Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 261 of 332
Found at i:87258245 original size:12 final size:12
Alignment explanation
Indices: 87258215--87258247 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
87258205 TATATATTTT
87258215 AAAATT-ATATA
1 AAAATTAATATA
87258226 AAAA-TAATATA
1 AAAATTAATATA
87258237 AAAATTAATAT
1 AAAATTAATAT
87258248 GGGCATGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:87267482 original size:12 final size:12
Alignment explanation
Indices: 87267465--87267489 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87267455 TGACTTGCCT
87267465 ATCCACAAAACA
1 ATCCACAAAACA
87267477 ATCCACAAAACA
1 ATCCACAAAACA
87267489 A
1 A
87267490 AGTTCAATGG
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:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (12 bp):
ATCCACAAAACA
Found at i:87269612 original size:8 final size:8
Alignment explanation
Indices: 87269599--87269627 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
87269589 TTATGTTTAG
87269599 TATATTAT
1 TATATTAT
87269607 TATATTAT
1 TATATTAT
87269615 TATATTAT
1 TATATTAT
87269623 TATAT
1 TATAT
87269628 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:87269660 original size:5 final size:5
Alignment explanation
Indices: 87269650--87269676 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
87269640 TTATGTTTTA
87269650 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
87269677 AAACTAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:87270964 original size:15 final size:15
Alignment explanation
Indices: 87270944--87271019 Score: 95
Period size: 15 Copynumber: 5.1 Consensus size: 15
87270934 TATGCGATGA
*
87270944 ATTTATTGAATTTAT
1 ATTTATTGAAATTAT
87270959 ATTTATTGAAATTAT
1 ATTTATTGAAATTAT
87270974 -TTTGATTGAAATTAT
1 ATTT-ATTGAAATTAT
87270989 -TTTGATTGAAATTAT
1 ATTT-ATTGAAATTAT
*
87271004 ATTGATTG-AATTAT
1 ATTTATTGAAATTAT
87271018 AT
1 AT
87271020 AATATATATG
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
14 11 0.19
15 44 0.77
16 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.54
Consensus pattern (15 bp):
ATTTATTGAAATTAT
Found at i:87270982 original size:30 final size:31
Alignment explanation
Indices: 87270948--87271020 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
87270938 CGATGAATTT
*
87270948 ATTGAATTTATATTT-ATTGAAATTATTTTG
1 ATTGAATTTATATTTGATTGAAATTATATTG
*
87270978 ATTGAAATTAT-TTTGATTGAAATTATATTG
1 ATTGAATTTATATTTGATTGAAATTATATTG
87271008 ATTGAATTATATA
1 ATTGAATT-TATA
87271021 ATATATATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 31 0.84
31 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (31 bp):
ATTGAATTTATATTTGATTGAAATTATATTG
Found at i:87271422 original size:23 final size:23
Alignment explanation
Indices: 87271392--87271477 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
87271382 GCTTTATCAA
* * *
87271392 TCAGGCACTTTATGTGTCATATT
1 TCAGGCACCTCATGTGTCGTATT
87271415 TCAGGCACCTCATGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
87271436 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
87271458 T-AGGCACTTTATGTGTCGTA
1 TCAGGCACCTCATGTGTCGTA
87271478 CTCTGATCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 34 0.64
22 1 0.02
23 18 0.34
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:87274825 original size:6 final size:6
Alignment explanation
Indices: 87274814--87274838 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
87274804 GAAGTAATCA
87274814 CATTTC CATTTC CATTTC CATTTC C
1 CATTTC CATTTC CATTTC CATTTC C
87274839 TGATGTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CATTTC
Found at i:87276586 original size:13 final size:13
Alignment explanation
Indices: 87276568--87276610 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
87276558 AAGAGATTAC
87276568 AAATATACAATTG
1 AAATATACAATTG
*
87276581 AAATATA-AA--C
1 AAATATACAATTG
87276591 AAATATACAATTG
1 AAATATACAATTG
87276604 AAATATA
1 AAATATA
87276611 AATACATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (13 bp):
AAATATACAATTG
Found at i:87276625 original size:29 final size:23
Alignment explanation
Indices: 87276566--87276612 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
87276556 ATAAGAGATT
87276566 ACAAATATACAATTGAAATATAA
1 ACAAATATACAATTGAAATATAA
87276589 ACAAATATACAATTGAAATATAA
1 ACAAATATACAATTGAAATATAA
87276612 A
1 A
87276613 TACATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.26
Consensus pattern (23 bp):
ACAAATATACAATTGAAATATAA
Found at i:87278101 original size:20 final size:19
Alignment explanation
Indices: 87278076--87278123 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
87278066 AAGTATTACA
*
87278076 TATATTATTATATACATATG
1 TATATTATT-TATACACATG
*
87278096 TATATTATTTTTACACATG
1 TATATTATTTATACACATG
87278115 TA-ATTATTT
1 TATATTATTT
87278124 TTACCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 10 0.38
20 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTATACACATG
Found at i:87278134 original size:21 final size:19
Alignment explanation
Indices: 87278076--87278127 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
87278066 AAGTATTACA
* *
87278076 TATATTATTATATACATATG
1 TATATTATT-TTTACACATG
87278096 TATATTATTTTTACACATG
1 TATATTATTTTTACACATG
87278115 TA-ATTATTTTTAC
1 TATATTATTTTTAC
87278128 CATACATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 10 0.33
20 9 0.30
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTTTACACATG
Found at i:87279306 original size:21 final size:21
Alignment explanation
Indices: 87279280--87279335 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
87279270 AACAGCGGTG
*
87279280 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
87279301 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
87279322 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
87279336 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:87284110 original size:3 final size:3
Alignment explanation
Indices: 87284104--87284136 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
87284094 CACTCAAAAA
87284104 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
87284137 TCATTTTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:87305889 original size:51 final size:51
Alignment explanation
Indices: 87305829--87305931 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
87305819 TAAGGGTATA
87305829 AAGTCTCCAAAGTACAACGGTTAGGGAAATTATCACAAAGAGTGATTGAGT
1 AAGTCTCCAAAGTACAACGGTTAGGGAAATTATCACAAAGAGTGATTGAGT
87305880 AAGTCTCCAAAGTACAACGGTTAGGGAAATTATCACAAAGAGTGATTGAGT
1 AAGTCTCCAAAGTACAACGGTTAGGGAAATTATCACAAAGAGTGATTGAGT
87305931 A
1 A
87305932 TGTTTACTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (51 bp):
AAGTCTCCAAAGTACAACGGTTAGGGAAATTATCACAAAGAGTGATTGAGT
Found at i:87312630 original size:19 final size:19
Alignment explanation
Indices: 87312590--87312644 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
87312580 ATTATAAAAT
87312590 AAATTCAAAATAAATTT-T-A
1 AAATTCAAAAT--ATTTATAA
87312609 AAATTCAAAATATTTATAA
1 AAATTCAAAATATTTATAA
*
87312628 AAATTC-TAATATTTATA
1 AAATTCAAAATATTTATA
87312645 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 4 0.12
18 11 0.33
19 18 0.55
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTCAAAATATTTATAA
Found at i:87312668 original size:19 final size:21
Alignment explanation
Indices: 87312644--87312699 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 21
87312634 TAATATTTAT
87312644 ATTTTTAAA-AA-A-TTATAAA
1 ATTTTTAAAGAATATTTA-AAA
87312663 ATTTTTAAAGAATATTTAAAA
1 ATTTTTAAAGAATATTTAAAA
87312684 ATTTTCTAAAGCAATA
1 ATTTT-TAAAG-AATA
87312700 CTTTTAGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.28
20 2 0.06
21 9 0.28
22 8 0.25
23 4 0.12
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
ATTTTTAAAGAATATTTAAAA
Found at i:87312686 original size:21 final size:21
Alignment explanation
Indices: 87312644--87312699 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
87312634 TAATATTTAT
87312644 ATTTTTAAA-AA-ATTATAAA
1 ATTTTTAAAGAATATTATAAA
87312663 ATTTTTAAAGAATATT-TAAAA
1 ATTTTTAAAGAATATTAT-AAA
87312684 ATTTTCTAAAGCAATA
1 ATTTT-TAAAG-AATA
87312700 CTTTTAGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.28
20 3 0.09
21 11 0.34
22 5 0.16
23 4 0.12
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
