 final size:33
Alignment explanation
Indices: 4172171--4172248 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
4172161 TAGTAACCCA
4172171 TGTATCGATACAATATATCGATACAAGGAATAT
1 TGTATCGATACAATATATCGATACAAGGAATAT
* * *
4172204 TGTATCGATATAATGTATCGATATAAGGAATAT
1 TGTATCGATACAATATATCGATACAAGGAATAT
4172237 TGTATCGATACA
1 TGTATCGATACA
4172249 TCTGGGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (33 bp):
TGTATCGATACAATATATCGATACAAGGAATAT
Found at i:4172222 original size:13 final size:13
Alignment explanation
Indices: 4172204--4172229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4172194 CAAGGAATAT
4172204 TGTATCGATATAA
1 TGTATCGATATAA
4172217 TGTATCGATATAA
1 TGTATCGATATAA
4172230 GGAATATTGT
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:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATATAA
Found at i:4178407 original size:20 final size:20
Alignment explanation
Indices: 4178382--4178435 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
4178372 GTTAGAAGCA
*
4178382 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATAT-ACC
4178402 ATGTATCGATACAATATACC
1 ATGTATCGATACAATATACC
4178422 ATGTATCGATACAA
1 ATGTATCGATACAA
4178436 ACAATGGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATATACC
Found at i:4178508 original size:19 final size:18
Alignment explanation
Indices: 4178458--4178520 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 18
4178448 TAGCTACTGC
* *
4178458 CAATTTCATGTATCGATA
1 CAATGTCATGTATTGATA
4178476 CAATTGTCCATGTATTGATA
1 CAA-TGT-CATGTATTGATA
4178496 CAATGATCATGTATTGATA
1 CAATG-TCATGTATTGATA
*
4178515 AAATGT
1 CAATGT
4178521 ATCGATACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 4 0.10
19 20 0.51
20 15 0.38
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (18 bp):
CAATGTCATGTATTGATA
Found at i:4179032 original size:16 final size:16
Alignment explanation
Indices: 4179011--4179082 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
4179001 ATTATTAATT
4179011 ATAAATTTTGTAAATA
1 ATAAATTTTGTAAATA
* *
4179027 ATAAATTAT-TAACTA
1 ATAAATTTTGTAAATA
* * * * *
4179042 TTTAAACTATTATTAATT
1 -ATAAA-TTTTGTAAATA
4179060 ATAAATTTTGTAAATA
1 ATAAATTTTGTAAATA
4179076 ATAAATT
1 ATAAATT
4179083 ATTAACTTTT
Statistics
Matches: 40, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
15 5 0.12
16 26 0.65
17 6 0.15
18 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (16 bp):
ATAAATTTTGTAAATA
Found at i:4179033 original size:23 final size:24
Alignment explanation
Indices: 4179007--4179093 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 24
4178997 AACTATTATT
4179007 AATTA-TAAATTTTGTAAATAATA
1 AATTATTAAATTTTGTAAATAATA
* * *
4179030 AATTATTAACTATT-TAAACTATTATT
1 AATTATTAAATTTTGTAAA-TA--ATA
4179056 AATTA-TAAATTTTGTAAATAATA
1 AATTATTAAATTTTGTAAATAATA
*
4179079 AATTATTAACTTTTG
1 AATTATTAAATTTTG
4179094 AACAAAATAC
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
23 16 0.31
24 16 0.31
25 8 0.16
26 11 0.22
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (24 bp):
AATTATTAAATTTTGTAAATAATA
Found at i:4179044 original size:49 final size:49
Alignment explanation
Indices: 4178991--4179089 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
4178981 GTTAATCATA
4178991 TATTTAAACTATTATTAATTATAAATTTTGTAAATAATAAATTATTAAC
1 TATTTAAACTATTATTAATTATAAATTTTGTAAATAATAAATTATTAAC
4179040 TATTTAAACTATTATTAATTATAAATTTTGTAAATAATAAATTATTAAC
1 TATTTAAACTATTATTAATTATAAATTTTGTAAATAATAAATTATTAAC
4179089 T
1 T
4179090 TTTGAACAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.47
Consensus pattern (49 bp):
TATTTAAACTATTATTAATTATAAATTTTGTAAATAATAAATTATTAAC
Found at i:4180275 original size:25 final size:26
Alignment explanation
Indices: 4180226--4180276 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
4180216 AATATTTTGA
**
4180226 TTTATTTTTTTCAAATTTAATTAATT
1 TTTATTTTTTAAAAATTTAATTAATT
4180252 TTTATTTTTTAAAAATTTAA-TAATT
1 TTTATTTTTTAAAAATTTAATTAATT
4180277 AATATGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTATTTTTTAAAAATTTAATTAATT
Found at i:4181114 original size:13 final size:13
Alignment explanation
Indices: 4181096--4181121 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4181086 TACAGCAAGT
4181096 ATGTATCGATACA
1 ATGTATCGATACA
4181109 ATGTATCGATACA
1 ATGTATCGATACA
4181122 CAAAAATTTG
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:4183372 original size:21 final size:21
Alignment explanation
Indices: 4183339--4183383 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4183329 TTGCAAGTTG
*
4183339 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
4183361 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
4183381 AAA
1 AAA
4183384 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4185207 original size:15 final size:15
Alignment explanation
Indices: 4185187--4185217 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4185177 TAAAAATGTC
*
4185187 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4185202 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4185217 C
1 C
4185218 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4187302 original size:20 final size:20
Alignment explanation
Indices: 4187223--4187302 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
4187213 AATGTCCAAA
*
4187223 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
4187243 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
4187268 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
4187288 TTGTATCGATACATT
1 ATGTATCGATACATT
4187303 ATATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:4187309 original size:13 final size:13
Alignment explanation
Indices: 4187291--4187326 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4187281 TTTTTCTTTG
*
4187291 TATCGATACATTA
1 TATCGATACACTA
*
4187304 TATCGATACACTG
1 TATCGATACACTA
4187317 TATCGATACA
1 TATCGATACA
4187327 GGGTGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (13 bp):
TATCGATACACTA
Found at i:4191941 original size:16 final size:16
Alignment explanation
Indices: 4191922--4191985 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 16
4191912 AACCCGAATT
*
4191922 CAAAATGATCTGAACC
1 CAAAATGATCCGAACC
*
4191938 CAAAATGACCCGAACC
1 CAAAATGATCCGAACC
* * **
4191954 CGAAATG-GCTTAAACC
1 CAAAATGATC-CGAACC
4191970 CAAAATGATCCGAACC
1 CAAAATGATCCGAACC
4191986 TGAAATGACC
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
15 1 0.03
16 34 0.94
17 1 0.03
ACGTcount: A:0.42, C:0.30, G:0.14, T:0.14
Consensus pattern (16 bp):
CAAAATGATCCGAACC
Found at i:4193403 original size:17 final size:18
Alignment explanation
Indices: 4193372--4193427 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
4193362 TGTAAAATTA
*
4193372 AAAATAATTTATACTAAT
1 AAAATAATTTTTACTAAT
*
4193390 AAAAT-ATTTTTACTATT
1 AAAATAATTTTTACTAAT
*
4193407 AAAAATAATTTTTAATAAT
1 -AAAATAATTTTTACTAAT
4193426 AA
1 AA
4193428 TAAATTTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 10 0.31
18 12 0.38
19 10 0.31
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATAATTTTTACTAAT
Found at i:4204102 original size:12 final size:12
Alignment explanation
Indices: 4204076--4204116 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
4204066 TTCTTTTACA
4204076 TCTTTTTT-TTC
1 TCTTTTTTCTTC
4204087 -CTTTTTTCTTC
1 TCTTTTTTCTTC
*
4204098 TCTTTTATCTTC
1 TCTTTTTTCTTC
4204110 TCTTTTT
1 TCTTTTT
4204117 CCCTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 16 0.62
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTTTCTTC
Found at i:4206844 original size:20 final size:18
Alignment explanation
Indices: 4206806--4206844 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4206796 ATGAGATAGA
*
4206806 TATTTTTATTATGAAGTT
1 TATTTTTATTATCAAGTT
4206824 TATTTTTATTGAATCAAGTT
1 TATTTTTATT--ATCAAGTT
4206844 T
1 T
4206845 TATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (18 bp):
TATTTTTATTATCAAGTT
Found at i:4207710 original size:5 final size:5
Alignment explanation
Indices: 4207692--4207748 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
4207682 ACTTATAGTT
* *
4207692 ATATA AT-T- ATATA ATATA A-A-A ATAAA ATATA ATATA ATATAA AAATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT-A ATATA
4207739 ATATGA ATAT
1 ATAT-A ATAT
4207749 TACATAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
3 4 0.09
4 4 0.09
5 26 0.60
6 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:4207723 original size:18 final size:17
Alignment explanation
Indices: 4207700--4207742 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
4207690 TTATATAATT
4207700 ATATAATATAAAAATAAA
1 ATATAATAT-AAAATAAA
*
4207718 ATATAATATAATATAAA
1 ATATAATATAAAATAAA
4207735 A-ATAATAT
1 ATATAATAT
4207743 GAATATTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 7 0.29
17 8 0.33
18 9 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAATATAAAATAAA
Found at i:4208662 original size:27 final size:27
Alignment explanation
Indices: 4208603--4208665 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
4208593 AACATTTGTT
* * *
4208603 GTTTTAACTTTTCTAAGGTAATTAAACT
1 GTTTT-ACTTTTCAAAAGTAATTAAACC
*
4208631 TTTTTACTTTTCAAAAGTAATTAAACC
1 GTTTTACTTTTCAAAAGTAATTAAACC
4208658 GTTTTACT
1 GTTTTACT
4208666 CTTTTTTCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.48
Consensus pattern (27 bp):
GTTTTACTTTTCAAAAGTAATTAAACC
Found at i:4212030 original size:28 final size:28
Alignment explanation
Indices: 4211949--4212030 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
4211939 TTTTGGAGAT
*
4211949 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
4211977 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
4212005 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
