Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 291 of 320
Found at i:93145125 original size:31 final size:31
Alignment explanation
Indices: 93145087--93145145 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
93145077 AAGGCAAGTA
93145087 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
93145118 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
93145146 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:93145153 original size:46 final size:46
Alignment explanation
Indices: 93145100--93145191 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
93145090 AGTGGTAGCT
* *
93145100 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
* * *
93145146 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
93145192 GTGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
Found at i:93145195 original size:31 final size:31
Alignment explanation
Indices: 93145147--93145215 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
93145137 ACCTGATCAT
* * *
93145147 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
93145178 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
93145209 CGGCTAC
1 CGGCTAC
93145216 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:93147136 original size:4 final size:4
Alignment explanation
Indices: 93147127--93147161 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
93147117 CCTTTTCTCC
93147127 CTTT CTTT CTTT CTTT CCTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CT
93147162 CCCCTGTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:93147146 original size:17 final size:17
Alignment explanation
Indices: 93147126--93147160 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
93147116 CCCTTTTCTC
93147126 CCTTTCTTTCTTTCTTT
1 CCTTTCTTTCTTTCTTT
93147143 CCTTTCTTTCTTTCTTT
1 CCTTTCTTTCTTTCTTT
93147160 C
1 C
93147161 TCCCCTGTTC
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTTCTTTCTTTCTTT
Found at i:93147174 original size:21 final size:21
Alignment explanation
Indices: 93147127--93147172 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
93147117 CCTTTTCTCC
**
93147127 CTTTCTTTCTTTCTTTCCTTT
1 CTTTCTTTCTTTCTCCCCTTT
93147148 CTTTCTTTCTTTCTCCCCTGTT
1 CTTTCTTTCTTTCTCCCCT-TT
93147170 CTT
1 CTT
93147173 CTCTGTTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (21 bp):
CTTTCTTTCTTTCTCCCCTTT
Found at i:93147203 original size:22 final size:21
Alignment explanation
Indices: 93147171--93147211 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
93147161 TCCCCTGTTC
*
93147171 TTCTCTGTTTCGTTTGCTTTGT
1 TTCTCTGTTTCATTT-CTTTGT
*
93147193 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
93147212 TATTTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.02, C:0.20, G:0.10, T:0.68
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:93147302 original size:22 final size:23
Alignment explanation
Indices: 93147253--93147305 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
93147243 AACTATTATA
* * *
93147253 ATATTTATTATTTATACATGTGT
1 ATATTTATTATATACACATGTAT
93147276 ATATTTATTA-ATACACATGTAT
1 ATATTTATTATATACACATGTAT
*
93147298 TTATTTAT
1 ATATTTAT
93147306 CACCTTACAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (23 bp):
ATATTTATTATATACACATGTAT
Found at i:93147828 original size:58 final size:56
Alignment explanation
Indices: 93147733--93147856 Score: 194
Period size: 58 Copynumber: 2.2 Consensus size: 56
93147723 TCGGGTCATT
* *
93147733 ACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATACATCGGAGTC
1 ACATATCGATGCCAACGTATTAAACGTAGACTTACTCG--CACATATACATCGGAGTC
* *
93147791 ACATGTCGATGCCAACGTATTAAACGTAGACTTACTCGCACATATATATCGGAGTC
1 ACATATCGATGCCAACGTATTAAACGTAGACTTACTCGCACATATACATCGGAGTC
93147847 ACATATCGAT
1 ACATATCGAT
93147857 ACCACATATA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 26 0.43
58 35 0.57
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (56 bp):
ACATATCGATGCCAACGTATTAAACGTAGACTTACTCGCACATATACATCGGAGTC
Found at i:93148109 original size:12 final size:12
Alignment explanation
Indices: 93148094--93148120 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
93148084 GTAATAACTT
93148094 TTAATATTAAAC
1 TTAATATTAAAC
93148106 TTAATATTAAAC
1 TTAATATTAAAC
93148118 TTA
1 TTA
93148121 TTCATCACTT
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:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAATATTAAAC
Found at i:93157440 original size:11 final size:11
Alignment explanation
Indices: 93157424--93157448 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
93157414 TTGTGAGTTG
93157424 TCTTTTTTTTT
1 TCTTTTTTTTT
93157435 TCTTTTTTTTT
1 TCTTTTTTTTT
93157446 TCT
1 TCT
93157449 GGCTAGCTAG
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:93158660 original size:35 final size:36
Alignment explanation
Indices: 93158621--93158698 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
93158611 TAGTAGTATG
**
93158621 AAACATAAGAAATGTATA-TATCTGTTGGCGTTATA
1 AAACATAAGAAATGTATACTATCTGTTGGCAATATA
* * *
93158656 AAACATAAGAAATGTGTACTGTCTGTTGGTAATATA
1 AAACATAAGAAATGTATACTATCTGTTGGCAATATA
93158692 AAACATA
1 AAACATA
93158699 TAAATGCATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 17 0.46
36 20 0.54
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (36 bp):
AAACATAAGAAATGTATACTATCTGTTGGCAATATA
Found at i:93158692 original size:36 final size:35
Alignment explanation
Indices: 93158621--93158740 Score: 102
Period size: 35 Copynumber: 3.4 Consensus size: 35
93158611 TAGTAGTATG
**
93158621 AAACATAAGAAATGTATATATCTGTTGGCGTTATA
1 AAACATAAGAAATGTATATATCTGTTGGCAATATA
* * *
93158656 AAACATAAGAAATGTGTACTGTCTGTTGGTAATATA
1 AAACATAAGAAATGTATA-TATCTGTTGGCAATATA
* *
93158692 AAACAT-ATAAATGCATATCAT-TCGTTGG-AGATATA
1 AAACATAAGAAATGTATAT-ATCT-GTTGGCA-ATATA
* *
93158727 ATACGTAAGAAATG
1 AAACATAAGAAATG
93158741 AATAAAGCCC
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
34 3 0.04
35 40 0.59
36 25 0.37
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (35 bp):
AAACATAAGAAATGTATATATCTGTTGGCAATATA
Found at i:93159264 original size:98 final size:98
Alignment explanation
Indices: 93159121--93159298 Score: 257
Period size: 98 Copynumber: 1.8 Consensus size: 98
93159111 TGGAAGGAGG
* * * *
93159121 CTTACAGAAGGTAATAAAGTGATATTGCTCCCTAACATATGGGGGAAGGCTTATGGAAAGCAATA
1 CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAACACATAGGGGAAGGCTTATGGAAAGCAATA
*
93159186 AACTGGACCTACTCCTAGACCTATGGGGGGAAT
66 AACTAGACCTACTCCTAGACCTATGGGGGGAAT
* * * * *
93159219 CTTATAGAAGGTAATAAAGTGACCTTGCTTCCAAATACATAGGGGAAGGTTTATGGAAAGCAATA
1 CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAACACATAGGGGAAGGCTTATGGAAAGCAATA
*
93159284 AATTAGACCTACTCC
66 AACTAGACCTACTCC
93159299 CAAATGTATG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
98 69 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (98 bp):
CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAACACATAGGGGAAGGCTTATGGAAAGCAATA
AACTAGACCTACTCCTAGACCTATGGGGGGAAT
Found at i:93159309 original size:98 final size:98
Alignment explanation
Indices: 93159121--93159349 Score: 248
Period size: 98 Copynumber: 2.4 Consensus size: 98
93159111 TGGAAGGAGG
* * * *
93159121 CTTACAGAAGGTAATAAAGTGATATTGCTCCCTAACATATGGGGGAAGGCTTATGGAAAGCAATA
1 CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAACACATAGGGGAAGGCTTATGGAAAGCAATA
* * *
93159186 AACTGGACCTACTCCTAGACCTATGGGGGGAAT
66 AACTAGACCTACTCCCAAACCTATGGGGGGAAT
* * * * *
93159219 CTTATAGAAGGTAATAAAGTGACCTTGCTTCCAAATACATAGGGGAAGGTTTATGGAAAGCAATA
1 CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAACACATAGGGGAAGGCTTATGGAAAGCAATA
* **
93159284 AATTAGACCTACTCCCAAATGTATGGGGAGG---
66 AACTAGACCTACTCCCAAACCTATGGGG-GGAAT
* * * * *
93159315 CTTACAAAAGGTGATAAAGTGGCTTTGCTCTCAAA
1 CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAA
93159350 TGCATAGGAA
Statistics
Matches: 108, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
96 28 0.26
98 78 0.72
99 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (98 bp):
CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAACACATAGGGGAAGGCTTATGGAAAGCAATA
AACTAGACCTACTCCCAAACCTATGGGGGGAAT
Found at i:93159543 original size:54 final size:52
Alignment explanation
Indices: 93159460--93159598 Score: 163
Period size: 54 Copynumber: 2.6 Consensus size: 52
93159450 TTATGCACGA
* *
93159460 GGGAGGCTTATGAGCAAGGTTTAATAATAATAT-CTCCACTCCCAAACGCATAGG
1 GGGAGGCTTATGA-CAAGGTTTAACAATAATATCCT-CACTCCCAAACACAT-GG
* * * *
93159514 GGTAGGCTTACTGACGAGGTTTAACAATAATATCCTTACTCTCAAACACATGG
1 GGGAGGCTTA-TGACAAGGTTTAACAATAATATCCTCACTCCCAAACACATGG
*
93159567 GGGAAGCTTATGGACAAGGTTTAACAATAATA