ATTTTTAAAGAATATTATAAA
Found at i:87315120 original size:29 final size:30
Alignment explanation
Indices: 87315075--87315142 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
87315065 GCAATCAAGC
*
87315075 AAGAAAGG-GACAAAAAAAGAAAAG-AAAGT
1 AAGAAAGGAGAC-AAAAAAGAAAAGTAAAGG
* *
87315104 AAGAAAGGAGAC-GAAAAGAATAGTAAAGG
1 AAGAAAGGAGACAAAAAAGAAAAGTAAAGG
87315133 AAGAAGAGGA
1 AAGAA-AGGA
87315143 TGAAAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 9 0.27
29 17 0.52
30 7 0.21
ACGTcount: A:0.63, C:0.03, G:0.29, T:0.04
Consensus pattern (30 bp):
AAGAAAGGAGACAAAAAAGAAAAGTAAAGG
Found at i:87334170 original size:29 final size:29
Alignment explanation
Indices: 87334122--87334210 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
87334112 TTTATTTTAG
* * * *
87334122 ATTACATTTTAGTTACTTATGTTTGAAAT
1 ATTATATTTTAGTAATTTATGTTTAAAAT
87334151 ATTATATTTTAGTAATTTATGTTTAAAAT
1 ATTATATTTTAGTAATTTATGTTTAAAAT
* *
87334180 ATTATATTTTAGTCATTTATG-TTATAAT
1 ATTATATTTTAGTAATTTATGTTTAAAAT
87334208 ATT
1 ATT
87334211 GTAACATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 9 0.17
29 45 0.83
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (29 bp):
ATTATATTTTAGTAATTTATGTTTAAAAT
Found at i:87334434 original size:21 final size:20
Alignment explanation
Indices: 87334406--87334445 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
87334396 CCATTCTCTT
*
87334406 CTCCTTCTCCCTCTATTTTC
1 CTCCTTCTCCATCTATTTTC
*
87334426 CTCCATTCTCCATTTATTTT
1 CTCC-TTCTCCATCTATTTT
87334446 AATGTAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.53
Consensus pattern (20 bp):
CTCCTTCTCCATCTATTTTC
Found at i:87334674 original size:13 final size:13
Alignment explanation
Indices: 87334656--87334681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87334646 AAATTGAATT
87334656 TCACTCAAAACTG
1 TCACTCAAAACTG
87334669 TCACTCAAAACTG
1 TCACTCAAAACTG
87334682 AATATCAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
TCACTCAAAACTG
Found at i:87341099 original size:15 final size:16
Alignment explanation
Indices: 87341071--87341118 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
87341061 AAGATTGAAT
87341071 TATA-AAATTAAAAAA
1 TATATAAATTAAAAAA
*
87341086 TATATGAATT-AAAAA
1 TATATAAATTAAAAAA
* *
87341101 TATTTAAATTGAAAAA
1 TATATAAATTAAAAAA
87341117 TA
1 TA
87341119 AAGACTAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
TATATAAATTAAAAAA
Found at i:87343036 original size:18 final size:19
Alignment explanation
Indices: 87343002--87343038 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
87342992 AATGCATATG
87343002 CAAAAACATACTACATTTT
1 CAAAAACATACTACATTTT
*
87343021 CAAAAATATACT-CATTTT
1 CAAAAACATACTACATTTT
87343039 AAACATGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CAAAAACATACTACATTTT
Found at i:87348521 original size:31 final size:31
Alignment explanation
Indices: 87348483--87348544 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
87348473 ACAATGAGAC
87348483 AAAATTGGATGATTACAAATAAAGGGGAAGA
1 AAAATTGGATGATTACAAATAAAGGGGAAGA
87348514 AAAATTGGATGATTACAAATAAAGGGGAAGA
1 AAAATTGGATGATTACAAATAAAGGGGAAGA
87348545 CCTTTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.26, T:0.19
Consensus pattern (31 bp):
AAAATTGGATGATTACAAATAAAGGGGAAGA
Found at i:87350385 original size:27 final size:26
Alignment explanation
Indices: 87350362--87350411 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
87350352 TCAAATTATG
87350362 TTTTTTA-AAT-ATTCAATTGTAATTT
1 TTTTTTATAATAATT-AATTGTAATTT
87350387 TTTTTTATAATAATTAATTGTAATT
1 TTTTTTATAATAATTAATTGTAATT
87350412 GTAGTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 13 0.57
27 3 0.13
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTTTATAATAATTAATTGTAATTT
Found at i:87353581 original size:30 final size:32
Alignment explanation
Indices: 87353525--87353589 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
87353515 AAAAATTGGA
87353525 AAAATATTATAAAATCATAAAAAAAA-TTTAT
1 AAAATATTATAAAATCATAAAAAAAATTTTAT
*
87353556 AAAATA-TATAGAAAT-ATAGAAAAAATTTTAT
1 AAAATATTATA-AAATCATAAAAAAAATTTTAT
87353587 AAA
1 AAA
87353590 GTCATAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (32 bp):
AAAATATTATAAAATCATAAAAAAAATTTTAT
Found at i:87353610 original size:31 final size:30
Alignment explanation
Indices: 87353525--87353610 Score: 79
Period size: 31 Copynumber: 2.8 Consensus size: 30
87353515 AAAAATTGGA
*
87353525 AAAATAT-TATAAAATCATAAAAAAAATTTAT
1 AAAATATATAGAAAAT-AT-AAAAAAATTTAT
87353556 AAAATATATAG-AAATATAGAAAAAATTTTAT
1 AAAATATATAGAAAATATA-AAAAAA-TTTAT
*
87353587 AAAGTCATA-AGAAAATGATAAAAA
1 AAAAT-ATATAGAAAAT-ATAAAAA
87353611 TGTAAAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
29 1 0.02
30 8 0.17
31 22 0.47
32 13 0.28
33 3 0.06
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (30 bp):
AAAATATATAGAAAATATAAAAAAATTTAT
Found at i:87353611 original size:51 final size:51
Alignment explanation
Indices: 87353524--87353628 Score: 115
Period size: 51 Copynumber: 2.1 Consensus size: 51
87353514 TAAAAATTGG
* *
87353524 AAAAATATTATAAAATCATAAAAAAAATTTATAAAATATATAGAAATATAGA
1 AAAAATATTATAAAATCATAAAAAAAATATATAAAATATAAAGAAATATA-A
* * * * *
87353576 AAAAATTTTATAAAGTCAT-AAGAAAATGATA-AAAATGTAAAGAATTATAA
1 AAAAATATTATAAAATCATAAAAAAAAT-ATATAAAATATAAAGAAATATAA
87353626 AAA
1 AAA
87353629 TTATCATACC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
50 4 0.09
51 22 0.49
52 19 0.42
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (51 bp):
AAAAATATTATAAAATCATAAAAAAAATATATAAAATATAAAGAAATATAA
Found at i:87353933 original size:10 final size:9
Alignment explanation
Indices: 87353902--87353933 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
87353892 TTAAAGTTTA
87353902 ATAATTTTT
1 ATAATTTTT
87353911 ATAATTTTT
1 ATAATTTTT
87353920 AT--TTTTT
1 ATAATTTTT
87353927 ATAATTT
1 ATAATTT
87353934 ATTTGTCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATAATTTTT
Found at i:87355295 original size:27 final size:27
Alignment explanation
Indices: 87355265--87355355 Score: 110
Period size: 28 Copynumber: 3.3 Consensus size: 27
87355255 GTAGTTCCTG
87355265 AAAAAATAAATTAGAGAAGACGTATCT
1 AAAAAATAAATTAGAGAAGACGTATCT
87355292 AAAAAAATAAATTAGAGAAGACGTATCT
1 -AAAAAATAAATTAGAGAAGACGTATCT
* * * * * *
87355320 GAAAAATAATTTTGAAAAGATGTTTCT
1 AAAAAATAAATTAGAGAAGACGTATCT
87355347 AAACAAATA
1 AAA-AAATA
87355356 GTGCCAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 23 0.42
28 32 0.58
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.25
Consensus pattern (27 bp):
AAAAAATAAATTAGAGAAGACGTATCT
Found at i:87355296 original size:28 final size:28
Alignment explanation
Indices: 87355265--87355325 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
87355255 GTAGTTCCTG
87355265 AAAAAATAAATTAGAGAAGACGTATCTA
1 AAAAAATAAATTAGAGAAGACGTATCTA
*
87355293 AAAAAATAAATTAGAGAAGACGTATCTG
1 AAAAAATAAATTAGAGAAGACGTATCTA
87355321 AAAAA
1 AAAAA
87355326 TAATTTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.20
Consensus pattern (28 bp):
AAAAAATAAATTAGAGAAGACGTATCTA
Found at i:87355458 original size:126 final size:126
Alignment explanation
Indices: 87355317--87355694 Score: 582
Period size: 126 Copynumber: 3.0 Consensus size: 126
87355307 AGAAGACGTA
* * * *
87355317 TCTG-AAAAATAATTTTGAAAAGATGTTTCTAAACAAATAGTGCCAAAAATGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
*
87355381 GCACTGTCAGCAAAAGTATTGAAAAAAGCTCCTACGTGGACGTTCTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGACGTTCTTTTTCTACAGTAGTT
87355442 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * * *
87355507 GCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGAC-TCTGTTTTTCTACAATAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGACGT-TCTTTTTCTACAGTAGTT
* *
87355568 TCTGAAAAAATAACTTTGCGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * *
87355633 ACACTATCAGCAAAAGTACTGAAAAAAGCT-CTCACGTGGACGCTCTTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCT-ACGTGGACGTTC-TTTTTCTACAGTAGTT
87355695 CCTATTTGGC
Statistics
Matches: 230, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
125 6 0.03
126 209 0.91
127 15 0.07
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (126 bp):
TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGACGTTCTTTTTCTACAGTAGTT
