Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 42 of 79
Found at i:13818113 original size:29 final size:27
Alignment explanation
Indices: 13818080--13818142 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 27
13818070 TGTTTAGGAT
*
13818080 TTAGGGTTTTTAAGTAAAACTCAAATAAA
1 TTAGGGTTTTT--GGAAAACTCAAATAAA
*
13818109 TTAGGG--TTTGGGAAACTCAAATAAA
1 TTAGGGTTTTTGGAAAACTCAAATAAA
13818134 TTAGGGTTT
1 TTAGGGTTT
13818143 GGGGTTTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 20 0.67
27 4 0.13
29 6 0.20
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (27 bp):
TTAGGGTTTTTGGAAAACTCAAATAAA
Found at i:13818130 original size:25 final size:25
Alignment explanation
Indices: 13818096--13818145 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13818086 TTTTTAAGTA
13818096 AAACTCAAATAAATTAGGGTTTGGG
1 AAACTCAAATAAATTAGGGTTTGGG
13818121 AAACTCAAATAAATTAGGGTTTGGG
1 AAACTCAAATAAATTAGGGTTTGGG
13818146 GTTTAGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (25 bp):
AAACTCAAATAAATTAGGGTTTGGG
Found at i:13822222 original size:25 final size:26
Alignment explanation
Indices: 13822151--13822203 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
13822141 TATTTCTAAA
*
13822151 TATAAGTAAAATAAAGCTAATAATTT
1 TATAAGTAAAATAAAACTAATAATTT
13822177 TATAAGTAAAATAAAACTAATAATTT
1 TATAAGTAAAATAAAACTAATAATTT
13822203 T
1 T
13822204 TAGTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (26 bp):
TATAAGTAAAATAAAACTAATAATTT
Found at i:13823986 original size:31 final size:31
Alignment explanation
Indices: 13823926--13823989 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
13823916 GTTGAATACC
*
13823926 CAATAACTTAAATAAAAACTTCTGAATAGTT
1 CAATAACTTAAATAAAAACTTCTCAATAGTT
* *
13823957 CAATTACTTAAATGAAAACTT-TCATATAGTT
1 CAATAACTTAAATAAAAACTTCTCA-ATAGTT
13823988 CA
1 CA
13823990 GTAATCACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.34
Consensus pattern (31 bp):
CAATAACTTAAATAAAAACTTCTCAATAGTT
Found at i:13828382 original size:17 final size:19
Alignment explanation
Indices: 13828349--13828389 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
13828339 CATGTTGCAT
13828349 GCCCATGTGGTCCCACAC-
1 GCCCATGTGGTCCCACACG
13828367 GCCCATGTGG-CCCACACG
1 GCCCATGTGGTCCCACACG
13828385 GCCCA
1 GCCCA
13828390 AAATGGCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.17, C:0.46, G:0.24, T:0.12
Consensus pattern (19 bp):
GCCCATGTGGTCCCACACG
Found at i:13833149 original size:340 final size:340
Alignment explanation
Indices: 13832529--13833212 Score: 1307
Period size: 340 Copynumber: 2.0 Consensus size: 340
13832519 AGGATGGAAA
* *
13832529 TATATATTGGTTATGAATCTCCTTCTATAATTAAGTATGTTAAACCATGTTAAGTATGAATCATG
1 TATATATTGGTTATGAATCTCATTCTATAATTAAGTATGTTAAACCATGTTAAGTATGAATCATA
*
13832594 TTTTAGTCAAATTTGAGAAATAATCTTTCAGTTAAACTCTGCTTATTTGTTTCAATCAAACTCTG
66 TTTCAGTCAAATTTGAGAAATAATCTTTCAGTTAAACTCTGCTTATTTGTTTCAATCAAACTCTG
13832659 ATTAGTCTAGATTATTTTATTATTATTTGACCTATAAATTTGGCCTATAAATAGGCTCTTTTACA
131 ATTAGTCTAGATTATTTTATTATTATTTGACCTATAAATTTGGCCTATAAATAGGCTCTTTTACA
13832724 ACCTTAGAAAATACACCCATTAGAGATTAGAACTCATTAATACTTTTAAGAATTTTGTGTTTACG
196 ACCTTAGAAAATACACCCATTAGAGATTAGAACTCATTAATACTTTTAAGAATTTTGTGTTTACG
13832789 TTTTGAGGGTTATTTGTTTTTGGGTTTTTACGGTTTAGTTTTTTTATCTCCATCTTTTGTACTCT
261 TTTTGAGGGTTATTTGTTTTTGGGTTTTTACGGTTTAGTTTTTTTATCTCCATCTTTTGTACTCT
13832854 TCATTCTTTTGCCAT
326 TCATTCTTTTGCCAT
*
13832869 TATATATTGGTTATGAATCTCATTCTATAATTAAGTATGTTAAACTATGTTAAGTATGAATCATA
1 TATATATTGGTTATGAATCTCATTCTATAATTAAGTATGTTAAACCATGTTAAGTATGAATCATA
13832934 TTTCAGTCAAATTTGAGAAATAATCTTTCAGTTAAACTCTGCTTATTTGTTTCAATCAAACTCTG
66 TTTCAGTCAAATTTGAGAAATAATCTTTCAGTTAAACTCTGCTTATTTGTTTCAATCAAACTCTG
13832999 ATTAGTCTAGATTATTTTATTATTATTTGACCTATAAATTTGGCCTATAAATAGGCTCTTTTACA
131 ATTAGTCTAGATTATTTTATTATTATTTGACCTATAAATTTGGCCTATAAATAGGCTCTTTTACA
13833064 ACCTTAGAAAATACACCCATTAGAGATTAGAACTCA-TAATACTTTTAGAGAATTTTGTGTTTAC
196 ACCTTAGAAAATACACCCATTAGAGATTAGAACTCATTAATACTTTTA-AGAATTTTGTGTTTAC
*
13833128 GTTTTGAGGGTTATTTGTTTTTGGGTTTTTACGGTTTAGTTTTTTTATCTCCATCTTTTGTATTC
260 GTTTTGAGGGTTATTTGTTTTTGGGTTTTTACGGTTTAGTTTTTTTATCTCCATCTTTTGTACTC
13833193 TTCATTCTTTTGCCAT
325 TTCATTCTTTTGCCAT
13833209 TATA
1 TATA
13833213 GTAAAAGTAT
Statistics
Matches: 338, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
339 11 0.03
340 327 0.97
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (340 bp):
TATATATTGGTTATGAATCTCATTCTATAATTAAGTATGTTAAACCATGTTAAGTATGAATCATA
TTTCAGTCAAATTTGAGAAATAATCTTTCAGTTAAACTCTGCTTATTTGTTTCAATCAAACTCTG
ATTAGTCTAGATTATTTTATTATTATTTGACCTATAAATTTGGCCTATAAATAGGCTCTTTTACA
ACCTTAGAAAATACACCCATTAGAGATTAGAACTCATTAATACTTTTAAGAATTTTGTGTTTACG
TTTTGAGGGTTATTTGTTTTTGGGTTTTTACGGTTTAGTTTTTTTATCTCCATCTTTTGTACTCT
TCATTCTTTTGCCAT
Found at i:13843829 original size:9 final size:9
Alignment explanation
Indices: 13843815--13843847 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
13843805 GAGTTGAACG
13843815 ATTCGAGTT
1 ATTCGAGTT
13843824 ATTCGAGTT
1 ATTCGAGTT
13843833 AATT-GAGTT
1 -ATTCGAGTT
13843842 ATTCGA
1 ATTCGA
13843848 ATCAACTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 3 0.14
9 16 0.73
10 3 0.14
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (9 bp):
ATTCGAGTT
Found at i:13848205 original size:20 final size:20
Alignment explanation
Indices: 13848182--13848305 Score: 68
Period size: 20 Copynumber: 5.4 Consensus size: 20
13848172 GGTAAATTAG
13848182 TAAGTAAACCTAAAATAAAC
1 TAAGTAAACCTAAAATAAAC
* *
13848202 TAAGTAAATGCTATAAATGGTAAATTAG
1 TAAGTAAA-CCTA-AAA---T-AA--AC
13848230 TAAGTAAACCTAAAATAAAC
1 TAAGTAAACCTAAAATAAAC
* *
13848250 TAAGTAAATGCTATAAATGGTAAATTAG
1 TAAGTAAA-CCTA-AAA---T-AA--AC
13848278 TAAGTAAACCTAAAATAAAC
1 TAAGTAAACCTAAAATAAAC
13848298 TAAGTAAA
1 TAAGTAAA
13848306 TGCTATCATC
Statistics
Matches: 80, Mismatches: 8, Indels: 32
0.67 0.07 0.27
Matches are distributed among these distances:
20 26 0.32
21 6 0.08
22 10 0.12
23 2 0.03
25 2 0.03
26 10 0.12
27 6 0.08
28 18 0.22
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (20 bp):
TAAGTAAACCTAAAATAAAC
Found at i:13848224 original size:48 final size:48
Alignment explanation
Indices: 13848168--13848311 Score: 288
Period size: 48 Copynumber: 3.0 Consensus size: 48
13848158 AATAAGGGTA
13848168 AAATGGTAAATTAGTAAGTAAACCTAAAATAAACTAAGTAAATGCTAT
1 AAATGGTAAATTAGTAAGTAAACCTAAAATAAACTAAGTAAATGCTAT
13848216 AAATGGTAAATTAGTAAGTAAACCTAAAATAAACTAAGTAAATGCTAT
1 AAATGGTAAATTAGTAAGTAAACCTAAAATAAACTAAGTAAATGCTAT
13848264 AAATGGTAAATTAGTAAGTAAACCTAAAATAAACTAAGTAAATGCTAT
1 AAATGGTAAATTAGTAAGTAAACCTAAAATAAACTAAGTAAATGCTAT
13848312 CATCTTCCCC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 96 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.27
Consensus pattern (48 bp):
AAATGGTAAATTAGTAAGTAAACCTAAAATAAACTAAGTAAATGCTAT
Found at i:13848237 original size:28 final size:28
Alignment explanation
Indices: 13848202--13848285 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 28
13848192 TAAAATAAAC
13848202 TAAGTAAATGCTATAAATGGTAAATTAG
1 TAAGTAAATGCTATAAATGGTAAATTAG
* *
13848230 TAAGTAAA-CCTA-AAA---T-AA--AC
1 TAAGTAAATGCTATAAATGGTAAATTAG
13848250 TAAGTAAATGCTATAAATGGTAAATTAG
1 TAAGTAAATGCTATAAATGGTAAATTAG
13848278 TAAGTAAA
1 TAAGTAAA
13848286 CCTAAAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
20 9 0.20
21 3 0.07
22 5 0.11
23 1 0.02
25 1 0.02
26 5 0.11
27 3 0.07
28 17 0.39
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (28 bp):
TAAGTAAATGCTATAAATGGTAAATTAG
Found at i:13848303 original size:24 final size:24
Alignment explanation
Indices: 13848180--13848304 Score: 68
Period size: 24 Copynumber: 5.2 Consensus size: 24
13848170 ATGGTAAATT
13848180 AGTAAGTAAACCTAAAATAAACTA
1 AGTAAGTAAACCTAAAATAAACTA
** *
13848204 AGT-A--AATGCTATAAATGGTAAA-TT
1 AGTAAGTAAACCTA-AAA---TAAACTA
13848228 AGTAAGTAAACCTAAAATAAACTA
1 AGTAAGTAAACCTAAAATAAACTA
** *
13848252 AGT-A--AATGCTATAAATGGTAAA-TT
1 AGTAAGTAAACCTA-AAA---TAAACTA
13848276 AGTAAGTAAACCTAAAATAAACTA
1 AGTAAGTAAACCTAAAATAAACTA
13848300 AGTAA
1 AGTAA
13848305 ATGCTATCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 32
0.62 0.10 0.27
Matches are distributed among these distances:
21 10 0.14
22 6 0.08
23 10 0.14
24 21 0.29
25 10 0.14
26 6 0.08
27 10 0.14
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.26
Consensus pattern (24 bp):
AGTAAGTAAACCTAAAATAAACTA
Found at i:13854119 original size:31 final size:31
Alignment explanation
Indices: 13854056--13854119 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
13854046 TGTTGATTTA
* *
13854056 TTTTTATATTATTTATTGTAAAATTTATTTC
1 TTTTTATATTATTTATTGTAAAATATAATTC
* *
13854087 TTTTTATTATTATTTA-TGTGAACTATAATTC
1 TTTTTA-TATTATTTATTGTAAAATATAATTC
13854118 TT
1 TT
13854120 CAAATAAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 19 0.68
32 9 0.32
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (31 bp):
TTTTTATATTATTTATTGTAAAATATAATTC
Found at i:13857005 original size:21 final size:21
Alignment explanation
Indices: 13856973--13857034 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
13856963 TCAATTGATA
*
13856973 TGAGTTTTAGTTTAACCCTTC
1 TGAGTTTCAGTTTAACCCTTC
* *
13856994 T-AGGTTTCAGTTTAGCTCTTC
1 TGA-GTTTCAGTTTAACCCTTC
* *
13857015 TGAGCTTCAGATTAACCCTT
1 TGAGTTTCAGTTTAACCCTT
13857035 ATTAATTTCC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (21 bp):
TGAGTTTCAGTTTAACCCTTC
Found at i:13867529 original size:21 final size:22
Alignment explanation
Indices: 13867505--13867547 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13867495 TTACATGTAA
* *
13867505 TTATTTAG-TAAATTATATTGT
1 TTATATAGTTAAATAATATTGT
13867526 TTATATAGTTAAATAATATTGT
1 TTATATAGTTAAATAATATTGT
13867548 ACTTCGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TTATATAGTTAAATAATATTGT
Found at i:13869036 original size:19 final size:19
Alignment explanation
Indices: 13869012--13869054 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
13869002 TTTTAAATCA
13869012 TGAGATATAATAGATTTTG
1 TGAGATATAATAGATTTTG
13869031 TGAGATATAATAGATTTTG
1 TGAGATATAATAGATTTTG
13869050 TGAGA
1 TGAGA
13869055 CAATGTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (19 bp):
TGAGATATAATAGATTTTG
Found at i:13873370 original size:25 final size:23
Alignment explanation
Indices: 13873342--13873446 Score: 91
Period size: 25 Copynumber: 4.7 Consensus size: 23
13873332 TAAGTTTGTG
13873342 AATAGATGAAATTTTTAGCAGTACA
1 AATAGATGAAATTTTTA-CA-TACA
13873367 AATAGATGAAATTTTT--A-ACA
1 AATAGATGAAATTTTTACATACA
13873387 AATAGATGAAA--TTT-CAT-CA
1 AATAGATGAAATTTTTACATACA
* * *
13873406 ACTACAT-CAATTTTTAGCAGTACA
1 AATAGATGAAATTTTTA-CA-TACA
13873430 AATAGATGAAATTTTTA
1 AATAGATGAAATTTTTA
13873447 ACAAAACGGA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
18 5 0.08
19 8 0.12
20 17 0.26
22 3 0.05
23 1 0.02
24 7 0.11
25 24 0.37
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (23 bp):
AATAGATGAAATTTTTACATACA
Found at i:13882467 original size:18 final size:18
Alignment explanation
Indices: 13882446--13882480 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13882436 TTGTAAAATT
*
13882446 AAAGCTTAAATTAAATGC
1 AAAGATTAAATTAAATGC
13882464 AAAGATTAAATTAAATG
1 AAAGATTAAATTAAATG
13882481 ATAAAGGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.29
Consensus pattern (18 bp):
AAAGATTAAATTAAATGC
Found at i:13882620 original size:18 final size:17
Alignment explanation
Indices: 13882599--13882643 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
13882589 ATATTATGTT
13882599 TATATATATATAAATATA
1 TATATATATATAAAT-TA
*
13882617 TATATATATATAACTTA
1 TATATATATATAAATTA
13882634 TATAT-TATAT
1 TATATATATAT
13882644 TTAATTAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 5 0.19
17 7 0.27
18 14 0.54
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATATATATAAATTA
Found at i:13882638 original size:2 final size:2
Alignment explanation
Indices: 13882599--13882628 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13882589 ATATTATGTT
*
13882599 TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13882629 ACTTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13883758 original size:36 final size:36
Alignment explanation
Indices: 13883710--13883826 Score: 114
Period size: 36 Copynumber: 3.3 Consensus size: 36
13883700 ATCGGTTATC
*
13883710 CGACTAGCGCTGGGCGCAATAATTTGTCGACTCGTT
1 CGACTAGTGCTGGGCGCAATAATTTGTCGACTCGTT
* * ** *
13883746 CGACTAGTGCTGGGCACAACT-A-TCGTCGA-TTATC
1 CGACTAGTGCTGGGCGCAA-TAATTTGTCGACTCGTT
* * *
13883780 CGACTAGTGCTAGGCGCAATAATTTTTCAACTCGTT
1 CGACTAGTGCTGGGCGCAATAATTTGTCGACTCGTT
*
13883816 TGACTAGTGCT
1 CGACTAGTGCT
13883827 AGGCACAACT
Statistics
Matches: 62, Mismatches: 15, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
33 1 0.02
34 20 0.32
35 10 0.16
36 30 0.48
37 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (36 bp):
CGACTAGTGCTGGGCGCAATAATTTGTCGACTCGTT
Found at i:13883788 original size:34 final size:34
Alignment explanation
Indices: 13883691--13883790 Score: 94
Period size: 36 Copynumber: 2.9 Consensus size: 34
13883681 TCGCGGATGA
* * *
13883691 ACAACTATCATCGGTTATCCGACTAGCGCTGGGC
1 ACAACTATCGTCGATTATCCGACTAGTGCTGGGC
* * ** *
13883725 GCAA-TAATTTGTCGACTCGTTCGACTAGTGCTGGGC
1 ACAACT-A-TCGTCGA-TTATCCGACTAGTGCTGGGC
13883761 ACAACTATCGTCGATTATCCGACTAGTGCT
1 ACAACTATCGTCGATTATCCGACTAGTGCT
13883791 AGGCGCAATA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
33 1 0.02
34 17 0.35
35 10 0.20
36 20 0.41
37 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (34 bp):
ACAACTATCGTCGATTATCCGACTAGTGCTGGGC
Found at i:13883804 original size:70 final size:70
Alignment explanation
Indices: 13883691--13883943 Score: 335
Period size: 70 Copynumber: 3.6 Consensus size: 70
13883681 TCGCGGATGA
*
13883691 ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATTTGTCGACTCGTTCGACTAGTGC
1 ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATTTGTCGACTCGTTTGACTAGTGC
13883756 TGGGC
66 TGGGC
* * * * * *
13883761 ACAACTATCGTCGATTATCCGACTAGTGCTAGGCGCAATAATTTTTCAACTCGTTTGACTAGTGC
1 ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATTTGTCGACTCGTTTGACTAGTGC
*
13883826 TAGGC
66 TGGGC
* * * *
13883831 ACAACTATCATCGGTTATCCGACTAACGCTGGGCGTAATAATTTGTTGACTCGTTTGACTAGTGT
1 ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATTTGTCGACTCGTTTGACTAGTGC
*
13883896 TGGGA
66 TGGGC
* ** * * *
13883901 AAAACTATCGCCGGTTATCCGACTAGCGTTGGGCACAAAAATT
1 ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATT
13883944 AATTCACGGT
Statistics
Matches: 155, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 155 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (70 bp):
ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATTTGTCGACTCGTTTGACTAGTGC
TGGGC
Found at i:13886880 original size:511 final size:512
Alignment explanation
Indices: 13885908--13886926 Score: 2031
Period size: 511 Copynumber: 2.0 Consensus size: 512
13885898 GGATGATTCA
13885908 TTCATCCTTATTGCTGAAACTTGAAATAAAAACAAAAAAAATAAGCAAGCTAGGGTTCGGCCATT
1 TTCATCCTTATTGCTGAAACTTGAAATAAAAACAAAAAAAATAAGCAAGCTAGGGTTCGGCCATT
13885973 TCTATCTTTGATTAAGGTATGTTAGTTGATCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTT
66 TCTATCTTTGATTAAGGTATGTTAGTTGATCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTT
13886038 GCTTCGTGTTTTAGCTAGCCAATGCTTTAATTTTCGGTGTTGATGATGAATTTGAGATTTTCCAT
131 GCTTCGTGTTTTAGCTAGCCAATGCTTTAATTTTCGGTGTTGATGATGAATTTGAGATTTTCCAT
13886103 TAATTATAGCTTGTGGTTTTTGTTGTTTGATGATGGAAAATAAATCTTTGATGTTTAATTATCAT
196 TAATTATAGCTTGTGGTTTTTGTTGTTTGATGATGGAAAATAAATCTTTGATGTTTAATTATCAT
13886168 GTTTAATTAAGTGATTTTTGATAAAAATCCAAATTAGGGATATATTTGTGAAATTAGAAAATTTA
261 GTTTAATTAAGTGATTTTTGATAAAAATCCAAATTAGGGATATATTTGTGAAATTAGAAAATTTA
13886233 GGGGCTTAAATGTGAAATAAATGGGCTGCTAGGGACCCTAGGAAGATTCGGCTAAGGCATGGTTT
326 GGGGCTTAAATGTGAAATAAATGGGCTGCTAGGGACCCTAGGAAGATTCGGCTAAGGCATGGTTT
13886298 TGATGAATTTTGTGTATTTTGTGATTTTACGAAATAGGGACTAAATTGTAAAAAATGTGAATTTT
391 TGATGAATTTTGTGTATTTTGTGATTTTACGAAATAGGGACTAAATTGTAAAAAATGTGAATTTT
13886363 AGGGGTTAAAGTGAAAATTTCCCAAATTATGTGTTTGTGGTTTAAATTGAATGGAAT
456 AGGGGTTAAAGTGAAAATTTCCCAAATTATGTGTTTGTGGTTTAAATTGAATGGAAT
13886420 TTCATCCTTA-TGCTGAAACTTGAAATAAAAACAAAAAAAATAAGCAAGCTAGGGTTCGGCCATT
1 TTCATCCTTATTGCTGAAACTTGAAATAAAAACAAAAAAAATAAGCAAGCTAGGGTTCGGCCATT
13886484 TCTATCTTTGATTAAGGTATGTTAGTTGATCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTT
66 TCTATCTTTGATTAAGGTATGTTAGTTGATCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTT
13886549 GCTTCGTGTTTTAGCTAGCCAATGCTTTAATTTTCGGTGTTGATGATGAATTTGAGATTTTCCAT
131 GCTTCGTGTTTTAGCTAGCCAATGCTTTAATTTTCGGTGTTGATGATGAATTTGAGATTTTCCAT
13886614 TAATTATAGCTTGTGGTTTTTGTTGTTTGATGATGGAAAATAAATCTTTGATGTTTAATTATCAT
196 TAATTATAGCTTGTGGTTTTTGTTGTTTGATGATGGAAAATAAATCTTTGATGTTTAATTATCAT
13886679 GTTTAATTAAGTGATTTTTGATAAAAATCCAAATTAGGGATATATTTGTGAAATTAGAAAATTTA
261 GTTTAATTAAGTGATTTTTGATAAAAATCCAAATTAGGGATATATTTGTGAAATTAGAAAATTTA
13886744 GGGGCTTAAATGTGAAATAAATGGGCTGCTAGGGACCCTAGGAAGATTCGGCTAAGGCATGGTTT
326 GGGGCTTAAATGTGAAATAAATGGGCTGCTAGGGACCCTAGGAAGATTCGGCTAAGGCATGGTTT
13886809 TGATGAATTTTGTGTATTTTGTGATTTTACGAAATAGGGACTAAATTGTAAAAAATGTGAATTTT
391 TGATGAATTTTGTGTATTTTGTGATTTTACGAAATAGGGACTAAATTGTAAAAAATGTGAATTTT
13886874 AGGGGTTAAAGTGAAAATTTCCCAAATTATGTGTTTGTGGTTTAAATTGAATG
456 AGGGGTTAAAGTGAAAATTTCCCAAATTATGTGTTTGTGGTTTAAATTGAATG
13886927 AAATGTGTTA
Statistics
Matches: 507, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
511 497 0.98
512 10 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (512 bp):
TTCATCCTTATTGCTGAAACTTGAAATAAAAACAAAAAAAATAAGCAAGCTAGGGTTCGGCCATT
TCTATCTTTGATTAAGGTATGTTAGTTGATCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTT
GCTTCGTGTTTTAGCTAGCCAATGCTTTAATTTTCGGTGTTGATGATGAATTTGAGATTTTCCAT
TAATTATAGCTTGTGGTTTTTGTTGTTTGATGATGGAAAATAAATCTTTGATGTTTAATTATCAT
GTTTAATTAAGTGATTTTTGATAAAAATCCAAATTAGGGATATATTTGTGAAATTAGAAAATTTA
GGGGCTTAAATGTGAAATAAATGGGCTGCTAGGGACCCTAGGAAGATTCGGCTAAGGCATGGTTT
TGATGAATTTTGTGTATTTTGTGATTTTACGAAATAGGGACTAAATTGTAAAAAATGTGAATTTT
AGGGGTTAAAGTGAAAATTTCCCAAATTATGTGTTTGTGGTTTAAATTGAATGGAAT
Found at i:13887342 original size:42 final size:42
Alignment explanation
Indices: 13887281--13887402 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
13887271 GATTTGAGAT
* *
13887281 TTACGTGTAAGACCATGTCTGGGACATTGGCGTTGTATATGA
1 TTACGTGTAAGACCCTGTCTGGGACATTGGCATTGTATATGA
* * *
13887323 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGTTATTTGA
1 TTACGTGTAAGACCCTGTCTGGGACATTGGCATTG-TATATGA
* * *
13887366 TTACATGTAAGACCAC-GTCTAGGACGTTGGCATTGTA
1 TTACGTGTAAGACC-CTGTCTGGGACATTGGCATTGTA
13887403 CGAGCTTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.49
43 34 0.50
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCCTGTCTGGGACATTGGCATTGTATATGA
Found at i:13889205 original size:42 final size:42
Alignment explanation
Indices: 13889153--13889289 Score: 186
Period size: 42 Copynumber: 3.3 Consensus size: 42
13889143 TATGATTACG
* * *
13889153 TGTAAGACCATGTCTGAGACATTGGCTTCGTTATGTGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCTTCGATATGAGATTCA
* *
13889195 TGTAAGACCATGTCTGGGACATTGACATCGATATGAGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCTTCGATATGAGATTCA
* * *
13889237 CGTAAGACCATGTCTGGGACATTGG-TATCGATATGAGAATCG
1 TGTAAGACCATGTCTGGGACATTGGCT-TCGATATGAGATTCA
13889279 TGTAAGACCAT
1 TGTAAGACCAT
13889290 AACTAGCTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCTTCGATATGAGATTCA
Found at i:13889326 original size:84 final size:84
Alignment explanation
Indices: 13889139--13889339 Score: 212
Period size: 84 Copynumber: 2.4 Consensus size: 84
13889129 TTAAGATACT
* * * * *
13889139 GATATATGATTACGTGTAAGACCATGTCTGAGACATTGGCTTCGTTATGTGATTCATGTAAGACC
1 GATATATGA-TACATGTAAGACCATGTCTGGGACATTGGCTTCGATATGAGAATCATGTAAGACC
** *
13889204 ATGTCTGGGACATTGACATC
65 ATAACTGAGACATTGACATC
* * *
13889224 GATATGA-GATTCACGTAAGACCATGTCTGGGACATTGG-TATCGATATGAGAATCGTGTAAGAC
1 GATAT-ATGATACATGTAAGACCATGTCTGGGACATTGGCT-TCGATATGAGAATCATGTAAGAC
*
13889287 CATAACT-AG-CTATTGGCATC
64 CATAACTGAGAC-ATTGACATC
*
13889307 GATATATGATAGCATGTAAGACCATATCTGGGA
1 GATATATGATA-CATGTAAGACCATGTCTGGGA
13889340 TATGGCATTG
Statistics
Matches: 96, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
82 2 0.02
83 18 0.19
84 68 0.71
85 7 0.07
86 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (84 bp):
GATATATGATACATGTAAGACCATGTCTGGGACATTGGCTTCGATATGAGAATCATGTAAGACCA
TAACTGAGACATTGACATC
Found at i:13889346 original size:42 final size:43
Alignment explanation
Indices: 13889139--13889347 Score: 184
Period size: 42 Copynumber: 5.0 Consensus size: 43
13889129 TTAAGATACT
* * *
13889139 GATATATGAT-TACGTGTAAGACCATGTCTGAGACATTGGCTTC
1 GATATATGATAT-CATGTAAGACCATGTCTGGGACATTGGCATC
* * *
13889182 GTTATGTGAT-TCATGTAAGACCATGTCTGGGACATTGACATC
1 GATATATGATATCATGTAAGACCATGTCTGGGACATTGGCATC
* *
13889224 GATATGA-GAT-TCACGTAAGACCATGTCTGGGACATTGGTATC
1 GATAT-ATGATATCATGTAAGACCATGTCTGGGACATTGGCATC
* ** *
13889266 GATATGA-GA-ATCGTGTAAGACCATAACT-AG-CTATTGGCATC
1 GATAT-ATGATATCATGTAAGACCATGTCTGGGAC-ATTGGCATC
* * *
13889307 GATATATGATAGCATGTAAGACCATATCTGGGATA-TGGCAT
1 GATATATGATATCATGTAAGACCATGTCTGGGACATTGGCAT
13889348 TGTGTGAGTT
Statistics
Matches: 137, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
40 2 0.01
41 16 0.12
42 108 0.79
43 11 0.08
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
GATATATGATATCATGTAAGACCATGTCTGGGACATTGGCATC
Found at i:13894634 original size:28 final size:29
Alignment explanation
Indices: 13894603--13894659 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
13894593 TTAATAATTT
* **
13894603 TTAATAAAAATGTGTATT-AAGGACTAAA
1 TTAAGAAAAATGTAAATTGAAGGACTAAA
*
13894631 TTAAGAAAAGTGTAAATTGAAGGACTAAA
1 TTAAGAAAAATGTAAATTGAAGGACTAAA
13894660 ATGTGAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.28
Consensus pattern (29 bp):
TTAAGAAAAATGTAAATTGAAGGACTAAA
Found at i:13895873 original size:41 final size:41
Alignment explanation
Indices: 13895828--13896127 Score: 573
Period size: 41 Copynumber: 7.3 Consensus size: 41
13895818 AGGCTAAGCG
13895828 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
13895869 CCTAGCAGGCTATGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
13895910 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
13895951 CCTAGCAGGCTATGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
13895992 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
13896033 CCTAGCAGGCTATGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
13896074 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
13896115 CCTAGCAGGCTAC
1 CCTAGCAGGCTAC
13896128 NNNNNNNNNN
Statistics
Matches: 253, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 253 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.27
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
Found at i:13902551 original size:20 final size:21
Alignment explanation
Indices: 13902512--13902557 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
13902502 CTATCAAAGC
*
13902512 ATTTAGAGAATCTTTTTTTTAT
1 ATTTAGAGAA-CTATTTTTTAT
13902534 ATTTAGAGAA-TATTTTTTAT
1 ATTTAGAGAACTATTTTTTAT
13902554 ATTT
1 ATTT
13902558 TCTAAACTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
22 10 0.43
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (21 bp):
ATTTAGAGAACTATTTTTTAT
Found at i:13910570 original size:40 final size:40
Alignment explanation
Indices: 13910526--13910662 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
13910516 CTATAGGTCA
* *
13910526 AGCATTAGCAGCGCTTTTTGAAAAATGCCGCTATAAATCG
1 AGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAAATCG
* * *
13910566 AGCATTAGCGGCTCTTTTTGAAAAACGCTGCTATAGATC-
1 AGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAAATCG
* * *
13910605 ATGTATTAGCGGCG-TTTCTCGAAAAACGCCGCAAT-AATCG
1 A-GCATTAGCGGCGCTTT-TTGAAAAACGCCGCTATAAATCG
* *
13910645 AGTATTAGCGGTGCTTTT
1 AGCATTAGCGGCGCTTTT
13910663 CGGAAAACAC
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
39 19 0.23
40 62 0.77
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (40 bp):
AGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAAATCG
Found at i:13910670 original size:39 final size:39
Alignment explanation
Indices: 13910529--13910677 Score: 140
Period size: 40 Copynumber: 3.8 Consensus size: 39
13910519 TAGGTCAAGC
* * * * *
13910529 ATTAGCAGCGCTTTTTGAAAAATGCCGCTATAAATCGAGC
1 ATTAGCGGCGCTTTTCGAAAAACGCCGCAAT-AATCGAGT
* * * *
13910569 ATTAGCGGCTCTTTTTGAAAAACGCTGCTATAGATC-ATGT
1 ATTAGCGGCGCTTTTCGAAAAACGCCGCAATA-ATCGA-GT
