Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 180 of 311
Found at i:61338389 original size:61 final size:62
Alignment explanation
Indices: 61338304--61338435 Score: 194
Period size: 61 Copynumber: 2.1 Consensus size: 62
61338294 TCACTTGTAA
* * * * *
61338304 CCGAAGTTACCACTATTCACTGATCAGGTAGCCGGAGCTACCA-TTTTCACTGATCAGGTAG
1 CCGAAGCTACCATTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTAG
* *
61338365 TCGGAGCTACCATTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTAG
1 CCGAAGCTACCATTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTAG
61338427 CCGAAGCTA
1 CCGAAGCTA
61338436 TTACTTATCA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
61 36 0.59
62 25 0.41
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (62 bp):
CCGAAGCTACCATTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTAG
Found at i:61338447 original size:31 final size:31
Alignment explanation
Indices: 61338304--61338435 Score: 194
Period size: 31 Copynumber: 4.3 Consensus size: 31
61338294 TCACTTGTAA
* *
61338304 CCGAAGTTACCACTATTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
*
61338335 CCGGAGCTACCA-TTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
* * *
61338365 TCGGAGCTACCATTTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
*
61338396 CAGAAGCTACCACTTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
61338427 CCGAAGCTA
1 CCGAAGCTA
61338436 TTACTTATCA
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
30 28 0.31
31 63 0.69
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (31 bp):
CCGAAGCTACCACTTTTCACTGATCAGGTAG
Found at i:61340276 original size:12 final size:12
Alignment explanation
Indices: 61340259--61340283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61340249 TTAACACTCC
61340259 AAAAATATTTAT
1 AAAAATATTTAT
61340271 AAAAATATTTAT
1 AAAAATATTTAT
61340283 A
1 A
61340284 GCTTGATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAATATTTAT
Found at i:61342471 original size:17 final size:17
Alignment explanation
Indices: 61342449--61342481 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
61342439 CGAATGAGTT
61342449 CAAAATTTCTTGGTACG
1 CAAAATTTCTTGGTACG
61342466 CAAAATTTCTTGGTAC
1 CAAAATTTCTTGGTAC
61342482 ACATATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (17 bp):
CAAAATTTCTTGGTACG
Found at i:61347411 original size:40 final size:40
Alignment explanation
Indices: 61347367--61347449 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
61347357 AGTTCTGTAC
* *
61347367 ATAGCCGAAGCTATCTTAAAT-AGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATATTAAATCA-CACACTAAGTGCCACAT
*
61347407 ATAGCCGAAGCTATATTGAATCACACACTAAGTGCCACAT
1 ATAGCCGAAGCTATATTAAATCACACACTAAGTGCCACAT
61347447 ATA
1 ATA
61347450 TCTAATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (40 bp):
ATAGCCGAAGCTATATTAAATCACACACTAAGTGCCACAT
Found at i:61350097 original size:42 final size:42
Alignment explanation
Indices: 61350050--61350167 Score: 177
Period size: 42 Copynumber: 2.8 Consensus size: 42
61350040 TGTGATTTCG
61350050 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
* *
61350092 TGTAAGACCATGTCTGGGACATTAGCATCGATATGAGATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
*
61350134 TATAAGACCATAGT-TGGG-CTATTGGCATCGATAT
1 TGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATAT
61350168 ACTATAACAT
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
41 1 0.01
42 67 0.96
43 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
Found at i:61361250 original size:46 final size:46
Alignment explanation
Indices: 61361200--61361375 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
61361190 TGGTTGAGCA
61361200 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * * *
61361246 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCATA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
61361295 T--GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
61361339 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61361376 GCGAGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 29 0.27
48 1 0.01
49 5 0.05
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61364821 original size:19 final size:19
Alignment explanation
Indices: 61364789--61364825 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61364779 ACTTGGGTTG
*
61364789 AGAATTGGCCAAATGGGCT
1 AGAATGGGCCAAATGGGCT
*
61364808 AGAATGGGCTAAATGGGC
1 AGAATGGGCCAAATGGGC
61364826 CTGATGGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.35, T:0.19
Consensus pattern (19 bp):
AGAATGGGCCAAATGGGCT
Found at i:61364958 original size:29 final size:29
Alignment explanation
Indices: 61364916--61365021 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 29
61364906 ATAATATGAT
* *
61364916 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATAAATGTGAA
* *
61364945 TTGGGCCTAGTGGGCCATAAAAATATGAA
1 TTGGGCCTAGTGGGCCATATAAATGTGAA
* * * *
61364974 CTGGGCC-AGATGGGCGATATAAATGAG-T
1 TTGGGCCTAG-TGGGCCATATAAATGTGAA
* *
61365002 TTGGGCCCAGTGGGTCATAT
1 TTGGGCCTAGTGGGCCATAT
61365022 GCATGTACTG
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
28 16 0.26
29 46 0.74
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATAAATGTGAA
Found at i:61365257 original size:26 final size:26
Alignment explanation
Indices: 61365224--61365274 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
61365214 GCCATAATTA
* *
61365224 AGGG-AAAATTACCGAAATACCCCTG
1 AGGGAAAAATGACCAAAATACCCCTG
61365249 AGGGTAAAAATGACCAAAATACCCCT
1 AGGG-AAAAATGACCAAAATACCCCT
61365275 AGGTGTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
27 18 0.82
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (26 bp):
AGGGAAAAATGACCAAAATACCCCTG
Found at i:61366046 original size:17 final size:18
Alignment explanation
Indices: 61366014--61366047 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61366004 TTTAAGAAGA
61366014 GTTTTCAATGAAAACACG
1 GTTTTCAATGAAAACACG
*
61366032 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
61366048 TTCAATGTGA
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:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACG
Found at i:61374788 original size:39 final size:39
Alignment explanation
Indices: 61374701--61374789 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
61374691 AGCTTATGGG
* *
61374701 TAAGTTGTGTATCAGCAAAGCTCCTTTGTGAGCTAAGAA
1 TAAGTTGTGTACCAGCAAAGCTCCCTTGTGAGCTAAGAA
*
61374740 TAAGATGTGTACCAGCAAAGCTCCCTTGT-AGGCTAAGAA
1 TAAGTTGTGTACCAGCAAAGCTCCCTTGTGA-GCTAAGAA
*
61374779 TAATTTGTGTA
1 TAAGTTGTGTA
61374790 TTAGTGAAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.02
39 43 0.98
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (39 bp):
TAAGTTGTGTACCAGCAAAGCTCCCTTGTGAGCTAAGAA
Found at i:61380776 original size:40 final size:40
Alignment explanation
Indices: 61380640--61380785 Score: 195
Period size: 40 Copynumber: 3.6 Consensus size: 40
61380630 ACGACAAATT
61380640 GGCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTC
1 GGCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTC
* *
61380680 GGCCATATATGGCACTTAAG-GTGTGATTCGACATAGCTTC
1 GGCTATATATGGCACTT-AGTGTGCGATTCGACATAGCTTC
* *
61380720 GGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCTTC
1 GGCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTC
* * * * *
61380760 GACTATGTACGACACTTAGGGTGCGA
1 GGCTATATATGGCACTTAGTGTGCGA
61380786 GATATAAAGT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (40 bp):
GGCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTC
Found at i:61395482 original size:40 final size:40
Alignment explanation
Indices: 61395381--61395586 Score: 234
Period size: 40 Copynumber: 5.2 Consensus size: 40
61395371 TATTCGAATG
* * *
61395381 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
61395422 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * * *
61395462 ATATCTGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
61395502 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
61395542 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
61395581 ATATCC
1 ATATCC
61395587 AGCTAAATCC
Statistics
Matches: 137, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 15 0.11
40 94 0.69
41 28 0.20
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:61409753 original size:24 final size:24
Alignment explanation
Indices: 61409726--61409772 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
61409716 AGAAAAAGCT
*
61409726 ATTTGGGTTGATTTGATTCAAGAG
1 ATTTGGGTTAATTTGATTCAAGAG
61409750 ATTTGGGTTAATTTGATTCAAGA
1 ATTTGGGTTAATTTGATTCAAGA
61409773 AACCGAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.43
Consensus pattern (24 bp):
ATTTGGGTTAATTTGATTCAAGAG
Found at i:61411122 original size:14 final size:15
Alignment explanation
Indices: 61411086--61411123 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
61411076 TCTCTTGCAT
*
61411086 ATTAGATTAACATGG
1 ATTAGATTAAAATGG
61411101 ATTTAGATTAAAATGG
1 A-TTAGATTAAAATGG
61411117 -TTAGATT
1 ATTAGATT
61411124 TTAAGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 1 0.05
16 13 0.62
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (15 bp):
ATTAGATTAAAATGG
Found at i:61412744 original size:38 final size:38
Alignment explanation
Indices: 61412701--61412776 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
61412691 TTCATCCTTT
61412701 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
*
61412739 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
61412777 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
Found at i:61414080 original size:40 final size:40
Alignment explanation
Indices: 61413965--61414110 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
61413955 TACTCGAATG
*
61413965 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
61414006 ACATCCGGACTAAGATCCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
61414047 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
61414087 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
61414111 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 45 0.48
41 31 0.33
42 18 0.19
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:61420808 original size:38 final size:38
Alignment explanation
Indices: 61420765--61420840 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
61420755 TTCATCCTTT
61420765 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
61420803 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
61420841 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:61422123 original size:40 final size:40
Alignment explanation
Indices: 61422029--61422173 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
61422019 TACTCGAATG
*
61422029 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