1 GGGAGGCTTAT-GACAAGGTTTAACAATAATA
93159599 ACCATGCTTC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 29 0.40
54 38 0.52
55 5 0.07
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (52 bp):
GGGAGGCTTATGACAAGGTTTAACAATAATATCCTCACTCCCAAACACATGG
Found at i:93159591 original size:53 final size:52
Alignment explanation
Indices: 93159460--93159632 Score: 161
Period size: 53 Copynumber: 3.2 Consensus size: 52
93159450 TTATGCACGA
* * * *
93159460 GGGAGGCTTATGAGCAAGGTTTAATAATAATAT-CTCCACTCCCAAACGCATAGG
1 GGGAAGCTTATGA-CAAGGTTTAACAATAATATCCT-TACTCTCAAACGCAT-GG
* * * *
93159514 GGTAGGCTTACTGACGAGGTTTAACAATAATATCCTTACTCTCAAACACATGG
1 GGGAAGCTTA-TGACAAGGTTTAACAATAATATCCTTACTCTCAAACGCATGG
* * * *
93159567 GGGAAGCTTATGGACAAGGTTTAACAATAATAACCATGCT-TCCAAATGCATGG
1 GGGAAGCTTAT-GACAAGGTTTAACAATAATATCCTTACTCT-CAAACGCATGG
93159620 GGGAAGACTTATG
1 GGGAAG-CTTATG
93159633 GTGAGAAATC
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 50 0.50
54 43 0.43
55 5 0.05
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (52 bp):
GGGAAGCTTATGACAAGGTTTAACAATAATATCCTTACTCTCAAACGCATGG
Found at i:93171016 original size:29 final size:30
Alignment explanation
Indices: 93170966--93171031 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
93170956 AAAAATACAC
**
93170966 CTAAATTTTTAAATCTAAAAAGTAGA-GAGA
1 CTAAATTTTTAAAAATAAAAAGTA-ATGAGA
93170996 CTAAATTTTTAAAAAT-AAAAGTAATGAGA
1 CTAAATTTTTAAAAATAAAAAGTAATGAGA
93171025 CTAAATT
1 CTAAATT
93171032 CTAACTGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 1 0.03
29 18 0.55
30 14 0.42
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.32
Consensus pattern (30 bp):
CTAAATTTTTAAAAATAAAAAGTAATGAGA
Found at i:93173419 original size:26 final size:26
Alignment explanation
Indices: 93173388--93173442 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
93173378 CCTGTATTTT
*
93173388 GTTGTTAATCACATTGTTTCATATTG
1 GTTGTTAATCACATTGCTTCATATTG
*
93173414 GTTGTTAATCATATTGCTTCATATTG
1 GTTGTTAATCACATTGCTTCATATTG
93173440 GTT
1 GTT
93173443 ATATCATTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (26 bp):
GTTGTTAATCACATTGCTTCATATTG
Found at i:93173456 original size:22 final size:24
Alignment explanation
Indices: 93173399--93173459 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
93173389 TTGTTAATCA
* *
93173399 CATTGTTTCATATTGGTTGTTAAT
1 CATTGCTTCATATTGGTTGATAAT
93173423 CATATTGCTTCATATTGGTT-AT-AT
1 C--ATTGCTTCATATTGGTTGATAAT
*
93173447 CATTGGTTCATAT
1 CATTGCTTCATAT
93173460 ATGCCTATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 11 0.34
24 4 0.12
25 1 0.03
26 16 0.50
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (24 bp):
CATTGCTTCATATTGGTTGATAAT
Found at i:93179616 original size:18 final size:17
Alignment explanation
Indices: 93179575--93179627 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
93179565 GAATATTACC
*
93179575 AAATCATAATAATTATAA
1 AAAT-ATAAAAATTATAA
* *
93179593 ATATATATAAATTAATAA
1 AAATATAAAAATT-ATAA
93179611 AAATATAAAAATATATA
1 AAATATAAAAAT-TATA
93179628 GTTCTTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 7 0.25
18 20 0.71
19 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAAAAATTATAA
Found at i:93184343 original size:15 final size:15
Alignment explanation
Indices: 93184323--93184352 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93184313 GATATTAGAA
93184323 ACAGAACATAAGTCT
1 ACAGAACATAAGTCT
93184338 ACAGAACATAAGTCT
1 ACAGAACATAAGTCT
93184353 TAAAAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
ACAGAACATAAGTCT
Found at i:93189153 original size:5 final size:5
Alignment explanation
Indices: 93189119--93189149 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
93189109 TGGTAACTGA
93189119 TCTGG TCTGG TCTGG TCTGG TCTGG TC-GG TC
1 TCTGG TCTGG TCTGG TCTGG TCTGG TCTGG TC
93189150 CGGTTTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.00, C:0.23, G:0.39, T:0.39
Consensus pattern (5 bp):
TCTGG
Found at i:93192563 original size:11 final size:11
Alignment explanation
Indices: 93192547--93192577 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
93192537 ATACCCATAC
93192547 CCCATACCTTG
1 CCCATACCTTG
*
93192558 CCCATACCTTT
1 CCCATACCTTG
93192569 CCCATACCT
1 CCCATACCT
93192578 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:93193149 original size:18 final size:18
Alignment explanation
Indices: 93193122--93193178 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
93193112 TACGACCGTT
93193122 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
93193140 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
93193158 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
93193176 TAC
1 TAC
93193179 AGTAGTTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:93197248 original size:11 final size:11
Alignment explanation
Indices: 93197232--93197262 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
93197222 ATACCCATAC
93197232 CCCATACCTTG
1 CCCATACCTTG
*
93197243 CCCATACCTTT
1 CCCATACCTTG
93197254 CCCATACCT
1 CCCATACCT
93197263 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:93200715 original size:43 final size:44
Alignment explanation
Indices: 93200654--93200759 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 44
93200644 TAAAGACAGA
*
93200654 ATTTAGCTTGGACTGGTAATTC-TGATCT-TACATTG-AAATCAGG
1 ATTTAGCCTGGACTGGTAATTCATGAT-TATACATTGAAAAT-AGG
* **
93200697 ATTTAGCCTAGACTGGTAA-TCATGATTATATGTTGAAAATAGG
1 ATTTAGCCTGGACTGGTAATTCATGATTATACATTGAAAATAGG
*
93200740 ATCTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
93200760 CCCGATCTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
42 3 0.06
43 46 0.87
44 4 0.08
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (44 bp):
ATTTAGCCTGGACTGGTAATTCATGATTATACATTGAAAATAGG
Found at i:93201978 original size:18 final size:18
Alignment explanation
Indices: 93201955--93201991 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
93201945 TGAAGTTAAT
93201955 ATTTTATTGATGTAAATA
1 ATTTTATTGATGTAAATA
93201973 ATTTTATTGATGTAAATA
1 ATTTTATTGATGTAAATA
93201991 A
1 A
93201992 CATGGATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
ATTTTATTGATGTAAATA
Found at i:93202450 original size:16 final size:16
Alignment explanation
Indices: 93202429--93202480 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
93202419 TTTGGTTCGC
93202429 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
93202445 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
93202461 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
93202477 TGTA
1 TGTA
93202481 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:93202529 original size:45 final size:44
Alignment explanation
Indices: 93202460--93202551 Score: 103
Period size: 45 Copynumber: 2.1 Consensus size: 44
93202450 TGGATTAGAG
* * *
93202460 ATGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGA
1 ATGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGA
* * ***
93202505 ATGTAATGGAATATAGGCGTAATAGTAATCTTGTGTTTGGTTGA
1 ATGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGA
93202549 ATG
1 ATG
93202552 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.37
Consensus pattern (44 bp):
ATGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGA
Found at i:93202756 original size:17 final size:18
Alignment explanation
Indices: 93202715--93202749 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
93202705 TTATTATTAA
*
93202715 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
93202733 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
93202750 TATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:93202841 original size:120 final size:120
Alignment explanation
Indices: 93202698--93203352 Score: 1278
Period size: 120 Copynumber: 5.5 Consensus size: 120
93202688 ATCATATTTA
*
93202698 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
93202763 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
93202818 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAGTAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
93202883 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
93202938 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
93203003 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
93203058 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
93203123 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
93203178 AACATAATTATTATTAAATATATTTTAATT-AAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
93203242 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
93203297 AACATAATTATTATTAAATATATTTTAATT-AAATATATAATTTAATAAAATTCTTA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
