Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 307 of 345
Found at i:92443220 original size:12 final size:11
Alignment explanation
Indices: 92443187--92443233 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 11
92443177 ATAAATTGTA
92443187 TATATATTATTTT
1 TATATATTA--TT
92443200 TATATATTATT
1 TATATATTATT
92443211 TATCATATTATT
1 TAT-ATATTATT
92443223 TATATTATTAT
1 TATA-TATTAT
92443234 ACATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.19
12 17 0.53
13 9 0.28
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATATTATT
Found at i:92443228 original size:21 final size:21
Alignment explanation
Indices: 92443202--92443247 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
92443192 ATTATTTTTA
92443202 TATATTATT-TATCATATTATT
1 TATATTATTATA-CATATTATT
*
92443223 TATATTATTATACATTTTATT
1 TATATTATTATACATATTATT
92443244 TATA
1 TATA
92443248 AATTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATTATACATATTATT
Found at i:92443731 original size:11 final size:11
Alignment explanation
Indices: 92443715--92443753 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
92443705 ACCAACTATT
92443715 TGTTATTCTTA
1 TGTTATTCTTA
92443726 TGTTA-T-TTA
1 TGTTATTCTTA
92443735 TTGTTATTCTTA
1 -TGTTATTCTTA
92443747 TGTTATT
1 TGTTATT
92443754 TATTGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 3 0.12
10 6 0.24
11 13 0.52
12 3 0.12
ACGTcount: A:0.18, C:0.05, G:0.10, T:0.67
Consensus pattern (11 bp):
TGTTATTCTTA
Found at i:92443740 original size:21 final size:21
Alignment explanation
Indices: 92443714--92443760 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
92443704 CACCAACTAT
92443714 TTGTTATTCTTATGTTATTTA
1 TTGTTATTCTTATGTTATTTA
92443735 TTGTTATTCTTATGTTATTTA
1 TTGTTATTCTTATGTTATTTA
92443756 TTGTT
1 TTGTT
92443761 TATCATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.04, G:0.11, T:0.68
Consensus pattern (21 bp):
TTGTTATTCTTATGTTATTTA
Found at i:92443916 original size:71 final size:69
Alignment explanation
Indices: 92443802--92444019 Score: 206
Period size: 71 Copynumber: 3.2 Consensus size: 69
92443792 GTTATTTTAA
* * *
92443802 GTTATATTTGCAT-AAA-ATATTGTTATATATTATGTAATTTATATTGTTAT-ATTCATTGTTTT
1 GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATTATTATGA-TCATTGTTTT
92443864 CTAT-
65 CTATG
*
92443868 GTTATATTTTGCATGAAATATTATTATGTATGTATTATGTAATCTATATTATTATGATCATTGTT
1 GTTATA-TTTGCATGAAATA-TATTAT-TATATATTATGTAATCTATATTATTATGATCATTGTT
92443933 TTCTATG
63 TTCTATG
* * * * * * *
92443940 GTTATATCTGCATGAAATGATA--A-TGTATATTATGAAATTTATGTCATTATTTATCA---TTT
1 GTTATATTTGCATGAAAT-ATATTATTATATATTATGTAATCTATATTATTA-TGATCATTGTTT
92443999 TCTAT-
64 TCTATG
92444004 GTTATATTTGCATGAA
1 GTTATATTTGCATGAA
92444020 TTGTTAAAGT
Statistics
Matches: 130, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
64 15 0.12
65 8 0.06
66 6 0.05
67 27 0.21
68 8 0.06
69 2 0.02
70 5 0.04
71 51 0.39
72 8 0.06
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (69 bp):
GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATTATTATGATCATTGTTTTC
TATG
Found at i:92444019 original size:64 final size:64
Alignment explanation
Indices: 92443860--92444033 Score: 163
Period size: 64 Copynumber: 2.6 Consensus size: 64
92443850 ATATTCATTG
* *
92443860 TTTTCTATGTTATATTTTGCATGAAAT-ATTATTATGTATGTATTATGTAATCTATATTATTATG
1 TTTTCTATGTTATA-TTTGCATGAAATGA-TA--ATGTA--TATTATGAAATCTATATCATTATG
92443924 ATCATT
60 ATCA-T
* * * *
92443930 GTTTTCTATGGTTATATCTGCATGAAATGATAATGTATATTATGAAATTTATGTCATTATTTATC
1 -TTTTCTAT-GTTATATTTGCATGAAATGATAATGTATATTATGAAATCTATATCATTA-TGATC
92443995 A-
63 AT
* * *
92443996 TTTTCTATGTTATATTTGCATGAATTGTTAAAGTATAT
1 TTTTCTATGTTATATTTGCATGAAATGATAATGTATAT
92444034 ATCATATAGT
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
64 26 0.29
65 8 0.09
67 18 0.20
68 5 0.06
69 5 0.06
71 21 0.23
72 7 0.08
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.51
Consensus pattern (64 bp):
TTTTCTATGTTATATTTGCATGAAATGATAATGTATATTATGAAATCTATATCATTATGATCAT
Found at i:92455142 original size:44 final size:44
Alignment explanation
Indices: 92455094--92455362 Score: 407
Period size: 44 Copynumber: 6.1 Consensus size: 44
92455084 TCACCAATAG
*
92455094 CAGATTTGGCGTCTCTGTATTGACAGAGAGTAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
92455138 CAGATTTGGCGTCTCTATATTGATAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
92455182 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
92455226 TAGATTTGGCGTCTCTGTATTGATAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
92455270 CATATTTGGCTTCTCTGTATTGACAGAAAGCAGATCG-AGAT-A
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
92455312 GCAGATTTGGCGTCTCTGTATTGACAGAGGGCAGGTCCAAGATGA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
92455357 CAGATT
1 CAGATT
92455363 CGGTTTCTCC
Statistics
Matches: 203, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.00
43 35 0.17
44 166 0.82
45 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
Found at i:92456959 original size:12 final size:11
Alignment explanation
Indices: 92456926--92456972 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 11
92456916 ATAAATTGTA
92456926 TATATATTATTTT
1 TATATATTA--TT
92456939 TATATATTATT
1 TATATATTATT
92456950 TATCATATTATT
1 TAT-ATATTATT
92456962 TATATTATTAT
1 TATA-TATTAT
92456973 ACATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.19
12 17 0.53
13 9 0.28
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATATTATT
Found at i:92456967 original size:21 final size:21
Alignment explanation
Indices: 92456941--92456986 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
92456931 ATTATTTTTA
92456941 TATATTATT-TATCATATTATT
1 TATATTATTATA-CATATTATT
*
92456962 TATATTATTATACATTTTATT
1 TATATTATTATACATATTATT
92456983 TATA
1 TATA
92456987 AATTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATTATACATATTATT
Found at i:92456993 original size:21 final size:19
Alignment explanation
Indices: 92456947--92456998 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
92456937 TTTATATATT
92456947 ATTTATCATATTATTTATA
1 ATTTATCATATTATTTATA
* *
92456966 TTATTATACATTTTATTTATAA
1 AT-TTAT-CATATTATTTAT-A
*
92456988 ATTTATTATAT
1 ATTTATCATAT
92456999 GTTATATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 15 0.60
22 2 0.08
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTATCATATTATTTATA
Found at i:92457648 original size:71 final size:69
Alignment explanation
Indices: 92457521--92457738 Score: 195
Period size: 71 Copynumber: 3.2 Consensus size: 69
92457511 GTTATTTTAA
* * * *
92457521 GTTATATTTGCAT-AAA-ATATTGTTATATATTATGCAATTTATATTGTTATATTCATTGTTTTC
1 GTTATATTTGCATGAAATATATTATTATATATTATGCAATCTATATTATTATATTCATTATTTTC
92457584 TAT-
66 TATG
* *
92457587 GTTATATTTTGCATGAAATATTATTATGTATGTATTATGTAATCTATATTATTATGA-TCATTAT
1 GTTATA-TTTGCATGAAATA-TATTAT-TATATATTATGCAATCTATATTATTAT-ATTCATTAT
92457651 TTTCTATG
62 TTTCTATG
* ** * * * * *
92457659 GTTATATCTGCATGAAATGATA--A-TGCATATTATGAAATTTATGTCATTAT-TT-ATCATTTT
1 GTTATATTTGCATGAAAT-ATATTATTATATATTATGCAATCTATATTATTATATTCATTATTTT
92457719 CTAT-
65 CTATG
92457723 GTTATATTTGCATGAA
1 GTTATATTTGCATGAA
92457739 TTGTTAAAGT
Statistics
Matches: 127, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
64 15 0.12
65 11 0.09
66 7 0.06
67 27 0.21
68 3 0.02
69 2 0.02
70 5 0.04
71 49 0.39
72 8 0.06
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (69 bp):
GTTATATTTGCATGAAATATATTATTATATATTATGCAATCTATATTATTATATTCATTATTTTC
TATG
Found at i:92465421 original size:61 final size:61
Alignment explanation
Indices: 92465351--92465484 Score: 178
Period size: 61 Copynumber: 2.2 Consensus size: 61
92465341 TCAATTTGAC
* ** * *
92465351 CTAAATCTAAAAAAATTAATAAATTTAGCCCTCAATGTTTATAAAAGTTGTCATTTTAGTT
1 CTAATTCTAAAAAAATTAATAAATTTAGCCCTCAACATTTACAAAAGTTGTCAATTTAGTT
* * * * *
92465412 TTAGTTCTAAAAAAATTAATAAATTTAGCTCTCAACATTTACAAAATTTTTCAATTTAGTT
1 CTAATTCTAAAAAAATTAATAAATTTAGCCCTCAACATTTACAAAAGTTGTCAATTTAGTT
92465473 CTAATTCTAAAA
1 CTAATTCTAAAA
92465485 GTTAAAAATA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (61 bp):
CTAATTCTAAAAAAATTAATAAATTTAGCCCTCAACATTTACAAAAGTTGTCAATTTAGTT
Found at i:92468648 original size:16 final size:17
Alignment explanation
Indices: 92468620--92468651 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
92468610 ATTTTATTTT
92468620 AATAATAAATTTTAAAA
1 AATAATAAATTTTAAAA
92468637 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
92468652 TGATATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATAAATTTTAAAA
Found at i:92469662 original size:16 final size:17
Alignment explanation
Indices: 92469618--92469666 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
92469608 TTTTTTATAT
92469618 AATTAT-AAAATTAAAA
1 AATTATAAAAATTAAAA
* *
92469634 AAATATAAAAAATT-GAA
1 AATTAT-AAAAATTAAAA