61422070 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
61422110 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
61422150 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
61422174 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:61425171 original size:26 final size:26
Alignment explanation
Indices: 61425142--61425195 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
61425132 ACACATGAGA
*
61425142 TCAATGGG-CGGAGCCCCTTGTGGGGG
1 TCAA-GGGACGGAGCCCCCTGTGGGGG
*
61425168 TCAAGGGATGGAGCCCCCTGTGGGGG
1 TCAAGGGACGGAGCCCCCTGTGGGGG
61425194 TC
1 TC
61425196 CCGTTGCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.13, C:0.24, G:0.44, T:0.19
Consensus pattern (26 bp):
TCAAGGGACGGAGCCCCCTGTGGGGG
Found at i:61430113 original size:28 final size:28
Alignment explanation
Indices: 61430073--61430131 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
61430063 TAAGCAATGC
*
61430073 TCAAACTTGGTTATAGGAAATGACTTAG
1 TCAAACTTGGTTATAAGAAATGACTTAG
*
61430101 TCAAACTTGGTTATAAGAAGTGACTTAG
1 TCAAACTTGGTTATAAGAAATGACTTAG
61430129 TCA
1 TCA
61430132 TCATATCTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (28 bp):
TCAAACTTGGTTATAAGAAATGACTTAG
Found at i:61440269 original size:10 final size:11
Alignment explanation
Indices: 61440249--61440273 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61440239 AATTTTTGAC
61440249 TTTCTTTTTTT
1 TTTCTTTTTTT
61440260 TTTCTTTTTTT
1 TTTCTTTTTTT
61440271 TTT
1 TTT
61440274 GTTCCAAAAC
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:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:61440906 original size:17 final size:17
Alignment explanation
Indices: 61440866--61440913 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
61440856 CATTGATATG
*
61440866 CATATAATATATATACA
1 CATATAATATATACACA
*
61440883 CACATAATATATACACA
1 CATATAATATATACACA
61440900 -ATTATAATAATATA
1 CA-TATAAT-ATATA
61440914 AAATTAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 20 0.77
18 5 0.19
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (17 bp):
CATATAATATATACACA
Found at i:61453641 original size:31 final size:31
Alignment explanation
Indices: 61453604--61453672 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
61453594 AAAACTTAAC
61453604 TCAATGACTTAAATAAAAACTTCCAAATAAT
1 TCAATGACTTAAATAAAAACTTCCAAATAAT
* * **
61453635 TTAATGACTTAAATGAAAACTTCTGAATAAT
1 TCAATGACTTAAATAAAAACTTCCAAATAAT
61453666 TCAATGA
1 TCAATGA
61453673 TCATTTTGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (31 bp):
TCAATGACTTAAATAAAAACTTCCAAATAAT
Found at i:61458107 original size:40 final size:40
Alignment explanation
Indices: 61458059--61458246 Score: 222
Period size: 40 Copynumber: 4.7 Consensus size: 40
61458049 GCTACTCACT
* *
61458059 CAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
61458099 CAATTGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
61458139 CAAATGCCTTCGGGACTTATCACGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * *
61458179 CAAATGCCTTCGGGACTT-GCCCGG-AACTAGTCACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
61458218 CAGATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
61458247 CATCCAAATA
Statistics
Matches: 127, Mismatches: 16, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 30 0.24
40 94 0.74
41 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:61459530 original size:40 final size:40
Alignment explanation
Indices: 61459429--61459665 Score: 280
Period size: 40 Copynumber: 5.9 Consensus size: 40
61459419 TATTCGAATG
* * * *
61459429 ATATCCGAGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* *
61459470 ATATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* **
61459510 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
61459550 AAATCCGGGCTGAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
61459590 AAATACGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* **
61459630 CTAAT-CGGGCTTTGTCCCGAAGGCATTTGTGCGAGT
1 AT-ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
61459666 GGTTATATTC
Statistics
Matches: 169, Mismatches: 24, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
40 140 0.83
41 28 0.17
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:61466222 original size:21 final size:21
Alignment explanation
Indices: 61466196--61466239 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
61466186 TATATTTGGC
61466196 TAAAAATATAAATCTGAAAAA
1 TAAAAATATAAATCTGAAAAA
61466217 TAAAAATATAAATCTGAAAAA
1 TAAAAATATAAATCTGAAAAA
61466238 TA
1 TA
61466240 GGTTTGGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAAAATATAAATCTGAAAAA
Found at i:61466406 original size:33 final size:33
Alignment explanation
Indices: 61466351--61466426 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
61466341 AAGACAAAAA
* * **
61466351 ATTATTATTTTTTTTATTTTTTAATATTAATTT
1 ATTATTATTTTTTCTATATTTTAATACCAATTT
* * *
61466384 ATTATTATTTTTTCTCTATTTTATTACCATTTT
1 ATTATTATTTTTTCTATATTTTAATACCAATTT
61466417 ATTATTATTT
1 ATTATTATTT
61466427 AGCTATTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (33 bp):
ATTATTATTTTTTCTATATTTTAATACCAATTT
Found at i:61466426 original size:11 final size:11
Alignment explanation
Indices: 61466352--61466495 Score: 75
Period size: 11 Copynumber: 13.3 Consensus size: 11
61466342 AGACAAAAAA
61466352 TTATTATT-TT
1 TTATTATTATT
61466362 TT-TTATT-TT
1 TTATTATTATT
* *
61466371 TTAATATTAAT
1 TTATTATTATT
61466382 TTATTATTATT
1 TTATTATTATT
*
61466393 TT-TTCTCTATT
1 TTATTAT-TATT
**
61466404 TTATTACCATT
1 TTATTATTATT
61466415 TTATTATTA-T
1 TTATTATTATT
*
61466425 TTAGCTATTATT
1 TTA-TTATTATT
* *
61466437 TTGTTATTGTT
1 TTATTATTATT
* *
61466448 TGAATATTA-T
1 TTATTATTATT
* **
61466458 ATAAAATTTATT
1 TTATTA-TTATT
*
61466470 TTATTGTTAATT
1 TTATTATT-ATT
*
61466482 TTGTTATTATT
1 TTATTATTATT
61466493 TTA
1 TTA
61466496 GAAGCATTTG
Statistics
Matches: 97, Mismatches: 28, Indels: 17
0.68 0.20 0.12
Matches are distributed among these distances:
9 9 0.09
10 17 0.18
11 54 0.56
12 17 0.18
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.66
Consensus pattern (11 bp):
TTATTATTATT
Found at i:61470997 original size:3 final size:3
Alignment explanation
Indices: 61470983--61471012 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
61470973 TATTTGCACC
*
61470983 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61471013 ATACATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:61487324 original size:47 final size:46
Alignment explanation
Indices: 61487273--61487362 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 46
61487263 GAATTATGAG
* *
61487273 GCATCCGAACTAGTTGAGTTGCGTTCCGAGTTCACTTATGGATGCAA
1 GCATCCAAACTAGTTGAGTTGCGTCCCGAGTTCA-TTATGGATGCAA
* *
61487320 GCATCCAAACTCGTTGAGTTGTGTCCCGAGTTCATTATGGATG
1 GCATCCAAACTAGTTGAGTTGCGTCCCGAGTTCATTATGGATG
61487363 TGAAAACTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 9 0.23
47 30 0.77
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (46 bp):
GCATCCAAACTAGTTGAGTTGCGTCCCGAGTTCATTATGGATGCAA
Found at i:61487395 original size:46 final size:46
Alignment explanation
Indices: 61487286--61487411 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 46
61487276 TCCGAACTAG
* * *
61487286 TTGAGTTGCGTTCCGAGTTCACTTATGGATGCAAGCATCCAAACTCG
1 TTGAGTTGCGTTCCGAGTTCA-TTATGGATGAAAACATCCAAACTCC
* * *
61487333 TTGAGTTGTGTCCCGAGTTCATTATGGATGTGAAAAC-T-CAAGCTCC
1 TTGAGTTGCGTTCCGAGTTCATTATGGA--TGAAAACATCCAAACTCC
* *
61487379 TTGAATTGCGTTCCGAGTTCATTATGGGTGAAA
1 TTGAGTTGCGTTCCGAGTTCATTATGGATGAAA
61487412 TTATGATAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
44 5 0.07
46 37 0.55
47 20 0.30
48 5 0.07
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (46 bp):
TTGAGTTGCGTTCCGAGTTCATTATGGATGAAAACATCCAAACTCC
Found at i:61494033 original size:47 final size:46
Alignment explanation
Indices: 61493929--61494196 Score: 208
Period size: 46 Copynumber: 5.7 Consensus size: 46
61493919 GGTAAGGTGT
* * * *
61493929 CGATGCCATGTCCTAGACATGGTCTTACACAAGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCT-ATCATCTCGAGC
* * *
61493976 CAATGCCATGTCTCAGACATGGTCTTACACTAACTATCATCTCGTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTATCATCTCG-AGC
* * *
61494024 CGATG-CATGTCCCCGACATGTCTTACCCTGGCT-TACATCTCGAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTAT-CATCTCGA-GC
** *
61494070 CGATG-CATGTCTTAGACATGTCTTACACTAGC-ACTCGTCTCGATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTA-TCATCTCGA-GC
* * * * *
61494116 TGATGCCATGTCCCAGACATATTCTTACACTGGCTCTCATAAT-GTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTATCAT-CTCG-AGC
* *
61494164 TGATG-CATGTCCCAGGCATGTCTTACACTAGCT
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCT
61494197 CACAATAACC
Statistics
Matches: 179, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.01
46 74 0.41
47 73 0.41
48 28 0.16
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTATCATCTCGAGC
Found at i:61494111 original size:46 final size:45
Alignment explanation
Indices: 61493929--61494195 Score: 166
Period size: 47 Copynumber: 5.7 Consensus size: 45
61493919 GGTAAGGTGT
* * * * *
61493929 CGATGCCATGTCCTAGACATGGTCTTACACAAGC-TCATATCTCAAGT
1 CGATG-CATGTCCCAGACATAGTCTTACACTAGCATC--ATCTCGAGC
* * * *
61493976 CAATGCCATGTCTCAGACATGGTCTTACACTAACTATCATCTCGTAGC
1 CGATG-CATGTCCCAGACATAGTCTTACACTAGC-ATCATCTCG-AGC
* * * *
61494024 CGATGCATGTCCCCGACAT-GTCTTACCCTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATAGTCTTACACTAGCAT-CATCTCGA-GC
** *
61494070 CGATGCATGTCTTAGACAT-GTCTTACACTAGCACTCGTCTCGATGC
1 CGATGCATGTCCCAGACATAGTCTTACACTAGCA-TCATCTCGA-GC
* * * * *
61494116 TGATGCCATGTCCCAGACATATTCTTACACTGGCTCTCATAAT-GTAGC
1 CGATG-CATGTCCCAGACATAGTCTTACACTAGC-ATCAT-CTCG-AGC
* *
61494164 TGATGCATGTCCCAGGCAT-GTCTTACACTAGC
1 CGATGCATGTCCCAGACATAGTCTTACACTAGC
61494196 TCACAATAAC
Statistics
Matches: 176, Mismatches: 33, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.01
46 70 0.40
47 72 0.41
48 28 0.16
49 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATAGTCTTACACTAGCATCATCTCGAGC
Found at i:61514881 original size:12 final size:12
Alignment explanation
Indices: 61514864--61514888 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61514854 GTGCGAGAGT
61514864 GAGGAAGGAGAA
1 GAGGAAGGAGAA
61514876 GAGGAAGGAGAA
1 GAGGAAGGAGAA
61514888 G
1 G
61514889 GGATATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (12 bp):
GAGGAAGGAGAA
Found at i:61515313 original size:988 final size:996
Alignment explanation
Indices: 61512332--61515803 Score: 4752
Period size: 988 Copynumber: 3.5 Consensus size: 996
61512322 GCTTGAACTT
* * * *
61512332 GTAGATGATTTTAAATTTTTTATTATTAGACTACTAAGTTCTATATGTTACACTAAAAATAGGAA
