Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 27 of 325
Found at i:8179407 original size:22 final size:22
Alignment explanation
Indices: 8179381--8179423 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8179371 ATATTGATAA
8179381 AATTTTTCTAAAAGTTTTTATG
1 AATTTTTCTAAAAGTTTTTATG
* *
8179403 AATTTTTTTAAAATTTTTTAT
1 AATTTTTCTAAAAGTTTTTAT
8179424 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
AATTTTTCTAAAAGTTTTTATG
Found at i:8179427 original size:18 final size:17
Alignment explanation
Indices: 8179404--8179437 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
8179394 GTTTTTATGA
8179404 ATTTTTTTAAAATTTTTT
1 ATTTTTTT-AAATTTTTT
8179422 ATTTTTTTAAATTTTT
1 ATTTTTTTAAATTTTT
8179438 ATAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTTAAATTTTTT
Found at i:8179435 original size:10 final size:10
Alignment explanation
Indices: 8179380--8179444 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
8179370 AATATTGATA
*
8179380 AAATTTTTCTA
1 AAATTTTT-TT
*
8179391 AAAGTTTTTAT
1 AAA-TTTTTTT
*
8179402 GAATTTTTTT
1 AAATTTTTTT
*
8179412 AAAATTTTTT
1 AAATTTTTTT
8179422 --ATTTTTTT
1 AAATTTTTTT
*
8179430 AAATTTTTAT
1 AAATTTTTTT
8179440 AAATT
1 AAATT
8179445 ATACGTGGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
8 7 0.16
10 26 0.60
11 5 0.12
12 5 0.12
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (10 bp):
AAATTTTTTT
Found at i:8183116 original size:49 final size:49
Alignment explanation
Indices: 8183019--8183144 Score: 182
Period size: 49 Copynumber: 2.6 Consensus size: 49
8183009 AGATGCCGAC
*
8183019 GCCATGTCCCAGACATAGTCTTACACTGGCTTTCATATAGCGAGGTCGAT
1 GCCATGTCCCAGACA-AGTCTTACACTGGCTCTCATATAGCGAGGTCGAT
* * *
8183069 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGAT
1 GCCATGTCCCAGACAAGTCTTACACTGGCTCTCATATAGCGAG-GTCGAT
*
8183118 GCCATGTCCAAGACAAGTCTTACACTG
1 GCCATGTCCCAGACAAGTCTTACACTG
8183145 ACACACAACA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.01
49 53 0.77
50 15 0.22
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAAGTCTTACACTGGCTCTCATATAGCGAGGTCGAT
Found at i:8183272 original size:46 final size:45
Alignment explanation
Indices: 8183212--8183330 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 45
8183202 GAAGCTGATG
* *
8183212 CATGTCCTAGACATGTCTTACACTAGCTCTCGT-CTCAATGCCGT-TA
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATGCT--ATGCC-TATA
* * * *
8183258 CATGTCCCAGACATGTCTTACACTGGCTCTCATGCTGTGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATGCTATGCCT-ATA
8183304 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
8183331 ACACGTATCA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
44 1 0.02
45 3 0.05
46 57 0.90
47 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATGCTATGCCTATA
Found at i:8192773 original size:33 final size:33
Alignment explanation
Indices: 8192735--8192824 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
8192725 GAAGTGTACA
8192735 TTCCTTTCCAAGTGGTATACACAAAATATACCT
1 TTCCTTTCCAAGTGGTATACACAAAATATACCT
*
8192768 TTCCTTTTCATA-TGGTATACACAAAATATACCT
1 TTCCTTTCCA-AGTGGTATACACAAAATATACCT
** *
8192801 AACCTTTCCAAGT-GTACACACAAA
1 TTCCTTTCCAAGTGGTATACACAAA
8192825 GTGTACATAG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
32 11 0.22
33 38 0.76
34 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTATACACAAAATATACCT
Found at i:8193572 original size:20 final size:22
Alignment explanation
Indices: 8193530--8193577 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
8193520 TGTATAAGTG
*
8193530 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
8193552 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
8193572 AATTTA
1 -ATTTA
8193578 CAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:8194046 original size:13 final size:13
Alignment explanation
Indices: 8194028--8194054 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8194018 AGACACATAA
8194028 TTGATAAAATTTT
1 TTGATAAAATTTT
8194041 TTGATAAAATTTT
1 TTGATAAAATTTT
8194054 T
1 T
8194055 CATGCAATAT
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:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTGATAAAATTTT
Found at i:8200330 original size:33 final size:33
Alignment explanation
Indices: 8200291--8200382 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
8200281 GAAGTGTACA
*
8200291 TTCCTTTCCAAGTGGTATACATAAAGTATACCT
1 TTCCTTTCCAAGTGGTATACACAAAGTATACCT
*
8200324 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCCTTTCCA-AGTGGTATACACAAAGTATACCT
*** *
8200357 AAGCTTTCCAAGT-GTACACACAAAGT
1 TTCCTTTCCAAGTGGTATACACAAAGT
8200383 GTACATAGCC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 13 0.26
33 36 0.72
34 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTATACACAAAGTATACCT
Found at i:8201127 original size:20 final size:22
Alignment explanation
Indices: 8201085--8201132 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
8201075 TGTATAAGTG
*
8201085 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
8201107 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
8201127 AATTTA
1 -ATTTA
8201133 CAGCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:8208065 original size:43 final size:43
Alignment explanation
Indices: 8207974--8208074 Score: 114
Period size: 43 Copynumber: 2.3 Consensus size: 43
8207964 AGCGAGATGT
* * * * *
8207974 GATTACATGTAAGACCATGTCCGGAACATTGGCATTGTATTGC
1 GATTACGTGTAAGACCATGTCCGGAACATCGACATCGTAATGC
* * *
8208017 AATTACGTGTAAGACCATGTCTGGGACATCGACATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCCGGAACATCGACATCG-TAATGC
8208060 GATTACGTGTAAGAC
1 GATTACGTGTAAGAC
8208075 TGTAACAGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
43 45 0.94
44 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCCGGAACATCGACATCGTAATGC
Found at i:8211356 original size:190 final size:188
Alignment explanation
Indices: 8211008--8211385 Score: 720
Period size: 188 Copynumber: 2.0 Consensus size: 188
8210998 TTTACTGGTC
8211008 ATATATATATAAGTTCGCAAATTTGTATAAATCATTTATATTAGTCGAATGGACTAGAAAATGAA
1 ATATATATATAAGTTCGCAAATTTGTATAAATCATTTATATTAGTCGAATGGACTAGAAAATGAA
*
8211073 ATGAGTTTATTTATAACCAAAAGTTAATATTATTTGGTAATGATGTGTGATATATATTAAAGATT
66 ATGAGTTTATTTATAACCAAAAGTTAATATTATTTGGAAATGATGTGTGATATATATTAAAGATT
8211138 CGTATAAATTGTTATTTTACTAGTGTCGCATATATGAAATTGTTCTTGTGATATGTAT
131 CGTATAAATTGTTATTTTACTAGTGTCGCATATATGAAATTGTTCTTGTGATATGTAT
8211196 ATATATATATAAGTTCGCAAATTTGTATAAATCATTTATATTAGTCGAATGGACTAGAAAATGAA
1 ATATATATATAAGTTCGCAAATTTGTATAAATCATTTATATTAGTCGAATGGACTAGAAAATGAA
*
8211261 ATGAGTTTATTTATAACCGAAAGTTAATATTATTTGGAAATGATGTGTGATATATATATTAAAGA
66 ATGAGTTTATTTATAACCAAAAGTTAATATTATTTGGAAATGATGTGTG--ATATATATTAAAGA
8211326 TTCGTATAAATTGTTATTTTACTAGTGTCGCATATATGAAATTGTTCTTGTGATATGTAT
129 TTCGTATAAATTGTTATTTTACTAGTGTCGCATATATGAAATTGTTCTTGTGATATGTAT
8211386 GCTATTAATG
Statistics
Matches: 186, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
188 112 0.60
190 74 0.40
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (188 bp):
ATATATATATAAGTTCGCAAATTTGTATAAATCATTTATATTAGTCGAATGGACTAGAAAATGAA
ATGAGTTTATTTATAACCAAAAGTTAATATTATTTGGAAATGATGTGTGATATATATTAAAGATT
CGTATAAATTGTTATTTTACTAGTGTCGCATATATGAAATTGTTCTTGTGATATGTAT
Found at i:8217396 original size:53 final size:50
Alignment explanation
Indices: 8217243--8217418 Score: 158
Period size: 53 Copynumber: 3.3 Consensus size: 50
8217233 GATAAGCGAT
* * * * *
8217243 ATCCGTATAAGACCATAACTGGGCTATGGCATCTGAAAACAAAAGATAAGTG
1 ATCCGTATAAGACCATAGCTGGGCTATGGTATC-GAGAA-TAATGATAAGTG
* *
8217295 ATTTCCGTATAAGACCATAGCTGGGCTATGGCT-TCG-GATTAGTGTGATACAAGTG
1 A--TCCGTATAAGACCATAGCTGGGCTATGG-TATCGAGAATA--ATGAT--AAGTG
8217350 ATCCGTATAAGACCATAGCTGGGCTATGGTATCAGAGAATAATGATAAGTG
1 ATCCGTATAAGACCATAGCTGGGCTATGGTATC-GAGAATAATGATAAGTG
* *
8217401 CTCCCGTGTAAGACCATA
1 AT-CCGTATAAGACCATA
8217419 TCCGGGATAT
Statistics
Matches: 102, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
51 7 0.07
52 17 0.17
53 38 0.37
54 30 0.29
55 10 0.10
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (50 bp):
ATCCGTATAAGACCATAGCTGGGCTATGGTATCGAGAATAATGATAAGTG
Found at i:8227537 original size:4 final size:4
Alignment explanation
Indices: 8227528--8227560 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
8227518 TTCCCAAAAT
*
8227528 ATTA ATTA ATTA ATTA ATTA A-AA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
8227561 CCTGTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 2 0.08