92469651 AATTATAAAAA-TAAAA
1 AATTATAAAAATTAAAA
92469667 CTCATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 7 0.27
18 6 0.23
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AATTATAAAAATTAAAA
Found at i:92469926 original size:2 final size:2
Alignment explanation
Indices: 92469919--92469959 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
92469909 CACAACCCCA
92469919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92469960 AACAAAGATG
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92477213 original size:2 final size:2
Alignment explanation
Indices: 92477206--92477241 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
92477196 AGTGTTTAGT
92477206 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92477242 ATAATGAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92488905 original size:9 final size:9
Alignment explanation
Indices: 92488891--92488919 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
92488881 AAATGGCATC
92488891 CTATATTAT
1 CTATATTAT
92488900 CTATATTAT
1 CTATATTAT
92488909 CTATATTAT
1 CTATATTAT
92488918 CT
1 CT
92488920 TTAATCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (9 bp):
CTATATTAT
Found at i:92489642 original size:12 final size:13
Alignment explanation
Indices: 92489611--92489654 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
92489601 TTCACTTCTT
*
92489611 ATTTCAATATCTCA
1 ATTTCAAT-TCACA
92489625 ATTTCAATTCAC-
1 ATTTCAATTCACA
*
92489637 ATTTCAATTCATA
1 ATTTCAATTCACA
92489650 ATTTC
1 ATTTC
92489655 TTTCTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 11 0.41
13 8 0.30
14 8 0.30
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTCAATTCACA
Found at i:92490341 original size:46 final size:45
Alignment explanation
Indices: 92490281--92490594 Score: 263
Period size: 46 Copynumber: 6.9 Consensus size: 45
92490271 TTTAACATGA
* * *
92490281 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCTATCAGGT
* ** *
92490327 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTT--CTATCAGGT
* * * **
92490374 TGCCATGGTATCTTTCAACCATGTTCTTATTCATTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TATCAGGT
* * *
92490420 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAACATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TATCAGGT
* ** *
92490466 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTGAATC-GCGA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTATCAG-GT
* * * * * ** *
92490511 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATCTGAATC-GTGA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTATCAG-GT
* ** * *
92490556 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTCTA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTA
92490595 GTATGATGCC
Statistics
Matches: 230, Mismatches: 34, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
45 80 0.35
46 109 0.47
47 41 0.18
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTATCAGGT
Found at i:92490440 original size:93 final size:92
Alignment explanation
Indices: 92490274--92490501 Score: 287
Period size: 93 Copynumber: 2.5 Consensus size: 92
92490264 ATTTATATTT
* * * * **
92490274 AACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTATCAGGTTGCCATGGTATC
1 AACATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTATCACATTGCCATGGTATC
** *
92490339 TTTCAACCATGGTCTTATTCATTTCCCC
66 TTTCAACCATGGTCTTACACATTT-CAC
** * * *
92490367 GTCATGTTGCCATGGTATCTTTCAACCATGTTCTTATTCA-TTTCATGTCACATTGCCATGGTAT
1 AACATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TATCACATTGCCATGGTAT
*
92490431 CTTTCAACCATGGTCTTACACATTTCAT
65 CTTTCAACCATGGTCTTACACATTTCAC
*
92490459 AACATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 AACATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
92490502 GAATCGCGAT
Statistics
Matches: 113, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
92 40 0.35
93 73 0.65
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (92 bp):
AACATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTATCACATTGCCATGGTATC
TTTCAACCATGGTCTTACACATTTCAC
Found at i:92490535 original size:45 final size:45
Alignment explanation
Indices: 92490420--92490591 Score: 182
Period size: 45 Copynumber: 3.8 Consensus size: 45
92490410 CATGTCACAT
* * * * * *
92490420 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAACATGT
1 TGCCATAGCATCTTTCAACCATGGTCTTACACATTTGA-ATCGTGA
* * *
92490466 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTGAATCGCGA
1 TGCCATAGCATCTTTCAACCATGGTCTTACACATTTGAATCGTGA
* * * *
92490511 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATCTGAATCGTGA
1 TGCCATAGCATCTTTCAACCATGGTCTTACACATTTGAATCGTGA
* * * *
92490556 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTT
1 TGCCATAGCATCTTTCAACCATGGTCTTACACATTT
92490592 CTAGTATGAT
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 75 0.67
46 37 0.33
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (45 bp):
TGCCATAGCATCTTTCAACCATGGTCTTACACATTTGAATCGTGA
Found at i:92490737 original size:33 final size:33
Alignment explanation
Indices: 92490601--92490756 Score: 99
Period size: 33 Copynumber: 4.7 Consensus size: 33
92490591 TCTAGTATGA
* *
92490601 TGCCATAGTCC-AACTATGGTCTTACACGTGTAT
1 TGCCATAG-CCTAGCTATGGTCTTACACATGTAT
* * * **
92490634 TGTCATGGCCTAGCCATGGTCTTACAC-TCGTGG
1 TGCCATAGCCTAGCTATGGTCTTACACAT-GTAT
* * *
92490667 TGCCATA-TCTCAGATATGGTCTTATCATCA-GGA-
1 TGCCATAGCCT-AGCTATGGTCTTA-CA-CATGTAT
*
92490700 TGCCATAGCCTAGCTATGGTCTTACACATATAT
1 TGCCATAGCCTAGCTATGGTCTTACACATGTAT
* *
92490733 TGCCAT-GACCCAGCCATGGTCTTA
1 TGCCATAG-CCTAGCTATGGTCTTA
92490757 TCCATCAGTT
Statistics
Matches: 94, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
31 2 0.02
32 9 0.10
33 77 0.82
34 5 0.05
35 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCTAGCTATGGTCTTACACATGTAT
Found at i:92498687 original size:26 final size:26
Alignment explanation
Indices: 92498656--92498763 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
92498646 TGAAATTCCC
92498656 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
92498682 ATCATGAAACATTTACCT-AACGCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
92498708 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
92498734 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
92498760 ATCA
1 ATCA
92498764 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 3 0.04
26 69 0.93
27 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:92504796 original size:26 final size:26
Alignment explanation
Indices: 92504760--92504843 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
92504750 CATGAAATTC
92504760 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
92504786 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
92504812 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
92504838 TTATCA
1 TTATCA
92504844 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:92504854 original size:10 final size:10
Alignment explanation
Indices: 92504839--92504868 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
92504829 CCTAACCTAT
92504839 TATCAATTTG
1 TATCAATTTG
92504849 TATCAATTTG
1 TATCAATTTG
92504859 TATCAATTTG
1 TATCAATTTG
92504869 ACCATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (10 bp):
TATCAATTTG
Found at i:92507137 original size:31 final size:31
Alignment explanation
Indices: 92507097--92507162 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
92507087 TAACCTTCCT
*
92507097 GCATTAAATCCAACCAAAAACAGAAAATATA
1 GCATGAAATCCAACCAAAAACAGAAAATATA
* *
92507128 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATGAAATCCAACCAAAAACAGAAAATATA
92507159 GCAT
1 GCAT
92507163 AAAAAATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.53, C:0.21, G:0.11, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGAAAATATA
Found at i:92507440 original size:21 final size:21
Alignment explanation
Indices: 92507415--92507464 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
92507405 TCTACTGCCA
*
92507415 TCGCTGCTACCGCTGCCTCTC
1 TCGCTGCTACCACTGCCTCTC
**
92507436 TCGCTGCGGCCACTGCCTCTC
1 TCGCTGCTACCACTGCCTCTC
*
92507457 TCTCTGCT
1 TCGCTGCT
92507465 GCCTCCGCTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.46, G:0.20, T:0.30
Consensus pattern (21 bp):
TCGCTGCTACCACTGCCTCTC
Found at i:92507905 original size:13 final size:14
Alignment explanation
Indices: 92507879--92507907 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
92507869 ACTAACGACG
92507879 AATTAAACCATTAT
1 AATTAAACCATTAT
92507893 AATTAAA-CATTAT
1 AATTAAACCATTAT
92507906 AA
1 AA
92507908 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:92507939 original size:18 final size:17
Alignment explanation
Indices: 92507904--92507941 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
92507894 ATTAAACATT
