Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 278 of 325
Found at i:86298313 original size:22 final size:22
Alignment explanation
Indices: 86298288--86298359 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
86298278 GCTCACATTC
86298288 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
86298310 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
86298334 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
86298357 ATC
1 ATC
86298360 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:86298389 original size:25 final size:25
Alignment explanation
Indices: 86298310--86298389 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
86298300 ATTCGGCCTT
**
86298310 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
86298335 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
86298357 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
86298382 ATCACATA
1 ATCACATA
86298390 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:86305416 original size:13 final size:13
Alignment explanation
Indices: 86305394--86305426 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
86305384 AAGGGTTTGT
86305394 TTAT-TAAACTAA
1 TTATCTAAACTAA
86305406 TTATCTAAACTAA
1 TTATCTAAACTAA
*
86305419 TTAACTAA
1 TTATCTAA
86305427 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:86307917 original size:27 final size:30
Alignment explanation
Indices: 86307865--86307925 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 30
86307855 ATGGATTTAA
86307865 ATTACTTATTATTTAAGTAAATAGATATTT
1 ATTACTTATTATTTAAGTAAATAGATATTT
*
86307895 ATTATTTATTA-TTAAGT-AA-AGATATTT
1 ATTACTTATTATTTAAGTAAATAGATATTT
86307922 ATTA
1 ATTA
86307926 ATTAGATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 12 0.40
28 2 0.07
29 6 0.20
30 10 0.33
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (30 bp):
ATTACTTATTATTTAAGTAAATAGATATTT
Found at i:86307937 original size:29 final size:29
Alignment explanation
Indices: 86307877--86307937 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
86307867 TACTTATTAT
* *
86307877 TTAAGTAAATAGATATTTATTATTTATTA
1 TTAAGTAAATAGATATTTATTATTGATAA
86307906 TTAAGT-AA-AGATATTTATTAATTAGATAA
1 TTAAGTAAATAGATATTTATT-ATT-GATAA
86307935 TTA
1 TTA
86307938 TATTATAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 11 0.39
28 5 0.18
29 12 0.43
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (29 bp):
TTAAGTAAATAGATATTTATTATTGATAA
Found at i:86307940 original size:21 final size:20
Alignment explanation
Indices: 86307886--86307941 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
86307876 TTTAAGTAAA
*
86307886 TAGATATTTATTATTTATTAT
1 TAGATAATTA-TATTTATTAT
**
86307907 TA-AGTAAAGATATTTATTAAT
1 TAGA-TAATTATATTTATT-AT
86307928 TAGATAATTATATT
1 TAGATAATTATATT
86307942 ATAAGATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
20 9 0.33
21 17 0.63
22 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
TAGATAATTATATTTATTAT
Found at i:86309244 original size:21 final size:20
Alignment explanation
Indices: 86309218--86309274 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
86309208 TGATAGTTTC
86309218 TGAATAACTAAATTACTGTAT
1 TGAATAACTAAA-TACTGTAT
** *
86309239 TGAATAA-TTGATAGT-TAT
1 TGAATAACTAAATACTGTAT
86309257 TGAATAACTAAACTACTG
1 TGAATAACTAAA-TACTG
86309275 CACTGAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
18 10 0.37
19 5 0.19
20 5 0.19
21 7 0.26
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (20 bp):
TGAATAACTAAATACTGTAT
Found at i:86309246 original size:39 final size:39
Alignment explanation
Indices: 86309187--86309337 Score: 203
Period size: 39 Copynumber: 3.9 Consensus size: 39
86309177 TTAATAGTGG
*
86309187 TAAACTACTGTACTGAATAATTGATAGTTTCTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * *
86309226 TAAATTACTGTATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * *
86309265 TAAACTACTGCACTGAATATTTGATAGTTACTGAATGAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * * *
86309304 TAAATTACTATACTGAATAACTGATTGTTACTGA
1 TAAACTACTGTACTGAATAATTGATAGTTACTGA
86309338 TTAAATATGA
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (39 bp):
TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
Found at i:86309259 original size:18 final size:18
Alignment explanation
Indices: 86309200--86309263 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
86309190 ACTACTGTAC
86309200 TGAATAATTGATAGTT-T
1 TGAATAATTGATAGTTAT
** *
86309217 CTGAATAACTAAATTACTGTAT
1 -TGAATAA-TTGA-TAGT-TAT
86309239 TGAATAATTGATAGTTAT
1 TGAATAATTGATAGTTAT
86309257 TGAATAA
1 TGAATAA
86309264 CTAAACTACT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
18 17 0.47
19 5 0.14
20 5 0.14
21 8 0.22
22 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (18 bp):
TGAATAATTGATAGTTAT
Found at i:86313737 original size:43 final size:43
Alignment explanation
Indices: 86313689--86313847 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
86313679 AGCTCGTACA
* * *
86313689 ATGCCAACGTCCCAGACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* * * *
86313732 ATGCC-ACTGTCCCAGATAGGGTTTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCAAATATCG
* * *
86313774 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATCA-AATATCG
* *
86313818 ATGCCAACATCCCAGACATGGTATTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
86313848 AGAACACATA
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.29
43 38 0.40
44 29 0.31
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:86316371 original size:32 final size:33
Alignment explanation
Indices: 86316301--86316372 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 33
86316291 ATTCACATAT
*
86316301 CTTAAATAGATATAACCATTCAAGTAAGACCTTA
1 CTTAAATAAATATAACCATTCAAGTAAGA-CTTA
* * *
86316335 --TAAATAAATATAACTATTCAATTAATA-TTA
1 CTTAAATAAATATAACCATTCAAGTAAGACTTA
86316365 CTTAAATA
1 CTTAAATA
86316373 GTTAGAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
30 3 0.09
32 29 0.91
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (33 bp):
CTTAAATAAATATAACCATTCAAGTAAGACTTA
Found at i:86318036 original size:54 final size:54
Alignment explanation
Indices: 86317977--86318097 Score: 163
Period size: 54 Copynumber: 2.2 Consensus size: 54
86317967 ACCATGGCTG
* * *
86317977 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTAGCAAAGCCA
* * *
86318031 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTAGCAAAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTAGCAAAGCCA
*
86318085 CCAGATCAGATAT
1 CCAGAACAGATAT
86318098 TTATGGCATA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 41 0.69
55 18 0.31
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTAGCAAAGCCA
Found at i:86318097 original size:27 final size:27
Alignment explanation
Indices: 86317977--86318112 Score: 148
Period size: 27 Copynumber: 5.0 Consensus size: 27
86317967 ACCATGGCTG
* * * *
86317977 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
* *
86318003 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATATTTGTGGCAGAGCCA
* *
86318031 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
* *
86318058 CCAGATCAGATATTTGTAGCAAAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
* *
86318085 CCAGATCAGATATTTATGGCATAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
86318112 C
1 C
86318113 TAAAACGCTT
Statistics
Matches: 92, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.05
27 72 0.78
28 15 0.16
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (27 bp):
CCAGATCAGATATTTGTGGCAGAGCCA
Found at i:86318542 original size:16 final size:15
Alignment explanation
Indices: 86318521--86318552 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
86318511 CCAAAATACC
86318521 GACTTTTCGGCATTTT
1 GACTTTTCGGC-TTTT
86318537 GACTTTTCGGCTTTT
1 GACTTTTCGGCTTTT
86318552 G
1 G
86318553 CCAATCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.09, C:0.19, G:0.22, T:0.50
Consensus pattern (15 bp):
GACTTTTCGGCTTTT
Found at i:86319763 original size:26 final size:26
Alignment explanation
Indices: 86319727--86319836 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
86319717 CATGAAATTC
86319727 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
86319753 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
86319779 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
86319805 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
86319831 TTATCA
1 TTATCA
86319837 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:86324281 original size:49 final size:50
Alignment explanation
Indices: 86324100--86324297 Score: 245
Period size: 50 Copynumber: 4.0 Consensus size: 50
86324090 ATCCATTGTG
* *
86324100 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * * * * **
86324151 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * *
86324201 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
86324251 -GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
86324298 CCTTGTCTAC
Statistics
Matches: 126, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 42 0.33
50 46 0.37
51 38 0.30
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:86327278 original size:14 final size:14
Alignment explanation
Indices: 86327259--86327309 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
86327249 CTTGGGTTTC
86327259 TTTATTCTGGATTT
1 TTTATTCTGGATTT
86327273 TTTATTCTAGG-TTT
1 TTTATTCT-GGATTT
86327287 TTCTA-TCTTGGATTT
1 TT-TATTC-TGGATTT
86327302 CTTTATTC
1 -TTTATTC
86327310 AGTTTTCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 17 0.55
15 10 0.32
16 4 0.13
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.63
