Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 198 of 199
Found at i:57752229 original size:17 final size:17
Alignment explanation
Indices: 57752196--57752227 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
57752186 GGGAAAATGA
57752196 AAAAAGAAATTAGAAAG
1 AAAAAGAAATTAGAAAG
57752213 AAAAA-AAATTAGAAA
1 AAAAAGAAATTAGAAA
57752228 AGTTTAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAAAGAAATTAGAAAG
Found at i:57761247 original size:20 final size:20
Alignment explanation
Indices: 57761222--57761264 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
57761212 TAATAAACAC
57761222 AAAAAAATATTTTAAAAATA
1 AAAAAAATATTTTAAAAATA
* *
57761242 AAAAAAATATTTTTAAATTA
1 AAAAAAATATTTTAAAAATA
57761262 AAA
1 AAA
57761265 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAAATATTTTAAAAATA
Found at i:57766713 original size:28 final size:28
Alignment explanation
Indices: 57766667--57766736 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
57766657 TTTACTTTCT
* *
57766667 CCCAACAACTTTTATTTCCCCCCAAACCC
1 CCCAA-AATTTTTACTTCCCCCCAAACCC
* *
57766696 CCCAAAATTTTTACTTCCCTCCAAATCC
1 CCCAAAATTTTTACTTCCCCCCAAACCC
*
57766724 CTCAAACATTTTT
1 CCCAAA-ATTTTT
57766737 TCTTTTTGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 24 0.69
29 11 0.31
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (28 bp):
CCCAAAATTTTTACTTCCCCCCAAACCC
Found at i:57769875 original size:18 final size:18
Alignment explanation
Indices: 57769837--57769872 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
57769827 TTATTATTTT
*
57769837 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
57769855 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
57769873 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:57776594 original size:137 final size:134
Alignment explanation
Indices: 57776276--57776645 Score: 409
Period size: 137 Copynumber: 2.7 Consensus size: 134
57776266 TATTCCCGTC
* * * *
57776276 TTTGGTAGTTCAAACTAGAAGATTGAGCTTGTATTTCTATAGTGTAGGAGCAATATGGTAGGGTG
1 TTTGGTAGTTCAAACTAGAAGATTGAGCTTGTATTTCTATAGTTTAAGA-CCATATGGTAGAGTG
* * *
57776341 ATTGGCTAATAGTTCATTCCCATGTTACTCGGATTTGTAGTCTCAGACACGGGTATATTTCCGGG
65 ATTGGCTAATAGTTCATTCCCATGTTACTCGAATTCGTAGTCTCAGACACGGGTATATTCCCGGG
57776406 TTAAG
130 TTAAG
* * * * * * * * * *
57776411 CTTGGTAGTTTAATCTGGAAGATTGAGTTTTTCTTTCTATGGTTTAAGACCATATGGTAGCGTCA
1 TTTGGTAGTTCAAACTAGAAGATTGAGCTTGTATTTCTATAGTTTAAGACCATATGGTAGAGTGA
* * *
57776476 TTGGATAATAGTTCATTCCCATGTTACTCGAATTCGTTCGAGTCTC-GAGCATGGGTATCTTCCC
66 TTGGCTAATAGTTCATTCCCATGTTACTCGAATTCG-T--AGTCTCAGA-CACGGGTATATTCCC
*
57776540 GTGTTAAG
127 GGGTTAAG
* * * * *
57776548 TTTGGTAGTTCAAACTAGAATATTGAGCTTGTATATCTGTAGTTTAAGACCAGTATGATAGAATG
1 TTTGGTAGTTCAAACTAGAAGATTGAGCTTGTATTTCTATAGTTTAAGACCA-TATGGTAGAGTG
* * *
57776613 ATTGGCTAAATAGGTCATTCCTATGTTATTCGA
65 ATTGGCT-AATAGTTCATTCCCATGTTACTCGA
57776646 TACAACTACG
Statistics
Matches: 190, Mismatches: 39, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
134 46 0.24
135 40 0.21
136 2 0.01
137 66 0.35
138 14 0.07
139 22 0.12
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (134 bp):
TTTGGTAGTTCAAACTAGAAGATTGAGCTTGTATTTCTATAGTTTAAGACCATATGGTAGAGTGA
TTGGCTAATAGTTCATTCCCATGTTACTCGAATTCGTAGTCTCAGACACGGGTATATTCCCGGGT
TAAG
Found at i:57784288 original size:21 final size:20
Alignment explanation
Indices: 57784259--57784302 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
57784249 TTTTGAATCC
* *
57784259 TTTTAAAAAATAATTTCTTTT
1 TTTTAAAAAA-AAATACTTTT
*
57784280 TTTTCAAAAAAAATACTTTT
1 TTTTAAAAAAAAATACTTTT
57784300 TTT
1 TTT
57784303 AATTAATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAAAAAAAATACTTTT
Found at i:57787834 original size:3 final size:3
Alignment explanation
Indices: 57787826--57787857 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
57787816 CCTTTAAATT
57787826 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57787858 CTTTCCTCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:57802247 original size:15 final size:16
Alignment explanation
Indices: 57802227--57802268 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
57802217 ATTTACATTT
*
57802227 TTAAACTTAAAAAT-C
1 TTAAACTTAAAAATAA
57802242 TTAAAC-TAAAAATAA
1 TTAAACTTAAAAATAA
*
57802257 TTAAATTTAAAA
1 TTAAACTTAAAA
57802269 GGCATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 11 0.48
16 5 0.22
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAACTTAAAAATAA
Found at i:57805714 original size:21 final size:21
Alignment explanation
Indices: 57805661--57805715 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
57805651 AGATTTACTA
57805661 ATATATAT-TAA-ATAAAATT
1 ATATATATATAATATAAAATT
* *
57805680 ACATAAATTAATAATATAAAATT
1 ATATATA-T-ATAATATAAAATT
57805703 ATATATATATAAT
1 ATATATATATAAT
57805716 GAGAAGGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 5 0.18
20 1 0.04
21 5 0.18
22 4 0.14
23 13 0.46
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATATATAATATAAAATT
Found at i:57810057 original size:27 final size:27
Alignment explanation
Indices: 57810010--57810072 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
57810000 AATAAAAATA
*
57810010 ACCAAAATA-TATAACTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTATTT
57810036 ACCAAAATATTATAAATTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTATTT
57810063 ACCAAAATAT
1 ACCAAAATAT
57810073 ACCAAAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (27 bp):
ACCAAAATATTATAAATTTTTTTATTT
Found at i:57810752 original size:27 final size:27
Alignment explanation
Indices: 57810667--57810743 Score: 136
Period size: 27 Copynumber: 2.9 Consensus size: 27
57810657 TTTTAGTCCT
*
57810667 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCTTTGGTGCCGCCAATCACA
57810694 TTGGCACCTTTGGTGCCGCCAATCACA
1 TTGGCACCTTTGGTGCCGCCAATCACA
*
57810721 TTGGCACCTTTGGTGTCGCCAAT
1 TTGGCACCTTTGGTGCCGCCAAT
57810744 GTGATTGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.27
Consensus pattern (27 bp):
TTGGCACCTTTGGTGCCGCCAATCACA
Found at i:57812354 original size:91 final size:90
Alignment explanation
Indices: 57812244--57812415 Score: 274
Period size: 91 Copynumber: 1.9 Consensus size: 90
57812234 CTTAAATAGG
57812244 GTGGGTCAAAATCTAATAATAAAAATATATAATACAATAACCG-GTATATATAAAATAACTTATC
1 GTGGGTCAAAATCTAATAATAAAAATATATAATACAATAA-CGTGTATATATAAAATAACTTATC
57812308 AAATCAAACCCTTATATATACATATGT
65 AAATC-AACCCTTATATATACATATGT
* * * *
57812335 GTGGGTCAAGATGTAATAATAAAAATATATAATACAATAATGTGTATATATAAAATAGCTTATCA
1 GTGGGTCAAAATCTAATAATAAAAATATATAATACAATAACGTGTATATATAAAATAACTTATCA
*
57812400 AATCTACCCTTATATA
66 AATCAACCCTTATATA
57812416 CAGAGAAATT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
90 12 0.16
91 63 0.84
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (90 bp):
GTGGGTCAAAATCTAATAATAAAAATATATAATACAATAACGTGTATATATAAAATAACTTATCA
AATCAACCCTTATATATACATATGT
Found at i:57820082 original size:2 final size:2
Alignment explanation
Indices: 57820070--57820101 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
57820060 ATACACTTAA
57820070 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57820102 CCCAAAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:57821611 original size:40 final size:39
Alignment explanation
Indices: 57821566--57821696 Score: 110
Period size: 40 Copynumber: 3.3 Consensus size: 39
57821556 ATTTGTATTG
57821566 GCGGCGTTTTTAAGAAAAACGCCGCTAATGTATATTTTTA
1 GCGGCGTTTTTAAG-AAAACGCCGCTAATGTATATTTTTA
57821606 GCGGCGCTTTTGT-AG-AAACGCCGCTAATG-ATCATTTATTA
1 GCGGCG-TTTT-TAAGAAAACGCCGCTAATGTAT-ATTT-TTA
* * * *
57821646 GCGGCGCTTTATCA-CAATCGCCGCTAATTGCT-TATTTTTA
1 GCGGCG-TTTTTAAGAAAACGCCGCTAA-TG-TATATTTTTA
*
57821686 CCGGCGTTTTT
1 GCGGCGTTTTT
57821697 TGTCCAAACG
Statistics
Matches: 78, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
38 2 0.03
39 23 0.29
40 39 0.50
41 12 0.15
42 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (39 bp):
GCGGCGTTTTTAAGAAAACGCCGCTAATGTATATTTTTA
Found at i:57821854 original size:21 final size:22
Alignment explanation
Indices: 57821814--57821855 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
57821804 TTTAATATTT
*
57821814 AATTTGGTATCTGAGTTTTTTC
1 AATTTGATATCTGAGTTTTTTC
*
57821836 AATTTGATA-CTGTGTTTTTT
1 AATTTGATATCTGAGTTTTTT
57821856 TTCTCGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.19, C:0.07, G:0.17, T:0.57
Consensus pattern (22 bp):
AATTTGATATCTGAGTTTTTTC
Found at i:57824567 original size:11 final size:11
Alignment explanation
Indices: 57824553--57824579 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
57824543 AATTTTTTAA
57824553 TTTTAAAATAC
1 TTTTAAAATAC
57824564 TTTTAAAATAC
1 TTTTAAAATAC
57824575 TTTTA
1 TTTTA
57824580 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:57824594 original size:9 final size:9
Alignment explanation
Indices: 57824575--57824650 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 9
57824565 TTTAAAATAC
57824575 TTTTATTAAA
1 TTTT-TTAAA
57824585 TTTTTTAAA
1 TTTTTTAAA
**
57824594 TTTTAAAAA
1 TTTTTTAAA
57824603 TTTTTTAAAA
1 TTTTTT-AAA
*
57824613 TACTTTTTTAA
1 T--TTTTTAAA
*
57824624 TTTTTTTAA
1 TTTTTTAAA
*
57824633 -TTTTAAAA
1 TTTTTTAAA
57824641 TATTTTTAAA
1 T-TTTTTAAA
57824651 ATACTTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
8 6 0.11
9 24 0.45
10 15 0.28
11 3 0.06
12 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:57824608 original size:11 final size:13
Alignment explanation
Indices: 57824594--57824660 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 13
57824584 ATTTTTTAAA
57824594 TTTTAAAA-A-TT
1 TTTTAAAATACTT
57824605 TTTTAAAATACTT
1 TTTTAAAATACTT
** **
57824618 TTTTAATTTTTTT
1 TTTTAAAATACTT
57824631 AATTTTAAAATA--T
1 --TTTTAAAATACTT
57824644 TTTTAAAATACTT