4 24 0.92
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (4 bp):
ATTA
Found at i:8236557 original size:16 final size:16
Alignment explanation
Indices: 8236536--8236575 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8236526 TAGAGTTTAG
8236536 ATAATTTTAAATTCGA
1 ATAATTTTAAATTCGA
* *
8236552 ATAATTATAAATTTGA
1 ATAATTTTAAATTCGA
8236568 ATAATTTT
1 ATAATTTT
8236576 TTAACTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (16 bp):
ATAATTTTAAATTCGA
Found at i:8250062 original size:14 final size:14
Alignment explanation
Indices: 8250043--8250069 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8250033 TATTAAAGCA
8250043 ATAATTAAGAACAC
1 ATAATTAAGAACAC
8250057 ATAATTAAGAACA
1 ATAATTAAGAACA
8250070 AATCAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:8252594 original size:28 final size:29
Alignment explanation
Indices: 8252562--8252618 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
8252552 AAAAGTAATT
* *
8252562 TAAAAAAAA-GATAAATAA-AGATAAAAG
1 TAAAAAAAATAATAAATAATAAATAAAAG
8252589 TAAAAAAAATAATAAATAATAAATAAAAG
1 TAAAAAAAATAATAAATAATAAATAAAAG
8252618 T
1 T
8252619 CTTCAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 9 0.35
28 8 0.31
29 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (29 bp):
TAAAAAAAATAATAAATAATAAATAAAAG
Found at i:8271637 original size:18 final size:18
Alignment explanation
Indices: 8271614--8271706 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
8271604 CCCAACTACT
*
8271614 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
8271632 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
*
8271650 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
* * *
8271668 GTATATGTAAATAGTTCC
1 GTATACGTGAATAGTACC
8271686 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
8271704 GTA
1 GTA
8271707 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:8271666 original size:36 final size:36
Alignment explanation
Indices: 8271612--8271706 Score: 136
Period size: 36 Copynumber: 2.6 Consensus size: 36
8271602 ATCCCAACTA
* *
8271612 CTGTATACGTGAACAGTACCGTATACGTGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACGTAAATAGTG
* * *
8271648 CTGTATACGTAAATAGTACCGTATATGTAAATAGTT
1 CTGTATACGTGAATAGTACCGTATACGTAAATAGTG
*
8271684 CCGTATACGTGAATAGTACCGTA
1 CTGTATACGTGAATAGTACCGTA
8271707 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (36 bp):
CTGTATACGTGAATAGTACCGTATACGTAAATAGTG
Found at i:8290689 original size:26 final size:25
Alignment explanation
Indices: 8290635--8290685 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8290625 GAACTATGAG
8290635 TAAATTTTTATTTTGGTCACTTAAT
1 TAAATTTTTATTTTGGTCACTTAAT
8290660 TAAATTTTTATTTTGGTCACTTAAT
1 TAAATTTTTATTTTGGTCACTTAAT
8290685 T
1 T
8290686 TAAAAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (25 bp):
TAAATTTTTATTTTGGTCACTTAAT
Found at i:8291600 original size:16 final size:14
Alignment explanation
Indices: 8291564--8291602 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
8291554 TTATATTTGC
8291564 AAAAAAATAATTTT
1 AAAAAAATAATTTT
*
8291578 AATAAAATAATATTT
1 AAAAAAATAAT-TTT
8291593 ACAAAAAATA
1 A-AAAAAATA
8291603 TATAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 10 0.48
15 4 0.19
16 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAAAATAATTTT
Found at i:8300042 original size:3 final size:3
Alignment explanation
Indices: 8300028--8300095 Score: 50
Period size: 3 Copynumber: 22.3 Consensus size: 3
8300018 TTCAATTTTG
* **
8300028 TAT TAT TCAT TAT TAT TGT TAT TAT TAT TAT TGC TAT T-T ATAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* *
8300074 CAT T-T TCAT CAT TAT TAT TAT T
1 TAT TAT T-AT TAT TAT TAT TAT T
8300096 GTTCATGCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
2 3 0.06
3 42 0.84
4 5 0.10
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:8300108 original size:19 final size:17
Alignment explanation
Indices: 8300067--8300114 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
8300057 ATTGCTATTT
8300067 ATATTATCATTTTCATC
1 ATATTATCATTTTCATC
*
8300084 ATTATTATTATTGTTCATGC
1 A-TATTATCATT-TTCAT-C
*
8300104 ATATTAACATT
1 ATATTATCATT
8300115 ATGATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 9 0.36
19 13 0.52
20 2 0.08
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.52
Consensus pattern (17 bp):
ATATTATCATTTTCATC
Found at i:8309746 original size:13 final size:13
Alignment explanation
Indices: 8309728--8309788 Score: 79
Period size: 13 Copynumber: 4.7 Consensus size: 13
8309718 AGTTTGGCAA
8309728 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
8309741 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
8309754 TGC-TGTGAAATAG
1 TGCTTTTGAGA-AG
*
8309767 TGCTTTTGAGAAA
1 TGCTTTTGAGAAG
8309780 TGCTTTTGA
1 TGCTTTTGA
8309789 AAAATTTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 5 0.12
13 31 0.76
14 5 0.12
ACGTcount: A:0.25, C:0.08, G:0.28, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:8309757 original size:26 final size:27
Alignment explanation
Indices: 8309726--8309790 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 27
8309716 CCAGTTTGGC
*
8309726 AATGCTTTTGAGA-AGTGCTTTTGAGA
1 AATGCTTTTGAAATAGTGCTTTTGAGA
* *
8309752 AGTGC-TGTGAAATAGTGCTTTTGAGA
1 AATGCTTTTGAAATAGTGCTTTTGAGA
8309778 AATGCTTTTGAAA
1 AATGCTTTTGAAA
8309791 AATTTAAGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 5 0.16
26 21 0.66
27 6 0.19
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (27 bp):
AATGCTTTTGAAATAGTGCTTTTGAGA
Found at i:8309793 original size:13 final size:13
Alignment explanation
Indices: 8309726--8309793 Score: 68
Period size: 13 Copynumber: 5.2 Consensus size: 13
8309716 CCAGTTTGGC
8309726 AATGCTTTTGAGA
1 AATGCTTTTGAGA
*
8309739 AGTGCTTTTGAGA
1 AATGCTTTTGAGA
* *
8309752 AGTGC-TGTGA-A
1 AATGCTTTTGAGA
8309763 ATAGTGCTTTTGAGA
1 A-A-TGCTTTTGAGA
*
8309778 AATGCTTTTGAAA
1 AATGCTTTTGAGA
8309791 AAT
1 AAT
8309794 TTAAGTGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
11 2 0.04
12 4 0.09
13 33 0.72
14 5 0.11
15 2 0.04
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.37
Consensus pattern (13 bp):
AATGCTTTTGAGA
Found at i:8311183 original size:3 final size:3
Alignment explanation
Indices: 8311175--8311206 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8311165 CTCAATTTGT
8311175 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8311207 TTAACTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8317795 original size:18 final size:18
Alignment explanation
Indices: 8317773--8317820 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
8317763 AGTAATATTT
*
8317773 ATTTATTCAGTATCAGT-
1 ATTTATTCAGTAACAGTC
*
8317790 AGTTTATTCTGTAACAGTC
1 A-TTTATTCAGTAACAGTC
*
8317809 AATTATTCAGTA
1 ATTTATTCAGTA
8317821 GCAGACAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (18 bp):
ATTTATTCAGTAACAGTC
Found at i:8319056 original size:17 final size:18
Alignment explanation
Indices: 8319034--8319072 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8319024 ACCTCAATTT
8319034 TTTCTTTTC-TCCCTTTC
1 TTTCTTTTCTTCCCTTTC
*
8319051 TTTC-TTTCTTTCCTTTC
1 TTTCTTTTCTTCCCTTTC
8319068 TTTCT
1 TTTCT
8319073 CCCCTGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTCTTTTCTTCCCTTTC
Found at i:8320286 original size:20 final size:20
Alignment explanation
Indices: 8320239--8320289 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8320229 AATATGTTTT
* * *
8320239 TTTTAGTTTTTAAAGGAAAG
1 TTTTAATTTTTAAAAGAAAA
* *
8320259 TTTAAATTTTTAAAATAAAA
1 TTTTAATTTTTAAAAGAAAA
8320279 TTTTAATTTTT
1 TTTTAATTTTT
8320290 TTTTTAAACT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTTAATTTTTAAAAGAAAA
Found at i:8320365 original size:23 final size:22
Alignment explanation
Indices: 8320323--8320391 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 22
8320313 AGTTTTAATC
8320323 TTTAAA-AAAAA--TAGTATTTT
1 TTTAAATAAAAATTTAGT-TTTT
*
8320343 TTTAATTAAAAAGTTTAGTTTTT
1 TTTAAATAAAAA-TTTAGTTTTT
*
8320366 TGTAAAATAAAAATTT-GTTTTT
1 T-TTAAATAAAAATTTAGTTTTT
8320388 TTTA
1 TTTA
8320392 GTTATTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
20 5 0.12
21 7 0.17
22 7 0.17
23 8 0.20
24 13 0.32
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
TTTAAATAAAAATTTAGTTTTT
Found at i:8320421 original size:150 final size:147
Alignment explanation
Indices: 8320204--8320534 Score: 429
Period size: 150 Copynumber: 2.2 Consensus size: 147
8320194 AAAAAATGAG
*