Consensus pattern (14 bp):
TTTATTCTGGATTT
Found at i:86329799 original size:50 final size:49
Alignment explanation
Indices: 86329679--86329868 Score: 236
Period size: 50 Copynumber: 3.8 Consensus size: 49
86329669 TGAGGTCGCA
* * * *
86329679 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
* * **
86329730 TATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* *
86329780 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
86329829 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
86329869 CCTTGTCTAC
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 42 0.35
50 46 0.38
51 33 0.27
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:86332217 original size:29 final size:29
Alignment explanation
Indices: 86332183--86332256 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
86332173 CAAAAATAAT
*
86332183 ACAAAG-ATGCACTGAAGTGCAATAACAAA
1 ACAAAGTA-GCACCGAAGTGCAATAACAAA
* * *
86332212 GCAAAGTAGCACCGAAGTGTAATACCAAA
1 ACAAAGTAGCACCGAAGTGCAATAACAAA
*
86332241 ACAAAGTAGCATCGAA
1 ACAAAGTAGCACCGAA
86332257 ATAGAGTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.14
Consensus pattern (29 bp):
ACAAAGTAGCACCGAAGTGCAATAACAAA
Found at i:86332670 original size:7 final size:7
Alignment explanation
Indices: 86332658--86332686 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
86332648 TTTAACTCAC
86332658 TAACACT
1 TAACACT
86332665 TAACACT
1 TAACACT
86332672 TAACACT
1 TAACACT
86332679 TAACACT
1 TAACACT
86332686 T
1 T
86332687 CATTTAAGCT
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:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (7 bp):
TAACACT
Found at i:86335638 original size:40 final size:41
Alignment explanation
Indices: 86335583--86335760 Score: 186
Period size: 40 Copynumber: 4.4 Consensus size: 41
86335573 CAATTATGTT
86335583 TGGCACTTAGTGTGCGAATTGGAATAGCTTCGGCTAT-ATA
1 TGGCACTTAGTGTGCGAATTGGAATAGCTTCGGCTATGATA
*
86335623 TGGCACTTAGTGTGCGAATCGGAATAGCTTCGGCTAT-ATA
1 TGGCACTTAGTGTGCGAATTGGAATAGCTTCGGCTATGATA
*
86335663 TGGCACTTAGTGTGCAAGAA-T-GAGATCGCTTCGGCTATGA-A
1 TGGCACTTAGTGTGC--GAATTGGA-ATAGCTTCGGCTATGATA
* * * ** ** * *
86335704 AGGCACTTAGTATGTGAGATTATAATAGCTTTAGCTATGCTT
1 TGGCACTTAGTGTGCGA-ATTGGAATAGCTTCGGCTATGATA
86335746 TGGCACTTAGTGTGC
1 TGGCACTTAGTGTGC
86335761 AAGATATCGA
Statistics
Matches: 115, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
39 2 0.02
40 57 0.50
41 39 0.34
42 17 0.15
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGAATTGGAATAGCTTCGGCTATGATA
Found at i:86335697 original size:81 final size:84
Alignment explanation
Indices: 86335583--86335764 Score: 198
Period size: 81 Copynumber: 2.2 Consensus size: 84
86335573 CAATTATGTT
* * *
86335583 TGGCACTTAGTGTGC--GAATTGGAATAGCTTCGGCTAT-ATATGGCACTTAGTGTGCGA-ATCG
1 TGGCACTTAGTGTGCAAGAATTGGAATAGCTTCGGCTATGA-AAGGCACTTAGTATGCGAGATCA
*
86335644 GAATAGCTTCGGCTAT-ATA
65 GAATAGCTTCAGCTATGATA
* * *
86335663 TGGCACTTAGTGTGCAAGAA-T-GAGATCGCTTCGGCTATGAAAGGCACTTAGTATGTGAGATTA
1 TGGCACTTAGTGTGCAAGAATTGGA-ATAGCTTCGGCTATGAAAGGCACTTAGTATGCGAGATCA
* * * *
86335726 TAATAGCTTTAGCTATGCTT
65 GAATAGCTTCAGCTATGATA
86335746 TGGCACTTAGTGTGCAAGA
1 TGGCACTTAGTGTGCAAGA
86335765 TATCGAGTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
80 17 0.20
81 29 0.34
82 19 0.22
83 20 0.24
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (84 bp):
TGGCACTTAGTGTGCAAGAATTGGAATAGCTTCGGCTATGAAAGGCACTTAGTATGCGAGATCAG
AATAGCTTCAGCTATGATA
Found at i:86335881 original size:12 final size:12
Alignment explanation
Indices: 86335864--86335888 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86335854 AGAAGTTATG
86335864 AACTTGTTCATA
1 AACTTGTTCATA
86335876 AACTTGTTCATA
1 AACTTGTTCATA
86335888 A
1 A
86335889 TCATGATGTA
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
AACTTGTTCATA
Found at i:86342165 original size:35 final size:35
Alignment explanation
Indices: 86342138--86342303 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
86342128 CATGGCAAAG
*
86342138 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
86342173 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
86342208 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
86342248 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
86342283 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
86342304 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:86342257 original size:75 final size:75
Alignment explanation
Indices: 86342138--86342308 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
86342128 CATGGCAAAG
** *
86342138 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
86342197 CCATACTGAGC
65 CCATACCGAGC
86342208 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
86342273 CATACCGAGT
66 CATACCGAGC
**
86342283 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
86342309 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:86362395 original size:52 final size:52
Alignment explanation
Indices: 86362333--86362437 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
86362323 TTGAGATAGC
86362333 CAAATAACAAGAACAAATGCAAGGAGCTAGGCATGAAAACATGTACCCAAGT
1 CAAATAACAAGAACAAATGCAAGGAGCTAGGCATGAAAACATGTACCCAAGT
86362385 CAAATAACAAGAACAAATGCAAGGAGCTAGGCATGAAAACATGTACCCAAGT
1 CAAATAACAAGAACAAATGCAAGGAGCTAGGCATGAAAACATGTACCCAAGT
86362437 C
1 C
86362438 GTTGAATCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (52 bp):
CAAATAACAAGAACAAATGCAAGGAGCTAGGCATGAAAACATGTACCCAAGT
Found at i:86367386 original size:3 final size:3
Alignment explanation
Indices: 86367378--86367453 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
86367368 TTAATTTTAA
* * *
86367378 TAT TAT TAT TAT TAC TAT TAT CTTT TAT TAT TAT CT-C TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT
* * * *
86367424 TAA CA- TAT TAT TAT TCT TAT TAT TAC TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
86367454 TTTGTTATCT
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:86367563 original size:9 final size:9
Alignment explanation
Indices: 86367546--86367582 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
86367536 TTACAAGCTG
86367546 TTTTATTTA
1 TTTTATTTA
*
86367555 TTTTCTTTA
1 TTTTATTTA
86367564 -TTTATTT-
1 TTTTATTTA
86367571 TTTTATTTA
1 TTTTATTTA
86367580 TTT
1 TTT
86367583 ACCTATTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 13 0.54
9 11 0.46
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTATTTA
Found at i:86367563 original size:13 final size:12
Alignment explanation
Indices: 86367546--86367582 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
86367536 TTACAAGCTG
86367546 TTTTATTTATTT
1 TTTTATTTATTT
86367558 TCTTTATTTATTT
1 T-TTTATTTATTT
86367571 TTTTATTTATTT
1 TTTTATTTATTT
86367583 ACCTATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTATTTATTT
Found at i:86370236 original size:3 final size:3
Alignment explanation
Indices: 86370225--86370304 Score: 60
Period size: 3 Copynumber: 27.7 Consensus size: 3
86370215 AAAAAATAAT
** * * *
86370225 TTA TT- TTA TTA TCG TTA TTA CTA TTA TCA TTA TTA TTA TTA TT- TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
86370271 TCT- TTG CTA TT- TTA TTA TTA TTA TTA TTA TTA TT
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
86370305 TTAAAAAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
2 7 0.11
3 53 0.87
4 1 0.02
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:86378967 original size:32 final size:32
Alignment explanation
Indices: 86378931--86378997 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
86378921 TTTGAAAACT
86378931 TTTCAAAACAAAATAAAAGAAAAATAATATAC
1 TTTCAAAACAAAATAAAAGAAAAATAATATAC
86378963 TTTCAAAACAAAATAAAAGAAAAATAATATAC
1 TTTCAAAACAAAATAAAAGAAAAATAATATAC
86378995 TTT
1 TTT
86378998 AGTATGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.25
Consensus pattern (32 bp):
TTTCAAAACAAAATAAAAGAAAAATAATATAC
Found at i:86380710 original size:48 final size:48
Alignment explanation
Indices: 86380621--86380809 Score: 218
Period size: 48 Copynumber: 3.9 Consensus size: 48
86380611 TGATACTAGG
* * * *
86380621 GTTATGTGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGACTTT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCTTT
* * * *
86380669 GTTACGAGAGCTAGTGTAAGACCATGTCTAGGACATAGCATCGGCCTC
1 GTTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTT
** * * * * *
86380717 AATATGTGAGCTAATGTAAGACCATGTTTAGAACATGGCATTGGCTTT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTT
*
86380765 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
86380810 ATCTTACCCT
Statistics
Matches: 113, Mismatches: 27, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
48 110 0.97
49 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
GTTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTT
Found at i:86380787 original size:96 final size:96
Alignment explanation
Indices: 86380623--86380809 Score: 302
Period size: 96 Copynumber: 1.9 Consensus size: 96
86380613 ATACTAGGGT
* *
86380623 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACTTTGTTACGAGAGCTAGTGTAA
1 TATGTGAGCCAATGTAAGACCATGTTTAGAACATGGCATCGACTTTGTTACGAGAGCTAGTGTAA
86380688 GACCATGTCTAGGACATAGCATCGGCCTCAA
66 GACCATGTCTAGGACATAGCATCGGCCTCAA
* * * *
86380719 TATGTGAGCTAATGTAAGACCATGTTTAGAACATGGCATTGGCTTTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAATGTAAGACCATGTTTAGAACATGGCATCGACTTTGTTACGAGAGCTAGTGTAA
* *
86380784 GACCATGTCTGGGACATGGCATCGGC
66 GACCATGTCTAGGACATAGCATCGGC
86380810 ATCTTACCCT
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (96 bp):