13910609 ATTAGCGGCG-TTTCTCGAAAAACGCCGCAATAATCGAGT
1 ATTAGCGGCGCTTT-TCGAAAAACGCCGCAATAATCGAGT
* * *
13910648 ATTAGCGGTGCTTTTCGGAAAACACCGCAA
1 ATTAGCGGCGCTTTTCGAAAAACGCCGCAA
13910678 AAAATTTAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
39 33 0.36
40 59 0.64
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (39 bp):
ATTAGCGGCGCTTTTCGAAAAACGCCGCAATAATCGAGT
Found at i:13910765 original size:193 final size:195
Alignment explanation
Indices: 13910527--13910969 Score: 492
Period size: 193 Copynumber: 2.3 Consensus size: 195
13910517 TATAGGTCAA
* * * * *
13910527 GCATTAGCAGCGCTTTTTGAAAAATGCCGCTATAAATCGAGCATTAGCGGCTCTTTTTGAAAAAC
1 GCATTAGCGGCACTTTTTGAAAAATGCCGCTATAGATCGAGCATTAGCGGCACTTTTTAAAAAAC
* * * * *
13910592 GCTGCTATAGATC-ATGTATTAGC-G-GCGTTTCTCGAAAAACGCCG-CAATA-ATCGAGTATTA
66 GCCGCAATAGATCGA-GAATTAGCTGTGC-TTTCTC-AAAAAC-ACGTCAATAGATCGAGCATTA
*** *
13910652 GCGGTGCTTTTC-GGAAAACACCGCAAAAAATTTAAGCAAAAC-ACGTCGTTTGTTGTTGAGCTT
127 GCGACACTTTTCAGAAAAACACCGCAAAAAA-TTAAGCAAAACGACGTCGTTTGTTGTTGAGCTT
13910715 TAGTG
191 TAGTG
* * * *
13910720 GCATTAGTGGCACTTTTTAAAAAATGCCG-TAATAGATCGAGCATTA-CGACGC-TTTTAAAAAA
1 GCATTAGCGGCACTTTTTGAAAAATGCCGCT-ATAGATCGAGCATTAGCGGCACTTTTTAAAAAA
* * *
13910782 TGCCGCAATAGATCGAGAATTAGCTGTGCTTTGTCAAAAACACGTCTATAGATCGAGCATTAGCG
65 CGCCGCAATAGATCGAGAATTAGCTGTGCTTTCTCAAAAACACGTCAATAGATCGAGCATTAGCG
* * * *
13910847 ACACTTTTCAGAAAAATACCGCAAAAAATTGAGCAAAACGATGTCGTTTGTTTTTGAGCTTTAGT
130 ACACTTTTCAGAAAAACACCGCAAAAAATTAAGCAAAACGACGTCGTTTGTTGTTGAGCTTTAGT
*
13910912 T
195 G
** * *
13910913 GCATTAGCGGCGGTTGTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCACTTTT
1 GCATTAGCGGCACTTTTTGAAAAATGCCGCTATAGATCGAGCATTAGCGGCACTTTT
13910970 CGCAAAATGC
Statistics
Matches: 206, Mismatches: 33, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
190 2 0.01
191 37 0.18
192 41 0.20
193 118 0.57
194 5 0.02
195 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (195 bp):
GCATTAGCGGCACTTTTTGAAAAATGCCGCTATAGATCGAGCATTAGCGGCACTTTTTAAAAAAC
GCCGCAATAGATCGAGAATTAGCTGTGCTTTCTCAAAAACACGTCAATAGATCGAGCATTAGCGA
CACTTTTCAGAAAAACACCGCAAAAAATTAAGCAAAACGACGTCGTTTGTTGTTGAGCTTTAGTG
Found at i:13911035 original size:114 final size:115
Alignment explanation
Indices: 13910827--13911038 Score: 338
Period size: 114 Copynumber: 1.9 Consensus size: 115
13910817 AAAAACACGT
*
13910827 CTATAGATCGAGCATTAGCGACACTTTTCAGAAAAATACCGCAAAAAATTGAGCAAAACGATGTC
1 CTATAGATCGAGCATTAGCGACACTTTTCAGAAAAATACCGCAAAAAATTGAGCAAAACGACGTC
* * *
13910892 GTTTGTTTTTGAGCTTTAGTTGCATTAGCGGCGGTTGTTGAAAAACGCCG
66 GTTTCTTGTTGAGCTTTAGTGGCATTAGCGGCGGTTGTTGAAAAACGCCG
* * *
13910942 CTATAGATCGAGCATTAGCGGCACTTTTC-GCAAAATGCCGCAAAAAAGTTGAG-AAAACGACGT
1 CTATAGATCGAGCATTAGCGACACTTTTCAGAAAAATACCGCAAAAAA-TTGAGCAAAACGACGT
13911005 CGTTTCTTGTTGAGCTTTAGTGGCATTAGCGGCG
65 CGTTTCTTGTTGAGCTTTAGTGGCATTAGCGGCG
13911039 TAAAAAAATC
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
114 56 0.63
115 33 0.37
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (115 bp):
CTATAGATCGAGCATTAGCGACACTTTTCAGAAAAATACCGCAAAAAATTGAGCAAAACGACGTC
GTTTCTTGTTGAGCTTTAGTGGCATTAGCGGCGGTTGTTGAAAAACGCCG
Found at i:13911071 original size:7 final size:7
Alignment explanation
Indices: 13911056--13911116 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
13911046 ATCATTTTAT
13911056 TTTAAGG
1 TTTAAGG
*
13911063 TTTAGGG
1 TTTAAGG
**
13911070 TTTAATA
1 TTTAAGG
13911077 TTTAAGG
1 TTTAAGG
*
13911084 TTTAATG
1 TTTAAGG
* *
13911091 TCTATGG
1 TTTAAGG
13911098 TTTAAGG
1 TTTAAGG
13911105 TTTTAAGG
1 -TTTAAGG
13911113 TTTA
1 TTTA
13911117 TGATATAATA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
7 34 0.83
8 7 0.17
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (7 bp):
TTTAAGG
Found at i:13914900 original size:43 final size:43
Alignment explanation
Indices: 13914853--13915023 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
13914843 GAACGGTACT
13914853 TTTAGCGACGTTTGTGATAAAAACGCCACTAAAGATCATGTTC
1 TTTAGCGACGTTTGTGATAAAAACGCCACTAAAGATCATGTTC
* * * *
13914896 TTTAGCGGCGTTTGTGAAAAAAAAGTCACTAAA-AGTCAT-TCTC
1 TTTAGCGACGTTTGTGATAAAAACGCCACTAAAGA-TCATGT-TC
* * * * * * *
13914939 TATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTTAAGTTC
1 TTTAGCGACGTTTGTGATAAAAACGCCACTAAAGATCATGTTC
* * * * *
13914982 TTTAGCAACATTTGTGGGT-AAAGCGCCACTAAAGGTCATGTT
1 TTTAGCGACGTTTGT-GATAAAAACGCCACTAAAGATCATGTT
13915024 TTATAGCAGC
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
42 2 0.02
43 97 0.95
44 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (43 bp):
TTTAGCGACGTTTGTGATAAAAACGCCACTAAAGATCATGTTC
Found at i:13917070 original size:3 final size:3
Alignment explanation
Indices: 13917062--13917112 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
13917052 ATAGAAAAGA
13917062 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
13917111 AA
1 AA
13917113 GAAGCATTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13918078 original size:36 final size:36
Alignment explanation
Indices: 13918006--13918080 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
13917996 CTAATGTAAT
* * * **
13918006 TGTTAATTTAATTGAATGAAAGTTTATGGATGTATA
1 TGTTAATTCAATTAAATGAAAGTTTATAGAAATATA
* *
13918042 TGTTAATTCAATTAAATGGAATTTTATAGAAATATA
1 TGTTAATTCAATTAAATGAAAGTTTATAGAAATATA
13918078 TGT
1 TGT
13918081 ATTTAGAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.44
Consensus pattern (36 bp):
TGTTAATTCAATTAAATGAAAGTTTATAGAAATATA
Found at i:13918279 original size:70 final size:70
Alignment explanation
Indices: 13918176--13918307 Score: 183
Period size: 70 Copynumber: 1.9 Consensus size: 70
13918166 TGCTGGGCAC
* * *
13918176 AACTATCGTCGGATATCCAACTAGCGCTAGGCGCAATAATTTGTTGACTCGTTCAACTAGTGTCG
1 AACTATCGTCGGATATCCAACTAACGCTAGGCGCAATAACTTGTCGACTCGTTCAACTAGTGTCG
13918241 GACAT
66 GACAT
* *** * *
13918246 AACTATCGTCGGTTATTTGACTAACGCTTGGCGCAATAACTTGTCGACTCGTTCGACTAGTG
1 AACTATCGTCGGATATCCAACTAACGCTAGGCGCAATAACTTGTCGACTCGTTCAACTAGTG
13918308 CTGGGCACAC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 53 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (70 bp):
AACTATCGTCGGATATCCAACTAACGCTAGGCGCAATAACTTGTCGACTCGTTCAACTAGTGTCG
GACAT
Found at i:13920357 original size:19 final size:18
Alignment explanation
Indices: 13920330--13920374 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
13920320 AACAAAAATA
* * *
13920330 TTGAGAGAGTTGATAGAG
1 TTGAAAGAGCTGAGAGAG
13920348 TTTGAAAGAGCTGAGAGAG
1 -TTGAAAGAGCTGAGAGAG
13920367 TTGAAAGA
1 TTGAAAGA
13920375 AAGATACGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.38, C:0.02, G:0.36, T:0.24
Consensus pattern (18 bp):
TTGAAAGAGCTGAGAGAG
Found at i:13921197 original size:3 final size:3
Alignment explanation
Indices: 13921189--13921213 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13921179 TTGAGAAGCT
13921189 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
13921214 ACAGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13933220 original size:20 final size:20
Alignment explanation
Indices: 13933195--13933233 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13933185 GATGATAAAT
13933195 AAAATAAAT-AAAACTATATA
1 AAAATAAATGAAAA-TATATA
*
13933215 AAAATATATGAAAATATAT
1 AAAATAAATGAAAATATAT
13933234 GTATGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAATAAATGAAAATATATA
Found at i:13933305 original size:28 final size:27
Alignment explanation
Indices: 13933265--13933319 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
13933255 ATGAAAATAA
13933265 AAAATATATGTGTACATATACATAGTTAT
1 AAAATATATGTGT--ATATACATAGTTAT
*
13933294 AAAA-ATATGTGTATATATATAGTTAT
1 AAAATATATGTGTATATACATAGTTAT
13933320 GAATCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 13 0.52
28 8 0.32
29 4 0.16
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (27 bp):
AAAATATATGTGTATATACATAGTTAT
Found at i:13933409 original size:24 final size:22
Alignment explanation
Indices: 13933377--13933426 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 22
13933367 ATAAAAAACG
*
13933377 TGTATATATAAATTATATAATATA
1 TGTACATATAAA-TATAT-ATATA
13933401 TGTACATATAAATATATATATA
1 TGTACATATAAATATATATATA
13933423 TGTA
1 TGTA