Found at i:87357878 original size:12 final size:12
Alignment explanation
Indices: 87357861--87357885 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87357851 GAGATAAGTA
87357861 AGGATCATTTTC
1 AGGATCATTTTC
87357873 AGGATCATTTTC
1 AGGATCATTTTC
87357885 A
1 A
87357886 TGAGATGTTG
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:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
AGGATCATTTTC
Found at i:87359429 original size:30 final size:30
Alignment explanation
Indices: 87359350--87359437 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
87359340 GTTGGGCCCG
* * * * *
87359350 GTGACTGTGTGGACGCTGTTAATGGGCCTG
1 GTGATTGTGTGGGCGCTGTTGATGAGCCTA
* * *
87359380 GTGATTGTATAGGCACTGTTGATGAGCCTA
1 GTGATTGTGTGGGCGCTGTTGATGAGCCTA
*
87359410 GTGATTGTGTGGGTGCTGTTGATGAGCC
1 GTGATTGTGTGGGCGCTGTTGATGAGCC
87359438 CGCTTCGTCA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.16, C:0.14, G:0.38, T:0.33
Consensus pattern (30 bp):
GTGATTGTGTGGGCGCTGTTGATGAGCCTA
Found at i:87359947 original size:7 final size:7
Alignment explanation
Indices: 87359935--87359960 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
87359925 TTAGTTACGT
87359935 AATACTA
1 AATACTA
87359942 AATACTA
1 AATACTA
87359949 AATACTA
1 AATACTA
87359956 AATAC
1 AATAC
87359961 GAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:87361173 original size:16 final size:17
Alignment explanation
Indices: 87361152--87361187 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
87361142 GAGAATATTG
87361152 AAAGGATTGAAGTGT-A
1 AAAGGATTGAAGTGTGA
87361168 AAAGGATTGAAGTGTGA
1 AAAGGATTGAAGTGTGA
87361185 AAA
1 AAA
87361188 AATGAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (17 bp):
AAAGGATTGAAGTGTGA
Found at i:87369892 original size:11 final size:11
Alignment explanation
Indices: 87369876--87369900 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
87369866 TTATATATAC
87369876 TAATAAAATAA
1 TAATAAAATAA
87369887 TAATAAAATAA
1 TAATAAAATAA
87369898 TAA
1 TAA
87369901 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:87370204 original size:31 final size:30
Alignment explanation
Indices: 87370169--87370227 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
87370159 CACCTTTAAA
* *
87370169 ATATTTGCACTATTAA-CCCTTCAACTTTTTC
1 ATATTTACACT-TTAATCCC-TCAAATTTTTC
87370200 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAATCCCTCAAATTTT
87370228 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.46
Consensus pattern (30 bp):
ATATTTACACTTTAATCCCTCAAATTTTTC
Found at i:87374078 original size:40 final size:38
Alignment explanation
Indices: 87374019--87374168 Score: 119
Period size: 38 Copynumber: 3.9 Consensus size: 38
87374009 CAATACATCG
* *
87374019 GTGCGAGTTACTA-ATTCCGGGCTAAGTCCCGAAGGCATTT
1 GTGCGAGTTGCTATA-T-CGGGCTAAGACCCGAAGGCA-TT
*
87374059 GTGCGAGTTGCTATATCCGGGCTAAGACCCGATGGCATT
1 GTGCGAGTTGCTATAT-CGGGCTAAGACCCGAAGGCATT
* * * * *
87374098 ATGCTAG-TGACCATATCTGGCTAAGACCCGAAGGCCTT
1 GTGCGAGTTG-CTATATCGGGCTAAGACCCGAAGGCATT
* *
87374136 GTGCGAGAGTGTTATATC-GGCTAA-ATCCCGAAG
1 GTGCGAG-TTGCTATATCGGGCTAAGA-CCCGAAG
87374169 ATACTTGGTT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
37 1 0.01
38 39 0.42
39 17 0.18
40 34 0.37
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (38 bp):
GTGCGAGTTGCTATATCGGGCTAAGACCCGAAGGCATT
Found at i:87382095 original size:40 final size:39
Alignment explanation
Indices: 87382017--87382245 Score: 264
Period size: 40 Copynumber: 5.8 Consensus size: 39
87382007 CGGATACTAA
* * * * *
87382017 CGGGTTAAGTCCCGAAGACA-TTGTGCTAGTGATTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CAATTC
87382056 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AATTC
*
87382096 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AATTC
* *
87382136 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAAT-TC
* * * * *
87382176 CGGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAAT-TC
* *
87382216 CGGGCTAAGACCCGAAGGC-CTTGTGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
87382246 GGTTATATCC
Statistics
Matches: 168, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 28 0.17
40 140 0.83
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAATTC
Found at i:87382146 original size:80 final size:79
Alignment explanation
Indices: 87382017--87382245 Score: 293
Period size: 80 Copynumber: 2.9 Consensus size: 79
87382007 CGGATACTAA
* * *
87382017 CGGGTTAAGTCCCGAAGACATTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 CGGGCTAAGTCCCGAAGGCATTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
87382082 CGAGTTACAA-ATTC
66 CGAGTTACAATA-TC
* *
87382096 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATT-GTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
* *
87382161 GCGAGTTGCTATATC
65 GCGAGTTACAATATC
* * * * *
87382176 CGGGCTAAGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGCTAAGACCCGAAGGC-CTTG
1 CGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
87382239 TGCGAGT
64 TGCGAGT
87382246 GGTTATATCC
Statistics
Matches: 132, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 32 0.24
80 97 0.73
81 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACAATATC
Found at i:87393718 original size:15 final size:15
Alignment explanation
Indices: 87393695--87393724 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87393685 TAAATTGAAC
*
87393695 TAAATAATCTAAAAT
1 TAAACAATCTAAAAT
87393710 TAAACAATCTAAAAT
1 TAAACAATCTAAAAT
87393725 AAATTATTAT
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:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAACAATCTAAAAT
Found at i:87399595 original size:20 final size:20
Alignment explanation
Indices: 87399562--87399599 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
87399552 ACTAATTGTG
*
87399562 CATGTTATGCTTAAATGTTT
1 CATGTGATGCTTAAATGTTT
*
87399582 CATGTGATGGTTAAATGT
1 CATGTGATGCTTAAATGT
87399600 GGTATATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
CATGTGATGCTTAAATGTTT
Found at i:87408527 original size:20 final size:20
Alignment explanation
Indices: 87408471--87408529 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
87408461 TAATGCTATA
87408471 CAGAGGCACCATAGTGCAAG
1 CAGAGGCACCATAGTGCAAG
* ** * *
87408491 CAGAAGCATGATTGTGCAAT
1 CAGAGGCACCATAGTGCAAG
*
87408511 CAGAGGCACCAAAGTGCAA
1 CAGAGGCACCATAGTGCAA
87408530 ACCTGTACAA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (20 bp):
CAGAGGCACCATAGTGCAAG
Found at i:87415018 original size:15 final size:15
Alignment explanation
Indices: 87414995--87415054 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
87414985 GATAAACTAA
*
87414995 AAAAT-TAAGTACTG
1 AAAATATAAATACTG
* *
87415009 AAAATATAAGTATTG
1 AAAATATAAATACTG
*
87415024 AAAA-ATAAATATTG
1 AAAATATAAATACTG
*
87415038 AAAATTTAAATACTG
1 AAAATATAAATACTG
87415053 AA
1 AA
87415055 TTTAAATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
14 18 0.45
15 22 0.55
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (15 bp):
AAAATATAAATACTG
Found at i:87420071 original size:17 final size:16
Alignment explanation
Indices: 87420049--87420080 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
87420039 TAAGATTACA
87420049 TAGCTATTAGACACATT
1 TAGCTATTAGA-ACATT
87420066 TAGCTATTAGAACAT
1 TAGCTATTAGAACAT
87420081 AACTTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (16 bp):
TAGCTATTAGAACATT
Found at i:87437178 original size:11 final size:10
Alignment explanation
Indices: 87437136--87437190 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
87437126 CTATTTATTC
87437136 AAAATTATAA
1 AAAATTATAA
**
87437146 AAAA-TATTG
1 AAAATTATAA
* *
87437155 AAATTTCTAA
1 AAAATTATAA
87437165 AAATATTAT-A
1 AAA-ATTATAA
87437175 AAAATTATAA
1 AAAATTATAA
87437185 AAAATT
1 AAAATT
87437191 CCAAAATAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
9 11 0.32
10 20 0.59
11 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATTATAA
Found at i:87442297 original size:12 final size:13
Alignment explanation
Indices: 87442264--87442301 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
87442254 TTATCTACTT
87442264 AATATATATATATA
1 AATATATAT-TATA
*
87442278 TATATATATTATA
1 AATATATATTATA
87442291 AAT-TATATTAT
1 AATATATATTAT
87442302 TTATCTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 8 0.36