93203353 GACAACTGCC
Statistics
Matches: 532, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
119 145 0.27
120 387 0.73
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:93202976 original size:18 final size:17
Alignment explanation
Indices: 93202955--93202989 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
93202945 TTATTATTAA
*
93202955 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
93202973 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
93202990 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:93203096 original size:18 final size:17
Alignment explanation
Indices: 93203075--93203109 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
93203065 TTATTATTAA
*
93203075 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
93203093 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
93203110 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:93203228 original size:17 final size:17
Alignment explanation
Indices: 93203195--93203228 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
93203185 TTATTATTAA
* *
93203195 ATATATTTTAATTAAAT
1 ATATAATTTAATAAAAT
93203212 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
93203229 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:93203347 original size:17 final size:17
Alignment explanation
Indices: 93203314--93203347 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
93203304 TTATTATTAA
* *
93203314 ATATATTTTAATTAAAT
1 ATATAATTTAATAAAAT
93203331 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
93203348 TCTTAGACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:93206444 original size:25 final size:25
Alignment explanation
Indices: 93206406--93206454 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
93206396 TCATACAAGA
*
93206406 TAAATATAATTATTCATAAAAAATAT
1 TAAATATAAATATT-ATAAAAAATAT
*
93206432 TAAA-ATAAATATTTTAAAAAATA
1 TAAATATAAATATTATAAAAAATA
93206455 AACACGTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 8 0.38
26 4 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATATAAATATTATAAAAAATAT
Found at i:93209877 original size:22 final size:20
Alignment explanation
Indices: 93209829--93209878 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
93209819 ATTTTATATC
93209829 TAATAAAAATTTAAAATAAT
1 TAATAAAAATTTAAAATAAT
*
93209849 TATTAAATACATTTAAAAT-AT
1 TAATAAA-A-ATTTAAAATAAT
93209870 TAAATAAAA
1 T-AATAAAA
93209879 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 6 0.24
21 5 0.20
22 14 0.56
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAAAAATTTAAAATAAT
Found at i:93211668 original size:16 final size:16
Alignment explanation
Indices: 93211599--93211666 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
93211589 TTTGGTTCAC
93211599 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
93211615 TCTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
93211631 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
93211647 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
93211663 TGTA
1 TGTA
93211667 ATAGCAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.26, C:0.01, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:93211753 original size:39 final size:43
Alignment explanation
Indices: 93211647--93211756 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 43
93211637 GGATTAGAGG
93211647 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
** * *
93211692 TGTAATGGAATAGAGGCATAATAG-TAATCTTA-TGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATC-AACTGTTTGGTTA
93211732 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
93211757 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
39 19 0.34
40 2 0.04
43 1 0.02
44 11 0.20
45 23 0.41
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:93211919 original size:16 final size:16
Alignment explanation
Indices: 93211882--93211923 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
93211872 TTAATCATAT
*
93211882 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
93211898 TT-AAATATATTATAA
1 TTAAAATATATTATAA
93211913 TTAAAATATAT
1 TTAAAATATAT
93211924 GATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:93212002 original size:107 final size:108
Alignment explanation
Indices: 93211880--93212090 Score: 379
Period size: 107 Copynumber: 2.0 Consensus size: 108
93211870 ATTTAATCAT
* *
93211880 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATTTTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
93211945 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
93211988 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
93212052 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
93212091 TAATACTATA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 95 0.96
108 4 0.04
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:93212028 original size:16 final size:16
Alignment explanation
Indices: 93211985--93212030 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
93211975 CATAATATAG
*
93211985 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
93212001 ATTATT-AAATATATT
1 ATAATTAAAATATATT
93212016 ATAATTAAAATATAT
1 ATAATTAAAATATAT
93212031 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:93212037 original size:14 final size:15
Alignment explanation
Indices: 93211985--93212039 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
93211975 CATAATATAG
93211985 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
93212001 ATTATTAAATATATT
1 ATAATTAAATATATT
93212016 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
93212029 ATAATTTAATA
1 ATAATTAAATA
93212040 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:93212141 original size:107 final size:107
Alignment explanation
Indices: 93211883--93212146 Score: 335
Period size: 107 Copynumber: 2.5 Consensus size: 107
93211873 TAATCATATT
* * * * *
93211883 TAAACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATTTTTAATAATT
1 TAAA-ATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
* * *
93211948 AATATTCTTATATGAATTTACTCAAATCATAATATAGATAATT
65 AATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
* * *
93211991 TAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
*
93212056 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATATTCTTATATGAATTTACTAAAATCATAATATA-AATAATA
93212099 TAAAAT-ATAATT-TGAAATA-ATTA-ATATT-AAATATAT--TTTAATTAAAAT
1 TAAAATAATAATTATGAAATATATTATA-ATTAAAATATATAATTTAA-TAAAAT
93212147 ATATGATTTA
Statistics
Matches: 142, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
102 5 0.04
103 6 0.04
104 9 0.06
105 7 0.05
106 6 0.04
107 97 0.68
108 12 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (107 bp):
TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
Found at i:93212908 original size:13 final size:13
Alignment explanation
Indices: 93212890--93212916 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93212880 TGAATAAAAG
93212890 TATATGGTTGGAT
1 TATATGGTTGGAT
93212903 TATATGGTTGGAT
1 TATATGGTTGGAT
93212916 T
1 T
93212917 TCTAAGGTGG
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:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TATATGGTTGGAT
Found at i:93216755 original size:21 final size:20
Alignment explanation
Indices: 93216706--93216747 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
93216696 TGCATATATT
93216706 ATATTT-TATATTATTAATA
1 ATATTTATATATTATTAATA
*
93216725 ATATTTATATATTTTTAA-A
1 ATATTTATATATTATTAATA
93216744 ATAT
1 ATAT
93216748 AATTATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTTATATATTATTAATA
Found at i:93216848 original size:17 final size:16
Alignment explanation
Indices: 93216828--93216874 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
93216818 ATTTTTATTC
93216828 ATATATGTATTTTTT-
1 ATATATGTATTTTTTA
*
93216843 ATATATGTTTTTTTTTA
1 ATATATG-TATTTTTTA
**
93216860 AGGTATGTATTTTTT
1 ATATATGTATTTTTT
93216875 TATTATCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 7 0.27
16 14 0.54
17 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (16 bp):
ATATATGTATTTTTTA
Found at i:93216857 original size:15 final size:15
Alignment explanation
Indices: 93216828--93216856 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
93216818 ATTTTTATTC
93216828 ATATATGTATTTTTT
1 ATATATGTATTTTTT
93216843 ATATATGT-TTTTTT
1 ATATATGTATTTTTT
93216857 TTAAGGTATG
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:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
ATATATGTATTTTTT
Found at i:93222042 original size:148 final size:148
Alignment explanation