4212031 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:4212173 original size:51 final size:51
Alignment explanation
Indices: 4212013--4212183 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
4212003 GAAATAACGA
* * *
4212013 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
4212065 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
4212118 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
4212169 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
4212184 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:4212229 original size:27 final size:28
Alignment explanation
Indices: 4212166--4212241 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
4212156 AAAATAAAGT
*
4212166 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
4212194 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
4212221 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
4212242 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:4214736 original size:13 final size:13
Alignment explanation
Indices: 4214718--4214743 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4214708 ACAAAGATCC
4214718 ATGTATCGATACA
1 ATGTATCGATACA
4214731 ATGTATCGATACA
1 ATGTATCGATACA
4214744 CAAAAAAATG
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:4214807 original size:19 final size:18
Alignment explanation
Indices: 4214783--4214850 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
4214773 CAGTAGCTAA
4214783 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4214802 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4214817 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
4214834 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
4214851 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4214823 original size:13 final size:13
Alignment explanation
Indices: 4214805--4214829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4214795 ACAATACTTA
4214805 TGTATCGATACAT
1 TGTATCGATACAT
4214818 TGTATCGATACA
1 TGTATCGATACA
4214830 AAACTTATGT
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:4214827 original size:32 final size:32
Alignment explanation
Indices: 4214786--4214848 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4214776 TAGCTAATTA
*
4214786 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4214818 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
4214849 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4215295 original size:8 final size:8
Alignment explanation
Indices: 4215284--4215331 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 8
4215274 AGAAAACCAG
4215284 AAAAGAAA
1 AAAAGAAA
4215292 AAAAGAGAA
1 AAAAGA-AA
*
4215301 AGAAATAAAA
1 A-AAA-GAAA
4215311 AAAAGAAA
1 AAAAGAAA
4215319 AAAAGGAAA
1 AAAA-GAAA
4215328 AAAA
1 AAAA
4215332 AAGTTTTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
8 13 0.38
9 14 0.41
10 6 0.18
11 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (8 bp):
AAAAGAAA
Found at i:4215303 original size:27 final size:25
Alignment explanation
Indices: 4215284--4215333 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
4215274 AGAAAACCAG
4215284 AAAAGAAAAAAAGAGAAAGAAATAAAA
1 AAAAGAAAAAAAG-GAAAGAAA-AAAA
4215311 AAAAGAAAAAAAGGAAA-AAAAAA
1 AAAAGAAAAAAAGGAAAGAAAAAA
4215334 GTTTTTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 3 0.13
25 3 0.13
26 4 0.17
27 13 0.57
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAAAAGGAAAGAAAAAAA
Found at i:4215445 original size:17 final size:17
Alignment explanation
Indices: 4215423--4215457 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4215413 TCCTAAGCCA
*
4215423 TGGCTTCGGCGATAAGT
1 TGGCTTAGGCGATAAGT
*
4215440 TGGCTTAGGTGATAAGT
1 TGGCTTAGGCGATAAGT
4215457 T
1 T
4215458 TGAATGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.11, G:0.34, T:0.34
Consensus pattern (17 bp):
TGGCTTAGGCGATAAGT
Found at i:4223962 original size:152 final size:151
Alignment explanation
Indices: 4223728--4224158 Score: 429
Period size: 152 Copynumber: 2.8 Consensus size: 151
4223718 AAGAGAACCG
* * * ** * * * * *
4223728 GTGATAACCTAAGACTAGGTTCTGAGAAAACCATTAAAAT-TCCCTTAGAGGATACCTTCAATGT
1 GTGATAACCTAGGACTCGGTTCTAAGAAAATTACTAAAATGCCCCTAAG-GGATACCTTCGACGT
**
4223792 AAAAGTAT-TTTGATAACCCTAAATGACTTAAAAATGAAAAGGGATGAACCTATCCTAAATGTAC
65 AAAAGTATCTAAG-TAACCCTAAA-GACTTAAAAATGAAAAGGGATGAACCTATCCTAAATGTAC
* ** *
4223856 ACCTTTGGTATGGAAGCGGA-CCT
128 ACCTTCGACATAGAAGCGGACCCT
* * * * * *
4223879 AGTGATAACTTAGGACTTGGTTCTAGGAAAATTACTAAAATGTCTCTAAGGGATACCTTTGACGT
1 -GTGATAACCTAGGACTCGGTTCTAAGAAAATTACTAAAATGCCCCTAAGGGATACCTTCGACGT
** * * *
4223944 AAAAGTATCCT-AGTAACCCTAAAAGACTTAACCAGGAAAATGGATGAACCTATCCTAAATGTAT
65 AAAAGTAT-CTAAGTAACCCT-AAAGACTTAAAAATGAAAAGGGATGAACCTATCCTAAATGTAC
4224008 ACCTTCGACATAGAAGCGGACCCT
128 ACCTTCGACATAGAAGCGGACCCT
* * * *
4224032 GTGATAACCTAGGACTCGGTTCTAAGAAATTTATTAAAATGCCCCTAGGGGATACCTTCGTCGTA
1 GTGATAACCTAGGACTCGGTTCTAAGAAAATTACTAAAATGCCCCTAAGGGATACCTTCGACGTA
* * *
4224097 AAAGTATCTAAGTAACCCTAAAGAACTTTAAAAGGTAAAAGATGGGATAAACCTATCCTAAA
66 AAAGTATCTAAGTAACCCTAAAG-AC-TTAAAA-ATGAAA-A-GGGATGAACCTATCCTAAA
4224159 CGCCCACCTT
Statistics
Matches: 228, Mismatches: 40, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
151 6 0.03
152 183 0.80
153 17 0.07
154 4 0.02
155 1 0.00
156 17 0.07
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (151 bp):
GTGATAACCTAGGACTCGGTTCTAAGAAAATTACTAAAATGCCCCTAAGGGATACCTTCGACGTA
AAAGTATCTAAGTAACCCTAAAGACTTAAAAATGAAAAGGGATGAACCTATCCTAAATGTACACC
TTCGACATAGAAGCGGACCCT
Found at i:4225576 original size:11 final size:11
Alignment explanation
Indices: 4225560--4225725 Score: 79
Period size: 11 Copynumber: 14.4 Consensus size: 11
4225550 ATTTTTATGT
4225560 TTGTTTGCTTG
1 TTGTTTGCTTG
*
4225571 TTGTTTTGCTAG
1 TTG-TTTGCTTG
4225583 TTGTTTGCTTG
1 TTGTTTGCTTG
*
4225594 CTGTCTTGC-TG
1 TTGT-TTGCTTG
* *
4225605 CTGTTAGCTT-
1 TTGTTTGCTTG
*
4225615 TCTGTTTTGCTGG
1 T-TG-TTTGCTTG
* *
4225628 TTGTTTACTTA
1 TTGTTTGCTTG
4225639 TTGTCTTGC-TG
1 TTGT-TTGCTTG
*
4225650 CTGTTTGCTTG
1 TTGTTTGCTTG
* *
4225661 CTGCTCGTGCTTG
1 TTG-T-TTGCTTG
*
4225674 TTGGTTTGCTGCTT
1 TT-GTTTGCT--TG
*
4225688 TTTTTTGCTTG
1 TTGTTTGCTTG
*
4225699 CTGTTTTGC-TG
1 TTG-TTTGCTTG
4225710 CTTGTTTGCTTG
1 -TTGTTTGCTTG
4225722 TTGT
1 TTGT
4225726 CTTGTTGCTA
Statistics
Matches: 117, Mismatches: 22, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
10 7 0.06
11 53 0.45
12 38 0.32
13 15 0.13
14 4 0.03
ACGTcount: A:0.02, C:0.16, G:0.25, T:0.57
Consensus pattern (11 bp):
TTGTTTGCTTG
Found at i:4225586 original size:23 final size:22
Alignment explanation
Indices: 4225560--4225683 Score: 97
Period size: 23 Copynumber: 5.4 Consensus size: 22
4225550 ATTTTTATGT
*
4225560 TTGTTTGCTTGTTGTTTTGCTAG
1 TTGTTTGCTTGTTGTCTTGCT-G
*
4225583 TTGTTTGCTTGCTGTCTTGCTG
1 TTGTTTGCTTGTTGTCTTGCTG
* * *
4225605 CTGTTAGCTT-TCTGTTTTGCTGG
1 TTGTTTGCTTGT-TGTCTTGCT-G
* *
4225628 TTGTTTACTTATTGTCTTGCTG
1 TTGTTTGCTTGTTGTCTTGCTG
* * *
4225650 CTGTTTGCTTGCTGCTCGTGCTTG
1 TTGTTTGCTTGTTG-TCTTGC-TG
4225674 TTGGTTTGCT
1 TT-GTTTGCT
4225684 GCTTTTTTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
22 28 0.35
23 40 0.51
24 4 0.05
25 7 0.09
ACGTcount: A:0.03, C:0.16, G:0.26, T:0.55
Consensus pattern (22 bp):
TTGTTTGCTTGTTGTCTTGCTG
Found at i:4225644 original size:45 final size:45
Alignment explanation
Indices: 4225572--4225659 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
4225562 GTTTGCTTGT
* *
4225572 TGTTTTGCTAGTTGTTTGCTTGCTGTCTTGCTGCTGTTAGCTTTC
1 TGTTTTGCTAGTTGTTTACTTACTGTCTTGCTGCTGTTAGCTTTC
* * *
4225617 TGTTTTGCTGGTTGTTTACTTATTGTCTTGCTGCTGTTTGCTT
1 TGTTTTGCTAGTTGTTTACTTACTGTCTTGCTGCTGTTAGCTT
4225660 GCTGCTCGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.05, C:0.16, G:0.24, T:0.56
Consensus pattern (45 bp):
TGTTTTGCTAGTTGTTTACTTACTGTCTTGCTGCTGTTAGCTTTC
Found at i:4225721 original size:23 final size:22
Alignment explanation
Indices: 4225668--4225759 Score: 85
Period size: 23 Copynumber: 4.0 Consensus size: 22
4225658 TTGCTGCTCG
*
4225668 TGCTTGTTGGTTTGCTGCTTTTTTT
1 TGCTTGTTGTTTTGCTGC---TTTT
*
4225693 TGCTTGCTGTTTTGCTGCTTGTT
1 TGCTTGTTGTTTTGCTGCTT-TT
* *
4225716 TGCTTGTTGTCTTGTTGCTATTT
1 TGCTTGTTGTTTTGCTGCT-TTT
**
4225739 TTTTTGTTGTTTTGCTGCTTT
1 TGCTTGTTGTTTTGCTGCTTT
4225760 GCCTGCTGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
22 4 0.07
23 35 0.62
24 1 0.02
25 16 0.29
ACGTcount: A:0.01, C:0.13, G:0.23, T:0.63
Consensus pattern (22 bp):
TGCTTGTTGTTTTGCTGCTTTT
Found at i:4225775 original size:43 final size:44
Alignment explanation
Indices: 4225700--4225797 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 44
4225690 TTTTGCTTGC
* *
4225700 TGTTTTGCTGCTTGTTTGCTTGTTGTCTTGTTGCTATTTTTTTTGT
1 TGTTTTGCTGC-T-TTTGCCTGCTGTCTTGTTGCTATTTTTTTTGT
* *
4225746 TGTTTTGCTGC-TTTGCCTGCTGTTTTGTTGTTATTTTTTTTGT
1 TGTTTTGCTGCTTTTGCCTGCTGTCTTGTTGCTATTTTTTTTGT
*
4225789 TTTTTTGCT
1 TGTTTTGCT
4225798 TGAAAATCGA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 36 0.77
46 11 0.23
ACGTcount: A:0.02, C:0.11, G:0.20, T:0.66
Consensus pattern (44 bp):
TGTTTTGCTGCTTTTGCCTGCTGTCTTGTTGCTATTTTTTTTGT
Found at i:4226043 original size:23 final size:24
Alignment explanation
Indices: 4226016--4226081 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
4226006 GGTGGATTTG
*
4226016 ATAAAAATGATAAAAT-ATTAATA
1 ATAAAAATAATAAAATAATTAATA
*
4226039 ATAAAAATAATAATATAATTAAT-
1 ATAAAAATAATAAAATAATTAATA
*
4226062 AT-AATATAATAAAATTAATT
1 ATAAAAATAATAAAA-TAATT
4226082 TTTAATCGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.27
23 21 0.57
24 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
ATAAAAATAATAAAATAATTAATA
Found at i:4226080 original size:14 final size:14
Alignment explanation