8320204 AAAGTTTAGATTTTGCAAAAATAAAAATATGTTTTTTTTAGTTTTTAAAGGAAAGTTTAAATTTT
1 AAAGTTTAGATTTTGCAAAAATAAAAATATGTTTTTTTTAGTTTTTAAAGAAAAGTTTAAATTTT
* * * **
8320269 TAAAATAAAATTTT-AATTTTTTTTTTAAACTACTTCAAAGTAAAAGTTTTAATCTTTAAAAAAA
66 TAAAACAAAATTTTGAACTTCTTTTTT-AACTACTTCAAAGTAAAAACTTTAATCTTTAAAAAAA
8320333 ATAGTATTTTTTTAATTAA
130 ATAGT-TTTTTTTAATTAA
* * * *
8320352 AAAGTTTAGTTTTTTG-TAAAATAAAAATTTGTTTTTTTTAGTTATTTTAATGAAAAGTTTAAAT
1 AAAGTTTAG-ATTTTGCAAAAATAAAAATATGTTTTTTTTAG-T-TTTTAAAGAAAAGTTTAAAT
*
8320416 TTTTAAAACAAAATTTTGAACTTCTTTTTTAACTACTTCAAAGTAAAAACTTTAATCTTTAATAA
63 TTTTAAAACAAAATTTTGAACTTCTTTTTTAACTACTTCAAAGTAAAAACTTTAATCTTTAAAAA
**
8320481 AAATAGTTTTTTTTAAAAAGGA
128 AAATAGTTTTTTTTAATTA--A
*
8320503 TAAAATTTAGATTTTG--AAAATAAAAATA-GTTT
1 -AAAGTTTAGATTTTGCAAAAATAAAAATATGTTT
8320535 AAATTTTGAA
Statistics
Matches: 160, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
148 32 0.20
149 20 0.12
150 84 0.52
151 16 0.10
152 8 0.05
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (147 bp):
AAAGTTTAGATTTTGCAAAAATAAAAATATGTTTTTTTTAGTTTTTAAAGAAAAGTTTAAATTTT
TAAAACAAAATTTTGAACTTCTTTTTTAACTACTTCAAAGTAAAAACTTTAATCTTTAAAAAAAA
TAGTTTTTTTTAATTAA
Found at i:8320535 original size:24 final size:25
Alignment explanation
Indices: 8320508--8320554 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
8320498 AAGGATAAAA
*
8320508 TTTAGATTTTG-AAAATAAAAATAG
1 TTTAAATTTTGAAAAATAAAAATAG
8320532 TTTAAATTTTGAAAAATAAAAAT
1 TTTAAATTTTGAAAAATAAAAAT
8320555 CTGTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (25 bp):
TTTAAATTTTGAAAAATAAAAATAG
Found at i:8330920 original size:17 final size:18
Alignment explanation
Indices: 8330888--8330921 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8330878 CGAAGTCATG
8330888 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
8330906 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
8330922 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:8333651 original size:4 final size:4
Alignment explanation
Indices: 8333644--8333681 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
8333634 TAAATAAACA
*
8333644 AATG AATG AATG AATG AATG GATG AATG AATG AATG AA
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AA
8333682 ATATGGGCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:8343908 original size:12 final size:13
Alignment explanation
Indices: 8343871--8343905 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
8343861 AAATATTTGA
8343871 CTTGTTTTTAATT
1 CTTGTTTTTAATT
*
8343884 ATGTGTTTTTAATT
1 CT-TGTTTTTAATT
8343898 CTTGTTTT
1 CTTGTTTT
8343906 AATATTCCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (13 bp):
CTTGTTTTTAATT
Found at i:8349409 original size:15 final size:15
Alignment explanation
Indices: 8349389--8349419 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8349379 CGTTTGGTTT
8349389 ACTGTAATGGAATAG
1 ACTGTAATGGAATAG
*
8349404 ACTGTAATTGAATAG
1 ACTGTAATGGAATAG
8349419 A
1 A
8349420 GTTGCAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (15 bp):
ACTGTAATGGAATAG
Found at i:8350096 original size:14 final size:14
Alignment explanation
Indices: 8350077--8350107 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8350067 ACAAACACAA
8350077 AAAAAATACAAAAT
1 AAAAAATACAAAAT
8350091 AAAAAATACAAAAT
1 AAAAAATACAAAAT
8350105 AAA
1 AAA
8350108 TTCACTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATACAAAAT
Found at i:8350558 original size:28 final size:30
Alignment explanation
Indices: 8350512--8350571 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
8350502 AAAAGACTTG
8350512 AAAATTAAATATAACTTAACTTTAAT-TTTT
1 AAAATTAAATATAACTTAA-TTTAATATTTT
* *
8350542 AAAATTATAT-TAA-TTAATTTATTATTTT
1 AAAATTAAATATAACTTAATTTAATATTTT
8350570 AA
1 AA
8350572 CTATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 10 0.37
29 3 0.11
30 9 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
AAAATTAAATATAACTTAATTTAATATTTT
Found at i:8351638 original size:44 final size:44
Alignment explanation
Indices: 8351575--8351674 Score: 182
Period size: 44 Copynumber: 2.3 Consensus size: 44
8351565 CTGATCACAT
*
8351575 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTGCCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
*
8351619 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAATCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
8351663 TTATCACTTGTC
1 TTATCACTTGTC
8351675 GCTTGTCGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
Found at i:8359422 original size:44 final size:44
Alignment explanation
Indices: 8359359--8359458 Score: 182
Period size: 44 Copynumber: 2.3 Consensus size: 44
8359349 CTGATCACAT
*
8359359 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTGCCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
*
8359403 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
8359447 TTATCACTTGTC
1 TTATCACTTGTC
8359459 GCTTGTCACT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
Found at i:8359455 original size:51 final size:51
Alignment explanation
Indices: 8359400--8359524 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 51
8359390 CTAAAACTGC
* *
8359400 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* *
8359451 CACTTGTCGCTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
1 CA-------CTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
*
8359509 CACTTGTCACTGATCA
1 CACTTGTCACTTATCA
8359525 GAAGTACTCA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
51 15 0.24
58 47 0.76
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (51 bp):
CACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:8359501 original size:58 final size:58
Alignment explanation
Indices: 8359406--8359516 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 58
8359396 CTGCCACTTA
*
8359406 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCGCTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCGCTTG
* *
8359464 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTC
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTC
8359517 ACTGATCAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (58 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCGCTTG
Found at i:8359667 original size:20 final size:22
Alignment explanation
Indices: 8359634--8359681 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
8359624 ATATTACATT
8359634 ATATAATTCATAAAATT-AA-C
1 ATATAATTCATAAAATTCAACC
*
8359654 ATATAA-TCATTAAACTTCAACC
1 ATATAATTCA-TAAAATTCAACC
8359676 ATATAA
1 ATATAA
8359682 ACTTACCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.12
20 12 0.50
21 2 0.08
22 7 0.29
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATAATTCATAAAATTCAACC
Found at i:8366367 original size:51 final size:51
Alignment explanation
Indices: 8366307--8366409 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
8366297 TCCTTACTTG
8366307 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAAA
1 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAAA
8366358 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAAA
1 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAAA
8366409 A
1 A
8366410 TTTCTCTTTT
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:0.46, C:0.10, G:0.06, T:0.39
Consensus pattern (51 bp):
AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAAA
Found at i:8368413 original size:23 final size:23
Alignment explanation
Indices: 8368387--8368440 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
8368377 CTAGATTTTT
*
8368387 TTCTAAATATTATTATTAAAAAA
1 TTCTAAATATTATTACTAAAAAA
*
8368410 TTCTAAATATTATTACTAAATAA
1 TTCTAAATATTATTACTAAAAAA
8368433 TTCTAAAT
1 TTCTAAAT
8368441 TTAAAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TTCTAAATATTATTACTAAAAAA
Found at i:8380913 original size:17 final size:18
Alignment explanation
Indices: 8380880--8380914 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8380870 AAATTAGAGG
*
8380880 AGAATTTATGAGAGAAAA
1 AGAATTGATGAGAGAAAA
8380898 AGAATTGATG-GAGAAAA
1 AGAATTGATGAGAGAAAA
8380915 TTTGATGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (18 bp):
AGAATTGATGAGAGAAAA
Found at i:8381514 original size:11 final size:11
Alignment explanation
Indices: 8381498--8381522 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8381488 TTTTTTTAAG
8381498 ACTAATATACT
1 ACTAATATACT
8381509 ACTAATATACT
1 ACTAATATACT
8381520 ACT
1 ACT
8381523 TTCGAGCTTA