92507904 ATAAATATTTATAATAA
1 ATAAATATTTATAATAA
92507921 ATAAA-ATTTATTAAGTAA
1 ATAAATATTTA-TAA-TAA
92507939 ATA
1 ATA
92507942 TACTATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 8 0.42
18 6 0.32
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATAAATATTTATAATAA
Found at i:92512962 original size:9 final size:9
Alignment explanation
Indices: 92512948--92513085 Score: 72
Period size: 9 Copynumber: 15.3 Consensus size: 9
92512938 TAACTTTAAT
92512948 TAAGTTATG
1 TAAGTTATG
92512957 TAAGTTATG
1 TAAGTTATG
* * *
92512966 ATATGATATA
1 -TAAGTTATG
*
92512976 T-ATTTATG
1 TAAGTTATG
92512984 T-A-TTATG
1 TAAGTTATG
92512991 TAAGTTATG
1 TAAGTTATG
* *
92513000 TAAATTACG
1 TAAGTTATG
*
92513009 TAAGTTATC
1 TAAGTTATG
92513018 TGAA-TTATG
1 T-AAGTTATG
*
92513027 TAAATTATG
1 TAAGTTATG
*
92513036 TAAGATATGATA
1 TAAG-T-T-ATG
*
92513048 TATATTTATG
1 TA-AGTTATG
*
92513058 T-A-TTATA
1 TAAGTTATG
92513065 TAAGTTATG
1 TAAGTTATG
*
92513074 TAAATTATG
1 TAAGTTATG
92513083 TAA
1 TAA
92513086 AATATGATAT
Statistics
Matches: 98, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
7 11 0.11
8 10 0.10
9 57 0.58
10 12 0.12
11 2 0.02
12 5 0.05
13 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:92513011 original size:18 final size:18
Alignment explanation
Indices: 92512985--92513085 Score: 89
Period size: 18 Copynumber: 5.5 Consensus size: 18
92512975 ATATTTATGT
92512985 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
92513003 ATTACGTAAGTTATCTGA
1 ATTATGTAAGTTATGTAA
*
92513021 ATTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
* *
92513039 GATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
*
92513059 ATTATATAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
92513077 ATTATGTAA
1 ATTATGTAA
92513086 AATATGATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
16 7 0.11
17 5 0.08
18 38 0.58
19 4 0.06
20 1 0.02
21 4 0.06
22 7 0.11
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.45
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:92513086 original size:9 final size:9
Alignment explanation
Indices: 92512985--92513091 Score: 76
Period size: 9 Copynumber: 11.7 Consensus size: 9
92512975 ATATTTATGT
92512985 ATTATGTAA
1 ATTATGTAA
*
92512994 GTTATGTAA
1 ATTATGTAA
*
92513003 ATTACGTAA
1 ATTATGTAA
* * *
92513012 GTTATCTGA
1 ATTATGTAA
92513021 ATTATGTAA
1 ATTATGTAA
92513030 ATTATGTAA
1 ATTATGTAA
92513039 GA-TATGATATA
1 -ATTATG-TA-A
92513050 TATTTATGT--
1 -A-TTATGTAA
*
92513059 ATTATATAA
1 ATTATGTAA
*
92513068 GTTATGTAA
1 ATTATGTAA
92513077 ATTATGTAA
1 ATTATGTAA
*
92513086 AATATG
1 ATTATG
92513092 ATATATATTT
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
7 5 0.07
8 1 0.01
9 59 0.79
10 3 0.04
11 2 0.03
12 1 0.01
13 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (9 bp):
ATTATGTAA
Found at i:92513324 original size:19 final size:21
Alignment explanation
Indices: 92513300--92513338 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
92513290 GTGATTAAAA
92513300 TAAAATAAAA-TA-AAATACT
1 TAAAATAAAACTATAAATACT
92513319 TAAAATAAAACTATAAATAC
1 TAAAATAAAACTATAAATAC
92513339 AATTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAATAAAACTATAAATACT
Found at i:92513345 original size:24 final size:23
Alignment explanation
Indices: 92513293--92513345 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
92513283 ATTCTTCGTG
92513293 ATTAAAATAAAATAAAATAAAAT
1 ATTAAAATAAAATAAAATAAAAT
*
92513316 ACTTAAAATAAAACTATAAATACAAT
1 A-TTAAAATAAAA-TA-AAATAAAAT
92513342 -TTAA
1 ATTAA
92513346 TTTAATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.04
24 15 0.58
25 2 0.08
26 8 0.31
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
ATTAAAATAAAATAAAATAAAAT
Found at i:92513410 original size:5 final size:5
Alignment explanation
Indices: 92513400--92513434 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
92513390 TTTTCGTGAT
92513400 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
92513435 CTTTAAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:92513416 original size:48 final size:48
Alignment explanation
Indices: 92513364--92513530 Score: 129
Period size: 48 Copynumber: 3.3 Consensus size: 48
92513354 GGTAATTTAT
92513364 AAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAATA
1 AAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAATA
* * * * * * * * **
92513412 AAATAAAATAAAA-TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTA
1 AAATAAAATAAAAGT-AGACAAAAGTTT--TTTC---GTGA-TTAA--A-ATAAAATA
*
92513469 TAAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAAGAAAATA
1 -AAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAATA
92513518 AAATAAAATAAAA
1 AAATAAAATAAAA
92513531 TAAAACTTTA
Statistics
Matches: 86, Mismatches: 21, Indels: 24
0.66 0.16 0.18
Matches are distributed among these distances:
47 1 0.01
48 35 0.41
49 4 0.05
50 3 0.03
52 4 0.05
53 4 0.05
54 4 0.05
56 3 0.03
57 5 0.06
58 22 0.26
59 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.30
Consensus pattern (48 bp):
AAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAATA
Found at i:92513478 original size:106 final size:106
Alignment explanation
Indices: 92513241--92513583 Score: 565
Period size: 106 Copynumber: 3.3 Consensus size: 106
92513231 ATGGGTTATT
*
92513241 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAA-TATTCTTCGTGATTAAAATAAAA
1 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGT-TTTTTCGTGATTAAAATAAAA
** *
92513305 TAAAATAAAAT-ACTTAAAATAAAACTATAAATACAATTTAA
65 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAA
*
92513346 TTTAATTAGGTAATTTATAAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAAT
1 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAAT
92513411 AAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAA
66 AAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAA
* *
92513452 TTTAATTAGGTAATTTATAAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGA-T----TAAAAG
1 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAAT
92513512 AAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAA
66 AAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAA
92513553 TTTAATTAGGTAATTTAAAAATAAAATAAAA
1 TTTAATTAGGTAATTTAAAAATAAAATAAAA
92513584 TAAAATAAAA
Statistics
Matches: 229, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
101 76 0.33
105 72 0.31
106 81 0.35
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (106 bp):
TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGTTTTTTCGTGATTAAAATAAAAT
AAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAA
Found at i:92513520 original size:5 final size:5
Alignment explanation
Indices: 92513506--92513535 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
92513496 TTTTCGTGAT
*
92513506 TAAAA GAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
92513536 CTTTAAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:92513578 original size:5 final size:5
Alignment explanation
Indices: 92513570--92513598 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
92513560 AGGTAATTTA
92513570 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
92513599 CTTTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:92513606 original size:63 final size:63
Alignment explanation
Indices: 92513507--92513646 Score: 255
Period size: 63 Copynumber: 2.2 Consensus size: 63
92513497 TTTCGTGATT
*
92513507 AAAAGAAAATAAAATAAAATAAAATAAAACTTTAAAT-ACAATTTAATTTAATTAGGTAATTTA
1 AAAATAAAATAAAATAAAATAAAATAAAACTTTAAATGA-AATTTAATTTAATTAGGTAATTTA
92513570 AAAATAAAATAAAATAAAATAAAATAAAACTTTAAATGAAATTTAATTTAATTAGGTAATTTA
1 AAAATAAAATAAAATAAAATAAAATAAAACTTTAAATGAAATTTAATTTAATTAGGTAATTTA
92513633 AAAATAAAATAAAA
1 AAAATAAAATAAAA
92513647 GTAGACAAAA
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
63 74 0.99
64 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (63 bp):
AAAATAAAATAAAATAAAATAAAATAAAACTTTAAATGAAATTTAATTTAATTAGGTAATTTA
Found at i:92513684 original size:96 final size:96
Alignment explanation
Indices: 92513578--92513939 Score: 557
Period size: 96 Copynumber: 3.8 Consensus size: 96
92513568 TAAAAATAAA
92513578 ATAAAATAAAATAAAATAAAACTTTAAATGA-AATTTAATTTAATTAGGTAATTTAAAAATAAAA
1 ATAAAATAAAATAAAATAAAACTTTAAAT-ACAATTTAATTTAATTAGGTAATTTAAAAATAAAA
92513642 TAAAAGTAGACAAAAGTTTTTTTGTGATTAAG
65 TAAAAGTAGACAAAAGTTTTTTTGTGATTAAG
92513674 ATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
1 ATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
92513739 AAAAGTAGACAAAAG-TTTTTT-TG--T--G
66 AAAAGTAGACAAAAGTTTTTTTGTGATTAAG
92513764 AT----TAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
1 ATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
* ** *
92513825 AAAGGTAGACAAAAGTTTTTCCGTGATTAAAATAAA
66 AAAAGTAGACAAAAGTTTTTTTGTGA-T----TAAG