Indices: 4226028--4226074 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
4226018 AAAAATGATA
4226028 AAATATTAATAATAA-
1 AAATA-TAAT-ATAAT
4226043 AAATAATAATATAAT
1 AAAT-ATAATATAAT
*
4226058 TAATATAATATAAT
1 AAATATAATATAAT
4226072 AAA
1 AAA
4226075 ATTAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 16 0.57
15 11 0.39
16 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATATAATATAAT
Found at i:4227125 original size:19 final size:21
Alignment explanation
Indices: 4227079--4227132 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
4227069 TTTTCATAAT
4227079 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAATAGTAA
* *
4227100 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAATAGTAA
4227119 TTGTATCGATACAA
1 TTGTATCGATACAA
4227133 TGTATTGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAATAGTAA
Found at i:4227181 original size:13 final size:13
Alignment explanation
Indices: 4227163--4227203 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
4227153 GCCAAGGAAA
4227163 TGTATCGATACAT
1 TGTATCGATACAT
4227176 TGTATCGATACAT
1 TGTATCGATACAT
4227189 TGTATCGATACAT
1 TGTATCGATACAT
4227202 TG
1 TG
4227204 ATCTTTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4227213 original size:20 final size:20
Alignment explanation
Indices: 4227188--4227238 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
4227178 TATCGATACA
4227188 TTGTATCGATACATTGATCT
1 TTGTATCGATACATTGATCT
4227208 TTGTATCGATACATTGATCT
1 TTGTATCGATACATTGATCT
4227228 TTGTATCGATA
1 TTGTATCGATA
4227239 TATCTGGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGATCT
Found at i:4233821 original size:18 final size:18
Alignment explanation
Indices: 4233787--4233821 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4233777 CAATGTAAAG
* *
4233787 AAATATTATGCTTAAAAC
1 AAATATTATACTAAAAAC
4233805 AAATATTATACTAAAAA
1 AAATATTATACTAAAAA
4233822 AATTGAATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATATTATACTAAAAAC
Found at i:4234878 original size:13 final size:14
Alignment explanation
Indices: 4234855--4234888 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
4234845 AAATCAAATT
4234855 ATAAA-AAAATAAA
1 ATAAATAAAATAAA
4234868 A-AAATAAAATAAA
1 ATAAATAAAATAAA
4234881 ATAAATAA
1 ATAAATAA
4234889 GACATATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 10 0.53
14 6 0.32
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (14 bp):
ATAAATAAAATAAA
Found at i:4235179 original size:44 final size:44
Alignment explanation
Indices: 4235043--4236612 Score: 591
Period size: 44 Copynumber: 35.9 Consensus size: 44
4235033 ACCGAATTTT
* * * *
4235043 TTTTCATTCTT-GCTTGACATATGGTTACCACCCTAGTTAAGTTC
1 TTTTCATT-TTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* ** * **
4235087 TTGTCATTTAT-GTTTGATGTATGGTTAGCACCCTAATCAAACTT-
1 TTTTCATTT-TGGTTTGACATATGGTTACCACCCTGGTCAAA-TTC
* *
4235131 TTTTCATTTTGGTCTGACATATGGTTACCACCCTGGTCAGATTC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * *** * * *
4235175 TTTTCATTCTGATTTGACATACCATTATCACCTTAGTCAAA-TC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
** * * *
4235218 -TGCCATTTTCTTGTTTGACATATGGTTATCACCTTGGTCAAA--C
1 TTTTCA-TTT-TGGTTTGACATATGGTTACCACCCTGGTCAAATTC
** * *
4235261 TTTTCTTATTTCAGTTTGACGTATGGTTACCACCCTGGTCAGATTC
1 TTTTC--ATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * ** * * *
4235307 TTTTCATTCTGATTTGACGCATGGTTACCACTCTAGTAAAATT-
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * ***
4235350 TTTCTCCTTCCTT--TTTGACGTATGGCTACCACCCTGGTCAACCCC
1 TTT-TCATT--TTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
** * * * * *
4235395 TTTTCAAGTCGGTTTGACACATGGATACCACCCTGGTCAGACTC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * * *
4235439 ATTTCATTTCT-ATTTGACATATGGTTACCACCATGGTTAAACTC
1 TTTTCATTT-TGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* ** * * * *
4235483 TTCTCATTTCAGTCTAACGTATGGTTACCACCCTAGTC-AATTC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * **
4235526 TTTTCATTCTGATTTGACGA-ATGGTTACCACCCTGGTCAAACCC
1 TTTTCATTTTGGTTTGAC-ATATGGTTACCACCCTGGTCAAATTC
* * * * * *
4235570 TTTTCAAGTCT-GTTTGACGTATGGATACCATCCTGGTCAAACTC
1 TTTTC-ATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* ** * * *
4235614 CTTTCATTCTT-ACTTAACATATGGTTACCACCCTGGTTAAGTTC
1 TTTTCATT-TTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* ** *
4235658 TTTTCATTTAT-GTTTGGCGCATGGTTACCACCCTGGTCAAACTC
1 TTTTCATTT-TGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * ** * *
4235702 TTCTT-ATTTTAGTCTAATGTATGGTTATCACCATGGTCAAATTC
1 TT-TTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * ** ** *
4235746 TTTTTATTCTGATTTGATGTACAGTTACCACCTTGGTCAAATCTTCC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAA--TT-C
* * * * *
4235793 TTTTC--CTT-GTTTAATATATAGTTACCACCTTGGTCAAACTT-
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAA-TTC
* * * * *
4235834 TTCTCATTTCGGTCTAACATATGGTTACCACCTTGGTCAAATTC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* ** ** * * *
4235878 TTTTCATTCTAATTTGACGCATGATTACCACCTTAGTCAAA-TC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
** * * * * **
4235921 TACCTCTATTTT-GTTTAACGTATGGTTACCACCCTAGTTAAACCC
1 T-TTTC-ATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* ** * * * * * *
4235966 ATTTCAAGTCGATTTGACATATGGATACCA-CCTTGTTAAGACTC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAA-ATTC
** ** * * *
4236010 TTTTCATTTCT-ACTTGATGTATGGTTACCACCTTGGTTAAGTTC
1 TTTTCATTT-TGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * *
4236054 TTTTCATTTAT-GTTTGACATATGGTTACCACCCTAGCCAAACTC
1 TTTTCATTT-TGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * * * *
4236098 TTATCATTTTGGTCTAACGTATGGTTACCACCCTCGTCAGATTC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * *** *
4236142 TTTTTATTTTGATTTAACATACAATTACCACCTTGGTCAAA-TC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
** * * * * * ** *
4236185 TGCCTCCTTCCT-ATTTGACATTTGGTTACCACCATAATCAAACTC
1 T-TTTCATT-TTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * *
4236230 TTCTT-ATTTTGGTTTGACGTATGATTACCACCCTAGTCAGATTC
1 TT-TTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * *** *
4236274 TTTTCATTCTGATTTGATGCATGGTTACCACCCTGGTTAAA-TC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * ** * *
4236317 -TATC-TCCTT--CCTG---TATGGTTATCACCCTGGTCAAACTC
1 TTTTCAT-TTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
** ** * * * *
4236355 TTTTCAAGTTAATTTGACATATGGATACTACCCTGGTCAGACTC
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * **
4236399 TTTTCATTCTT-GCTTGACGTATGGTTACCACCCTAGTCAAGCTC
1 TTTTCATT-TTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * *
4236443 TTTTCATTCT-GTTTGACATATGATTACCACTCTGATCAAA--C
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * * * * *
4236484 TTTTCACATTTTAGTCTGGCATATGGTTACCACCTTAGTTAGATTC
1 TTTT--CATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * * * * *
4236530 TTGGT-ATGTTGATATGACGTATGGTTACCGCCCTGGTCAAATTT
1 TT-TTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
* * * * *
4236574 TTTTC-TCTTAGTTTGGCGTAT-GTTACCACCCTAGTCAAA
1 TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAA
4236613 CTATTTACAT
Statistics
Matches: 1124, Mismatches: 336, Indels: 134
0.71 0.21 0.08
Matches are distributed among these distances:
37 19 0.02
38 2 0.00
39 5 0.00
40 2 0.00
41 12 0.01
42 24 0.02
43 119 0.11
44 888 0.79
45 34 0.03
46 13 0.01
47 6 0.01
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (44 bp):
TTTTCATTTTGGTTTGACATATGGTTACCACCCTGGTCAAATTC
Found at i:4235576 original size:175 final size:175
Alignment explanation
Indices: 4235323--4235697 Score: 461
Period size: 175 Copynumber: 2.1 Consensus size: 175
4235313 TTCTGATTTG
* * * * *
4235323 ACGCATGGTTACCACTCTAGTAAAATT-TTTCTCCTTCCT-TTTTGACGTATGGCTACCACCCTG
1 ACGCATGGTTACCACCCTAGT-CAATTCTTT-TCATT-CTGATTTGACGAATGGCTACCACCCTG
* *
4235386 GTCAACCCCTTTTCAAGTCGGTTTGACACATGGATACCACCCTGGTCAGACTCATTTCATT-TCT
63 GTCAAACCCTTTTCAAGTCGGTTTGACACATGGATACCACCCTGGTCAAACTCATTTCATTCT-T
* *
4235450 ATTTGACATATGGTTACCACCATGGTTAAACTCTTCTCATTTCA-GTCTA
127 ACTTAACATATGGTTACCACCATGGTTAAACTCTTCTCATTT-ATGTCTA
* *
4235499 ACGTATGGTTACCACCCTAGTCAATTCTTTTCATTCTGATTTGACGAATGGTTACCACCCTGGTC
1 ACGCATGGTTACCACCCTAGTCAATTCTTTTCATTCTGATTTGACGAATGGCTACCACCCTGGTC
* ** * *
4235564 AAACCCTTTTCAAGTCTGTTTGACGTATGGATACCATCCTGGTCAAACTCCTTTCATTCTTACTT
66 AAACCCTTTTCAAGTCGGTTTGACACATGGATACCACCCTGGTCAAACTCATTTCATTCTTACTT
* ** * * *
4235629 AACATATGGTTACCACCCTGGTTAAGTTCTTTTCATTTATGTTTG
131 AACATATGGTTACCACCATGGTTAAACTCTTCTCATTTATGTCTA
* *
4235674 GCGCATGGTTACCACCCTGGTCAA
1 ACGCATGGTTACCACCCTAGTCAA
4235698 ACTCTTCTTA
Statistics
Matches: 170, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
174 3 0.02
175 144 0.85
176 23 0.14
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.36
Consensus pattern (175 bp):
ACGCATGGTTACCACCCTAGTCAATTCTTTTCATTCTGATTTGACGAATGGCTACCACCCTGGTC
AAACCCTTTTCAAGTCGGTTTGACACATGGATACCACCCTGGTCAAACTCATTTCATTCTTACTT
AACATATGGTTACCACCATGGTTAAACTCTTCTCATTTATGTCTA
Found at i:4236802 original size:42 final size:41
Alignment explanation
Indices: 4236736--4236854 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 41
4236726 TTTTAACCTT
*
4236736 TTGTTGACTTATCAG-TTCAGCCCTGGTCAACCTTTTATCCC
1 TTGTTGACCTATCAGCTT-AGCCCTGGTCAACCTTTTATCCC
* *
4236777 TTGCTT-ACCTATCAGCTTAGTCCCTGGTGAACTCCTTTATCCC
1 TTG-TTGACCTATCAGCTTAG-CCCTGGTCAAC-CTTTTATCCC
* * *
4236820 TTGTTGACTTATCGGTTTAGCCCTGGTCAA-CTTTT
1 TTGTTGACCTATCAGCTTAGCCCTGGTCAACCTTTT
4236855 CGTCTCTGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
40 4 0.06
41 13 0.20
42 25 0.38
43 23 0.35
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.40
Consensus pattern (41 bp):
TTGTTGACCTATCAGCTTAGCCCTGGTCAACCTTTTATCCC