TATGTGAGCCAATGTAAGACCATGTTTAGAACATGGCATCGACTTTGTTACGAGAGCTAGTGTAA
GACCATGTCTAGGACATAGCATCGGCCTCAA
Found at i:86384917 original size:40 final size:38
Alignment explanation
Indices: 86384873--86385032 Score: 111
Period size: 35 Copynumber: 4.3 Consensus size: 38
86384863 CCAACTAGAG
* *
86384873 CTGGGATCACAATTATTATCGTCGATATATCCGACTAGCA
1 CTGGG-TCACAATTA-TATCGTAGGTATATCCGACTAGCA
* * * *
86384913 CTGGGT-GCAA--ATATCGTTGGTTTATCCAACTAG-A
1 CTGGGTCACAATTATATCGTAGGTATATCCGACTAGCA
*
86384947 GCTGGGCTCACAATTACTATCGTAGGTATACCCGACTAGCA
1 -CTGGG-TCACAATTA-TATCGTAGGTATATCCGACTAGCA
* * * *
86384988 CTGGGT-GCAA--ATATCGTTGGTTTATCCAACTAG-A
1 CTGGGTCACAATTATATCGTAGGTATATCCGACTAGCA
86385022 CTGGGCTCACA
1 CTGGG-TCACA
86385033 TTTAATACTG
Statistics
Matches: 95, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
34 7 0.07
35 42 0.44
36 5 0.05
37 3 0.03
38 6 0.06
39 3 0.03
40 28 0.29
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (38 bp):
CTGGGTCACAATTATATCGTAGGTATATCCGACTAGCA
Found at i:86384932 original size:75 final size:75
Alignment explanation
Indices: 86384853--86385032 Score: 299
Period size: 75 Copynumber: 2.4 Consensus size: 75
86384843 CGCAATTACA
* * * * *
86384853 GTTGGTTCATCCAACTAGAGCTGGGATCACAATTATTATCGTCGATATATCCGACTAGCACTGGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTAGATATACCCGACTAGCACTGGG
86384918 TGCAAATATC
66 TGCAAATATC
*
86384928 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTAGGTATACCCGACTAGCACTGGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTAGATATACCCGACTAGCACTGGG
86384993 TGCAAATATC
66 TGCAAATATC
86385003 GTTGGTTTATCCAACTAGA-CTGGGCTCACA
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACA
86385033 TTTAATACTG
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 11 0.11
75 88 0.89
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (75 bp):
GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTAGATATACCCGACTAGCACTGGG
TGCAAATATC
Found at i:86384939 original size:35 final size:34
Alignment explanation
Indices: 86384900--86385026 Score: 128
Period size: 35 Copynumber: 3.5 Consensus size: 34
86384890 ATCGTCGATA
*
86384900 TATCCGACTAGCACTGGGTGCAAATATCGTTGGTT
1 TATCCAACTAG-ACTGGGTGCAAATATCGTTGGTT
* * *
86384935 TATCCAACTAGAGCTGGGCTCACAATTACTATCGTAGGTA
1 TATCCAACTAGA-CTGGG-T-GCAA--A-TATCGTTGGTT
* *
86384975 TACCCGACTAGCACTGGGTGCAAATATCGTTGGTT
1 TATCCAACTAG-ACTGGGTGCAAATATCGTTGGTT
86385010 TATCCAACTAGACTGGG
1 TATCCAACTAGACTGGG
86385027 CTCACATTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
34 7 0.09
35 33 0.45
36 2 0.03
37 3 0.04
38 3 0.04
39 2 0.03
40 23 0.31
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (34 bp):
TATCCAACTAGACTGGGTGCAAATATCGTTGGTT
Found at i:86389528 original size:17 final size:16
Alignment explanation
Indices: 86389460--86389525 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 16
86389450 TAATCACATT
* *
86389460 AATATTAAATTAATAA
1 AATATTAAATTTATTA
*
86389476 AATATT--ATCTAGTTA
1 AATATTAAATTTA-TTA
* *
86389491 AATATTTAATTTAATTT
1 AATATTAAATTT-ATTA
86389508 AATATTAAATTTATTA
1 AATATTAAATTTATTA
86389524 AA
1 AA
86389526 ATAATATTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 3 0.08
15 8 0.21
16 11 0.28
17 16 0.41
18 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
AATATTAAATTTATTA
Found at i:86389854 original size:19 final size:19
Alignment explanation
Indices: 86389826--86389863 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
86389816 AGTTTTTGGG
* *
86389826 TTTCGTTCTTGGGTTCAAT
1 TTTCGATCTTGGGTACAAT
86389845 TTTCGATCTTGGGTACAAT
1 TTTCGATCTTGGGTACAAT
86389864 ATTCAAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (19 bp):
TTTCGATCTTGGGTACAAT
Found at i:86391628 original size:17 final size:17
Alignment explanation
Indices: 86391606--86391639 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
86391596 GTGTAAGTGT
86391606 TAACTACTTGTTCTAGA
1 TAACTACTTGTTCTAGA
86391623 TAACTACTTGTTCTAGA
1 TAACTACTTGTTCTAGA
86391640 AGTTATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
TAACTACTTGTTCTAGA
Found at i:86393396 original size:17 final size:18
Alignment explanation
Indices: 86393359--86393398 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
86393349 TGAATAATTT
* *
86393359 AAAATAATATAATATTCA
1 AAAATAATATAATAATAA
86393377 AAAAT-ATATAATAATAA
1 AAAATAATATAATAATAA
86393394 AAAAT
1 AAAAT
86393399 TCAAACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAATAATATAATAATAA
Found at i:86395042 original size:13 final size:13
Alignment explanation
Indices: 86395024--86395048 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86395014 GCTAAGTCCT
86395024 TAGTTCTATGATA
1 TAGTTCTATGATA
86395037 TAGTTCTATGAT
1 TAGTTCTATGAT
86395049 GTTCGGTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (13 bp):
TAGTTCTATGATA
Found at i:86396724 original size:31 final size:27
Alignment explanation
Indices: 86396685--86396745 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 27
86396675 ATCAAATTTT
86396685 AATTTTAATTTAATCATTTATATTTAAATA
1 AATTTTAATTTAATC--TTATA-TTAAATA
*
86396715 AATTATTAATTTATTCTTATATTAAATA
1 AATT-TTAATTTAATCTTATATTAAATA
86396743 AAT
1 AAT
86396746 ATAATTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 10 0.34
29 5 0.17
30 4 0.14
31 10 0.34
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
AATTTTAATTTAATCTTATATTAAATA
Found at i:86401090 original size:21 final size:21
Alignment explanation
Indices: 86401040--86401091 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
86401030 TTTCGTTTCT
* *
86401040 TTATTAAATATTATTATTCTTA
1 TTATT-AATATTATTACTATTA
86401062 TT-TCTAATATTATTACTATTA
1 TTAT-TAATATTATTACTATTA
86401083 TTATTAATA
1 TTATTAATA
86401092 ATAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATTAATATTATTACTATTA
Found at i:86401131 original size:8 final size:8
Alignment explanation
Indices: 86401117--86401158 Score: 66
Period size: 8 Copynumber: 5.0 Consensus size: 8
86401107 TATATTTTTA
86401117 TTATATAT
1 TTATATAT
86401125 GTATATATAT
1 -T-TATATAT
86401135 TTATATAT
1 TTATATAT
86401143 TTATATAT
1 TTATATAT
86401151 TTATATAT
1 TTATATAT
86401159 AGTATTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 23 0.72
9 2 0.06
10 7 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
TTATATAT
Found at i:86401147 original size:16 final size:18
Alignment explanation
Indices: 86401117--86401163 Score: 71
Period size: 16 Copynumber: 2.7 Consensus size: 18
86401107 TATATTTTTA
86401117 TTATATATGTATATATAT
1 TTATATATGTATATATAT
86401135 TTATATAT-T-TATATAT
1 TTATATATGTATATATAT
86401151 TTATATATAGTAT
1 TTATATAT-GTAT
86401164 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 15 0.58
17 1 0.04
18 9 0.35
19 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
TTATATATGTATATATAT
Found at i:86401159 original size:10 final size:10
Alignment explanation
Indices: 86401107--86401159 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 10
86401097 AAAATTAGTG
*
86401107 TATATTTTTA
1 TATATATTTA
*
86401117 TTATATATGTA
1 -TATATATTTA
86401128 TATATA-TT-
1 TATATATTTA
86401136 TATATA-TT-
1 TATATATTTA
86401144 TATATATTTA
1 TATATATTTA
86401154 TATATA
1 TATATA
86401160 GTATTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 14 0.38
9 3 0.08
10 12 0.32
11 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TATATATTTA
Found at i:86401167 original size:16 final size:16
Alignment explanation
Indices: 86401115--86401168 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
86401105 TGTATATTTT
*
86401115 TATTATATATGTATATA
1 TATT-TATATATATATA
*
86401132 TATTTATATATTTATA
1 TATTTATATATATATA
86401148 TATTTATATATAGTAT-
1 TATTTATATATA-TATA
86401164 TATTT
1 TATTT
86401169 TTAATTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 26 0.79
17 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
TATTTATATATATATA
Found at i:86401171 original size:18 final size:18
Alignment explanation
Indices: 86401117--86401171 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
86401107 TATATTTTTA
86401117 TTATATAT-GTATATATAT
1 TTATATATAGTAT-TATAT
*
86401135 TTATATAT-TTA-TATAT
1 TTATATATAGTATTATAT
*
86401151 TTATATATAGTATTATTT
1 TTATATATAGTATTATAT
86401169 TTA
1 TTA
86401172 ATTACTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 13 0.41
17 2 0.06
18 17 0.53
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
TTATATATAGTATTATAT
Found at i:86401205 original size:16 final size:15
Alignment explanation
Indices: 86401114--86401206 Score: 54
Period size: 16 Copynumber: 6.1 Consensus size: 15
86401104 GTGTATATTT
*
86401114 TTATTATATATGTATA
1 TTATTATTTAT-TATA
86401130 -TA-TATTTA-TATA
1 TTATTATTTATTATA
86401142 TTTATATATTTATATATA
1 -TTAT-TATTTAT-TATA
*
86401160 GTATTATTT-TTA-A
1 TTATTATTTATTATA
*
86401173 TTACTTTATTT-TAATA
1 TTA--TTATTTATTATA
86401189 TTATTATTATATTATA
1 TTATTATT-TATTATA
86401205 TT
1 TT
86401207 TGCTTTTTGT
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
12 4 0.07
13 3 0.05
14 14 0.23
15 12 0.20
16 21 0.34
17 3 0.05
18 4 0.07
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (15 bp):
TTATTATTTATTATA
Found at i:86401364 original size:34 final size:34
Alignment explanation
Indices: 86401326--86401406 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
86401316 ATTACAAATA
*
86401326 TATTATTTCTT-TTATTATATTATT-AGAATATTAT
1 TATTATTTATTATT-TTAT-TTATTGAGAATATTAT
* *
86401360 TATTATTTATTATTTTCTTTATTGTGAATATTAT
1 TATTATTTATTATTTTATTTATTGAGAATATTAT
*
86401394 TGTTATTT-TTATT
1 TATTATTTATTATT
86401407 CTAATATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 10 0.24
34 29 0.71
35 2 0.05