1 GTAGATGATTTTAAATTTTTTATTACTAGACTACTAAGTTCTATATATTACACTATAAATAGGCA
** * * * *
61512397 TTAAGCAATTGAACATACCAGATGATATAGAAAATATAGGGAAACAAGCATGCTGCTATGTATGA
66 TTAAGCAATTGAATGTACCAGATGAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGA
* * * *
61512462 TAAATTGTTGAATTTGTAATT-ATTGGTTGATTAAATTTGTGAAT-ATGGAGATACTTAAGGATG
131 TAAATTTTTGAATTTGTGATTGTTTGGTTG----AA-TTGT-AATAAT--AGA-AC----CG-T-
* * * * * *
61512525 ACCGAAGGCATTGTTTGGTATACAACTAGAGCCAAAAAGCTAACTCTATTTATTAATCTTTAGTA
181 --CTAAGGTATTGTTTGGTATACACCCAGAGCCAAAAAGCTAACTCTATTTATTCATCCTTAGTA
* * ** * * * **
61512590 CCTATATCTGAGCCAGAAAACACTTCTAAATGGACCTTCATACAAAACTCAGTCCAAAAACATTA
244 CCTATATTTGAGCCAGAAAACATTTCTTGATGAACCTTCATACAAAACCCAATCCAAAAATGTTA
61512655 ATTTGTATTTACCCTTTTCCTTGGTCCTGAATCGCACGACTATAGACGTCTGGCCATAC-TGTTG
309 ATTTGTATTTACCCTTTTCCTTGGTCCTGAATCGCACGACTATAGACGTCTGGCCATACGTGTTG
* * * * * * * *
61512719 AGAGTTAAGTAGATACATTCCGACGGATTTTGTAAAAACAAAGTGAAATAAGAAGGATCAGTATG
374 AGGGTTAAGTAGATACATTACGATGGGTTTTGTAAAAATAGAGTGAAATAAGAAGGATCAATGTG
* * *
61512784 ATATAGTGATTATAATATGATTAACCTAGTGCATCCTGAGCAAGAAGAAGAAGAGCAAGAAAGTG
439 ATATAGTGATTATAATATGATTGACCCAGTGCATCCTGAGCAAGAAGAAGAGGAGCAAGAAAGTG
* * *
61512849 ATGAAGAGGAAGAGAGCGAGGGTGAGGAAGGAGAAGAGGAAGGAG-GGGGATATATTTTGAGGAG
504 ATGAAGAGGAAGAGTGCGAGAGTGAGGAAGGAGAAGAGGAAGGAGAAGGGATATATTTTGAGGAG
* * * * *
61512913 GAGGAAGATGATTAAGCTACAAATTCTTTCTTTTTAAAGGTCTATAATTTATTTTAGGATAATTT
569 GAGGAAGATGATTGAGCTACGAGTTCTTTCTTTTTAAAGGACTGTAATTTATTTTAGGATAATTT
** * *
61512978 TATTA-TTTAATAGTAGATTGTTATTTGTTTTTTTTTGTTCTATGTTTTCTGTGTAGGAACTCCA
634 TATTATTTTAGCAGTAGATTGTTATTTG--TTTTTGTGTTCTAAGTTTTCTGTGTAGGAACTCCA
* * * * * *
61513042 TATGAAAG-AA-AC-ACAATTTAGAGCTTTCAA-AGTCAAATGGAAGAGAGCACCCACCAATATA
697 CATGAAAGAAACACAACAATTCAGAGCTTTCAACA-ACAAATTGAATAGAGCACCCACCAATAGA
* *
61513103 TTATGGAACTACCACA-ATCAATCAGGTAACTTTTTCCTTATCTTTTTAGGGCTACACATTGAGG
761 TTATGGAACTACCA-AGATCAATCATGTAACTTTTTCCTTATCTTTTTAGGGTTACACATTGAGG
** * * * * * *
61513167 ACGACGTGTTATCT-AAA---GT-CTGAGGGTAACATTGAAAA-TGTTTTAATTTTTTTGCTTTT
825 AAAATGTGTTATCTAAAATGTGTGTTGGGGGTAACATAGAAAATTGTTTTAATTTCTATGCTTTT
* * * * *
61513226 ATTTTAATTTTTATGGTCAATTGTGTGCTTGAGCTTGTAGAAGTACAAGTAATTGTTTAGGAAGA
890 TTTTTAATTTTTATGGTCAATCGTGTGCTTGAGCTTGTAGAAATACAAGTAATTGGTTAGGAACA
61513291 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATA
955 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATA
*
61513333 GTAGATGATTTTAAATTTTTTATTATTAGACTACTAAGTTCTATATATTACACTATAAATAGGCA
1 GTAGATGATTTTAAATTTTTTATTACTAGACTACTAAGTTCTATATATTACACTATAAATAGGCA
**
61513398 TTAAGCAATTGAATGTACCAGATGAAATAGAAAATATGGGGAAACGAGCATGCTACTATGTATGA
66 TTAAGCAATTGAATGTACCAGATGAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGA
61513463 TAAATTTTTGAATTTGTGATTGTTTGGTTGATTAAATTTGTGAATAATGAGATACCTAGGGATGA
131 TAAATTTTTGAATTTGTGATTGTTTGGTTG----AA-TTGT-AATAAT-AGA-ACC----G-T--
*
61513528 CCTAAGGTATTGTTTGGTATACACCCAAAGCCAAAAAGCTAACTCTATTTATTCATCCTTAGTAC
181 -CTAAGGTATTGTTTGGTATACACCCAGAGCCAAAAAGCTAACTCTATTTATTCATCCTTAGTAC
* * * *
61513593 CTATATTTGAGCCAAAAAACATTTCTTGATGAATCTTGATACAAAACCCAATCCAAAAATTTTAA
245 CTATATTTGAGCCAGAAAACATTTCTTGATGAACCTTCATACAAAACCCAATCCAAAAATGTTAA
* * * * * * * *
61513658 TTTCTGTTTAACCTTTTCCTTGGTCCTGAATCGCACAACTACAGACGTCTGGACTATACATATTG
310 TTTGTATTTACCCTTTTCCTTGGTCCTGAATCGCACGACTATAGACGTCTGG-CCATACGTGTTG
* *
61513723 AGGGATAAGTAGATACATTACGATAGGTTTTGTAAAAATAGAGTGAAATAAGAAGGATCAATGTG
374 AGGGTTAAGTAGATACATTACGATGGGTTTTGTAAAAATAGAGTGAAATAAGAAGGATCAATGTG
* * * * *
61513788 ATGTAATGATTATAATATGATCGACCCAGTGCATCTTGAGCAAGAAGAAGAGGAGCAAGAATGTG
439 ATATAGTGATTATAATATGATTGACCCAGTGCATCCTGAGCAAGAAGAAGAGGAGCAAGAAAGTG
*
61513853 ATGAATAGGAAGAGTGCGAGAGTGAGGAAGGAGAAGAGGAAGGA-AAGGGGATATATTTTGAGGA
504 ATGAAGAGGAAGAGTGCGAGAGTGAGGAAGGAGAAGAGGAAGGAGAA-GGGATATATTTTGAGGA
61513917 GGAGGAAGATGATTGAGCTACGAGTTCTTTCTTTTTAAAGGACTGTAATTTATTTTAGGATAATT
568 GGAGGAAGATGATTGAGCTACGAGTTCTTTCTTTTTAAAGGACTGTAATTTATTTTAGGATAATT
* *
61513982 TTATTATTTTAGCAGTAGATTGTTATTTG--TTTGTGTTTTAATTTTTCTGTGTAGGAACTCCAC
633 TTATTATTTTAGCAGTAGATTGTTATTTGTTTTTGTGTTCTAAGTTTTCTGTGTAGGAACTCCAC
* *
61514045 ATGAAAGAAACACAACAATTCAGAGCTTTCAACGACAAATTGAATAGATCACCCACCAATAGATT
698 ATGAAAGAAACACAACAATTCAGAGCTTTCAACAACAAATTGAATAGAGCACCCACCAATAGATT
* * *
61514110 ATGGAACTACCATGATCAATCTTGTAACTTTTTCCTTATGTTTTTAGGGTTACACATTGA-GAAC
763 ATGGAACTACCAAGATCAATCATGTAACTTTTTCCTTATCTTTTTAGGGTTACACATTGAGGAA-
*
61514174 AATG-GTTATCTAAAGAGAGTGTGTGTGTGGAGGGGCGTAACATAGAAAACTTCTTTTAATTTCT
827 AATGTGTTATCT-AA-A-A-TGTGTGT-T---GGGG-GTAACATAGAAAA-TTGTTTTAATTTCT
* *
61514238 AT--TTTATTTGT-ATTTTTATGGTCAATCGTGTGCTTGAGCTTGTAGAAATACAAGTAATT-GT
882 ATGCTTTTTTTTTAATTTTTATGGTCAATCGTGTGCTTGAGCTTGTAGAAATACAAGTAATTGGT
61514299 TAGGAACATGTATATAGGTT-ATTGTATTTACTATAAATTTTGCATGATA
947 TAGGAACATGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATA
*
61514348 GTAGATGATTTTAAATTTTTTATTACTAGACTACTAAGTTCTATATATTACACTACAAATAGGCA
1 GTAGATGATTTTAAATTTTTTATTACTAGACTACTAAGTTCTATATATTACACTATAAATAGGCA
*
61514413 TTAAGCAATTGAATGTACCAGGTGAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGA
66 TTAAGCAATTGAATGTACCAGATGAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGA
* *
61514478 TAAATTGTTGAATTTGTGATTGTTTGGTTG-A-T-T-A-AAT-G-A-C-T-TAAGGTATTGTTTT
131 TAAATTTTTGAATTTGTGATTGTTTGGTTGAATTGTAATAATAGAACCGTCTAAGGTATTGTTTG
* * * *
61514533 GTATACACCCATAGCTAAAAAGCTAACTCTATTAATTCA-CCTTGAGTACCTATATTTGAGCTAG
196 GTATACACCCAGAGCCAAAAAGCTAACTCTATTTATTCATCCTT-AGTACCTATATTTGAGCCAG
**
61514597 AAAACATTTCTTGATGAACCTTCATACAAAACCTGATCCAAAAATGTTAATTTGTATTTACCCTT
260 AAAACATTTCTTGATGAACCTTCATACAAAACCCAATCCAAAAATGTTAATTTGTATTTACCCTT
* ** *
61514662 TTCCTTGGTCCTGAATTGCACGACTATAGATATCTGGCCATACGTGTTAAGGGTTAAGTAGATAC
325 TTCCTTGGTCCTGAATCGCACGACTATAGACGTCTGGCCATACGTGTTGAGGGTTAAGTAGATAC
* * *
61514727 ATTACGGTGGGTTTTGTAAAAATAGAGTGAAATAAGAAGGATCAGTGTGATATAGTGATGATAAT
390 ATTACGATGGGTTTTGTAAAAATAGAGTGAAATAAGAAGGATCAATGTGATATAGTGATTATAAT
* * * * *
61514792 ATGATTGGCCCAGTGCATCCTGAGCAAGAACAAGAGGAGTAGGAAAGTAATGAAGAGGAAGAGTG
455 ATGATTGACCCAGTGCATCCTGAGCAAGAAGAAGAGGAGCAAGAAAGTGATGAAGAGGAAGAGTG
*
61514857 CGAGAGTGAGGAAGGAGAAGAGGAAGGAGAAGGGATATATTTTGAAGAGGAGGAAGATGATTGAG
520 CGAGAGTGAGGAAGGAGAAGAGGAAGGAGAAGGGATATATTTTGAGGAGGAGGAAGATGATTGAG
61514922 CTACGAGTTCTTTCTTTTTAAAGGACTGTAATTTATTTTAGGATAATTTTATTATTTTAGCAGTA
585 CTACGAGTTCTTTCTTTTTAAAGGACTGTAATTTATTTTAGGATAATTTTATTATTTTAGCAGTA
* *
61514987 GATTGTTATTTGTTTTTGTGTTCTAAGTTTTCTGTGTAGAAACTCCACACGAAAGAAACACAACA
650 GATTGTTATTTGTTTTTGTGTTCTAAGTTTTCTGTGTAGGAACTCCACATGAAAGAAACACAACA
61515052 ATTCA-ATGCTTTCAACAACAAATTGAATAGAGCACCCACCAATAGATTATGGAACTACCAAGAT
715 ATTCAGA-GCTTTCAACAACAAATTGAATAGAGCACCCACCAATAGATTATGGAACTACCAAGAT
* * * *
61515116 CAATCATGTAACTTTTTCGTTATCTTTTTAGTGTTACATATTGAGGAAAATGTGTTATATAAAAT
779 CAATCATGTAACTTTTTCCTTATCTTTTTAGGGTTACACATTGAGGAAAATGTGTTATCTAAAAT
61515181 GTGTGTTGGGGGTAACATAGAAAATTTGTTTTAATTTCTATGCCTTTTTTTTTAATTTTTATGGT
844 GTGTGTTGGGGGTAACATAGAAAA-TTGTTTTAATTTCTATG-CTTTTTTTTTAATTTTTATGGT
*
61515246 CAATCGTGTGCTTGAGCTTGTAGAAATACAAGTAATTGGTTAGGAACATTTATATAGGTTGATTG
907 CAATCGTGTGCTTGAGCTTGTAGAAATACAAGTAATTGGTTAGGAACATGTATATAGGTTGATTG
*
61515311 TATTTACTACAAATTTTGCATGATA
972 TATTTACTATAAATTTTGCATGATA
61515336 GTAGATGATTTTAAATTTTTTATTACTAGACTACTAAGTTCTATATATTACACTATAAATAGGCA
1 GTAGATGATTTTAAATTTTTTATTACTAGACTACTAAGTTCTATATATTACACTATAAATAGGCA
* *
61515401 TTAAGCAATTGAACGTACCAGATGAAATAGAAAATACAGAGAAACGAGCATGCTACTATGTATGA
66 TTAAGCAATTGAATGTACCAGATGAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGA
61515466 TAAATTTTTGAATTTGTGATTGTTTGGTTGATTAAATTTGTGAATAATGAGATACCTAGGGATGA
131 TAAATTTTTGAATTTGTGATTGTTTGGTTG----AA-TTGT-AATAAT-AGA-ACC----G-T--
*
61515531 CCTAAGGTATTATTTGGTATACACCCAGAGCCAAAAAGCTAACTCTATTTATTCATCCTTAGTAC
181 -CTAAGGTATTGTTTGGTATACACCCAGAGCCAAAAAGCTAACTCTATTTATTCATCCTTAGTAC
61515596 CTATATTTGAGCCAGAAAACATTTCTTGATGAACCTTCATACAAAACCCAATCCAAAAATGTTAA
245 CTATATTTGAGCCAGAAAACATTTCTTGATGAACCTTCATACAAAACCCAATCCAAAAATGTTAA
*
61515661 TTTGTATTTACCCTTTTCCTTGGTCCTGAATCGCACGACTATAGACGTCTAGCCATACGTGTTGA
310 TTTGTATTTACCCTTTTCCTTGGTCCTGAATCGCACGACTATAGACGTCTGGCCATACGTGTTGA
* *
61515726 GGGTTAAGTAGATACATTACAATGGGTTTTGTAAAAATAGAGTGAAATAAGAAGGATCAATTTGA
375 GGGTTAAGTAGATACATTACGATGGGTTTTGTAAAAATAGAGTGAAATAAGAAGGATCAATGTGA
61515791 TATAGTGATTATA
440 TATAGTGATTATA
61515804 TGTGAGCCAA
Statistics
Matches: 2209, Mismatches: 189, Indels: 133
0.87 0.07 0.05
Matches are distributed among these distances:
982 28 0.01
983 4 0.00
985 7 0.00
986 49 0.02
987 28 0.01
988 464 0.21
989 160 0.07
990 151 0.07
991 9 0.00
993 2 0.00
995 1 0.00
996 1 0.00
998 1 0.00
999 4 0.00
1000 1 0.00
1001 141 0.06
1002 229 0.10
1003 10 0.00
1004 172 0.08
1005 183 0.08
1006 21 0.01
1007 2 0.00
1008 2 0.00
1010 2 0.00
1012 2 0.00
1014 249 0.11
1015 187 0.08
1016 20 0.01
1017 49 0.02
1018 18 0.01
1020 12 0.01
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (996 bp):
GTAGATGATTTTAAATTTTTTATTACTAGACTACTAAGTTCTATATATTACACTATAAATAGGCA
TTAAGCAATTGAATGTACCAGATGAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGA
TAAATTTTTGAATTTGTGATTGTTTGGTTGAATTGTAATAATAGAACCGTCTAAGGTATTGTTTG
GTATACACCCAGAGCCAAAAAGCTAACTCTATTTATTCATCCTTAGTACCTATATTTGAGCCAGA
AAACATTTCTTGATGAACCTTCATACAAAACCCAATCCAAAAATGTTAATTTGTATTTACCCTTT
TCCTTGGTCCTGAATCGCACGACTATAGACGTCTGGCCATACGTGTTGAGGGTTAAGTAGATACA
TTACGATGGGTTTTGTAAAAATAGAGTGAAATAAGAAGGATCAATGTGATATAGTGATTATAATA
TGATTGACCCAGTGCATCCTGAGCAAGAAGAAGAGGAGCAAGAAAGTGATGAAGAGGAAGAGTGC
GAGAGTGAGGAAGGAGAAGAGGAAGGAGAAGGGATATATTTTGAGGAGGAGGAAGATGATTGAGC
TACGAGTTCTTTCTTTTTAAAGGACTGTAATTTATTTTAGGATAATTTTATTATTTTAGCAGTAG
ATTGTTATTTGTTTTTGTGTTCTAAGTTTTCTGTGTAGGAACTCCACATGAAAGAAACACAACAA
TTCAGAGCTTTCAACAACAAATTGAATAGAGCACCCACCAATAGATTATGGAACTACCAAGATCA
ATCATGTAACTTTTTCCTTATCTTTTTAGGGTTACACATTGAGGAAAATGTGTTATCTAAAATGT
GTGTTGGGGGTAACATAGAAAATTGTTTTAATTTCTATGCTTTTTTTTTAATTTTTATGGTCAAT
CGTGTGCTTGAGCTTGTAGAAATACAAGTAATTGGTTAGGAACATGTATATAGGTTGATTGTATT
TACTATAAATTTTGCATGATA
Found at i:61523780 original size:26 final size:26
Alignment explanation
Indices: 61523749--61523802 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
61523739 TATACTTACC
*
61523749 TTTTAACATTAAATATGATATACAAT
1 TTTTAACATCAAATATGATATACAAT
61523775 TTTTAACATCAAATATGATATACAAT
1 TTTTAACATCAAATATGATATACAAT
61523801 TT
1 TT
61523803 CAAACATACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (26 bp):
TTTTAACATCAAATATGATATACAAT
Found at i:61523808 original size:26 final size:26
Alignment explanation
Indices: 61523753--61523809 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
61523743 CTTACCTTTT
* **
61523753 AACATTAAATATGATATACAATTTTT