13933427 TGCGTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.36
23 5 0.20
24 11 0.44
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (22 bp):
TGTACATATAAATATATATATA
Found at i:13934377 original size:28 final size:27
Alignment explanation
Indices: 13934337--13934391 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
13934327 ATGAAAATAA
13934337 AAAATATATGTGTACATATACATAGTTAT
1 AAAATATATGTGT--ATATACATAGTTAT
*
13934366 AAAA-ATATGTGTATATATATAGTTAT
1 AAAATATATGTGTATATACATAGTTAT
13934392 GAATCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 13 0.52
28 8 0.32
29 4 0.16
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (27 bp):
AAAATATATGTGTATATACATAGTTAT
Found at i:13936336 original size:252 final size:252
Alignment explanation
Indices: 13935891--13936410 Score: 790
Period size: 252 Copynumber: 2.1 Consensus size: 252
13935881 ACTGTAACTA
* * * **
13935891 CTCCACTGCAACTTCAGGGAAATAAGGTTTGTGGTTGTACTCTGCTCTATGGTTCAACCTACTCC
1 CTCCACTGCAACTTCAGGGAAATAAGGTTTGTGGTTGTAATCTACTCCATACTTCAACCTACTCC
* *
13935956 GCTGCAACTTCAGGGAAATAAGATTCGACATGATAAGAATCGCTATCTACTGTCCGCTCCACTAC
66 GCTGCAACTTCAGGGAAATAAGATTCGACATGATAAGAACCGCTATCTACTGTCCACTCCACTAC
* * * *
13936021 AACTTTAGGGAGACACGACTTGTTGTTTTCAGTCTACTCTACTGGATCTTCAGGGAAATAAGACT
131 AACTTTAGGGAGACACAACTTGTTGTTTTCAGTCTACTCCACTGCATCTTCAGGGAAATAAGACC
13936086 TATATCTTCAACCTGCTCCACTACAACTTCAGGAAAATAAGATTCATAGCCGATCTG
196 TATATCTTCAACCTGCTCCACTACAACTTCAGGAAAATAAGATTCATAGCCGATCTG
* ** *
13936143 CTCCACTG-AATCTTTAGGGAGGTAAGGTTTGTGGTTTTAATCTACTCCATACTTCAACCTACTC
1 CTCCACTGCAA-CTTCAGGGAAATAAGGTTTGTGGTTGTAATCTACTCCATACTTCAACCTACTC
* *
13936207 CGCTGCAATTTCAGGGAAATAAGATTCGACATGATAAGAACCGCTATCTACTGTCTACTCCACTA
65 CGCTGCAACTTCAGGGAAATAAGATTCGACATGATAAGAACCGCTATCTACTGTCCACTCCACTA
*
13936272 CAACTTTAGGGAGACACAACTTGTTGTTTTCAGTCTACTCCACTGCATTTTCAGGGAAATAAGAC
130 CAACTTTAGGGAGACACAACTTGTTGTTTTCAGTCTACTCCACTGCATCTTCAGGGAAATAAGAC
* * * * * *
13936337 CTGTATCTTCAACCTGCTCGACTGCAACTTCAGGGAAATAGGATTCGTAGCCGATCTG
195 CTATATCTTCAACCTGCTCCACTACAACTTCAGGAAAATAAGATTCATAGCCGATCTG
* *
13936395 CTCCACTACATCTTCA
1 CTCCACTGCAACTTCA
13936411 AGAAGATACG
Statistics
Matches: 239, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
251 2 0.01
252 236 0.99
253 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (252 bp):
CTCCACTGCAACTTCAGGGAAATAAGGTTTGTGGTTGTAATCTACTCCATACTTCAACCTACTCC
GCTGCAACTTCAGGGAAATAAGATTCGACATGATAAGAACCGCTATCTACTGTCCACTCCACTAC
AACTTTAGGGAGACACAACTTGTTGTTTTCAGTCTACTCCACTGCATCTTCAGGGAAATAAGACC
TATATCTTCAACCTGCTCCACTACAACTTCAGGAAAATAAGATTCATAGCCGATCTG
Found at i:13955618 original size:16 final size:16
Alignment explanation
Indices: 13955585--13955619 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13955575 TTTTATAATG
* *
13955585 AAATGCCATGTAGTCA
1 AAATGCCATGCAGCCA
13955601 AAATGCCATGCAGCCA
1 AAATGCCATGCAGCCA
13955617 AAA
1 AAA
13955620 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGCCA
Found at i:13957265 original size:20 final size:20
Alignment explanation
Indices: 13957240--13957278 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13957230 GACGATAAAT
13957240 AAAATAAAT-AAAACTATATA
1 AAAATAAATGAAAA-TATATA
*
13957260 AAAATATATGAAAATATAT
1 AAAATAAATGAAAATATAT
13957279 GTATGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAATAAATGAAAATATATA
Found at i:13957345 original size:30 final size:30
Alignment explanation
Indices: 13957309--13957405 Score: 104
Period size: 30 Copynumber: 3.1 Consensus size: 30
13957299 TATGAAAATA
*
13957309 AAAAATATATGTGTACATATACATAGTTAT
1 AAAAATATATGTGTATATATACATAGTTAT
*
13957339 AAAAATATATGTGTATATATATCGTTATGAATTAT
1 AAAAATATATGTGTATATATA-C---AT-AGTTAT
* * *
13957374 AAAAATATATGTATATATGTAGATAGTTAT
1 AAAAATATATGTGTATATATACATAGTTAT
13957404 AA
1 AA
13957406 GATATATAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
30 27 0.48
31 3 0.05
34 2 0.04
35 24 0.43
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.39
Consensus pattern (30 bp):
AAAAATATATGTGTATATATACATAGTTAT
Found at i:13981498 original size:29 final size:29
Alignment explanation
Indices: 13981466--13981521 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
13981456 ATTAGTCTTA
* *
13981466 TATTTAATTTTAAAATAATATTTTTTAAT
1 TATTTAATTTAAAAATAATATGTTTTAAT
* *
13981495 TATTTTATTTAAAAATTATATGTTTTA
1 TATTTAATTTAAAAATAATATGTTTTA
13981522 TTCTATAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TATTTAATTTAAAAATAATATGTTTTAAT
Found at i:13982552 original size:16 final size:15
Alignment explanation
Indices: 13982505--13982552 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
13982495 AAATAAAAAC
*
13982505 ATAAAAAAATTTAAA
1 ATAAAAAATTTTAAA
* *
13982520 ATTATAATATTTTAAA
1 A-TAAAAAATTTTAAA
13982536 ATAAAAAATTTTGAAA
1 ATAAAAAATTTT-AAA
13982552 A
1 A
13982553 ATAATTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
ATAAAAAATTTTAAA
Found at i:13982557 original size:30 final size:31
Alignment explanation
Indices: 13982505--13982576 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
13982495 AAATAAAAAC
13982505 ATAAAAAAATTTAAAATTATAA-TATTTTAAA
1 ATAAAAAAATTTAAAA-TATAATTATTTTAAA
* *
13982536 ATAAAAAATTTTGAAAA-ATAATTTTTTTAAA
1 ATAAAAAAATTT-AAAATATAATTATTTTAAA
13982567 ATTAAAAAAA
1 A-TAAAAAAA
13982577 ATAAAAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 4 0.11
31 20 0.57
32 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (31 bp):
ATAAAAAAATTTAAAATATAATTATTTTAAA
Found at i:13983919 original size:472 final size:472
Alignment explanation
Indices: 13983035--13983932 Score: 1796
Period size: 472 Copynumber: 1.9 Consensus size: 472
13983025 TGAATTGTGA
13983035 CTTATTTGTATGTATGATTTGATGATGCTTTAGGGTGTTTTAAAGTGTACTAGACTTGAAGAATT
1 CTTATTTGTATGTATGATTTGATGATGCTTTAGGGTGTTTTAAAGTGTACTAGACTTGAAGAATT
13983100 GTGGTCCGTACCTCCAGGTCTCAAGACATTGCAGTTATCTCTTGAGACATAAAAGGCAGATTACT
66 GTGGTCCGTACCTCCAGGTCTCAAGACATTGCAGTTATCTCTTGAGACATAAAAGGCAGATTACT
13983165 GAAATTTTACTCCAAGGGTCCAATGTGTTTTTTAGCCTTGACATGACTCCAAATTATTAGAGTTG
131 GAAATTTTACTCCAAGGGTCCAATGTGTTTTTTAGCCTTGACATGACTCCAAATTATTAGAGTTG
13983230 TTCGTAAGCCGGCCCATTCGCCTAAACTCGAAAGTCTACCTAAAAAATGAGATGGTTTGGACAAA
196 TTCGTAAGCCGGCCCATTCGCCTAAACTCGAAAGTCTACCTAAAAAATGAGATGGTTTGGACAAA
13983295 AATATGAGGCTCAAAAAATGGGCTTGCGCAAATTTAAGGCTCGTTTTCTATATGGGTCAGACCTT
261 AATATGAGGCTCAAAAAATGGGCTTGCGCAAATTTAAGGCTCGTTTTCTATATGGGTCAGACCTT
13983360 GGGCAAAAACTTTTTAGCCTGAGCTCGGCCTAGCCTAGGGATATTATATTATAAAAATTATATTA
326 GGGCAAAAACTTTTTAGCCTGAGCTCGGCCTAGCCTAGGGATATTATATTATAAAAATTATATTA
13983425 ATTATATATGTTAAATAATAATTATATATTTATATTTATATTAAATCACTAACTCAACAACAATT
391 ATTATATATGTTAAATAATAATTATATATTTATATTTATATTAAATCACTAACTCAACAACAATT
13983490 AAACTCATTATCCAAAT
456 AAACTCATTATCCAAAT
13983507 CTTATTTGTATGTATGATTTGATGATGCTTTAGGGTGTTTTAAAGTGTACTAGACTTGAAGAATT
1 CTTATTTGTATGTATGATTTGATGATGCTTTAGGGTGTTTTAAAGTGTACTAGACTTGAAGAATT
13983572 GTGGTCCGTACCTCCAGGTCTCAAGACATTGCAGTTATCTCTTGAGACATAAAAGGCAGATTACT
66 GTGGTCCGTACCTCCAGGTCTCAAGACATTGCAGTTATCTCTTGAGACATAAAAGGCAGATTACT
13983637 GAAATTTTACTCCAAGGGTCCAATGTGTTTTTTAGCCTTGACATGACTCCAAATTATTAGAGTTG
131 GAAATTTTACTCCAAGGGTCCAATGTGTTTTTTAGCCTTGACATGACTCCAAATTATTAGAGTTG
13983702 TTCGTAAGCCGGCCCATTCGCCTAAACTCGAAAGTCTACCTAAAAAATGAGATGGTTTGGACAAA
196 TTCGTAAGCCGGCCCATTCGCCTAAACTCGAAAGTCTACCTAAAAAATGAGATGGTTTGGACAAA
13983767 AATATGAGGCTCAAAAAATGGGCTTGCGCAAATTTAAGGCTCGTTTTCTATATGGGTCAGACCTT
261 AATATGAGGCTCAAAAAATGGGCTTGCGCAAATTTAAGGCTCGTTTTCTATATGGGTCAGACCTT
13983832 GGGCAAAAACTTTTTAGCCTGAGCTCGGCCTAGCCTAGGGATATTATATTATAAAAATTATATTA
326 GGGCAAAAACTTTTTAGCCTGAGCTCGGCCTAGCCTAGGGATATTATATTATAAAAATTATATTA
13983897 ATTATATATGTTAAATAATAATTATATATTTATATT
391 ATTATATATGTTAAATAATAATTATATATTTATATT
13983933 GAATCACTAA
Statistics
Matches: 426, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
472 426 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (472 bp):
CTTATTTGTATGTATGATTTGATGATGCTTTAGGGTGTTTTAAAGTGTACTAGACTTGAAGAATT
GTGGTCCGTACCTCCAGGTCTCAAGACATTGCAGTTATCTCTTGAGACATAAAAGGCAGATTACT
GAAATTTTACTCCAAGGGTCCAATGTGTTTTTTAGCCTTGACATGACTCCAAATTATTAGAGTTG
TTCGTAAGCCGGCCCATTCGCCTAAACTCGAAAGTCTACCTAAAAAATGAGATGGTTTGGACAAA
AATATGAGGCTCAAAAAATGGGCTTGCGCAAATTTAAGGCTCGTTTTCTATATGGGTCAGACCTT