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (34 bp):
TATTATTTATTATTTTATTTATTGAGAATATTAT
Found at i:86401393 original size:24 final size:22
Alignment explanation
Indices: 86401366--86401421 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
86401356 TTATTATTAT
*
86401366 TTATTATTTTCTTTATTGTGAATA
1 TTATTATTTT-TTTATTCT-AATA
*
86401390 TTATTGTTATTTTTATTCTAATA
1 TTATTATT-TTTTTATTCTAATA
86401413 TTA-TATTTT
1 TTATTATTTT
86401422 AACATTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 3 0.11
23 7 0.25
24 14 0.50
25 2 0.07
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.66
Consensus pattern (22 bp):
TTATTATTTTTTTATTCTAATA
Found at i:86414986 original size:43 final size:44
Alignment explanation
Indices: 86414898--86414986 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
86414888 TTATGCCTAA
* *
86414898 AACAAAAAAGATTAAGGTGAAAACCCGAAAAGGGCGTCTTGATG
1 AACAAAAAAGATTAAGGTGAAAACCCGAAAAGGGCGTCCTAATG
* * *
86414942 AACAAAAAGGATT-AGGATGAAAACCTG-AGAGGGCGTCCTAATG
1 AACAAAAAAGATTAAGG-TGAAAACCCGAAAAGGGCGTCCTAATG
86414985 AA
1 AA
86414987 GTAAACCTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 18 0.46
44 21 0.54
ACGTcount: A:0.45, C:0.13, G:0.26, T:0.16
Consensus pattern (44 bp):
AACAAAAAAGATTAAGGTGAAAACCCGAAAAGGGCGTCCTAATG
Found at i:86415855 original size:77 final size:77
Alignment explanation
Indices: 86415756--86416110 Score: 454
Period size: 77 Copynumber: 4.7 Consensus size: 77
86415746 TGATGTTTTT
* *
86415756 ATTTCTGTTTTT--AAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
1 ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
* *
86415819 AAGGTATTTTTA
66 GAGGTATTTTCA
* * * * * * *
86415831 GTTCCTATTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACGCACT
1 ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
86415896 GAGGTATTTTCA
66 GAGGTATTTTCA
* *
86415908 A-TT-TATGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCT
1 ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
* *
86415971 GATGTATTTT-T
66 GAGGTATTTTCA
* *
86415982 GTTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGAT-ACACGC
1 ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TCACACGC
86416046 TGAGGTATTTTCA
65 TGAGGTATTTTCA
* * * *
86416059 ATTTATGTTTTTCAAAAAAAT-AGACTCATATTGCGAGAAGTGAGTTAAGCCT
1 ATTTCTATTTTTCAAAAAAATCA-ACTCATATTGCGAGAGGTGAGTTGAGCCT
86416111 TTTAGTTTCT
Statistics
Matches: 240, Mismatches: 33, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
75 73 0.30
76 66 0.28
77 101 0.42
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (77 bp):
ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
GAGGTATTTTCA
Found at i:86417308 original size:12 final size:14
Alignment explanation
Indices: 86417290--86417322 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
86417280 TATTAAGCAA
86417290 AAAAAAAGAA-ACT
1 AAAAAAAGAACACT
*
86417303 AAAAAAAAAACACT
1 AAAAAAAGAACACT
86417317 AAAAAA
1 AAAAAA
86417323 GTACATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.82, C:0.09, G:0.03, T:0.06
Consensus pattern (14 bp):
AAAAAAAGAACACT
Found at i:86417308 original size:15 final size:14
Alignment explanation
Indices: 86417288--86417322 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
86417278 ATTATTAAGC
86417288 AAAAAAAAAGAAACT
1 AAAAAAAAA-AAACT
*
86417303 AAAAAAAAAACACT
1 AAAAAAAAAAAACT
86417317 AAAAAA
1 AAAAAA
86417323 GTACATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.83, C:0.09, G:0.03, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAAAACT
Found at i:86417884 original size:3 final size:3
Alignment explanation
Indices: 86417876--86417919 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
86417866 CTTTATTAAA
* *
86417876 TAT TAT TAT TAT TAT T-T CTAA TAT TAT TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA
86417920 ATAAAATTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:86417900 original size:12 final size:12
Alignment explanation
Indices: 86417874--86417922 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
86417864 TTCTTTATTA
86417874 AATATTATTA-T
1 AATATTATTACT
*
86417885 --TATTATTTCT
1 AATATTATTACT
86417895 AATATTATTACT
1 AATATTATTACT
* *
86417907 ATTATTATTATT
1 AATATTATTACT
86417919 AATA
1 AATA
86417923 AAATTAGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
9 7 0.23
10 1 0.03
12 22 0.73
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (12 bp):
AATATTATTACT
Found at i:86417964 original size:8 final size:8
Alignment explanation
Indices: 86417942--86417975 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
86417932 TATATTTTTA
86417942 TTATATAT
1 TTATATAT
86417950 GTATATATAT
1 -T-TATATAT
86417960 TTATATAT
1 TTATATAT
86417968 TTATATAT
1 TTATATAT
86417976 AATATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 15 0.62
9 2 0.08
10 7 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (8 bp):
TTATATAT
Found at i:86417988 original size:26 final size:26
Alignment explanation
Indices: 86417932--86418017 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
86417922 AAAATTAGTG
* * *
86417932 TATATTTTTATTATATATGTATATATATT
1 TATATATTTA-TATATA-ATAT-TATTTT
86417961 TATATATTTATATATAATATTATTTT
1 TATATATTTATATATAATATTATTTT
* *
86417987 TA-ATTACTTTAT-TTTAATATTATTAT
1 TATA-TA-TTTATATATAATATTATTTT
86418013 TATAT
1 TATAT
86418018 TATATTTGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.02
26 24 0.49
27 9 0.18
28 6 0.12
29 9 0.18
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (26 bp):
TATATATTTATATATAATATTATTTT
Found at i:86418211 original size:23 final size:22
Alignment explanation
Indices: 86418173--86418238 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
86418163 TATTAGAACA
* *
86418173 TTATTTTATTATTATTATTTTT
1 TTATTCTAATATTATTATTTTT
* *
86418195 TTATTGTGAATATTATTGTTATTT
1 TTATTCT-AATATTATTATT-TTT
86418219 TTATTCTAATATTA-TATTTT
1 TTATTCTAATATTATTATTTT
86418239 AATATTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 2 0.05
22 9 0.24
23 17 0.46
24 9 0.24
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.68
Consensus pattern (22 bp):
TTATTCTAATATTATTATTTTT
Found at i:86418951 original size:21 final size:21
Alignment explanation
Indices: 86418910--86418954 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
86418900 AATCAATTCA
*
86418910 ATTTTATTTTAAATATTTATT
1 ATTTTATTTTAAATATATATT
*
86418931 ATTTTATTTTTAACT-TATATT
1 ATTTTA-TTTTAAATATATATT
86418952 ATT
1 ATT
86418955 ATTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTATTTTAAATATATATT
Found at i:86419370 original size:18 final size:18
Alignment explanation
Indices: 86419319--86419373 Score: 71
Period size: 17 Copynumber: 3.1 Consensus size: 18
86419309 GTCAGCAAAT
86419319 AATTCAAAAATTATAAAA
1 AATTCAAAAATTATAAAA
86419337 AA-T-AAAAATATATAAAA
1 AATTCAAAAAT-TATAAAA
86419354 AATTCATAAAATT-TAAAA
1 AATTCA-AAAATTATAAAA
86419372 AA
1 AA
86419374 AAATTGACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 6 0.18
17 10 0.30
18 10 0.30
19 2 0.06
20 5 0.15
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTCAAAAATTATAAAA
Found at i:86419513 original size:32 final size:32
Alignment explanation
Indices: 86419467--86419534 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
86419457 AAAAAACATC
* *
86419467 ATTTTGACTCTTTTTTAAAAGGTTGATGGTCAA
1 ATTTTGAC-CCTTTTTAAAAGGTTGATGCTCAA
* *
86419500 ATTTT-ACCCTTTTTAATAGGTTGATTCTCAA
1 ATTTTGACCCTTTTTAAAAGGTTGATGCTCAA
86419531 ATTT
1 ATTT
86419535 AACTAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 24 0.77
32 2 0.06
33 5 0.16
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (32 bp):
ATTTTGACCCTTTTTAAAAGGTTGATGCTCAA
Found at i:86425093 original size:26 final size:26
Alignment explanation
Indices: 86425064--86425117 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
86425054 GAACAATTAT
*
86425064 ATCAAATTAAATTGAGTAAAAACACC
1 ATCAAATTAAATTGAGCAAAAACACC
86425090 ATCAAATTAAATTGAGCAAAAACACC
1 ATCAAATTAAATTGAGCAAAAACACC
86425116 AT
1 AT
86425118 TAACTTTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.22
Consensus pattern (26 bp):
ATCAAATTAAATTGAGCAAAAACACC
Found at i:86426793 original size:5 final size:5
Alignment explanation
Indices: 86426783--86426811 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
86426773 AGAAAACCGC
86426783 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
86426812 AGAGCTGAAA
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:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:86431426 original size:93 final size:93
Alignment explanation
Indices: 86431314--86431485 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
86431304 GCCCATAAGT
* *
86431314 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
86431379 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
86431407 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
86431472 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
86431486 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:86431481 original size:46 final size:46
Alignment explanation
Indices: 86431306--86431481 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
86431296 TGTAACCCGC
* * *
86431306 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
86431352 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
86431402 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
86431445 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
86431482 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:86437961 original size:49 final size:50
Alignment explanation
Indices: 86437838--86437966 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 50