1 AACATCAAATATGATATACAATTTCA
61523779 AACATCAAATATGATATACAATTTCA
1 AACATCAAATATGATATACAATTTCA
61523805 AACAT
1 AACAT
61523810 ACCTGAATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (26 bp):
AACATCAAATATGATATACAATTTCA
Found at i:61524009 original size:42 final size:42
Alignment explanation
Indices: 61523944--61524074 Score: 165
Period size: 44 Copynumber: 3.0 Consensus size: 42
61523934 TTATACATGT
* * *
61523944 AATCAAGTATCGATGCCACTGTCCCAGACAGGGTCTTACACGA
1 AATCAAATAT-GATGCCAATGTCCCAGACATGGTCTTACACGA
*
61523987 AATCAAATATGATGCCAATGTCCCAGACATGGTCTTACATGTA
1 AATCAAATATGATGCCAATGTCCCAGACATGGTCTTACACG-A
* *
61524030 AATCATAAGT-CGATGCCAACGTCCCAGACATGGTCTTACACGA
1 AATCA-AA-TATGATGCCAATGTCCCAGACATGGTCTTACACGA
61524073 AA
1 AA
61524075 ACACATATCA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
42 28 0.36
43 18 0.23
44 31 0.40
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (42 bp):
AATCAAATATGATGCCAATGTCCCAGACATGGTCTTACACGA
Found at i:61534589 original size:42 final size:42
Alignment explanation
Indices: 61534481--61534625 Score: 146
Period size: 43 Copynumber: 3.4 Consensus size: 42
61534471 AGCTCGTACA
* * * * *
61534481 ATGCCAAGGTCCCAGATGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAATGTCCCAGATATGGTCTTACAAGAAATCAAATA-CG
* * *
61534524 ATGCCACTGTCCCAAATAGGGTCTTACAAGAAATCAAATACG
1 ATGCCAATGTCCCAGATATGGTCTTACAAGAAATCAAATACG
* * **
61534566 ATGCCAATGTCCTAGATATGGTCTTACACGTAAATCATAAGCCG
1 ATGCCAATGTCCCAGATATGGTCTTACAAG-AAATCA-AATACG
*
61534610 ATGCCAACGTCCCAGA
1 ATGCCAATGTCCCAGA
61534626 CGTAGTCTTA
Statistics
Matches: 83, Mismatches: 17, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
42 26 0.31
43 39 0.47
44 18 0.22
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGATATGGTCTTACAAGAAATCAAATACG
Found at i:61539111 original size:17 final size:17
Alignment explanation
Indices: 61539089--61539125 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
61539079 GTGAACAGGC
61539089 TATGTGACTCACACGGT
1 TATGTGACTCACACGGT
*
61539106 TATGTGACTCACAGGGT
1 TATGTGACTCACACGGT
61539123 TAT
1 TAT
61539126 CAAACACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (17 bp):
TATGTGACTCACACGGT
Found at i:61540450 original size:42 final size:43
Alignment explanation
Indices: 61540350--61540452 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
61540340 AACTCGTACA
* *
61540350 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATTG
1 ATGCC-ATGTCCCAGACAGTGGTCTTACACGAAATCAAATATTG
61540393 ATGCCATTGTCCCAGACAG-GGTCTTACACGAAATCAAATA-TG
1 ATGCCA-TGTCCCAGACAGTGGTCTTACACGAAATCAAATATTG
61540435 ATGCCGATGTCCCAGACA
1 ATGCC-ATGTCCCAGACA
61540453 TGCACGTAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
42 19 0.35
43 35 0.64
44 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCATGTCCCAGACAGTGGTCTTACACGAAATCAAATATTG
Found at i:61585694 original size:19 final size:19
Alignment explanation
Indices: 61585670--61585707 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
61585660 TGAAAGCTTG
61585670 GTGTTTAATATACATGTTT
1 GTGTTTAATATACATGTTT
61585689 GTGTTTAATATACATGTTT
1 GTGTTTAATATACATGTTT
61585708 TGTAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (19 bp):
GTGTTTAATATACATGTTT
Found at i:61586309 original size:43 final size:42
Alignment explanation
Indices: 61586261--61586426 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 42
61586251 ATGGAGATGT
*
61586261 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTGTTTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGT-TATA
* * * ** *
61586304 GATTACGTGTAAGACCATGTCCGGGACATCGGCATCATTAATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTT-ATA
* * *
61586347 GATTTCGTGTAAGATCC-TGTCTGGGACAGTGGCATTGATATATA
1 GATTACATGTAAGA-CCATGTCTGGGACATTGGCATTG-T-TATA
* * * *
61586391 -ATAATATGTAAGACCATATCTGGGATA-TGGCATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
61586427 ACAAGCTTAT
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 11 0.11
43 80 0.82
44 5 0.05
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTTATA
Found at i:61589322 original size:42 final size:42
Alignment explanation
Indices: 61589275--61589475 Score: 174
Period size: 42 Copynumber: 4.6 Consensus size: 42
61589265 TAAGATGTGA
61589275 ATGCCATATACCAGATATGGTCTTACATGGGATCACATATCG
1 ATGCCATATACCAGATATGGTCTTACATGGGATCACATATCG
* * * *
61589317 ATGCCA-ATAGCCAGCTATGGTATTACATGATG-TCTCATATCG
1 ATGCCATATA-CCAGATATGGTCTTACATG-GGATCACATATCG
* * * * ** *
61589359 ATGCCATGTTCCAGACATGGTCTTACACGAAATCACATATTG
1 ATGCCATATACCAGATATGGTCTTACATGGGATCACATATCG
*
61589401 ATGCCAATGCCATATCCCAGATATGGACTTACATGGGATCACATATCG
1 ATGCC-AT---ATA--CCAGATATGGTCTTACATGGGATCACATATCG
* *
61589449 AGGCCATAT-CTTAGATATGGTCTTACA
1 ATGCCATATAC-CAGATATGGTCTTACA
61589476 CGAAACCACA
Statistics
Matches: 123, Mismatches: 25, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
41 4 0.03
42 80 0.65
43 4 0.03
44 2 0.02
46 1 0.01
47 2 0.02
48 30 0.24
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCATATACCAGATATGGTCTTACATGGGATCACATATCG
Found at i:61600188 original size:28 final size:28
Alignment explanation
Indices: 61600156--61600309 Score: 182
Period size: 28 Copynumber: 5.5 Consensus size: 28
61600146 GGGAAAATTT
* * *
61600156 GCCAAGGATTCTCTTATGTGAAAAGTCC
1 GCCAAGGACTATCTTATGTGGAAAGTCC
*
61600184 GCCAAGGACTGTCTTATGTGGAAAGTCC
1 GCCAAGGACTATCTTATGTGGAAAGTCC
* * * *
61600212 GCCAAGGACTATCTTATATGAAAATTCT
1 GCCAAGGACTATCTTATGTGGAAAGTCC
*
61600240 GCCAATGACTATCTTATGTGGAAAGTCC
1 GCCAAGGACTATCTTATGTGGAAAGTCC
* * *
61600268 ACCAAGGACTATCTTATATGGAAAGTTC
1 GCCAAGGACTATCTTATGTGGAAAGTCC
**
61600296 ATCAAGGACTATCT
1 GCCAAGGACTATCT
61600310 AAAATAAGAA
Statistics
Matches: 108, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 108 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (28 bp):
GCCAAGGACTATCTTATGTGGAAAGTCC
Found at i:61600302 original size:84 final size:83
Alignment explanation
Indices: 61600148--61600309 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 83
61600138 AAGAATTAGG
* * * * * *
61600148 GAAAATTTGCCAAGGATTCTCTTATGTGAAAAGTCCGCCAAGGACTGTCTTATGTGGAAAGTCCG
1 GAAAATTTGCCAAGGACTATCTTATGTGAAAAGTCCACCAAGGACTATCTTATATGGAAAGTCCA
61600213 CCAAGGACTATCTTATAT
66 CCAAGGACTATCTTATAT
* * *
61600231 GAAAATTCTGCCAATGACTATCTTATGTGGAAAGTCCACCAAGGACTATCTTATATGGAAAGTTC
1 GAAAATT-TGCCAAGGACTATCTTATGTGAAAAGTCCACCAAGGACTATCTTATATGGAAAGTCC
*
61600296 ATCAAGGACTATCT
65 ACCAAGGACTATCT
61600310 AAAATAAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
83 7 0.10
84 61 0.90
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (83 bp):
GAAAATTTGCCAAGGACTATCTTATGTGAAAAGTCCACCAAGGACTATCTTATATGGAAAGTCCA
CCAAGGACTATCTTATAT
Found at i:61604285 original size:25 final size:25
Alignment explanation
Indices: 61604212--61604323 Score: 125
Period size: 25 Copynumber: 4.5 Consensus size: 25
61604202 TCCTATACAT
* * * *
61604212 GTATGCTCACACGAGCTGTGAATCA
1 GTATGCTCTCACGAGCTATAAATCG
* * * * *
61604237 GTATGCTTTCATGAACAATGAATCG
1 GTATGCTCTCACGAGCTATAAATCG
* *
61604262 GTATGCTTTCACGAGCTTTAAATCG
1 GTATGCTCTCACGAGCTATAAATCG
61604287 GTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCTCACGAGCTATAAATCG
61604312 GTATGCTCTCAC
1 GTATGCTCTCAC
61604324 AAACTGTGGA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 73 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATCG
Found at i:61613442 original size:16 final size:17
Alignment explanation
Indices: 61613421--61613459 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
61613411 CTTTCATTAA
61613421 GTTTTTAAGATTCAATT
1 GTTTTTAAGATTCAATT
*
61613438 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCAATT
61613455 GTTTT
1 GTTTT
61613460 CCTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (17 bp):
GTTTTTAAGATTCAATT
Found at i:61625401 original size:48 final size:48
Alignment explanation
Indices: 61625343--61625747 Score: 657
Period size: 48 Copynumber: 8.3 Consensus size: 48
61625333 ATATACACAC
* *
61625343 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
61625391 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
61625439 ATCTCGTACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* *
61625489 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
61625537 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* *
61625587 TTATCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
61625635 ATCTCATACTTATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* *
61625685 TTATCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
61625733 ATCTCATATATATTT
1 ATCTCATACATATTT
61625748 ATCTTGTACA
Statistics
Matches: 332, Mismatches: 19, Indels: 12
0.91 0.05 0.03
Matches are distributed among these distances:
48 196 0.59
50 136 0.41
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:61625513 original size:98 final size:98
Alignment explanation
Indices: 61625343--61625747 Score: 697
Period size: 98 Copynumber: 4.2 Consensus size: 98
61625333 ATATACACAC
* * *
61625343 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCAC--ATATACATATCTCATACATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATATCATACATATTT
61625406 CACATTAGCCATTCGGCTTTACCACATATACAT
66 CACATTAGCCATTCGGCTTTACCACATATACAT
* * *
61625439 ATCTCGTACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATCTCATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATATCATACATATTT
*
61625504 CACAGTAGCCATTCGGCTTTACCACATATACAT
66 CACATTAGCCATTCGGCTTTACCACATATACAT
*
61625537 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTATCATACATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATATCATACATATTT
61625602 CACATTAGCCATTCGGCTTTACCACATATACAT
66 CACATTAGCCATTCGGCTTTACCACATATACAT
* *
61625635 ATCTCATACTTATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTATCATACATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATATCATACATATTT
61625700 CACATTAGCCATTCGGCTTTACCACATATACAT
66 CACATTAGCCATTCGGCTTTACCACATATACAT
*
61625733 ATCTCATATATATTT
1 ATCTCATACATATTT
61625748 ATCTTGTACA
Statistics
Matches: 295, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
96 38 0.13
98 257 0.87
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (98 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATATCATACATATTT
CACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:61630133 original size:29 final size:30
Alignment explanation
Indices: 61630101--61630158 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
61630091 TCCTTTACTC
61630101 AAAC-TTTGGAAAAATTACA-TTTTGCCCCT
1 AAACTTTTGG-AAAATTACACTTTTGCCCCT
* *
61630130 AAACTTTTGGATATTTACACTTTTGCCCC
1 AAACTTTTGGAAAATTACACTTTTGCCCC
61630159 AAATCTCGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTTTTGGAAAATTACACTTTTGCCCCT