1 TTTTAAAATACTT
57824657 TTTT
1 TTTT
57824661 TAATTTTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
11 18 0.42
12 1 0.02
13 17 0.40
15 7 0.16
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTAAAATACTT
Found at i:57824629 original size:40 final size:39
Alignment explanation
Indices: 57824537--57824686 Score: 196
Period size: 39 Copynumber: 3.7 Consensus size: 39
57824527 ATATTTTTAT
*
57824537 TTTTTTAA-TTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
57824575 TTTTATTAAATTTTTTAAATTTTAAAA-ATTTTTTAAAATAC
1 TTTT-TT-AATTTTTTTAATTTTAAAATA-TTTTTAAAATAC
57824616 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
57824655 TTTTTTTAATTTTTATTTTAATTTTTAAAATA
1 -TTTTTTAA--TTT-TTTTAA-TTTTAAAATA
57824687 AATTTTTGGT
Statistics
Matches: 99, Mismatches: 3, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
38 4 0.04
39 32 0.32
40 14 0.14
41 30 0.30
42 3 0.03
43 6 0.06
44 10 0.10
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:57833602 original size:19 final size:19
Alignment explanation
Indices: 57833574--57833615 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
57833564 TTTAACATTA
57833574 TTTTTATCTCAAAAGTATT
1 TTTTTATCTCAAAAGTATT
* * *
57833593 TTTTTGTCTCAGAAGTGTT
1 TTTTTATCTCAAAAGTATT
57833612 TTTT
1 TTTT
57833616 AGAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.12, T:0.57
Consensus pattern (19 bp):
TTTTTATCTCAAAAGTATT
Found at i:57840775 original size:20 final size:21
Alignment explanation
Indices: 57840738--57840780 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
57840728 TTTTAAATAT
*
57840738 TATTTAAATAATTCAAAAAAA
1 TATTTAAATAATTAAAAAAAA
* *
57840759 TATTT-AATATTTAAAAATAA
1 TATTTAAATAATTAAAAAAAA
57840779 TA
1 TA
57840781 ATCTTGTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TATTTAAATAATTAAAAAAAA
Found at i:57841822 original size:14 final size:15
Alignment explanation
Indices: 57841805--57841833 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57841795 ATTGATGACA
57841805 TTTATGAA-TATAAT
1 TTTATGAATTATAAT
57841819 TTTATGAATTATAAT
1 TTTATGAATTATAAT
57841834 CTAAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
TTTATGAATTATAAT
Found at i:57846306 original size:237 final size:235
Alignment explanation
Indices: 57845840--57846319 Score: 703
Period size: 236 Copynumber: 2.0 Consensus size: 235
57845830 ATCAGGGTAG
* *
57845840 AAACTTAAGCCATGTGACCCCAATACAATGCAAACACCATTCCCTACAGAAATCACTTCAAATAA
1 AAACTTAAGCCATGCGACCCCAATACAATGCAAACACCATTCCCTACAGAAATCACTTAAAATAA
* * *
57845905 GTTCCAATTAACCACCTCTAATGACATATTCCCAGAGGGTGGTAATAGTTACACGTATATACCCA
66 GTTCCAATTAACCACCTCTAATGACATATTCCAAGAGGGTGCTAATAGTTACACGTATAAACCCA
* * *
57845970 AACCACATTCATAAAGGAATTGAACAAACCATGAATGCAAACAATAACCATAGCAACCAAAAGAT
131 AACCACATTCATAAAAGAATTAAACAAACCATGAATGCAAACAATAACCAGAGCAACCAAAAGAT
*
57846035 ACAATACTACAAACTATATAACAACTAAGCTAAGAATATA
196 AAAATACTACAAACTATATAACAACTAAGCTAAGAATATA
* * * * * *
57846075 AAACTTAAGCCATGCGACTCCAATACCATTGGAAACACCATTGCCTACGGAAATTACTTAAAATA
1 AAACTTAAGCCATGCGACCCCAATA-CAATGCAAACACCATTCCCTACAGAAATCACTTAAAATA
* * *
57846140 AGTTCCGATTAACCGCCTCTAATGACATATTCGAAGAGGGTGCTAATAGTTAGC-CGTATAAACC
65 AGTTCCAATTAACCACCTCTAATGACATATTCCAAGAGGGTGCTAATAGTTA-CACGTATAAACC
* * *
57846204 TAAACCA-AGTTCATAAAAGAATTAAAACAAACCATTAATGCAAACAATAACCAGAGCAACCCAA
129 CAAACCACA-TTCATAAAAGAATT-AAACAAACCATGAATGCAAACAATAACCAGAGCAACCAAA
*
57846268 AGATAAAATGCTACAAACTATATAACAACTAAGCTAAGAATATA
192 AGATAAAATACTACAAACTATATAACAACTAAGCTAAGAATATA
*
57846312 AAAGTTAA
1 AAACTTAA
57846320 AACTTCAGTA
Statistics
Matches: 218, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
235 24 0.11
236 108 0.50
237 86 0.39
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.22
Consensus pattern (235 bp):
AAACTTAAGCCATGCGACCCCAATACAATGCAAACACCATTCCCTACAGAAATCACTTAAAATAA
GTTCCAATTAACCACCTCTAATGACATATTCCAAGAGGGTGCTAATAGTTACACGTATAAACCCA
AACCACATTCATAAAAGAATTAAACAAACCATGAATGCAAACAATAACCAGAGCAACCAAAAGAT
AAAATACTACAAACTATATAACAACTAAGCTAAGAATATA
Found at i:57846924 original size:102 final size:103
Alignment explanation
Indices: 57846806--57847010 Score: 394
Period size: 102 Copynumber: 2.0 Consensus size: 103
57846796 CGTAAGTACG
57846806 ATATGTGAGTCTCTCTTTCATCATGTATGAGCTTTTTTGGATTAGTTTGACTTTTGAT-GGTTTT
1 ATATGTGAGTCTCTCTTTCATCATGTATGAGCTTTTTTGGATTAGTTTGACTTTTGATCGGTTTT
57846870 TCGTTCATTGTATTGGTTAATTTTATATTGTAATTTGT
66 TCGTTCATTGTATTGGTTAATTTTATATTGTAATTTGT
*
57846908 ATATGTGAGTCTCTCTTTCATCATGTATGAGGTTTTTTGGATTAGTTTGACTTTTGATCGGTTTT
1 ATATGTGAGTCTCTCTTTCATCATGTATGAGCTTTTTTGGATTAGTTTGACTTTTGATCGGTTTT
57846973 TCGTTCATTGTATTGGTTAATTTTATATTGTAATTTGT
66 TCGTTCATTGTATTGGTTAATTTTATATTGTAATTTGT
57847011 TGGGCATGTA
Statistics
Matches: 101, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
102 57 0.56
103 44 0.44
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.54
Consensus pattern (103 bp):
ATATGTGAGTCTCTCTTTCATCATGTATGAGCTTTTTTGGATTAGTTTGACTTTTGATCGGTTTT
TCGTTCATTGTATTGGTTAATTTTATATTGTAATTTGT
Found at i:57848895 original size:21 final size:20
Alignment explanation
Indices: 57848856--57848895 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
57848846 ATGTTGGGAA
*
57848856 TTTTGAAGGTGCTTTGAAGG
1 TTTTGAAGGTGATTTGAAGG
*
57848876 TTTTGAATGTGATGTTGAAG
1 TTTTGAAGGTGAT-TTGAAG
57848896 AGTCGGCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.03, G:0.33, T:0.42
Consensus pattern (20 bp):
TTTTGAAGGTGATTTGAAGG
Found at i:57858136 original size:18 final size:17
Alignment explanation
Indices: 57858108--57858144 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
57858098 TCAGGTATTT
*
57858108 TTCGGTAATTCGATTAA
1 TTCGGTAATTCGAGTAA
57858125 TTCGGATAATTCGAGTAA
1 TTCGG-TAATTCGAGTAA
57858143 TT
1 TT
57858145 TTTAACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (17 bp):
TTCGGTAATTCGAGTAA
Found at i:57859373 original size:3 final size:3
Alignment explanation
Indices: 57859367--57859410 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
57859357 TTTTAACTTG
57859367 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
57859411 CCTCTCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:57864032 original size:41 final size:41
Alignment explanation
Indices: 57863986--57864074 Score: 169
Period size: 41 Copynumber: 2.1 Consensus size: 41
57863976 ATTAGAAGCT
57863986 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
1 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
57864027 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
1 AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
57864068 ATATATA
1 A-ATATA
57864075 TTCTAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 42 0.89
42 5 0.11
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.30
Consensus pattern (41 bp):
AATATAAAGTAAAATTATAGTTGATCCTTAAAATGAAAAAA
Found at i:57866261 original size:23 final size:23
Alignment explanation
Indices: 57866215--57866261 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
57866205 TCATCCACAA
* * * *
57866215 ATTTTTATTTTTTTATTTTTAAT
1 ATTTTCATTATTTTATCTTGAAT
57866238 ATTTTCATTATTTTATCTTGAAT
1 ATTTTCATTATTTTATCTTGAAT
57866261 A
1 A
57866262 AATTATTAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTTTCATTATTTTATCTTGAAT
Found at i:57888376 original size:22 final size:22
Alignment explanation
Indices: 57888338--57888400 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
57888328 ACTAATGAAT
* * *
57888338 AGAGAGCACTAAAGTGCTATAC
1 AGAGAGCACTGATGTGCTAAAC
*
57888360 AGAGAGTACATG-TGTGCTAAAC
1 AGAGAGCAC-TGATGTGCTAAAC
*
57888382 ATAGAGCACTGATGTGCTA
1 AGAGAGCACTGATGTGCTA
57888401 GTAATCAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.91
23 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (22 bp):
AGAGAGCACTGATGTGCTAAAC
Found at i:57888423 original size:25 final size:25
Alignment explanation
Indices: 57888395--57888463 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
57888385 GAGCACTGAT
* *
57888395 GTGCTAGTAATCAGATAGCACCAAC
1 GTGCTAATAATCAGAGAGCACCAAC
57888420 GTGCTAATAATCAGAGAGCACCAAC
1 GTGCTAATAATCAGAGAGCACCAAC
*
57888445 GTGCTAATAATTAGAGAGC
1 GTGCTAATAATCAGAGAGC
57888464 GCGCTAAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (25 bp):
GTGCTAATAATCAGAGAGCACCAAC
Found at i:57889357 original size:27 final size:23
Alignment explanation
Indices: 57889304--57889352 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
57889294 TTAATAAGTA
57889304 TATACATATATTAATTACAAATG
1 TATACATATATTAATTACAAATG
* *
57889327 TATACATATATTTATTACATATG
1 TATACATATATTAATTACAAATG
57889350 TAT
1 TAT
57889353 TTATAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (23 bp):
TATACATATATTAATTACAAATG
Found at i:57889749 original size:15 final size:15
Alignment explanation
Indices: 57889729--57889782 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 15
57889719 CAACTACAGA
57889729 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
57889744 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
57889761 AAATATTTATTATTAAT
1 --ATATTTATTATTAAT
57889778 ATATT
1 ATATT
57889783 AATACTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 14 0.42
16 1 0.03
17 8 0.24
18 1 0.03
19 9 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:57889841 original size:15 final size:16
Alignment explanation
Indices: 57889821--57889851 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57889811 AAGAACATTA
57889821 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
57889836 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
57889852 AAAATAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:57896784 original size:23 final size:22
Alignment explanation
Indices: 57896742--57896784 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
57896732 CAATTGAACC