Found at i:4236832 original size:84 final size:84
Alignment explanation
Indices: 4236736--4236956 Score: 234
Period size: 83 Copynumber: 2.6 Consensus size: 84
4236726 TTTTAACCTT
* * * *
4236736 TTGTTGACTTATCAGTTCAGCCCTGGTCAACCTTTTATCCCTTGCTTACCTATCAGCTTAGTCCC
1 TTGTTGACTTATCAGTTCAGCCCTGGTCAACCTTTTATCTCTTGTTTACCTATCAGCTCA-ACCC
* *
4236801 -TGGTGAACTCCTTTA-TCCC
65 TTGGTAAACTCCCTTACT-CC
* * * * * **
4236820 TTGTTGACTTATCGGTTTAGCCCTGGTCAA-CTTTTCGTCTC-TGTTTACTTGTTGGCTCAACCC
1 TTGTTGACTTATCAGTTCAGCCCTGGTCAACCTTTT-ATCTCTTGTTTACCTATCAGCTCAACCC
*
4236883 TTGGTAAACTCCCTTACTCT
65 TTGGTAAACTCCCTTACTCC
* * *
4236903 TTGTTGAATTATCAGTTCAGCCTTGGTCAACCTTTCATCTCTTGTTTACCTATC
1 TTGTTGACTTATCAGTTCAGCCCTGGTCAACCTTTTATCTCTTGTTTACCTATC
4236957 GACTTGGTCA
Statistics
Matches: 109, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
82 3 0.03
83 61 0.56
84 45 0.41
ACGTcount: A:0.16, C:0.28, G:0.15, T:0.41
Consensus pattern (84 bp):
TTGTTGACTTATCAGTTCAGCCCTGGTCAACCTTTTATCTCTTGTTTACCTATCAGCTCAACCCT
TGGTAAACTCCCTTACTCC
Found at i:4238402 original size:166 final size:166
Alignment explanation
Indices: 4238103--4238572 Score: 558
Period size: 167 Copynumber: 2.8 Consensus size: 166
4238093 ATTTTTATTT
* * * * * * *
4238103 TTTTCCTTGAAA-TTCTCTTGTTTTCGAAAAAA-AAGCTTTTTGCTCCGTAATTGTTTTCAGGGG
1 TTTTCCTTGAAATTTC-CTTATTTCCCAAAAAATGAGTTTTTTGCTCCGTAAATGTTTTCAGAGG
* * *
4238166 TATTTTTCTTGGTTTTTAA-TTTTAAAATTCTTCAAATATTATTATTTAATTCATATT-AATCAG
65 -ATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAA
* *
4238229 TTTTC-AAAATTTCATTTATTTTCA-AGAGTTTTTCATA
129 TTTTCAAAAAATTCATTCATTTTCATA-AGTTTTTCATA
4238266 TTTTCCTTGAAATTTCCTTATTTCCCAAAAAATGAGTTTTTTGCTCCGTAAATGTTTTCAAGAGG
1 TTTTCCTTGAAATTTCCTTATTTCCCAAAAAATGAGTTTTTTGCTCCGTAAATGTTTTC-AGAGG
*
4238331 ATTTTTCTTCGTTTTTAATTTTTAAAAATTCATCAAATATTATTATTTAATTCATATTAAAT-AA
65 ATTTTTCTTAGTTTTTAATTTTT-AAAATTCATCAAATATTATTATTTAATTCATATTAAATCAA
*
4238395 TTTTCAAAAAATTCATTCATTTTCATAAGTTTTTCATT
129 TTTTCAAAAAATTCATTCATTTTCATAAGTTTTTCATA
* * * *** * * *
4238433 TTTTCTTTGAAATCTCCCTATTTCTTGAAAAATCGAGTTTTCTACTCCGTAAATGTTTTCGGGAG
1 TTTTCCTTGAAATTTCCTTATTTCCCAAAAAAT-GAGTTTTTTGCTCCGTAAATGTTTTC-AGAG
** * * * *
4238498 GATTTTTCTTAGTTTAAAATTTTTAAAATTCATCTAATATTATTATTAAATTCAAATTAAATCAG
64 GATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAA
*
4238563 TTTTGAAAAA
129 TTTTCAAAAA
4238573 TACAAATTAT
Statistics
Matches: 266, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
163 25 0.09
164 43 0.16
165 8 0.03
166 39 0.15
167 92 0.35
168 59 0.22
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.49
Consensus pattern (166 bp):
TTTTCCTTGAAATTTCCTTATTTCCCAAAAAATGAGTTTTTTGCTCCGTAAATGTTTTCAGAGGA
TTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATT
TTCAAAAAATTCATTCATTTTCATAAGTTTTTCATA
Found at i:4239111 original size:13 final size:13
Alignment explanation
Indices: 4239059--4239113 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
4239049 GAAAATCAAC
4239059 AAAAAA-AAAGAGA
1 AAAAAATAAAGA-A
*
4239072 GAAAAATAAAGAA
1 AAAAAATAAAGAA
*
4239085 AAAAAAGAAAGAA
1 AAAAAATAAAGAA
* *
4239098 AGAAAATAAGGAA
1 AAAAAATAAAGAA
4239111 AAA
1 AAA
4239114 TAGAAAGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 29 0.85
14 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAAAATAAAGAA
Found at i:4239112 original size:25 final size:27
Alignment explanation
Indices: 4239059--4239123 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 27
4239049 GAAAATCAAC
*
4239059 AAAAAA-AAAGAGAGAAAAATAAAGAA
1 AAAAAAGAAAGAAAGAAAAATAAAGAA
*
4239085 AAAAAAGAAAGAAAG-AAAAT-AAGGA
1 AAAAAAGAAAGAAAGAAAAATAAAGAA
*
4239110 AAAATAGAAAGAAA
1 AAAAAAGAAAGAAA
4239124 AAGCTTGAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 17 0.49
26 11 0.31
27 7 0.20
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (27 bp):
AAAAAAGAAAGAAAGAAAAATAAAGAA
Found at i:4239125 original size:13 final size:12
Alignment explanation
Indices: 4239059--4239125 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
4239049 GAAAATCAAC
4239059 AAAAAAA-AAGAG
1 AAAAAAAGAA-AG
* *
4239071 AGAAAAATAAAG
1 AAAAAAAGAAAG
4239083 AAAAAAAAGAAAG
1 -AAAAAAAGAAAG
* *
4239096 AAAGAAAATAAGG
1 AAA-AAAAGAAAG
*
4239109 AAAAATAGAAAG
1 AAAAAAAGAAAG
4239121 AAAAA
1 AAAAA
4239126 GCTTGAGTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
12 22 0.50
13 22 0.50
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.04
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:4240148 original size:3 final size:3
Alignment explanation
Indices: 4240142--4240172 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4240132 TTTTAAAAAG
4240142 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4240173 AAAATTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4242217 original size:52 final size:52
Alignment explanation
Indices: 4242120--4242259 Score: 172
Period size: 52 Copynumber: 2.7 Consensus size: 52
4242110 AATTGCCGGC
* * * * * * *
4242120 ATGTATTGATACATTGAAGAATCTACCAATACATTTGGGTTAAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCAATACATTTAGGTCAAAAACCCAGA
** ** *
4242172 ATGTATCGATGTAATGAAAAATGTATTGATACATTTAGGTCAAAAACCTAGA
1 ATGTATCGATACAATGAAAAATGTATCAATACATTTAGGTCAAAAACCCAGA
4242224 ATGTATCGATACAATGAAAAATGTATCAATACATTT
1 ATGTATCGATACAATGAAAAATGTATCAATACATTT
4242260 CCTTTCCAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCAATACATTTAGGTCAAAAACCCAGA
Found at i:4243494 original size:72 final size:72
Alignment explanation
Indices: 4243395--4243540 Score: 220
Period size: 72 Copynumber: 2.0 Consensus size: 72
4243385 CAAAGTCAGC
* * * *
4243395 ATGAAATTAAAGTAAGTAAACTGCTGAACAAGAAGAAGAAACGCATGAAAGAAAAAGCAATTAAG
1 ATGAAATTAAAGAAAGTAAACTACTGAACAAGAAGAAGAAACACATGAAAAAAAAAGCAATTAAG
4243460 CTGCAAA
66 CTGCAAA
* * * *
4243467 ATGAAATTAAAGAAATTAAGCTACTGAACCAGAGGAAGAAACACATGAAAAAAAAAGCAATTAAG
1 ATGAAATTAAAGAAAGTAAACTACTGAACAAGAAGAAGAAACACATGAAAAAAAAAGCAATTAAG
4243532 CTGCAAA
66 CTGCAAA
4243539 AT
1 AT
4243541 TAAGCTGCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.55, C:0.12, G:0.18, T:0.16
Consensus pattern (72 bp):
ATGAAATTAAAGAAAGTAAACTACTGAACAAGAAGAAGAAACACATGAAAAAAAAAGCAATTAAG
CTGCAAA
Found at i:4243542 original size:58 final size:58
Alignment explanation
Indices: 4243479--4243667 Score: 155
Period size: 58 Copynumber: 3.1 Consensus size: 58
4243469 GAAATTAAAG
* * * *
4243479 AAATTAAGCTACTGAACCAGAGGAAGAAACACATGAAA-AAAAAAGCAATTAAGCTGCA
1 AAATTAAGCTACTAAACAAGAAGAAGAAACACATGAAAGAAAAAA-CAATTAAGCTACA
* * **
4243537 AAATTAAGCTGCTAAACAAGAAGTAGAAATGCATGAAAGAAAAAACAATTAAGCTACA
1 AAATTAAGCTACTAAACAAGAAGAAGAAACACATGAAAGAAAAAACAATTAAGCTACA
* * *
4243595 AAATGAAAAAGCAATTATGACGATGAACAAGAAGAAGAAACACATGAAAGAAAAAATAATTAAGC
1 AAAT---TAAGC-----T-AC--TAAACAAGAAGAAGAAACACATGAAAGAAAAAACAATTAAGC
*
4243660 TGCA
55 TACA
4243664 AAAT
1 AAAT
4243668 GAAAAAGAAA
Statistics
Matches: 103, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
58 47 0.46
59 6 0.06
61 4 0.04
66 1 0.01
67 1 0.01
69 44 0.43
ACGTcount: A:0.56, C:0.12, G:0.16, T:0.15
Consensus pattern (58 bp):
AAATTAAGCTACTAAACAAGAAGAAGAAACACATGAAAGAAAAAACAATTAAGCTACA
Found at i:4243627 original size:69 final size:69
Alignment explanation
Indices: 4243551--4243680 Score: 206
Period size: 69 Copynumber: 1.9 Consensus size: 69
4243541 TAAGCTGCTA
* ** *
4243551 AACAAGAAGTAGAAATGCATGAAAGAAAAAACAATTAAGCTACAAAATGAAAAAGCAATTATGAC
1 AACAAGAAGAAGAAACACATGAAAGAAAAAACAATTAAGCTACAAAATGAAAAAGAAATTATGAC
4243616 GATG
66 GATG
* *
4243620 AACAAGAAGAAGAAACACATGAAAGAAAAAATAATTAAGCTGCAAAATGAAAAAGAAATTA
1 AACAAGAAGAAGAAACACATGAAAGAAAAAACAATTAAGCTACAAAATGAAAAAGAAATTA
4243681 AGCAGCAACA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 55 1.00
ACGTcount: A:0.60, C:0.09, G:0.16, T:0.15
Consensus pattern (69 bp):
AACAAGAAGAAGAAACACATGAAAGAAAAAACAATTAAGCTACAAAATGAAAAAGAAATTATGAC
GATG
Found at i:4243666 original size:127 final size:129
Alignment explanation
Indices: 4243415--4243667 Score: 352
Period size: 127 Copynumber: 2.0 Consensus size: 129
4243405 AGTAAGTAAA
* * *
4243415 CTGCTGAACAAGAAGAAGAAACGCATGAAAGAAAAAGCAATTAAGCTGCAAAATGAAATTAAAGA
1 CTGCTAAACAAGAAGAAGAAACGCATGAAAGAAAAAACAATTAAGCTACAAAATGAAA-TAAAGA
* * *
4243480 AATTAAGCTACTGAACCAGAGGAAGAAACACATGAAAAAAAAAGCAATTAAGCTGCAAAATTAAG
65 AATTAAGCGACTGAACAAGAAGAAGAAACACATGAAAAAAAAAGCAATTAAGCTGCAAAATTAAG
* * *
4243545 CTGCTAAACAAGAAGTAGAAATGCATGAAAGAAAAAACAATTAAGCTACAAAATG-AA-AAAGCA
1 CTGCTAAACAAGAAGAAGAAACGCATGAAAGAAAAAACAATTAAGCTACAAAATGAAATAAAGAA
* *
4243608 ATTATGACGA-TGAACAAGAAGAAGAAACACATGAAAGAAAAAA-TAATTAAGCTGCAAAAT
66 ATTAAG-CGACTGAACAAGAAGAAGAAACACATGAAA-AAAAAAGCAATTAAGCTGCAAAAT
4243668 GAAAAAGAAA
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
127 50 0.45
128 8 0.07
129 2 0.02
130 50 0.45
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.15
Consensus pattern (129 bp):
CTGCTAAACAAGAAGAAGAAACGCATGAAAGAAAAAACAATTAAGCTACAAAATGAAATAAAGAA
ATTAAGCGACTGAACAAGAAGAAGAAACACATGAAAAAAAAAGCAATTAAGCTGCAAAATTAAG
Found at i:4243679 original size:24 final size:26
Alignment explanation
Indices: 4243644--4243720 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 26
4243634 ACACATGAAA
*
4243644 GAAAAAATAATTAAGCTGC-A-AAAT
1 GAAAAAATAATTAAGCAGCAACAAAT
4243668 GAAAAAGA-AATTAAGCAGCAACAAAT
1 GAAAAA-ATAATTAAGCAGCAACAAAT
**
4243694 G-AAAAA-AATCGA-CAGCAACAAAT
1 GAAAAAATAATTAAGCAGCAACAAAT
4243717 GAAA
1 GAAA
4243721 GAAACTGATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
23 12 0.26
24 23 0.50
25 6 0.13
26 5 0.11
ACGTcount: A:0.61, C:0.12, G:0.14, T:0.13
Consensus pattern (26 bp):
GAAAAAATAATTAAGCAGCAACAAAT
Found at i:4249318 original size:19 final size:20
Alignment explanation
Indices: 4249275--4249348 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 20