Found at i:61635707 original size:46 final size:47
Alignment explanation
Indices: 61635601--61635722 Score: 122
Period size: 46 Copynumber: 2.6 Consensus size: 47
61635591 TGTCTTCGAC
** * * *
61635601 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATTTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
** *
61635651 ATGGGTTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
61635697 ATGGACTTACATGGCTCACTT-CTGTC
1 ATGGACTTACATGGCTCA-TTCCTGTC
61635723 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
46 30 0.49
47 2 0.03
50 29 0.48
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:61635728 original size:5 final size:5
Alignment explanation
Indices: 61635718--61635742 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61635708 TGGCTCACTT
61635718 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
61635743 AACCCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:61636569 original size:16 final size:16
Alignment explanation
Indices: 61636548--61636579 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61636538 GAAGATGATG
61636548 AATTTAGTGTTATTTT
1 AATTTAGTGTTATTTT
61636564 AATTTAGTGTTATTTT
1 AATTTAGTGTTATTTT
61636580 TCCCTTTTTA
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:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (16 bp):
AATTTAGTGTTATTTT
Found at i:61640035 original size:43 final size:42
Alignment explanation
Indices: 61639878--61640035 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 42
61639868 TATGTGATAT
* * * **
61639878 CGTGTAAGACCACATCTAGGACGTTGGCATTG-ACTTATGATTTA
1 CGTGTAAGACCACGTTTGGGACGTTGGCACCGTA-TT-TGA-TTA
* * * * *
61639922 CGTGTAAGACCATGTTTGGGACATCGGCATCGTATTTGATTT
1 CGTGTAAGACCACGTTTGGGACGTTGGCACCGTATTTGATTA
* *
61639964 TGTGTAAGACC-CTGTCTGGGACAG-TGGCACCGTTATTTGATTA
1 CGTGTAAGACCAC-GTTTGGGAC-GTTGGCACCG-TATTTGATTA
*
61640007 CATGTAAGACCACGTTTGGGACGTTGGCA
1 CGTGTAAGACCACGTTTGGGACGTTGGCA
61640036 TTGTATGAGA
Statistics
Matches: 90, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
42 27 0.30
43 34 0.38
44 28 0.31
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCACGTTTGGGACGTTGGCACCGTATTTGATTA
Found at i:61647157 original size:42 final size:43
Alignment explanation
Indices: 61647087--61647180 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
61647077 TATGATTTAT
* * * *
61647087 GTGTAAGACCATGTCTGGGACATCGGCATTG-TATTTGATTTC
1 GTGTAAGACCATATCTGAGACATCGGCATCGATATTTGATTAC
*
61647129 GTGTAAGACCCTATCTGAGACAGT-GGCATCGATATTTGATTAC
1 GTGTAAGACCATATCTGAGACA-TCGGCATCGATATTTGATTAC
*
61647172 ATGTAAGAC
1 GTGTAAGAC
61647181 TACATCTAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 25 0.57
43 19 0.43
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATATCTGAGACATCGGCATCGATATTTGATTAC
Found at i:61657450 original size:42 final size:41
Alignment explanation
Indices: 61657401--61657482 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 41
61657391 CCTGGCCATG
* *
61657401 TGTCACACACGGCTGAGACACACGCCCATGTCTCTAGCCGTA
1 TGTCACACACGACTAAGACACACGCCCATGTCTCTA-CCGTA
**
61657443 TGTCACACACGACTAAGACACACGCCTGTGTCTCTACCGT
1 TGTCACACACGACTAAGACACACGCCCATGTCTCTACCGT
61657483 GTGGACGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 4 0.11
42 32 0.89
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (41 bp):
TGTCACACACGACTAAGACACACGCCCATGTCTCTACCGTA
Found at i:61658225 original size:17 final size:17
Alignment explanation
Indices: 61658199--61658240 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
61658189 AGTGTTTAAG
61658199 CTTAGTAAGTTCATATAA
1 CTTAG-AAGTTCATATAA
61658217 CTTAGAAGTTCATATAA
1 CTTAGAAGTTCATATAA
*
61658234 CATAGAA
1 CTTAGAA
61658241 TTTAACTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (17 bp):
CTTAGAAGTTCATATAA
Found at i:61658642 original size:25 final size:25
Alignment explanation
Indices: 61658605--61658674 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
61658595 TCCTATACAT
*
61658605 GTATGCTCACACGAACTGTGAATCG
1 GTATGCTCTCACGAACTGTGAATCG
* ** * *
61658630 GTATGCTTTCACGAGTTGTAAATTG
1 GTATGCTCTCACGAACTGTGAATCG
61658655 GTATGCTCTCAC-AAGCTGTG
1 GTATGCTCTCACGAA-CTGTG
61658675 GAGTATCCGC
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
GTATGCTCTCACGAACTGTGAATCG
Found at i:61670248 original size:58 final size:59
Alignment explanation
Indices: 61670073--61670316 Score: 328
Period size: 59 Copynumber: 4.2 Consensus size: 59
61670063 AGTGCCATAG
* * * * * * * *
61670073 ATCACAGAATCACATGCTTTTCAACGAGGCTACTCAAAAGCACCTGGGCCCTAGGATGT
1 ATCACATATTCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATGT
* *
61670132 ATCACATATTCACATGCCTCTCAACGGGGCTGCTCAAAAGCACTCGGACCCTAGCATGT
1 ATCACATATTCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATGT
* *
61670191 ATCACATATTCACATGCCTCTCAAC-GGGCTACTCCAAAGCACCCGGACTCTAGCATGT
1 ATCACATATTCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATGT
* * * *
61670249 ATGACATAATCACATGCCTCTCAACGGGGCTACTCAAAGGCATCCGGACCCTAGCATGT
1 ATCACATATTCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATGT
*
61670308 ATTACATAT
1 ATCACATAT
61670317 CAATTTAGCT
Statistics
Matches: 162, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
58 52 0.32
59 110 0.68
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (59 bp):
ATCACATATTCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATGT
Found at i:61670285 original size:117 final size:118
Alignment explanation
Indices: 61670073--61670316 Score: 339
Period size: 117 Copynumber: 2.1 Consensus size: 118
61670063 AGTGCCATAG
* * * * * * *
61670073 ATCACAGAATCACATGCTTTTCAACGAGGCTACTCAAAAGCACCTGGGCCCTAGGATGTATCACA
1 ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGTATCACA
* *
61670138 TATTCACATGCCTCTCAACGGGGCTGCTCAAAAGCA-CTCGGACCCTAGCATGT
66 TAATCACATGCCTCTCAACGGGGCTACTCAAAAGCATC-CGGACCCTAGCATGT
* * *
61670191 ATCACATATTCACATGCCTCTCAACG-GGCTACTCCAAAGCACCCGGACTCTAGCATGTATGACA
1 ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGTATCACA
*
61670255 TAATCACATGCCTCTCAACGGGGCTACTCAAAGGCATCCGGACCCTAGCATGT
66 TAATCACATGCCTCTCAACGGGGCTACTCAAAAGCATCCGGACCCTAGCATGT
*
61670308 ATTACATAT
1 ATCACATAT
61670317 CAATTTAGCT
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
117 88 0.79
118 23 0.21
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (118 bp):
ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGTATCACA
TAATCACATGCCTCTCAACGGGGCTACTCAAAAGCATCCGGACCCTAGCATGT
Found at i:61674228 original size:12 final size:12
Alignment explanation
Indices: 61674211--61674236 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61674201 ATGACATCAC
61674211 ATTTTCAGAAAA
1 ATTTTCAGAAAA
61674223 ATTTTCAGAAAA
1 ATTTTCAGAAAA
61674235 AT
1 AT
61674237 CTGATATCTC
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:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
ATTTTCAGAAAA
Found at i:61689891 original size:7 final size:7
Alignment explanation
Indices: 61689879--61689925 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
61689869 GAATGAATGA
61689879 ATGAGGG
1 ATGAGGG
61689886 ATGAGGG
1 ATGAGGG
61689893 ATGAGGG
1 ATGAGGG
61689900 ATGAGGG
1 ATGAGGG
61689907 ATGAGGG
1 ATGAGGG
*
61689914 ATGAGGA
1 ATGAGGG
61689921 ATGAG
1 ATGAG
61689926 TAGGGGTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.32, C:0.00, G:0.53, T:0.15
Consensus pattern (7 bp):
ATGAGGG
Found at i:61691228 original size:33 final size:34
Alignment explanation
Indices: 61691191--61691255 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
61691181 GTCTCAGTTA
* *
61691191 GGGCCTTAGCCC-ATTTAGTGACAGTATCAGTGC
1 GGGCCTTAGCCCAATTCAGTAACAGTATCAGTGC
61691224 GGGCCTTAGCCCAATTCAGTAACAGTATCAGT
1 GGGCCTTAGCCCAATTCAGTAACAGTATCAGT
61691256 ACAAAATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (34 bp):
GGGCCTTAGCCCAATTCAGTAACAGTATCAGTGC
Found at i:61696050 original size:17 final size:17
Alignment explanation
Indices: 61696028--61696062 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
61696018 CTCGGTAGGG
61696028 GATACTTATTCTTAATA
1 GATACTTATTCTTAATA
61696045 GATACTTATTCTTAATA
1 GATACTTATTCTTAATA
61696062 G
1 G
61696063 TCAATTTATT
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:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (17 bp):
GATACTTATTCTTAATA
Found at i:61699073 original size:33 final size:34
Alignment explanation
Indices: 61699036--61699100 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
61699026 ATCTCAGTTA
*
61699036 GGGCCTTCGCCC-ATTTAGTAACAGTATCAGTGC
1 GGGCCTTAGCCCAATTTAGTAACAGTATCAGTGC
61699069 GGGCCTTAGCCCAATTTAGTAACAGTATCAGT
1 GGGCCTTAGCCCAATTTAGTAACAGTATCAGT
61699101 ACAAAATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 11 0.37
34 19 0.63
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (34 bp):
GGGCCTTAGCCCAATTTAGTAACAGTATCAGTGC
Found at i:61704085 original size:22 final size:21
Alignment explanation
Indices: 61704045--61704085 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
61704035 CACTAGACAC
**
61704045 AGGGGCACACGCCTGTGTGGG
1 AGGGGCACACGCCCATGTGGG
61704066 AGGGGCAACACGCCCATGTG
1 AGGGGC-ACACGCCCATGTG
61704086 ACCAATTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.27, G:0.41, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGGG
Found at i:61720570 original size:17 final size:18
Alignment explanation
Indices: 61720548--61720581 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
61720538 GTTTTGTTTA
61720548 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
61720565 AATAAATTAATATGCAT
1 AATAAATTAATATGCAT
61720582 ATATTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:61723046 original size:29 final size:29
Alignment explanation
Indices: 61722983--61723050 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
61722973 TAATCAACCA
61722983 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
61723012 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
61723041 CGCACACTTA
1 CGCACACTTA
61723051 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:61723182 original size:174 final size:174
Alignment explanation
Indices: 61722872--61723199 Score: 550
Period size: 173 Copynumber: 1.9 Consensus size: 174
61722862 AACTCAAGGT
* *
61722872 ACTTACCTTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTAT
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
* * *
61722937 AGAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGC
66 AGAAAATATATACTGGGTTGCACACATAATGCTTAATAATCAACCACACACACTTAGTGCCATGC
61723002 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
61723046 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
* * *
61723110 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCACACACTTAGTGCCATG
66 AGAAAATATATACTGGGTT-GCACACATAATGCTTAATAATCAACCACACACACTTAGTGCCATG