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:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (11 bp):
ACTAATATACT
Found at i:8395966 original size:27 final size:26
Alignment explanation
Indices: 8395918--8395977 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
8395908 GCGAGGCTGC
*
8395918 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
8395945 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
8395971 CAGATAT
1 CAGATAT
8395978 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:8396072 original size:27 final size:26
Alignment explanation
Indices: 8396025--8396075 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
8396015 CGAGGCTGCT
*
8396025 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
8396051 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
8396076 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:8398550 original size:10 final size:10
Alignment explanation
Indices: 8398537--8398570 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
8398527 TTATTTTCAT
8398537 TTATCTTTAA
1 TTATCTTTAA
8398547 TTATCTTTAA
1 TTATCTTTAA
*
8398557 TTATCTTTAT
1 TTATCTTTAA
8398567 TTAT
1 TTAT
8398571 TTGTATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:8398584 original size:20 final size:19
Alignment explanation
Indices: 8398525--8398584 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
8398515 TAATTTTAGG
8398525 ATTTATTTTCATTTATCTTT
1 ATTTATTTT-ATTTATCTTT
* *
8398545 AATTATCTTTAATTATCTTT
1 ATTTAT-TTTATTTATCTTT
*
8398565 ATTTATTTGTATTTACCTTT
1 ATTTATTT-TATTTATCTTT
8398585 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTATTTTATTTATCTTT
Found at i:8404972 original size:15 final size:16
Alignment explanation
Indices: 8404934--8404965 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8404924 CAACCCAACC
8404934 TTTAT-TTTTACTTAT
1 TTTATATTTTACTTAT
8404949 TTTATATTTT-CTTAT
1 TTTATATTTTACTTAT
8404964 TT
1 TT
8404966 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATATTTTACTTAT
Found at i:8404977 original size:19 final size:20
Alignment explanation
Indices: 8404953--8404997 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
8404943 ACTTATTTTA
* *
8404953 TATTTTCTTATTTCTTA-TT
1 TATTTTATTATTTATTACTT
8404972 TATTTTATTATTTATTACTT
1 TATTTTATTATTTATTACTT
8404992 TATTTT
1 TATTTT
8404998 TGGATATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTTATTATTTATTACTT
Found at i:8407680 original size:96 final size:97
Alignment explanation
Indices: 8407516--8407699 Score: 273
Period size: 96 Copynumber: 1.9 Consensus size: 97
8407506 TTTTTAAGAA
* * *
8407516 TGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATATCTCTTTGCGTCAAAAGGTTCG
1 TGTGTTGGGCTGAGTAACCGAGATGAGGTGCTTGACTGTCATATCTCTTTGCGTCAAAAGGTTCG
*
8407581 ATATGTTATTAAG-AAAAATAAAAATTAGGAG
66 ATATATTATTAAGCAAAAATAAAAATTAGGAG
* * *
8407612 TGTGTTGGGTTGAGTAACCGAGATGGGGTGCTTGACTGTCATCTCT-TTTCGCGTCAAAAGGTTC
1 TGTGTTGGGCTGAGTAACCGAGATGAGGTGCTTGACTGTCATATCTCTTT-GCGTCAAAAGGTTC
*
8407676 GATATATTCTTAAGCAAAAATAAA
65 GATATATTATTAAGCAAAAATAAA
8407700 TAAATATTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
95 3 0.04
96 66 0.85
97 9 0.12
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (97 bp):
TGTGTTGGGCTGAGTAACCGAGATGAGGTGCTTGACTGTCATATCTCTTTGCGTCAAAAGGTTCG
ATATATTATTAAGCAAAAATAAAAATTAGGAG
Found at i:8408353 original size:10 final size:10
Alignment explanation
Indices: 8408338--8408387 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
8408328 TAATTTTAGA
8408338 ATTTAT-TTT
1 ATTTATCTTT
8408347 CATTTATCTTT
1 -ATTTATCTTT
*
8408358 AATTATCTTT
1 ATTTATCTTT
8408368 ATTTAT-TTGT
1 ATTTATCTT-T
8408378 ATTTATCTTT
1 ATTTATCTTT
8408388 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:8415383 original size:7 final size:7
Alignment explanation
Indices: 8415371--8415395 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8415361 TTTGACCCCT
8415371 TTTCTTG
1 TTTCTTG
8415378 TTTCTTG
1 TTTCTTG
8415385 TTTCTTG
1 TTTCTTG
8415392 TTTC
1 TTTC
8415396 AATTTAGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.12, T:0.72
Consensus pattern (7 bp):
TTTCTTG
Found at i:8419107 original size:8 final size:8
Alignment explanation
Indices: 8419094--8419137 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
8419084 TATTTTTAAA
8419094 AATATTTT
1 AATATTTT
8419102 AATATTTT
1 AATATTTT
8419110 AATATTTT
1 AATATTTT
8419118 -AT-TTTT
1 AATATTTT
*
8419124 -AT-TTTA
1 AATATTTT
8419130 AATATTTT
1 AATATTTT
8419138 TTAAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 9 0.28
7 4 0.12
8 19 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
AATATTTT
Found at i:8420757 original size:15 final size:14
Alignment explanation
Indices: 8420724--8420778 Score: 92
Period size: 14 Copynumber: 3.9 Consensus size: 14
8420714 AATGTTTTTA
8420724 GGAAAATGATTTCT
1 GGAAAATGATTTCT
*
8420738 GGAAAATAATTTCTT
1 GGAAAATGATTTC-T
8420753 GGAAAATGATTTCT
1 GGAAAATGATTTCT
8420767 GGAAAATGATTT
1 GGAAAATGATTT
8420779 ACTTTTCTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.36
Consensus pattern (14 bp):
GGAAAATGATTTCT
Found at i:8421265 original size:22 final size:22
Alignment explanation
Indices: 8421239--8421287 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
8421229 ATCCAATTGC
*
8421239 ATAACTAATACTACACCATATG
1 ATAACTAATACTACACCACATG
*
8421261 ATAACTAATATTACACCACATG
1 ATAACTAATACTACACCACATG
8421283 ATAAC
1 ATAAC
8421288 AACAATATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (22 bp):
ATAACTAATACTACACCACATG
Found at i:8422345 original size:27 final size:30
Alignment explanation
Indices: 8422279--8422351 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 30
8422269 GTCAATCATT
*
8422279 TCAATATCCAACAAGCTTAAAACATAATAAAC
1 TCAATATCTAACAAGCTTAAAAC--AATAAAC
*
8422311 TCAATATCTAACAAGCTTGAAAC-AT-AA-
1 TCAATATCTAACAAGCTTAAAACAATAAAC
8422338 TCAATATCTAACAA
1 TCAATATCTAACAA
8422352 AATCAAGACA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.36
28 2 0.05
29 2 0.05
32 21 0.54
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.25
Consensus pattern (30 bp):
TCAATATCTAACAAGCTTAAAACAATAAAC
Found at i:8427416 original size:20 final size:20
Alignment explanation
Indices: 8427379--8427418 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8427369 CTTGGATTAG
*
8427379 ATTAAATTAATCTCTTTATT
1 ATTAAATTAATCTATTTATT
* *
8427399 ATTAAGTTAATTTATTTATT
1 ATTAAATTAATCTATTTATT
8427419 TTTATATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (20 bp):
ATTAAATTAATCTATTTATT
Found at i:8428521 original size:16 final size:16
Alignment explanation
Indices: 8428500--8428533 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
8428490 CCCTCTTATT
8428500 TATAATTATTGTTTAA
1 TATAATTATTGTTTAA
8428516 TATAATTATTGTTTAA
1 TATAATTATTGTTTAA
8428532 TA
1 TA
8428534 CGAGCAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TATAATTATTGTTTAA
Found at i:8430434 original size:131 final size:130
Alignment explanation
Indices: 8430266--8430500 Score: 337
Period size: 131 Copynumber: 1.8 Consensus size: 130
8430256 CTTTAAATCA
** * *
8430266 TTTTATTTTAAAATTTGTACTTTGATTTTTAAAAGGATATTCGGTTGTTTAGATCCAACGAGAAA
1 TTTTATTTTAAAATTTGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAGATCCAACGAGAAA
*
8430331 AATCGAAACCCCGTAAGTTAGGGCACGACCTTCTTGAATTTCTAAACACAGAATATTGCTTTTAC
66 AATCGAAACCCCGTAAGTTAGGGCACGACCTTCTCGAATTTCTAAACACAGAATATTGCTTTTAC
* * * *
8430396 TTTTA-TTTAAAATTCATGTATTTTGAAATTTAAAAGGATGTTCGGCTATTTAGGTTCAACGAGA
1 TTTTATTTTAAAATT--TGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAGATCCAACGAGA
* * *
8430460 AAAATTGAAACCCCGTAAGTTAGGGTACGATCTTCTCGAAT
64 AAAATCGAAACCCCGTAAGTTAGGGCACGACCTTCTCGAAT
8430501 CTCCAAAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
129 9 0.10
130 5 0.05
131 77 0.85
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (130 bp):
TTTTATTTTAAAATTTGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAGATCCAACGAGAAA
AATCGAAACCCCGTAAGTTAGGGCACGACCTTCTCGAATTTCTAAACACAGAATATTGCTTTTAC
Found at i:8432863 original size:143 final size:143
Alignment explanation
Indices: 8432636--8433214 Score: 740
Period size: 143 Copynumber: 4.1 Consensus size: 143
8432626 GACTTTGACT
* * * * * * *
8432636 TGCTCTACTGCTACTTCAGAGAGATAAGATTCG---TAACTTGTAGCTTTAATCTGCTCCACCGC
1 TGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGC
* * * * *
8432698 AACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTCCAGAGAGATAAGGCT
66 AACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGCT
8432763 GGTGGCTTCAATC
131 GGTGGCTTCAATC
* * * * *
8432776 TACTCAACTGCAACTTTAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTATTCCACTGC
1 TGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGC
* * * * * * *
8432841 AATGTCATGGAAATAAGATTCGCTGTCTTTAGTTTGCTCCACTACAACTTCA-AGGAGATAAAGC
66 AACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGA-GAGATAAGGC
*
8432905 TGGTGGCTTTAATC
130 TGGTGGCTTCAATC
*
8432919 TGCTCCACTGCAACTTCA-AGAAGATAAGATCCGCCACAATTTGTAGCTTTAATCTGTTCCACTG
1 TGCTCCACTGCAACTTCAGA-AAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTG
* * *
8432983 CAACGTCAAGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGCAACATT-AGGGAAATAAGG
65 CAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAAC-TTCAGAGAGATAAGG
*
8433047 TTGGTGGCTTCAATC
129 CTGGTGGCTTCAATC
* * *
8433062 TGCTCCACTACAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTGC
1 TGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGC
* *
8433127 AACGTCAAGAAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAG-GAAGATAAGGC
66 AACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAG-AGATAAGGC
* *
8433191 TAGTGGCTTCAATT
130 TGGTGGCTTCAATC
8433205 TGCTCCACTG
1 TGCTCCACTG
8433215 TTACTTTAAG
Statistics
Matches: 378, Mismatches: 51, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
140 28 0.07
142 5 0.01
143 343 0.91
144 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (143 bp):
TGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGC
AACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGCT
GGTGGCTTCAATC
Found at i:8433031 original size:45 final size:45
Alignment explanation
Indices: 8432969--8433214 Score: 124
Period size: 45 Copynumber: 5.3 Consensus size: 45
8432959 TTGTAGCTTT
*
8432969 AATCTGTTCCACTGCAACGTCAAGGAAATAAGATTTGCTGTCTTC
1 AATCTGCTCCACTGCAACGTCAAGGAAATAAGATTTGCTGTCTTC
* * * * * * * *
8433014 AGTCTGCTCCGCTGCAACATTAGGGAAATAAG-GTTGGTGGCTTC
1 AATCTGCTCCACTGCAACGTCAAGGAAATAAGATTTGCTGTCTTC
* * * *
8433058 AATCTGCTCCACTACAACTTC-AGGAAGATAAGATCCACCATAAT-TTGTAGCTTT
1 AATCTGCTCCACTGCAACGTCAAGGAA-ATAAGAT------T--TGCTGT--CTTC
* * **
8433112 AATCTGTTCCACTGCAACGTCAAGAAAATAAGATTCACTGTCTTC
1 AATCTGCTCCACTGCAACGTCAAGGAAATAAGATTTGCTGTCTTC
* * * ** * *
8433157 AGTCTGCTCCGCTGCAACTTC-AGGAAGATAAGGCTAG-TGGCTTC
1 AATCTGCTCCACTGCAACGTCAAGGAA-ATAAGATTTGCTGTCTTC
*
8433201 AATTTGCTCCACTG
1 AATCTGCTCCACTG
8433215 TTACTTTAAG
Statistics
Matches: 147, Mismatches: 39, Indels: 31
0.68 0.18 0.14
Matches are distributed among these distances:
43 4 0.03
44 51 0.35
45 52 0.35
47 3 0.02
48 1 0.01
51 1 0.01
52 2 0.01
53 1 0.01
54 28 0.19
55 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACGTCAAGGAAATAAGATTTGCTGTCTTC
Found at i:8433089 original size:44 final size:44
Alignment explanation
Indices: 8432964--8433090 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 44
8432954 ACAATTTGTA
* * * *
8432964 GCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTTGCTG
1 GCTTCAATCTGCTCCACTGCAACTTC-AGGAAATAAGAGTTGCTG
* * * *
8433009 TCTTCAGTCTGCTCCGCTGCAACATT-AGGGAAATAAG-GTTGGTG
1 GCTTCAATCTGCTCCACTGCAAC-TTCA-GGAAATAAGAGTTGCTG
*
8433053 GCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGAA-ATAAGA
8433091 TCCACCATAA
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
43 6 0.09
44 31 0.48
45 27 0.42
46 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGAAATAAGAGTTGCTG
Found at i:8433826 original size:65 final size:65
Alignment explanation
Indices: 8433720--8433845 Score: 173
Period size: 65 Copynumber: 1.9 Consensus size: 65
8433710 ATAATGATGG
* * * * *
8433720 ATAAAAAAGAAATTGATTGAAGGCATAGCTTGAGACGAATAAGTTAATCAAAGATGGCAAATACA
1 ATAAAAAAGAAATTGATTGAAGGAATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATACA
* *
8433785 ATAAGAAAGAAATTGATTG-AGAGAATAGCTCGAAATGAATAAATTAATCAAAGATAGCAAA
1 ATAAAAAAGAAATTGATTGAAG-GAATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAA
8433846 CTATACTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
64 2 0.04
65 51 0.96
ACGTcount: A:0.52, C:0.08, G:0.19, T:0.21
Consensus pattern (65 bp):
ATAAAAAAGAAATTGATTGAAGGAATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATACA
Found at i:8434623 original size:26 final size:26
Alignment explanation
Indices: 8434594--8434675 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
8434584 TGGTACAAAT
8434594 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
8434620 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
8434646 TGATAATGGGTTAGGTATATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
8434672 TGAT
1 TGAT
8434676 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:8437352 original size:1 final size:1
Alignment explanation
Indices: 8437337--8437455 Score: 85
Period size: 1 Copynumber: 119.0 Consensus size: 1
8437327 TAGCCTCTCC
* * * * * * * * * *
8437337 TTTTTCTTTTCTTTTTCTTTTTTCTTTTCTTTTTTTCTTTTTTTTTCTTTTCTTTTCTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
8437402 TTTCTTTTTATTTTTATTTTTTTCTTTTTCTTTTTTCTTTTTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8437456 AAGGTGAAGT
Statistics
Matches: 84, Mismatches: 34, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:8437398 original size:33 final size:32
Alignment explanation
Indices: 8437337--8437455 Score: 142
Period size: 32 Copynumber: 3.8 Consensus size: 32
8437327 TAGCCTCTCC
8437337 TTTTTCTTTTCTTTTTC--TTTTTTCTTTTCTT
1 TTTTTCTTTT-TTTTTCTTTTTTTTCTTTTCTT
8437368 TTTTTCTTTTTTTTTCTTTTCTTTTCTTTTC-T
1 TTTTTCTTTTTTTTTCTTTT-TTTTCTTTTCTT
8437400 TTTTTCTTTTTATTTT-TATTTTTTTCTTTT-TCT
1 TTTTTCTTTTT-TTTTCT-TTTTTTTCTTTTCT-T
*
8437433 TTTTTC-TTTTTTTTATTTTTTTT
1 TTTTTCTTTTTTTTTCTTTTTTTT
8437456 AAGGTGAAGT
Statistics
Matches: 80, Mismatches: 0, Indels: 16
0.83 0.00 0.17
Matches are distributed among these distances:
30 6 0.08
31 21 0.26
32 29 0.36
33 24 0.30
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.86
Consensus pattern (32 bp):
TTTTTCTTTTTTTTTCTTTTTTTTCTTTTCTT
Found at i:8447711 original size:21 final size:21
Alignment explanation
Indices: 8447685--8447725 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8447675 ATCTGCTCAA
* *
8447685 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8447706 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8447726 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8453586 original size:30 final size:31
Alignment explanation
Indices: 8453552--8453616 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
8453542 CGTAACTAAA
*
8453552 AAAAGTTATAAATTAA-TCACTAAATTATTC
1 AAAAGTTATAAATTAAGTCACTAAACTATTC
* * * *
8453582 AAAAGTTTTCATTTAAGTCAGTAAACTATTC
1 AAAAGTTATAAATTAAGTCACTAAACTATTC
8453613 AAAA
1 AAAA
8453617 ATTTTCATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (31 bp):
AAAAGTTATAAATTAAGTCACTAAACTATTC
Found at i:8453614 original size:31 final size:31
Alignment explanation
Indices: 8453564--8453634 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
8453554 AAGTTATAAA
* *
8453564 TTAA-TCACTAAATTATTCAAAAGTTTTCAT
1 TTAAGTCACTAAACTATTCAAAAATTTTCAT
*
8453594 TTAAGTCAGTAAACTATTCAAAAATTTTCAT
1 TTAAGTCACTAAACTATTCAAAAATTTTCAT
*
8453625 TAAAGTCACT
1 TTAAGTCACT
8453635 GAGTTGTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (31 bp):
TTAAGTCACTAAACTATTCAAAAATTTTCAT
Found at i:8454801 original size:17 final size:17
Alignment explanation
Indices: 8454779--8454813 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8454769 AAGACTAAGA
8454779 AAGGAGGAGAAGCGTAG
1 AAGGAGGAGAAGCGTAG
8454796 AAGGAGGAGAAGCGTAG
1 AAGGAGGAGAAGCGTAG
8454813 A
1 A
8454814 TGTTGTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.46, T:0.06
Consensus pattern (17 bp):
AAGGAGGAGAAGCGTAG
Found at i:8460312 original size:20 final size:20
Alignment explanation
Indices: 8460283--8460320 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8460273 TTAAAAATAT
*
8460283 ATATAGAAATTTATAAAAGA
1 ATATAGAAATATATAAAAGA
*
8460303 ATATATAAATATATAAAA
1 ATATAGAAATATATAAAA
8460321 TTGAGAAACG
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:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
ATATAGAAATATATAAAAGA
Found at i:8463761 original size:38 final size:40
Alignment explanation
Indices: 8463652--8463765 Score: 196
Period size: 40 Copynumber: 2.9 Consensus size: 40
8463642 ATTTGATGTG
8463652 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
8463692 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
* *