92513861 ATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
1 ATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
92513926 AAAAGTAGACAAAA
66 AAAAGTAGACAAAA
92513940 TATTTTAAAC
Statistics
Matches: 245, Mismatches: 5, Indels: 27
0.88 0.02 0.10
Matches are distributed among these distances:
86 73 0.30
87 4 0.02
88 2 0.01
90 3 0.01
92 1 0.00
94 2 0.01
95 8 0.03
96 78 0.32
97 2 0.01
101 72 0.29
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.33
Consensus pattern (96 bp):
ATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
AAAAGTAGACAAAAGTTTTTTTGTGATTAAG
Found at i:92513775 original size:81 final size:83
Alignment explanation
Indices: 92513684--92513861 Score: 288
Period size: 86 Copynumber: 2.1 Consensus size: 83
92513674 ATAAAATAAA
92513684 ATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
1 ATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
**
92513749 AAAAGTTTTTTTGTGATT
66 AAAAGTTTTTCCGTGATT
*
92513767 AAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAGGTA
1 ---ATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTA
92513832 GACAAAAGTTTTTCCGTGA-T
63 GACAAAAGTTTTTCCGTGATT
92513852 -TAAAATAAAA
1 ATAAAATAAAA
92513862 TAAAATAAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
81 10 0.11
85 1 0.01
86 78 0.88
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.34
Consensus pattern (83 bp):
ATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
AAAAGTTTTTCCGTGATT
Found at i:92513783 original size:182 final size:184
Alignment explanation
Indices: 92513584--92513939 Score: 619
Period size: 187 Copynumber: 1.9 Consensus size: 184
92513574 TAAAATAAAA
92513584 TAAAATAAAATAAAACTTTAAATGA-AATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAG
1 TAAAATAAAATAAAACTTTAAAT-ACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAG
** *
92513648 TAGACAAAAGTTTTTTTGTGA-T-TAAGATAAAATAAAATAAAATAAAACTTTAAATACAATTTA
65 TAGACAAAAGTTTTTCCGTGATTATAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTA
92513711 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGTTTTTTTGTGAT
130 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGTTTTTTTGTGAT
*
92513766 TAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAGGT
1 TAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGT
92513831 AGACAAAAGTTTTTCCGTGATTAAAATAAAATAAAATAAAATAAAATAAAACTTTAAATACAATT
66 AGACAAAAGTTTTTCCGTGATT---ATAAAATAAAATAAAATAAAATAAAACTTTAAATACAATT
92513896 TAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAA
128 TAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAA
92513940 TATTTTAAAC
Statistics
Matches: 164, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
181 1 0.01
182 80 0.49
183 1 0.01
187 82 0.50
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (184 bp):
TAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGT
AGACAAAAGTTTTTCCGTGATTATAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAA
TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAGTTTTTTTGTGAT
Found at i:92513862 original size:5 final size:5
Alignment explanation
Indices: 92513852--92513881 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
92513842 TTTCCGTGAT
92513852 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
92513882 CTTTAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:92513999 original size:81 final size:81
Alignment explanation
Indices: 92513900--92514068 Score: 200
Period size: 81 Copynumber: 2.1 Consensus size: 81
92513890 ACAATTTAAT
* **
92513900 TTAATTAGGTAATTTAAAAATAAAATAA-AAGTAGACA-AAAT-ATTTTAAACATTGTTAAGTCT
1 TTAATTTGGTAATTTAAAAATAAAATAATAAGTA-A-ATAAATGACATTAAAC-TTGTTAAGTCT
92513962 TTCTTTTAATTTGCATTTA
63 TTCTTTTAATTTGCATTTA
* * ** * * *
92513981 TTAATTTGTTAATTTAAAAATTAGGTAATTATTAAATTAATGACATTAAACTTGTTAAGTCTTTC
1 TTAATTTGGTAATTTAAAAATAAAATAATAAGTAAATAAATGACATTAAACTTGTTAAGTCTTTC
92514046 TTTTAATTTGCATTTA
66 TTTTAATTTGCATTTA
92514062 TTAATTT
1 TTAATTT
92514069 AAGTAAACAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
80 1 0.01
81 64 0.85
82 10 0.13
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (81 bp):
TTAATTTGGTAATTTAAAAATAAAATAATAAGTAAATAAATGACATTAAACTTGTTAAGTCTTTC
TTTTAATTTGCATTTA
Found at i:92514744 original size:8 final size:8
Alignment explanation
Indices: 92514729--92514784 Score: 58
Period size: 8 Copynumber: 7.0 Consensus size: 8
92514719 CAAAAAATTC
92514729 CACTATTA
1 CACTATTA
*
92514737 CTCTATTA
1 CACTATTA
92514745 CACTATTA
1 CACTATTA
* *
92514753 CGCAATTA
1 CACTATTA
* *
92514761 CATTATTC
1 CACTATTA
*
92514769 CACTATTC
1 CACTATTA
92514777 CACTATTA
1 CACTATTA
92514785 TCATAATCAC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.39
Consensus pattern (8 bp):
CACTATTA
Found at i:92514784 original size:24 final size:24
Alignment explanation
Indices: 92514725--92514784 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
92514715 CAATCAAAAA
92514725 ATTCCACTATTACTCTATTACACT
1 ATTCCACTATTACTCTATTACACT
* * * *
92514749 ATTACGCAATTACAT-TATTCCACT
1 ATTCCACTATTAC-TCTATTACACT
92514773 ATTCCACTATTA
1 ATTCCACTATTA
92514785 TCATAATCAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTCCACTATTACTCTATTACACT
Found at i:92516779 original size:158 final size:157
Alignment explanation
Indices: 92516496--92516845 Score: 404
Period size: 158 Copynumber: 2.2 Consensus size: 157
92516486 CATTAATGTT
* * *
92516496 TTTTGCGGT-GTTTATTAAAAAAACGCCACTAATCCCTATATATTTAACTAAAACGACGACGTGT
1 TTTTGC-GTCGTTTTTTAAAAAAACGCCACTAATCCCTATATATTCAACTAAAACAACGACGTGT
* * * *
92516560 ACAGTAAACTTTAATTCTTTTGCGGCGTTTTTAAAAGCGCCACTAATACACTATTATACTAAAAC
65 ACAGTAAACTTCAATTCTGTTGCGGCGTTTTTAAAAGCACCACTAATACACTATCATACTAAAAC
*
92516625 GGCGCCGTTTTCTTTAAACTAATAC-GAC
130 GACGCCGTTTTCTTTAAA-TAATACTGAC
* *
92516653 TTTTGCGTCGTTTTTTAGAAAAACGCCGCTAATCCCCTATATATTCAACTAAAACAACGACGCT-
1 TTTTGCGTCGTTTTTTAAAAAAACGCCACTAAT-CCCTATATATTCAACTAAAACAACGACG-TG
* * * * *
92516717 TCCAGTACACTTCAATTCTGTTGCGGCGTTTTTCAAAA-CACCATTAATCCCCTATCCA-ACTAA
64 TACAGTAAACTTCAATTCTGTTGCGGCGTTTTT-AAAAGCACCACTAATACACTAT-CATACTAA
* **
92516780 AACGACGCCGTTTTCTTTAAATTATACTGTT
127 AACGACGCCGTTTTCTTTAAATAATACTGAC
* ** *
92516811 TTTTGCGGCGTTTTTTTTTAAAAACTCCACTAATC
1 TTTTGCGTCG-TTTTTTAAAAAAACGCCACTAATC
92516846 TCTTAATTTT
Statistics
Matches: 163, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
156 2 0.01
157 32 0.20
158 104 0.64
159 25 0.15
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (157 bp):
TTTTGCGTCGTTTTTTAAAAAAACGCCACTAATCCCTATATATTCAACTAAAACAACGACGTGTA
CAGTAAACTTCAATTCTGTTGCGGCGTTTTTAAAAGCACCACTAATACACTATCATACTAAAACG
ACGCCGTTTTCTTTAAATAATACTGAC
Found at i:92517886 original size:14 final size:14
Alignment explanation
Indices: 92517866--92517910 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
92517856 TCCTACACTT
92517866 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
92517880 TATACCCTAAATCA
1 TAAACCCTAAACCA
*
92517894 TAAACCCTAAACTA
1 TAAACCCTAAACCA
92517908 TAA
1 TAA
92517911 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:92523506 original size:3 final size:3
Alignment explanation
Indices: 92523498--92523522 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
92523488 AGTAATAAAA
92523498 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
92523523 GTGATTCAAA
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:92529100 original size:31 final size:31
Alignment explanation
Indices: 92529062--92529121 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
92529052 AATTTAATTC
92529062 GCCACACGGCCTAAACACACGGGCGTGTGTG
1 GCCACACGGCCTAAACACACGGGCGTGTGTG
**
92529093 GCCACACGGCCTACCCACACGGGCGTGTG
1 GCCACACGGCCTAAACACACGGGCGTGTG
92529122 ACTCTCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.20, C:0.37, G:0.32, T:0.12
Consensus pattern (31 bp):
GCCACACGGCCTAAACACACGGGCGTGTGTG
Found at i:92533027 original size:32 final size:33
Alignment explanation
Indices: 92532981--92533059 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
92532971 GATTGGTAAA
*
92532981 ATTTTGATATG-ATATGTTTCTAGAAATTTGAC
1 ATTTTGATATGAATATGTTTCTAGAAATGTGAC
* *
92533013 ATTTTGATCA-GATATATGTTTCTGGTAATGTGAC
1 ATTTTGAT-ATGA-ATATGTTTCTAGAAATGTGAC
*
92533047 ATTCTGATATGAA
1 ATTTTGATATGAA
92533060 AATTGTATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
32 9 0.23
33 3 0.08
34 27 0.69
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (33 bp):
ATTTTGATATGAATATGTTTCTAGAAATGTGAC
Found at i:92533553 original size:24 final size:24
Alignment explanation
Indices: 92533502--92533550 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
92533492 CGCAATCTTC
* *
92533502 TAAATACTTGAGTATTTTGTAAAT
1 TAAATACTTGAGTATTCTGGAAAT
*
92533526 TAAATAACTTTAGTATTCTGGAAAT
1 TAAAT-ACTTGAGTATTCTGGAAAT
92533551 AAAACTAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (24 bp):
TAAATACTTGAGTATTCTGGAAAT