*
57896742 AAAATTTTAATATTTTATTTTT
1 AAAATTTTAATATTTAATTTTT
57896764 AAAATTTTTAAT-TATTAATTT
1 AAAA-TTTTAATAT-TTAATTT
57896785 AATCAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AAAATTTTAATATTTAATTTTT
Found at i:57898066 original size:3 final size:3
Alignment explanation
Indices: 57898058--57898086 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
57898048 TACAAACCAG
57898058 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
57898087 ACAGTTGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:57898134 original size:10 final size:10
Alignment explanation
Indices: 57898112--57898146 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
57898102 ATTGAACGGG
57898112 TTTTATAATT
1 TTTTATAATT
*
57898122 TTTTA-AATA
1 TTTTATAATT
57898131 TTTTATAATT
1 TTTTATAATT
57898141 TTTTAT
1 TTTTAT
57898147 GAACAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:57905857 original size:20 final size:21
Alignment explanation
Indices: 57905824--57905862 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
57905814 TTATATGTCA
*
57905824 TATATATTTTTAAATTATTTT
1 TATATATTTATAAATTATTTT
57905845 TATA-ATTTATAAATTATT
1 TATATATTTATAAATTATT
57905863 AACTGACGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATATATTTATAAATTATTTT
Found at i:57928364 original size:21 final size:21
Alignment explanation
Indices: 57928339--57928378 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
57928329 TTGAATATTA
57928339 AAATTAATTTTTAAATTTTTT
1 AAATTAATTTTTAAATTTTTT
57928360 AAATTAATTTTTAAATTTT
1 AAATTAATTTTTAAATTTT
57928379 AATATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AAATTAATTTTTAAATTTTTT
Found at i:57928370 original size:12 final size:12
Alignment explanation
Indices: 57928339--57928376 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
57928329 TTGAATATTA
57928339 AAATTAATTTTT
1 AAATTAATTTTT
57928351 AAA-T--TTTTT
1 AAATTAATTTTT
57928360 AAATTAATTTTT
1 AAATTAATTTTT
57928372 AAATT
1 AAATT
57928377 TTAATATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 8 0.35
10 1 0.04
11 1 0.04
12 13 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
AAATTAATTTTT
Found at i:57931102 original size:135 final size:135
Alignment explanation
Indices: 57930926--57931179 Score: 325
Period size: 141 Copynumber: 1.9 Consensus size: 135
57930916 TTTGATATAA
* * *
57930926 AAAAATACTCACATAGTAGCCATGTAACTAAAAAATGATGTTGTAATG-A-ATTTAACAAAATAA
1 AAAAATACTCACATACTAGCCACGTAACTAAAAAAAGATGTTGTAATGAATATTTAACAAAATAA
* * *
57930989 TTTTAATAATATTAACAGTTGGACCTAAATTTTAAAAT-TTAAAAAGTAGAAGGACTAAATTTTA
66 TTTTAATAATATTAACAGTTAGACCGAAA-TTTAAAATCTGAAAAA-TAGAAGGACTAAATTTTA
57931053 AAATTAT
129 AAATTAT
* *
57931060 AAAAATACTCACTTACTAGCCACGTGACTTAAAAAAAGATGTTGTAATGAACTTGTATTTAACAA
1 AAAAATACTCACATACTAGCCACGTAAC-TAAAAAAAGATGTTGTAATGAA----TATTTAACAA
* * *
57931125 AATAATTTTAGTAATATTAATAGTTAGACCGGAATTTAAAATCTGAAAAATAGAA
61 AATAATTTTAATAATATTAACAGTTAGACCGAAATTTAAAATCTGAAAAATAGAA
57931180 AAATTAAATT
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
134 24 0.24
135 19 0.19
136 1 0.01
140 13 0.13
141 44 0.44
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.32
Consensus pattern (135 bp):
AAAAATACTCACATACTAGCCACGTAACTAAAAAAAGATGTTGTAATGAATATTTAACAAAATAA
TTTTAATAATATTAACAGTTAGACCGAAATTTAAAATCTGAAAAATAGAAGGACTAAATTTTAAA
ATTAT
Found at i:57936933 original size:19 final size:18
Alignment explanation
Indices: 57936904--57936947 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
57936894 CAAAATATAA
*
57936904 CTTTT-ATTTTAAATTGGT
1 CTTTTAATTTTAAACT-GT
57936922 CTTTTAATTTTAAACTGT
1 CTTTTAATTTTAAACTGT
57936940 -TTTTAATT
1 CTTTTAATT
57936948 ACATCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (18 bp):
CTTTTAATTTTAAACTGT
Found at i:57937601 original size:19 final size:20
Alignment explanation
Indices: 57937565--57937603 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
57937555 GTCATTTTAT
57937565 AAATTTTAGAAATATAATTA
1 AAATTTTAGAAATATAATTA
*
57937585 AAATTTTATAAAT-TAATTA
1 AAATTTTAGAAATATAATTA
57937604 TTTAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
AAATTTTAGAAATATAATTA
Found at i:57941314 original size:21 final size:22
Alignment explanation
Indices: 57941270--57941314 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
57941260 ATCTGTAACT
*
57941270 GTCTAGTTATTTTGTCATATCA
1 GTCTAGTTATTTTGTCACATCA
57941292 GTCTAGTTATTTT-TCACATCA
1 GTCTAGTTATTTTGTCACATCA
57941313 GT
1 GT
57941315 TTGCTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (22 bp):
GTCTAGTTATTTTGTCACATCA
Found at i:57941785 original size:2 final size:2
Alignment explanation
Indices: 57941778--57941820 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
57941768 TGGCACTTTC
* * *
57941778 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57941820 T
1 T
57941821 GCATACTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:57948210 original size:19 final size:19
Alignment explanation
Indices: 57948188--57948230 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
57948178 GTCCTTGTAA
*
57948188 TTTTA-TTTTCAGAATTTTT
1 TTTTACTTTTCAG-ATTTTC
57948207 TTTTACTTTTCAGATTTTC
1 TTTTACTTTTCAGATTTTC
57948226 TTTTA
1 TTTTA
57948231 AAAAAAGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTACTTTTCAGATTTTC
Found at i:57952906 original size:16 final size:15
Alignment explanation
Indices: 57952885--57952923 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
57952875 CTGTATCATA
57952885 ATTTATTTTGTTATTT
1 ATTTATTTTGTTA-TT
*
57952901 ATTTATTATGTTATT
1 ATTTATTTTGTTATT
57952916 A-TTATTTT
1 ATTTATTTT
57952924 CTTTAGATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 6 0.29
15 3 0.14
16 12 0.57
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (15 bp):
ATTTATTTTGTTATT
Found at i:57953951 original size:115 final size:111
Alignment explanation
Indices: 57953811--57954029 Score: 314
Period size: 115 Copynumber: 1.9 Consensus size: 111
57953801 TAAATTCATG
* *
57953811 GCTGGATCAATTTGCTGATTAGGATATTTTGCTGGGATT-CTTTATATAAAATTTATTTATTTAT
1 GCTGGATCAATATGCTGATTAGGATATTTTACTGGGATTCCTTT-TATAAAATTTATTT-TTT-T
* * *
57953875 TTATGAATTTTCTGACTCAAGCTCATATATTTTATATAAGGAAGTGCATA
63 TTATAAATTTGCTGACTCAAGCTCATATATTCTATAT-AGGAAGTGCATA
*
57953925 GCTGGATCAATATGTTGAATTAGGATATTTTACTGGGATTCCTTTTATAAAATTTATTTTTTTTT
1 GCTGGATCAATATGCTG-ATTAGGATATTTTACTGGGATTCCTTTTATAAAATTTATTTTTTTTT
* *
57953990 GTAAATTTGCTGACTCAAGTTCATATATTCTATATAGGAA
65 ATAAATTTGCTGACTCAAGCTCATATATTCTATATAGGAA
57954030 AATAGCGAGT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
112 5 0.05
113 33 0.35
114 18 0.19
115 35 0.37
116 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.45
Consensus pattern (111 bp):
GCTGGATCAATATGCTGATTAGGATATTTTACTGGGATTCCTTTTATAAAATTTATTTTTTTTTA
TAAATTTGCTGACTCAAGCTCATATATTCTATATAGGAAGTGCATA
Found at i:57955460 original size:207 final size:208
Alignment explanation
Indices: 57954974--57955622 Score: 660
Period size: 207 Copynumber: 3.1 Consensus size: 208
57954964 CATTTTTGTG
* *
57954974 GATACGAGGACAAACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAAAAGT-T-ATCT
1 GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAAAA-TATGATCT
57955037 ATATCTGTGTCTGACACTCACACTTGAGTCCGAGTCAGAGGTTCACGAACCACC----AGT-T-A
65 ATATCTGTGTCTGACACTCACACTTGAGT-C----C-GAGGTTCACGAACCACCAATTAGTGTAA
* ** *
57955096 TTTTATTGTATATT-GTTGTTCATTACTCACTGTTCATGTTGCTCCAACTTTTCATTTTTCTGGA
124 TTTTATTGT-TGTTCGTTACTCATTACTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGA
* *
57955160 TATACCTGTGTTTTTAACAAATG
188 TATACCTATG--TTTAACAAATC
* *
57955183 GATATGAGGACGTACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTTAAAAAAA-ATGATCC
1 GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACC-TTTAAAAAAATATGATCT
* *
57955247 ATATCTGTGTTTGACACTCACACTTGAGTCCGAGGTTCAGGAACCACCAATTAGTGTAATTTTAT
65 ATATCTGTGTCTGACACTCACACTTGAGTCCGAGGTTCACGAACCACCAATTAGTGTAATTTTAT
* * ** * *
57955312 TGTTGTTCGTTACTCATTGATTGTCATTGTCCATGTTGCTCTGACTTTTTATTTTTGTGGATATA
130 TGTTGTTCGTTACTCATT-A--CTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGATATA
* *
57955377 -CTATG-TTGA-ATA-C
192 CCTATGTTTAACAAATC
*
57955390 GATATGAGGACATACCTCCAAAGATGCTCCAAATGCATAGAAAACC-TTAAAAAGAATATGATCT
1 GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAA-AATATGATCT
* * * * *
57955454 ATATCTGTGTCTGACACTCACTTGAGTCCGAGTCAGAGGTTCATGAACCACCAATTAGTGTATTT
65 ATATCTGTGTCTGACACTCAC---ACT-TGAGTCCGAGGTTCACGAACCACCAATTAGTGTAATT
* * * *
57955519 TTATTGTTGTTCG-------TTACTCACTGTTCATGTTGCTCCGATTTTTCATTTTTGTGGATAT
126 TTATTGTTGTTCGTTACTCATTACTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGATAT
* * *
57955577 ACCTGTGTTCAACACATGC
191 ACCTATGTTTAACAAAT-C
57955596 G-TATGAGGACATACCTCCAAAGATGCT
1 GATATGAGGACATACCTCCAAAGATGCT
57955623 ATTGATGGCA
Statistics
Matches: 377, Mismatches: 39, Indels: 52
0.81 0.08 0.11
Matches are distributed among these distances:
201 37 0.10
202 4 0.01
203 3 0.01
204 20 0.05
205 34 0.09
206 4 0.01
207 70 0.19
208 5 0.01
209 52 0.14
210 61 0.16
211 47 0.12
212 4 0.01
213 36 0.10
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (208 bp):
GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAAAATATGATCTA
TATCTGTGTCTGACACTCACACTTGAGTCCGAGGTTCACGAACCACCAATTAGTGTAATTTTATT
GTTGTTCGTTACTCATTACTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGATATACCTA
TGTTTAACAAATC
Found at i:57956751 original size:3 final size:3
Alignment explanation
Indices: 57956743--57956767 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
57956733 GTGAACATAT
57956743 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
57956768 AGTATTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:57963031 original size:21 final size:22
Alignment explanation