8463732 TATCCGGG-TTAAA-TCTCGCAGGCTTCGTGCTGGT
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGT
8463766 GATGTATATT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
38 19 0.26
39 5 0.07
40 48 0.67
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
Found at i:8463802 original size:16 final size:16
Alignment explanation
Indices: 8463776--8463821 Score: 83
Period size: 16 Copynumber: 2.8 Consensus size: 16
8463766 GATGTATATT
8463776 CAGGCCTTCGTGCCTAG
1 CAGG-CTTCGTGCCTAG
8463793 CAGGCTTCGTGCCTAG
1 CAGGCTTCGTGCCTAG
8463809 CAGGCTTCGTGCC
1 CAGGCTTCGTGCC
8463822 GGTGATGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.11, C:0.35, G:0.30, T:0.24
Consensus pattern (16 bp):
CAGGCTTCGTGCCTAG
Found at i:8463841 original size:59 final size:59
Alignment explanation
Indices: 8463749--8463864 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 59
8463739 GTTAAATCTC
*
8463749 GCAGGCTTCGTGCTGGTGATGTATATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTATATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCTA
* * *
8463808 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GCAGGCTTCGTGCCGGTGATGTATATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCC
8463865 GGTGATGTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.30
Consensus pattern (59 bp):
GCAGGCTTCGTGCCGGTGATGTATATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCTA
Found at i:8464342 original size:43 final size:43
Alignment explanation
Indices: 8463797--8464329 Score: 904
Period size: 43 Copynumber: 12.4 Consensus size: 43
8463787 GCCTAGCAGG
8463797 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8463840 CTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8463883 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTACTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
* * *
8463926 CTTCGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATTCAGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8463969 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTACTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8464012 CTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
* * * * *
8464055 CTTCGTGTCTAGCAGGCTTCGTACCGATGATGTGTATTTGGAC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
8464098 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8464141 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTATATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
8464184 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
* * **
8464227 CTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTGTTTTCTAGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
8464270 CTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
8464313 CTTCGTGCCTAGCAGGC
1 CTTCGTGCCTAGCAGGC
8464330 GTAATGCCGG
Statistics
Matches: 454, Mismatches: 36, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 454 1.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
Found at i:8465633 original size:22 final size:22
Alignment explanation
Indices: 8465608--8465655 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
8465598 CAATAACTCT
8465608 ATAAT-TTTCGAAATTT-TAGAAA
1 ATAATGTTT-GAAATTTAT-GAAA
*
8465630 ATAATGTTTTAAATTTATGAAA
1 ATAATGTTTGAAATTTATGAAA
8465652 ATAA
1 ATAA
8465656 ATAAAAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (22 bp):
ATAATGTTTGAAATTTATGAAA
Found at i:8466789 original size:11 final size:12
Alignment explanation
Indices: 8466769--8466794 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8466759 ATTTGTGATC
8466769 TTTTCTTTTTTT
1 TTTTCTTTTTTT
8466781 TTTTCTTTTTTT
1 TTTTCTTTTTTT
8466793 TT
1 TT
8466795 ATGTTATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:8478877 original size:48 final size:48
Alignment explanation
Indices: 8478822--8479053 Score: 206
Period size: 48 Copynumber: 4.9 Consensus size: 48
8478812 CATTGGTTTG
* * * * **
8478822 ATGAGATCCCGTATAAGACCATATCTAGGATATGACATCAGCATCGAT
1 ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAT
* * * * *
8478870 GTGAGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGTT
1 ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAT
* *
8478918 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGAT
1 ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAT
* * * *
8478966 ATGAGA-CATCGTGTAAGACCATAGCTAGG-CTATCGGC-TTCG-AT--AT
1 ATGAGATC-CCATGTAAGACCATATCTAGGAC-AT-GGCATTGGCATCGAT
* * * *
8479011 ATGTGATCCCATGTAAGACCATATCTCGAATATGGCATTGGCA
1 ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCA
8479054 CCTTACCATG
Statistics
Matches: 147, Mismatches: 30, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
44 3 0.02
45 28 0.19
46 2 0.01
47 4 0.03
48 107 0.73
49 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (48 bp):
ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAT
Found at i:8482045 original size:20 final size:21
Alignment explanation
Indices: 8482020--8482058 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8482010 CTCTTGTAAC
*
8482020 AGGGC-ACACGCTCGTGTGAA
1 AGGGCAACACGCCCGTGTGAA
8482040 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
8482059 GTCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.36, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGAA
Found at i:8483366 original size:48 final size:47
Alignment explanation
Indices: 8483311--8483523 Score: 216
Period size: 46 Copynumber: 4.5 Consensus size: 47
8483301 AAGCTAACGC
* * *
8483311 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
** * *
8483359 CATGTCCCAGACATGTCTTACACTAGCTTT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
* * * **
8483405 CATGTCCCAGACATGTCTCACACTGGCTTAAATATCTCGAGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
* * ***
8483453 CATGTCCCAGACATGTCTTACACTGGCTCTTATA-CT-GTGATTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCCGATG
*
8483499 CATGTCCCAGACATTTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
8483524 TCACACATAT
Statistics
Matches: 138, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
46 67 0.49
47 3 0.02
48 67 0.49
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
Found at i:8483499 original size:94 final size:93
Alignment explanation
Indices: 8483311--8483523 Score: 241
Period size: 94 Copynumber: 2.3 Consensus size: 93
8483301 AAGCTAACGC
* * ** *
8483311 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
*
8483376 TTACACTAGCTTTCGTCTCAATGCCGATG
66 TTACACTAGCTTTCATCT-AATGCCGATG
* * * *
8483405 CATGTCCCAGACATGTCTCACACTGGCTTAAATATCTCGAGGCTAATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
* * **
8483470 TTACACTGGCTCTT-ATACT-GTGATTGATG
66 TTACACTAGCT-TTCAT-CTAATG-CCGATG
*
8483499 CATGTCCCAGACATTTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
8483524 TCACACATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
93 2 0.02
94 93 0.94
95 4 0.04
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTTTCATCTAATGCCGATG
Found at i:8489196 original size:57 final size:56
Alignment explanation
Indices: 8489135--8489257 Score: 147
Period size: 56 Copynumber: 2.2 Consensus size: 56
8489125 TTAACCTAAG
** * *
8489135 CTGGTAATCCAAATTAAGCTCTTTAGAGTATTTGTCACAGAAAGGATTTAGCCTGGA
1 CTGGTAATCCAAACAAAGCTC-TTAGAGCATATGTCACAGAAAGGATTTAGCCTGGA
*** * *
8489192 CTGGTAATCTTGACAAAGCTCTTAGAGCATATGTTACAGACAGGATTTAGCCTGGA
1 CTGGTAATCCAAACAAAGCTCTTAGAGCATATGTCACAGAAAGGATTTAGCCTGGA
*
8489248 CTAGTAATCC
1 CTGGTAATCC
8489258 TGCTGTATGA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
56 39 0.71
57 16 0.29
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (56 bp):
CTGGTAATCCAAACAAAGCTCTTAGAGCATATGTCACAGAAAGGATTTAGCCTGGA
Found at i:8489241 original size:56 final size:57
Alignment explanation
Indices: 8489150--8489256 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 57
8489140 AATCCAAATT
* * *
8489150 AAGCTCTTTAGAGTATTTGTCACAGAAAGGATTTAGCCTGGACTGGTAATCTTGACA
1 AAGCTCTTTAGAGCATATGTCACAGAAAGGATTTAGCCTGGACTAGTAATCTTGACA
* *
8489207 AAGCTC-TTAGAGCATATGTTACAGACAGGATTTAGCCTGGACTAGTAATC
1 AAGCTCTTTAGAGCATATGTCACAGAAAGGATTTAGCCTGGACTAGTAATC
8489257 CTGCTGTATG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
56 39 0.87
57 6 0.13
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (57 bp):
AAGCTCTTTAGAGCATATGTCACAGAAAGGATTTAGCCTGGACTAGTAATCTTGACA
Found at i:8489325 original size:64 final size:64
Alignment explanation
Indices: 8489224--8489351 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