Indices: 93221774--93222073 Score: 566
Period size: 148 Copynumber: 2.0 Consensus size: 148
93221764 TCATATATTT
93221774 ATTTCTAAACATTGGACAGGCACAAATCATTATCAACATATATCCGAATACTGTGTAAGCTTGCT
1 ATTTCTAAACATTGGACAGGCACAAATCATTATCAACATATATCCGAATACTGTGTAAGCTTGCT
*
93221839 GACATATGTTCAATAGGATTAGATAGATCTCATTAAGAATACAAGTGGATATTGTGATTTAACTA
66 GACATATGTTCAATAGGATTAGATAGATCTCATTAAGAATACAAATGGATATTGTGATTTAACTA
93221904 AGTTTTATGGATATTGTG
131 AGTTTTATGGATATTGTG
*
93221922 ATTTCTAAACATTGGACAGGCACAAATCATTATCATCATATATCCGAATACTGTG-ACAGCTTGC
1 ATTTCTAAACATTGGACAGGCACAAATCATTATCAACATATATCCGAATACTGTGTA-AGCTTGC
93221986 TGACATATGTTCAATAGGATTAGATAGATCTCATTAAGAATACAAATGGATATTGTGATTTAACT
65 TGACATATGTTCAATAGGATTAGATAGATCTCATTAAGAATACAAATGGATATTGTGATTTAACT
93222051 AAGTTTTATGGATATTGTG
130 AAGTTTTATGGATATTGTG
93222070 ATTT
1 ATTT
93222074 AACTAAGTTT
Statistics
Matches: 149, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
147 1 0.01
148 148 0.99
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (148 bp):
ATTTCTAAACATTGGACAGGCACAAATCATTATCAACATATATCCGAATACTGTGTAAGCTTGCT
GACATATGTTCAATAGGATTAGATAGATCTCATTAAGAATACAAATGGATATTGTGATTTAACTA
AGTTTTATGGATATTGTG
Found at i:93222063 original size:27 final size:27
Alignment explanation
Indices: 93222031--93222084 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
93222021 AAGAATACAA
93222031 ATGGATATTGTGATTTAACTAAGTTTT
1 ATGGATATTGTGATTTAACTAAGTTTT
93222058 ATGGATATTGTGATTTAACTAAGTTTT
1 ATGGATATTGTGATTTAACTAAGTTTT
93222085 CTCCTCTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.48
Consensus pattern (27 bp):
ATGGATATTGTGATTTAACTAAGTTTT
Found at i:93222337 original size:3 final size:3
Alignment explanation
Indices: 93222310--93222351 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
93222300 AGCCTCAGAG
* * *
93222310 GAT GAA GAT GAT GAA GAT GAA GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
93222352 AGCGAAGATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:93223866 original size:16 final size:16
Alignment explanation
Indices: 93223845--93223875 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
93223835 TTCGAGCTGA
93223845 TACTTGATATCTATAC
1 TACTTGATATCTATAC
93223861 TACTTGATATCTATA
1 TACTTGATATCTATA
93223876 TCAATAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (16 bp):
TACTTGATATCTATAC
Found at i:93226719 original size:27 final size:27
Alignment explanation
Indices: 93226681--93226736 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
93226671 TCCGATAGAT
93226681 GTTAGTTCAGTGTTCTATGTTTAACAG
1 GTTAGTTCAGTGTTCTATGTTTAACAG
93226708 GTTAGTTCAGTGTTCTATGTTTAACAG
1 GTTAGTTCAGTGTTCTATGTTTAACAG
93226735 GT
1 GT
93226737 AGAAGGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (27 bp):
GTTAGTTCAGTGTTCTATGTTTAACAG
Found at i:93233165 original size:15 final size:16
Alignment explanation
Indices: 93233145--93233179 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
93233135 AATTTAAAAG
*
93233145 ATAAATATATTTTT-T
1 ATAAATACATTTTTAT
93233160 ATAAATACATTTTTAT
1 ATAAATACATTTTTAT
93233176 ATAA
1 ATAA
93233180 TTTCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAAATACATTTTTAT
Found at i:93246412 original size:24 final size:25
Alignment explanation
Indices: 93246362--93246413 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
93246352 AAAAAAGTAA
* *
93246362 TTGGATATTTTTTTTGTGCTTTTTC
1 TTGGAGATTTTGTTTGTGCTTTTTC
93246387 TTGGAGATTTTGTTT-T-CTTTTGTC
1 TTGGAGATTTTGTTTGTGCTTTT-TC
93246411 TTG
1 TTG
93246414 AATCTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 6 0.25
25 13 0.54
ACGTcount: A:0.08, C:0.08, G:0.19, T:0.65
Consensus pattern (25 bp):
TTGGAGATTTTGTTTGTGCTTTTTC
Found at i:93251077 original size:16 final size:16
Alignment explanation
Indices: 93251056--93251087 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93251046 CATGAGAATA
93251056 TTTATGCAACAACTTT
1 TTTATGCAACAACTTT
93251072 TTTATGCAACAACTTT
1 TTTATGCAACAACTTT
93251088 CTTTTCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
TTTATGCAACAACTTT
Found at i:93254167 original size:45 final size:45
Alignment explanation
Indices: 93254118--93254203 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
93254108 AATGATAATA
93254118 ATTAAAATAAAACAA-TGTAAAAGTGCAATATTAAATTATTAAAAT
1 ATTAAAATAAAACAAGTGTAAAA-TGCAATATTAAATTATTAAAAT
* * **
93254163 ATTAAAATAAAACAAGTGTGACATTTAATATTAAATTATTA
1 ATTAAAATAAAACAAGTGTAAAATGCAATATTAAATTATTA
93254204 TTATAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
45 31 0.86
46 5 0.14
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (45 bp):
ATTAAAATAAAACAAGTGTAAAATGCAATATTAAATTATTAAAAT
Found at i:93264247 original size:39 final size:39
Alignment explanation
Indices: 93264204--93264304 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
93264194 ACTAGCTCGA
* * *
93264204 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGCCCGGACATAATTCCAGCACAT
* *
93264243 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACAT
* * * *
93264282 AACCTGCAGACCCTAAGTCCGGA
1 AGCCTGCGGACCTTAAGCCCGGA
93264305 TATACATCAC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 3 0.06
39 50 0.94
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACAT
Found at i:93264305 original size:39 final size:39
Alignment explanation
Indices: 93264222--93264308 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
93264212 GGACTTTAGC
* * * * * *
93264222 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGT
93264261 CCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGT
1 CCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGT
93264300 CCGGATATA
1 CCGGATATA
93264309 CATCACATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGT
Found at i:93271576 original size:67 final size:68
Alignment explanation
Indices: 93271493--93271649 Score: 289
Period size: 67 Copynumber: 2.3 Consensus size: 68
93271483 TTCACTTGGA
*
93271493 ATCACTCATGTGACCTAGCTACATCTATCTCTCACGTAGCTCTCTTGTCTACAT-GGATACATCC
1 ATCACACATGTGACCTAGCTACATCTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
93271557 CGT
66 CGT
*
93271560 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATCTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
93271625 CGT
66 CGT
93271628 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
93271650 TATATAGTAT
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
67 52 0.60
68 35 0.40
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATCTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:93271666 original size:68 final size:67
Alignment explanation
Indices: 93271493--93271675 Score: 255
Period size: 67 Copynumber: 2.7 Consensus size: 67
93271483 TTCACTTGGA
* * *
93271493 ATCACTCATGTGACCTAGCTACATCTATCTCTCACGTAGCTCTCTTGTCTACAT-GGATACATCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
93271557 CGT
65 CGT
* *
93271560 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
93271625 CGT
65 CGT
93271628 ATCACACATGTGACCTAGCTACTATATAGTATCT-CGTAGC-CTTCTTGT
1 ATCACACATGTGACCTAGCTAC-ATATA-TATCTACGTAGCTC-TCTTGT
93271676 ACACATGATG
Statistics
Matches: 108, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
67 53 0.49
68 47 0.44
69 4 0.04
70 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (67 bp):
ATCACACATGTGACCTAGCTACATATATATCTACGTAGCTCTCTTGTCTACATGGGATACATCCC
GT
Found at i:93275015 original size:39 final size:39
Alignment explanation
Indices: 93274954--93275053 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 39
93274944 ACTAGCTCGA
* * * *
93274954 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGACATAATTCCAGCACAT
*
93274993 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGACATAATTCCAGCACAT
*
93275032 AGCCTGC-GACCCTAAGTCCGGA
1 AGCCTGCGGACCTTAAGTCCGGA
93275054 TATACATCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
38 17 0.31
39 37 0.69
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGACATAATTCCAGCACAT
Found at i:93275057 original size:38 final size:39
Alignment explanation
Indices: 93274972--93275057 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
93274962 GGACTTTAGC
* * * *
93274972 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
93275011 CCGGATATAATTCCAGCACATAGCCTGC-GACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
93275049 CCGGATATA
1 CCGGATATA
93275058 CATCACATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 18 0.42
39 25 0.58
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:93282251 original size:71 final size:68
Alignment explanation
Indices: 93282160--93282354 Score: 284
Period size: 68 Copynumber: 2.8 Consensus size: 68
93282150 CGATTTATCT