Indices: 57962995--57963036 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
57962985 TGTTCGAGTA
*
57962995 ATTAAAAAATAGAA-TTAAATC
1 ATTAAAAAAAAGAATTTAAATC
*
57963016 ATTAAAAAAAATAATTTAAAT
1 ATTAAAAAAAAGAATTTAAAT
57963037 TAAAATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
ATTAAAAAAAAGAATTTAAATC
Found at i:57966731 original size:25 final size:25
Alignment explanation
Indices: 57966697--57966747 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
57966687 CATTTTTAAC
57966697 CAAAAAATAGAAAAGAATATTGATT
1 CAAAAAATAGAAAAGAATATTGATT
57966722 CAAAAAATAGAAAAGAATATTGATT
1 CAAAAAATAGAAAAGAATATTGATT
57966747 C
1 C
57966748 GAAGATTCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (25 bp):
CAAAAAATAGAAAAGAATATTGATT
Found at i:57968763 original size:31 final size:31
Alignment explanation
Indices: 57968725--57968784 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
57968715 CTAATGACTG
* *
57968725 AAAAAGAAAAA-TTCGAATATTTGGGTGACCA
1 AAAAAGAAAAAGTT-AAATAGTTGGGTGACCA
57968756 AAAAAGAAAAAGTTAAATAGTTGGGTGAC
1 AAAAAGAAAAAGTTAAATAGTTGGGTGAC
57968785 TACTAGTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.50, C:0.07, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAAAGAAAAAGTTAAATAGTTGGGTGACCA
Found at i:57969937 original size:2 final size:2
Alignment explanation
Indices: 57969932--57969957 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57969922 ATATATATAT
57969932 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
57969958 CATACGCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:57971651 original size:3 final size:3
Alignment explanation
Indices: 57971643--57971675 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
57971633 ATACTGTTAG
57971643 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA- AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
57971676 CACTAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:57975242 original size:21 final size:22
Alignment explanation
Indices: 57975202--57975244 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
57975192 TGTTAAAATT
57975202 TATTTTAAGTATTTAATATTTTG
1 TATTTTAAG-ATTTAATATTTTG
*
57975225 TATTTTAA-ATTTATTATTTT
1 TATTTTAAGATTTAATATTTT
57975245 TTTATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
TATTTTAAGATTTAATATTTTG
Found at i:57980568 original size:24 final size:24
Alignment explanation
Indices: 57980523--57980569 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
57980513 TAAAATTAAA
* *
57980523 TAAATAAATTTTTTATATAAAAAT
1 TAAATAAAATTTTGATATAAAAAT
57980547 TAAATAAAATTTTGA-ATGAAAAA
1 TAAATAAAATTTTGATAT-AAAAA
57980570 ATATATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
TAAATAAAATTTTGATATAAAAAT
Found at i:57981262 original size:18 final size:18
Alignment explanation
Indices: 57981241--57981291 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 18
57981231 CTAAAATATT
57981241 TATAATTGTTTCTAAAAA
1 TATAATTGTTTCTAAAAA
*
57981259 TATAA---TTACT-AAAA
1 TATAATTGTTTCTAAAAA
57981273 TATAATTGTTTCTAGAAAA
1 TATAATTGTTTCTA-AAAA
57981292 AGTCTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
17 4 0.15
18 5 0.19
19 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (18 bp):
TATAATTGTTTCTAAAAA
Found at i:57983871 original size:30 final size:30
Alignment explanation
Indices: 57983816--57983872 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
57983806 CAAATTATAC
*
57983816 CAAATTAAAGCACTAACAAAGACTAAATCT
1 CAAATTAAAGCACTAAAAAAGACTAAATCT
57983846 CAAATTAAA-CA-TAATAAAAGAACTAAA
1 CAAATTAAAGCACTAA-AAAAG-ACTAAA
57983873 AGCTTTCCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.12
29 6 0.25
30 15 0.62
ACGTcount: A:0.60, C:0.16, G:0.05, T:0.19
Consensus pattern (30 bp):
CAAATTAAAGCACTAAAAAAGACTAAATCT
Found at i:57984407 original size:21 final size:21
Alignment explanation
Indices: 57984383--57984425 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
57984373 TTTTTAAATT
57984383 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
*
57984404 TAAATATTAATATAAAGTATA
1 TAAATATTAATATAAAATATA
57984425 T
1 T
57984426 TTTTAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:57986468 original size:21 final size:21
Alignment explanation
Indices: 57986444--57986486 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
57986434 TATTTAAATT
57986444 TAAA-TTTAATTATAAAATATA
1 TAAATTTTAA-TATAAAATATA
*
57986465 TAAATTTTAATATAAAGTATA
1 TAAATTTTAATATAAAATATA
57986486 T
1 T
57986487 TTTTAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:57988652 original size:2 final size:2
Alignment explanation
Indices: 57988645--57988685 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
57988635 GTTTTAGTGT
57988645 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57988686 GTTGTTGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:57995606 original size:24 final size:24
Alignment explanation
Indices: 57995565--57995616 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
57995555 TTAGCACTTC
* * *
57995565 GTGGTGGCCTTCTTGGTGGTGGAG
1 GTGGTGGCCTCCTAGGTGGCGGAG
*
57995589 GTGGTGGTCTCCTAGGTGGCGGAG
1 GTGGTGGCCTCCTAGGTGGCGGAG
57995613 GTGG
1 GTGG
57995617 AGGTGGTGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.06, C:0.13, G:0.52, T:0.29
Consensus pattern (24 bp):
GTGGTGGCCTCCTAGGTGGCGGAG
Found at i:57995616 original size:30 final size:30
Alignment explanation
Indices: 57995582--57995641 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
57995572 CCTTCTTGGT
*
57995582 GGTGGAGGTGGTGGTCTCCTAGGTGGCGGA
1 GGTGGAGGTGGTGGTCTCCTAGGTGACGGA
*
57995612 GGTGGAGGTGGTGGTCTCCTTGGTGACGGA
1 GGTGGAGGTGGTGGTCTCCTAGGTGACGGA
57995642 AGTCTCTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.10, C:0.13, G:0.52, T:0.25
Consensus pattern (30 bp):
GGTGGAGGTGGTGGTCTCCTAGGTGACGGA
Found at i:57995652 original size:18 final size:18
Alignment explanation
Indices: 57995625--57995659 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57995615 GGAGGTGGTG
57995625 GTCTCCTTGGTGACGGAA
1 GTCTCCTTGGTGACGGAA
*
57995643 GTCTCTTTGGTGACGGA
1 GTCTCCTTGGTGACGGA
57995660 GGTGGAGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.20, G:0.34, T:0.31
Consensus pattern (18 bp):
GTCTCCTTGGTGACGGAA
Found at i:57995660 original size:48 final size:50
Alignment explanation
Indices: 57995594--57995750 Score: 183
Period size: 60 Copynumber: 3.0 Consensus size: 50
57995584 TGGAGGTGGT
* *
57995594 GGTCTCCTAGGTGGCGGAGGTGGAGGTGGTGGTCTCCTTGGTGACGGA-A
1 GGTCTCTTAGGTGACGGAGGTGGAGGTGGTGGTCTCCTTGGTGACGGAGA
*
57995643 -GTCTCTTTGGTGACGGAGGTGGAGGTGGTGGTCTCCTTGGTGACGGAGGTGGA
1 GGTCTCTTAGGTGACGGAGGTGGAGGTGGTGGTCTCCTTGGTGACGGA----GA
57995696 GGTGGTGGTCTCTTAGGTGACGGAGGTGGAGGTGGTGGTCTCCTTGGTGACGGAG
1 ------GGTCTCTTAGGTGACGGAGGTGGAGGTGGTGGTCTCCTTGGTGACGGAG
57995751 GTGGAGGTGG
Statistics
Matches: 92, Mismatches: 4, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
48 44 0.48
53 1 0.01
56 1 0.01
60 46 0.50
ACGTcount: A:0.11, C:0.14, G:0.48, T:0.27
Consensus pattern (50 bp):
GGTCTCTTAGGTGACGGAGGTGGAGGTGGTGGTCTCCTTGGTGACGGAGA
Found at i:57995677 original size:30 final size:30
Alignment explanation
Indices: 57995643--57996234 Score: 681
Period size: 30 Copynumber: 19.0 Consensus size: 30
57995633 GGTGACGGAA
*
57995643 GTCTCTTTGGTGACGGAGGTGGAGGTGGTG
1 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
57995673 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
1 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
57995703 GTCT-CTTAGGTGACGGAGGTGGAGGTGGTG
1 GTCTCCTT-GGTGACGGAGGTGGAGGTGGTG
57995733 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
1 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
*
57995763 GTGTCCTTGGTGACGGAGGTGGAGGTGGTG
1 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
*
57995793 GT-TCCCGTGGTGACGGAGGTGGAGGTGGTG
1 GTCT-CCTTGGTGACGGAGGTGGAGGTGGTG
* *
57995823 ATC-CGCTAGGTGACGGAGGTGGAGGTGGTG
1 GTCTC-CTTGGTGACGGAGGTGGAGGTGGTG
* *
57995853 GTGGTACCCTAGGTGACGGAGGTGGAGGTGGTG
1 GT-CT--CCTTGGTGACGGAGGTGGAGGTGGTG
* *
57995886 GTGATCCCTGTGGTGATGGAGGTGGAGGTGGAGGTG
1 GT-CT-CCT-TGGTGACGGAGGTGGAGGT---GGTG
* *
57995922 GTGGTTCCCGTGGTGACGGAGGTGGAGGTGGTG
1 GT--CT-CCTTGGTGACGGAGGTGGAGGTGGTG
* *
57995955 GTGATCCCTGTGGTGATGGAGGTGGAGGTGGTG
1 GT-CT-CCT-TGGTGACGGAGGTGGAGGTGGTG
*
57995988 GTGTCCTTGGTGACGGAGGTGGAGGTGGTG
1 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
*
57996018 GT-TCCCGTGGTGACGGAGGTGGAGGTGGTG
1 GTCT-CCTTGGTGACGGAGGTGGAGGTGGTG
* *
57996048 GTCCCCGTGGTGACGGAGGTGGAGGTGGTG
1 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
* *
57996078 ATC-CGCTAGGTGACGGAGGTGGAGGTGGTGGTG
1 GTCTC-CTTGGTGACGGAGGTGGA---GGTGGTG
*
57996111 GTCCCCTTGGTGACGGAGGTGGAGGTGGTG
1 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
* *
57996141 GTGATCCCTGTGGTGATGGAGGTGGAGGTGGTG
1 GT-CT-CCT-TGGTGACGGAGGTGGAGGTGGTG
*
57996174 GTGTCCTTGGTGACGGAGGTGGAGGTGGTG
1 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
* * *
57996204 GTCCCCTTGGTGATGGATGTGGAGGTGGTG
1 GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
57996234 G
1 G
57996235 AGGTCTTCTT
Statistics
Matches: 502, Mismatches: 35, Indels: 50
0.86 0.06 0.09
Matches are distributed among these distances:
29 7 0.01
30 315 0.63
31 9 0.02
32 14 0.03
33 126 0.25
34 2 0.00
36 24 0.05
37 5 0.01
ACGTcount: A:0.11, C:0.12, G:0.52, T:0.25
Consensus pattern (30 bp):
GTCTCCTTGGTGACGGAGGTGGAGGTGGTG
Found at i:57996033 original size:255 final size:252
Alignment explanation
Indices: 57995657--57996234 Score: 949
Period size: 255 Copynumber: 2.3 Consensus size: 252
57995647 CTTTGGTGAC
* *
57995657 GGAGGTGGAGGTGGTGGTCTCCTTGGTGACGGAGGTGGAGGTGGT-G-GTCTCTTAGGTGACGGA
1 GGAGGTGGAGGTGGTGGTC-CCTTGGTGACGGAGGTGGAGGTGGTGGTGTCCCTT-GGTGATGGA
*