13 6 0.27
14 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATATATTATA
Found at i:87443474 original size:132 final size:132
Alignment explanation
Indices: 87443237--87443502 Score: 505
Period size: 132 Copynumber: 2.0 Consensus size: 132
87443227 AATTTACTTA
87443237 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGCAA
1 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGCAA
*
87443302 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAGTTCAATTCT
66 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
87443367 TG
131 TG
*
87443369 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTTATCAGCAA
1 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGCAA
*
87443434 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAATTAAATTCAATTCT
66 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
87443499 TG
131 TG
87443501 AT
1 AT
87443503 TATTTCTTAA
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 131 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.40
Consensus pattern (132 bp):
ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGCAA
AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
TG
Found at i:87444766 original size:14 final size:15
Alignment explanation
Indices: 87444738--87444766 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87444728 TAATTTTATG
87444738 AATTTCATGATGTAT
1 AATTTCATGATGTAT
87444753 AATTTCAT-ATGTAT
1 AATTTCATGATGTAT
87444767 TGACGATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (15 bp):
AATTTCATGATGTAT
Found at i:87444960 original size:50 final size:50
Alignment explanation
Indices: 87444885--87445061 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
87444875 CCATGGCAAC
87444885 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
87444935 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATTAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
87444985 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
87445035 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
87445062 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 91 0.80
51 23 0.20
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:87445075 original size:31 final size:31
Alignment explanation
Indices: 87445037--87445185 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
87445027 ACAAATGACA
87445037 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
87445068 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
87445099 AGTGAAAAGTGGTAGC-TCTGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
87445130 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
87445161 AGTGAATAGTGGTAGCTTCGACTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
87445186 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 103 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:87445355 original size:49 final size:48
Alignment explanation
Indices: 87445285--87445379 Score: 163
Period size: 49 Copynumber: 2.0 Consensus size: 48
87445275 GCATCAGTGA
*
87445285 GATATGTGATTCGTGTAAGACCATAGTTGGGCTACGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTACGGCATCGATATGT
*
87445333 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTACGGCATCGATAT
87445380 ATGAATCTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 11 0.25
49 33 0.75
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTACGGCATCGATATGT
Found at i:87445392 original size:42 final size:43
Alignment explanation
Indices: 87445297--87445460 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 43
87445287 TATGTGATTC
* * *
87445297 GTGTAAGACCATAGTTGGGCTACGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
**
87445344 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATCT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
87445388 GTGTAGGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
87445430 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
87445461 GAAAACGAAG
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 61 0.62
43 1 0.01
44 6 0.06
45 1 0.01
47 1 0.01
49 28 0.28
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:87449333 original size:39 final size:39
Alignment explanation
Indices: 87449289--87449416 Score: 193
Period size: 39 Copynumber: 3.3 Consensus size: 39
87449279 TATGAGATTG
87449289 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
87449328 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * ** *
87449367 AATATATCCGGACTTGAGGTCCGCAGACTACGTGTTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
87449406 AAAATATCCGG
1 AAAATATCCGG
87449417 GTTAAAGACC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:87449430 original size:78 final size:76
Alignment explanation
Indices: 87449288--87449442 Score: 177
Period size: 78 Copynumber: 2.0 Consensus size: 76
87449278 GTATGAGATT
* * * **
87449288 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGGTCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
87449353 GGCTATATGCTA
66 GGCT-TACGCTA
* * * **
87449365 GAAATATATCCGGACTTGAGGTCCGCAGACTACGTGTTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
87449429 CAGGCTTACGCTA
64 CAGGCTTACGCTA
87449442 G
1 G
87449443 TGATGTATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 12 0.18
78 53 0.82
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:87452198 original size:132 final size:132
Alignment explanation
Indices: 87451961--87452226 Score: 496
Period size: 132 Copynumber: 2.0 Consensus size: 132
87451951 AATTTACTTA
* *
87451961 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTATTTATTTTTCTGCATTCTCATCTGCAA
1 ATAAAGCTAGAACTAAAGTGGAATTATCTAGATTTCTATTTATTTTTCTGCATTCTCATCAGCAA
*
87452026 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAGTTCAATTCT
66 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
87452091 TG
131 TG
*
87452093 ATAAAGCTAGAACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGCAA
1 ATAAAGCTAGAACTAAAGTGGAATTATCTAGATTTCTATTTATTTTTCTGCATTCTCATCAGCAA
87452158 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
66 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
87452223 TG
131 TG
87452225 AT
1 AT
87452227 TATTTCTTAA
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 130 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (132 bp):
ATAAAGCTAGAACTAAAGTGGAATTATCTAGATTTCTATTTATTTTTCTGCATTCTCATCAGCAA
AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
TG
Found at i:87453678 original size:50 final size:50
Alignment explanation
Indices: 87453603--87453779 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
87453593 CCATGGCAAC
87453603 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
87453653 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
87453703 AAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
87453753 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
87453780 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 93 0.80
51 23 0.20
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:87453793 original size:31 final size:31
Alignment explanation
Indices: 87453755--87453903 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
87453745 ACAAATGACA
87453755 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
87453786 AGTGAAAAGTGGTAGCTTCTGCTATCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
87453817 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
87453848 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
87453879 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
87453904 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:87454066 original size:42 final size:42
Alignment explanation
Indices: 87454003--87454154 Score: 173
Period size: 42 Copynumber: 3.6 Consensus size: 42
87453993 GCATCAGTGA
* * *
87454003 GATATGTGATT-CGTGTAAGACCATAGCTGGGTTACGGTATT
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTACGGCATC
*
87454044 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTACGGCATC
* * * * *
87454086 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCAGC
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTACGGCATC
** *
87454128 -ATTATGTGAAGATGTGTAAGACCATAG
1 GA-TATGTGATTACGTGTAAGACCATAG
87454155 TTGAACTATG
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 12 0.12
42 87 0.88