* * * *
93282160 CGTAGCTCTCTTGTCTACATGGTG-TCCTTCACTTGGAATCACTCATGTGACCTAGCTACATCTA
1 CGTAGCTCTCTTGTCTACATGG-GATACATC-C--CGAATCACACATGTGACCTAGCTACATCTA
93282224 TCTCTCA
62 TCTCTCA
* *
93282231 CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACATTTATCTC
1 CGTAGCTCTCTTGTCTACATGGGATACATCCCGAATCACACATGTGACCTAGCTACATCTATCTC
93282296 TCA
66 TCA
*
93282299 CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGGATACATCCCGAATCACACATGTGACCTAGCTAC
93282355 TATATAGTAT
Statistics
Matches: 117, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 89 0.76
70 2 0.02
71 26 0.22
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (68 bp):
CGTAGCTCTCTTGTCTACATGGGATACATCCCGAATCACACATGTGACCTAGCTACATCTATCTC
TCA
Found at i:93282287 original size:68 final size:68
Alignment explanation
Indices: 93282197--93282354 Score: 298
Period size: 68 Copynumber: 2.3 Consensus size: 68
93282187 TTCACTTGGA
*
93282197 ATCACTCATGTGACCTAGCTACATCTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATCTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
93282262 CGT
66 CGT
*
93282265 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATCTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
93282330 CGT
66 CGT
93282333 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
93282355 TATATAGTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATCTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:93282371 original size:68 final size:67
Alignment explanation
Indices: 93282197--93282380 Score: 264
Period size: 68 Copynumber: 2.7 Consensus size: 67
93282187 TTCACTTGGA
* * *
93282197 ATCACTCATGTGACCTAGCTACATCTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
93282262 CGT
65 CGT
* *
93282265 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
93282330 CGT
65 CGT
93282333 ATCACACATGTGACCTAGCTACTATATAGTATCT-CGTAGC-CTTCTTGT
1 ATCACACATGTGACCTAGCTAC-ATATA-TATCTACGTAGCTC-TCTTGT
93282381 ACACATGATG
Statistics
Matches: 109, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
67 1 0.01
68 100 0.92
69 4 0.04
70 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (67 bp):
ATCACACATGTGACCTAGCTACATATATATCTACGTAGCTCTCTTGTCTACATGGGATACATCCC
GT
Found at i:93285728 original size:39 final size:40
Alignment explanation
Indices: 93285685--93285785 Score: 118
Period size: 39 Copynumber: 2.6 Consensus size: 40
93285675 ACTAGCTCGA
* * *
93285685 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGCGGGACCTTAAGCCCGGACATAATTCCAGCACAT
* *
93285724 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGGACCTTAAGCCCGGACATAATTCCAGCACAT
* *
93285763 AGCCTGC-GGACCCTAAGTCCGGA
1 AGCCTGCGGGACCTTAAGCCCGGA
93285786 TATACATCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 3 0.05
39 52 0.95
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (40 bp):
AGCCTGCGGGACCTTAAGCCCGGACATAATTCCAGCACAT
Found at i:93285786 original size:39 final size:39
Alignment explanation
Indices: 93285703--93285789 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
93285693 GGACTTTAGC
* * * *
93285703 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
93285742 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
93285781 CCGGATATA
1 CCGGATATA
93285790 CATCACATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:93294245 original size:5 final size:5
Alignment explanation
Indices: 93294235--93294296 Score: 83
Period size: 5 Copynumber: 12.2 Consensus size: 5
93294225 AATTATGTTT
93294235 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATA TTATTA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA
93294285 TTATA TATATA T
1 TTATA T-TATA T
93294297 GACAAAGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 33 0.63
6 15 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:93294251 original size:3 final size:3
Alignment explanation
Indices: 93294238--93294288 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
93294228 TATGTTTTTA
*
93294238 TAT TA- TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93294280 TAT TAT TAT
1 TAT TAT TAT
93294289 ATATATATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
2 12 0.29
3 29 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:93294363 original size:40 final size:41
Alignment explanation
Indices: 93294308--93294385 Score: 140
Period size: 40 Copynumber: 1.9 Consensus size: 41
93294298 ACAAAGAAAG
93294308 AAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGGAA
1 AAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGGAA
*
93294349 AAAG-AAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
93294386 AAGGAAAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 32 0.89
41 4 0.11
ACGTcount: A:0.64, C:0.10, G:0.26, T:0.00
Consensus pattern (41 bp):
AAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGGAA
Found at i:93294376 original size:21 final size:21
Alignment explanation
Indices: 93294313--93294376 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
93294303 GAAAGAAAGA
93294313 AAAGAAACAGAGAGCAAAAC-
1 AAAGAAACAGAGAGCAAAACG
* *
93294333 --A-AAACAGAGAAGGGAAAAAG
1 AAAGAAACAGAG-A-GCAAAACG
93294353 AAAGAAACAGAGAGCAAAACG
1 AAAGAAACAGAGAGCAAAACG
93294374 AAA
1 AAA
93294377 CAGAGAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
17 8 0.24
18 2 0.06
19 5 0.15
21 9 0.26
22 2 0.06
23 8 0.24
ACGTcount: A:0.66, C:0.11, G:0.23, T:0.00
Consensus pattern (21 bp):
AAAGAAACAGAGAGCAAAACG
Found at i:93295415 original size:20 final size:20
Alignment explanation
Indices: 93295377--93295415 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
93295367 ATCGATATTT
* *
93295377 AATTGAATGAATTAAATATG
1 AATTGAATAAATGAAATATG
*
93295397 AATTGAATAAATGAGATAT
1 AATTGAATAAATGAAATAT
93295416 TAAATTGAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
AATTGAATAAATGAAATATG
Found at i:93295813 original size:41 final size:39
Alignment explanation
Indices: 93295765--93295876 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
93295755 TCGACCTTGA
93295765 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
93295805 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
93295843 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
93295877 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:93296603 original size:17 final size:17
Alignment explanation
Indices: 93296554--93296604 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
93296544 ATGTGGCATG
*
93296554 TACCTAAGTAATGTACA
1 TACCTAAGTAATGTATA
*
93296571 TACCTAGGTAATGTATA
1 TACCTAAGTAATGTATA
*
93296588 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
93296605 GGGATTAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:93297976 original size:47 final size:46
Alignment explanation
Indices: 93297903--93298050 Score: 139
Period size: 47 Copynumber: 3.2 Consensus size: 46
93297893 GGAGTTTAGC
*
93297903 GTGCTCTCTGAT-TATTAGCACATCAGTGCTCTCTGTTTAGCACATT
1 GTGCTCTCTGATAT-TTAGCACGTCAGTGCTCTCTGTTTAGCACATT
93297949 GGTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGAATATTAGCAC---
1 -GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTG--T-TTAGCACATT
* * * *
93297996 --GCTCTCTGATCA-CTAGCACGTTAGTGCTCTCCGTTTAGCGCATTT
1 GTGCTCTCTGAT-ATTTAGCACGTCAGTGCTCTCTGTTTAGCACA-TT
93298041 GTGCTCTCTG
1 GTGCTCTCTG
93298051 TTTAATAGTG
Statistics
Matches: 85, Mismatches: 5, Indels: 22
0.76 0.04 0.20
Matches are distributed among these distances:
41 6 0.07
42 1 0.01
44 28 0.33
45 1 0.01
47 40 0.47
48 1 0.01
49 1 0.01
50 7 0.08
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (46 bp):
GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGTTTAGCACATT
Found at i:93297996 original size:25 final size:24
Alignment explanation
Indices: 93297903--93297995 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 24
93297893 GGAGTTTAGC
93297903 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGA-TATTAGCACATCA
**
93297928 GTGCTCTCTG-T-TTAGCACATTG
1 GTGCTCTCTGATATTAGCACATCA
*
93297950 GTGCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTGATA-TTAGCACATCA
93297975 GTGCTCTCTGAATATTAGCAC
1 GTGCTCTCTG-ATATTAGCAC
93297996 GCTCTCTGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
22 19 0.32
23 2 0.03
25 35 0.59
26 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (24 bp):
GTGCTCTCTGATATTAGCACATCA
Found at i:93298012 original size:19 final size:19
Alignment explanation
Indices: 93297977--93298015 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
93297967 GCACGTCAGT
*
93297977 GCTCTCTGAATATTAGCAC
1 GCTCTCTGAATACTAGCAC
93297996 GCTCTCTG-ATCACTAGCAC
1 GCTCTCTGAAT-ACTAGCAC
93298015 G
1 G
93298016 TTAGTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (19 bp):