57995720 GGTGGAGGTGGTGGTCTCCTTGGTGACGGAGGTGGAGGTGGTGGTGTCCTTGGTGACGGAGGTGG
64 GGTGGAGGTGGTGGTCTCCTTGGTGACGGAGGTGGAGGTGGTGGTGTCCGTGGTGACGGAGGTGG
*
57995785 AGGTGGTGGTTCCCGTGGTGACGGAGGTGGAGGTGGTGATCCGCTAGGTGACGGAGGTGGAGGTG
129 AGGTGGTGGTCCCCGTGGTGACGGAGGTGGAGGTGGTGATCCGCTAGGTGACGGAGGTGGAGGTG
57995850 GTGGTGGTACCCTAGGTGACGGAGGTGGAGGTGGTGGTGATCCCTGTGGTGATGGAGGT
194 GTGGTGGTACCCTAGGTGACGGAGGTGGAGGTGGTGGTGATCCCTGTGGTGATGGAGGT
*
57995909 GGAGGTGGAGGTGGTGGTTCCCGTGGTGACGGAGGTGGAGGTGGTGGTGATCCCTGTGGTGATGG
1 GGAGGTGGAGGTGGTGG-TCCCTTGGTGACGGAGGTGGAGGTGGTGGTG-TCCCT-TGGTGATGG
*
57995974 AGGTGGAGGTGGTGGTGTCCTTGGTGACGGAGGTGGAGGTGGTGGT-TCCCGTGGTGACGGAGGT
63 AGGTGGAGGTGGTGGTCTCCTTGGTGACGGAGGTGGAGGTGGTGGTGT-CCGTGGTGACGGAGGT
57996038 GGAGGTGGTGGTCCCCGTGGTGACGGAGGTGGAGGTGGTGATCCGCTAGGTGACGGAGGTGGAGG
127 GGAGGTGGTGGTCCCCGTGGTGACGGAGGTGGAGGTGGTGATCCGCTAGGTGACGGAGGTGGAGG
* *
57996103 TGGTGGTGGTCCCCTTGGTGACGGAGGTGGAGGTGGTGGTGATCCCTGTGGTGATGGAGGT
192 TGGTGGTGGTACCCTAGGTGACGGAGGTGGAGGTGGTGGTGATCCCTGTGGTGATGGAGGT
* *
57996164 GGAGGT---GGTGGT-GT-CCTTGGTGACGGAGGTGGAGGTGGTGGT-CCCCTTGGTGATGGATG
1 GGAGGTGGAGGTGGTGGTCCCTTGGTGACGGAGGTGGAGGTGGTGGTGTCCCTTGGTGATGGAGG
57996223 TGGAGGTGGTGG
66 TGGAGGTGGTGG
57996235 AGGTCTTCTT
Statistics
Matches: 309, Mismatches: 11, Indels: 18
0.91 0.03 0.05
Matches are distributed among these distances:
246 23 0.07
247 4 0.01
249 27 0.09
250 1 0.00
251 1 0.00
252 47 0.15
253 3 0.01
254 2 0.01
255 200 0.65
256 1 0.00
ACGTcount: A:0.12, C:0.12, G:0.52, T:0.25
Consensus pattern (252 bp):
GGAGGTGGAGGTGGTGGTCCCTTGGTGACGGAGGTGGAGGTGGTGGTGTCCCTTGGTGATGGAGG
TGGAGGTGGTGGTCTCCTTGGTGACGGAGGTGGAGGTGGTGGTGTCCGTGGTGACGGAGGTGGAG
GTGGTGGTCCCCGTGGTGACGGAGGTGGAGGTGGTGATCCGCTAGGTGACGGAGGTGGAGGTGGT
GGTGGTACCCTAGGTGACGGAGGTGGAGGTGGTGGTGATCCCTGTGGTGATGGAGGT
Found at i:57997194 original size:19 final size:18
Alignment explanation
Indices: 57997172--57997219 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
57997162 TGTTTCAATG
*
57997172 AAAATAGTTTTTGGAAAAT
1 AAAAT-GTTTTTGGAAAAA
57997191 AAAATGGTTTTTTGGAAAAA
1 AAAAT-G-TTTTTGGAAAAA
57997211 AAAATGTTT
1 AAAATGTTT
57997220 ATTTTTATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 3 0.12
19 7 0.27
20 16 0.62
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.38
Consensus pattern (18 bp):
AAAATGTTTTTGGAAAAA
Found at i:57997204 original size:20 final size:20
Alignment explanation
Indices: 57997179--57997216 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57997169 ATGAAAATAG
*
57997179 TTTTTGGAAAATAAAATGGT
1 TTTTTGGAAAAAAAAATGGT
57997199 TTTTTGGAAAAAAAAATG
1 TTTTTGGAAAAAAAAATG
57997217 TTTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (20 bp):
TTTTTGGAAAAAAAAATGGT
Found at i:58001314 original size:169 final size:169
Alignment explanation
Indices: 58001090--58001400 Score: 489
Period size: 169 Copynumber: 1.8 Consensus size: 169
58001080 TTTCTAGTCC
* * * * *
58001090 AGTCGATTTTGTTGTCTTTTGAATGCTTACCGGCTCTTCATATTTGAATAATATCGATTTGTGCT
1 AGTCGATATTGTTATCTTTTGAATGCTTACCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
*
58001155 CACGAAGCTGCGCTTAGATAAGTAGTAGCTTATTTTTAGTTGTAAATTCAGCTTTTGAATTACTA
66 CACGAAGCTGCGCTTAGAAAAGTAGTAGCTTATTTTTAGTTGTAAATTCAGCTTTTGAATTACTA
58001220 ATGTC-TACGTTTCCTTTTTTTTAATGATCCGTCACCGCA
131 ATG-CGTACGTTTCCTTTTTTTTAATGATCCGTCACCGCA
*
58001259 AGTCGATATTGTTATCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
1 AGTCGATATTGTTATCTTTTGAATGCTTACCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
* * * * * *
58001324 CACGAAGGTTCGCTTAGAAAATTTGTAGTTTATTTTTAGTTGTAAATTCAGCTTTTGAATTACTG
66 CACGAAGCTGCGCTTAGAAAAGTAGTAGCTTATTTTTAGTTGTAAATTCAGCTTTTGAATTACTA
58001389 ATGCGTACGTTT
131 ATGCGTACGTTT
58001401 TGATTTCTCT
Statistics
Matches: 128, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
168 1 0.01
169 127 0.99
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.42
Consensus pattern (169 bp):
AGTCGATATTGTTATCTTTTGAATGCTTACCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
CACGAAGCTGCGCTTAGAAAAGTAGTAGCTTATTTTTAGTTGTAAATTCAGCTTTTGAATTACTA
ATGCGTACGTTTCCTTTTTTTTAATGATCCGTCACCGCA
Found at i:58001557 original size:188 final size:193
Alignment explanation
Indices: 58001229--58001801 Score: 775
Period size: 188 Copynumber: 2.9 Consensus size: 193
58001219 AATGTCTACG
*
58001229 TTTCCTT-TTTTTTAATGATCCGTCACCGCAAGTCGATATTGTTATCTTTTGAATGCTTGCCGGC
1 TTTCCTTCTTTTTTAATGATCCGTCACCGCAAGTCGATATTGTTGTCTTTTGAATGCTTGCCGGC
* * *
58001293 TCTTCAGATTCGAACAATATCGATTTGTGCTCACGAAGGTTCGCTTAGAAAATTTGTAGTTTATT
66 TCTTCAGATTCGAACAATATCGATTTGTGCTCACGAAGCTGCGCTTAGAAAAGTTGTAGTTTA-T
* *
58001358 TTTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTTTGA-TT-TC-TC-TG-T-TTT
130 TTTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTCTAATTTCTCTTCTTGATATTT
* * *
58001416 TTTCCTTCCTTTTTAATGATCCGTCACCGCAAGTCGATATTGTCGTCTTTTGAATGCTTACCGGC
1 TTTCCTTCTTTTTTAATGATCCGTCACCGCAAGTCGATATTGTTGTCTTTTGAATGCTTGCCGGC
*
58001481 TCTTCAGATTCGAAGAATATCGATTTGTGCTCACGAAGCTGCGCTTAGAAATA-TTGTAGTTTAT
66 TCTTCAGATTCGAACAATATCGATTTGTGCTCACGAAGCTGCGCTTAGAAA-AGTTGTAGTTTAT
* * *
58001545 TTTAACTTGTAAATTCAGCTTTTGCATTACTGATGTGTACGTTCTAATTTCTCTATTCTTTTTTG
130 TTT-AGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTCTAATTTCTC--TTC----TTG
58001610 AAATATTT
188 --ATATTT
* *
58001618 TTTCTTTTTTCTTTTTTAATGATCCATCACCGCAAGTCGATATTGTTGTCTTTTGAATGCTTGCC
1 TTTC---CTTCTTTTTTAATGATCCGTCACCGCAAGTCGATATTGTTGTCTTTTGAATGCTTGCC
* * * *
58001683 GGCTCTTCAGATTCGAACAATACCGATTTGTGCTCACGAAACTGCGCCTCGAAAAGTTGTAGTTT
63 GGCTCTTCAGATTCGAACAATATCGATTTGTGCTCACGAAGCTGCGCTTAGAAAAGTTGTAGTTT
* *
58001748 ATTTTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTGTAATCTCTC
128 ATTTTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTCTAATTTCTC
58001802 AGTTTATTAT
Statistics
Matches: 338, Mismatches: 27, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
187 11 0.03
188 149 0.44
189 3 0.01
190 2 0.01
193 2 0.01
198 2 0.01
201 1 0.00
202 7 0.02
204 45 0.13
205 116 0.34
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (193 bp):
TTTCCTTCTTTTTTAATGATCCGTCACCGCAAGTCGATATTGTTGTCTTTTGAATGCTTGCCGGC
TCTTCAGATTCGAACAATATCGATTTGTGCTCACGAAGCTGCGCTTAGAAAAGTTGTAGTTTATT
TTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTCTAATTTCTCTTCTTGATATTT
Found at i:58006867 original size:4 final size:4
Alignment explanation
Indices: 58006850--58006885 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
58006840 TTCCTTAGTT
*
58006850 CATA CATA CGTA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
58006886 TATATACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:58008188 original size:14 final size:13
Alignment explanation
Indices: 58008169--58008199 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
58008159 TATTTAAGAT
58008169 AAATCCAAATTTCA
1 AAATCCAAATTT-A
58008183 AAATCCAAATTTA
1 AAATCCAAATTTA
58008196 AAAT
1 AAAT
58008200 TTAACACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATCCAAATTTA
Found at i:58015744 original size:14 final size:14
Alignment explanation
Indices: 58015704--58015745 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
58015694 AATTTTATGA
58015704 AATTTTTATATTAT
1 AATTTTTATATTAT
*
58015718 -ATATATTATATTAT
1 AAT-TTTTATATTAT
*
58015732 AATTTTTAAATTAT
1 AATTTTTATATTAT
58015746 TTATTAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTTTATATTAT
Found at i:58020521 original size:64 final size:64
Alignment explanation
Indices: 58020404--58020531 Score: 175
Period size: 64 Copynumber: 2.0 Consensus size: 64
58020394 TTAAGAACCT
* * * * * *
58020404 TATATCAGGACGCTCATAAAGAGCTGCGGTATGTCCGCAATATATGCAAGATCAATACCAATCA
1 TATAACAGGACGCTCACAAAGAGCTGCGATATGTCCGCAACACATACAAGATCAATACCAATCA
* * *
58020468 TATAACAGGACGCTCACAAAGAGCTGCGATATGTCCGCAACACGTACAGGATCAATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGCGATATGTCCGCAACACATACAAGATCAATACCAATCA
58020532 GGATGCTTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (64 bp):
TATAACAGGACGCTCACAAAGAGCTGCGATATGTCCGCAACACATACAAGATCAATACCAATCA
Found at i:58024672 original size:36 final size:36
Alignment explanation
Indices: 58024646--58025733 Score: 1272
Period size: 36 Copynumber: 30.2 Consensus size: 36
58024636 CCAATTCCCC
* * *
58024646 CACCTTCAATGAACCAACCTTTACCTCCACCTCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
*
58024682 CACCTCCAATGAACCAACCATT-ACCTCCACCTTTCT
1 CACCTCCAATGAACCAACC-TTCACCTCCACCTCTCT
* *
58024718 CACCTCCAACGAACCAACCTTCACCTCCACCTCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
58024754 CACCTCCAATGAACCAACCTTCACCTCCACC-CT-T
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
*
58024788 GCCACCTCCAATGAACCAACCTTCACCTCCACCTTTCT
1 --CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * * * *
58024826 CACCACCAATGAACGAACCATCACCTCCACCCCTAT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
*
58024862 CACCTCCAATGAACCAACCTTCACCTCCACCCCTGC-
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCT-CT
* * *
58024898 CGCCTCCAATGAACCAACCTTCATCTCCACCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * * *
58024934 CACCACCAATGAACGAACCATCACCTCCACCTCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
*
58024970 CACCTCCAATGAACCAACCTTCACCTCCACCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * * * *
58025006 CACCACCAATGAACGAACCATCACCTCCACCCCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * *
58025042 CACCTCCAATGAACCAACCTTCAGCTCCACCCCTAT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* *
58025078 CACCTCCAATGAATCAACCTTCACCTCCACCCCTGC-
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCT-CT
* * *
58025114 CACCTCCAATGAACCAGCCTTCATCTCCACCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * * *
58025150 CACCACCAATGAACGAACCATCACCTCCACCTCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