86437828 CTAATAGTCA
** *
86437838 TAAGTGCAGGCTACTATGCGTACTTGATAACTTTGATCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTATGCGTACCAGATAACTTGGATCAC-TGTGTAGTAC
* * * *
86437889 TAAGTGCAGGCTACTACGTGTACCGGATAA-TTGGTTGCA-TGTGTAGTAC
1 TAAGTGCAGGCTACTATGCGTACCAGATAACTTGGAT-CACTGTGTAGTAC
86437938 TAAGTGCAGGCTACTATGCGTACCAGATA
1 TAAGTGCAGGCTACTATGCGTACCAGATA
86437967 GCTTCGGCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 36 0.53
50 4 0.06
51 28 0.41
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TAAGTGCAGGCTACTATGCGTACCAGATAACTTGGATCACTGTGTAGTAC
Found at i:86444429 original size:40 final size:40
Alignment explanation
Indices: 86444370--86444511 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
86444360 AAATTGAATG
* * *
86444370 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
86444410 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
86444450 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
86444490 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
86444512 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:86444512 original size:40 final size:39
Alignment explanation
Indices: 86444409--86444537 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
86444399 TGCTGGAAAT
* * *
86444409 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
86444449 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
86444489 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
86444529 TATATCCGG
1 TATATCCGG
86444538 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:86451628 original size:40 final size:40
Alignment explanation
Indices: 86451561--86451665 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
86451551 AAATTGAATG
* * * * *
86451561 ATATCCGGGCTAAGCCCCAAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
86451601 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
86451641 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
86451666 TTCGTGCGAG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:86451723 original size:37 final size:39
Alignment explanation
Indices: 86451598--86451725 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
86451588 TATGCTGGAA
* *
86451598 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGG-TAAGACCCGAAGGCATTTGTGCGAGTG
** * *
86451638 GCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGG-TAAGACCCGAAGGCATTTGTGCGAGTG
*
86451678 ATTCTATCC-GG-AAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGTAAGACCCGAAGGCATTTGTGCGA-GTG
86451715 ATTATATCCGG
1 ATTATATCCGG
86451726 TTATATTCCG
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
36 1 0.01
37 30 0.41
38 1 0.01
39 2 0.03
40 39 0.53
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
ATTATATCCGGGTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:86459713 original size:40 final size:40
Alignment explanation
Indices: 86459669--86459797 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
86459659 TGCTGGAAAT
* * *
86459669 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
86459709 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
86459749 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
86459789 TATATCCGG
1 TATATCCGG
86459798 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:86465365 original size:8 final size:8
Alignment explanation
Indices: 86465331--86465390 Score: 68
Period size: 8 Copynumber: 7.5 Consensus size: 8
86465321 TAATGATGTG
*
86465331 AATAATAA
1 AATATTAA
86465339 AATATATAA
1 AATAT-TAA
86465348 AATA-TAA
1 AATATTAA
86465355 AATATTAA
1 AATATTAA
*
86465363 AATATCAA
1 AATATTAA
*
86465371 AATATCAA
1 AATATTAA
*
86465379 AATATTAG
1 AATATTAA
86465387 AATA
1 AATA
86465391 ATAATAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.15
8 32 0.70
9 7 0.15
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:86465602 original size:22 final size:24
Alignment explanation
Indices: 86465542--86465606 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
86465532 CGTGATAATA
86465542 TTAAAAATATATACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
86465567 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
86465590 TT-AAAATATATACATAA
1 TTAAAAATATATACATAA
86465607 GATAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 21 0.55
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:86465662 original size:25 final size:24
Alignment explanation
Indices: 86465633--86465687 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
86465623 AAAATATATG
* *
86465633 TATATAAATAATATAGTATTAAAGA
1 TATATAAATAAAATAGTA-TAAAAA
*
86465658 TATATACATAAAATAGTATAAAAA
1 TATATAAATAAAATAGTATAAAAA
86465682 TATATA
1 TATATA
86465688 TACGTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (24 bp):
TATATAAATAAAATAGTATAAAAA
Found at i:86465699 original size:26 final size:25
Alignment explanation
Indices: 86465633--86465743 Score: 81
Period size: 26 Copynumber: 4.6 Consensus size: 25
86465623 AAAATATATG
* *
86465633 TATATAAATAATATAGTATTAAAGA
1 TATATACATAATATAGTATAAAAGA
* *
86465658 TATATACATAAAATAGTATAAAAATA
1 TATATACATAATATAGTAT-AAAAGA
* * **
86465684 TATATACGTAATATAGAATTTAA-A
1 TATATACATAATATAGTATAAAAGA
*
86465708 -ATATACCTAATATA-T-TAAAATGA
1 TATATACATAATATAGTATAAAA-GA
86465731 TATAT--ATAATATA
1 TATATACATAATATA
86465744 ATATTAAGAA
Statistics
Matches: 68, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.04
22 7 0.10
23 14 0.21
24 5 0.07
25 19 0.28
26 20 0.29
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (25 bp):
TATATACATAATATAGTATAAAAGA
Found at i:86465778 original size:2 final size:2
Alignment explanation
Indices: 86465771--86465797 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
86465761 AATAACAAAA
86465771 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
86465798 AAGGGTGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:86466353 original size:30 final size:30
Alignment explanation
Indices: 86466319--86466439 Score: 206
Period size: 30 Copynumber: 4.0 Consensus size: 30
86466309 AATGGAGCAA
* *
86466319 GTGTGGCTAGTGGATTTGGTGTTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
86466349 GTGTGCCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
86466379 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
86466409 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
86466439 G
1 G
86466440 CTAAGATTTA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:86467331 original size:14 final size:14
Alignment explanation
Indices: 86467312--86467343 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
86467302 TTGATTCTTA
86467312 AAAAGCAAAAATTG
1 AAAAGCAAAAATTG
86467326 AAAAGCAAAAATTG
1 AAAAGCAAAAATTG
86467340 AAAA
1 AAAA
86467344 TACCTCAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAGCAAAAATTG
Found at i:86467464 original size:192 final size:192
Alignment explanation
Indices: 86467081--86467521 Score: 579
Period size: 192 Copynumber: 2.3 Consensus size: 192
86467071 TGATCTTGAG
* * * * *
86467081 CTCAACTCATTTCTTGCAATATGAATTGACTCTTTAAAAA-AAATAGACATT-AAAACAGAAATT
1 CTCAACTCATCTCTTGCAATATGAGTTGATTC-TTAAAAAGCAA-A-A-ATTGAAAACAAAAATT
* *
86467144 AAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTGAAA
62 AAAAATACCTCA-CACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTGAAA
* *
86467209 CACAGAAATTAAAAAAAAAACAGAAATTAAAAACAGAATTTGAAAAGACCTTGGCGTGTGGCCCG
126 CACAGAAATT-AAAAAAAAACAGAAATTAAAAACAGAATTTGAAAAGACCTCGGCGTGTGGCCCA
86467274 AGA
190 AGA
*
86467277 CTCAACTCATCTCTTGCAATATGAGTTGATTCTTAAAAAGCAAAAATTGAAAAGCAAAAATTGAA
1 CTCAACTCATCTCTTGCAATATGAGTTGATTCTTAAAAAGCAAAAATTGAAAA-CAAAAATTAAA
* *
86467342 AATACCTCA-ACGTG-CCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAC
65 AATACCTCACACGTGACCC-AAGGCTCAACTCACCTCTCGCAATATGAGTT--TTTTTTTGAAAC
* *
86467405 ACAGAAATT-AAAAAAAA-AGACATTAAAGACAGAATTTGAAAAGACCTCGGCGTGTGGCCCAAG
127 ACAGAAATTAAAAAAAAACAGAAATTAAAAACAGAATTTGAAAAGACCTCGGCGTGTGGCCCAAG
86467468 A
192 A
* * * * *
86467469 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAA
1 CTCAACTCATCTCTTGCAATATGAGTTGATTCTTAAAAAGCAAAAATTGAAAA
86467522 TGCCTCAGCG
Statistics
Matches: 220, Mismatches: 19, Indels: 16
0.86 0.07 0.06
Matches are distributed among these distances:
192 93 0.42
193 45 0.20
194 5 0.02
195 46 0.21
196 31 0.14
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (192 bp):
CTCAACTCATCTCTTGCAATATGAGTTGATTCTTAAAAAGCAAAAATTGAAAACAAAAATTAAAA
ATACCTCACACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTGAAACACAG
AAATTAAAAAAAAACAGAAATTAAAAACAGAATTTGAAAAGACCTCGGCGTGTGGCCCAAGA
Found at i:86467557 original size:75 final size:75
Alignment explanation
Indices: 86467429--86468042 Score: 317
Period size: 75 Copynumber: 7.8 Consensus size: 75
86467419 AAAAGACATT
* * * * *
86467429 AAAGACAGAATTTGAAAAGACCTCGGCGTGTGGCCCAAGACTCAACTCACCTCTCGCAATATGAG
1 AAAG-CAGAAATTGAAAATACCTCAGCGTGT-GCCCGAGGCTCAACTCACCTCTCGCAATATGAG
86467494 TTGA-TTTTTGA
64 TTGATTTTTTGA
* * * *
86467505 AAAGCAGAAATTGAAAATGCCTCAGCGTGTGACCCGAGGCTTAACTCACCTCTTGCAATATAAGT
1 AAAGCAGAAATTGAAAATACCTCAGCGTGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGT
86467570 TGATTCTTTTGA
65 TGATT-TTTTGA
* ** ** * * * * *
86467582 AAAGTAGAAATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCC-CGAG-GCTCAACTCACCT
1 AAAGCAGAAATT-----G-A-AAA-T--ACCT-CAGC-GTGTGCCCGAG-GCTC-AA-CTCACCT
* *
86467645 CTCACAATGTGAGTTGATTTTTTTGATA
51 CTCGCAATATGAGTTGA-TTTTTTG--A
** *
86467673 AAAATAGAATTTGAAAATACCTCAGCGTGT-CCCGAGGCTCAA-TCACCTCTCGCAATATGAGTT
1 AAAGCAGAAATTGAAAATACCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