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (42 bp):
GATATGTGATTACGTGTAAGACCATAGCTGGGCTACGGCATC
Found at i:87454135 original size:84 final size:83
Alignment explanation
Indices: 87454015--87454171 Score: 199
Period size: 84 Copynumber: 1.9 Consensus size: 83
87454005 TATGTGATTC
* * ** **
87454015 GTGTAAGACCATAGCTGGGTTACGGTATTGATATGTGATTACGTGTAAGACCATAGCTGGGCTAT
1 GTGTAAGACCATAGCTGGGCTACGGCA-TGATATGTGAAGACGTGTAAGACCATAGCTGAACTAT
87454080 GGCATCGATATATGAATAT
65 GGCATCGATATATGAATAT
* * *
87454099 GTGTAAGACCATAGCTGGGCTATGGCA-GCATTATGTGAAGATGTGTAAGACCATAGTTGAACTA
1 GTGTAAGACCATAGCTGGGCTACGGCATG-A-TATGTGAAGACGTGTAAGACCATAGCTGAACTA
87454163 TGGCATCGA
64 TGGCATCGA
87454172 GAAAACGAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
82 1 0.02
83 1 0.02
84 60 0.97
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (83 bp):
GTGTAAGACCATAGCTGGGCTACGGCATGATATGTGAAGACGTGTAAGACCATAGCTGAACTATG
GCATCGATATATGAATAT
Found at i:87458192 original size:23 final size:22
Alignment explanation
Indices: 87458164--87458207 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
87458154 TTAATTTTAA
*
87458164 TTTTAATTTTTTATTTTATATTG
1 TTTTAAGTTTTTATTTT-TATTG
87458187 TTTTAAGTTTTTATTTTTATT
1 TTTTAAGTTTTTATTTTTATT
87458208 TTTAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTTAAGTTTTTATTTTTATTG
Found at i:87458211 original size:12 final size:13
Alignment explanation
Indices: 87458152--87458211 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
87458142 GTTTGATTCA
* *
87458152 TTTTAATTTTAAT
1 TTTTATTTTTTAT
*
87458165 TTTAATTTTTTAT
1 TTTTATTTTTTAT
87458178 TTTATATTGTTTTAAGT
1 TTT-TATT-TTTT-A-T
87458195 TTTTA-TTTTTAT
1 TTTTATTTTTTAT
87458207 TTTTA
1 TTTTA
87458212 ATATAATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 6 0.15
13 14 0.36
14 7 0.18
15 5 0.13
16 3 0.08
17 4 0.10
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:87462600 original size:29 final size:30
Alignment explanation
Indices: 87462554--87462615 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
87462544 AACTTACAAG
87462554 CAAATACCACTAAAATAATAAAAAAATTAA
1 CAAATACCACTAAAATAATAAAAAAATTAA
* *
87462584 CAAATACC-TTAAAATAATAAGAAAATTAA
1 CAAATACCACTAAAATAATAAAAAAATTAA
87462613 CAA
1 CAA
87462616 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.21
Consensus pattern (30 bp):
CAAATACCACTAAAATAATAAAAAAATTAA
Found at i:87465885 original size:30 final size:30
Alignment explanation
Indices: 87465849--87465910 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
87465839 GCATAGATAT
87465849 TCCCAGCAACAGATAGTCCTTAGCAGACTA
1 TCCCAGCAACAGATAGTCCTTAGCAGACTA
87465879 TCCCAGCAACAGATAGTCCTTAGCAGACTA
1 TCCCAGCAACAGATAGTCCTTAGCAGACTA
87465909 TC
1 TC
87465911 TCCTCATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (30 bp):
TCCCAGCAACAGATAGTCCTTAGCAGACTA
Found at i:87466411 original size:23 final size:23
Alignment explanation
Indices: 87466373--87466434 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
87466363 TAAAAAATAA
*
87466373 AAAAAATT-AAAAAAAG-CAATT
1 AAAAAATTAAAAAAAAGACAAAT
*
87466394 AAAAAATTAAAAAGAAAGATAAAT
1 AAAAAATTAAAAA-AAAGACAAAT
*
87466418 AAAAAATAAAATAAAAA
1 AAAAAATTAAA-AAAAA
87466435 ATAAAATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 8 0.24
22 4 0.12
23 4 0.12
24 16 0.47
25 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (23 bp):
AAAAAATTAAAAAAAAGACAAAT
Found at i:87466446 original size:13 final size:12
Alignment explanation
Indices: 87466393--87466457 Score: 71
Period size: 12 Copynumber: 5.2 Consensus size: 12
87466383 AAAAAGCAAT
87466393 TAAAAAATTAAAA
1 TAAAAAA-TAAAA
*
87466406 -AGAAAGAT-AAA
1 TA-AAAAATAAAA
87466417 TAAAAAATAAAA
1 TAAAAAATAAAA
87466429 TAAAAAATAAAA
1 TAAAAAATAAAA
87466441 TGAAAAAATAATAA
1 T-AAAAAATAA-AA
87466455 TAA
1 TAA
87466458 TAAACTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
11 8 0.18
12 19 0.42
13 15 0.33
14 3 0.07
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:87466456 original size:19 final size:18
Alignment explanation
Indices: 87466414--87466461 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
87466404 AAAGAAAGAT
87466414 AAATAA-AAAATAAAATA
1 AAATAATAAAATAAAATA
*
87466431 AAA-AATAAAAT-GAA-A
1 AAATAATAAAATAAAATA
87466446 AAATAATAATAATAAA
1 AAATAATAA-AATAAA
87466462 CTTTAAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 4 0.16
16 9 0.36
17 11 0.44
18 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAATAATAAAATAAAATA
Found at i:87466549 original size:13 final size:12
Alignment explanation
Indices: 87466522--87466556 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
87466512 AAATCTAAGT
87466522 ATAAGAATAATAA
1 ATAA-AATAATAA
87466535 ATAAAATAATAAA
1 ATAAAATAAT-AA
87466548 ATAAAATAA
1 ATAAAATAA
87466557 AACAAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (12 bp):
ATAAAATAATAA
Found at i:87470895 original size:35 final size:35
Alignment explanation
Indices: 87470849--87470918 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
87470839 ATTTTGTACA
87470849 CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
1 CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
*
87470884 CCAAAAGAATCTGCTGAAAAAACATGTAAGAGAAG
1 CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
87470919 TCAGGACGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (35 bp):
CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
Found at i:87472919 original size:131 final size:131
Alignment explanation
Indices: 87472639--87473061 Score: 740
Period size: 131 Copynumber: 3.2 Consensus size: 131
87472629 GATCGACAGG
* *
87472639 ACCATGTCATTACTACTAGCTAGCTTCCATGTTTTCCCCAT-CCCATCAATCAAGACGCCAATAC
1 ACCATGTCATTACTACTAGCTAACTTCCATGTTTTCCCC-TCCCCATCAATCAAGAGGCCAATAC
87472703 CAACATCATTTTTTTTTGTGCTGAAGGGACATCACAATTTACTTTCACTGAATCTTGCGTTGGAG
65 CAACATCA-TTTTTTTTGTGCTGAAGGGACATCACAATTTACTTTCACTGAATCTTGCGTTGGAG
87472768 CCT
129 CCT
* * *
87472771 ACCTTTTCATTAGTACTAGCTAACTTCCATGTTTTCCCCTCCCCATCAATCAAGAGGCCAATACC
1 ACCATGTCATTACTACTAGCTAACTTCCATGTTTTCCCCTCCCCATCAATCAAGAGGCCAATACC
* *
87472836 AACATCATTTTTTCTCTGCTGAAGGGACATCACAATTTACTTTCACTGAATCTTGCGTTGGAGCC
66 AACATCATTTTTTTTGTGCTGAAGGGACATCACAATTTACTTTCACTGAATCTTGCGTTGGAGCC
87472901 T
131 T
* *
87472902 ACCATGTCATTACTACTAGCTAACTTCCACGTTTTCCCCACCCCATCAATCAAGAGGCCAATACC
1 ACCATGTCATTACTACTAGCTAACTTCCATGTTTTCCCCTCCCCATCAATCAAGAGGCCAATACC
87472967 AACATCATTTTTTTTGTGCTGAAGGGACATCACAATTTACTTTCACTGAATCTTGCGTTGGAGCC
66 AACATCATTTTTTTTGTGCTGAAGGGACATCACAATTTACTTTCACTGAATCTTGCGTTGGAGCC
87473032 T
131 T
87473033 ACCATGTCATTACTACTAGCTAACTTCCA
1 ACCATGTCATTACTACTAGCTAACTTCCA
87473062 ATTTTCACTG
Statistics
Matches: 276, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
131 211 0.76
132 65 0.24
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (131 bp):
ACCATGTCATTACTACTAGCTAACTTCCATGTTTTCCCCTCCCCATCAATCAAGAGGCCAATACC
AACATCATTTTTTTTGTGCTGAAGGGACATCACAATTTACTTTCACTGAATCTTGCGTTGGAGCC
T
Found at i:87480355 original size:29 final size:30
Alignment explanation
Indices: 87480300--87480360 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
87480290 CTCAAATAAA
*
87480300 TTCCATGTACAAATATCATCAGCTCAT-AT
1 TTCCATGTACAAATATCATCAGATCATCAT
* *
87480329 TTCCATGTATCAATTATCA-CATATCATCAT
1 TTCCATGTA-CAAATATCATCAGATCATCAT
87480359 TT
1 TT
87480361 TCTTGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
TTCCATGTACAAATATCATCAGATCATCAT
Found at i:87496315 original size:3 final size:3
Alignment explanation
Indices: 87496307--87496331 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
87496297 ACCGAAACTC
87496307 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
87496332 TTGCAACAAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:87502473 original size:59 final size:59
Alignment explanation
Indices: 87502407--87502520 Score: 219
Period size: 59 Copynumber: 1.9 Consensus size: 59
87502397 AAGGTTACGA
87502407 ATAAGAAACAAAAATTATCTTCCTAATCTATTTTCTTTTACATTGACCAAAAGCCATTG
1 ATAAGAAACAAAAATTATCTTCCTAATCTATTTTCTTTTACATTGACCAAAAGCCATTG
*
87502466 ATAAGAAACAAAAATTATCTTCCTAATCTATTTTTTTTTACATTGACCAAAAGCC
1 ATAAGAAACAAAAATTATCTTCCTAATCTATTTTCTTTTACATTGACCAAAAGCC
87502521 TTTGTTAAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (59 bp):