4249265 CACACCCAGA
*
4249275 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCAT
* *
4249295 TGTATCAATACATG-TTCAT
1 TGTATCGATACATGCTGCAT
***
4249314 TGTATCGATACATGGCCAAAT
1 TGTATCGATACAT-GCTGCAT
4249335 TGTATCGATACATG
1 TGTATCGATACATG
4249349 AAACTGGCAG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 15 0.33
20 15 0.33
21 15 0.33
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGCTGCAT
Found at i:4249422 original size:33 final size:32
Alignment explanation
Indices: 4249380--4249443 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 32
4249370 TCACTATTTG
4249380 TATCGATACATG-GTACAATGTATCGATACATTC
1 TATCGATACATGAG-A-AATGTATCGATACATTC
4249413 TATCGATACATGAAGAAATGTATCGATACAT
1 TATCGATACATG-AGAAATGTATCGATACAT
4249444 AGCTTGTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (32 bp):
TATCGATACATGAGAAATGTATCGATACATTC
Found at i:4251660 original size:15 final size:15
Alignment explanation
Indices: 4251640--4251670 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4251630 GCCATGCACA
*
4251640 TGCTCCTAAAATGTT
1 TGCTCCTAAAAGGTT
4251655 TGCTCCTAAAAGGTT
1 TGCTCCTAAAAGGTT
4251670 T
1 T
4251671 AATCAAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (15 bp):
TGCTCCTAAAAGGTT
Found at i:4258841 original size:27 final size:27
Alignment explanation
Indices: 4258803--4259057 Score: 368
Period size: 27 Copynumber: 9.4 Consensus size: 27
4258793 TTTCTTTTCA
4258803 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
4258830 AAGTCCATAACTCCGTGGTATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
4258857 AAAGTCCACAACTCCGTGGCACCCTTTCA
1 -AAGTCCACAACTCCGTGGCATCCTTT-T
*
4258886 AAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
4258913 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
4258940 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
4258967 AAGTCCACAACTTCGTGGCA-CTCTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
* *
4258994 AAGCCCACAACTCCGTGGCATCTTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
4259021 AAGTCCACAACTTCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
4259048 AAGCCCACAA
1 AAGTCCACAA
4259058 GTTAGTGGCA
Statistics
Matches: 205, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
26 1 0.00
27 156 0.76
28 48 0.23
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:4259066 original size:54 final size:54
Alignment explanation
Indices: 4258803--4259125 Score: 326
Period size: 54 Copynumber: 5.9 Consensus size: 54
4258793 TTTCTTTTCA
* * * * *
4258803 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCCGTGGTATCCTTTTA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAGTGGCAT-CTTTTT
* *
4258858 AAGTCCACAACTCCGTGGCACCCTTTCAAAGTCCACAACTCCA-TGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACT-CAGTGGCATCTTTTT
* * *
4258913 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAGTGGCATCTTTTT
* * * *
4258967 AAGTCCACAACTTCGTGGCACTCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAGTGGCATCTTTTT
* * * * * * ***
4259021 AAGTCCACAACTTCGTGGCATCCTTTTAAGCCCACAAGTTAGTGGCACCCTTCCA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAGTGGCA-TCTTTTT
* * * *
4259076 AAGTCCACAAGTCAGAGGCACCCCTTTTTAAG-CTCACAAGTCAGTGGCAT
1 AAGTCCACAACTCCGTGGCA-CCC-TTTTAAGTC-CACAACTCAGTGGCAT
4259126 TATTTCAAAG
Statistics
Matches: 230, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.00
54 114 0.50
55 74 0.32
56 19 0.08
57 22 0.10
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (54 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCAGTGGCATCTTTTT
Found at i:4259173 original size:32 final size:32
Alignment explanation
Indices: 4259127--4259444 Score: 332
Period size: 32 Copynumber: 10.5 Consensus size: 32
4259117 CAGTGGCATT
*
4259127 ATTTCAAAGCCCACACAAGTCGATGGCAACTC
1 ATTTCAAAGCCCACACAAGTCGATGGCAACCC
* *
4259159 ATTTGAAAGCCCACACAAGTCGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGATGGCAACCC
4259191 ATTTCAAAG-CC-CACAAGTCGATGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGATGGCAACCC
* * *
4259221 ATTTCAAAG--CTCACAAGTCAATGGC-A-TC
1 ATTTCAAAGCCCACACAAGTCGATGGCAACCC
* *
4259249 AGTTGAAAGCCCACACAAGTCGATGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGATGGCAACCC
* * *
4259281 ATTTCAAAGCCCACACAAGTTGGTGGCAACTC
1 ATTTCAAAGCCCACACAAGTCGATGGCAACCC
*
4259313 ATTTCAAAGCCCACACAAGTCGATGGTAACCC
1 ATTTCAAAGCCCACACAAGTCGATGGCAACCC
*
4259345 ATTTCAAAG--CTCACAAGTC-AGTGGC-ACCC
1 ATTTCAAAGCCCACACAAGTCGA-TGGCAACCC
* *
4259374 -TTTCAAAG--CTCACAAGTCAATGGC-A-CC
1 ATTTCAAAGCCCACACAAGTCGATGGCAACCC
*
4259401 ATTTCAAAG-CC-CACAAGTC-AGTGGC-ACTC
1 ATTTCAAAGCCCACACAAGTCGA-TGGCAACCC
*
4259430 TTTTCAAAGCCCACA
1 ATTTCAAAGCCCACA
4259445 AGTTAGTGGC
Statistics
Matches: 248, Mismatches: 25, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
27 3 0.01
28 52 0.21
29 18 0.07
30 68 0.27
31 5 0.02
32 102 0.41
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (32 bp):
ATTTCAAAGCCCACACAAGTCGATGGCAACCC
Found at i:4259294 original size:154 final size:149
Alignment explanation
Indices: 4259048--4260336 Score: 905
Period size: 142 Copynumber: 8.9 Consensus size: 149
4259038 GCATCCTTTT
* * ** ** *
4259048 AAGCCCACAAGTTAGTGGCACCCTTCCAAAG-TCCACAAGTCAGA-GGCACCCCTTTTTAAGCTC
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCT-CACAAGTCA-ATGGCA-CCAGTTCAAAGCCC
** *
4259111 ACAAGTCAGTGGCA-TTATTTCAAAGCCCACACAAGTCGATGGCAACTCATTTGAAAGCCCACAC
63 ACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCGATGGCAACTCATTTCAAAGCCCACAC
*
4259175 AAGTCGGTGGCAACCCATTTCA
128 AAGTCGATGGCAACCCATTTCA
* *
4259197 AAGCCCACAAGTC-GATGGCAACCCATTTCAAAGCTCACAAGTCAATGGCATCAGTTGAAAGCCC
1 AAGCCCACAAGTCAG-TGGC-ACCC-TTTCAAAGCTCACAAGTCAATGGCACCAGTTCAAAG-CC
* *
4259261 ACACAAGTC-GATGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACTCATTTCAAAGCCC
62 -CACAAGTCAG-TGGC-ACCCATTTCAAAGCCCACACAAGTCGATGGCAACTCATTTCAAAGCCC
*
4259325 ACACAAGTCGATGGTAACCCATTTCA
124 ACACAAGTCGATGGCAACCCATTTCA
* *
4259351 AAGCTCACAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCAATGGCACCATTTCAAAGCCCACA
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCAATGGCACCAGTTCAAAGCCCACA
* * * * **
4259416 AGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGT-TAGTGGC-A-TCCTTTCAAA-CCC-TGCAA
66 AGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCGA-TGGCAACTCATTTCAAAGCCCACACAA
*
4259474 GT-TAGTGGC-ACCC-TTTCA
130 GTCGA-TGGCAACCCATTTCA
* * * * * * *
4259492 AAGCCCACAAGTTAGTAGCACCCTTTCAAAGCCCATAAGTCAGTGGCATCC-TTTCAAAGCCCAT
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCAATGGCA-CCAGTTCAAAGCCCAC
* * * **
4259556 AAGTCAGTGGCACCC-TTTCAAAG-CC-CACAAGT-TAGTGAC-AC-CCTTTCAAAGCCCACGTA
65 AAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCGA-TGGCAACTCATTTCAAAGCCCACACA
4259615 AGTC-AGTGGC-ACCC-TTTCA
129 AGTCGA-TGGCAACCCATTTCA
* ** * * * * **
4259634 AAGCCCACAAGTTAGTAACACTCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCA
1 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCTCACAAGTCAATGGCAC-CAGTTCAAAGCCCA
* * * *
4259699 TAAGTTAGTGGCATCC-TTTCAAAG-CC-CACAAGTC-AGTGGC-AC-CCTTTCAAAG-CC-CAC
64 CAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCGA-TGGCAACTCATTTCAAAGCCCACAC
* *
4259756 AAG-CCAGTGGC-ATCC-TTTCA
128 AAGTCGA-TGGCAACCCATTTCA
* * **
4259776 AAGCCCACGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCC
1 AAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCAATGGCAC-CAGTTCAAAGCCC
*
4259841 ACAAGTCAGTGGCACCC-TTTCAAAG-CC-CACAAGTC-AGTGGC-ACTCTTTTCAAAG-CC-CA
63 ACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCGA-TGGCAACTCATTTCAAAGCCCACA
* *
4259899 CAAGT-TAGTGGC-ATCC-TTTCA
127 CAAGTCGA-TGGCAACCCATTTCA
* * * * * * * *
4259920 AAGCTCGCAAGTTAGTGGCACCCTTTCAAAGCCCATAAGTTAGTGGCATCC-TTTCAAAGCCCAC
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCAATGGCA-CCAGTTCAAAGCCCAC
* * * **
4259984 AAGTCAGTGGCACCC-TTTCAAAG-CC-CACAAGT-TAGTGAC-AC-CCTTTCAAAGCCCACGTA
65 AAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCGA-TGGCAACTCATTTCAAAGCCCACACA
4260043 AGTC-AGTGGC-ACCC-TTTCA
129 AGTCGA-TGGCAACCCATTTCA
* * * * * * **
4260062 AAGCCCACAAGTTAGTGACACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCAC
1 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCTCACAAGTCAATGGCACCAGTTCAAAGCCCAC
* * * * *
4260127 AAGTCAGTGGCACTCTTTTCAAAG-CC-CATAAGT-TAGTGGC-A-TCCTTTCAAAG-CC-CACA
65 AAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCGA-TGGCAACTCATTTCAAAGCCCACACA
4260185 AGTC-AGTGGC-ACCC-TTTCA
129 AGTCGA-TGGCAACCCATTTCA
* * * * * *
4260204 AAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGTACTC-TTTGCAAAGCCCA
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCAATGGCAC-CAGTT-CAAAGCCCA
* * * * * * *
4260268 CAAG-CTAGTGGTATCTCTTTTCAAAGCCCACACGATTCAATGGCAACTCTTTTCAAAGCCCACA
64 CAAGTC-AGTGGCA-CCCATTTCAAAGCCCACACAAGTCGATGGCAACTCATTTCAAAGCCCACA
*
4260332 TAAGT
127 CAAGT
4260337 TAATCGCACA
Statistics
Matches: 1001, Mismatches: 91, Indels: 96
0.84 0.08 0.08
Matches are distributed among these distances:
140 42 0.04
141 161 0.16
142 210 0.21
143 182 0.18
144 146 0.15
145 17 0.02
146 3 0.00
147 21 0.02
148 5 0.00
149 33 0.03
150 23 0.02
151 25 0.02
152 46 0.05
153 5 0.00
154 81 0.08
155 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (149 bp):
AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCAATGGCACCAGTTCAAAGCCCACA
AGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCGATGGCAACTCATTTCAAAGCCCACACAAG
TCGATGGCAACCCATTTCA
Found at i:4259381 original size:28 final size:28
Alignment explanation
Indices: 4258798--4260331 Score: 1417
Period size: 28 Copynumber: 53.5 Consensus size: 28
4258788 TGGCATTTCT
* * * *
4258798 TTTCAAAGTCCACAACTCCGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * * * *
4258826 TTT-TAAGTCCATAACTCCGTGGTATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
4258853 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
4258881 TTTCAAAGTCCACAACTCCA-TGGCATCC
1 TTTCAAAGCCCACAAGT-CAGTGGCACCC
* * * *
4258909 TTT-TAAGTCCACAACTCCGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
4258936 TTT-TAAGTCCACAACTCCGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
4258963 TTT-TAAGTCCACAACTTC-GTGGCACTC
1 TTTCAAAGCCCACAA-GTCAGTGGCACCC
* * * *
4258990 TTT-TAAGCCCACAACTCCGTGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
** * * *
4259016 TTTTTAAGTCCACAACTTC-GTGGCATCC
1 TTTCAAAGCCCACAA-GTCAGTGGCACCC
* *
4259044 TTT-TAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
4259071 TTCCAAAGTCCACAAGTCAGAGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
** * ***
4259100 TTTTTAAGCTCACAAGTCAGTGGCATTA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
4259128 TTTCAAAGCCCACACAAGTC-GATGGCAACTCA
1 TTTCAAAG-CC-CACAAGTCAG-TGGC-AC-CC
* *
4259160 TTTGAAAGCCCACACAAGTCGGTGGCAACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC
4259191 ATTTCAAAGCCCACAAGTC-GATGGCAACCC
1 -TTTCAAAGCCCACAAGTCAG-TGGC-ACCC
* * * *
4259221 ATTTCAAAGCTCACAAGTCAATGGCATCA
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
4259250 GTTGAAAGCCCACACAAGTC-GATGGCAACCC
1 TTTCAAAG-CC-CACAAGTCAG-TGGC-ACCC
** *
4259281 ATTTCAAAGCCCACACAAGTTGGTGGCAACTCA
1 -TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
*
4259314 TTTCAAAGCCCACACAAGTC-GATGGTAACCC
1 TTTCAAAG-CC-CACAAGTCAG-TGG-CACCC
*
4259345 ATTTCAAAGCTCACAAGTCAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
4259374 TTTCAAAGCTCACAAGTCAATGGCACCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
4259402 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
4259431 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
4259459 TTTCAAA-CCCTGCAAGTTAGTGGCACCC
1 TTTCAAAGCCC-ACAAGTCAGTGGCACCC
* *
4259487 TTTCAAAGCCCACAAGTTAGTAGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
4259515 TTTCAAAGCCCATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
4259543 TTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
4259571 TTTCAAAGCCCACAAGTTAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
4259599 TTTCAAAGCCCACGTAAGTCAGTGGCACCC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCC
* ** *
4259629 TTTCAAAGCCCACAAGTTAGTAACACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
4259658 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
4259687 TTTCAAAGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
4259715 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
4259743 TTTCAAAGCCCACAAGCCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
4259771 TTTCAAAGCCCACGCAAGTCAGTGGCACCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCC
*
4259801 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
4259830 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
4259858 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
4259887 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
4259915 TTTCAAAGCTCGCAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
4259943 TTTCAAAGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
4259971 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
4259999 TTTCAAAGCCCACAAGTTAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
4260027 TTTCAAAGCCCACGTAAGTCAGTGGCACCC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCC
* * *
4260057 TTTCAAAGCCCACAAGTTAGTGACACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
4260086 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
4260114 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
4260143 TTTCAAAGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
4260171 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
4260199 TTTCAAAGCCCACAAATCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
4260227 TTTCAAAGCCCACAAGTTAGTGGTACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
4260255 TTTGCAAAGCCCACAAG-CTAGTGGTATCTCT
1 TTT-CAAAGCCCACAAGTC-AGTGGCA-C-CC
* * *
4260286 TTTCAAAGCCCACACGATTCAATGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-AC-CC
4260318 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
4260332 TAAGTTAATC
Statistics
Matches: 1305, Mismatches: 148, Indels: 102
0.84 0.10 0.07
Matches are distributed among these distances:
26 9 0.01
27 150 0.11
28 616 0.47
29 235 0.18
30 164 0.13
31 13 0.01
32 113 0.09
33 5 0.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:4259696 original size:256 final size:254
Alignment explanation
Indices: 4259048--4260277 Score: 1447
Period size: 256 Copynumber: 4.7 Consensus size: 254
4259038 GCATCCTTTT
* * * * ** *
4259048 AAGCCCACAAGTTAGTGGCACCCTTCCAAAGTCCACAAGTCAGAGGCACCCCTTTTTAAGCTCAC
1 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* ** * *
4259113 AAGTCAGTGGCATTATTTCAAAGCCCACACAAGTC-GATGGCAACTCATTTGAAAGCCCACACAA
66 AAGTTAGTGGCATCCTTTCAAAG-CC-CACAAGTCAG-TGGC-AC-CCTTTCAAAG-CC-CACAA
** * *
4259177 GTCGGTGGCAACCCATTTCAAAGCCCACAAGTC-GATGGCAACCCATTTCAAAGCTCACAAG-TC
124 GTTAGTGGC-ATCC-TTTCAAAGCCCACAAGTCAG-TGGC-ACCC-TTTCAAAGCCCACAAGCT-
* * ** * * **
4259240 AATGGCATCAGTTGAAAGCCCACACAAGTC-GATGGCAACCCATTTCAAAGCCCACACAAGTTGG
183 AGT-GCACCCTTTCAAAGCCCAC-TAAGTCAG-TGGC-ACCC-TTTCAAAG-CC-CACAAGTCAG
*
4259304 TGGCAACTCATTTCA
241 TGGC-ACTCTTTTCA
* * *
4259319 AAGCCCACACAAG-TCGATGGTAACCCATTTCAAAGCTCACAAGTCAGTGGCAC-CCTTTCAAAG
1 AAG-CC-CACAAGTTAG-TGG-CACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
* * * *
4259382 CTCACAAGTCAATGGCA-CCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAA
61 CCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAA
* * *
4259446 GTTAGTGGCATCCTTTCAAA-CCCTGCAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTAG
124 GTTAGTGGCATCCTTTCAAAGCCC-ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCTAGT-G
* * *
4259510 CACCCTTTCAAAGCCCA-TAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCAC-CCTT
187 CACCCTTTCAAAGCCCACTAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTT
4259573 TCA
252 TCA
*
4259576 AAGCCCACAAGTTAGTGACACCCTTTCAAAGCCCACGTAAGTCAGTGGCAC-CCTTTCAAAGCCC
1 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCAC--AAGTCAGTGGCACTCCTTTCAAAGCCC
** * * * *
4259640 ACAAGTTAGTAACACTCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCATAAGTT
64 ACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTT
* *
4259705 AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCCAGTGGCATC
127 AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCTAGT-GCACC
*
4259770 CTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
191 CTTTCAAAGCCCAC-TAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
* *
4259835 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC
1 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* * * *
4259900 AAGTTAGTGGCATCCTTTCAAAGCTCGCAAGTTAGTGGCACCCTTTCAAAGCCCATAAGTTAGTG
66 AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTG
*
4259965 GCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGACACCCTTT
131 GCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCTAGTG-CACCCTTT
* *
4260030 CAAAGCCCACGTAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGACACTCTTTTCA
195 CAAAGCCCAC-TAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
* *
4260091 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAT
1 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* *
4260156 AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTG
66 AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTG
* * * *
4260221 GCACCCTTTCAAAGCCCACAAGTTAGTGGTACTCTTTGCAAAGCCCACAAGCTAGTG
131 GCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGCTAGTG
4260278 GTATCTCTTT
Statistics
Matches: 855, Mismatches: 81, Indels: 60
0.86 0.08 0.06
Matches are distributed among these distances:
253 12 0.01
254 4 0.00
255 44 0.05
256 413 0.48
257 70 0.08
258 65 0.08
259 51 0.06
260 2 0.00
261 8 0.01
262 3 0.00
263 9 0.01
264 1 0.00
265 31 0.04
266 8 0.01
267 16 0.02
268 4 0.00
269 12 0.01
270 2 0.00
271 14 0.02
272 16 0.02
273 12 0.01
274 36 0.04
275 22 0.03
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (254 bp):
AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTG
GCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCTAGTGCACCCTTTC
AAAGCCCACTAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
Found at i:4259864 original size:456 final size:454
Alignment explanation
Indices: 4259048--4260331 Score: 1573
Period size: 456 Copynumber: 2.8 Consensus size: 454
4259038 GCATCCTTTT
* * * * * ** *
4259048 AAGCCCACAAGTTAGTGGCACCCTTCCAAAGTCCACAAGTCAGAGGCACCCCTTTTTAAGCTCAC
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGACA-CCCTTTCAAAGCCCAC
* *** * * *
4259113 -AAGTCAGTGGCATTATTTCAAAGCCCACACAAGTC-GATGGCAACTCATTTGAAAGCCCACACA
65 GAAGTCAGTGACACCCTTTCAAAG-CC-CACAAGTCAG-TGAC-ACTCCTTTCAAAG-CC-CACA
** ** * * * * *
4259176 AGTCGGTGGCAACCCATTTCAAAGCCCACAAGTC-GATGGCAACCCATTTCAAAGCTCACAAGTC
124 AGTTAGTAAC-ACCC-TTTCAAAGCCCACAAGTCAG-TGGC-ACTCTTTTCAAAGCCCATAAGTT
* ** * ***
4259240 AATGGCATCAGTTGAAAGCCCACACAAGTC-GATGGCAACCCATTTCAAAGCCCACACAAGTTGG
185 AGTGGCATCCTTTCAAAG-CC-CACAAGTCAG-TGGC-ACCC-TTTCAAAGCCCACA-AA-CCAG
* *
4259304 TGGCAACTCATTTCAAAGCCCACACAAGTC-GATGGTAACCCATTTCAAAGCTCACAAGTCAGTG
243 TGGC-AC-CCTTTCAAAGCCCAC-CAAGTCAG-TGG-AACCC-TTTCAAAGCCCACAAGTCAGTG
* *
4259368 GCAC-CCTTTCAAAGCTCACAAGTCAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCTT
302 GCACTCTTTTCAAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCTT
4259432 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAACC-CTGCAAGTTAGTGGCACCCTTTCAAAGC
367 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAACCTC-GCAAGTTAGTGGCACCCTTTCAAAGC