86467736 GA--TTTTGA
66 GATTTTTTGA
* * * *
86467744 CGAA-CAGAAATTGAAAATACCTCAGCACT-TGAGCTGAGGCTCAACTCACCTCTCGCAATATGA
1 -AAAGCAGAAATTGAAAATACCTCAGC-GTGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGA
86467807 GTTGGA-TTTTTGA
63 GTT-GATTTTTTGA
* ** ** * **
86467820 AAA--ATAAATTGACAAACGGAAATTGAAAATACCTCAGCGT-CTTGAGGCTCAACTCACCTCTC
1 AAAGCAGAAATTG----A---AAA-T--ACCT-CAGC-GTGTGCCCGAGGCTCAACTCACCTCTC
86467882 GCAATATGAGTTGATTTTTTTTG-
54 GCAATATGAGTTGA--TTTTTTGA
* * ** *
86467905 AAAGAAAGAAATTGAAAATACCTCAACGTGT-CTTGAGGCTCAACTTACCTCTCGCAATATGAGT
1 AAAG-CAGAAATTGAAAATACCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
86467969 TGATTTTTTTGA
65 TGA-TTTTTTGA
* * * *
86467981 AAAACAGAAATT-AAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCACAATGTGAG
1 AAAGCAGAAATTGAAAA-TACCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAG
86468043 CAGAAATTGA
Statistics
Matches: 420, Mismatches: 68, Indels: 101
0.71 0.12 0.17
Matches are distributed among these distances:
71 22 0.05
72 3 0.01
73 15 0.04
74 33 0.08
75 112 0.27
76 73 0.17
77 19 0.05
78 7 0.02
79 5 0.01
80 3 0.01
81 8 0.02
82 2 0.00
83 4 0.01
84 41 0.10
85 8 0.02
86 8 0.02
87 2 0.00
88 13 0.03
89 29 0.07
90 2 0.00
91 11 0.03
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (75 bp):
AAAGCAGAAATTGAAAATACCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGA
Found at i:86467597 original size:14 final size:14
Alignment explanation
Indices: 86467578--86467612 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
86467568 GTTGATTCTT
*
86467578 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
86467592 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
86467606 TTGAAAA
1 TTGAAAA
86467613 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:86467669 original size:89 final size:91
Alignment explanation
Indices: 86467501--86467689 Score: 265
Period size: 91 Copynumber: 2.1 Consensus size: 91
86467491 GAGTTGATTT
* * **
86467501 TTGAAAAGCAGAAATTGAAAATGCCTCAGCGTGTGACCCGAGGCTTAACTCACCTCTTGCAATAT
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGT-ACCCGAGGCTCAACTCACCTCTCACAATAT
*
86467566 AAGTTGATTCTTTTG-AAAAGTAGAAA
65 AAGTTGATTCTTTTGAAAAAATAGAAA
* *
86467592 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCACAATGTG
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCACAATATA
* *
86467656 AGTTGATTTTTTTGATAAAAATAGAAT
66 AGTTGATTCTTTTGA-AAAAATAGAAA
86467683 TTGAAAA
1 TTGAAAA
86467690 TACCTCAGCG
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
89 38 0.44
91 49 0.56
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (91 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCACAATATA
AGTTGATTCTTTTGAAAAAATAGAAA
Found at i:86467957 original size:234 final size:237
Alignment explanation
Indices: 86467469--86468042 Score: 738
Period size: 234 Copynumber: 2.4 Consensus size: 237
86467459 TGGCCCAAGA
* *
86467469 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAATGCCTCAGCGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CAGAAATTGAAAATACCTCAGCCT-
* * * *
86467534 TGACCCGAGGCTTAACTCACCTCTTGCAATATAAGTTGATTCTTTTGAAAAGTAGAAATTGAAAA
64 TGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAG-AGAAATTGAAAA
*
86467599 GCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATGTGAGTTGATT
128 GCAGAAATTGAAAATACCTCAGCG-GTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATT
* *
86467664 TTTTTGATAAAAATAGAATTTGAAAATACCTCAGCGTGTCCCGAGG
192 TTTTTGATAAAAATAGAAATTGAAAATACCTCAACGTGTCCCGAGG
*
86467710 CTCAA-TCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAATACCTCAGCACT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAATACCTCAGC-CT
* *
86467773 TGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGGA-T-TTTTGAAAA-ATAAATTGACAA
64 TGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTCTTTTGAAAAGAGAAATTGA-AA
* ** *
86467835 A-CGGAAATTGAAAATACCTCAGC-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
127 AGCAGAAATTGAAAATACCTCAGCGGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA-T
* **
86467898 TTTTTTGA-AAGAA-AGAAATTGAAAATACCTCAACGTGTCTTGAGG
191 TTTTTTGATAAAAATAGAAATTGAAAATACCTCAACGTGTCCCGAGG
*
86467943 CTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAATTACCTCAG-
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAACAGAAATTGAAAA-TACCTCAGC
* * * *
86468006 CGTGTCCTGAGGCTCAACTCACCTCTCACAATGTGAG
62 CTTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
86468043 CAGAAATTGA
Statistics
Matches: 296, Mismatches: 26, Indels: 28
0.85 0.07 0.08
Matches are distributed among these distances:
233 33 0.11
234 60 0.20
235 41 0.14
236 33 0.11
237 26 0.09
238 10 0.03
239 60 0.20
240 28 0.09
241 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (237 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCCTTG
ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGAGAAATTGAAAAGCA
GAAATTGAAAATACCTCAGCGGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
TGATAAAAATAGAAATTGAAAATACCTCAACGTGTCCCGAGG
Found at i:86468075 original size:58 final size:58
Alignment explanation
Indices: 86467985--86468100 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 58
86467975 TTTTGAAAAA
* * *
86467985 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATGTGAG
1 CAGAAATTAAAATTACCACAACGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAG
* * * *
86468043 CAGAAATTGAAAA-TACCACAATGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAG
1 CAGAAATT-AAAATTACCACAACGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAG
86468101 TTGATTTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 46 0.92
59 4 0.08
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (58 bp):
CAGAAATTAAAATTACCACAACGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAG
Found at i:86468219 original size:73 final size:72
Alignment explanation
Indices: 86468046--86468338 Score: 365
Period size: 73 Copynumber: 4.0 Consensus size: 72
86468036 ATGTGAGCAG
* ** * * *
86468046 AAATTGAAAATACCACAATGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTT-
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
86468110 AAAAAAT
66 AAAACAT
86468117 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
86468182 ACAAACAT
66 A-AAACAT
* * *
86468190 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATGT-AGGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA-GTTGA--TTT
*
86468254 TTGAAAACCAG
63 TTGAAAA-CAT
* *
86468265 AGATTGAAAATACCTCAGTGTGCCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AAATTGAAAATACCTCAGCGTG-C----CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
86468330 TTTTGAAAA
61 TTTTGAAAA
86468339 TAGAAATAAA
Statistics
Matches: 194, Mismatches: 16, Indels: 17
0.85 0.07 0.07
Matches are distributed among these distances:
71 58 0.30
72 2 0.01
73 59 0.30
74 3 0.02
75 28 0.14
76 1 0.01
78 10 0.05
80 32 0.16
81 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (72 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAACAT
Found at i:86468314 original size:80 final size:75
Alignment explanation
Indices: 86468043--86468333 Score: 337
Period size: 71 Copynumber: 3.9 Consensus size: 75
86468033 ACAATGTGAG
* ** * * *
86468043 CAGAAATTGAAAATACCACAATGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA--T
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
86468106 TTTT-A-AAA
66 TTTTGACAAA
* *
86468114 AATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
86468177 TTTTGACAAA
66 TTTTGACAAA
* * * *
86468187 CATAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATGT-AGGTTGATT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA-GTTGATT
86468251 TTTTTGA-AAA
65 TTTTTGACAAA
* *
86468261 CCAGAGATTGAAAATACCTCAGTGTGCCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -CAGAAATTGAAAATACCTCAGCGTG-C----CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
86468326 TGATTTTT
60 TGATTTTT
86468334 GAAAATAGAA
Statistics
Matches: 190, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
71 59 0.31
72 2 0.01
73 59 0.31
74 3 0.02
75 28 0.15
76 1 0.01
80 37 0.19
81 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (75 bp):
CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTGACAAA
Found at i:86475786 original size:10 final size:10
Alignment explanation
Indices: 86475771--86475800 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
86475761 TAAAACTTGA
86475771 ATTTAAAATC
1 ATTTAAAATC
*
86475781 ATTTAAAATA
1 ATTTAAAATC
86475791 ATTTAAAATC
1 ATTTAAAATC
86475801 GTTAGTACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (10 bp):
ATTTAAAATC
Found at i:86493414 original size:10 final size:10
Alignment explanation
Indices: 86493399--86493425 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
86493389 GTGATGTGTC
86493399 TCCGACCAAA
1 TCCGACCAAA
86493409 TCCGACCAAA
1 TCCGACCAAA
86493419 TCCGACC
1 TCCGACC
86493426 TCCGAGCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.44, G:0.11, T:0.11
Consensus pattern (10 bp):
TCCGACCAAA
Found at i:86500100 original size:29 final size:29
Alignment explanation
Indices: 86500068--86500140 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
86500058 CTTCGAGCTC
* * *
86500068 GCACACCCAGTGTCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
86500097 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
86500126 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
86500141 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:86501327 original size:10 final size:10
Alignment explanation
Indices: 86501302--86501374 Score: 60
Period size: 10 Copynumber: 7.2 Consensus size: 10
86501292 AGAATGAACA