Found at i:92534553 original size:14 final size:14
Alignment explanation
Indices: 92534534--92534560 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92534524 AAAAATTTGG
92534534 AATAAAATAATAAT
1 AATAAAATAATAAT
92534548 AATAAAATAATAA
1 AATAAAATAATAA
92534561 GAGCTGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:92543633 original size:33 final size:33
Alignment explanation
Indices: 92543593--92543659 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
92543583 TTATTAACCA
92543593 AATTAAAACGACGAATCTTACTTGATTTAATTT
1 AATTAAAACGACGAATCTTACTTGATTTAATTT
92543626 AATTAAAACGACGAATCTTACTTGATTTAATTT
1 AATTAAAACGACGAATCTTACTTGATTTAATTT
92543659 A
1 A
92543660 CTTTATTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (33 bp):
AATTAAAACGACGAATCTTACTTGATTTAATTT
Found at i:92543978 original size:3 final size:3
Alignment explanation
Indices: 92543970--92544001 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
92543960 TATCATTAGT
92543970 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
92544002 TTACAAAAAA
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:92545229 original size:16 final size:17
Alignment explanation
Indices: 92545203--92545236 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
92545193 GTAGAAAAGA
*
92545203 TAAATAAATAAATTATT
1 TAAATAAATAAATAATT
92545220 TAAA-AAATAAATAATT
1 TAAATAAATAAATAATT
92545236 T
1 T
92545237 TGAACTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATAAATAAATAATT
Found at i:92547850 original size:17 final size:17
Alignment explanation
Indices: 92547828--92547860 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92547818 CATTTTCTAA
*
92547828 AGTTAAAAGTCAAAACC
1 AGTTAAAAGACAAAACC
92547845 AGTTAAAAGACAAAAC
1 AGTTAAAAGACAAAAC
92547861 TATGTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AGTTAAAAGACAAAACC
Found at i:92548003 original size:22 final size:20
Alignment explanation
Indices: 92547966--92548008 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
92547956 GAAATAGGAC
*
92547966 AAAAAAATAAAAAAAATACT
1 AAAAAAATAAAAAAAAAACT
*
92547986 AAAATAATACAAAGAAAAAACT
1 AAAAAAATA-AAA-AAAAAACT
92548008 A
1 A
92548009 TGTACCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAAAAATAAAAAAAAAACT
Found at i:92548542 original size:30 final size:28
Alignment explanation
Indices: 92548506--92548571 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
92548496 TATTAAAATA
*
92548506 AAGGGCTT-TTTTGAGTAAAAACTATAAGTT
1 AAGGGCTTATTTT-ACTAAAAA--ATAAGTT
*
92548536 AAGGGCTTATTTTACTAAAAAATAGGTT
1 AAGGGCTTATTTTACTAAAAAATAAGTT
92548564 AAGGGCTT
1 AAGGGCTT
92548572 GTTTAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 14 0.42
30 15 0.45
31 4 0.12
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (28 bp):
AAGGGCTTATTTTACTAAAAAATAAGTT
Found at i:92555430 original size:25 final size:25
Alignment explanation
Indices: 92555400--92555452 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
92555390 TAGAGTAAAG
92555400 TTTAATTAAAATTTGGCTCATTAAT
1 TTTAATTAAAATTTGGCTCATTAAT
92555425 TTTAATTAAAATTTGGCTCATTAAT
1 TTTAATTAAAATTTGGCTCATTAAT
92555450 TTT
1 TTT
92555453 GTCATTTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (25 bp):
TTTAATTAAAATTTGGCTCATTAAT
Found at i:92557479 original size:17 final size:17
Alignment explanation
Indices: 92557453--92557559 Score: 56
Period size: 17 Copynumber: 5.8 Consensus size: 17
92557443 GTAAAAATGA
92557453 TAAAATTTATAAAAAAAT
1 TAAAA-TTATAAAAAAAT
92557471 TAAAATTATTAAAAAATAT
1 TAAAATTA-TAAAAAA-AT
*
92557490 ATAAAA--ATAAAATATTAT
1 -TAAAATTATAAAA-A-AAT
*
92557508 TAAAACTTTTCTATAAAAAATT
1 TAAAA----T-TATAAAAAAAT
* *
92557530 TAAAATTACAAAAATAT
1 TAAAATTATAAAAAAAT
*
92557547 TAAAAATATAAAA
1 TAAAATTATAAAA
92557560 GCCTAAGTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 25
0.68 0.08 0.25
Matches are distributed among these distances:
17 32 0.46
18 17 0.25
19 2 0.03
20 5 0.07
22 6 0.09
23 1 0.01
24 6 0.09
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:92557496 original size:28 final size:29
Alignment explanation
Indices: 92557454--92557512 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
92557444 TAAAAATGAT
* *
92557454 AAAATTTATAAAAAAATTAAA-ATTATTAA
1 AAAATATAT-AAAAAATAAAATATTATTAA
92557483 AAAATATAT-AAAAATAAAATATTATTAA
1 AAAATATATAAAAAATAAAATATTATTAA
92557511 AA
1 AA
92557513 CTTTTCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
28 10 0.37
29 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAATATATAAAAAATAAAATATTATTAA
Found at i:92559647 original size:21 final size:20
Alignment explanation
Indices: 92559621--92559672 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
92559611 TAGCGGTGGT
92559621 GGTGAGATTAATTACTGTAGC
1 GGTGAGATTAA-TACTGTAGC
*
92559642 GGTGAGATTGGATACTGTAGC
1 GGTGAGATT-AATACTGTAGC
92559663 GGTGAGATTA
1 GGTGAGATTA
92559673 GAAACAATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.27, C:0.08, G:0.35, T:0.31
Consensus pattern (20 bp):
GGTGAGATTAATACTGTAGC
Found at i:92559863 original size:17 final size:17
Alignment explanation
Indices: 92559841--92559876 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
92559831 AATTTATTTA
92559841 ATAAAATATTAAAAATT
1 ATAAAATATTAAAAATT
92559858 ATAAAATATTAAAAATT
1 ATAAAATATTAAAAATT
92559875 AT
1 AT
92559877 CTTCCAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAAATATTAAAAATT
Found at i:92561730 original size:32 final size:32
Alignment explanation
Indices: 92561691--92561818 Score: 229
Period size: 32 Copynumber: 4.0 Consensus size: 32
92561681 CATAAAAAAT
92561691 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
92561723 ATCATACATTAGGTTTACATATAAAAAAGTTG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
92561755 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
92561787 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
92561819 TATAGTTATA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 90 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:92562552 original size:7 final size:7
Alignment explanation
Indices: 92562540--92562580 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
92562530 CCTACAAAAC
92562540 ATGTTAA
1 ATGTTAA
92562547 ATGTTAA
1 ATGTTAA
92562554 ATGTTAA
1 ATGTTAA
92562561 ATGTTAA
1 ATGTTAA
92562568 ATGTTAA
1 ATGTTAA
92562575 ATGTTA
1 ATGTTA
92562581 TACTCAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (7 bp):
ATGTTAA
Found at i:92569924 original size:18 final size:19
Alignment explanation
Indices: 92569887--92569924 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
92569877 TTATTTTTTG
92569887 TGGGCCATTTACTCTCTTT
1 TGGGCCATTTACTCTCTTT
* *
92569906 TGGGCCTTTTTCT-TCTTT
1 TGGGCCATTTACTCTCTTT
92569924 T
1 T
92569925 ATTAGCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.05, C:0.24, G:0.16, T:0.55
Consensus pattern (19 bp):
TGGGCCATTTACTCTCTTT
Found at i:92570401 original size:28 final size:28
Alignment explanation
Indices: 92570370--92570423 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
92570360 ATAACAACTT
92570370 TAAATCTAACAAT-TTTTTATATTTTTAA
1 TAAATCTAA-AATATTTTTATATTTTTAA
* *
92570398 TAAATTTAAAATATTTTTATTTTTTT
1 TAAATCTAAAATATTTTTATATTTTT
92570424 CTTTAGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (28 bp):
TAAATCTAAAATATTTTTATATTTTTAA
Found at i:92571030 original size:16 final size:16
Alignment explanation
Indices: 92571006--92571055 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
92570996 GGTTTCTGAC
*
92571006 ATAATCAGTTAAAAAA
1 ATAAACAGTTAAAAAA
*
92571022 ATAAACAGTAAAAAAA
1 ATAAACAGTTAAAAAA
* *
92571038 ATAAA-AGCTGAAAAA
1 ATAAACAGTTAAAAAA
92571053 ATA
1 ATA
92571056 TAAAAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 10 0.34
16 19 0.66
ACGTcount: A:0.68, C:0.06, G:0.08, T:0.18
Consensus pattern (16 bp):
ATAAACAGTTAAAAAA
Found at i:92571051 original size:17 final size:15
Alignment explanation
Indices: 92571016--92571060 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
92571006 ATAATCAGTT
92571016 AAAAAAATAAACAGTA
1 AAAAAAATAAA-AGTA
92571032 AAAAAAATAAAAGCTGA
1 AAAAAAATAAAAG-T-A
*
92571049 AAAAATATAAAA
1 AAAAAAATAAAA
92571061 ATATAGAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 12 0.46
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAAAAATAAAAGTA
Found at i:92571265 original size:60 final size:57
Alignment explanation
Indices: 92571173--92571284 Score: 161
Period size: 60 Copynumber: 1.9 Consensus size: 57
92571163 GGCACACAGT
* * *
92571173 AGTAAAAAAAATTGTAGAAGAAGAGAGGGAGAAGAGGAGAAAGAAAGAAAAAAAATTTCC
1 AGTAAAAAAAATTATAAAAGAAGAGAGAGAGAAGA-GA-AAAGAAA-AAAAAAAATTTCC
*
92571233 AGTAAAAAAAATTATAAAAGAAGAGAGAGAGAAGAGAAAAGAAAAAATAAAA
1 AGTAAAAAAAATTATAAAAGAAGAGAGAGAGAAGAGAAAAGAAAAAAAAAAA
92571285 GGTATATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