GGGCAAAAACTTTTTAGCCTGAGCTCGGCCTAGCCTAGGGATATTATATTATAAAAATTATATTA
ATTATATATGTTAAATAATAATTATATATTTATATTTATATTAAATCACTAACTCAACAACAATT
AAACTCATTATCCAAAT
Found at i:13986005 original size:505 final size:505
Alignment explanation
Indices: 13985055--13986066 Score: 2024
Period size: 505 Copynumber: 2.0 Consensus size: 505
13985045 GGTTGGCCCG
13985055 ATTATGAAGATATGACAACTTAGGCTAATTTGGTAACTAATCCTAGAAGATTGAGGGAATTATAT
1 ATTATGAAGATATGACAACTTAGGCTAATTTGGTAACTAATCCTAGAAGATTGAGGGAATTATAT
13985120 CTTGTAAAGATTATATTAGATTTGATATGGCATATCTTGTAAATCTCTAAAATAAAGGGATATGG
66 CTTGTAAAGATTATATTAGATTTGATATGGCATATCTTGTAAATCTCTAAAATAAAGGGATATGG
13985185 TTAATCTCGTCCGTCAATGTAAATGTATCTTGACCGTTGGTTTTGGGGGAGCTCAACTATAAATA
131 TTAATCTCGTCCGTCAATGTAAATGTATCTTGACCGTTGGTTTTGGGGGAGCTCAACTATAAATA
13985250 GAGAGCCTCCCCCTCATTTGTACTAACTCCATTCATTGTTTCATTATTCTTTGTGAATAAGAGAA
196 GAGAGCCTCCCCCTCATTTGTACTAACTCCATTCATTGTTTCATTATTCTTTGTGAATAAGAGAA
13985315 TATTGATAGCATTTACTCAAACATTTTGTGTGCGCTTTTTCTGTTCTTTGTAGCTTCTTTTGGCA
261 TATTGATAGCATTTACTCAAACATTTTGTGTGCGCTTTTTCTGTTCTTTGTAGCTTCTTTTGGCA
13985380 TAAATCGCTTCCGCTCTTCAACTTGGTGCCTTGGAGGATTTCTTAAGGAATTCTCACTTGATTAA
326 TAAATCGCTTCCGCTCTTCAACTTGGTGCCTTGGAGGATTTCTTAAGGAATTCTCACTTGATTAA
13985445 AGGCTGATTTAGGGGAGCTTGGATGAACGGATCGCCTAAGGCCGCACGGATCGCGAGAAGAAAGG
391 AGGCTGATTTAGGGGAGCTTGGATGAACGGATCGCCTAAGGCCGCACGGATCGCGAGAAGAAAGG
13985510 TCTAACCCCGTGACAAGTGGTATCGAAGCTGTTGGTTCAAACCAACTGAT
456 TCTAACCCCGTGACAAGTGGTATCGAAGCTGTTGGTTCAAACCAACTGAT
13985560 ATTATGAAGATATGACAACTTAGGCTAATTTGGTAACTAATCCTAGAAGATTGAGGGAATTATAT
1 ATTATGAAGATATGACAACTTAGGCTAATTTGGTAACTAATCCTAGAAGATTGAGGGAATTATAT
13985625 CTTGTAAAGATTATATTAGATTTGATATGGCATATCTTGTAAATCTCTAAAATAAAGGGATATGG
66 CTTGTAAAGATTATATTAGATTTGATATGGCATATCTTGTAAATCTCTAAAATAAAGGGATATGG
13985690 TTAATCTCGTCCGTCAATGTAAATGTATCTTGACCGTTGGTTTTGGGGGAGCTCAACTATAAATA
131 TTAATCTCGTCCGTCAATGTAAATGTATCTTGACCGTTGGTTTTGGGGGAGCTCAACTATAAATA
13985755 GAGAGCCTCCCCCTCATTTGTACTAACTCCATTCATTGTTTCATTATTCTTTGTGAATAAGAGAA
196 GAGAGCCTCCCCCTCATTTGTACTAACTCCATTCATTGTTTCATTATTCTTTGTGAATAAGAGAA
13985820 TATTGATAGCATTTACTCAAACATTTTGTGTGCGCTTTTTCTGTTCTTTGTAGCTTCTTTTGGCA
261 TATTGATAGCATTTACTCAAACATTTTGTGTGCGCTTTTTCTGTTCTTTGTAGCTTCTTTTGGCA
13985885 TAAATCGCTTCCGCTCTTCAACTTGGTGCCTTGGAGGATTTCTTAAGGAATTCTCACTTGATTAA
326 TAAATCGCTTCCGCTCTTCAACTTGGTGCCTTGGAGGATTTCTTAAGGAATTCTCACTTGATTAA
13985950 AGGCTGATTTAGGGGAGCTTGGATGAACGGATCGCCTAAGGCCGCACGGATCGCGAGAAGAAAGG
391 AGGCTGATTTAGGGGAGCTTGGATGAACGGATCGCCTAAGGCCGCACGGATCGCGAGAAGAAAGG
13986015 TCTAACCCCGTGACAAGTGGTATCGAAGCTGTTGGTTCAAACCAACTGAT
456 TCTAACCCCGTGACAAGTGGTATCGAAGCTGTTGGTTCAAACCAACTGAT
13986065 AT
1 AT
13986067 CCGAGCTATT
Statistics
Matches: 507, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
505 507 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (505 bp):
ATTATGAAGATATGACAACTTAGGCTAATTTGGTAACTAATCCTAGAAGATTGAGGGAATTATAT
CTTGTAAAGATTATATTAGATTTGATATGGCATATCTTGTAAATCTCTAAAATAAAGGGATATGG
TTAATCTCGTCCGTCAATGTAAATGTATCTTGACCGTTGGTTTTGGGGGAGCTCAACTATAAATA
GAGAGCCTCCCCCTCATTTGTACTAACTCCATTCATTGTTTCATTATTCTTTGTGAATAAGAGAA
TATTGATAGCATTTACTCAAACATTTTGTGTGCGCTTTTTCTGTTCTTTGTAGCTTCTTTTGGCA
TAAATCGCTTCCGCTCTTCAACTTGGTGCCTTGGAGGATTTCTTAAGGAATTCTCACTTGATTAA
AGGCTGATTTAGGGGAGCTTGGATGAACGGATCGCCTAAGGCCGCACGGATCGCGAGAAGAAAGG
TCTAACCCCGTGACAAGTGGTATCGAAGCTGTTGGTTCAAACCAACTGAT
Found at i:13988850 original size:16 final size:17
Alignment explanation
Indices: 13988824--13988857 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13988814 TAAAATTTTC
13988824 AAAATAATATTTAATAT
1 AAAATAATATTTAATAT
*
13988841 AAAA-AATATTTATTAT
1 AAAATAATATTTAATAT
13988857 A
1 A
13988858 TTTATTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATAATATTTAATAT
Found at i:13995381 original size:25 final size:25
Alignment explanation
Indices: 13995353--13995413 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
13995343 CTGAGCTCAT
*
13995353 AGCTTGCACTTCTCGCTAAGCTCGC
1 AGCTTGCACATCTCGCTAAGCTCGC
* * *
13995378 AGCTTTG-ACATCTTGCTGAGCTTGC
1 AGC-TTGCACATCTCGCTAAGCTCGC
13995403 AGCTTGCACAT
1 AGCTTGCACAT
13995414 TGGAAAGCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 3 0.10
25 24 0.80
26 3 0.10
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.31
Consensus pattern (25 bp):
AGCTTGCACATCTCGCTAAGCTCGC
Found at i:14007146 original size:3 final size:3
Alignment explanation
Indices: 14007140--14007189 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
14007130 CTCGTCGTCG
* * *
14007140 TCA TCA TCA TCA TCA TCA TCT TGA TCA TCA TCA -GA GTCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA -TCA TCA TCA
14007185 TCA TC
1 TCA TC
14007190 TTTACCCTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 37 0.95
4 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:14015182 original size:25 final size:25
Alignment explanation
Indices: 14015154--14015208 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
14015144 TTACTGTATT
*
14015154 ATTGCCCAGATAAGCTTCCCGTTAC
1 ATTGCCCACATAAGCTTCCCGTTAC
* * *
14015179 ATTGCTCACATGAGCTTCCCGTTAT
1 ATTGCCCACATAAGCTTCCCGTTAC
14015204 ATTGC
1 ATTGC
14015209 TTGAGAGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (25 bp):
ATTGCCCACATAAGCTTCCCGTTAC
Found at i:14020189 original size:22 final size:23
Alignment explanation
Indices: 14020148--14020195 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
14020138 TTTTAGGTAA
*
14020148 AAAAATAGGTGTTTTAAAGGGTT
1 AAAAATAGGTGTATTAAAGGGTT
*
14020171 AAAATTAGGTGTATT-AAGGGTT
1 AAAAATAGGTGTATTAAAGGGTT
14020193 AAA
1 AAA
14020196 CCATCGAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (23 bp):
AAAAATAGGTGTATTAAAGGGTT
Found at i:14032879 original size:31 final size:31
Alignment explanation
Indices: 14032844--14032920 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
14032834 GTGAAAATGG
*
14032844 GCCCACAAGCCCATGACATTT-CCTCGTGTGA
1 GCCCACACGCCCATGACATTTGCC-CGTGTGA
*
14032875 GCCCACACGCCCATGACATTTGCCCGTGTGG
1 GCCCACACGCCCATGACATTTGCCCGTGTGA
14032906 GCCCACACGCCCATG
1 GCCCACACGCCCATG
14032921 TGGCCCACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
31 41 0.95
32 2 0.05
ACGTcount: A:0.19, C:0.40, G:0.22, T:0.18
Consensus pattern (31 bp):
GCCCACACGCCCATGACATTTGCCCGTGTGA
Found at i:14039539 original size:20 final size:20
Alignment explanation
Indices: 14039512--14039562 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
14039502 ATTTACCTCG
*
14039512 AGTATCGATACTTGAGC-AA
1 AGTATCGATACTCGAGCAAA
14039531 AGATATCGATACTCGAGCAAA
1 AG-TATCGATACTCGAGCAAA
14039552 AGTATCGATAC
1 AGTATCGATAC
14039563 CAAATCTCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 23 0.79
21 4 0.14
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (20 bp):
AGTATCGATACTCGAGCAAA
Found at i:14045254 original size:29 final size:29
Alignment explanation
Indices: 14045190--14045255 Score: 98
Period size: 28 Copynumber: 2.2 Consensus size: 29
14045180 GTTTGACTAG
*
14045190 ATTATAATTAATTATTTTATTAAGATAAAT
1 ATTA-AATTAATCATTTTATTAAGATAAAT
14045220 ATTAAATTAATCA-TTTATTAAGATAAAT
1 ATTAAATTAATCATTTTATTAAGATAAAT
14045248 ATCTAAAT
1 AT-TAAAT
14045256 AAATATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 17 0.50
29 13 0.38
30 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (29 bp):
ATTAAATTAATCATTTTATTAAGATAAAT
Found at i:14045277 original size:29 final size:29
Alignment explanation
Indices: 14045245--14045340 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
14045235 TATTAAGATA
14045245 AATATCTAAATAAATATTAAATTACATTT
1 AATATCTAAATAAATATTAAATTACATTT
* * ** **
14045274 AATATCTCATATTAATATTGCATTACTAAAAT
1 AATATCT-AAATAAATATTAAATTAC--ATTT
* * * *
14045306 ACTATCTAGATAAATATTAAATGAAATTT
1 AATATCTAAATAAATATTAAATTACATTT
14045335 AATATC
1 AATATC
14045341 AGATATTAAT
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 14 0.29
30 14 0.29
31 12 0.25
32 8 0.17
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (29 bp):
AATATCTAAATAAATATTAAATTACATTT
Found at i:14047159 original size:46 final size:47
Alignment explanation
Indices: 14047090--14047199 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 47