*
86501302 CTTTTTTTTT
1 CTTTTTCTTT
*
86501312 CCTTTTCTTT
1 CTTTTTCTTT
*
86501322 GTTTTTC-TT
1 CTTTTTCTTT
*
86501331 CATATTCTCTTT
1 C-T-TTTTCTTT
86501343 CTTTTTCTTT
1 CTTTTTCTTT
*
86501353 -TTTTTTTTT
1 CTTTTTCTTT
86501362 CTTTATTCTTT
1 CTTT-TTCTTT
86501373 CT
1 CT
86501375 ACATAATCCA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
9 10 0.20
10 24 0.49
11 12 0.24
12 3 0.06
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.77
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:86502471 original size:63 final size:62
Alignment explanation
Indices: 86502292--86502471 Score: 182
Period size: 67 Copynumber: 2.8 Consensus size: 62
86502282 ATTATGATGT
* * * * *
86502292 AGCTAGGTCGCATGGGTGATACTATGTGTACACCATGCAGACAAGAGAGCTACGGGATATATG
1 AGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATG-TGACAAGAGAGCTACGAGATAAATG
* * * *
86502355 TAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAA
1 -AGCTAGGTCGCATGGGTGGTACTAAGT---GTACACCATGT-GACAAGAGAGCTACGAGATAAA
86502420 CTG
61 -TG
* *
86502423 -GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 AGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTG-ACAAGAGAGC
86502472 CGAACTATAT
Statistics
Matches: 95, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 22 0.23
66 22 0.23
67 29 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (62 bp):
AGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTGACAAGAGAGCTACGAGATAAATG
Found at i:86503561 original size:2 final size:2
Alignment explanation
Indices: 86503554--86503588 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
86503544 ATGACATGTG
86503554 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 T
86503589 GACTAGTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:86519000 original size:46 final size:46
Alignment explanation
Indices: 86518934--86519292 Score: 522
Period size: 46 Copynumber: 7.8 Consensus size: 46
86518924 GTGTGCTCTC
* * *
86518934 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
86518980 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
86519026 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
86519072 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
86519118 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
86519164 TGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
86519210 TGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
86519257 TGACA-GAAAATGAGTAAAACCATAGTTGAAAGATAC
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
86519293 TATGACATCA
Statistics
Matches: 288, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 246 0.85
47 42 0.15
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:86521232 original size:44 final size:43
Alignment explanation
Indices: 86521087--86521243 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
86521077 AGCATATACA
* * * * *
86521087 ATGCCAACGTCCCAGACGTGGTTTTACATGT-AACCAAACATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAAGTAAAACAGA-ATCG
* * *
86521130 ATGCC-ACTGTCCCAGATAAGGTCTTACAAG-AAATCAGATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACAAGTAAAACAGA-ATCG
* * * *
86521172 ATGCCGATGTCACAGACATGGTCTTACACGTAAAACAGAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACAAGTAAAACAGAA-TCG
*
86521216 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
86521244 TAATAACACA
Statistics
Matches: 90, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
42 27 0.30
43 38 0.42
44 25 0.28
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACAAGTAAAACAGAATCG
Found at i:86523478 original size:2 final size:2
Alignment explanation
Indices: 86523467--86523498 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
86523457 AAAGTTTAAT
86523467 TA TA -A 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 T
86523499 TAAAGTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86524765 original size:16 final size:17
Alignment explanation
Indices: 86524746--86524781 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
86524736 TAAACCTTCG
*
86524746 AAACCTTAAAAT-CCAA
1 AAACCCTAAAATACCAA
86524762 AAACCCTAAAATACCAA
1 AAACCCTAAAATACCAA
86524779 AAA
1 AAA
86524782 TAGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.61, C:0.25, G:0.00, T:0.14
Consensus pattern (17 bp):
AAACCCTAAAATACCAA
Found at i:86526145 original size:23 final size:23
Alignment explanation
Indices: 86526119--86526166 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
86526109 ATAATAATTT
86526119 TTACTAGTCCTTTTTTCTATAAG
1 TTACTAGTCCTTTTTTCTATAAG
86526142 TTACTAGTCCTTTTTTCTATAAG
1 TTACTAGTCCTTTTTTCTATAAG
86526165 TT
1 TT
86526167 TAGTCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.17, G:0.08, T:0.54
Consensus pattern (23 bp):
TTACTAGTCCTTTTTTCTATAAG
Found at i:86526170 original size:21 final size:22
Alignment explanation
Indices: 86526123--86526171 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
86526113 TAATTTTTAC
86526123 TAGTCCTTTTTTCTATAAGTTA
1 TAGTCCTTTTTTCTATAAGTTA
86526145 CTAGTCCTTTTTTCTATAAGTT-
1 -TAGTCCTTTTTTCTATAAGTTA
86526167 TAGTC
1 TAGTC
86526172 AAATTTGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 5 0.19
23 21 0.81
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.53
Consensus pattern (22 bp):
TAGTCCTTTTTTCTATAAGTTA
Found at i:86526941 original size:16 final size:15
Alignment explanation
Indices: 86526887--86526948 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 15
86526877 TATTATTTTA
86526887 AAAAT-TATATAAAAT
1 AAAATATATA-AAAAT
* *
86526902 ATATATTTATAAAATAT
1 A-AAATATATAAAA-AT
*
86526919 AAAATATCTAAAAAT
1 AAAATATATAAAAAT
86526934 AAAGATATATAAAAA
1 AAA-ATATATAAAAA
86526949 GCCTATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 6 0.16
16 25 0.66
17 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
AAAATATATAAAAAT
Found at i:86527015 original size:20 final size:20
Alignment explanation
Indices: 86526991--86527035 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
86526981 GTATATAATT
*
86526991 TAAAAATTTATAAA-ATAAA
1 TAAAAAATTATAAATATAAA
*
86527010 TAAAAAATTATAAATATATA
1 TAAAAAATTATAAATATAAA
86527030 TAAAAA
1 TAAAAA
86527036 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAAAATTATAAATATAAA
Found at i:86527042 original size:18 final size:17
Alignment explanation
Indices: 86527001--86527049 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
86526991 TAAAAATTTA
* *
86527001 TAAAATAAATAAAAAAT
1 TAAAATATATAAAAAAC
86527018 TATAAATATATATAAAAAC
1 TA-AAATATATA-AAAAAC
*
86527037 TAAAATTTATAAA
1 TAAAATATATAAA
86527050 TATATAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 4 0.15
18 16 0.59
19 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAATATATAAAAAAC
Found at i:86527048 original size:26 final size:26
Alignment explanation
Indices: 86526994--86527068 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
86526984 TATAATTTAA
* * *
86526994 AAATTTATAAAATAAATAAAAAATTAT
1 AAATATATAAAAGAACT-AAAAATTAT
*
86527021 AAATATATATAAA-AACTAAAATTTAT
1 AAATATATA-AAAGAACTAAAAATTAT
86527047 AAATATATAAAAGAACTAAAAA
1 AAATATATAAAAGAACTAAAAA
86527069 ACACGTTTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 3 0.07
26 25 0.60
27 11 0.26
28 3 0.07
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (26 bp):
AAATATATAAAAGAACTAAAAATTAT
Found at i:86530492 original size:25 final size:25
Alignment explanation
Indices: 86530435--86530493 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
86530425 CTCAAAAGAA
* *
86530435 CTTACCGATATTCAACTCGTATGAG
1 CTTACCGTTACTCAACTCGTATGAG
* *
86530460 CTTACCGTTACTCAGCTCGTATGAT
1 CTTACCGTTACTCAACTCGTATGAG
86530485 CTTACCGTT
1 CTTACCGTT
86530494 TACAGCTTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (25 bp):
CTTACCGTTACTCAACTCGTATGAG
Found at i:86532457 original size:43 final size:44
Alignment explanation
Indices: 86532392--86532567 Score: 180
Period size: 43 Copynumber: 4.0 Consensus size: 44
86532382 AAAGAGGAAG
* *
86532392 AATTTGTGGCTTCGTCCACAACCTACATGACAACTTGTCTGCAA
1 AATTTGTGGCTTCATCCACAACCTACATGACAGCTTGTCTGCAA
* *
86532436 AATTTGTGG-TTTATCCACAACCTACACGACAGCTTGTCTGCGAA
1 AATTTGTGGCTTCATCCACAACCTACATGACAGCTTGTCTGC-AA
* * * * * *
86532480 TATTGGTGGCTTCGTCCACAATCTACATGACAGTTTGTCT--ATG
1 AATTTGTGGCTTCATCCACAACCTACATGACAGCTTGTCTGCA-A
* * *
86532523 AATTTG-GTGCTTTATCCACAATCTACATGACATCTTGTCTGCAA
1 AATTTGTG-GCTTCATCCACAACCTACATGACAGCTTGTCTGCAA
86532567 A
1 A
86532568 TATTGGTAGC
Statistics
Matches: 107, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
42 2 0.02
43 60 0.56
44 19 0.18
45 26 0.24
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (44 bp):
AATTTGTGGCTTCATCCACAACCTACATGACAGCTTGTCTGCAA
Found at i:86532549 original size:88 final size:87
Alignment explanation
Indices: 86532397--86532587 Score: 249
Period size: 88 Copynumber: 2.2 Consensus size: 87
86532387 GGAAGAATTT
*
86532397 GTGGCTTCGTCCACAACCTACATGACAACTTGTCTGCAAAATTTGTGGTTTATCCACAACCTACA
1 GTGGCTTCGTCCACAACCTACATGACAACTTGTCT-CAAAATTTGTGCTTTATCCACAACCTACA
*
86532462 CGACAGCTTGTCTGCGAATATTG
65 CGACAGCTTGTCTGCAAATATTG
* ** * *
86532485 GTGGCTTCGTCCACAATCTACATGACAGTTTGTCT-ATGAATTTGGTGCTTTATCCACAATCTAC
1 GTGGCTTCGTCCACAACCTACATGACAACTTGTCTCA-AAATTT-GTGCTTTATCCACAACCTAC
* *
86532549 ATGACATCTTGTCTGCAAATATTG
64 ACGACAGCTTGTCTGCAAATATTG
* *
86532573 GTAGCTTCGACCACA
1 GTGGCTTCGTCCACA
86532588 TATACTGGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
86 1 0.01
87 5 0.06
88 84 0.93
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (87 bp):
GTGGCTTCGTCCACAACCTACATGACAACTTGTCTCAAAATTTGTGCTTTATCCACAACCTACAC
GACAGCTTGTCTGCAAATATTG