4259496 CCACAAGTTAGTAGCACCCTTTCA
431 CCACAAGTTAGTAGCACCCTTTCA
* * * *
4259520 AAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCAC-
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGACACCCTTTCAAAGCCCACG
* *
4259584 AAGTTAGTGACACCCTTTCAAAGCCCACGTAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTA
66 AAGTCAGTGACACCCTTTCAAAGCCCAC--AAGTCAGTGACACTCCTTTCAAAGCCCACAAGTTA
* *
4259648 GTAACACTCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCAT
129 GTAACAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCAT
* *
4259713 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCCAGTGGCATCCTTTCAAA
193 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAACCAGTGGCACCCTTTCAAA
*
4259778 GCCCACGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC
258 GCCCAC-CAAGTCAGTGGAACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC
* *
4259843 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGT
322 AAGTCAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGT
* * * *
4259908 GGCATCCTTTCAAAGCTCGCAAGTTAGTGGCACCCTTTCAAAGCCCATAAGTTAGTGGCATCCTT
387 GGCATCCTTTCAAACCTCGCAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTAGCACCCTT
4259973 TCA
452 TCA
*
4259976 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGACACCCTTTCAAAGCCCACG
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGACACCCTTTCAAAGCCCACG
* * *
4260041 TAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGACACTCTTTTCAAAGCCCACAAGTTAG
66 -AAGTCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGACACTCCTTTCAAAGCCCACAAGTTAG
**
4260106 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCATCC
130 TAACACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCATCC
*
4260171 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGC
195 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAACCAGTGGCACCCTTTCAAAGC
* * * *
4260236 CCA-CAAGTTAGTGGTACTCTTTGCAAAGCCCACAAG-CTAGTGGTATCTCTTTTCAAAGCCCAC
260 CCACCAAGTCAGTGGAACCCTTT-CAAAGCCCACAAGTC-AGTGGCA-CTCTTTTCAAAGCCCAC
* *
4260299 ACGATTCAATGGCAACTCTTTTCAAAGCCCACA
322 A--AGTCAATGGC-AC-CATTTCAAAGCCCACA
4260332 TAAGTTAATC
Statistics
Matches: 720, Mismatches: 73, Indels: 50
0.85 0.09 0.06
Matches are distributed among these distances:
454 17 0.02
455 44 0.06
456 352 0.49
457 49 0.07
458 36 0.05
459 7 0.01
460 16 0.02
461 14 0.02
462 4 0.01
463 12 0.02
464 3 0.00
465 32 0.04
466 23 0.03
467 12 0.02
468 2 0.00
469 11 0.02
470 4 0.01
471 40 0.06
472 42 0.06
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (454 bp):
AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGACACCCTTTCAAAGCCCACG
AAGTCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGACACTCCTTTCAAAGCCCACAAGTTAGT
AACACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCATCCT
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAACCAGTGGCACCCTTTCAAAGCC
CACCAAGTCAGTGGAACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGT
CAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA
TCCTTTCAAACCTCGCAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTAGCACCCTTTCA
Found at i:4264446 original size:12 final size:12
Alignment explanation
Indices: 4264425--4264461 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
4264415 TTTCATATCA
4264425 TTCATGCACATC
1 TTCATGCACATC
*
4264437 TTCGTGCACATC
1 TTCATGCACATC
*
4264449 TTCATGCATATC
1 TTCATGCACATC
4264461 T
1 T
4264462 ACATACATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.38
Consensus pattern (12 bp):
TTCATGCACATC
Found at i:4268246 original size:90 final size:90
Alignment explanation
Indices: 4268083--4268248 Score: 219
Period size: 90 Copynumber: 1.8 Consensus size: 90
4268073 GCCTAATAGA
* * * *
4268083 TGTAGACCACATATTTCCAAGTCATATTCTTTTCCCTCAATTGCCAGATGATATTGATGCATCCT
1 TGTAGACCACACATTTCCAAGTCATATCCTTTTCCCTCAATTGCCAAATGATACTGATGCATCCT
*
4268148 AAATCCTAATACCTTAGGGTAAAGG
66 AAAGCCTAATACCTTAGGGTAAAGG
** **
4268173 TGTAGACCACACATTTCTTAGTCATATCCTTTT-CCTTTATTCGCCAAATGATACTGATGCATCA
1 TGTAGACCACACATTTCCAAGTCATATCCTTTTCCCTCAATT-GCCAAATGATACTGATGCATC-
4268237 C-AAAGCCTAATA
64 CTAAAGCCTAATA
4268249 TCTTCAGCAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 6 0.09
90 58 0.89
91 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (90 bp):
TGTAGACCACACATTTCCAAGTCATATCCTTTTCCCTCAATTGCCAAATGATACTGATGCATCCT
AAAGCCTAATACCTTAGGGTAAAGG
Found at i:4268913 original size:42 final size:42
Alignment explanation
Indices: 4268847--4270382 Score: 501
Period size: 42 Copynumber: 37.2 Consensus size: 42
4268837 CAAACCTTTT
* *
4268847 TTCTTTACCTTTTGTCTGCTTATCAGCTTTGACCCTAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * * **
4268889 TTCTTTACCCTTTGACTGCCTATCAACTTTAACCCGGGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * ** * * *
4268931 TTCTTTACCTTTTATCTGTTTGTCAGCTTTGACCTTGGA-AGC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGA-C
* * *
4268973 TTCTTTACCTTTTGTCTGCCTGTC-GACTTTGACCTTAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAG-CTTTGACCCTAGAGAC
* * * * * * * * *
4269015 ATCTTTACCCTTTTTTTTCCTATTAGCTTT-AACTTGGGAGATT
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCT-AGAGA-C
* * *
4269058 TTTTTTACCCTTTGTCTGCCCATCAGCTTAGACCC-AGGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTA-GAGAC
* * * * ***
4269100 TTCTATA-TCTTTGTCTACCTATCGGCTTTGACTGGAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * * * *
4269141 TT-TTTAACCTTTTGCCTGCCCGT-TGA-CTTTGACCTTGGAGAC
1 TTCTTT-ACCCTTTGTCTG-CC-TATCAGCTTTGACCCTAGAGAC
* * * * * * * *
4269183 TTTTTTATCTTTTATCTGCCTATCGGTTTTGACCTTGGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
** * * ** *
4269225 TTCTTTACTTTTTGTCTACCTGTTGGTTTTGACCCTA-A-A-
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * * * * * * * *
4269264 GT-TTT----TTTATCT-ACTCGTCAGCTTTAACTCGATAAAC
1 TTCTTTACCCTTTGTCTGCCT-ATCAGCTTTGACCCTAGAGAC
* * * *
4269301 TTCTTTA---TTT-TTTGCCTGTTA-CTTTTGACCCAAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGC-TTTGACCCTAGAGAC
* * * *
4269339 TTCTTTACCCTTTTATCTGCCCATC-GACTTAGA-CCTAG-GAAA
1 TTCTTTACCC-TTTGTCTGCCTATCAG-CTTTGACCCTAGAG-AC
* * ** * *
4269381 TTCTTTTTATCCTTTGTCTGCCCATTGGCTTTGACTCGAGAGAC
1 TTC--TTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* ** * *
4269425 TTCTTAACTTTTTGTCTGCCTGTCAAG-TTTGACCTTAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATC-AGCTTTGACCCTAGAGAC
* * * * * *
4269467 TTCTTTACCTTTTGTGTACTTGTCGGCTTTGACCCTAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * * * * * *
4269509 ATCTATATCCTTTGTCTACCCATCGGCTTTGACCCAAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
** * * ** * *
4269551 TTAATTACTCTTTGTCCGCCTATCAG-TGTAAACCCGAGAGAT
1 TTCTTTACCCTTTGTCTGCCTATCAGCT-TTGACCCTAGAGAC
* * * * * *
4269593 TTCTATATCCTTTGTCTGCCCATCGGCTTTGTCCCGAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * *
4269635 TTCTTTACCTTTTGTTTGCCTGTC-GACTTTGACCCTAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAG-CTTTGACCCTAGAGAC
* * **
4269677 TTCTTTACCTTTTGTTTGCCTATCAAATTTGACCCT-GAAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAG-AGAC
* * *
4269719 ATT-TTTACCCTTTATCTGCCTATC-GACTTTAACCCGAGAGAC
1 -TTCTTTACCCTTTGTCTGCCTATCAG-CTTTGACCCTAGAGAC
* * * * * *
4269761 TTCTATATCTTTTGTCTGTCC-GTCAGCTTTGA-CTTGAGTGAC
1 TTCTTTACCCTTTGTCTG-CCTATCAGCTTTGACCCT-AGAGAC
* * * * *
4269803 TTATTTACCTTTTGTCTACTTGTCAGCTTTGA-CCTACGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTA-GAGAC
* * * * * *
4269845 TTCTTTACCTTTTGTCTACCAATCAACTTTGACCTTGGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * * * * * * *
4269887 TTCTTTACCTTTTGTCTACCAATCGGCTTTAACCCTAAAAAG
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * ** ** * *
4269929 TTTTTTATCCTTTGTCTGCCCGTTGGCTTTAACCCGAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * * *
4269971 TT-TTTACCTTTTGTCTACCTATCAGCTTT-AACCTCGGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCT-AGAGAC
*
4270012 TT-TTT----TAT-T-TGCCTATC-GACTTTGACCC-ACGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAG-CTTTGACCCTA-GAGAC
* ** *
4270047 TTCTTTATCCTTTGTCTGCCCGTCAACTTTGACCC-AGAAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAG-AGAC
* * *** * * * *
4270089 TTCTTTACCTTTTTTTCTATTTGT-AGGCTTTGATCTTGGAGAC
1 TTCTTTACC-CTTTGTCTGCCTATCA-GCTTTGACCCTAGAGAC
* *
4270132 TTC--T----TTTGTCTGCCCATAAGCTTTGA-CCTAAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCT-AGAGAC
* * * *
4270168 TTCTTTA-TCTTTTTCT-ACTCATCAACTTTGACCC-AGGAGAC
1 TTCTTTACCCTTTGTCTGCCT-ATCAGCTTTGACCCTA-GAGAC
* * * * * * *
4270209 TTCTTTACCTTTTGCCTACCTGTCGGCTTTAATCCTAGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * * * **
4270251 TTCTTTATCTTTTGTCTGCC-ATCGGCTTTGACTCGGGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
* * * * * *
4270292 TTCTTCACCATTTATCTGCTCGT-T-AGCTTTGACTCAAAAGAC
1 TTCTTTACCCTTTGTCTGC-C-TATCAGCTTTGACCCTAGAGAC
* ** * * *
4270334 TTCATTACCCTTTGTCTGCCCGTCAGCTTAGACTCTGGAGAC
1 TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
*
4270376 TTTTTTA
1 TTCTTTA
4270383 TTCTCTACTT
Statistics
Matches: 1103, Mismatches: 303, Indels: 176
0.70 0.19 0.11
Matches are distributed among these distances:
33 2 0.00
34 17 0.02
35 21 0.02
36 30 0.03
37 5 0.00
38 29 0.03
39 6 0.01
40 11 0.01
41 140 0.13
42 725 0.66
43 97 0.09
44 19 0.02
45 1 0.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.41
Consensus pattern (42 bp):
TTCTTTACCCTTTGTCTGCCTATCAGCTTTGACCCTAGAGAC
Found at i:4269919 original size:168 final size:165
Alignment explanation
Indices: 4268847--4270382 Score: 677
Period size: 168 Copynumber: 9.3 Consensus size: 165
4268837 CAAACCTTTT
* ** * * *
4268847 TTCTTTACCTTTTGTCTGCTTATCAGCTTTGACCCTA-GAGACTTCTTTACCCTTTGACTGCCTA
1 TTCTTTACCTTTTGTCTACCCATCAACTTTGACCC-AGGAGACTTCTTTACCTTTTGTCTGCCTA