57 7 0.15
58 7 0.15
59 2 0.04
60 32 0.67
ACGTcount: A:0.64, C:0.02, G:0.23, T:0.11
Consensus pattern (57 bp):
AGTAAAAAAAATTATAAAAGAAGAGAGAGAGAAGAGAAAAGAAAAAAAAAAATTTCC
Found at i:92575134 original size:152 final size:150
Alignment explanation
Indices: 92574858--92575399 Score: 799
Period size: 152 Copynumber: 3.6 Consensus size: 150
92574848 TTTTTTTCAG
*
92574858 TGATTTTGGCCCTTTGTTGGTATTTTTTTTATTTTCT-TATTTTATTTTTTAAAATATACTATTT
1 TGATTTTGGCCCTTTGTTGGTATTTTTTTTATTTT-TGGATTTTATTTTTTAAAATATACTATTT
* * *
92574922 TCGTATTTTATTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTATTTTTTC
65 TCGTATTTTATTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTAAGTATTTTTTA
*
92574987 TATTAATTTAATAAATAACCT
130 TATTAATTTAATAAATAACCC
* * *
92575008 TAATTTTGACCCTTTGTTGGTATTTTTTTTTATTTTTGGATTTTATTTTTTAAAATATACTTTTT
1 TGATTTTGGCCCTTTGTTGGTA-TTTTTTTTATTTTTGGATTTTATTTTTTAAAATATACTATTT
*
92575073 TCATATTTTAATTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTAAGTATTTTTT
65 TCGTATTTT-ATTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTAAGTATTTTTT
92575138 ATATTAATTTAATAAATAACCC
129 ATATTAATTTAATAAATAACCC
*
92575160 TGATTTTGGCCCTTTGTTGGTA-TTTTTTTATTTTCGGATTTTA--TTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTGGTATTTTTTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTT
* *
92575222 CGTATTTTATTTTTTTATATTATTTTAATACATAATG-TTTAAATATATTATTTTAAGT-TTTTT
66 CGTATTTTA--TTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTA-TTTAAGTATTTTT
*
92575285 TATATTAATTTAGTAAATAACCC
128 TATATTAATTTAATAAATAACCC
* ** **
92575308 TGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTTTAAATTTTATTTTTTAAAAATATACTATT
1 TGATTTTGGCCCTTTGTTGGTATTTTTTTTA-TTTTTGGATTTTATTTTTT-AAAATATACTATT
*
92575373 TTTGTATTTTATTTTTATATTATTTTA
64 TTCGTATTTTATTTTTATATTATTTTA
92575400 CTAAAAAACC
Statistics
Matches: 357, Mismatches: 24, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
147 1 0.00
148 85 0.24
149 38 0.11
150 51 0.14
151 62 0.17
152 97 0.27
153 23 0.06
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.59
Consensus pattern (150 bp):
TGATTTTGGCCCTTTGTTGGTATTTTTTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTT
CGTATTTTATTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTAAGTATTTTTTAT
ATTAATTTAATAAATAACCC
Found at i:92576038 original size:16 final size:16
Alignment explanation
Indices: 92576007--92576054 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
92575997 GTGCCGCCTC
*
92576007 CTTCTCC-TTATTCTT
1 CTTCTCCTTTTTTCTT
92576022 CTTCT-CTTCTTTTCTT
1 CTTCTCCTT-TTTTCTT
92576038 CTTCTCCTTTTTTCTT
1 CTTCTCCTTTTTTCTT
92576054 C
1 C
92576055 CCGAAATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 6 0.21
16 19 0.66
17 3 0.10
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (16 bp):
CTTCTCCTTTTTTCTT
Found at i:92601307 original size:27 final size:27
Alignment explanation
Indices: 92601277--92601330 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
92601267 TCCCTCCCCC
92601277 GCCTCCTCCACCTCC-CCTACCACCATT
1 GCCTCCTCCACCTCCTCCT-CCACCATT
92601304 GCCTCCTCCACCTCCTCCTCCACCATT
1 GCCTCCTCCACCTCCTCCTCCACCATT
92601331 CCCACCCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.13, C:0.59, G:0.04, T:0.24
Consensus pattern (27 bp):
GCCTCCTCCACCTCCTCCTCCACCATT
Found at i:92601435 original size:21 final size:21
Alignment explanation
Indices: 92601409--92601448 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
92601399 TCCTCCGCCA
*
92601409 CCTCCACCTCCTCCCCCACTG
1 CCTCCACCACCTCCCCCACTG
92601430 CCTCCACCACCTCCCCCAC
1 CCTCCACCACCTCCCCCAC
92601449 CCCCACCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.70, G:0.03, T:0.15
Consensus pattern (21 bp):
CCTCCACCACCTCCCCCACTG
Found at i:92601460 original size:21 final size:21
Alignment explanation
Indices: 92601412--92601461 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
92601402 TCCGCCACCT
* ** *
92601412 CCACCTCCTCCCCCACTGCCT
1 CCACCACCTCCCCCACCCCCA
92601433 CCACCACCTCCCCCACCCCCA
1 CCACCACCTCCCCCACCCCCA
*
92601454 CCTCCACC
1 CCACCACC
92601462 ACCATTTCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.14, C:0.72, G:0.02, T:0.12
Consensus pattern (21 bp):
CCACCACCTCCCCCACCCCCA
Found at i:92603049 original size:3 final size:3
Alignment explanation
Indices: 92603034--92603079 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
92603024 TCACTGCACG
* *
92603034 TTA TTA TTT TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
92603080 AAAAGAGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:92603574 original size:17 final size:16
Alignment explanation
Indices: 92603554--92603615 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 16
92603544 GTTTTTTCTA
92603554 ATTTTATCAATTTTTAT
1 ATTTT-TCAATTTTTAT
92603571 ATTTTTCTGAA-TTTTAT
1 ATTTTTC--AATTTTTAT
92603588 ATTTTT-AATATTTTAT
1 ATTTTTCAAT-TTTTAT
*
92603604 ACTTTTTAAATT
1 A-TTTTTCAATT
92603616 ATTTGTTGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
14 2 0.05
16 9 0.23
17 23 0.59
18 5 0.13
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (16 bp):
ATTTTTCAATTTTTAT
Found at i:92603593 original size:26 final size:26
Alignment explanation
Indices: 92603546--92603601 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
92603536 GACTAATTGT
*
92603546 TTTTTCTAATTTTATCAATTTTTATA
1 TTTTTCTAATTTTATCAATTTTAATA
*
92603572 TTTTTCTGAATTTTAT-ATTTTTAATA
1 TTTTTCT-AATTTTATCAATTTTAATA
92603598 TTTT
1 TTTT
92603602 ATACTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTTCTAATTTTATCAATTTTAATA
Found at i:92603600 original size:16 final size:17
Alignment explanation
Indices: 92603581--92603612 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
92603571 ATTTTTCTGA
92603581 ATTTTATA-TTTTTAAT
1 ATTTTATACTTTTTAAT
92603597 ATTTTATACTTTTTAA
1 ATTTTATACTTTTTAA
92603613 ATTATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTATACTTTTTAAT
Found at i:92604961 original size:24 final size:22
Alignment explanation
Indices: 92604930--92604976 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
92604920 AGTTGGCTAG
92604930 AGAGACACACACAAGACATTTT
1 AGAGACACACACAAGACATTTT
92604952 AGAGACACACACAAGACATTTT
1 AGAGACACACACAAGACATTTT
92604974 AGA
1 AGA
92604977 CACAAGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (22 bp):
AGAGACACACACAAGACATTTT
Found at i:92606488 original size:15 final size:16
Alignment explanation
Indices: 92606447--92606481 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
92606437 GTATATTTAT
*
92606447 TTATTATATAAGTATA
1 TTATTAAATAAGTATA
92606463 TTATTAAATAA-TATA
1 TTATTAAATAAGTATA
92606478 TTAT
1 TTAT
92606482 ATAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TTATTAAATAAGTATA
Found at i:92607414 original size:2 final size:2
Alignment explanation
Indices: 92607398--92607434 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
92607388 AAATTGAATC
*
92607398 AT AT AT -T AT AA 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
92607435 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92607439 original size:2 final size:2
Alignment explanation
Indices: 92607434--92607483 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
92607424 TATATATATA
92607434 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
92607476 TG TG TG TG
1 TG TG TG TG
92607484 ACTGATGGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:92607929 original size:12 final size:12
Alignment explanation
Indices: 92607912--92607936 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92607902 GCCGACTACT
92607912 GTTACTGTTACC
1 GTTACTGTTACC
92607924 GTTACTGTTACC
1 GTTACTGTTACC
92607936 G
1 G
92607937 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:92608217 original size:18 final size:18
Alignment explanation
Indices: 92608158--92608231 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
92608148 AACTGGAAAG
*
92608158 ATTGACTGTTACTGAATA
1 ATTGATTGTTACTGAATA
* *
92608176 ATTTAATTGTTACTGTATA
1 A-TTGATTGTTACTGAATA
* *
92608195 TTTGATTTTTACTGAATA
1 ATTGATTGTTACTGAATA
* *
92608213 ATTGACTGTTACTGGATA
1 ATTGATTGTTACTGAATA
92608231 A
1 A
92608232 CCGATCAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 30 0.68
19 14 0.32
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (18 bp):
ATTGATTGTTACTGAATA
Found at i:92609204 original size:18 final size:18
Alignment explanation
Indices: 92609181--92609215 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
92609171 TATTTGAGCA
*
92609181 TTTATGTATTGTTTTGCT
1 TTTATGTATTATTTTGCT
92609199 TTTATGTATTATTTTGC
1 TTTATGTATTATTTTGC
92609216 AACTATTTCT
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:0.06, G:0.14, T:0.66
Consensus pattern (18 bp):
TTTATGTATTATTTTGCT
Found at i:92624985 original size:60 final size:59
Alignment explanation
Indices: 92624887--92625018 Score: 194