Found at i:86533871 original size:22 final size:22
Alignment explanation
Indices: 86533846--86533921 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
86533836 TCAACAATCA
*
86533846 ATTTTAAAATAATATAAAAATT
1 ATTTTAAAATAAAATAAAAATT
*
86533868 ATTTAAAAATAAAATTATAAAATT
1 ATTTTAAAATAAAA-TA-AAAATT
* *
86533892 ATTATAAATATAAAAT-ATAATT
1 ATTTTAAA-ATAAAATAAAAATT
*
86533914 TTTTTAAA
1 ATTTTAAA
86533922 TTTAGAAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
22 23 0.52
23 2 0.05
24 13 0.30
25 6 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTTAAAATAAAATAAAAATT
Found at i:86533899 original size:25 final size:23
Alignment explanation
Indices: 86533846--86533911 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
86533836 TCAACAATCA
* *
86533846 ATTTTAAAATAATATA-AAAATT
1 ATTTAAAAATAAAATATAAAATT
86533868 ATTTAAAAATAAAATTATAAAATT
1 ATTTAAAAATAAAA-TATAAAATT
*
86533892 ATTATAAATATAAAATATAA
1 ATT-TAAAAATAAAATATAA
86533912 TTTTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 12 0.32
23 2 0.05
24 14 0.37
25 10 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTTAAAAATAAAATATAAAATT
Found at i:86550411 original size:21 final size:21
Alignment explanation
Indices: 86550372--86550411 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
86550362 ACTCCAAACC
* *
86550372 TAACTCATAATAGGCATATTG
1 TAACTCATAAAAGGAATATTG
*
86550393 TAACTCATAAAATGAATAT
1 TAACTCATAAAAGGAATAT
86550412 GAAATTGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
TAACTCATAAAAGGAATATTG
Found at i:86554731 original size:47 final size:47
Alignment explanation
Indices: 86554680--86554788 Score: 173
Period size: 47 Copynumber: 2.3 Consensus size: 47
86554670 AGTAATGCAG
**
86554680 ATAAACTACCAATAATCAAAATTGTGGACAAGCCACCAAAATCGCAA
1 ATAAACTACCAATAATCAAAATCATGGACAAGCCACCAAAATCGCAA
* *
86554727 ATAAAATACCAATAATCAAAATCATGGACAAGCCACCAAAATCGCAG
1 ATAAACTACCAATAATCAAAATCATGGACAAGCCACCAAAATCGCAA
*
86554774 ATAAACTGCCAATAA
1 ATAAACTACCAATAA
86554789 CTTCCACATT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.50, C:0.23, G:0.10, T:0.17
Consensus pattern (47 bp):
ATAAACTACCAATAATCAAAATCATGGACAAGCCACCAAAATCGCAA
Found at i:86556795 original size:42 final size:42
Alignment explanation
Indices: 86556732--86556813 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
86556722 ATGGTCTGGG
86556732 ACACAGCCTACGACACAACCGTGTGACCCTACTTCAAATTGT
1 ACACAGCCTACGACACAACCGTGTGACCCTACTTCAAATTGT
* * * *
86556774 ACACAGGCTACGACACGACCGTGTGACTCTACTTCGAATT
1 ACACAGCCTACGACACAACCGTGTGACCCTACTTCAAATT
86556814 ATGCATGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (42 bp):
ACACAGCCTACGACACAACCGTGTGACCCTACTTCAAATTGT
Found at i:86561425 original size:28 final size:27
Alignment explanation
Indices: 86561360--86561429 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
86561350 ATAGTGAGTC
86561360 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
86561387 CGCACAATTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
86561415 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
86561430 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:86564354 original size:22 final size:23
Alignment explanation
Indices: 86564329--86564373 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
86564319 TTTGTTCAAA
*
86564329 TTTAACTT-TTATTTAAAAACAT
1 TTTAACTTGTTATATAAAAACAT
* *
86564351 TTTAATTTGTTATATCAAAACAT
1 TTTAACTTGTTATATAAAAACAT
86564374 AATATCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAACTTGTTATATAAAAACAT
Found at i:86569157 original size:40 final size:40
Alignment explanation
Indices: 86569113--86569189 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
86569103 AAGTGCAGGC
* * *
86569113 AGAGGCACGAATGTGCAATTAGAGGCACCGAAGTACAGAA
1 AGAGGCACCAAAGTGCAAATAGAGGCACCGAAGTACAGAA
86569153 AGAGGCACCAAAGTGCAAATAGAGGCACCGAAGTACA
1 AGAGGCACCAAAGTGCAAATAGAGGCACCGAAGTACA
86569190 AACCCATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.19, G:0.29, T:0.10
Consensus pattern (40 bp):
AGAGGCACCAAAGTGCAAATAGAGGCACCGAAGTACAGAA
Found at i:86569191 original size:20 final size:20
Alignment explanation
Indices: 86569113--86569191 Score: 90
Period size: 20 Copynumber: 4.0 Consensus size: 20
86569103 AAGTGCAGGC
* *
86569113 AGAGGCA-CGAATGTGCAATT
1 AGAGGCACCGAA-GTACAAAT
86569133 AGAGGCACCGAAGTACAGAA-
1 AGAGGCACCGAAGTACA-AAT
* *
86569153 AGAGGCACCAAAGTGCAAAT
1 AGAGGCACCGAAGTACAAAT
86569173 AGAGGCACCGAAGTACAAA
1 AGAGGCACCGAAGTACAAA
86569192 CCCATACAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.04
20 43 0.86
21 5 0.10
ACGTcount: A:0.43, C:0.19, G:0.28, T:0.10
Consensus pattern (20 bp):
AGAGGCACCGAAGTACAAAT
Found at i:86569653 original size:14 final size:15
Alignment explanation
Indices: 86569634--86569668 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
86569624 CTATATAGTA
86569634 ATTAAATTCA-ATAT
1 ATTAAATTCACATAT
86569648 ATTAAATTCACATAT
1 ATTAAATTCACATAT
86569663 ATTAAA
1 ATTAAA
86569669 AACTCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTAAATTCACATAT
Found at i:86573211 original size:43 final size:43
Alignment explanation
Indices: 86573178--86573456 Score: 152
Period size: 43 Copynumber: 6.7 Consensus size: 43
86573168 CGTGAATTTA
*
86573178 AGCGGCGCTTTTCCCATAAACGCCGCTAAAGAACATGACCTTT
1 AGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACATGACCTTT
* * * **
86573221 AGCAGCGCTTTCCCCACAAACGGTGCTAAAGAACATGACCTTT
1 AGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACATGACCTTT
* * * *
86573264 AGCGGAGCTTTTCCTAAAAACGCTGC-CAA-AA-A-GACCTTT
1 AGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACATGACCTTT
* * * * * *
86573303 AGCGACGC-TTTCTCTACAAACGCCGCTAAAAAATC-TAACTTTT
1 AGCGGCGCTTTTC-CCAAAAACGCCGCTAAAGAA-CATGACCTTT
* ** * **
86573346 AGCGGCACTTTT---AAAAAAACCGCTAAAGAACATAATTTTT
1 AGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACATGACCTTT
** * * * * *
86573386 AGCGATGCTTTT-TCAGAAAACACTGTTAAAGAATC-TGACTTTT
1 AGCGGCGCTTTTCCCA-AAAACGCCGCTAAAGAA-CATGACCTTT
* *
86573429 AGCGACGC-TTT-CCAAAAACGCCACTAAA
1 AGCGGCGCTTTTCCCAAAAACGCCGCTAAA
86573457 AATCATAAAA
Statistics
Matches: 184, Mismatches: 40, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
38 4 0.02
39 25 0.14
40 33 0.18
41 14 0.08
42 8 0.04
43 96 0.52
44 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
AGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACATGACCTTT
Found at i:86573324 original size:39 final size:39
Alignment explanation
Indices: 86573257--86573334 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
86573247 TAAAGAACAT
*
86573257 GACCTTTAGCGGAGCTTTTCCTAAAAACGCTGCCAAAAA
1 GACCTTTAGCGGAGCTTTTCCTAAAAACGCCGCCAAAAA
* *
86573296 GACCTTTAGC-GACGC-TTTCTCTACAAACGCCGCTAAAAA
1 GACCTTTAGCGGA-GCTTTTC-CTAAAAACGCCGCCAAAAA
86573335 ATCTAACTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 6 0.18
39 28 0.82
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (39 bp):
GACCTTTAGCGGAGCTTTTCCTAAAAACGCCGCCAAAAA
Found at i:86574052 original size:23 final size:23
Alignment explanation
Indices: 86574007--86574695 Score: 478
Period size: 23 Copynumber: 30.2 Consensus size: 23
86573997 ACATAAACTA
*
86574007 AATTT-CAGCAAC-TAAACAATTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
86574029 AATTTGCAGTACTTAAAAACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
86574052 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
86574075 AATTTGCAGCACTTTAACACTTT
1 AATTTGCAGCACTTAAACACTTC
* * *
86574098 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
86574121 AATTTGCAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * * *
86574144 AATTAACAACATTTATACTCCTC
1 AATTTGCAGCACTTAAACACTTC
* *
86574167 AA-TTACAGC-GTTAAA-ACATCTC
1 AATTTGCAGCACTTAAACAC-T-TC
*
86574189 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
86574212 AATTTGCAGTACTTAAACACTCC
1 AATTTGCAGCACTTAAACACTTC
* * *
86574235 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
86574258 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
** * * * *
86574281 AATTAACAACATTTATACACCTC
1 AATTTGCAGCACTTAAACACTTC
* *
86574304 AA-TTACAGCGA-TAAAACA-TCTC
1 AATTTGCAGC-ACTTAAACACT-TC
* *
86574326 AATTTCCAGCAATTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
86574349 AATTTGCAGTACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * * *
86574372 AATTTACAACATTTAAACACTAC
1 AATTTGCAGCACTTAAACACTTC
*
86574395 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
86574418 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
86574441 AATTTACAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * *
86574464 AATTAACAACATTTATACACCTC
1 AATTTGCAGCACTTAAACACTTC
* *
86574487 AA-TTACAGCGA-TAAAACA-TCTC
1 AATTTGCAGC-ACTTAAACACT-TC
86574509 AATTT-CGAGCAAC-TAAACACTTC
1 AATTTGC-AGC-ACTTAAACACTTC
* *
86574532 AACTTGCAGTACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * ** *
86574555 AATTTACAACTTTTAAGCACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
86574578 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
86574601 AATTTACAGCA-TTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
86574623 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
86574646 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
86574669 AATTTGCTGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
86574692 AATT
1 AATT
86574696 AATAACATTT
Statistics
Matches: 535, Mismatches: 104, Indels: 55
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.00
21 4 0.01
22 73 0.14
23 447 0.84
24 8 0.01
25 2 0.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (23 bp):
AATTTGCAGCACTTAAACACTTC
Done.