GCTCTCTGAATACTAGCAC
Found at i:93299006 original size:13 final size:13
Alignment explanation
Indices: 93298988--93299015 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93298978 TGATCTCTTC
93298988 TGGGTATTCTATA
1 TGGGTATTCTATA
93299001 TGGGTATTCTATA
1 TGGGTATTCTATA
93299014 TG
1 TG
93299016 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:93299332 original size:12 final size:12
Alignment explanation
Indices: 93299317--93299375 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
93299307 TTCTTCTTGT
93299317 GGATTTTCTCTG
1 GGATTTTCTCTG
* * *
93299329 GGATATTCTTTT
1 GGATTTTCTCTG
*
93299341 GGACTTTCTCTG
1 GGATTTTCTCTG
* * *
93299353 GGATATTCTTTT
1 GGATTTTCTCTG
93299365 GGATTTTCTCT
1 GGATTTTCTCT
93299376 CGGAAATTCA
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.12, C:0.15, G:0.20, T:0.53
Consensus pattern (12 bp):
GGATTTTCTCTG
Found at i:93299343 original size:24 final size:24
Alignment explanation
Indices: 93299310--93299384 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
93299300 AGTGATATTC
*
93299310 TTCTTGTGGATTTTCTCTGGGATA
1 TTCTTTTGGATTTTCTCTGGGATA
*
93299334 TTCTTTTGGACTTTCTCTGGGATA
1 TTCTTTTGGATTTTCTCTGGGATA
* *
93299358 TTCTTTTGGATTTTCTCTCGGAAA
1 TTCTTTTGGATTTTCTCTGGGATA
93299382 TTC
1 TTC
93299385 AGTATAGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.13, C:0.16, G:0.20, T:0.51
Consensus pattern (24 bp):
TTCTTTTGGATTTTCTCTGGGATA
Found at i:93300951 original size:5 final size:5
Alignment explanation
Indices: 93300941--93301002 Score: 83
Period size: 5 Copynumber: 12.2 Consensus size: 5
93300931 TAATTATGTT
93300941 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATA TTATTA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA
93300991 TTATA TATATA T
1 TTATA T-TATA T
93301003 GACAAAGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 33 0.63
6 15 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:93300957 original size:3 final size:3
Alignment explanation
Indices: 93300944--93300994 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
93300934 TTATGTTTTA
*
93300944 TAT TA- TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93300986 TAT TAT TAT
1 TAT TAT TAT
93300995 ATATATATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
2 12 0.29
3 29 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:93301069 original size:40 final size:41
Alignment explanation
Indices: 93301014--93301091 Score: 140
Period size: 40 Copynumber: 1.9 Consensus size: 41
93301004 ACAAAGAAAG
93301014 AAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGGAA
1 AAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGGAA
*
93301055 AAAG-AAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
93301092 AAGGAAAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 32 0.89
41 4 0.11
ACGTcount: A:0.64, C:0.10, G:0.26, T:0.00
Consensus pattern (41 bp):
AAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGGAA
Found at i:93301082 original size:21 final size:21
Alignment explanation
Indices: 93301019--93301082 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
93301009 GAAAGAAAGA
93301019 AAAGAAACAGAGAGCAAAAC-
1 AAAGAAACAGAGAGCAAAACG
* *
93301039 --A-AAACAGAGAAGGGAAAAAG
1 AAAGAAACAGAG-A-GCAAAACG
93301059 AAAGAAACAGAGAGCAAAACG
1 AAAGAAACAGAGAGCAAAACG
93301080 AAA
1 AAA
93301083 CAGAGAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
17 8 0.24
18 2 0.06
19 5 0.15
21 9 0.26
22 2 0.06
23 8 0.24
ACGTcount: A:0.66, C:0.11, G:0.23, T:0.00
Consensus pattern (21 bp):
AAAGAAACAGAGAGCAAAACG
Found at i:93302118 original size:20 final size:20
Alignment explanation
Indices: 93302080--93302118 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
93302070 ATCGATATTT
* *
93302080 AATTGAATGAATTAAATATG
1 AATTGAATAAATGAAATATG
*
93302100 AATTGAATAAATGAGATAT
1 AATTGAATAAATGAAATAT
93302119 TAAATTGAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
AATTGAATAAATGAAATATG
Found at i:93302516 original size:41 final size:39
Alignment explanation
Indices: 93302468--93302579 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
93302458 TCGACCTTGA
93302468 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
93302508 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
93302546 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
93302580 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:93303306 original size:17 final size:17
Alignment explanation
Indices: 93303257--93303307 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
93303247 ATGTGGCATG
*
93303257 TACCTAAGTAATGTACA
1 TACCTAAGTAATGTATA
*
93303274 TACCTAGGTAATGTATA
1 TACCTAAGTAATGTATA
*
93303291 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
93303308 GGGATTAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:93305621 original size:48 final size:49
Alignment explanation
Indices: 93305550--93305647 Score: 189
Period size: 48 Copynumber: 2.0 Consensus size: 49
93305540 GCCATGTGGG
93305550 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGG-AAAAAAAAATCTA
1 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
93305598 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
1 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
93305647 T
1 T
93305648 CATTCTTTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 35 0.71
49 14 0.29
ACGTcount: A:0.54, C:0.18, G:0.12, T:0.15
Consensus pattern (49 bp):
TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
Found at i:93312838 original size:48 final size:49
Alignment explanation
Indices: 93312767--93312866 Score: 184
Period size: 48 Copynumber: 2.1 Consensus size: 49
93312757 CACAGACCAT
*
93312767 CCCAGTTCACCATAAATTCATTTCTCATCTT-CTCATTGCTTCATGCTC
1 CCCAGTTCACCATAAATTCATTTCTCATCTTCCGCATTGCTTCATGCTC
93312815 CCCAGTTCACCATAAATTCATTTCTCATCTTCCGCATTGCTTCATGCTC
1 CCCAGTTCACCATAAATTCATTTCTCATCTTCCGCATTGCTTCATGCTC
93312864 CCC
1 CCC
93312867 TGGATTTTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 31 0.62
49 19 0.38
ACGTcount: A:0.20, C:0.36, G:0.07, T:0.37
Consensus pattern (49 bp):
CCCAGTTCACCATAAATTCATTTCTCATCTTCCGCATTGCTTCATGCTC
Found at i:93322047 original size:17 final size:18
Alignment explanation
Indices: 93322025--93322070 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
93322015 ATTTATTTAT
93322025 ATCATATTATATA-ATGC
1 ATCATATTATATATATGC
93322042 ATCATA-TATGATATATGC
1 ATCATATTAT-ATATATGC
*
93322060 AT-ACATTATAT
1 ATCATATTATAT
93322071 TTGCGACGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 13 0.52
18 9 0.36
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (18 bp):
ATCATATTATATATATGC
Found at i:93322677 original size:16 final size:16
Alignment explanation
Indices: 93322656--93322689 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93322646 TTTTTGGATC
*
93322656 TACTTTTATTTACTTT
1 TACTTTTATTTAATTT
*
93322672 TACTTTTTTTTAATTT
1 TACTTTTATTTAATTT
93322688 TA
1 TA
93322690 TTTACTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (16 bp):
TACTTTTATTTAATTT
Found at i:93322809 original size:25 final size:23
Alignment explanation
Indices: 93322760--93322818 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 23
93322750 GTTTTTTATA
*
93322760 ATTTTATTTAGTTAAAAAATATT
1 ATTTTATTTATTTAAAAAATATT
*
93322783 ATTTTATTTATTTGAAGAAAATTTT
1 ATTTTATTTATTT-AA-AAAATATT
**
93322808 ATAATATTTAT
1 ATTTTATTTAT
93322819 GGATAACAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 12 0.40
24 2 0.07
25 16 0.53
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (23 bp):
ATTTTATTTATTTAAAAAATATT
Found at i:93325119 original size:31 final size:31
Alignment explanation
Indices: 93325057--93325120 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
93325047 TTGAAATGTT
* *
93325057 ACATTTTAGTCACTTACGTTAATACGTTGTA
1 ACATTTTAGTCACTAACGTTAACACGTTGTA
93325088 ACATTTTAGTCACTGAATCGTTAACA-G-TGTA
1 ACATTTTAGTCACT-AA-CGTTAACACGTTGTA
93325119 AC
1 AC
93325121 GGTAAGCTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 20 0.69
32 2 0.07
33 7 0.24
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (31 bp):
ACATTTTAGTCACTAACGTTAACACGTTGTA
Found at i:93327142 original size:21 final size:22
Alignment explanation
Indices: 93327116--93327156 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
93327106 AATTTACAGA
*
93327116 AGAAGAAGATAG-AAAGAAAGG
1 AGAAGAAGAAAGAAAAGAAAGG
93327137 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
93327157 AAGTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:93341289 original size:48 final size:49
Alignment explanation
Indices: 93341218--93341315 Score: 189