* *
61723175 TACTTTAAACTCGCACACTTAGTGC
130 CACTTTAAACTCACACACTTAGTGC
61723200 TGTACAATTT
Statistics
Matches: 143, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
173 73 0.51
174 70 0.49
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
AGAAAATATATACTGGGTTGCACACATAATGCTTAATAATCAACCACACACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:61723194 original size:29 final size:30
Alignment explanation
Indices: 61723159--61723230 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 30
61723149 ATCAACCGCA
*
61723159 CACACTTAGTGCCATGTAC-TTTAAACTCG
1 CACACTTAGTGCCATGTACATTTAAACCCG
61723188 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCG
61723217 CACACTTAGTGCCA
1 CACACTTAGTGCCA
61723231 ATCTCATGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
27 5 0.13
28 1 0.03
29 31 0.82
30 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCG
Found at i:61723221 original size:174 final size:174
Alignment explanation
Indices: 61722872--61723224 Score: 530
Period size: 174 Copynumber: 2.0 Consensus size: 174
61722862 AACTCAAGGT
* *
61722872 ACTTACCTTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTAT
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
* * *
61722937 AGAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGC
66 AGAAAATATATACTGGGTTGCACACATAATGCTTAATAATCAACCACACACACTTAGTGCCATGC
* ***
61723002 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
61723046 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
* * *
61723110 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCACACACTTAGTGCCATG
66 AGAAAATATATACTGGGTT-GCACACATAATGCTTAATAATCAACCACACACACTTAGTGCCATG
* * **
61723175 TACTTTAAACTCGCACACTTAGTGCTGTACAATTT-AAACCCGCAC
130 CACTTTAAACTCACACACTTAGTGCCATAC-ATTTCAAACCCGCAC
61723220 ACTTA
1 ACTTA
61723225 GTGCCAATCT
Statistics
Matches: 161, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
173 73 0.45
174 84 0.52
175 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
AGAAAATATATACTGGGTTGCACACATAATGCTTAATAATCAACCACACACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
Found at i:61731085 original size:21 final size:22
Alignment explanation
Indices: 61731059--61731099 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
61731049 CACTAGACAT
61731059 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
61731080 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
61731100 ACCAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:61732334 original size:46 final size:44
Alignment explanation
Indices: 61732248--61732369 Score: 138
Period size: 46 Copynumber: 2.7 Consensus size: 44
61732238 GGGTATAATA
* *
61732248 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGTA-G
1 CCGATG-CATGTCCTAGACAT-GTCTTACACTGACACATCTCG-AGG
* *
61732294 CCGATGCATGTCCTAGACATGTCTTATACTGGCTTACATCTCGAGG
1 CCGATGCATGTCCTAGACATGTCTTACACTGAC--ACATCTCGAGG
* *
61732340 CCGATACATGTCTTAGACATGTCTTACACT
1 CCGATGCATGTCCTAGACATGTCTTACACT
61732370 AGCTCTAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
44 11 0.17
45 14 0.21
46 41 0.62
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (44 bp):
CCGATGCATGTCCTAGACATGTCTTACACTGACACATCTCGAGG
Found at i:61735790 original size:37 final size:37
Alignment explanation
Indices: 61735733--61735807 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
61735723 TACGAAGTCG
* * *
61735733 TACCCGGACATAATCTCCACACGAAGTTATCGGGTCT
1 TACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
61735770 TACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
1 TACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
61735807 T
1 T
61735808 TAGAGCTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (37 bp):
TACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
Found at i:61736142 original size:47 final size:47
Alignment explanation
Indices: 61735930--61736399 Score: 750
Period size: 47 Copynumber: 10.1 Consensus size: 47
61735920 CCCTTCGGGA
* * * * * * *
61735930 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
61735977 CCTGTCACATATATACACTTTCACATTCA-CAAATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61736023 CTTAT--CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61736068 CTTAT-ACATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61736114 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61736161 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61736208 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61736255 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61736302 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61736349 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61736396 CTTA
1 CTTA
61736400 CTATCATTTC
Statistics
Matches: 397, Mismatches: 23, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
44 22 0.06
45 21 0.05
46 59 0.15
47 295 0.74
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61739867 original size:41 final size:40
Alignment explanation
Indices: 61739809--61739948 Score: 108
Period size: 40 Copynumber: 3.5 Consensus size: 40
61739799 CCAGCATGAT
* * * *
61739809 TGCTCTTCGGGATTTAGCACGGATATA-TCACTAGCACGAA
1 TGCTCTTCGGAACTTAGC-CGGATATAGTAACTAGCACCAA
* *
61739849 TGCTCTTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTC-TTCGGAACTTAG-CCGGATATAGTAACTAGCACCAA
* * *
61739891 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAA
1 TGCTCTTCGGAACTTAG-CCGGATATAGTAAC-TAGCACCAA
* *
61739931 AGC-CTTCGGGACTTAGCC
1 TGCTCTTCGGAACTTAGCC
61739949 CGGACATCAT
Statistics
Matches: 81, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.02
40 43 0.53
41 22 0.27
42 14 0.17
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCGGATATAGTAACTAGCACCAA
Found at i:61740296 original size:29 final size:29
Alignment explanation
Indices: 61740257--61740335 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
61740247 CTTAATAATC
*
61740257 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
61740287 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
61740316 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
61740336 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:61740378 original size:43 final size:43
Alignment explanation
Indices: 61740317--61740419 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
61740307 TGCATTTCAA
61740317 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
61740360 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
61740403 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
61740420 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:61742318 original size:37 final size:37
Alignment explanation
Indices: 61742268--61742346 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
61742258 TTATTACGAA
* * *
61742268 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
61742305 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
61742342 GTCTT
1 GTCTT
61742347 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:61742615 original size:47 final size:47
Alignment explanation
Indices: 61742465--61742937 Score: 786
Period size: 47 Copynumber: 10.1 Consensus size: 47
61742455 CCCTTCGGGA
* * * * * * *
61742465 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61742512 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61742558 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61742605 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61742652 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61742699 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61742746 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61742793 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61742840 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61742887 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61742934 CTTA
1 CTTA
61742938 CTATCATTTC
Statistics
Matches: 406, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
46 40 0.10
47 366 0.90
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61748130 original size:93 final size:93
Alignment explanation
Indices: 61747971--61748158 Score: 358
Period size: 93 Copynumber: 2.0 Consensus size: 93
61747961 AATGTAGCTT
61747971 TAGTACTTAATAACTTCGTATAATAGAAAGTAAACTTACTGGTCTTATTTATTAACACAAGCACA
1 TAGTACTTAATAACTTCGTATAATAGAAAGTAAACTTACTGGTCTTATTTATTAACACAAGCACA
*
61748036 CATAAATTTATATTCCATCAATTTTGGG
66 CATAAATATATATTCCATCAATTTTGGG
*
61748064 TAGTACTTAGTAACTTCGTATAATAGAAAGTAAACTTACTGGTCTTATTTATTAACACAAGCACA
1 TAGTACTTAATAACTTCGTATAATAGAAAGTAAACTTACTGGTCTTATTTATTAACACAAGCACA
61748129 CATAAATATATATTCCATCAATTTTGGG
66 CATAAATATATATTCCATCAATTTTGGG
61748157 TA
1 TA
61748159 AGTTACCTAA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (93 bp):
TAGTACTTAATAACTTCGTATAATAGAAAGTAAACTTACTGGTCTTATTTATTAACACAAGCACA
CATAAATATATATTCCATCAATTTTGGG
Found at i:61748474 original size:17 final size:18
Alignment explanation
Indices: 61748435--61748473 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
61748425 TTAATAATTA
61748435 AAAACTTATACCCTTTTT
1 AAAACTTATACCCTTTTT
61748453 AAAACTTATACCCTTTTT
1 AAAACTTATACCCTTTTT
61748471 AAA
1 AAA
61748474 CCTTGATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAACTTATACCCTTTTT
Found at i:61749285 original size:26 final size:26
Alignment explanation
Indices: 61749219--61749295 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 26
61749209 ATGGGTGCCG
* *
61749219 GAACAGATATTGTGACAGAGTCACCA
1 GAACAGATATTGTGGCAGAGCCACCA
61749245 GATACAGATATTGTGGCAGAGCCACCA
1 GA-ACAGATATTGTGGCAGAGCCACCA
* * *
61749272 GAACAGATAATGTGGAAAAGCCAC
1 GAACAGATATTGTGGCAGAGCCAC
61749296 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
26 21 0.47
27 24 0.53
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (26 bp):
GAACAGATATTGTGGCAGAGCCACCA
Found at i:61749482 original size:22 final size:22
Alignment explanation
Indices: 61749454--61749517 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
61749444 GCAAATACGT
*
61749454 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
61749476 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
**
61749498 TTGGTGCAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
61749518 AAAGGCTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:61750087 original size:81 final size:80
Alignment explanation
Indices: 61749947--61750303 Score: 426
Period size: 81 Copynumber: 4.4 Consensus size: 80
61749937 GGGCAAAATG
* * * * * *
61749947 GTAATTTTACCCCACAAGGATATCTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACC
1 GTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
61750012 CTACAAGGGTATTTCA
65 CTACAAGGGTATTTCA
* *