8489214 TAGAGCATAT
* *
8489224 GTTACAGACAGGATTTAGCCTGGACTAGTAATCCTGCTGTATGATATGTGGCTCGAGAATGTGC
1 GTTACAGACAGGATTTAGCCTGGACTAGTAATCCTGCTGTATGATATGTGGCTCAAAAATGTGC
* *
8489288 GTTACAGGCAGGATTTAGCCTGGACTGGTAATCCTGCTGTATGATATGTGGCTCAAAAATGTGC
1 GTTACAGACAGGATTTAGCCTGGACTAGTAATCCTGCTGTATGATATGTGGCTCAAAAATGTGC
8489352 TCTCAGAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (64 bp):
GTTACAGACAGGATTTAGCCTGGACTAGTAATCCTGCTGTATGATATGTGGCTCAAAAATGTGC
Found at i:8490293 original size:16 final size:16
Alignment explanation
Indices: 8490272--8490307 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8490262 AATCCCTAAC
* *
8490272 AATCTTCAAGTCCCTA
1 AATCTTCAAATACCTA
8490288 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
8490304 AATC
1 AATC
8490308 CATAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:8491652 original size:39 final size:39
Alignment explanation
Indices: 8491600--8491724 Score: 205
Period size: 39 Copynumber: 3.2 Consensus size: 39
8491590 GACTTTAGCT
* * * *
8491600 CGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
8491639 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
*
8491678 CAGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
8491717 CGGATATA
1 CGGATATA
8491725 CATCACTGAA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
Found at i:8494509 original size:22 final size:22
Alignment explanation
Indices: 8494479--8494523 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8494469 TAAGCATATG
*
8494479 ATTTGGATAAATGTACTTTACA
1 ATTTCGATAAATGTACTTTACA
*
8494501 ATTTCGATAAGTGTACTTTACA
1 ATTTCGATAAATGTACTTTACA
8494523 A
1 A
8494524 AAGCATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
ATTTCGATAAATGTACTTTACA
Found at i:8497356 original size:51 final size:50
Alignment explanation
Indices: 8497294--8497446 Score: 200
Period size: 51 Copynumber: 3.0 Consensus size: 50
8497284 CTACGTGTAG
* * *
8497294 CAGCAACATTATCTAGTCCATTTGATGTTGCAAAGTCATCAGCATATTCAT
1 CAGCAACATTATCTACTCCATCTGATGTTGCAAAATCA-CAGCATATTCAT
* * *
8497345 CCGCAACATTAT-TCACTCTATCTGATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCT-ACTCCATCTGATGTTGCAAAATCA-CAGCATATTCAT
*
8497396 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCAT
1 CAGCAACATTATCTACTCCATCTGATGTTGCAAAATCAC-AGCATATTCAT
8497447 TACCAGAAAC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
50 2 0.02
51 86 0.98
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.31
Consensus pattern (50 bp):
CAGCAACATTATCTACTCCATCTGATGTTGCAAAATCACAGCATATTCAT
Found at i:8497667 original size:33 final size:33
Alignment explanation
Indices: 8497555--8497697 Score: 94
Period size: 33 Copynumber: 4.3 Consensus size: 33
8497545 GTAGCAGACA
* * * *
8497555 CACCCTCCCCATCAGCTTGTACCTCTCCTA-CAT
1 CACCCTCCCCATCAGATTCTACCCCT-TTATCAT
* * * * * *
8497588 CACCTTCCTCACCAGATTCTA-CCTTTTCTAAAT
1 CACCCTCCCCATCAGATTCTACCCCTTTAT-CAT
* **
8497621 CACCTTCATCATCAGATTCTACCCCTTTATCAT
1 CACCCTCCCCATCAGATTCTACCCCTTTATCAT
* * *
8497654 CACCCTCCCCATCA-ACTTCCACCCCTTCAACAT
1 CACCCTCCCCATCAGA-TTCTACCCCTTTATCAT
8497687 CACCCTCCCCA
1 CACCCTCCCCA
8497698 GTAGTCAACA
Statistics
Matches: 85, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
31 1 0.01
32 3 0.04
33 75 0.88
34 6 0.07
ACGTcount: A:0.22, C:0.46, G:0.03, T:0.29
Consensus pattern (33 bp):
CACCCTCCCCATCAGATTCTACCCCTTTATCAT
Found at i:8498728 original size:18 final size:16
Alignment explanation
Indices: 8498685--8498720 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8498675 GAATGCTATC
* *
8498685 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
8498701 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
8498717 GATT
1 GATT
8498721 GTTAGGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Found at i:8499716 original size:15 final size:15
Alignment explanation
Indices: 8499696--8499727 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8499686 CATTTCACTA
*
8499696 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
8499711 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
8499726 TT
1 TT
8499728 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:8508183 original size:26 final size:26
Alignment explanation
Indices: 8508147--8508201 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
8508137 TCTTTATACT
8508147 TTTAGAATTTACTCTTTATTTTTCAA
1 TTTAGAATTTACTCTTTATTTTTCAA
*
8508173 TTTAGAATTTACTCTTTATTTTTTAA
1 TTTAGAATTTACTCTTTATTTTTCAA
8508199 TTT
1 TTT
8508202 TCAAAATTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTAGAATTTACTCTTTATTTTTCAA
Found at i:8510697 original size:160 final size:162
Alignment explanation
Indices: 8510523--8510837 Score: 368
Period size: 162 Copynumber: 2.0 Consensus size: 162
8510513 ATTTTATACT
* * * * ** * *
8510523 TAATCTATATTATATAAAATCTAACTCTTAA-GGAGTCATAAAAGT-AA-ATAGGGGTATAAATT
1 TAATATATATTATATAAAA-CCAACTCCTAACAGAAACATAAAAGTAAACATAGGGATATAAATG
* * * * *
8510585 ATTTTTTAATTTTTTTTAAAATATACATTCCGTTTCTAGTAAATAAACAGGGTTAT-AGTAGATT
65 ATTTTTTAATTTATATTAAAATATACATTCCGTTTCTAGAAAATAAACAGGATTATGA-TAGACT
* *
8510649 TTTATTAAGTTAAAATTTGTATGTCTATATAATA
129 TTTAGTAAGTTAAAATTTGTATATCTATATAATA
* *
8510683 TAATATATATTATATAAAACCAATTCCTAACAGAAACATAAGAGTAAACATAGGGATATAAATGA
1 TAATATATATTATATAAAACCAACTCCTAACAGAAACATAAAAGTAAACATAGGGATATAAATGA
* * * * *
8510748 TTTTTTAATTTATATTAATATATACTTTCTGTTTCTAGAAAATAAATAGGATTGTGATAGACTTT
66 TTTTTTAATTTATATTAAAATATACATTCCGTTTCTAGAAAATAAACAGGATTATGATAGACTTT
* *
8510813 TAGTATGTTATAATTTGTATATCTA
131 TAGTAAGTTAAAATTTGTATATCTA
8510838 CGTAATATTT
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
159 8 0.06
160 28 0.22
161 2 0.02
162 88 0.69
163 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (162 bp):
TAATATATATTATATAAAACCAACTCCTAACAGAAACATAAAAGTAAACATAGGGATATAAATGA
TTTTTTAATTTATATTAAAATATACATTCCGTTTCTAGAAAATAAACAGGATTATGATAGACTTT
TAGTAAGTTAAAATTTGTATATCTATATAATA
Found at i:8516990 original size:16 final size:17
Alignment explanation
Indices: 8516961--8517000 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
8516951 TTTAAAATTT
*
8516961 ATAAAAATATTAAAAAA
1 ATAAAAATACTAAAAAA
*
8516978 ATAAAAAT-CTAAAGAA
1 ATAAAAATACTAAAAAA
8516994 ATAAAAA
1 ATAAAAA
8517001 GTTCATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
ATAAAAATACTAAAAAA
Found at i:8517503 original size:5 final size:5
Alignment explanation
Indices: 8517493--8517520 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8517483 ATTGTGATTC
8517493 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
8517521 AACGATGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:8522032 original size:51 final size:49
Alignment explanation
Indices: 8521914--8522036 Score: 120
Period size: 51 Copynumber: 2.4 Consensus size: 49
8521904 AAAGGACTAG
* * *
8521914 TTTTTAAAAATTTTCATTAAATCCTTTAAAATTTTTATTAGCCTTCAAAG
1 TTTTTAAAAA-TTTCATTAAATCCTTTAAAATTTTAATTAACCTTCAAAA
* * * ** * *
8521964 TTTTTGAAATTTCTCATTGGAATTTTTTATAATTTTAATTAAACCTTTAAAA
1 TTTTTAAAAATT-TCATT-AAATCCTTTAAAATTTTAATT-AACCTTCAAAA
8522016 TTTTTAAAAATTTCATTAAAT
1 TTTTTAAAAATTTCATTAAAT
8522037 TCCAATTTTT
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
49 2 0.04
50 16 0.28
51 21 0.37
52 18 0.32
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (49 bp):
TTTTTAAAAATTTCATTAAATCCTTTAAAATTTTAATTAACCTTCAAAA
Found at i:8526342 original size:19 final size:18
Alignment explanation
Indices: 8526301--8526343 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
8526291 TTTAGATATA
*
8526301 AAATAATAAAATATGTAT
1 AAATAATAAAATATGGAT
* *
8526319 TAATAATTATAATATGGAT
1 AAATAA-TAAAATATGGAT
8526338 AAATAA
1 AAATAA
8526344 GATAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (18 bp):
AAATAATAAAATATGGAT
Found at i:8530212 original size:21 final size:20
Alignment explanation
Indices: 8530194--8530319 Score: 67
Period size: 20 Copynumber: 6.2 Consensus size: 20
8530184 TGCTTTCCGT
*
8530194 TTAGCTCTTATGAGCTTCCG
1 TTAGCTCTTATGAGCTTCAG
* * *
8530214 TTAACTCATATGAGTTTCAG
1 TTAGCTCTTATGAGCTTCAG
* * * * *
8530234 TTAACCCTTTTGGGGTTTCAG
1 TTAGCTCTTAT-GAGCTTCAG
* * *
8530255 TTCAACTCTGATAAGCTTCAG
1 TT-AGCTCTTATGAGCTTCAG
* *
8530276 TTAGC-CTT-TGGGCTTCCG
1 TTAGCTCTTATGAGCTTCAG
* *
8530294 TTTAGCACTTATGTGCTTCAG
1 -TTAGCTCTTATGAGCTTCAG
8530315 TTAGC
1 TTAGC
8530320 CTTCGGGCTT
Statistics
Matches: 80, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
18 7 0.09
19 7 0.09
20 34 0.43
21 26 0.32
22 6 0.08