Period size: 48 Copynumber: 2.0 Consensus size: 49
93341208 GCCATGTGGG
93341218 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGG-AAAAAAAAATCTA
1 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
93341266 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
1 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
93341315 T
1 T
93341316 CATTCTTTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 35 0.71
49 14 0.29
ACGTcount: A:0.54, C:0.18, G:0.12, T:0.15
Consensus pattern (49 bp):
TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
Found at i:93357465 original size:17 final size:18
Alignment explanation
Indices: 93357443--93357488 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
93357433 ATTTATTTAT
93357443 ATCATATTATATA-ATGC
1 ATCATATTATATATATGC
93357460 ATCATA-TATGATATATGC
1 ATCATATTAT-ATATATGC
*
93357478 AT-ACATTATAT
1 ATCATATTATAT
93357489 TTGCGACGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 13 0.52
18 9 0.36
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (18 bp):
ATCATATTATATATATGC
Found at i:93358095 original size:16 final size:16
Alignment explanation
Indices: 93358074--93358107 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93358064 TTTTTGGATC
*
93358074 TACTTTTATTTACTTT
1 TACTTTTATTTAATTT
*
93358090 TACTTTTTTTTAATTT
1 TACTTTTATTTAATTT
93358106 TA
1 TA
93358108 TTTACTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (16 bp):
TACTTTTATTTAATTT
Found at i:93360532 original size:31 final size:31
Alignment explanation
Indices: 93360470--93360533 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
93360460 TTGAAATGTT
* *
93360470 ACATTTTAGTCACTTACGTTAATACGTTGTA
1 ACATTTTAGTCACTAACGTTAACACGTTGTA
93360501 ACATTTTAGTCACTGAATCGTTAACA-G-TGTA
1 ACATTTTAGTCACT-AA-CGTTAACACGTTGTA
93360532 AC
1 AC
93360534 GGTAAGCTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 20 0.69
32 2 0.07
33 7 0.24
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (31 bp):
ACATTTTAGTCACTAACGTTAACACGTTGTA
Found at i:93362561 original size:21 final size:22
Alignment explanation
Indices: 93362535--93362575 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
93362525 AATTTACAGA
*
93362535 AGAAGAAGATAG-AAAGAAAGG
1 AGAAGAAGAAAGAAAAGAAAGG
93362556 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
93362576 AAGTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:93369125 original size:148 final size:149
Alignment explanation
Indices: 93368912--93369378 Score: 657
Period size: 148 Copynumber: 3.2 Consensus size: 149
93368902 TTGATATTTA
* *
93368912 TTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTC
1 TTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTATTTTAGTACATAATATTTC
* *
93368977 AAATGTATTATTTTATATATTTTTTTACTAATTTAGTAAAAAACTCTGATTTTTGCCGTTTGTTT
66 AAATGTATTATTTTATATATTTTTTTATTAATTTAGTAAAAAACTCTGATTTTGGCCGTTTGTTT
93369042 TTTTATTTTATTTTCGGAT
131 TTTTATTTTATTTTCGGAT
* *
93369061 TTTATTTTTTAAAATATACTATTTTTGTAATTTA-TTTTTATATTATTTTAGTACATAATGTTTC
1 TTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTATTTTAGTACATAATATTTC
*
93369125 AAATGTATTATTTTA-AT-TTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCAGTTTG-T
66 AAATGTATTATTTTATATATTTTTT-TATTAATTTAGTAAAAAACTCTGATTTTGGCCGTTTGTT
93369187 TTTTTATTTTATTTTCGGAT
130 TTTTTATTTTATTTTCGGAT
* *
93369207 TTTATTTTTCAAAATATACTATTTTTCTATTTTATTTTTTTATATTATTTTAGTACATAATATTT
1 TTTATTTTTTAAAATATACTATTTTTGTATTTTA-TTTTTTATATTATTTTAGTACATAATATTT
* *
93369272 CATATGTATTA-TTTAGTATA--TTTATATTAATTTAGTAAAAAACT-TGATTTTGGCC-TTT-T
65 CAAATGTATTATTTTA-TATATTTTTTTATTAATTTAGTAAAAAACTCTGATTTTGGCCGTTTGT
*** *
93369331 TTATTTTATTTTCGGATTTTTAAAA
129 TT-TTTTATTTT---ATTTTCGGAT
*
93369356 TATATTTTTTAAAATATACTATT
1 TTTATTTTTTAAAATATACTATT
93369379 AAGCTATTCT
Statistics
Matches: 287, Mismatches: 20, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
145 5 0.02
146 77 0.27
147 60 0.21
148 85 0.30
149 60 0.21
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (149 bp):
TTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTATTTTAGTACATAATATTTC
AAATGTATTATTTTATATATTTTTTTATTAATTTAGTAAAAAACTCTGATTTTGGCCGTTTGTTT
TTTTATTTTATTTTCGGAT
Found at i:93369364 original size:14 final size:14
Alignment explanation
Indices: 93369347--93369373 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93369337 TATTTTCGGA
93369347 TTTTTAAAATATAT
1 TTTTTAAAATATAT
93369361 TTTTTAAAATATA
1 TTTTTAAAATATA
93369374 CTATTAAGCT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTTAAAATATAT
Found at i:93376192 original size:7 final size:7
Alignment explanation
Indices: 93376137--93376175 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
93376127 AAGGATAGGA
93376137 GGAAATG
1 GGAAATG
93376144 GGAAATG
1 GGAAATG
93376151 GGAAATG
1 GGAAATG
93376158 GGAAATG
1 GGAAATG
*
93376165 GGAAATA
1 GGAAATG
93376172 GGAA
1 GGAA
93376176 GTAGTAAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.41, T:0.13
Consensus pattern (7 bp):
GGAAATG
Found at i:93376651 original size:7 final size:7
Alignment explanation
Indices: 93376603--93376634 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
93376593 AAGGATAGGA
93376603 GGAAATG
1 GGAAATG
93376610 GGAAATG
1 GGAAATG
93376617 GGAAATG
1 GGAAATG
*
93376624 GGAAATA
1 GGAAATG
93376631 GGAA
1 GGAA
93376635 GTAGTAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (7 bp):
GGAAATG
Found at i:93376827 original size:459 final size:462
Alignment explanation
Indices: 93375939--93376867 Score: 1801
Period size: 459 Copynumber: 2.0 Consensus size: 462
93375929 ACACCTGATG
93375939 GTTTTTTTTAAAAAAAAGAGATCTAGTTTGTGATATTTGTTTGTTTGTGAGGGATTAAGTTTCTA
1 GTTTTTTTTAAAAAAAAGAGATCTAGTTTGTGATATTTGTTTGTTTGTGAGGGATTAAGTTTCTA
93376004 AAATTGGATCGATTTTAGGTAGGTAGACTGTATATTGTTAATACGAGAGGTTAAAGCTTGATTCA
66 AAATTGGATCGATTTTAGGTAGGTAGACTGTATATTGTTAATACGAGAGGTTAAAGCTTGATTCA
93376069 AGTACGATTTGGTTGAGGAAAACTTAAGAGAATCCCGGTTGCCTTGAATTGAGGCTAGAAGGATA
131 AGTACGATTTGGTTGAGGAAAACTTAAGAGAATCCCGGTTGCCTTGAATTGAGGCTAGAAGGAT-
93376134 GGAGGAAATGGGAAATGGGAAATGGGAAATGGGAAATAGGAAGTAGTAAAGTGGGAAGTTAATAA
195 -GAGG-AA-GGGAAATGGGAAATGGGAAATGGGAAATAGGAAGTAGTAAAGTGGGAAGTTAATAA
93376199 TTTAAGTATTTTTGTTAGAAAAGAAAAGTGTGGTAGAAAAGGAAATCAAGAGATAATAATATTTC
257 TTTAAGTATTTTTGTTAGAAAAGAAAAGTGTGGTAGAAAAGGAAATCAAGAGATAATAATATTTC
93376264 ATCTATCTTAGTGATATATGATGATAAATTATTTCTAGTTTTCTAGAAATAAAAATTAGTTCAAA
322 ATCTATCTTAGTGATATATGATGATAAATTATTTCTAGTTTTCTAGAAATAAAAATTAGTTCAAA
93376329 AATTATATATGTATATATTTGAAGACATTCTTATTCTTCAAATCTGTCAGTAATGAATGGTCTGA
387 AATTATATATGTATATATTTGAAGACATTCTTATTCTTCAAATCTGTCAGTAATGAATGGTCTGA
93376394 AAATTATTATT
452 AAATTATTATT
93376405 GTTTTTTTTAAAAAAAAGAGATCTAGTTTGTGATATTTGTTTGTTTGTGAGGGATTAAGTTTCTA
1 GTTTTTTTTAAAAAAAAGAGATCTAGTTTGTGATATTTGTTTGTTTGTGAGGGATTAAGTTTCTA
93376470 AAATTGGATCGATTTTAGGTAGGTAGACTGTATATTGTTAATACGAGAGGTTAAAGCTTGATTCA
66 AAATTGGATCGATTTTAGGTAGGTAGACTGTATATTGTTAATACGAGAGGTTAAAGCTTGATTCA
93376535 AGTACGATTTGGTTGAGGAAAACTTAAGAGAATCCCGGTTGCCTTGAATTGAGGCTAGAAGGAT-
131 AGTACGATTTGGTTGAGGAAAACTTAAGAGAATCCCGGTTGCCTTGAATTGAGGCTAGAAGGATG
93376599 AGG-A-GGAAATGGGAAATGGGAAATGGGAAATAGGAAGTAGTAAAGTGGGAAGTTAATAATTTA
196 AGGAAGGGAAATGGGAAATGGGAAATGGGAAATAGGAAGTAGTAAAGTGGGAAGTTAATAATTTA
93376662 AGTATTTTTGTTAGAAAAGAAAAGTGTGGTAGAAAAGGAAATCAAGAGATAATAATATTTCATCT
261 AGTATTTTTGTTAGAAAAGAAAAGTGTGGTAGAAAAGGAAATCAAGAGATAATAATATTTCATCT
93376727 ATCTTAGTGATATATGATGATAAATTATTTCTAGTTTTCTAGAAATAAAAATTAGTTCAAAAATT
326 ATCTTAGTGATATATGATGATAAATTATTTCTAGTTTTCTAGAAATAAAAATTAGTTCAAAAATT
93376792 ATATATGTATATATTTGAAGACATTCTTATTCTTCAAATCTGTCAGTAATGAATGGTCTGAAAAT
391 ATATATGTATATATTTGAAGACATTCTTATTCTTCAAATCTGTCAGTAATGAATGGTCTGAAAAT
93376857 TATTATT
456 TATTATT
93376864 GTTT
1 GTTT
93376868 AGTTCAATAT
Statistics
Matches: 463, Mismatches: 0, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
459 265 0.57
461 1 0.00
463 3 0.01
466 194 0.42
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.35
Consensus pattern (462 bp):
GTTTTTTTTAAAAAAAAGAGATCTAGTTTGTGATATTTGTTTGTTTGTGAGGGATTAAGTTTCTA
AAATTGGATCGATTTTAGGTAGGTAGACTGTATATTGTTAATACGAGAGGTTAAAGCTTGATTCA
AGTACGATTTGGTTGAGGAAAACTTAAGAGAATCCCGGTTGCCTTGAATTGAGGCTAGAAGGATG
AGGAAGGGAAATGGGAAATGGGAAATGGGAAATAGGAAGTAGTAAAGTGGGAAGTTAATAATTTA
AGTATTTTTGTTAGAAAAGAAAAGTGTGGTAGAAAAGGAAATCAAGAGATAATAATATTTCATCT
ATCTTAGTGATATATGATGATAAATTATTTCTAGTTTTCTAGAAATAAAAATTAGTTCAAAAATT
ATATATGTATATATTTGAAGACATTCTTATTCTTCAAATCTGTCAGTAATGAATGGTCTGAAAAT
TATTATT
Found at i:93377082 original size:14 final size:14
Alignment explanation