61750028 GTAATTCTATCCTACAGGGTTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAGGG-TATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
* *
61750093 TTACAAGGGTATTTCG
65 CTACAAGGGTATTTCA
* *
61750109 GTATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACA-GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
* **
61750174 CTACTAGGGTATTTTG
65 CTACAAGGGTATTTCA
* * * * ** *
61750190 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACC
1 GTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
61750255 CTACAAGGGTATTTCA
65 CTACAAGGGTATTTCA
* ** * *
61750271 GTAATTTTACAAATCCAGGGTATTTTAGTAATT
1 GTAATTCTAC-CCTACAGGGTATTTCAGTAATT
61750304 TTGCAAATTA
Statistics
Matches: 238, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
80 3 0.01
81 229 0.96
82 6 0.03
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (80 bp):
GTAATTCTACCCTACAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
TACAAGGGTATTTCA
Found at i:61750273 original size:27 final size:27
Alignment explanation
Indices: 61749946--61750276 Score: 385
Period size: 27 Copynumber: 12.3 Consensus size: 27
61749936 GGGGCAAAAT
* * * *
61749946 GGTAATTTTACCCCACAAGGATATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
61749973 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
61750000 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
61750027 AGTAATTCTATCCTAC-AGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * *
61750054 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
61750081 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
61750108 GGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
61750135 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
61750162 GGTATTTCTACCCTACTAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
61750189 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
61750216 GGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
61750243 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
61750270 AGTAATT
1 GGTAATT
61750277 TTACAAATCC
Statistics
Matches: 259, Mismatches: 43, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 4 0.02
27 252 0.97
28 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:61750290 original size:27 final size:27
Alignment explanation
Indices: 61750260--61750464 Score: 211
Period size: 27 Copynumber: 7.7 Consensus size: 27
61750250 CTACCCTACA
*
61750260 AGGGTATTTCAGTAATTTTACAAATCC
1 AGGGTATTTCAGTAATTTTACAAATCG
* * **
61750287 AGGGTATTTTAGTAATTTTGCAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
61750314 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
61750341 AAGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
61750367 ACGGTATTTC-GATATTTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
** *
61750394 AGGGTATTTGGGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
61750421 AGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* *
61750447 GGGGTATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
61750465 GGTAAACTAA
Statistics
Matches: 152, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.03
26 34 0.22
27 110 0.72
28 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:61750292 original size:54 final size:52
Alignment explanation
Indices: 61749974--61750336 Score: 254
Period size: 54 Copynumber: 6.8 Consensus size: 52
61749964 GGATATCTCG
* * ** *
61749974 GTAATTCTACCCTACAGGGGTATTTCGAT-ATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTT-TACAAT-C-AGGGTATTTTA
* * * * **
61750028 GTAATTCTATCCTAC-AGGGTTATTTCAGTAATTCTACCCTAT-AGGGGTATTTCG
1 GTAATTCTACCCTACAAGGG-TATTTCGGTAATTTTA--CAATCA-GGGTATTTTA
* * **
61750082 GTATTTCTACCTTACAAGGGTATTTCGGT-ATTTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTT-TACAAT-CA-GGGTATTTTA
* ** *
61750136 GTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACCCTACTAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTT-TACAAT-C-AGGGTATTTTA
* * *
61750190 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTAT-AGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTA-C-AATCA-GGGTATTTTA
*
61750244 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAATCCAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTAC-AAT-CAGGGTATTTTA
** ** *
61750298 GTAATT-TTGCAAATTAAGGGTATTTCGGTAATTTTACAA
1 GTAATTCTACCCTA-CAAGGGTATTTCGGTAATTTTACAA
61750337 ATTGAAGGTA
Statistics
Matches: 254, Mismatches: 38, Indels: 35
0.78 0.12 0.11
Matches are distributed among these distances:
52 2 0.01
53 16 0.06
54 220 0.87
55 13 0.05
56 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (52 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAATCAGGGTATTTTA
Found at i:61750337 original size:54 final size:54
Alignment explanation
Indices: 61750204--61750464 Score: 244
Period size: 54 Copynumber: 4.9 Consensus size: 54
61750194 TTCTACCCTA
* ** * * **
61750204 CAAGGGTATTTCGGTAATTCTACCTTATAG-GGGTATTTTAGTAATTCTAC-CCT
1 CAAGGGTATTTCGGTAATTTTA-CAAATCGAGGGTATTTTAGTAATTTTACAAAT
* * *
61750257 ACAAGGGTATTTCAGTAATTTTACAAATCCAGGGTATTTTAGTAATTTTGCAAAT
1 -CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAAT
* * * *
61750312 TAAGGGTATTTCGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTTAC-AAT
1 CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAAT
* * * * ** *
61750365 CGACGGTATTTCGATATTTTTACAAATCGAGGGTATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAAT
* * *
61750419 CGAGGGTACTTT-GGTAATTTTACAACT-GGGGGTATTTTAGTAATTT
1 CAAGGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTT
61750465 GGTAAACTAA
Statistics
Matches: 169, Mismatches: 34, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
53 62 0.37
54 103 0.61
55 4 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAAT
Found at i:61766985 original size:20 final size:20
Alignment explanation
Indices: 61766948--61766990 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
61766938 TTACAAACAA
* * *
61766948 AAATATTAAACATTAAATCT
1 AAATATTAAAAATAAAATAT
61766968 AAATATTAAAAATAAAATAT
1 AAATATTAAAAATAAAATAT
61766988 AAA
1 AAA
61766991 CATATAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATATTAAAAATAAAATAT
Found at i:61769649 original size:20 final size:21
Alignment explanation
Indices: 61769600--61769643 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
61769590 AGCGAAACGA
61769600 CAGCAAAACAATGACAAAATAG
1 CAGCAAAACAATGA-AAAATAG
61769622 CAGCAAAACAATG-AAAATAG
1 CAGCAAAACAATGAAAAATAG
61769642 CA
1 CA
61769644 TGAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.59, C:0.18, G:0.14, T:0.09
Consensus pattern (21 bp):
CAGCAAAACAATGAAAAATAG
Found at i:61769651 original size:22 final size:21
Alignment explanation
Indices: 61769604--61769650 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
61769594 AAACGACAGC
*
61769604 AAAACAATGACAAAATAGCAGC
1 AAAACAATGA-AAAATAGCAGA
61769626 AAAACAATG-AAAATAGCATGA
1 AAAACAATGAAAAATAGCA-GA
61769647 AAAA
1 AAAA
61769651 ATAAGTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 9 0.39
ACGTcount: A:0.64, C:0.13, G:0.13, T:0.11
Consensus pattern (21 bp):
AAAACAATGAAAAATAGCAGA
Found at i:61771759 original size:46 final size:46
Alignment explanation
Indices: 61771584--61771795 Score: 168
Period size: 46 Copynumber: 4.6 Consensus size: 46
61771574 TGTTAGCTAA
* * ***
61771584 TGTAAGACATGTCTGGGACATGCATTGACCACCTTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGAGAGCCAG
* * * * * * *
61771630 TATAAGACTATGTCTGGGATATGGCATCGGC-ATTGAGACGAGTGCTAG
1 TGTAAGAC-ATGTCTGGGACAT-GCATTGGCTA-CGAGATGAGAGCCAG
61771678 TGTAAGACATGGT-TGGGACATGC-TTCGGCCT-CGAGATGTA-AGCCAG
1 TGTAAGACAT-GTCTGGGACATGCATT-GG-CTACGAGATG-AGAGCCAG
* *
61771724 TGTAAGACATGTCTGGGACATGCATTGGCTACGAGA-G-GTGTCAG
1 TGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGAGAGCCAG
61771768 TGTAAGACCATGTCTGGGACATGGCATT
1 TGTAAGA-CATGTCTGGGACAT-GCATT
61771796 AACACAGATA
Statistics
Matches: 132, Mismatches: 20, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
44 11 0.08
45 20 0.15
46 52 0.39
47 26 0.20
48 23 0.17
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGAGAGCCAG
Found at i:61781936 original size:13 final size:13
Alignment explanation
Indices: 61781918--61781942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61781908 CATTTTGGTA
61781918 TTTAATTATTATT
1 TTTAATTATTATT
61781931 TTTAATTATTAT
1 TTTAATTATTAT
61781943 GGTAAAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTAATTATTATT
Found at i:61782154 original size:104 final size:99
Alignment explanation
Indices: 61782010--61782194 Score: 232
Period size: 104 Copynumber: 1.8 Consensus size: 99
61782000 ACAAAATAGG
* **
61782010 ACAAATAATATGAATTACAAAAACTTAAACAAGTAAATAATAATTACAAAACAAAAATGTACCTT
1 ACAAATAATAAGAATTACAAAAACTTAAACAAAAAAATAATAATT---AAA-AAAAAT-TACCTT
*
61782075 T-AAAATAATATTTTTTGTTGCCTCCTTTCCTTCCAAAATC
61 TCAAAA-AA-ATTTATTGTTGCCTCCTTTCCTTCCAAAATC
*
61782115 ACAAATAATAAGTATTA-AAAACAC-TAAACAAAAAAATAATAATTAAAAAAAATTACCTTTCAA
1 ACAAATAATAAGAATTACAAAA-ACTTAAACAAAAAAATAATAATTAAAAAAAATTACCTTTCAA
61782178 AAAAATTTATTGTTGCC
65 AAAAATTTATTGTTGCC
61782195 CTCTTACATT
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
98 12 0.16
99 9 0.12
100 10 0.14
101 3 0.04
104 22 0.30
105 17 0.23
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.30
Consensus pattern (99 bp):
ACAAATAATAAGAATTACAAAAACTTAAACAAAAAAATAATAATTAAAAAAAATTACCTTTCAAA
AAAATTTATTGTTGCCTCCTTTCCTTCCAAAATC
Found at i:61788863 original size:16 final size:17
Alignment explanation
Indices: 61788834--61788866 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61788824 TTTTTAATAA
*
61788834 TTTTTATTTGTTTTTAT
1 TTTTTAATTGTTTTTAT
61788851 TTTTTAATT-TTTTTAT
1 TTTTTAATTGTTTTTAT
61788867 AAAGCACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTAATTGTTTTTAT
Found at i:61788866 original size:26 final size:25
Alignment explanation
Indices: 61788814--61788862 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
61788804 CTTTTTATAA
61788814 ATTTGTTTTATTTTTAATAATTTTT
1 ATTTGTTTTATTTTTAATAATTTTT
61788839 ATTTGTTTTTATTTTT--TAATTTTT
1 ATTTG-TTTTATTTTTAATAATTTTT
61788863 TTATAAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.35
25 5 0.22
26 10 0.43
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (25 bp):
ATTTGTTTTATTTTTAATAATTTTT
Found at i:61791059 original size:45 final size:45
Alignment explanation
Indices: 61790983--61791081 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
61790973 GATTTATGGC
* *
61790983 AGAGACAAACTCTCATTCGAAGATGTAAAGGGTCATTTGTTGAGT
1 AGAGACAAACTCTCATTCGAAGATATAAAGGGTCATTTATTGAGT
* * *
61791028 AGAGGCAAACTCTCATTTGAAGATATGAAGGGTCATTTATTGAGT
1 AGAGACAAACTCTCATTCGAAGATATAAAGGGTCATTTATTGAGT
61791073 AGAGACAAA
1 AGAGACAAA
61791082 TTCAAAAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (45 bp):