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (20 bp):
TTAGCTCTTATGAGCTTCAG
Found at i:8530227 original size:20 final size:20
Alignment explanation
Indices: 8530188--8530238 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8530178 CGTGTTTGCT
* *
8530188 TTCCGTTTAGCTCTTATGAGC
1 TTCCG-TTAACTCATATGAGC
*
8530209 TTCCGTTAACTCATATGAGT
1 TTCCGTTAACTCATATGAGC
*
8530229 TTCAGTTAAC
1 TTCCGTTAAC
8530239 CCTTTTGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (20 bp):
TTCCGTTAACTCATATGAGC
Found at i:8530315 original size:39 final size:39
Alignment explanation
Indices: 8530269--8530408 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
8530259 ACTCTGATAA
*
8530269 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
8530308 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * * *
8530347 GCTTCAGCTAGACTTCGGGCTGCAGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
** *
8530386 GCTTCAACTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
8530409 AGATCACGAT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:8531312 original size:16 final size:16
Alignment explanation
Indices: 8531293--8531325 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8531283 GAATAATCTC
8531293 TGTTTCTTTTCTTCTT
1 TGTTTCTTTTCTTCTT
8531309 TGTTTCTTTTCTTCTT
1 TGTTTCTTTTCTTCTT
8531325 T
1 T
8531326 TACTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTTCTTCTT
Found at i:8537222 original size:19 final size:20
Alignment explanation
Indices: 8537189--8537227 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
8537179 TCAAATACAT
8537189 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
8537209 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
8537228 AAAATAAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:8538118 original size:21 final size:21
Alignment explanation
Indices: 8538079--8538118 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8538069 GTAATTTTGT
* * *
8538079 TTAGAACATTAATTGAATGTA
1 TTAGAACATGAAATAAATGTA
8538100 TTAGAACATGAAATAAATG
1 TTAGAACATGAAATAAATG
8538119 AAAACGACGA
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:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (21 bp):
TTAGAACATGAAATAAATGTA
Found at i:8539846 original size:4 final size:4
Alignment explanation
Indices: 8539837--8539861 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8539827 ACTATGTGCT
8539837 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
8539862 ATTTATGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:8541915 original size:27 final size:26
Alignment explanation
Indices: 8541841--8541934 Score: 98
Period size: 26 Copynumber: 3.6 Consensus size: 26
8541831 TATGTCATTC
* * * *
8541841 TTTAATTTGCTTTGTGTATTATTGAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
8541867 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
8541893 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
8541920 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
8541935 TGTTTACTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 35 0.62
27 21 0.38
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.60
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:8543317 original size:18 final size:18
Alignment explanation
Indices: 8543294--8543328 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8543284 CCAAAAATAC
*
8543294 TGTTTTAGTAAACTAAAA
1 TGTTTTAGTAAAATAAAA
*
8543312 TGTTTTATTAAAATAAA
1 TGTTTTAGTAAAATAAA
8543329 GGTGATCCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTTTTAGTAAAATAAAA
Found at i:8545469 original size:27 final size:27
Alignment explanation
Indices: 8545411--8545471 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
8545401 ATATTTCTTA
*
8545411 GAATTTTTATAATTTTTTAAAAAATAT
1 GAATTTTGATAATTTTTTAAAAAATAT
* * *
8545438 AAATTTTGA-AATTTTTATAAAAATTTT
1 GAATTTTGATAATTTTT-TAAAAAATAT
8545465 GAATTTT
1 GAATTTT
8545472 AAAAAATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (27 bp):
GAATTTTGATAATTTTTTAAAAAATAT
Found at i:8545471 original size:19 final size:18
Alignment explanation
Indices: 8545438--8545483 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
8545428 TAAAAAATAT
8545438 AAATTTTGAAATTTTTATAA
1 AAATTTTGAAA-TTTTA-AA
8545458 AAATTTTG-AATTTTAAA
1 AAATTTTGAAATTTTAAA
8545475 AAATATTTG
1 AAAT-TTTG
8545484 GAAAATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.24
18 9 0.36
19 2 0.08
20 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (18 bp):
AAATTTTGAAATTTTAAA
Found at i:8550735 original size:21 final size:21
Alignment explanation
Indices: 8550711--8550754 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8550701 TTAAACACTA
*
8550711 AGAGTCCTATCCTAATCACAT
1 AGAGTCCTATCCCAATCACAT
* *
8550732 AGAGTCTTATCCCATTCACAT
1 AGAGTCCTATCCCAATCACAT
8550753 AG
1 AG
8550755 CTCATTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (21 bp):
AGAGTCCTATCCCAATCACAT
Found at i:8558385 original size:15 final size:15
Alignment explanation
Indices: 8558365--8558395 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8558355 TTGAGTTAAT
8558365 TATTCAATTTAGTGC
1 TATTCAATTTAGTGC
8558380 TATTCAATTTAGTGC
1 TATTCAATTTAGTGC
8558395 T
1 T
8558396 TAAAATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (15 bp):
TATTCAATTTAGTGC
Found at i:8559330 original size:53 final size:53
Alignment explanation
Indices: 8559250--8559358 Score: 193
Period size: 53 Copynumber: 2.1 Consensus size: 53
8559240 AGAGAATAAC
*
8559250 AACCCTTAACAGCCTGGCAATGGTTACTTAAAACGGTGCGTTTTGTGCGAAA-A
1 AACCCTTAACAGCCTGGCAACGGTTACTTAAAACGGTGCGTTTTGTGC-AAACA
8559303 AACCCTTAACAGCCTGGCAACGGTTACTTAAAACGGTGCGTTTTGTGCAAACA
1 AACCCTTAACAGCCTGGCAACGGTTACTTAAAACGGTGCGTTTTGTGCAAACA
8559356 AAC
1 AAC
8559359 TAAGCCAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 3 0.06
53 51 0.94
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (53 bp):
AACCCTTAACAGCCTGGCAACGGTTACTTAAAACGGTGCGTTTTGTGCAAACA
Found at i:8560756 original size:11 final size:11
Alignment explanation
Indices: 8560723--8560756 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8560713 GAACAAAAGT
8560723 AGCAAAAC-AA
1 AGCAAAACAAA
8560733 AGCTAAAACAAA
1 AGC-AAAACAAA
8560745 AGCAAAACAAA
1 AGCAAAACAAA
8560756 A
1 A
8560757 ATAACTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 14 0.64
12 5 0.23
ACGTcount: A:0.71, C:0.18, G:0.09, T:0.03
Consensus pattern (11 bp):
AGCAAAACAAA
Found at i:8564797 original size:35 final size:35
Alignment explanation
Indices: 8564771--8564996 Score: 267
Period size: 35 Copynumber: 6.5 Consensus size: 35
8564761 CATGGCAAAG
*
8564771 TGTGAAACATAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
*
8564806 TGTGAAATGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * * *
8564841 TGTGAAACGTAAGTATGGTATTAACCATACCAAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* *
8564876 TGTGAAACGTAGGTATAGAATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* *
8564911 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
** * ** * *
8564946 TAAG-AACATAGGTATGACAT-TTACCATACCAAGT
1 TGTGAAACGTAGGTATGGTATCAT-CCATACCGAGT
*
8564980 TGTGAAATGTAGGTATG
1 TGTGAAACGTAGGTATG
8564997 ATATTTCAAT
Statistics
Matches: 160, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
33 1 0.01
34 24 0.15
35 135 0.84
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
Found at i:8567529 original size:23 final size:23
Alignment explanation
Indices: 8567499--8567583 Score: 79
Period size: 21 Copynumber: 3.9 Consensus size: 23
8567489 GCTTTACCGA
* *
8567499 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
* *
8567522 TCAGGCACCTCGTGTGCCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
8567543 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
8567565 T-AGGCACTTTATGTGTCGT
1 TCAGGCACCTCATGTGTCGT
8567584 GTACTGATCA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
21 34 0.65
22 1 0.02
23 17 0.33
ACGTcount: A:0.14, C:0.24, G:0.26, T:0.36
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:8570894 original size:12 final size:11
Alignment explanation
Indices: 8570859--8570892 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8570849 AAACAAATGC
8570859 AGCAAAAC-AA
1 AGCAAAACAAA
8570869 AGCTAAAACAAA
1 AGC-AAAACAAA
8570881 AGCAAAACAAA
1 AGCAAAACAAA
8570892 A
1 A
8570893 AGAACTGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 14 0.64
12 5 0.23
ACGTcount: A:0.71, C:0.18, G:0.09, T:0.03
Consensus pattern (11 bp):
AGCAAAACAAA
Done.