ATAAGAAACAAAAATTATCTTCCTAATCTATTTTCTTTTACATTGACCAAAAGCCATTG
Found at i:87506919 original size:13 final size:13
Alignment explanation
Indices: 87506901--87506927 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87506891 AAGCCACTCA
87506901 CACACGGGCGTGT
1 CACACGGGCGTGT
87506914 CACACGGGCGTGT
1 CACACGGGCGTGT
87506927 C
1 C
87506928 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:87511131 original size:10 final size:10
Alignment explanation
Indices: 87511116--87511151 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
87511106 TTTTAGTCGA
87511116 TACATTATGC
1 TACATTATGC
*
87511126 TACATTATGA
1 TACATTATGC
87511136 TACATTATGC
1 TACATTATGC
87511146 TACATT
1 TACATT
87511152 CATCCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (10 bp):
TACATTATGC
Found at i:87511139 original size:20 final size:20
Alignment explanation
Indices: 87511114--87511151 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
87511104 CATTTTAGTC
87511114 GATACATTATGCTACATTAT
1 GATACATTATGCTACATTAT
87511134 GATACATTATGCTACATT
1 GATACATTATGCTACATT
87511152 CATCCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
GATACATTATGCTACATTAT
Found at i:87517737 original size:33 final size:31
Alignment explanation
Indices: 87517665--87517737 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
87517655 ATTGATATTG
*
87517665 TATTATT-C-TTTTTGTATGTCATGCATTAT
1 TATTATTACTTTTTTGTATATCATGCATTAT
*
87517694 T-TTATTACTTTTTTGTATATCATGTATTATT
1 TATTATTACTTTTTTGTATATCATGCATTA-T
87517725 TAATTATTACTTT
1 T-ATTATTACTTT
87517738 GTATGTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 5 0.14
29 2 0.05
30 18 0.49
31 2 0.05
33 10 0.27
ACGTcount: A:0.23, C:0.08, G:0.07, T:0.62
Consensus pattern (31 bp):
TATTATTACTTTTTTGTATATCATGCATTAT
Found at i:87520514 original size:11 final size:12
Alignment explanation
Indices: 87520497--87520540 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
87520487 AATAAGAGAC
87520497 AAAATAAAATT-
1 AAAATAAAATTA
* *
87520508 TAAATAATATTA
1 AAAATAAAATTA
*
87520520 AAAATAAAAATA
1 AAAATAAAATTA
87520532 AAAATAAAA
1 AAAATAAAA
87520541 AAATAGTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAATAAAATTA
Found at i:87536085 original size:94 final size:94
Alignment explanation
Indices: 87535800--87536112 Score: 277
Period size: 94 Copynumber: 3.3 Consensus size: 94
87535790 GTAAGGTGCT
* * *
87535800 GATGTCATGTCCCAGACATGGTCTTCCACTGGCTA-TCATCTTCGAGGCTGATGCCATGTCCCAG
1 GATGACATGTCCCAGACATGGTCTTACACTGGC-ACTCATC-TC-ATGCTGATG-CATGTCCCAG
* *
87535864 ACATGGTTTTACACTAGCTCTCACAT-ATCCGT-GCC
62 ACATGGTCTTACACT-G-GCTCACATAAT--GTGGCC
* * * * *
87535899 GATGACATGTCCCAGACATGGTCTTATACT-G-ACACATCTCATAGCCGATGCATGTCTCAAACA
1 GATGACATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAT-GCTGATGCATGTCCCAGACA
* * * *** *
87535962 T-GTCTTACATTGGCTTACGTTCCGAGGCC
65 TGGTCTTACACTGGCTCACATAATGTGGCC
* *
87535991 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCGTCTCAATGCTGAAGCTATGTCCCAGAC
1 GATGACATGTCCCAGACATGGTCTTACACTGGCACTCATCTC-ATGCTGATGC-ATGTCCCAGAC
*
87536054 ATGGTCTTACACTGGCTCGCATAATGTGGCC
64 ATGGTCTTACACTGGCTCACATAATGTGGCC
87536085 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGACATGTCCCAGACATGGTCTTACACT
87536113 AGCCCACAAT
Statistics
Matches: 174, Mismatches: 31, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
90 9 0.05
91 16 0.09
92 25 0.14
93 14 0.08
94 56 0.32
95 13 0.07
96 9 0.05
97 4 0.02
98 1 0.01
99 27 0.16
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGACATGTCCCAGACATGGTCTTACACTGGCACTCATCTCATGCTGATGCATGTCCCAGACAT
GGTCTTACACTGGCTCACATAATGTGGCC
Found at i:87538671 original size:42 final size:42
Alignment explanation
Indices: 87538625--87538707 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
87538615 CATGAAATAT
* *
87538625 CATATCGATGACATGTCTCCG-ACATGGTCTTATACAAAATCA
1 CATATCGAGGACATATC-CCGAACATGGTCTTATACAAAATCA
* * *
87538667 CATATCGAGGCCATATCCCGAATATGGTCTTATACGAAATC
1 CATATCGAGGACATATCCCGAACATGGTCTTATACAAAATC
87538708 TTAATAACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.09
42 32 0.91
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
CATATCGAGGACATATCCCGAACATGGTCTTATACAAAATCA
Found at i:87546079 original size:13 final size:13
Alignment explanation
Indices: 87546061--87546085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87546051 GAGATGAAAG
87546061 TAGAAAGTAGAAC
1 TAGAAAGTAGAAC
87546074 TAGAAAGTAGAA
1 TAGAAAGTAGAA
87546086 ACGGGGGAGA
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:0.56, C:0.04, G:0.24, T:0.16
Consensus pattern (13 bp):
TAGAAAGTAGAAC
Found at i:87557547 original size:24 final size:24
Alignment explanation
Indices: 87557515--87557560 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
87557505 AGGCCCGAAG
87557515 TATGACTATTTTCTGATATCTGAC
1 TATGACTATTTTCTGATATCTGAC
*
87557539 TATGACTATTTTTTGATATCTG
1 TATGACTATTTTCTGATATCTG
87557561 TTTGTATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (24 bp):
TATGACTATTTTCTGATATCTGAC
Found at i:87563192 original size:44 final size:44
Alignment explanation
Indices: 87563137--87563226 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
87563127 ATCACCCAAG
87563137 GAACACCTGTCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTGTCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
* * *
87563181 GAACACTTGTCCGGGTTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTGTCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
87563225 GA
1 GA
87563227 TTATCCATCC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (44 bp):
GAACACCTGTCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
Found at i:87564984 original size:20 final size:20
Alignment explanation
Indices: 87564959--87564998 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
87564949 TGTACCAAGA
87564959 CTTGTGAGAGTTGTATTAGT
1 CTTGTGAGAGTTGTATTAGT
87564979 CTTGTGAGAGTTGTATTAGT
1 CTTGTGAGAGTTGTATTAGT
87564999 GGCCAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (20 bp):
CTTGTGAGAGTTGTATTAGT
Found at i:87567838 original size:40 final size:40
Alignment explanation
Indices: 87567777--87567852 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
87567767 TGGTACCTTA
* *
87567777 TGGTGTGTAGGGTTGGATGGGTCAATATTATCCCCATATT
1 TGGTGTGCAGGGATGGATGGGTCAATATTATCCCCATATT
* *
87567817 TGGTGTGCAGGGAT-GAGTGGGTCGATTTTATCCCCA
1 TGGTGTGCAGGGATGGA-TGGGTCAATATTATCCCCA
87567853 CAGGGGTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 29 0.94
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.34
Consensus pattern (40 bp):
TGGTGTGCAGGGATGGATGGGTCAATATTATCCCCATATT
Found at i:87568613 original size:31 final size:29
Alignment explanation
Indices: 87568578--87568636 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
87568568 AAAGTACAGA
* *
87568578 GACTAAAATTTATCAATTCAAATAGTATAAG
1 GACTAAAATTGATCAAAT-AAA-AGTATAAG
87568609 GACTAAAATTGATCAAATAAAAGTATAA
1 GACTAAAATTGATCAAATAAAAGTATAA
87568637 AGATTGAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
30 3 0.12
31 16 0.62
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (29 bp):
GACTAAAATTGATCAAATAAAAGTATAAG
Found at i:87570004 original size:38 final size:38
Alignment explanation
Indices: 87569953--87570030 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
87569943 TACGAGTAAG
87569953 TATGTAAATATTATTATTTAATATTTATGAGTCAAATA
1 TATGTAAATATTATTATTTAATATTTATGAGTCAAATA
*
87569991 TATGTAAATATTATTATTTAATATTTATGAGTTAAATA
1 TATGTAAATATTATTATTTAATATTTATGAGTCAAATA
87570029 TA
1 TA
87570031 CTATTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (38 bp):
TATGTAAATATTATTATTTAATATTTATGAGTCAAATA
Found at i:87580621 original size:29 final size:24
Alignment explanation
Indices: 87580562--87580609 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
87580552 CCTAATAAGG
87580562 TTAGTAAGTATAACATTACATGTA
1 TTAGTAAGTATAACATTACATGTA
87580586 TTAGTAAGTATAACATTACATGTA
1 TTAGTAAGTATAACATTACATGTA
87580610 AGTTCCAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (24 bp):
TTAGTAAGTATAACATTACATGTA
Found at i:87583016 original size:29 final size:29
Alignment explanation
Indices: 87582974--87583030 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
87582964 TTTTTGAAAG
87582974 TACGATCTGGATTTTTCAAAATATAACAA
1 TACGATCTGGATTTTTCAAAATATAACAA
87583003 TACGATCTGGATTTTTCAAAATATAACA