Period size: 60 Copynumber: 2.2 Consensus size: 59
92624877 CTGTGGATTG
* ** * *
92624887 CATGCTATAGATTTATTTGAAATTTATTTCTAATTAAAAC-CACTATTGTCACATTAACT
1 CATGCTATGGATTTATTTGAAATTTATCACTAAATAAAACTC-CTATTATCACATTAACT
92624946 CATGCTATGGATTTCATTTGAAATTTATCACTAAATAAAACTCCTATTATCACATTAACT
1 CATGCTATGGATTT-ATTTGAAATTTATCACTAAATAAAACTCCTATTATCACATTAACT
92625006 CATGCTATGGATT
1 CATGCTATGGATT
92625019 CCCCTATTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
59 13 0.20
60 52 0.79
61 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (59 bp):
CATGCTATGGATTTATTTGAAATTTATCACTAAATAAAACTCCTATTATCACATTAACT
Found at i:92627932 original size:2 final size:2
Alignment explanation
Indices: 92627925--92627963 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
92627915 AGACATTTAA
92627925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92627964 GAATAGGTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92647419 original size:46 final size:46
Alignment explanation
Indices: 92647238--92647419 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
92647228 TTTGACATGA
* * * * * *
92647238 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
92647284 TGCCATGGTATCTTTCAACTATGGTCTTGTTCATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
92647330 TGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
92647376 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
92647420 AGAGCACACT
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:92650775 original size:47 final size:48
Alignment explanation
Indices: 92650710--92651074 Score: 188
Period size: 47 Copynumber: 7.7 Consensus size: 48
92650700 TTTGTGTGCT
92650710 AGTGTAAGA-CATGTCTGGGACAT-GCATCAACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACCACATTATGAGAGCC
** * *
92650756 AGTGTAAGACCATGTCTGGGACATGGCAT---CGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACCACATT---ATGAGAGCC
* * * * *
92650804 AGTGTAA-AACATGTCTGGGACAT-GCATCAA-C-TA-TAAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACCACATTATGA-GAGCC
* * * *
92650848 AGTGTAAGACCATGTCTGGGACATGGCATCGGA--AC-GTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-AACCACATTAT-GA-GAGCC
* * * * * *
92650896 AGTATAAGACCATGTCTGGGATATGACATC-AGCACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACCAC--AT-TATGAGAGCC
* ** * * *
92650946 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTAGATT-TCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACC-ACATTAT-GAGAGCC
* * * *** *
92650995 AGTGTAAGACCATGTTTAGGACATGACATCAACTTGA-TA-GATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACCACATTATGA-GAGCC
* *
92651042 AGTGTAAGACTATGTCTGAGACATGGCATCAAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAAC
92651075 ATTATACCTT
Statistics
Matches: 244, Mismatches: 49, Indels: 51
0.71 0.14 0.15
Matches are distributed among these distances:
43 3 0.01
44 9 0.04
45 20 0.08
46 22 0.09
47 65 0.27
48 57 0.23
49 32 0.13
50 30 0.12
51 3 0.01
52 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAACCACATTATGAGAGCC
Found at i:92650879 original size:92 final size:94
Alignment explanation
Indices: 92650707--92650879 Score: 271
Period size: 92 Copynumber: 1.9 Consensus size: 94
92650697 TCATTTGTGT
* *
92650707 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAAACATGTCTGGGACATGCATCAACCACATTAAGAGAGCCAGTGTAAGACCATGTC
92650772 TGGGACATGGCATCGGCATTGAGACGAGA
66 TGGGACATGGCATCGGCATTGAGACGAGA
* * *
92650801 GCTAGTGTAAAACATGTCTGGGACATGCATCAA-C-TA-TAAGATGTGTCAGTGTAAGACCATGT
1 GCTAGTGTAAAACATGTCTGGGACATGCATCAACCACATTAAGA-GAGCCAGTGTAAGACCATGT
92650863 CTGGGACATGGCATCGG
65 CTGGGACATGGCATCGG
92650880 AACGTATAGA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
91 4 0.05
92 36 0.49
93 1 0.01
94 32 0.44
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAAACATGTCTGGGACATGCATCAACCACATTAAGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATTGAGACGAGA
Found at i:92664357 original size:16 final size:18
Alignment explanation
Indices: 92664338--92664375 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
92664328 AGAAATACTT
*
92664338 AATATATA-AT-ATTTAA
1 AATATATACATAATGTAA
92664354 AATATATACATAATGTAA
1 AATATATACATAATGTAA
92664372 AATA
1 AATA
92664376 CATATATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
AATATATACATAATGTAA
Found at i:92664449 original size:2 final size:2
Alignment explanation
Indices: 92664442--92664489 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
92664432 TAAGTACATA
*
92664442 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92664483 AT AT AT A
1 AT AT AT A
92664490 CATAAGATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:92664709 original size:21 final size:20
Alignment explanation
Indices: 92664667--92664717 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
92664657 TATTAATGAT
* * *
92664667 AAACATATACTTATATATTA
1 AAACATATACATAAATAATA
*
92664687 AAGATATATACATAAATAATA
1 AA-ACATATACATAAATAATA
92664708 AAACATATAC
1 AAACATATAC
92664718 TAACAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (20 bp):
AAACATATACATAAATAATA
Found at i:92665290 original size:22 final size:22
Alignment explanation
Indices: 92665264--92665342 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 22
92665254 GTATAAAGGG
92665264 TATATAACTAATAATAT-TAAAA
1 TATATAA-TAATAATATATAAAA
*
92665286 TATAT-ATAATAGTATATAAAA
1 TATATAATAATAATATATAAAA
*
92665307 -ATATAATACT-A-A-A-AAAA
1 TATATAATAATAATATATAAAA
92665324 TATATACATAATACATATA
1 TATATA-ATAATA-ATATA
92665343 AAAGAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
17 4 0.09
18 6 0.13
19 5 0.11
20 12 0.27
21 11 0.24
22 6 0.13
23 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (22 bp):
TATATAATAATAATATATAAAA
Found at i:92665291 original size:24 final size:23
Alignment explanation
Indices: 92665264--92665371 Score: 63
Period size: 22 Copynumber: 5.0 Consensus size: 23
92665254 GTATAAAGGG
*
92665264 TATATAACTAATAATATTAAAATA
1 TATATAACTAAT-ATATAAAAATA
*
92665288 TATATAA-TAGTATATAAAAATA
1 TATATAACTAATATATAAAAATA
*
92665310 TA-AT-ACTAA-A-A-AAATATA
1 TATATAACTAATATATAAAAATA
* * *
92665328 TACATAA-TACATATAAAAGAAAAA
1 TATATAACTA-ATATATAA-AAATA
*
92665352 TATAT-AC-AATATAGAAAAAT
1 TATATAACTAATATATAAAAAT
92665372 GTACATAATA
Statistics
Matches: 66, Mismatches: 9, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
18 8 0.12
19 5 0.08
20 4 0.06
21 8 0.12
22 20 0.30
23 7 0.11
24 14 0.21
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (23 bp):
TATATAACTAATATATAAAAATA
Found at i:92665295 original size:20 final size:20
Alignment explanation
Indices: 92665272--92665336 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 20
92665262 GGTATATAAC
92665272 TAATAATAT-TAAAATATATA
1 TAATAATATATAAAA-ATATA
*
92665292 TAATAGTATAT-AAAA-ATA
1 TAATAATATATAAAAATATA
*
92665310 TAATACTA-A-AAAAATATA
1 TAATAATATATAAAAATATA
92665328 TACATAATA
1 TA-ATAATA
92665337 CATATAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 5 0.13
18 15 0.39
19 6 0.16
20 11 0.29
21 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (20 bp):
TAATAATATATAAAAATATA
Found at i:92665345 original size:22 final size:20
Alignment explanation
Indices: 92665264--92665345 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 20
92665254 GTATAAAGGG
92665264 TATATAACTAATAATATTAAAA
1 TATATAA-TAATAATA-TAAAA
92665286 TATAT-ATAATAGTATATAAAA
1 TATATAATAATA--ATATAAAA
*
92665307 -ATATAATACTAA-A-AAAA
1 TATATAATAATAATATAAAA
92665324 TATATACATAATACATATAAAA
1 TATATA-ATAATA-ATATAAAA
92665346 GAAAAATATA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
17 4 0.08
18 6 0.12
19 6 0.12
20 10 0.20
21 12 0.24
22 12 0.24
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (20 bp):
TATATAATAATAATATAAAA
Found at i:92665381 original size:19 final size:19
Alignment explanation
Indices: 92665345--92665383 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
92665335 TACATATAAA
*
92665345 AGAAAAATATATACAATAT
1 AGAAAAATATACACAATAT
* *
92665364 AGAAAAATGTACATAATAT
1 AGAAAAATATACACAATAT
92665383 A
1 A
92665384 TGCATTGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.26
Consensus pattern (19 bp):
AGAAAAATATACACAATAT
Found at i:92665472 original size:3 final size:3
Alignment explanation
Indices: 92665454--92665530 Score: 136
Period size: 3 Copynumber: 25.7 Consensus size: 3
92665444 AAACATTTAC
* *
92665454 TAA TAC TAA GAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
92665502 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
92665531 TTGGAATGCA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:92666115 original size:12 final size:12
Alignment explanation
Indices: 92666096--92666128 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
92666086 GGAAAGGTAA
92666096 TTTTTTTATT-T
1 TTTTTTTATTCT
92666107 TTCTTTTTATTCT