*
58025186 CACCTCCAATGAACCAACCTTCACCTCCACCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * * * *
58025222 CACCACCAATGAACGAACCATCACCTCCACCCCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * *
58025258 CACCTCCAATGAACCAACCTTCAGCTCCACCCCTAT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * *
58025294 CACCTCCAATGAATCAACCTTCATCTCCACCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * * *
58025330 CACCACCAATGAACGAACCATCACCTCCACCTCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
*
58025366 CACCTCCAATGAACCAACCTTCACCTCCACCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * * *
58025402 CACCACCAATGAACGAACCATCACCTCCACCTCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* **
58025438 CACCTCCAATGAACCAACCTTCACCTCCACCCCTAG
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* *
58025474 CACCTCCAATGAATCAACCTTCACCTCCACCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * * *
58025510 CACCACCAACGAACCAACCTTCACCTCCACCCCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* *
58025546 CACCTCCAATGAACCAACCTTTACCTCCACC-CTTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTC-TCT
* * *
58025582 CACCTCCAATAAACCAACCTTCACCTTCACCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * ** * *
58025618 CACCACCAACGAATGAACCATCACCTCCACCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * * *
58025654 TACCTCCAATGGACCAACCTTCACCTCCATCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
* * * * *
58025690 CACCACCAATGAACGAACCATCACCTTCACC-CTTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTC-TCT
58025726 CACCTCCA
1 CACCTCCA
58025734 CCTTCATCTC
Statistics
Matches: 891, Mismatches: 148, Indels: 26
0.84 0.14 0.02
Matches are distributed among these distances:
34 1 0.00
35 7 0.01
36 879 0.99
37 3 0.00
38 1 0.00
ACGTcount: A:0.27, C:0.46, G:0.05, T:0.21
Consensus pattern (36 bp):
CACCTCCAATGAACCAACCTTCACCTCCACCTCTCT
Found at i:58025792 original size:45 final size:45
Alignment explanation
Indices: 58025728--58025903 Score: 307
Period size: 45 Copynumber: 3.9 Consensus size: 45
58025718 ACCCTTGTCA
*
58025728 CCTCCACCTTCATCTCCATCACCAAGGAGGACACCACCACCACCG
1 CCTCCACCTTCAGCTCCATCACCAAGGAGGACACCACCACCACCG
* *
58025773 CCTCCACCTTCAACTCCATCACCAAGGAGGACACCACCACCGCCG
1 CCTCCACCTTCAGCTCCATCACCAAGGAGGACACCACCACCACCG
*
58025818 CCTCCACCTTCAGCTCCATCACCAAGGAGGACACCACCACCACCA
1 CCTCCACCTTCAGCTCCATCACCAAGGAGGACACCACCACCACCG
*
58025863 CCTCCACCTTCAGCTCCATTACCAAGGAGGACACCACCACC
1 CCTCCACCTTCAGCTCCATCACCAAGGAGGACACCACCACC
58025904 TCCACCACCA
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 125 1.00
ACGTcount: A:0.27, C:0.48, G:0.12, T:0.12
Consensus pattern (45 bp):
CCTCCACCTTCAGCTCCATCACCAAGGAGGACACCACCACCACCG
Found at i:58027060 original size:23 final size:23
Alignment explanation
Indices: 58027017--58027061 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
58027007 TTTTTTTAAC
* *
58027017 TTTGAATTCTTCTTAAGTTTTTT
1 TTTGAATACTTCTTAAATTTTTT
58027040 TTTGAATAC-TCTTATAATTTTT
1 TTTGAATACTTCTTA-AATTTTT
58027062 AAATTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (23 bp):
TTTGAATACTTCTTAAATTTTTT
Found at i:58027433 original size:3 final size:3
Alignment explanation
Indices: 58027427--58027451 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
58027417 TGTATATAAT
58027427 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
58027452 GCAAAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:58036455 original size:24 final size:24
Alignment explanation
Indices: 58036427--58036475 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
58036417 TAGGCTTTAG
58036427 AGAAATATTAAAAATACCGATCAA
1 AGAAATATTAAAAATACCGATCAA
58036451 AGAAATATTAAAAATACCGATCAA
1 AGAAATATTAAAAATACCGATCAA
58036475 A
1 A
58036476 TTTTGCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.08, T:0.20
Consensus pattern (24 bp):
AGAAATATTAAAAATACCGATCAA
Found at i:58037489 original size:105 final size:105
Alignment explanation
Indices: 58037307--58037517 Score: 413
Period size: 105 Copynumber: 2.0 Consensus size: 105
58037297 TCTAACTCTT
*
58037307 CAGGAGTCCATGGATGTTTCTCGTCCCTCTCTAAAAGAACATGAGCTCGATGGTATACGCTCCCA
1 CAGGAGTCCATGGATGTTTCTCATCCCTCTCTAAAAGAACATGAGCTCGATGGTATACGCTCCCA
58037372 ACTGGCCTCCAAGGAATGCTGCTTGAATTTCCTTCCAACA
66 ACTGGCCTCCAAGGAATGCTGCTTGAATTTCCTTCCAACA
58037412 CAGGAGTCCATGGATGTTTCTCATCCCTCTCTAAAAGAACATGAGCTCGATGGTATACGCTCCCA
1 CAGGAGTCCATGGATGTTTCTCATCCCTCTCTAAAAGAACATGAGCTCGATGGTATACGCTCCCA
58037477 ACTGGCCTCCAAGGAATGCTGCTTGAATTTCCTTCCAACA
66 ACTGGCCTCCAAGGAATGCTGCTTGAATTTCCTTCCAACA
58037517 C
1 C
58037518 TTTCTCACTT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (105 bp):
CAGGAGTCCATGGATGTTTCTCATCCCTCTCTAAAAGAACATGAGCTCGATGGTATACGCTCCCA
ACTGGCCTCCAAGGAATGCTGCTTGAATTTCCTTCCAACA
Found at i:58042055 original size:231 final size:230
Alignment explanation
Indices: 58041434--58042122 Score: 825
Period size: 231 Copynumber: 3.0 Consensus size: 230
58041424 GGCTCTTGCA
* * * * *
58041434 TTTTACTATGTACAAAGGTTTCAGTCACAGTAGCAACTGCATCAAT-TCCGTCCTTATTCTTCCT
1 TTTTACTATGTTCAAGGGTTTCAGTCACAGTAGCAACTGCAT-TATCT-CATCCTTGTTC-T--T
* * * * *
58041498 CTTGTGTTTATCTTCCCTAA-CCTTTTCTGCTTCCCCATTGTTCCCCAAATTCACCACCTTACTA
61 CTTGTGTTTATCTTTCCTAACCCTTTT-TGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTA
* *
58041562 CTTTCTTTTTCTGCATTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACATC
125 CTTTCTTGTTCTGCGTTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACATC
58041627 TTTACTTTTCTTATGC---------GCCTT-TGGAGATTCCT
190 TTTACTTTTCTTATGCTTTTTATGAGCCTTCT-GAGATTCCT
* * * *
58041659 TTTTACTATGTTCAAGGGTTCCGGTCACAGTACCAACTGCATTAGTCCCATCCTTG-TC--CTTG
1 TTTTACTATGTTCAAGGGTTTCAGTCACAGTAGCAACTGCATTA-TCTCATCCTTGTTCTTCTTG
** *
58041721 TGTTTATCTTTCCCGACCCTTTTTGCTTCCCCGTTGTTCTCCAAGTTCATCACCTTGCTACTTTC
65 TGTTTATCTTTCCTAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTACTTTC
* * ** * *
58041786 TTGTTCTGTGTTCTTTTTTCCACCTTTACAACTTTCCATTGAAATCTCTTTAACCT-CATCTTTA
130 TTGTTCTGCGTTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAA-CTACATCTTTA
*
58041850 CTTTTCTTATGCTTTTTATGAGCCTTCTTAGATTCCT
194 CTTTTCTTATGCTTTTTATGAGCCTTCTGAGATTCCT
** * *
58041887 TTTTACTATGTTTGAGGGTTTCAGTCACAGTAGCAACTGCATTGATCTCATCCCTGTTCTTCTTA
1 TTTTACTATGTTCAAGGGTTTCAGTCACAGTAGCAACTGCATT-ATCTCATCCTTGTTCTTCTTG
* * *
58041952 TGTTTGTCTTTCTTAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCGCCTTGCTACTTTC
65 TGTTTATCTTTCCTAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTACTTTC
* * *
58042017 TTGTTCTGCGTTCTCTTTTCCACCCAAACAAGTTTCCATTGGAATCTCTTCAACTGCATCTTTAC
130 TTGTTCTGCGTTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACATCTTTAC
* **
58042082 TTGTCTTATGCTTTTTATGAGTGTTCTGAGATTCCT
195 TTTTCTTATGCTTTTTATGAGCCTTCTGAGATTCCT
58042118 TTTTA
1 TTTTA
58042123 TCTGTATCAA
Statistics
Matches: 393, Mismatches: 52, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
219 119 0.30
220 8 0.02
224 3 0.01
225 44 0.11
228 60 0.15
229 4 0.01
230 2 0.01
231 153 0.39
ACGTcount: A:0.18, C:0.27, G:0.11, T:0.44
Consensus pattern (230 bp):
TTTTACTATGTTCAAGGGTTTCAGTCACAGTAGCAACTGCATTATCTCATCCTTGTTCTTCTTGT
GTTTATCTTTCCTAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTACTTTCT
TGTTCTGCGTTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACATCTTTACT
TTTCTTATGCTTTTTATGAGCCTTCTGAGATTCCT
Found at i:58067768 original size:6 final size:6
Alignment explanation
Indices: 58067759--58067798 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
58067749 TATTTTCCAC
58067759 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAAT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAAT
58067799 ATTTATACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
AAATTT
Found at i:58067817 original size:22 final size:22
Alignment explanation
Indices: 58067792--58067838 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
58067782 TAAATTTAAA
58067792 TTTAAATATTTA-TACT-TTTATT
1 TTTAAA-ATTTAGT-CTCTTTATT
*
58067814 TTTAGAATTTAGTCTCTTTATT
1 TTTAAAATTTAGTCTCTTTATT
58067836 TTT
1 TTT
58067839 CTGATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTAAAATTTAGTCTCTTTATT
Found at i:58068223 original size:60 final size:60
Alignment explanation
Indices: 58068152--58068282 Score: 199
Period size: 60 Copynumber: 2.2 Consensus size: 60
58068142 ACTAGTAGTT
* *
58068152 ATCCAATTATTAGTAAATTTCTTTTTTAGTCACTCAATTATGAAAAGTTACAAAATGGTC
1 ATCCAATTATTAGTAAATTTCTTTTTTAGTCACCCAACTATGAAAAGTTACAAAATGGTC
* * * * *
58068212 ATCCAACTATTAGTAAATTTCTTTTTTGGTCACCCACCTATGAAAATTTACAAAGTGGTC
1 ATCCAATTATTAGTAAATTTCTTTTTTAGTCACCCAACTATGAAAAGTTACAAAATGGTC
58068272 ATCCAATTATT
1 ATCCAATTATT
58068283 CAACTTTAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (60 bp):
ATCCAATTATTAGTAAATTTCTTTTTTAGTCACCCAACTATGAAAAGTTACAAAATGGTC
Found at i:58072408 original size:2 final size:2
Alignment explanation
Indices: 58072401--58072438 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
58072391 GCAACTCAGG
*
58072401 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
58072439 ACACACATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:58074743 original size:125 final size:125
Alignment explanation
Indices: 58074595--58074834 Score: 374
Period size: 125 Copynumber: 1.9 Consensus size: 125
58074585 TAATTGAGCT
* * *
58074595 CGAGCTTGAGTAGCTCAATTATATCTTGAACCAAGCTCAAGTTTATAATTAAATGTTCG-ATCAA
1 CGAGCTTGAGTAGCTCAATTATATCTTGAACCAAACTCAAATTTAAAATTAAATGTT-GAATCAA
* * * *
58074659 GCTCAAGCCAAGTATCTTTTGCAAATTTTAACTTGAGTTCGAGTTCGAGCTTGAATATATA
65 GCTCAAGCCAAGTATCTTTTGCAAATTTCAAATCGAGTTCGAGTTCAAGCTTGAATATATA
* *
58074720 CGAGCTTGAGTAGCTCAATTATATTTTGAACTAAACTCAAATTTAAAATTAAATGTTGAATCAAG
1 CGAGCTTGAGTAGCTCAATTATATCTTGAACCAAACTCAAATTTAAAATTAAATGTTGAATCAAG