1 TACGATCTGGATTTTTCAAAATATAACA
87583031 GTTTTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (29 bp):
TACGATCTGGATTTTTCAAAATATAACAA
Found at i:87590440 original size:22 final size:22
Alignment explanation
Indices: 87590412--87590458 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
87590402 TTCTCGGTTT
*
87590412 TGGAAGAAATTGTACGAGGGTC
1 TGGAAGAAATTGCACGAGGGTC
*
87590434 TGGAAGAAATTGCACGAGGTTC
1 TGGAAGAAATTGCACGAGGGTC
87590456 TGG
1 TGG
87590459 GTTTTTGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.36, T:0.23
Consensus pattern (22 bp):
TGGAAGAAATTGCACGAGGGTC
Found at i:87597493 original size:48 final size:48
Alignment explanation
Indices: 87597430--87597655 Score: 216
Period size: 48 Copynumber: 4.8 Consensus size: 48
87597420 TAGTAAGATA
* * * * **
87597430 CCAATACCATATCCCAGATATGGTCTTACATGGGATCTCACGTCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
* * * *
87597478 CCAATGCCATGTCCCAGACGTGATCTTACATGATG-TCTCATATCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG-GGATCACATATCGATG
* *** *
87597526 CC-ATG---T-T-CCAGACACGGTCTTAC-TCAAAATCACATATAGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACAT-GGGATCACATATCGATG
* * *
87597568 CCAATGCCATATCCCAAATATGGTCTTACATGGGATCACATATCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
87597616 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
87597656 CATAACCTTA
Statistics
Matches: 142, Mismatches: 26, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.18
43 4 0.03
44 1 0.01
46 1 0.01
47 4 0.03
48 103 0.73
49 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (48 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
Found at i:87600616 original size:6 final size:6
Alignment explanation
Indices: 87600605--87600630 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
87600595 CTGAGCCCAA
87600605 ATCTGT ATCTGT ATCTGT ATCTGT AT
1 ATCTGT ATCTGT ATCTGT ATCTGT AT
87600631 TTGACTATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
ATCTGT
Found at i:87603728 original size:42 final size:41
Alignment explanation
Indices: 87603678--87603792 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 41
87603668 CTTCATTTTC
* * *
87603678 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATA-A
1 TCGATGCCATAG-CCAGCTATGGTCTTACACATATT--CATAGA
87603721 T-GATGCCATAGCCTAGCTATGGTCTTACACATATTCATAGA
1 TCGATGCCATAGCC-AGCTATGGTCTTACACATATTCATAGA
87603762 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAG-CCAGCTATGGTCTTACAC
87603793 GAATCACATA
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
40 4 0.06
41 3 0.05
42 55 0.85
43 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (41 bp):
TCGATGCCATAGCCAGCTATGGTCTTACACATATTCATAGA
Found at i:87603871 original size:47 final size:46
Alignment explanation
Indices: 87603763--87603886 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 46
87603753 ATTCATAGAT
* * * * *
87603763 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATACCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * * *
87603809 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATACCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
*
87603856 CGATACCATACCCCAGATATGGTCTTATACG
1 CGATGCCATACCCCAGATATGGTCTTATACG
87603887 GAAATCACTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 27 0.41
47 39 0.59
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATACCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:87603947 original size:31 final size:31
Alignment explanation
Indices: 87603912--87604090 Score: 270
Period size: 31 Copynumber: 5.8 Consensus size: 31
87603902 TTGTCACTTA
*
87603912 TAGCCAAAGCTACCACTATTCACTGATCAGG
1 TAGCCAAAGCTACCACTTTTCACTGATCAGG
** *
87603943 TAGCCGGAGCTACCATTTTTCACTGATCAGG
1 TAGCCAAAGCTACCACTTTTCACTGATCAGG
87603974 TAGCCAAAGCTACCACTTTTCACTGATCAGG
1 TAGCCAAAGCTACCACTTTTCACTGATCAGG
* *
87604005 TAGCCGAATCTACCACTTTTCACTGATCAGG
1 TAGCCAAAGCTACCACTTTTCACTGATCAGG
87604036 TAG-CAGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCA-AAGCTACCACTTTTCACTGATCAGG
**
87604067 TAGCTGAAGCTACCACTTTTCACT
1 TAGCCAAAGCTACCACTTTTCACT
87604091 TGTCATTTGT
Statistics
Matches: 133, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
30 1 0.01
31 132 0.99
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (31 bp):
TAGCCAAAGCTACCACTTTTCACTGATCAGG
Found at i:87604172 original size:50 final size:51
Alignment explanation
Indices: 87604067--87604194 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
87604057 ACTGATCAGG
* * * *
87604067 TAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTG
1 TAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTA
*
87604118 TAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTA
1 TAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTA
87604168 TAGCCGAAGCTATCACTTATCACTTGT
1 TAGCCGAAGCTATCACTTATCACTTGT
87604195 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (51 bp):
TAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTA
Found at i:87607659 original size:13 final size:13
Alignment explanation
Indices: 87607641--87607665 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87607631 CTCGATAGGG
87607641 ACACGCCCGTGTA
1 ACACGCCCGTGTA
87607654 ACACGCCCGTGT
1 ACACGCCCGTGT
87607666 GCGATTACTT
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:87613072 original size:13 final size:13
Alignment explanation
Indices: 87613056--87613090 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
87613046 TGTTGTAGAA
87613056 AAGTGCTTTTGAG
1 AAGTGCTTTTGAG
*
87613069 AAGTACTTTTGAG
1 AAGTGCTTTTGAG
87613082 AAGTGCTTT
1 AAGTGCTTT
87613091 GGAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (13 bp):
AAGTGCTTTTGAG
Found at i:87615490 original size:6 final size:6
Alignment explanation
Indices: 87615479--87615504 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
87615469 AATTATAAAT
87615479 ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA AT
87615505 AATTCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:87616403 original size:20 final size:19
Alignment explanation
Indices: 87616372--87616420 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
87616362 TAAATAAATC
87616372 ATAAAAATATTACAAA-TTT
1 ATAAAAATATTA-AAAGTTT
87616391 ATAAAAGATATTAAAAGTTT
1 ATAAAA-ATATTAAAAGTTT
87616411 ATAAAAATAT
1 ATAAAAATAT
87616421 ATTAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAAAAATATTAAAAGTTT
Found at i:87616939 original size:9 final size:9
Alignment explanation
Indices: 87616925--87617035 Score: 57
Period size: 9 Copynumber: 12.0 Consensus size: 9
87616915 AATGAATGGC
87616925 TTTTTATAA
1 TTTTTATAA
87616934 TTTTTAT--
1 TTTTTATAA
* *
87616941 TATTTATCA
1 TTTTTATAA
*
87616950 TATTTATAA
1 TTTTTATAA
*
87616959 TTTATTA-GA
1 TTT-TTATAA
*
87616968 TTATTATAA
1 TTTTTATAA
87616977 GTTTTTATAA
1 -TTTTTATAA
* * *
87616987 TATTTGTAGG
1 TTTTTATA-A
*
87616997 TTTTTATGATT
1 TTTTTAT-A-A
87617008 TTTTTATAA
1 TTTTTATAA
87617017 TTTTTATAA
1 TTTTTATAA
*
87617026 GTTTGTATAA
1 -TTTTTATAA
87617036 AAAAAATTAA
Statistics
Matches: 78, Mismatches: 16, Indels: 15
0.72 0.15 0.14
Matches are distributed among these distances:
7 6 0.08
8 3 0.04
9 36 0.46
10 25 0.32
11 8 0.10
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:87616986 original size:10 final size:10
Alignment explanation
Indices: 87616971--87617035 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
87616961 TATTAGATTA
87616971 TTATAAGTTT
1 TTATAAGTTT
*
87616981 TTATAA-TAT
1 TTATAAGTTT
* *
87616990 TTGTAGGTTT
1 TTATAAGTTT
**
87617000 TTATGATTTTT
1 TTAT-AAGTTT
87617011 TTATAA-TTT
1 TTATAAGTTT
87617020 TTATAAGTTT
1 TTATAAGTTT
*
87617030 GTATAA
1 TTATAA
87617036 AAAAAATTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
9 15 0.35
10 20 0.47
11 8 0.19
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (10 bp):
TTATAAGTTT
Found at i:87619932 original size:8 final size:8
Alignment explanation
Indices: 87619919--87619948 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
87619909 AATAATTTAA
87619919 AAAATTTT
1 AAAATTTT
87619927 AAAATTTT
1 AAAATTTT
*
87619935 AAAACTTT
1 AAAATTTT
87619943 AAAATT
1 AAAATT
87619949 AACTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (8 bp):
AAAATTTT
Found at i:87634424 original size:40 final size:40