Indices: 93377063--93377089 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93377053 GAAAGTAAAT
93377063 AATTAAAAATATGC
1 AATTAAAAATATGC
93377077 AATTAAAAATATG
1 AATTAAAAATATG
93377090 TTTAATGACG
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:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
AATTAAAAATATGC
Found at i:93377375 original size:20 final size:20
Alignment explanation
Indices: 93377316--93377386 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
93377306 AATAATAAAA
* * *
93377316 TAAATAAATAATGCATTAAAT
1 TAAAAAAATAACGCA-TAATT
* *
93377337 TAAAAAAATAACTCTTAATT
1 TAAAAAAATAACGCATAATT
93377357 TAAAGAAAATAA-GCATAATT
1 TAAA-AAAATAACGCATAATT
93377377 ATATAAAAAA
1 -TA-AAAAAA
93377387 ATTAACTCGG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
20 14 0.35
21 24 0.60
22 2 0.05
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAAAAAATAACGCATAATT
Found at i:93378366 original size:30 final size:31
Alignment explanation
Indices: 93378332--93378389 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
93378322 AGTATGACAA
*
93378332 AATTTA-ATAATTTA-ATAATTTTTTAAAAAT
1 AATTTACAT-ATTTATATAAGTTTTTAAAAAT
*
93378362 AATTTACATATTTATATCAGTTTTTAAA
1 AATTTACATATTTATATAAGTTTTTAAA
93378390 TTTCTCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (31 bp):
AATTTACATATTTATATAAGTTTTTAAAAAT
Found at i:93381938 original size:48 final size:48
Alignment explanation
Indices: 93381882--93381978 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
93381872 GTGAGGAGAT
93381882 TAAGTAAAGATGACACAGCAATTTTGTTATTAGTTGAAGAGAAAAGCA
1 TAAGTAAAGATGACACAGCAATTTTGTTATTAGTTGAAGAGAAAAGCA
93381930 TAAGTAAAGATGACACAGCAATTTTGTTATTAGTTGAAGAGAAAAGCA
1 TAAGTAAAGATGACACAGCAATTTTGTTATTAGTTGAAGAGAAAAGCA
93381978 T
1 T
93381979 TGCCTACGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (48 bp):
TAAGTAAAGATGACACAGCAATTTTGTTATTAGTTGAAGAGAAAAGCA
Found at i:93386854 original size:15 final size:15
Alignment explanation
Indices: 93386830--93386869 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
93386820 ATATAAATAG
93386830 AAAAATTAAGT-GCTT
1 AAAAATTAAGTAG-TT
*
93386845 AAAAAATAAGTAGTT
1 AAAAATTAAGTAGTT
93386860 AAAAATTAAG
1 AAAAATTAAG
93386870 CACTGAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (15 bp):
AAAAATTAAGTAGTT
Found at i:93399864 original size:3 final size:3
Alignment explanation
Indices: 93399856--93399954 Score: 101
Period size: 3 Copynumber: 32.7 Consensus size: 3
93399846 ATTTAAAAAG
* *
93399856 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * *
93399904 GCA ATA ATA ATA TTA A-A ATTA ATTA CTA ATA ATA ATA ATA TTA AAA
1 ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA ATA ATA
93399950 ATA AT
1 ATA AT
93399955 TAATTTAATG
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.03
3 71 0.91
4 5 0.06
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:93401528 original size:140 final size:140
Alignment explanation
Indices: 93401259--93401609 Score: 506
Period size: 140 Copynumber: 2.5 Consensus size: 140
93401249 CTCATTCCAA
* * *
93401259 TCCACTGTAACTTTAGTGGAAATAAGACTTGTAACTTCAACCTACTCCACTGCAACTTCAGGGGG
1 TCCACTGTAACTCTAG-GGAAATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAG
*
93401324 ATAAGGTTTATGATTTGTAGCTTTAATCTGCTCTATTACAACTTCAGAGAGATAAGATTTGCTAT
65 ATAAGGTTTATGATTTGTAGCTTTAATCTGCTCCATTACAACTTCAGAGAGATAAGATTTGCTAT
*
93401389 CTTTGGTCTAC
130 CTTTAGTCTAC
** * * * *
93401400 TCCGTTGTAACTCTAGGGAAATAAAACTTGTAACTTCAACCTGTTCCATTGCAACTTCAGTGAGA
1 TCCACTGTAACTCTAGGGAAATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
* * * *
93401465 TAAGGTTTGTGATTTGTAGCTTTAATCTGCTCCATTACAACTTTAGGGAGATAGGATTTGCTATC
66 TAAGGTTTATGATTTGTAGCTTTAATCTGCTCCATTACAACTTCAGAGAGATAAGATTTGCTATC
*
93401530 TTTAGTCTGC
131 TTTAGTCTAC
* * *
93401540 TTCACTGTAACTTCT-GAGAAATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAG
1 TCCACTGTAAC-TCTAGGGAAATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAG
93401604 ATAAGG
65 ATAAGG
93401610 CTGGTGGCTT
Statistics
Matches: 184, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
140 168 0.91
141 16 0.09
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (140 bp):
TCCACTGTAACTCTAGGGAAATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
TAAGGTTTATGATTTGTAGCTTTAATCTGCTCCATTACAACTTCAGAGAGATAAGATTTGCTATC
TTTAGTCTAC
Found at i:93401590 original size:44 final size:45
Alignment explanation
Indices: 93401536--93401653 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 45
93401526 TATCTTTAGT
* *
93401536 CTGCTTCACTGTAACTTCT-GAGAAATAAGACTTGTAACTTCAAC
1 CTGCTCCACTGTAACTTCTAGAGAAATAAGACTGGTAACTTCAAC
* * * * ** *
93401580 CTGCTCCACTGCAACTT-TAGGGAGATAAGGCTGGTGGCTTCAAT
1 CTGCTCCACTGTAACTTCTAGAGAAATAAGACTGGTAACTTCAAC
93401624 CTGCTCCACTGTAACTTC-A-AGAAGATAAGA
1 CTGCTCCACTGTAACTTCTAGAGAA-ATAAGA
93401654 TTCGCCATCT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
43 3 0.05
44 55 0.95
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (45 bp):
CTGCTCCACTGTAACTTCTAGAGAAATAAGACTGGTAACTTCAAC
Found at i:93401737 original size:44 final size:44
Alignment explanation
Indices: 93401617--93401743 Score: 137
Period size: 44 Copynumber: 2.9 Consensus size: 44
93401607 AGGCTGGTGG
* * *
93401617 CTTCAATCTGCTCCACTGTAACTTCAAGAAGATAAGATTCGCCAT
1 CTTCAATCTGCTCCACTGTAACTTCAAGGAGATAAGA-TCGACAA
* * * *
93401662 CTTCGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTACAA
1 CTTCAATCTGCTCCACTGTAACTTCAAGGAGATAAGATCGACAA
* * * * *
93401706 CTTCAATTTGCTCCACTGTTACTTTAGGGAGATGAGAT
1 CTTCAATCTGCTCCACTGTAACTTCAAGGAGATAAGAT
93401744 TTGTGGATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 34 0.51
45 33 0.49
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGTAACTTCAAGGAGATAAGATCGACAA
Found at i:93410973 original size:31 final size:32
Alignment explanation
Indices: 93410932--93410997 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
93410922 TTTAAATTAA
*
93410932 TTAATTAGATA-AATATTATTTTATTAATATT
1 TTAATGAGATATAATATTATTTTATTAATATT
* *
93410963 TTAATGAGATATTTATTATTATTTTATTATTATT
1 TTAATGAGATA--TAATATTATTTTATTAATATT
93410997 T
1 T
93410998 ATTTAGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
34 19 0.66
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (32 bp):
TTAATGAGATATAATATTATTTTATTAATATT
Found at i:93413154 original size:21 final size:21
Alignment explanation
Indices: 93413130--93413202 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
93413120 CTCTCTGAAA
93413130 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
93413151 TGAAA-G-ATACCATGACAACATGAT
1 TGAAATGTGTA--A-GAC--CATGGT
93413175 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
93413197 TGAAAT
1 TGAAAT
93413203 ATACCATGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 12 0.30
22 8 0.20
24 8 0.20
25 6 0.15
26 1 0.03
27 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:93413181 original size:46 final size:46
Alignment explanation
Indices: 93413129--93413489 Score: 562
Period size: 46 Copynumber: 7.8 Consensus size: 46
93413119 GCTCTCTGAA
* * *
93413129 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
93413175 ATGAAATGTGTAAGACCATGGTTGAAATATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
93413221 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGTC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
93413267 ATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
93413313 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
93413359 ATGAAATGTGTATGACCATAGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*** *
93413405 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* * * *
93413451 A-GAAAGTGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGAAA-TGTGTAAGACCATGGTTGAAAGATACCATGGCA
93413490 TCATGTCAAA
Statistics
Matches: 292, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.01
46 288 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:93416952 original size:16 final size:17
Alignment explanation
Indices: 93416921--93416953 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
93416911 CATAAGTATA
93416921 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
93416938 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
93416954 ACTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:93417733 original size:16 final size:17
Alignment explanation
Indices: 93417702--93417734 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
93417692 CATAAGTATA
93417702 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
93417719 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
93417735 ACTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Done.