*
58074785 CTCAAGCCAAGTATCTTTTGCAAATTTCAAATCGAGTTCGGGTTCAAGCT
66 CTCAAGCCAAGTATCTTTTGCAAATTTCAAATCGAGTTCGAGTTCAAGCT
58074835 CGAACTTAGC
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
124 1 0.01
125 103 0.99
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (125 bp):
CGAGCTTGAGTAGCTCAATTATATCTTGAACCAAACTCAAATTTAAAATTAAATGTTGAATCAAG
CTCAAGCCAAGTATCTTTTGCAAATTTCAAATCGAGTTCGAGTTCAAGCTTGAATATATA
Found at i:58116169 original size:5 final size:5
Alignment explanation
Indices: 58116161--58116185 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
58116151 TTCTATTAAC
58116161 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
58116186 TTAATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:58120601 original size:71 final size:71
Alignment explanation
Indices: 58120509--58120644 Score: 175
Period size: 71 Copynumber: 1.9 Consensus size: 71
58120499 CTCCTAACTC
* * *
58120509 TTTTTGGTTTAACTATTTCTTAGGTCACTGCCAAATTCAAATTAGACAATTTGAGCATTGCCCCC
1 TTTTTGGTTTAACTATCTCTTAGGTCACTACCAAATTCAAATTAGACAAATTGAGCATTGCCCCC
58120574 CTAGCT
66 CTAGCT
* * ** **
58120580 TTTTTGGTTTAAGC-GTCTCTTAGGTCCCTATTAAATTTGAATTAGACAAATTGAGCATTGCCCC
1 TTTTTGGTTTAA-CTATCTCTTAGGTCACTACCAAATTCAAATTAGACAAATTGAGCATTGCCCC
58120644 C
65 C
58120645 ATTTCCTTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 54 0.98
72 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (71 bp):
TTTTTGGTTTAACTATCTCTTAGGTCACTACCAAATTCAAATTAGACAAATTGAGCATTGCCCCC
CTAGCT
Found at i:58121158 original size:30 final size:31
Alignment explanation
Indices: 58121124--58121223 Score: 107
Period size: 30 Copynumber: 3.2 Consensus size: 31
58121114 ATTTTTACAG
* *
58121124 ATCTTTTAAAAATATCTA-AATATATTATAT
1 ATCTTTTACAAATATTTAGAATATATTATAT
*
58121154 ATCTTTTAGGCATATATTTAAGAATATATTATAT
1 ATCTTTTA--CAAATATTT-AGAATATATTATAT
*
58121188 AT-TTTT-CAGATATTTAGGAATATATTATAT
1 ATCTTTTACAAATATTTA-GAATATATTATAT
58121218 ATCTTT
1 ATCTTT
58121224 CTTATTTCTG
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
29 1 0.02
30 31 0.52
31 3 0.05
32 6 0.10
33 5 0.08
34 14 0.23
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (31 bp):
ATCTTTTACAAATATTTAGAATATATTATAT
Found at i:58130626 original size:125 final size:125
Alignment explanation
Indices: 58130454--58130699 Score: 483
Period size: 125 Copynumber: 2.0 Consensus size: 125
58130444 CTTATGGAAT
*
58130454 ATAAGTTTAAAAACCATGGTTAGTCAAAATCTAATCGAATTCTAACTCTTATTTAATATATAATT
1 ATAAGCTTAAAAACCATGGTTAGTCAAAATCTAATCGAATTCTAACTCTTATTTAATATATAATT
58130519 AATTTTAATTTATTGAAAAATTCTTAAGACTTATAATTATTTTTAGAAATACTTATTTCC
66 AATTTTAATTTATTGAAAAATTCTTAAGACTTATAATTATTTTTAGAAATACTTATTTCC
58130579 ATAAGCTTAAAAACCATGGTTAGTCAAAATCTAATCGAATTCTAACTCTTATTTAATATATAATT
1 ATAAGCTTAAAAACCATGGTTAGTCAAAATCTAATCGAATTCTAACTCTTATTTAATATATAATT
58130644 AATTTTAATTTATTGAAAAATTCTTAAGACTTATAATTATTTTTAGAAATACTTAT
66 AATTTTAATTTATTGAAAAATTCTTAAGACTTATAATTATTTTTAGAAATACTTAT
58130700 GAAAAAAGAC
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 120 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.43
Consensus pattern (125 bp):
ATAAGCTTAAAAACCATGGTTAGTCAAAATCTAATCGAATTCTAACTCTTATTTAATATATAATT
AATTTTAATTTATTGAAAAATTCTTAAGACTTATAATTATTTTTAGAAATACTTATTTCC
Found at i:58135135 original size:3 final size:3
Alignment explanation
Indices: 58135127--58135169 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
58135117 AAAGCAACTA
58135127 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
58135170 TCCCACTTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:58149959 original size:7 final size:7
Alignment explanation
Indices: 58149949--58149977 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
58149939 ATTTTAGTTA
58149949 AGAATAT
1 AGAATAT
58149956 AGAATAT
1 AGAATAT
58149963 AGAATAT
1 AGAATAT
58149970 AGAATAT
1 AGAATAT
58149977 A
1 A
58149978 TGATCGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (7 bp):
AGAATAT
Found at i:58150255 original size:14 final size:14
Alignment explanation
Indices: 58150238--58150266 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
58150228 AAATAATAAC
58150238 AAAAAATTT-AAAT
1 AAAAAATTTCAAAT
58150251 AAAAAATTTCAAAT
1 AAAAAATTTCAAAT
58150265 AA
1 AA
58150267 TATATTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAATTTCAAAT
Found at i:58156377 original size:40 final size:40
Alignment explanation
Indices: 58156321--58156401 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
58156311 AAGCCTTTCC
*
58156321 TGGCAAGATTGGTAGTTTTTTTATATGGATTCTTGTTTGA
1 TGGCAAGATTGATAGTTTTTTTATATGGATTCTTGTTTGA
58156361 TGGCAAGATTGATAGTTTTTTTATATGGATTCTTGTTTGA
1 TGGCAAGATTGATAGTTTTTTTATATGGATTCTTGTTTGA
58156401 T
1 T
58156402 AGCAGTGGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.21, C:0.05, G:0.23, T:0.51
Consensus pattern (40 bp):
TGGCAAGATTGATAGTTTTTTTATATGGATTCTTGTTTGA
Found at i:58157034 original size:32 final size:32
Alignment explanation
Indices: 58156970--58157034 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
58156960 TCGAACTATT
*
58156970 TTTATTTTTATTTATAATATATATAAAAAAAA
1 TTTATTTTTATCTATAATATATATAAAAAAAA
*
58157002 TTTATTTTTATACTATACATA-AT-TAAATAAAA
1 TTTATTTTTAT-CTATA-ATATATATAAAAAAAA
58157034 T
1 T
58157035 AAAAATGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 20 0.69
33 6 0.21
34 3 0.10
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TTTATTTTTATCTATAATATATATAAAAAAAA
Found at i:58167167 original size:30 final size:30
Alignment explanation
Indices: 58167133--58167192 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
58167123 GCCAAGTTGC
*
58167133 CTGGTAGACCAATTCTTTTGCATCAGTAGA
1 CTGGTAGACCAATTCTTTTGCATCAATAGA
58167163 CTGGTAGACCAATTCTTTTGCATCAATAGA
1 CTGGTAGACCAATTCTTTTGCATCAATAGA
58167193 TGAGTAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (30 bp):
CTGGTAGACCAATTCTTTTGCATCAATAGA
Found at i:58170402 original size:21 final size:21
Alignment explanation
Indices: 58170371--58170416 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
58170361 TGACTATTAA
58170371 AAAATTTAATAAATAAAAAAAT
1 AAAATTTAAT-AATAAAAAAAT
**
58170393 AAAA-TTAATAATATTAAAAT
1 AAAATTTAATAATAAAAAAAT
58170413 AAAA
1 AAAA
58170417 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 5 0.23
22 4 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATTTAATAATAAAAAAAT
Found at i:58170417 original size:21 final size:20
Alignment explanation
Indices: 58170369--58170418 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
58170359 CATGACTATT
*
58170369 AAAAAATTTAATAAATAAAA
1 AAAAAAATTAATAAATAAAA
*
58170389 AAATAAAATTAATAATATTAAA
1 AAA-AAAATTAATAA-ATAAAA
*
58170411 ATAAAAAT
1 AAAAAAAT
58170419 ATTTTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 15 0.60
22 7 0.28
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAATTAATAAATAAAA
Found at i:58176270 original size:22 final size:22
Alignment explanation
Indices: 58176230--58176313 Score: 114
Period size: 22 Copynumber: 3.8 Consensus size: 22
58176220 AACAGTACGT
** *
58176230 GCTTAGTACGTTAGCCATGAGG
1 GCTTAGTACGTTAAACATGAGA
* *
58176252 GTTTAGTTCGTTAAACATGAGA
1 GCTTAGTACGTTAAACATGAGA
58176274 GCTTAGTACGTTAAACATGAGA
1 GCTTAGTACGTTAAACATGAGA
*
58176296 GCTTAGTACGTGAAACAT
1 GCTTAGTACGTTAAACAT
58176314 TCATCTAAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (22 bp):
GCTTAGTACGTTAAACATGAGA
Found at i:58191985 original size:5 final size:5
Alignment explanation
Indices: 58191975--58192013 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
58191965 TCCTAAGATG
* *
58191975 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
58192014 GCTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:58192609 original size:24 final size:24
Alignment explanation
Indices: 58192560--58192643 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
58192550 GCTATTCGGG
* * *
58192560 GCTTCCCATTAATGGCTC-TTTGGA
1 GCTTCCCGTTATTGGCTCGTAT-GA
*
58192584 GCTACCCGTTATTGGCTCGTATGA
1 GCTTCCCGTTATTGGCTCGTATGA
** *
58192608 GCTTCTTGATTA-TGGCTCTTATGA
1 GCTTCCCG-TTATTGGCTCGTATGA
58192632 GCTTCCCGTTAT
1 GCTTCCCGTTAT
58192644 ACAGCCCGGA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
23 3 0.06
24 39 0.83
25 5 0.11
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.39
Consensus pattern (24 bp):
GCTTCCCGTTATTGGCTCGTATGA
Found at i:58192885 original size:15 final size:15
Alignment explanation
Indices: 58192865--58192896 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
58192855 GATATGAATT
58192865 ATTATAGAAATGTAC
1 ATTATAGAAATGTAC
58192880 ATTATAGAAATGTAC
1 ATTATAGAAATGTAC
58192895 AT
1 AT
58192897 GTTATATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (15 bp):
ATTATAGAAATGTAC
Found at i:58193352 original size:2 final size:2
Alignment explanation
Indices: 58193345--58193388 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
58193335 TCATGTTTTG
58193345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58193387 AT
1 AT
58193389 GGTAATATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58195536 original size:38 final size:38
Alignment explanation
Indices: 58195485--58195561 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
58195475 CTAATTGAAG
*
58195485 AATAAATGACAGAGTCTTTGAGGGAGGGGATTTGGTAT
1 AATAAATGACAGAGTCTTTGAGGGAGGGAATTTGGTAT
58195523 AATAAATGACAGAGTCTTTGAGGGAGGGAATTTGGTAT
1 AATAAATGACAGAGTCTTTGAGGGAGGGAATTTGGTAT
58195561 A
1 A
58195562 TCTCAAACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.05, G:0.32, T:0.29
Consensus pattern (38 bp):
AATAAATGACAGAGTCTTTGAGGGAGGGAATTTGGTAT
Found at i:58206233 original size:15 final size:15
Alignment explanation
Indices: 58206213--58206243 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58206203 GGTACTGCAC
*
58206213 ACTATTATTATTATT