14047080 ACAGTAGTTT
** * * *
14047090 AGATAAACTATCAATAGTCAAAATTGTGAAC-AGCCACCAAAATCGC
1 AGATAAACTGCCAATAATCAAAATCGTGAACAAGCCACCAAAATCAC
* * *
14047136 AGATATACTGCTAATAATCAAAATCGTGGACAAGCCACCAAAATCAC
1 AGATAAACTGCCAATAATCAAAATCGTGAACAAGCCACCAAAATCAC
14047183 AGATAAACTGCCAATAA
1 AGATAAACTGCCAATAA
14047200 CTTTCACCTT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
46 24 0.45
47 29 0.55
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.19
Consensus pattern (47 bp):
AGATAAACTGCCAATAATCAAAATCGTGAACAAGCCACCAAAATCAC
Found at i:14049721 original size:188 final size:188
Alignment explanation
Indices: 14049399--14049772 Score: 658
Period size: 188 Copynumber: 2.0 Consensus size: 188
14049389 CAAGACTAGC
14049399 CATCTTCCTAATCGAAATTGTAAAAGACATAATAATCCTTCTATATATTTGAATCAAATGTTCAC
1 CATCTTCCTAATCGAAATTGTAAAAGACATAATAATCCTTCTATATATTTGAATCAAATGTTCAC
* * *
14049464 TTTGATTCTTTTATAGGATTACGAACGCATTTAGATTATTTTCTAAAGTAATTTATTCTTCTCGC
66 TTTGATTCTTTTACAGGATTACGAACGCATTTAGATTATTTGCTAAAGTAAGTTATTCTTCTCGC
*
14049529 AATGAAAATATTCTTGCAGTGCCACTTATCATCAGCTTGAACTTAGACAAACAATGTT
131 AATGAAAATATTATTGCAGTGCCACTTATCATCAGCTTGAACTTAGACAAACAATGTT
* * * *
14049587 CATCTTCCTAATTGAAATTGTAGACGACATAATAATCCTTTTATATATTTGAATCAAATGTTCAC
1 CATCTTCCTAATCGAAATTGTAAAAGACATAATAATCCTTCTATATATTTGAATCAAATGTTCAC
* *
14049652 TTTGATTCTTTTACAGGATTACGAACTCATTTAGATTATTTGCTAAAGTAAGTTATTCTTCTTGC
66 TTTGATTCTTTTACAGGATTACGAACGCATTTAGATTATTTGCTAAAGTAAGTTATTCTTCTCGC
14049717 AATGAAAATATTATTGCAGTGCCACTTATCATCAGCTTGAACTTAGACAAACAATG
131 AATGAAAATATTATTGCAGTGCCACTTATCATCAGCTTGAACTTAGACAAACAATG
14049773 AGCTAATATG
Statistics
Matches: 176, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
188 176 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (188 bp):
CATCTTCCTAATCGAAATTGTAAAAGACATAATAATCCTTCTATATATTTGAATCAAATGTTCAC
TTTGATTCTTTTACAGGATTACGAACGCATTTAGATTATTTGCTAAAGTAAGTTATTCTTCTCGC
AATGAAAATATTATTGCAGTGCCACTTATCATCAGCTTGAACTTAGACAAACAATGTT
Found at i:14053208 original size:36 final size:37
Alignment explanation
Indices: 14053102--14053506 Score: 410
Period size: 36 Copynumber: 11.0 Consensus size: 37
14053092 AAAAATGGAA
*
14053102 TACTGATTCTACT-AAAGTACTC-AACGAGCAATATC
1 TACTGATTCTACTAAAAGTGCTCAAACGAGCAATATC
*
14053137 TACTGATTCTACTAAAAGTGCTTAAACGAGCAATATC
1 TACTGATTCTACTAAAAGTGCTCAAACGAGCAATATC
*
14053174 TACTGATTTTACTAAAAGTGCTC-AACGAGCAATATC
1 TACTGATTCTACTAAAAGTGCTCAAACGAGCAATATC
* * **
14053210 TACTGA-TCTTACTGAATGTGCTC-AGTGAGCAATATC
1 TACTGATTC-TACTAAAAGTGCTCAAACGAGCAATATC
* * * *
14053246 TACTGATCCTACTGAATGTGCTCAAACGAGCAATGTC
1 TACTGATTCTACTAAAAGTGCTCAAACGAGCAATATC
* * *
14053283 TATTGATTCTACTGAAAGTGCTCAAATGAGCAATATC
1 TACTGATTCTACTAAAAGTGCTCAAACGAGCAATATC
* *
14053320 TACTAATTCTACTAAAAGTGCTC-AACAAGCAATATC
1 TACTGATTCTACTAAAAGTGCTCAAACGAGCAATATC
* * * * * * *
14053356 TACCGATCCTATTGAATGTGCTCAAATGAGCAATGTC
1 TACTGATTCTACTAAAAGTGCTCAAACGAGCAATATC
* * * *
14053393 TACTGATTCTGCT-GAACTGCTCAAACAAGCAATATC
1 TACTGATTCTACTAAAAGTGCTCAAACGAGCAATATC
*
14053429 TACTGATTCTACTAAATAGTTGCTCAAATGAGCAATATC
1 TACTGATTCTACTAAA-AG-TGCTCAAACGAGCAATATC
* * * * * *
14053468 CATTGATTATACTGAATGCTTGCTCAAACGAGCATTATC
1 TACTGATTCTACTAAAAG--TGCTCAAACGAGCAATATC
14053507 CAATGATTAT
Statistics
Matches: 306, Mismatches: 54, Indels: 16
0.81 0.14 0.04
Matches are distributed among these distances:
35 14 0.05
36 126 0.41
37 117 0.38
38 2 0.01
39 47 0.15
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (37 bp):
TACTGATTCTACTAAAAGTGCTCAAACGAGCAATATC
Found at i:14053231 original size:73 final size:72
Alignment explanation
Indices: 14053102--14053523 Score: 443
Period size: 73 Copynumber: 5.7 Consensus size: 72
14053092 AAAAATGGAA
* * * * *
14053102 TACTGATTCTACTAAAGTACTCAACGAGCAATATCTACTGATTCTACTAAAAGTGCTTAAACGAG
1 TACTGATTCTACTAAAGTGCTCAACGAGCAATATCTACTGATTCTACTGAATGTGCTCAAATGAG
14053167 CAATATC
66 CAATATC
* *
14053174 TACTGATTTTACTAAAAGTGCTCAACGAGCAATATCTACTGA-TCTTACTGAATGTGCTC-AGTG
1 TACTGATTCTACT-AAAGTGCTCAACGAGCAATATCTACTGATTC-TACTGAATGTGCTCAAATG
14053237 AGCAATATC
64 AGCAATATC
* * * * *
14053246 TACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTATTGATTCTACTGAAAGTGCTCAAATG
1 TACTGATTCTACT-AAAGTGCTC-AACGAGCAATATCTACTGATTCTACTGAATGTGCTCAAATG
14053311 AGCAATATC
64 AGCAATATC
* * * * *
14053320 TACTAATTCTACTAAAAGTGCTCAACAAGCAATATCTACCGATCCTATTGAATGTGCTCAAATGA
1 TACTGATTCTACT-AAAGTGCTCAACGAGCAATATCTACTGATTCTACTGAATGTGCTCAAATGA
*
14053385 GCAATGTC
65 GCAATATC
* * * * *
14053393 TACTGATTCTGCTGAACTGCTCAAACAAGCAATATCTACTGATTCTACTAAATAGTTGCTCAAAT
1 TACTGATTCTACTAAAGTGCTC-AACGAGCAATATCTACTGATTCTACTGAAT-G-TGCTCAAAT
14053458 GAGCAATATC
63 GAGCAATATC
* * * * * * * *
14053468 CATTGATTATACTGAATGCTTGCTCAAACGAGCATTATCCAATGATTATACTGAAT
1 TACTGATTCTACT-AAAG--TGCTC-AACGAGCAATATCTACTGATTCTACTGAAT
14053524 AAGATTTTTT
Statistics
Matches: 290, Mismatches: 49, Indels: 16
0.82 0.14 0.05
Matches are distributed among these distances:
72 51 0.18
73 147 0.51
74 34 0.12
75 27 0.09
76 1 0.00
78 30 0.10
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (72 bp):
TACTGATTCTACTAAAGTGCTCAACGAGCAATATCTACTGATTCTACTGAATGTGCTCAAATGAG
CAATATC
Found at i:14053414 original size:146 final size:145
Alignment explanation
Indices: 14053102--14053467 Score: 518
Period size: 146 Copynumber: 2.5 Consensus size: 145
14053092 AAAAATGGAA
* * * *
14053102 TACTGATTCTACTAAAGTACTC-AACGAGCAATATCTACTGATTCTACTAAAAGTGCTTAAACGA
1 TACTGATTCTACTGAAGTGCTCAAACGAGCAATATCTACTGATTCTACTAAAAGTGCTCAAATGA
* * * * *
14053166 GCAATATCTACTGATTTTACTAAAAGTGCTCAACGAGCAATATCTACTGATCTTACTGAATGTGC
66 GCAATATCTACTAATTCTACTAAAAGTGCTCAACAAGCAATATCTACCGATCCTACTGAATGTGC
*
14053231 TCAGTGAGCAATATC
131 TCAATGAGCAATATC
* * * *
14053246 TACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTATTGATTCTACTGAAAGTGCTCAAATG
1 TACTGATTCTACTGAA-GTGCTCAAACGAGCAATATCTACTGATTCTACTAAAAGTGCTCAAATG
*
14053311 AGCAATATCTACTAATTCTACTAAAAGTGCTCAACAAGCAATATCTACCGATCCTATTGAATGTG
65 AGCAATATCTACTAATTCTACTAAAAGTGCTCAACAAGCAATATCTACCGATCCTACTGAATGTG
*
14053376 CTCAAATGAGCAATGTC
130 CTC-AATGAGCAATATC
* * *
14053393 TACTGATTCTGCTGAACTGCTCAAACAAGCAATATCTACTGATTCTACTAAATAGTTGCTCAAAT
1 TACTGATTCTACTGAAGTGCTCAAACGAGCAATATCTACTGATTCTACTAAA-AG-TGCTCAAAT
14053458 GAGCAATATC
64 GAGCAATATC
14053468 CATTGATTAT
Statistics
Matches: 194, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
144 14 0.07
145 5 0.03
146 129 0.66
147 27 0.14
148 19 0.10
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (145 bp):
TACTGATTCTACTGAAGTGCTCAAACGAGCAATATCTACTGATTCTACTAAAAGTGCTCAAATGA
GCAATATCTACTAATTCTACTAAAAGTGCTCAACAAGCAATATCTACCGATCCTACTGAATGTGC
TCAATGAGCAATATC
Found at i:14064527 original size:56 final size:56
Alignment explanation
Indices: 14064421--14064621 Score: 240
Period size: 56 Copynumber: 3.6 Consensus size: 56
14064411 TATTTGTAAA
* * * * * * **
14064421 ATAGCCTTGACAAATTTCCACTTATAATATATTTCTGAAAAACTTTCACATATAAG
1 ATAGTCTTGACAGACTTCCACATATAAGATAGTTCTGATGAACTTTCACATATAAG
** * * *
14064477 ATAGTCTTGATGGACTTCCACATATAAGATAGTTTTGATGGACTTCCACATATAAG
1 ATAGTCTTGACAGACTTCCACATATAAGATAGTTCTGATGAACTTTCACATATAAG
* * *
14064533 ATAGTTTTGACAAACTTTCACATATAAGATAGTTCTGATGAACTTTCACATATAAG
1 ATAGTCTTGACAGACTTCCACATATAAGATAGTTCTGATGAACTTTCACATATAAG
* *
14064589 ATAGTCTTGGCAGACTTCTACATATAAGATAGT
1 ATAGTCTTGACAGACTTCCACATATAAGATAGT
14064622 CCTTACGAAC
Statistics
Matches: 119, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (56 bp):
ATAGTCTTGACAGACTTCCACATATAAGATAGTTCTGATGAACTTTCACATATAAG
Found at i:14064583 original size:84 final size:85
Alignment explanation
Indices: 14064421--14064621 Score: 255
Period size: 84 Copynumber: 2.4 Consensus size: 85
14064411 TATTTGTAAA
* * * * *
14064421 ATAGCCTTGACAAATTTCCACTTATAATATA-TTTCTGAAAAACTTTCACATATAAGATAGTCTT
1 ATAGTCTTGACAGACTTCCACATATAAGATAGTTTCTGAAAAACTTTCACATATAAGATAGTCTT
*
14064485 GATGGACTTCCACATATAAG
66 GATGAACTTCCACATATAAG
* ** *
14064505 ATAGTTTTGATGGACTTCCACATATAAGATAGTTT-TGACAAACTTTCACATATAAGATAGT-TC
1 ATAGTCTTGACAGACTTCCACATATAAGATAGTTTCTGAAAAACTTTCACATATAAGATAGTCT-
*
14064568 TGATGAACTTTCACATATAAG
65 TGATGAACTTCCACATATAAG
* *
14064589 ATAGTCTTGGCAGACTTCTACATATAAGATAGT