** * * * **
4268911 TCAACTTTAACCCGGGAGACTTCTTTACCTTTTATCTGTTTGTCAGCTTTGACCTTG-GA-AGCT
65 TCGGCTTTAACCCGAGAGACTTCTTTATCTTTTGTCTG-CCGTCAGCTTTGA-CTTGAGAGA-CT
*
4268974 TCTTTACCTTTTGTCTGCCTGTC-GACTTTGACCTTAGAGAC
127 T-TTTACCTTTTGTCTACCTGTCAG-CTTTGACC-TAGAGAC
* * * * * * * *** * * * *
4269015 ATCTTTACCCTTTT-TTTTCCTATTAGCTTTAACTTGGGAGATTTTTTTTACCCTTTGTCTGCCC
1 TTCTTTA-CCTTTTGTCTACCCATCAACTTTGACCCAGGAGA-CTTCTTTACCTTTTGTCTGCCT
* * * * * *
4269079 ATCAGC-TTAGACCC-AGGAGACTTCTATATC-TTTGTCTACCTATCGGCTTTGACTGGAGAGAC
64 ATCGGCTTTA-ACCCGA-GAGACTTCTTTATCTTTTGTCTGCC-GTCAGCTTTGACTTGAGAGAC
* * * * *
4269141 TTTTTAACCTTTTGCCTGCCCGT-TGACTTTGACCTTGGAGAC
126 TTTTT-ACCTTTTGTCTACCTGTCAG-CTTTGACC-TAGAGAC
* * * * * *** ** * * *
4269183 TTTTTTATCTTTTATCTGCCTATCGGTTTTGACCTTGGAGACTTCTTTACTTTTTGTCTACCTGT
1 TTCTTTACCTTTTGTCTACCCATCAACTTTGACCCAGGAGACTTCTTTACCTTTTGTCTGCCTAT
* * * * * * * * * * * *
4269248 TGGTTTTGACCCTAAAG-TTTTTTTATC---T-ACT--CGTCAGCTTTAACTCGATAAACTTCTT
66 CGGCTTTAACCCGAGAGACTTCTTTATCTTTTGTCTGCCGTCAGCTTTGACTTGAGAGACTT-TT
* * *
4269306 TA--TTTT-T-TGCCTGTTA-CTTTTGACCCAAGAGAC
130 TACCTTTTGTCTACCTGTCAGC-TTTGA-CCTAGAGAC
* * * * * *
4269339 TTCTTTACCCTTTTATCTGCCCATCGACTTAGACCTAGGA-AATTCTTTTTATCC-TTTGTCTGC
1 TTCTTTA-CCTTTTGTCTACCCATCAACTTTGACCCAGGAGACTTC--TTTA-CCTTTTGTCTGC
* * * * *
4269402 CCATTGGCTTTGACTCGAGAGACTTC-TTAACTTTTTGTCTGCCTGTCAAG-TTTGACCTT-AGA
62 CTATCGGCTTTAACCCGAGAGACTTCTTTATC-TTTTGTCTGCC-GTC-AGCTTTGA-CTTGAGA
* * *
4269464 GACTTCTTTACCTTTTGTGTACTTGTCGGCTTTGACCCTAGAGAC
123 GACTT-TTTACCTTTTGTCTACCTGTCAGCTTTGA-CCTAGAGAC
* * ** * ** *
4269509 ATCTATATCC-TTTGTCTACCCATCGGCTTTGACCCAAGAGACTTAATTA-CTCTTTGTCCGCCT
1 TTCTTTA-CCTTTTGTCTACCCATCAACTTTGACCCAGGAGACTTCTTTACCT-TTTGTCTGCCT
* * * * * * * * **
4269572 ATCAG-TGTAAACCCGAGAGATTTCTATATCCTTTGTCTGCCCATCGGCTTTGTCCCGAGAGACT
64 ATCGGCT-TTAACCCGAGAGACTTCTTTATCTTTTGTCTG-CCGTCAGCTTTGACTTGAGAGACT
* *
4269636 TCTTTACCTTTTGTTTGCCTGTC-GACTTTGACCCTAGAGAC
127 T-TTTACCTTTTGTCTACCTGTCAG-CTTTGA-CCTAGAGAC
* * * * * * * *
4269677 TTCTTTACCTTTTGTTTGCCTATCAAATTTGACCCTGAAGACATT-TTTACCCTTTATCTGCCTA
1 TTCTTTACCTTTTGTCTACCCATCAACTTTGACCCAGGAGAC-TTCTTTACCTTTTGTCTGCCTA
* * *
4269741 TCGACTTTAACCCGAGAGACTTCTATATCTTTTGTCTGTCCGTCAGCTTTGACTTGAGTGACTTA
65 TCGGCTTTAACCCGAGAGACTTCTTTATCTTTTGTCTG-CCGTCAGCTTTGACTTGAGAGACTT-
*
4269806 TTTACCTTTTGTCTACTTGTCAGCTTTGACCTACGAGAC
128 TTTACCTTTTGTCTACCTGTCAGCTTTGACCTA-GAGAC
* ** * *
4269845 TTCTTTACCTTTTGTCTACCAATCAACTTTGACCTTGGAGACTTCTTTACCTTTTGTCTACCAAT
1 TTCTTTACCTTTTGTCTACCCATCAACTTTGACCCAGGAGACTTCTTTACCTTTTGTCTGCCTAT
* * * * * * ** * **
4269910 CGGCTTTAACCCTAAAAAGTTTTTTATCCTTTGTCTGCCCGTTGGCTTTAACCCGAGAGACTTTT
66 CGGCTTTAACCCGAGAGACTTCTTTATCTTTTGTCTG-CCGTCAGCTTTGACTTGAGAGACTTTT
* * *
4269975 TACCTTTTGTCTACCTATCAGCTTTAACCTCGGAGAC
130 TACCTTTTGTCTACCTGTCAGCTTTGACCT-AGAGAC
* * * * **
4270012 TTTTTTA---TTTG----CCTATCGACTTTGACCCACGAGACTTCTTTATCC-TTTGTCTGCCCG
1 TTCTTTACCTTTTGTCTACCCATCAACTTTGACCCAGGAGACTTCTTTA-CCTTTTGTCTGCCTA
** * * * ***
4270069 TCAACTTTGACCC-AGAAGACTTCTTTACCTTTTTTTCTATTTGT-AGGCTTTGATCTTG-GAGA
65 TCGGCTTTAACCCGAG-AGACTTCTTTATC-TTTTGTCT-GCCGTCA-GCTTTGA-CTTGAGAGA
* ** *
4270131 C---TT--CTTTTGTCTGCCCATAAGCTTTGACCTAAGAGAC
125 CTTTTTACCTTTTGTCTACCTGTCAGCTTTGACCT-AGAGAC
* * * * *
4270168 TTCTTTATCTTTT-TCTACTCATCAACTTTGACCCAGGAGACTTCTTTACCTTTTGCCTACCTGT
1 TTCTTTACCTTTTGTCTACCCATCAACTTTGACCCAGGAGACTTCTTTACCTTTTGTCTGCCTAT
* * * * * *
4270232 CGGCTTTAATCCTAGAGACTTCTTTATCTTTTGTCTGCCATCGGCTTTGACTCGGGAGACTTCTT
66 CGGCTTTAACCCGAGAGACTTCTTTATCTTTTGTCTGCCGTCAGCTTTGACTTGAGAGACTT-TT
* * * * * * *
4270297 CACCATTTATCT-GCTCGTTAGCTTTGACTCAAAAGAC
130 TACCTTTTGTCTACCT-GTCAGCTTTGAC-CTAGAGAC
* * * * * * * * *
4270334 TTCATTACCCTTTGTCTGCCCGTCAGCTTAGACTCTGGAGACTTTTTTA
1 TTCTTTACCTTTTGTCTACCCATCAACTTTGACCCAGGAGACTTCTTTA
4270383 TTCTCTACTT
Statistics
Matches: 1031, Mismatches: 257, Indels: 161
0.71 0.18 0.11
Matches are distributed among these distances:
155 1 0.00
156 60 0.06
157 28 0.03
158 37 0.04
159 10 0.01
160 85 0.08
161 34 0.03
162 60 0.06
163 6 0.01
164 6 0.01
165 2 0.00
166 58 0.06
167 119 0.12
168 415 0.40
169 80 0.08
170 29 0.03
171 1 0.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.41
Consensus pattern (165 bp):
TTCTTTACCTTTTGTCTACCCATCAACTTTGACCCAGGAGACTTCTTTACCTTTTGTCTGCCTAT
CGGCTTTAACCCGAGAGACTTCTTTATCTTTTGTCTGCCGTCAGCTTTGACTTGAGAGACTTTTT
ACCTTTTGTCTACCTGTCAGCTTTGACCTAGAGAC
Found at i:4270291 original size:41 final size:41
Alignment explanation
Indices: 4270163--4270296 Score: 130
Period size: 41 Copynumber: 3.2 Consensus size: 41
4270153 TTTGACCTAA
** *
4270163 GAGACTTCTTTATCTTTT-TCTACTCATCAACTTTGACCCAG
1 GAGACTTCTTTATCTTTTGTCTAC-CATCGGCTTTGACTCAG
* * * *
4270204 GAGACTTCTTTACCTTTTGCCTACCTGTCGGCTTT-AATCCTA-
1 GAGACTTCTTTATCTTTTGTCTACC-ATCGGCTTTGACT-C-AG
* *
4270246 GAGACTTCTTTATCTTTTGTCTGCCATCGGCTTTGACTCGG
1 GAGACTTCTTTATCTTTTGTCTACCATCGGCTTTGACTCAG
4270287 GAGACTTCTT
1 GAGACTTCTT
4270297 CACCATTTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
41 38 0.51
42 35 0.47
43 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.41
Consensus pattern (41 bp):
GAGACTTCTTTATCTTTTGTCTACCATCGGCTTTGACTCAG
Found at i:4271313 original size:20 final size:21
Alignment explanation
Indices: 4271288--4271333 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
4271278 AATTAAGCAG
*
4271288 CAGC-AAATGATAGAAACTGA
1 CAGCAAAATGAAAGAAACTGA
4271308 CAGCAATAAATGAAAGAAACTGA
1 CAGC-A-AAATGAAAGAAACTGA
4271331 CAG
1 CAG
4271334 TAGCAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
23 18 0.82
ACGTcount: A:0.52, C:0.15, G:0.20, T:0.13
Consensus pattern (21 bp):
CAGCAAAATGAAAGAAACTGA
Found at i:4271419 original size:33 final size:33
Alignment explanation
Indices: 4271374--4271446 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
4271364 AAACAGCATA
* *
4271374 AAAAAAACAGAAGAGAGAAAACAACAAGCATCG
1 AAAAAAACAGAAGACAAAAAACAACAAGCATCG
* * *
4271407 AAAAAAATAGAAGACAAAAAATAGCAAGCATCG
1 AAAAAAACAGAAGACAAAAAACAACAAGCATCG
4271440 AAAAAAA
1 AAAAAAA
4271447 AAATAGCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.67, C:0.12, G:0.15, T:0.05
Consensus pattern (33 bp):
AAAAAAACAGAAGACAAAAAACAACAAGCATCG
Found at i:4271464 original size:22 final size:23
Alignment explanation
Indices: 4271413--4271477 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
4271403 ATCGAAAAAA
*
4271413 ATAGAAGACAAAAAATAGC-AAGC
1 ATAGAA-AAAAAAAATAGCAAAGC
* *
4271436 ATCGAAAAAAAAAATAGCAAAGG
1 ATAGAAAAAAAAAATAGCAAAGC
4271459 A-AGAAAAAAAAGAA-AGCAA
1 ATAGAAAAAAAA-AATAGCAA
4271478 CGGCAAACCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 25 0.69
23 11 0.31
ACGTcount: A:0.68, C:0.09, G:0.17, T:0.06
Consensus pattern (23 bp):
ATAGAAAAAAAAAATAGCAAAGC
Found at i:4279207 original size:21 final size:22
Alignment explanation
Indices: 4279183--4279239 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
4279173 AATTATTTAG
*
4279183 AAATTTATTTCAATT-AAAATA
1 AAATATATTTCAATTAAAAATA
4279204 AAATATATTT-AATTAAAAATA
1 AAATATATTTCAATTAAAAATA
* *
4279225 ATATAAATTTCAATT
1 AAATATATTTCAATT
4279240 TTATTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 23 0.74
22 4 0.13
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATATATTTCAATTAAAAATA
Found at i:4279573 original size:22 final size:22
Alignment explanation
Indices: 4279529--4279571 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
4279519 AAGGTTGTAT
4279529 GTTATTAAATTTATATTTTTTA
1 GTTATTAAATTTATATTTTTTA
4279551 GTTAGTTAAATTCTA-ATTTTT
1 GTTA-TTAAATT-TATATTTTT
4279572 AGATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 13 0.68
24 2 0.11
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
GTTATTAAATTTATATTTTTTA
Found at i:4280166 original size:37 final size:38
Alignment explanation
Indices: 4280074--4280204 Score: 133
Period size: 38 Copynumber: 3.5 Consensus size: 38
4280064 GTTTCAAACT
* * * *
4280074 ATGCAACCGGTTAAGAATAGTAGTTTTTGCATTGAATT
1 ATGCCACCGGTTAAGAATAGTGGTTTTTGTATTGAATC
* * *
4280112 GTGCCACCAGATAAGAATAGTGGTTTTTGTATTGAA-C
1 ATGCCACCGGTTAAGAATAGTGGTTTTTGTATTGAATC
* * *
4280149 ATGCCACCGGTTTAGAATAGTGGCTTCTGT-TTCGAATC
1 ATGCCACCGGTTAAGAATAGTGGTTTTTGTATT-GAATC
*
4280187 ATGCCACC-GTTTAGAATA
1 ATGCCACCGGTTAAGAATA
4280205 ATGATTTTCG
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
36 2 0.03
37 37 0.47
38 39 0.50
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (38 bp):
ATGCCACCGGTTAAGAATAGTGGTTTTTGTATTGAATC
Found at i:4280195 original size:38 final size:36
Alignment explanation
Indices: 4280125--4280204 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 36
4280115 CCACCAGATA
* *
4280125 AGAATAGTGGTTTTTGTATTGAACATGCCACCGGTTT
1 AGAATAGTGGCTTCTGTATTGAACATGCCACC-GTTT
4280162 AGAATAGTGGCTTCTGT-TTCGAATCATGCCACCGTTT
1 AGAATAGTGGCTTCTGTATT-GAA-CATGCCACCGTTT
4280199 AGAATA
1 AGAATA
4280205 ATGATTTTCG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 2 0.05
37 28 0.72
38 9 0.23
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (36 bp):
AGAATAGTGGCTTCTGTATTGAACATGCCACCGTTT
Found at i:4280284 original size:2 final size:2
Alignment explanation
Indices: 4280277--4280306 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4280267 AGGGAGTTAG
*
4280277 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4280307 GATGATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4286693 original size:21 final size:22
Alignment explanation
Indices: 4286667--4286708 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4286657 ATTTTCTACT
*
4286667 AAAATAAAATATATTT-AGTTA
1 AAAATAAAATAAATTTCAGTTA
*
4286688 AAAATAATATAAATTTCAGTT
1 AAAATAAAATAAATTTCAGTT
4286709 TTTTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (22 bp):
AAAATAAAATAAATTTCAGTTA
Done.