1 ACTATTACTATTATT
58206228 ACTATTACTATTATT
1 ACTATTACTATTATT
58206243 A
1 A
58206244 TTATCATCAT
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:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (15 bp):
ACTATTACTATTATT
Found at i:58226450 original size:20 final size:20
Alignment explanation
Indices: 58226425--58226463 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58226415 ATAAATTAAT
*
58226425 ATAAATGTTTTAATCATTAG
1 ATAAATGTTTTAATAATTAG
*
58226445 ATAAATTTTTTAATAATTA
1 ATAAATGTTTTAATAATTA
58226464 AATCGTCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (20 bp):
ATAAATGTTTTAATAATTAG
Found at i:58226854 original size:19 final size:18
Alignment explanation
Indices: 58226801--58226854 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
58226791 AATAGAAGTT
*
58226801 TTAAAAATTATTTAACAA
1 TTAAAAATTATTTAATAA
* *
58226819 TTACAAAATTAATTAATGA
1 TTA-AAAATTATTTAATAA
58226838 TTAAAAATTATTATAAT
1 TTAAAAATTATT-TAAT
58226855 TATATTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (18 bp):
TTAAAAATTATTTAATAA
Found at i:58229831 original size:584 final size:583
Alignment explanation
Indices: 58228850--58229981 Score: 1969
Period size: 584 Copynumber: 1.9 Consensus size: 583
58228840 AATATTTCTG
58228850 TTACGTACAACAATTATCTAACTGAAATTAACAAAAAGTAATTTATTAATAGTAATTTAAAATTT
1 TTACGTACAACAATTATCTAACTGAAATTAACAAAAAGTAATTTATTAATAGTAATTTAAAATTT
* *
58228915 AACTAGACTTAATAAATTGAATAACTAAAATGAATAAGCTATAAAAAAAAGAATTAGTATTTTAT
66 AACTAGACTTAATAAATTAAATAACTAAAATGAATAAGCTATAAAAAAAAGAATTAATATTTTAT
* * *
58228980 TTTTATAATTTTATTTCGTAAATTGAATTACCATTATTTAAGTCTCACACATATAGTGGTGGAGC
131 TTGTATAATTTTATTTCGTAAATTGAATTACCATTATTTAAGTCACACACATATAGCGGTGGAGC
* *
58229045 CTATAATTTTTTTTAGGGACGAAATTAAATTATATATCTTTACGATAGTAAAAATATAATTTATT
196 CTATAAATTTTTTTAGGGACGAAATTAAATTATATATCTTTACGACAGTAAAAATATAATTTATT
58229110 ATTTTAATAGCCTATATCTATATAATTTTAAAATAGTTAAATTAAATTTTATTATTTTTAAAAGA
261 ATTTTAATAGCCTATATCTATATAATTTTAAAATAGTTAAATTAAATTTTATTATTTTTAAAAGA
* * *
58229175 TCAAACTACAATTTTACCGTTACTAATCTAAACTTTTATAAATTATAAAAAATTTAAATTTAAAA
326 TCAAAATACAATTTTACCATTACTAATCTAAAATTTTATAAATTATAAAAAATTTAAATTTAAAA
* *
58229240 TTTACTATTTTAAGTGACAGCATAGCACCTGGGTGGAAAGTTAAGTGTCTAACTCTAAGCATTAA
391 TTTACTATTTTAAGTGACAGCATAGCACCTGGGTGGAAAGTTAAGTGCCTAACTCTAAGCATAAA
* * *
58229305 ATGAAATTAAGATGTAATGTAAAATTAAAAATGGTAGGTTTCGTATTTATTACGAGGACCAGGAG
456 ATGAAATTAAGATGTAAGGTAAAATTAAAAAGGGTAGGTTTCGTATTTATTACGAGGA-CAGAAG
58229370 ATAGCGGTGGTAGATATATCATCTCATAAAAGCAGTGTCGTTTAACTTACAAAATATTATTTAT
520 ATAGCGGTGGTAGATATATCATCTCATAAAAGCAGTGTCGTTTAACTTACAAAATATTATTTAT
** *
58229434 TTACGTACGCCAATTATCTAACTGAAATTAACAAAAAGTAATTTATTAATAGTATTTTAAAATTT
1 TTACGTACAACAATTATCTAACTGAAATTAACAAAAAGTAATTTATTAATAGTAATTTAAAATTT
*
58229499 AACTAGACTTAATAAATTAAATAACTGAAATGAATAAGCTAT-AAAAAAAGAATTAATATTTTAT
66 AACTAGACTTAATAAATTAAATAACTAAAATGAATAAGCTATAAAAAAAAGAATTAATATTTTAT
*
58229563 TTGTATAATTTTATTTCGTAAATTGAATTACTATTATTTAAGTCACACACATATAGCGGTGGAGC
131 TTGTATAATTTTATTTCGTAAATTGAATTACCATTATTTAAGTCACACACATATAGCGGTGGAGC
* * *
58229628 CTATAAATTTTTTTGGGGACGAAATTAAATTATATATCTTTATGACAGTAAAGATATAATTTTAT
196 CTATAAATTTTTTTAGGGACGAAATTAAATTATATATCTTTACGACAGTAAAAATATAA-TTTAT
*
58229693 TATTTTAATAGCTTATATCTATATAATTTTAAAATAGTTAAATTAAATTTTATTATTTTTAAAAG
260 TATTTTAATAGCCTATATCTATATAATTTTAAAATAGTTAAATTAAATTTTATTATTTTTAAAAG
*
58229758 ATCAAAATACAATTTTACCATTACTAATTTAAAATTTTATAAATTATAAAAAATTTAAATTTAAA
325 ATCAAAATACAATTTTACCATTACTAATCTAAAATTTTATAAATTATAAAAAATTTAAATTTAAA
* * *
58229823 TTTTACTATTTTAAGTGACAGCATGGCACCTGGGTGGAAAGTTAAGTGCCTAGCTCTAAGCATAA
390 ATTTACTATTTTAAGTGACAGCATAGCACCTGGGTGGAAAGTTAAGTGCCTAACTCTAAGCATAA
* *
58229888 AATGAAATTAAGATGTAAGGTAAAATTAAGAAGGGTAGGTTTCGTATTTATTATGAGGACAGAAG
455 AATGAAATTAAGATGTAAGGTAAAATTAAAAAGGGTAGGTTTCGTATTTATTACGAGGACAGAAG
58229953 ATAGCGGTGGTAGATATATCATCTCATAA
520 ATAGCGGTGGTAGATATATCATCTCATAA
58229982 CTTACAAAAT
Statistics
Matches: 517, Mismatches: 30, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
583 170 0.33
584 347 0.67
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (583 bp):
TTACGTACAACAATTATCTAACTGAAATTAACAAAAAGTAATTTATTAATAGTAATTTAAAATTT
AACTAGACTTAATAAATTAAATAACTAAAATGAATAAGCTATAAAAAAAAGAATTAATATTTTAT
TTGTATAATTTTATTTCGTAAATTGAATTACCATTATTTAAGTCACACACATATAGCGGTGGAGC
CTATAAATTTTTTTAGGGACGAAATTAAATTATATATCTTTACGACAGTAAAAATATAATTTATT
ATTTTAATAGCCTATATCTATATAATTTTAAAATAGTTAAATTAAATTTTATTATTTTTAAAAGA
TCAAAATACAATTTTACCATTACTAATCTAAAATTTTATAAATTATAAAAAATTTAAATTTAAAA
TTTACTATTTTAAGTGACAGCATAGCACCTGGGTGGAAAGTTAAGTGCCTAACTCTAAGCATAAA
ATGAAATTAAGATGTAAGGTAAAATTAAAAAGGGTAGGTTTCGTATTTATTACGAGGACAGAAGA
TAGCGGTGGTAGATATATCATCTCATAAAAGCAGTGTCGTTTAACTTACAAAATATTATTTAT
Found at i:58230631 original size:33 final size:34
Alignment explanation
Indices: 58230564--58230631 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
58230554 AATAAAATTT
* *
58230564 AAATATTTTTAACTTATATTAATAATAAATAATA
1 AAATATATTTAAATTATATTAATAATAAATAATA
* *
58230598 AAATATATTTAAATTAT-TTTATATTAAATAATA
1 AAATATATTTAAATTATATTAATAATAAATAATA
58230631 A
1 A
58230632 TTAAACTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 15 0.50
34 15 0.50
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (34 bp):
AAATATATTTAAATTATATTAATAATAAATAATA
Found at i:58232306 original size:34 final size:33
Alignment explanation
Indices: 58232267--58232330 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
58232257 AATAAAATTT
* *
58232267 AAATATTTTTAACTTATATTAATAATAAATAATA
1 AAATATATTTAAATTAT-TTAATAATAAATAATA
* *
58232301 AAATATATTTAAATTATTTTATATTAAATA
1 AAATATATTTAAATTATTTAATAATAAATA
58232331 GTAATTAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 11 0.42
34 15 0.58
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (33 bp):
AAATATATTTAAATTATTTAATAATAAATAATA
Found at i:58234019 original size:33 final size:34
Alignment explanation
Indices: 58233952--58234019 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
58233942 AATAAAATTT
* *
58233952 AAATATTTTTAACTTATATTAATAATAAATAATA
1 AAATATATTTAAATTATATTAATAATAAATAATA
* *
58233986 AAATATATTTAAATTAT-TTTATATTAAATAATA
1 AAATATATTTAAATTATATTAATAATAAATAATA
58234019 A
1 A
58234020 TTAAACTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 15 0.50
34 15 0.50
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (34 bp):
AAATATATTTAAATTATATTAATAATAAATAATA
Found at i:58234847 original size:30 final size:30
Alignment explanation
Indices: 58234791--58234848 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
58234781 TATATCTATA
* * *
58234791 TATTTTTAAAATAGTTAAATTAAATTTTAT
1 TATTTTTAAAAGAGTCAAAATAAATTTTAT
58234821 TATTTTTAAAAGA-TCAAAATACAATTTT
1 TATTTTTAAAAGAGTCAAAATA-AATTTT
58234849 TCTATTACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (30 bp):
TATTTTTAAAAGAGTCAAAATAAATTTTAT
Found at i:58241268 original size:27 final size:27
Alignment explanation
Indices: 58241237--58241293 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
58241227 CATATATTGT
58241237 TGGCATTAGCGGTAAGAATATTCAAAC
1 TGGCATTAGCGGTAAGAATATTCAAAC
*
58241264 TGGCATTATCGGTAAGAATATTCAAAC
1 TGGCATTAGCGGTAAGAATATTCAAAC
58241291 TGG
1 TGG
58241294 AATATATCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (27 bp):
TGGCATTAGCGGTAAGAATATTCAAAC
Found at i:58244793 original size:2 final size:2
Alignment explanation
Indices: 58244788--58244812 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58244778 TGTAAAATGC
58244788 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
58244813 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58249004 original size:26 final size:26
Alignment explanation
Indices: 58248974--58249025 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
58248964 GCTTAGTAAG
* *
58248974 TTCGTATAATGGGAAGTTAACTTACT
1 TTCGTATAACGGGAAATTAACTTACT
58249000 TTCGTATAACGGGAAATTAACTTACT
1 TTCGTATAACGGGAAATTAACTTACT
58249026 ATTCATTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (26 bp):
TTCGTATAACGGGAAATTAACTTACT
Found at i:58249456 original size:25 final size:25
Alignment explanation
Indices: 58249383--58249456 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
58249373 CTAATGCAAA
* *
58249383 CATGTAAGCGAGAAGCTCTTTCGAGC
1 CATGTAA-CGGGAAGCTCATTCGAGC
*
58249409 CA--TAACGGGAAGCTTATGT-GAGC
1 CATGTAACGGGAAGCTCAT-TCGAGC
58249432 CATGTAACGGGAAGCTCATTCGAGC
1 CATGTAACGGGAAGCTCATTCGAGC
58249457 TGTATAACGG
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
23 15 0.38
24 5 0.12
25 18 0.45
26 2 0.05
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (25 bp):
CATGTAACGGGAAGCTCATTCGAGC
Found at i:58249464 original size:25 final size:23
Alignment explanation
Indices: 58249394--58249469 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 23
58249384 ATGTAAGCGA
* *
58249394 GAAGCTCTTTCGAGCCATAACGG
1 GAAGCTCATTCGAGCTATAACGG
* *
58249417 GAAGCTTATGT-GAGCCATGTAACGG
1 GAAGCTCAT-TCGAG-C-TATAACGG
58249442 GAAGCTCATTCGAGCTGTATAACGG
1 GAAGCTCATTCGAGC--TATAACGG
58249467 GAA
1 GAA
58249470 TTTCAAGCGA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
23 10 0.24
24 4 0.10
25 27 0.66
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (23 bp):
GAAGCTCATTCGAGCTATAACGG
Found at i:58249538 original size:27 final size:25
Alignment explanation
Indices: 58249503--58249560 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
58249493 AGTTTTGGAA
*
58249503 AGCCATTAATCAATAAGCTCATGAAAG
1 AGCCATTAATCAAGAAGCTC-T-AAAG
* *
58249530 AGCCTTTAATCAGGAAGCTCTAAAG
1 AGCCATTAATCAAGAAGCTCTAAAG
58249555 AGCCAT
1 AGCCAT
58249561 ATATTGGGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 9 0.33
26 1 0.04
27 17 0.63
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (25 bp):
AGCCATTAATCAAGAAGCTCTAAAG
Done.