Alignment explanation
Indices: 87634352--87634458 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
87634342 ATACCAGCTC
* *
87634352 ATAGCCTGCGGGT-TTCT-AGCCCGGATAGCATTCTAGCACG
1 ATAGCCTGCGGGTCTT-TAAGCCCGGATAACATTCCAGCA-G
* *
87634392 A-AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGTAT
1 ATAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCAG
87634431 ATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ATAGCCTGCGGGTCTTTAAGCCCGGATA
87634459 CAATTCCTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
39 13 0.22
40 47 0.78
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCAG
Found at i:87634465 original size:40 final size:41
Alignment explanation
Indices: 87634327--87634465 Score: 132
Period size: 40 Copynumber: 3.5 Consensus size: 41
87634317 CCTGCGAGAA
* * * *
87634327 TTTAAACCCGG-TATAATACCAGCTC-ATAGCCTGCGGGT-
1 TTTAAGCCCGGATACAATTCCAGCACGATAGCCTGCGGGTC
*
87634365 TTCT-AGCCCGGATAGC-ATTCTAGCACGA-AGCCTGCGGGTC
1 TT-TAAGCCCGGATA-CAATTCCAGCACGATAGCCTGCGGGTC
* *
87634405 TTTAAGCCCGGATA-ACATTCCAGTA-TATAGCCTGCGGGTC
1 TTTAAGCCCGGATACA-ATTCCAGCACGATAGCCTGCGGGTC
87634445 TTTAAGCCCGGATACAATTCC
1 TTTAAGCCCGGATACAATTCC
87634466 TCAAGTATCA
Statistics
Matches: 83, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
38 8 0.10
39 23 0.28
40 51 0.61
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
TTTAAGCCCGGATACAATTCCAGCACGATAGCCTGCGGGTC
Found at i:87646111 original size:18 final size:18
Alignment explanation
Indices: 87646088--87646124 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
87646078 TGAACTATAT
87646088 GTTTAATGATATGAATGA
1 GTTTAATGATATGAATGA
**
87646106 GTTTAATTCTATGAATGA
1 GTTTAATGATATGAATGA
87646124 G
1 G
87646125 CCCGACAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (18 bp):
GTTTAATGATATGAATGA
Found at i:87659639 original size:27 final size:27
Alignment explanation
Indices: 87659587--87659640 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
87659577 GTTTATGGGT
* * *
87659587 TTAAGGGATTTAAGAGGTTTTGAAATA
1 TTAAAGGAGTTAAGAGATTTTGAAATA
87659614 TTAAAGGAGTTAAGAGATGTTT-AAATA
1 TTAAAGGAGTTAAGAGAT-TTTGAAATA
87659641 AGGGGATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (27 bp):
TTAAAGGAGTTAAGAGATTTTGAAATA
Found at i:87666201 original size:20 final size:20
Alignment explanation
Indices: 87666155--87666204 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
87666145 TTAAAATAAT
*
87666155 TAAAAATATATAGAAAATTA
1 TAAAAAAATATAGAAAATTA
** * *
87666175 TTTAAAAATATTGAGAATTA
1 TAAAAAAATATAGAAAATTA
87666195 TAAAAAAATA
1 TAAAAAAATA
87666205 AAATTATTTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (20 bp):
TAAAAAAATATAGAAAATTA
Found at i:87666581 original size:11 final size:10
Alignment explanation
Indices: 87666554--87666588 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
87666544 ATGTTTGTTC
87666554 TTATTTTTCT
1 TTATTTTTCT
87666564 TTATTTTTCT
1 TTATTTTTCT
*
87666574 TTCTTTTTACT
1 TTATTTTT-CT
87666585 TTAT
1 TTAT
87666589 AATCGTTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (10 bp):
TTATTTTTCT
Found at i:87666955 original size:18 final size:19
Alignment explanation
Indices: 87666927--87666964 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
87666917 ATTCTTAATA
87666927 ATTTATAAATAATTTTTAT
1 ATTTATAAATAATTTTTAT
*
87666946 ATTT-TAAATACTTTTTAT
1 ATTTATAAATAATTTTTAT
87666964 A
1 A
87666965 AATATTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTATAAATAATTTTTAT
Found at i:87668612 original size:13 final size:12
Alignment explanation
Indices: 87668594--87668628 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
87668584 AGAATTTTGC
87668594 TTTCTTTTCCCT
1 TTTCTTTTCCCT
*
87668606 ATTTCTTCTCCCT
1 -TTTCTTTTCCCT
87668619 TTTCTTTTCC
1 TTTCTTTTCC
87668629 ATCCTCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTCTTTTCCCT
Found at i:87669641 original size:34 final size:34
Alignment explanation
Indices: 87669603--87669743 Score: 140
Period size: 34 Copynumber: 4.1 Consensus size: 34
87669593 ATCAATCTAC
* * *
87669603 TATAAGGATATTAATTGCTACCGTATTTATTTGT
1 TATAAGCATATTAATTGCTACCGTATTGATCTGT
* * *
87669637 TATAAGCACATTAATTGCGT-TCGTATTGATCCGT
1 TATAAGCATATTAATTGC-TACCGTATTGATCTGT
* * *
87669671 TATAAGCATTTTAATTACTATCGTATTGATCTGT
1 TATAAGCATATTAATTGCTACCGTATTGATCTGT
* * ** *
87669705 TATATGTATATTAATTGCTACTATATTGATCTAT
1 TATAAGCATATTAATTGCTACCGTATTGATCTGT
87669739 TATAA
1 TATAA
87669744 ACATGTCAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
33 1 0.01
34 84 0.98
35 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (34 bp):
TATAAGCATATTAATTGCTACCGTATTGATCTGT
Found at i:87669742 original size:68 final size:68
Alignment explanation
Indices: 87669583--87669743 Score: 162
Period size: 68 Copynumber: 2.4 Consensus size: 68
87669573 ACCATACTAT
** * * * * *
87669583 TTGCTACTGTATCAATCTACTATAAGGATATTAATTGCTACCGTATTTATTTGTTATAAGCACAT
1 TTGCTACTGTATTGATCTATTATAAGCATATTAATTACTACCGTATTGATCTGTTATAAGCACAT
87669648 TAA
66 TAA
* ** * * * * *
87669651 TTGCGTTC-GTATTGATCCGTTATAAGCATTTTAATTACTATCGTATTGATCTGTTATATGTATA
1 TTGC-TACTGTATTGATCTATTATAAGCATATTAATTACTACCGTATTGATCTGTTATAAGCACA
87669715 TTAA
65 TTAA
*
87669719 TTGCTACTATATTGATCTATTATAA
1 TTGCTACTGTATTGATCTATTATAA
87669744 ACATGTCAAA
Statistics
Matches: 72, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
67 2 0.03
68 68 0.94
69 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (68 bp):
TTGCTACTGTATTGATCTATTATAAGCATATTAATTACTACCGTATTGATCTGTTATAAGCACAT
TAA
Found at i:87674501 original size:142 final size:142
Alignment explanation
Indices: 87674245--87674531 Score: 502
Period size: 142 Copynumber: 2.0 Consensus size: 142
87674235 TTCGGCGGAC
* *
87674245 GATGTAATCTCCCGAATTCAGGCTTAACGTCTAGGCCAGGTTGGGGAGGTTACAGTGACAAAGGA
1 GATGTAATCTCCCGAATTCAGGCTTAACGTCTAGGCCAAGTTGGAGAGGTTACAGTGACAAAGGA
* * *
87674310 AGAAAAGTGAAGCAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTTTTATGGATTCTTTT
66 AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGATTCTATT
87674375 TACTTTTCTAAT
131 TACTTTTCTAAT
* *
87674387 GATGTAATCTCTCGAATTCAGGCTTAACGTCTAGGTCAAGTTGGAGAGGTTACAGTGACAAAGGA
1 GATGTAATCTCCCGAATTCAGGCTTAACGTCTAGGCCAAGTTGGAGAGGTTACAGTGACAAAGGA
*
87674452 AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGGTTCTATT
66 AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGATTCTATT
87674517 TACTTTTCTAAT
131 TACTTTTCTAAT
87674529 GAT
1 GAT
87674532 TACATTAAAA
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 137 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (142 bp):
GATGTAATCTCCCGAATTCAGGCTTAACGTCTAGGCCAAGTTGGAGAGGTTACAGTGACAAAGGA
AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGATTCTATT
TACTTTTCTAAT
Found at i:87677902 original size:25 final size:25
Alignment explanation
Indices: 87677861--87677926 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
87677851 TAGTGCGCTC
* *
87677861 AAGTGTGATTGGCACTTCGGGGCTT
1 AAGTGTGATTGGCACTTCGAGGCAT
* *
87677886 AAGTGTGATCT-GTACTTCGATGCAT
1 AAGTGTGAT-TGGCACTTCGAGGCAT
*
87677911 AAGTGTGATTAGCACT
1 AAGTGTGATTGGCACT
87677927 CAGTGCTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (25 bp):
AAGTGTGATTGGCACTTCGAGGCAT
Found at i:87684089 original size:12 final size:12
Alignment explanation
Indices: 87684072--87684098 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
87684062 TAGATCAGTA
87684072 GCCGAGTATGAG
1 GCCGAGTATGAG
87684084 GCCGAGTATGAG
1 GCCGAGTATGAG
87684096 GCC
1 GCC
87684099 AATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.41, T:0.15
Consensus pattern (12 bp):
GCCGAGTATGAG
Found at i:87687642 original size:5 final size:5
Alignment explanation
Indices: 87687632--87687672 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
87687622 AATAATTAAG
*
87687632 TATAT TATAT TACAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
87687673 ATAAAAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:87687742 original size:31 final size:30
Alignment explanation
Indices: 87687707--87687767 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
87687697 GAAACAGAAT
*
87687707 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
87687738 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
87687768 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Done.