1 TT-TTTTTATTCT
92666120 TTTTTTTAT
1 TTTTTTTAT
92666129 ATTTATTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 15 0.75
13 3 0.15
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTATTCT
Found at i:92667600 original size:2 final size:2
Alignment explanation
Indices: 92667593--92667625 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
92667583 GTTTCAAGTT
*
92667593 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92667626 GTTAAGTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92674907 original size:14 final size:14
Alignment explanation
Indices: 92674888--92674916 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
92674878 TATGGGCTAG
92674888 TTAGCATGTATATC
1 TTAGCATGTATATC
92674902 TTAGCATGTATATC
1 TTAGCATGTATATC
92674916 T
1 T
92674917 GTTCTGTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (14 bp):
TTAGCATGTATATC
Found at i:92677254 original size:30 final size:30
Alignment explanation
Indices: 92677220--92677326 Score: 110
Period size: 30 Copynumber: 3.6 Consensus size: 30
92677210 TGTATATACA
*
92677220 GACCCACGTATATTATACATATAACACCAT
1 GACCCACATATATTATACATATAACACCAT
* *
92677250 GACCCAAATATATTATTCATATAACACCCAT
1 GACCCACATATATTATACATATAACA-CCAT
** *
92677281 GCACGTACATATATTAT--ATATAACACCAA
1 G-ACCCACATATATTATACATATAACACCAT
* *
92677310 AACCCATATATATTATA
1 GACCCACATATATTATA
92677327 TATAAATAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
28 12 0.19
29 3 0.05
30 31 0.49
31 5 0.08
32 12 0.19
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.29
Consensus pattern (30 bp):
GACCCACATATATTATACATATAACACCAT
Found at i:92677329 original size:30 final size:30
Alignment explanation
Indices: 92677228--92677371 Score: 87
Period size: 30 Copynumber: 4.6 Consensus size: 30
92677218 CAGACCCACG
* ** *
92677228 TATATTATACATATAACACCATGACCCAAA
1 TATATTATATATATAACACCAAAACCCATA
* ** * *
92677258 TATATTAT-TCATATAACACCCATGCACGTA
1 TATATTATAT-ATATAACACCAAAACCCATA
*
92677288 CATA-TATTATATATAACACCAAAACCCATA
1 TATATTA-TATATATAACACCAAAACCCATA
*
92677318 TATATTATATATA-AATAACCAAAACCACTATA
1 TATATTATATATATAA-CACCAAAACC-C-ATA
*
92677350 TGTATATATTATATATATACAC
1 TATAT-TA-TATATATA-ACAC
92677372 ATACCTTTTA
Statistics
Matches: 85, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
29 4 0.05
30 58 0.68
31 4 0.05
32 7 0.08
33 2 0.02
34 6 0.07
35 3 0.04
36 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (30 bp):
TATATTATATATATAACACCAAAACCCATA
Found at i:92679334 original size:6 final size:6
Alignment explanation
Indices: 92679320--92679353 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
92679310 ATGATTGTAA
* *
92679320 ATTTCC ATTTTC ATTTTC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
92679354 TTGGAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTCC
Found at i:92679343 original size:18 final size:18
Alignment explanation
Indices: 92679320--92679354 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
92679310 ATGATTGTAA
*
92679320 ATTTCCATTTTCATTTTC
1 ATTTCCATTTCCATTTTC
92679338 ATTTCCATTTCCATTTT
1 ATTTCCATTTCCATTTT
92679355 TGGAAACCTA
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:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTC
Found at i:92683163 original size:28 final size:29
Alignment explanation
Indices: 92683092--92683192 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
92683082 ATAGTGAATC
*
92683092 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
*
92683121 CACACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
92683149 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
92683179 CGCACACTTAGTGC
1 CGCACACTTAGTGC
92683193 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.35
29 19 0.31
30 19 0.31
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:92687484 original size:24 final size:25
Alignment explanation
Indices: 92687457--92687506 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
92687447 CCCTTATAAT
* *
92687457 GTGAAAATGACC-TTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
92687481 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
92687506 G
1 G
92687507 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:92687562 original size:10 final size:10
Alignment explanation
Indices: 92687547--92687585 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
92687537 TGCTTTTGTA
92687547 CATGATATGC
1 CATGATATGC
92687557 CATGATATGC
1 CATGATATGC
92687567 ACATGATATGC
1 -CATGATATGC
92687578 CATGATAT
1 CATGATAT
92687586 ATTCAATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:92687571 original size:21 final size:21
Alignment explanation
Indices: 92687546--92687585 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
92687536 CTGCTTTTGT
92687546 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
92687567 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
92687586 ATTCAATATG
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:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:92695311 original size:25 final size:25
Alignment explanation
Indices: 92695283--92695333 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
92695273 CCCTTATAAT
* * *
92695283 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
92695308 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
92695333 G
1 G
92695334 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:92695389 original size:10 final size:10
Alignment explanation
Indices: 92695374--92695412 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
92695364 TGCTTTTGTA
92695374 CATGATATGC
1 CATGATATGC
92695384 CATGATATGC
1 CATGATATGC
92695394 ACATGATATGC
1 -CATGATATGC
92695405 CATGATAT
1 CATGATAT
92695413 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:92695398 original size:21 final size:21
Alignment explanation
Indices: 92695373--92695412 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
92695363 CTGCTTTTGT
92695373 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
92695394 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
92695413 ATTCACATAT
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:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:92696643 original size:43 final size:43
Alignment explanation
Indices: 92696588--92696803 Score: 310
Period size: 43 Copynumber: 5.0 Consensus size: 43
92696578 ATATCATACA
* *
92696588 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
92696631 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCACGTATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
*
92696674 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
92696717 ATGTCAATGTCCCAGACGTGGTCTTACACGTAATCACATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
92696760 ACGCCAACGTCCCAGACATGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
92696803 A
1 A
92696804 AATCACATAT
Statistics
Matches: 154, Mismatches: 15, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
42 3 0.02
43 148 0.96
44 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:92697386 original size:15 final size:15
Alignment explanation
Indices: 92697363--92697392 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92697353 TCGAAAATTC
92697363 TAATACAAAACATAT
1 TAATACAAAACATAT
*
92697378 TAATCCAAAACATAT
1 TAATACAAAACATAT
92697393 CTTTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:92699738 original size:33 final size:33
Alignment explanation
Indices: 92699701--92699852 Score: 94
Period size: 32 Copynumber: 4.7 Consensus size: 33
92699691 TAACCAAATG
* * *
92699701 GTACAATTTGAAAAGGTTATGTACACCTTGTGT
1 GTACAACTTGAAAAGGTAAGGTACACCTTGTGT
* * * * *
92699734 GTAC-AGTTGAAAATGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTAAGGTACACCTTGTGT
* * * * *
92699766 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACT-TGAAAAGGTAAGGTACACCTTGTGT
* * * **
92699799 GTACCACTTGGAAAGG-AATGTACACCTTAAGT
1 GTACAACTTGAAAAGGTAAGGTACACCTTGTGT
* *
92699831 GTACAACTGGAAAAGGAAAGGT
1 GTACAACTTGAAAAGGTAAGGT
92699853 TTATCGGAAA
Statistics
Matches: 95, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
32 51 0.54
33 43 0.45
34 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTAAGGTACACCTTGTGT
Found at i:92699764 original size:32 final size:31
Alignment explanation
Indices: 92699708--92699802 Score: 100
Period size: 32 Copynumber: 3.0 Consensus size: 31
92699698 ATGGTACAAT
* * *
92699708 TTGAAAAGGTTATGTACACCTTGTGTGTACA
1 TTGAAAAGGTTAGGTATACTTTGTGTGTACA
* *
92699739 GTTGAAAATGTTAGGTATACTTTGTGTATACCA
1 -TTGAAAAGGTTAGGTATACTTTGTGTGTA-CA
**
92699772 TATGAAAAGGAAAGGTATACTTTGTGTGTAC
1 T-TGAAAAGGTTAGGTATACTTTGTGTGTAC
92699803 CACTTGGAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
32 26 0.50
33 26 0.50
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (31 bp):
TTGAAAAGGTTAGGTATACTTTGTGTGTACA
Done.