AGAGACAAACTCTCATTCGAAGATATAAAGGGTCATTTATTGAGT
Found at i:61792524 original size:46 final size:46
Alignment explanation
Indices: 61792459--61792732 Score: 354
Period size: 46 Copynumber: 6.0 Consensus size: 46
61792449 TTATCTTTGA
* * * *
61792459 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
61792505 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
61792551 CACGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
61792597 CAAGCTGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATGT
* * * * *
61792643 CACGTTGCCATGATATCTTTCAACCATGGTCTTACACATTACATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
61792689 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
61792733 TTCAGAGAGC
Statistics
Matches: 204, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
45 5 0.02
46 199 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:61794605 original size:13 final size:13
Alignment explanation
Indices: 61794587--61794613 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61794577 ATACTGATAA
61794587 AATAATAAAAAAT
1 AATAATAAAAAAT
61794600 AATAATAAAAAAT
1 AATAATAAAAAAT
61794613 A
1 A
61794614 TCTTATTAAA
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAATAAAAAAT
Found at i:61794631 original size:26 final size:26
Alignment explanation
Indices: 61794595--61794645 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
61794585 AAAATAATAA
61794595 AAAATAATAATAAAA-AATATCTTATT
1 AAAATAATAATAAAATAATAT-TTATT
*
61794621 AAAATATTAATAAAATAATATTTAT
1 AAAATAATAATAAAATAATATTTAT
61794646 CTAATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAATAATAATAAAATAATATTTATT
Found at i:61797729 original size:51 final size:52
Alignment explanation
Indices: 61797653--61797792 Score: 246
Period size: 51 Copynumber: 2.7 Consensus size: 52
61797643 ACTAGTGACT
* *
61797653 CAAGTGTGGCACTATGTGAAGGCCACTTTGTAAAGAAAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTAGTCA
*
61797704 CAAGTGTGGTACTATGCGAAGGCCACTTTGTAAAGAAAGATAGCTTTAGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTAGTCA
61797756 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAA
61797793 TGTAGCATTG
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
51 42 0.50
52 42 0.50
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTAGTCA
Found at i:61797832 original size:51 final size:52
Alignment explanation
Indices: 61797653--61797832 Score: 224
Period size: 51 Copynumber: 3.5 Consensus size: 52
61797643 ACTAGTGACT
* * *
61797653 CAAGTGTGGCACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTG-GTCA
1 CAAGTGTGGTACTATATGAAGGCCACTTTGTAAAGAAAGATAGCTTGACTCA
** * *
61797704 CAAGTGTGGTACTATGCGAAGGCCACTTTGTAAAGAAAGATAGCTTTAGTCA
1 CAAGTGTGGTACTATATGAAGGCCACTTTGTAAAGAAAGATAGCTTGACTCA
* *
61797756 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAATG-TAGCATTGACT-A
1 CAAGTGTGGTACTATATGAAGGCCACTTTGTAAAGAAAGATAGC-TTGACTCA
*
61797807 CAAGGGTGGTACTATATGCAA-GCCAC
1 CAAGTGTGGTACTATATG-AAGGCCAC
61797833 CGTGTATCCG
Statistics
Matches: 117, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
51 70 0.60
52 47 0.40
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (52 bp):
CAAGTGTGGTACTATATGAAGGCCACTTTGTAAAGAAAGATAGCTTGACTCA
Found at i:61800364 original size:17 final size:18
Alignment explanation
Indices: 61800328--61800363 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
61800318 TTGTCACTAT
61800328 ATATTTTAGAATTAAAAA
1 ATATTTTAGAATTAAAAA
61800346 ATATTTTA-AATGTAAAAA
1 ATATTTTAGAAT-TAAAAA
61800364 TGTGATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
ATATTTTAGAATTAAAAA
Found at i:61800913 original size:30 final size:30
Alignment explanation
Indices: 61800863--61800924 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
61800853 GGATAGGAGG
* * * *
61800863 GGAGCAAAATTTTTGGGGGAAAAGTAAGAA
1 GGAGCAAAAGTTTTGAGGGAAAAATAAAAA
*
61800893 GGAGTAAAAGTTTTGAGGGAAAAATAAAAA
1 GGAGCAAAAGTTTTGAGGGAAAAATAAAAA
61800923 GG
1 GG
61800925 TTTGGGAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.02, G:0.32, T:0.19
Consensus pattern (30 bp):
GGAGCAAAAGTTTTGAGGGAAAAATAAAAA
Found at i:61804355 original size:49 final size:50
Alignment explanation
Indices: 61804283--61804460 Score: 227
Period size: 52 Copynumber: 3.5 Consensus size: 50
61804273 ACTAGTGACT
61804283 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTGGTCA
61804332 CAAGTGTGGTACTATGTGAAGGCCACTTTGTA-AAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTG-AGAAG-AAGATAGC-TTGGTCA
* * * * *
61804384 CAAGTGTGGTACTATGTGAAAGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTGGTC-A
* *
61804435 TAAGGGTGGTACTATGT-ACAGGCCAC
1 CAAGTGTGGTACTATGTGA-AGGCCAC
61804461 CGGGTATCTG
Statistics
Matches: 114, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
49 33 0.29
50 6 0.05
51 36 0.32
52 39 0.34
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTGGTCA
Found at i:61808219 original size:34 final size:34
Alignment explanation
Indices: 61808181--61808253 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 34
61808171 TTGATTTACG
61808181 TATTTGACAACTTAAATATAAAT-TAT-TCTATTTA
1 TATTTGAC-A-TTAAATATAAATATATGTCTATTTA
* * * *
61808215 TATTTTACATTATATATAAATATGTGTTTATTTA
1 TATTTGACATTAAATATAAATATATGTCTATTTA
61808249 TATTT
1 TATTT
61808254 AAATATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
32 11 0.33
33 3 0.09
34 19 0.58
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.53
Consensus pattern (34 bp):
TATTTGACATTAAATATAAATATATGTCTATTTA
Found at i:61818965 original size:16 final size:19
Alignment explanation
Indices: 61818927--61818967 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
61818917 TTGGAGCAAC
61818927 TACAATCAATTATACATCA
1 TACAATCAATTATACATCA
61818946 TACAATC-ATT-TACA-CA
1 TACAATCAATTATACATCA
61818962 TACAAT
1 TACAAT
61818968 TAAGTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 4 0.18
18 3 0.14
19 7 0.32
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (19 bp):
TACAATCAATTATACATCA
Found at i:61820814 original size:45 final size:45
Alignment explanation
Indices: 61820750--61820843 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
61820740 TTTCCAATCC
61820750 TGATTGACCAAGAGTCTCGTTACAAGAATTGCATTGCCACCCAAG
1 TGATTGACCAAGAGTCTCGTTACAAGAATTGCATTGCCACCCAAG
*
61820795 TGATTGACCAAGCGTCTCGTTACAAGAATTGCATTGCCACCCAAG
1 TGATTGACCAAGAGTCTCGTTACAAGAATTGCATTGCCACCCAAG
61820840 TGAT
1 TGAT
61820844 CTTAATCATC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (45 bp):
TGATTGACCAAGAGTCTCGTTACAAGAATTGCATTGCCACCCAAG
Found at i:61822953 original size:11 final size:11
Alignment explanation
Indices: 61822937--61822998 Score: 124
Period size: 11 Copynumber: 5.6 Consensus size: 11
61822927 AAATTCGACG
61822937 TTTTTATTACA
1 TTTTTATTACA
61822948 TTTTTATTACA
1 TTTTTATTACA
61822959 TTTTTATTACA
1 TTTTTATTACA
61822970 TTTTTATTACA
1 TTTTTATTACA
61822981 TTTTTATTACA
1 TTTTTATTACA
61822992 TTTTTAT
1 TTTTTAT
61822999 GGTCTACAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 51 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTTATTACA
Found at i:61824171 original size:42 final size:42
Alignment explanation
Indices: 61824110--61824206 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
61824100 CTGAGGCTAT
* *
61824110 GTGTAAGACCATATCTGGGATATGGCATCAATTTGAGACTTC
1 GTGTAAGACCATATCTGGGATATGACATCAATGTGAGACTTC
* * * *
61824152 GTGTAAGACCATGTTTGGGATATGACATCGATGTGAGATTTC
1 GTGTAAGACCATATCTGGGATATGACATCAATGTGAGACTTC
61824194 GTGTAAGACCATA
1 GTGTAAGACCATA
61824207 GCTAGGCTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGACATCAATGTGAGACTTC
Found at i:61827152 original size:33 final size:34
Alignment explanation
Indices: 61827088--61827172 Score: 120
Period size: 33 Copynumber: 2.5 Consensus size: 34
61827078 CCATCTCAGT
61827088 ACAGTATCAAATATGCAGTACGACCTTAGCCCATC
1 ACAGTATC-AATATGCAGTACGACCTTAGCCCATC
* * *
61827123 ACAGTATCAGTATGCATTA-GGCCTTAGCCCATC
1 ACAGTATCAATATGCAGTACGACCTTAGCCCATC
61827156 ACAGTATCAATA-GCAGT
1 ACAGTATCAATATGCAGT
61827173 CACGCAGATC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.09
33 24 0.53
34 9 0.20
35 8 0.18
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (34 bp):
ACAGTATCAATATGCAGTACGACCTTAGCCCATC
Found at i:61834270 original size:34 final size:34
Alignment explanation
Indices: 61834219--61834283 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
61834209 ATTGGTATGA
* *
61834219 ATTAGGGCCTTATCCCATCACAATATCAATATAC
1 ATTAAGGCCTTAGCCCATCACAATATCAATATAC
*
61834253 ATTAAGGCCTTAGCCCATCACAGTATCAATA
1 ATTAAGGCCTTAGCCCATCACAATATCAATA
61834284 GCATTCATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (34 bp):
ATTAAGGCCTTAGCCCATCACAATATCAATATAC
Found at i:61834872 original size:20 final size:20
Alignment explanation
Indices: 61834844--61834897 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
61834834 CTGTGTGTCA
* *
61834844 CACATGGCCTGTCTGGCCAT
1 CACACGGCCTGTCTAGCCAT
*
61834864 CACACGGCCTGTCTAGTCAT
1 CACACGGCCTGTCTAGCCAT
*
61834884 CTCACGGCCGTGTC
1 CACACGGCC-TGTC
61834898 ATGCACGCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.15, C:0.37, G:0.24, T:0.24
Consensus pattern (20 bp):
CACACGGCCTGTCTAGCCAT
Found at i:61841002 original size:42 final size:42
Alignment explanation
Indices: 61840947--61841027 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
61840937 TTAGGGTTAC
61840947 TGAGACTATGTGTAAGACCATATCT-GAGATATGACATCACTT
1 TGAGACTATGTGTAAGACCATATCTAG-GATATGACATCACTT
* * *
61840989 TGAGACT-TCGTGTAAGGCCATGTCTAGGATATGGCATCA
1 TGAGACTAT-GTGTAAGACCATATCTAGGATATGACATCA
61841028 ATGTGAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.03
42 32 0.94
43 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGAGACTATGTGTAAGACCATATCTAGGATATGACATCACTT
Found at i:61860787 original size:27 final size:27
Alignment explanation
Indices: 61860757--61860839 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 27
61860747 TGGCGAATTG
* *
61860757 TCCCGTGTTTACTGTCCCAATGGACTA
1 TCCCATGTTTATTGTCCCAATGGACTA
* * **
61860784 TCCCTTGTTTATTGTCTCAACAGACTA
1 TCCCATGTTTATTGTCCCAATGGACTA
* * *
61860811 TCCCATTTTTATTATCCTAATGGACTA
1 TCCCATGTTTATTGTCCCAATGGACTA
61860838 TC
1 TC
61860840 AAAAGATGCC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.40
Consensus pattern (27 bp):
TCCCATGTTTATTGTCCCAATGGACTA
Found at i:61864089 original size:21 final size:20
Alignment explanation
Indices: 61864063--61864103 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
61864053 AGCATTACAT
*
61864063 AACTCAAGATAACATAAAAAA
1 AACTCAA-ATAAAATAAAAAA
61864084 AACTCAAATAAAATCAAAAA
1 AACTCAAATAAAAT-AAAAA
61864104 GCATACTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.68, C:0.15, G:0.02, T:0.15
Consensus pattern (20 bp):
AACTCAAATAAAATAAAAAA
Done.