1 ATAGTCTTGACAGACTTCCACATATAAGATAGT
14064622 CCTTACGAAC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
83 1 0.01
84 95 0.96
85 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (85 bp):
ATAGTCTTGACAGACTTCCACATATAAGATAGTTTCTGAAAAACTTTCACATATAAGATAGTCTT
GATGAACTTCCACATATAAG
Found at i:14064592 original size:28 final size:28
Alignment explanation
Indices: 14064443--14064593 Score: 178
Period size: 28 Copynumber: 5.4 Consensus size: 28
14064433 AATTTCCACT
* * **
14064443 TATAATATATTTCTGAAAAACTTTCACA
1 TATAAGATAGTTCTGATGAACTTTCACA
* *
14064471 TATAAGATAG-TCTTGATGGACTTCCACA
1 TATAAGATAGTTC-TGATGAACTTTCACA
* * *
14064499 TATAAGATAGTTTTGATGGACTTCCACA
1 TATAAGATAGTTCTGATGAACTTTCACA
* **
14064527 TATAAGATAGTTTTGACAAACTTTCACA
1 TATAAGATAGTTCTGATGAACTTTCACA
14064555 TATAAGATAGTTCTGATGAACTTTCACA
1 TATAAGATAGTTCTGATGAACTTTCACA
14064583 TATAAGATAGT
1 TATAAGATAGT
14064594 CTTGGCAGAC
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 2 0.02
28 104 0.97
29 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (28 bp):
TATAAGATAGTTCTGATGAACTTTCACA
Found at i:14064605 original size:28 final size:28
Alignment explanation
Indices: 14064462--14064622 Score: 175
Period size: 28 Copynumber: 5.8 Consensus size: 28
14064452 TTTCTGAAAA
**
14064462 ACTTTCACATATAAGATAGTCTTGATGG
1 ACTTTCACATATAAGATAGTCTTGACAG
* * **
14064490 ACTTCCACATATAAGATAGTTTTGATGG
1 ACTTTCACATATAAGATAGTCTTGACAG
* * *
14064518 ACTTCCACATATAAGATAGTTTTGACAA
1 ACTTTCACATATAAGATAGTCTTGACAG
*
14064546 ACTTTCACATATAAGATAGT-TCTGA-TG
1 ACTTTCACATATAAGATAGTCT-TGACAG
*
14064573 AACTTTCACATATAAGATAGTCTTGGCAG
1 -ACTTTCACATATAAGATAGTCTTGACAG
14064602 AC-TTCTACATATAAGATAGTC
1 ACTTTC-ACATATAAGATAGTC
14064623 CTTACGAACT
Statistics
Matches: 118, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.03
28 112 0.95
29 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (28 bp):
ACTTTCACATATAAGATAGTCTTGACAG
Found at i:14064633 original size:28 final size:28
Alignment explanation
Indices: 14064468--14064642 Score: 164
Period size: 28 Copynumber: 6.2 Consensus size: 28
14064458 AAAAACTTTC
* *
14064468 ACATATAAGATAGTCTTGATGGACTTCC
1 ACATATAAGATAGTCTTGATGAACTTCT
* * *
14064496 ACATATAAGATAGTTTTGATGGACTTCC
1 ACATATAAGATAGTCTTGATGAACTTCT
* **
14064524 ACATATAAGATAGTTTTGACAAACTT-T
1 ACATATAAGATAGTCTTGATGAACTTCT
14064551 CACATATAAGATAGT-TCTGATGAACTT-T
1 -ACATATAAGATAGTCT-TGATGAACTTCT
14064579 CACATATAAGATAGTCTTG--GCAGACTTCT
1 -ACATATAAGATAGTCTTGATG-A-ACTTCT
*
14064608 ACATATAAGATAGTCCTT-ACGAACTTCT
1 ACATATAAGATAGT-CTTGATGAACTTCT
*
14064636 GCATATA
1 ACATATA
14064643 TTTCATAACT
Statistics
Matches: 130, Mismatches: 8, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
26 1 0.01
27 2 0.02
28 120 0.92
29 6 0.05
30 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (28 bp):
ACATATAAGATAGTCTTGATGAACTTCT
Found at i:14064641 original size:56 final size:55
Alignment explanation
Indices: 14064468--14064642 Score: 183
Period size: 56 Copynumber: 3.1 Consensus size: 55
14064458 AAAAACTTTC
** * * * *
14064468 ACATATAAGATAGTCTTGATGGACTTCCACATATAAGATAGTTTTGATGGACTTCC
1 ACATATAAGATAGTCTTGACAGACTTCTACATATAAGATAGTCTT-ATGAACTTCT
* * *
14064524 ACATATAAGATAGTTTTGACAAACTT-TCACATATAAGATAGTTCTGATGAACTT-T
1 ACATATAAGATAGTCTTGACAGACTTCT-ACATATAAGATAG-TCTTATGAACTTCT
* *
14064579 CACATATAAGATAGTCTTGGCAGACTTCTACATATAAGATAGTCCTTACGAACTTCT
1 -ACATATAAGATAGTCTTGACAGACTTCTACATATAAGATAGT-CTTATGAACTTCT
*
14064636 GCATATA
1 ACATATA
14064643 TTTCATAACT
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
55 1 0.01
56 93 0.95
57 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (55 bp):
ACATATAAGATAGTCTTGACAGACTTCTACATATAAGATAGTCTTATGAACTTCT
Found at i:14065995 original size:27 final size:27
Alignment explanation
Indices: 14065957--14066011 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
14065947 TGGTGCCACA
14065957 AATTAACTCGACATCAACTTAGTATTG
1 AATTAACTCGACATCAACTTAGTATTG
14065984 AATTAACTCGACATCAACTTAGTATTG
1 AATTAACTCGACATCAACTTAGTATTG
14066011 A
1 A
14066012 TAACAACACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
AATTAACTCGACATCAACTTAGTATTG
Found at i:14067467 original size:108 final size:108
Alignment explanation
Indices: 14067278--14067494 Score: 407
Period size: 108 Copynumber: 2.0 Consensus size: 108
14067268 GAGTAAAGCG
* *
14067278 TGCCGACTATGGGGCGGTGATGGATTTAGCAATATTCACCCCACCTCGTCCCGTTCCATTGCCAT
1 TGCCGACTATGGAGCGGTGATGGATTTAGCAATATTCACCCCACCTCGTCCCGCTCCATTGCCAT
14067343 CCCTACTTAGAAAAACTACGAAAATGTCATTCCGTATTTAAAA
66 CCCTACTTAGAAAAACTACGAAAATGTCATTCCGTATTTAAAA
*
14067386 TGCCGACTATGGAGCGGTGATGGATTTAGCAATATTCACCCCACCTCGTCCCGCTCCATTGTCAT
1 TGCCGACTATGGAGCGGTGATGGATTTAGCAATATTCACCCCACCTCGTCCCGCTCCATTGCCAT
14067451 CCCTACTTAGAAAAACTACGAAAATGTCATTCCGTATTTAAAA
66 CCCTACTTAGAAAAACTACGAAAATGTCATTCCGTATTTAAAA
14067494 T
1 T
14067495 AAGTTATATT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (108 bp):
TGCCGACTATGGAGCGGTGATGGATTTAGCAATATTCACCCCACCTCGTCCCGCTCCATTGCCAT
CCCTACTTAGAAAAACTACGAAAATGTCATTCCGTATTTAAAA
Found at i:14070666 original size:22 final size:21
Alignment explanation
Indices: 14070622--14070676 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
14070612 TATTCACTAA
*
14070622 TTAATTTCTATAATGGATGTT
1 TTAATTTCTATAATGAATGTT
14070643 TTAATTTCTTGATAAT-AATGTT
1 TTAATTTC-T-ATAATGAATGTT
*
14070665 TT-ATTTCAATAA
1 TTAATTTCTATAA
14070677 CTTCACTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.13
21 13 0.43
22 8 0.27
23 5 0.17
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (21 bp):
TTAATTTCTATAATGAATGTT
Found at i:14071139 original size:18 final size:18
Alignment explanation
Indices: 14071099--14071141 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
14071089 AATATTGCTT
* * *
14071099 CTAAAAGGTATTTTTGGG
1 CTAAAAAGTACTTTTGAG
*
14071117 ATAAAAAGTACTTTTGAG
1 CTAAAAAGTACTTTTGAG
14071135 CTAAAAA
1 CTAAAAA
14071142 TATTGCTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.33
Consensus pattern (18 bp):
CTAAAAAGTACTTTTGAG
Found at i:14071648 original size:30 final size:30
Alignment explanation
Indices: 14071614--14071675 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
14071604 ACTTATTTTT
14071614 ACATGACTCAAATATGAAATACATTTCGAA
1 ACATGACTCAAATATGAAATACATTTCGAA
14071644 ACATGACTCAAATATGAAATACATTTCGAA
1 ACATGACTCAAATATGAAATACATTTCGAA
14071674 AC
1 AC
14071676 TCAGGAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.26
Consensus pattern (30 bp):
ACATGACTCAAATATGAAATACATTTCGAA
Found at i:14072229 original size:31 final size:30
Alignment explanation
Indices: 14072172--14072229 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
14072162 ATAAATATTA
**
14072172 AATTTATAAATGAACTTTTCTCTGATGTAT
1 AATTTATAAATGAACTTTGATCTGATGTAT
* *
14072202 AATTTGATACATGAACTTTGATTTGATG
1 AATTT-ATAAATGAACTTTGATCTGATG
14072230 CATTGCGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 5 0.22
31 18 0.78
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (30 bp):
AATTTATAAATGAACTTTGATCTGATGTAT
Found at i:14081698 original size:16 final size:16
Alignment explanation
Indices: 14081677--14081708 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14081667 TTTATAACTG
*
14081677 CTATGTATTTATATAT
1 CTATGTATGTATATAT
14081693 CTATGTATGTATATAT
1 CTATGTATGTATATAT
14081709 TTGAAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (16 bp):
CTATGTATGTATATAT
Found at i:14099852 original size:21 final size:21
Alignment explanation
Indices: 14099823--14099863 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14099813 TTGGAGTAAC
* *
14099823 TCTATCATTAGCGCTAGTTGA
1 TCTAGCATTACCGCTAGTTGA
*
14099844 TCTAGCATTACCTCTAGTTG
1 TCTAGCATTACCGCTAGTTG
14099864 TTCGAATATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (21 bp):
TCTAGCATTACCGCTAGTTGA
Found at i:14102337 original size:14 final size:14
Alignment explanation
Indices: 14102292--14102355 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
14102282 CTAATTTTAT
*
14102292 ATTTTCAATCTTCAA
1 ATTTTCAAT-TTCCA
*
14102307 ATTTT-AATTT-TA
1 ATTTTCAATTTCCA
*
14102319 ATTTTCACTTTCCA
1 ATTTTCAATTTCCA
*
14102333 ATTTTCAATTTCAA
1 ATTTTCAATTTCCA
*
14102347 AATTTCAAT
1 ATTTTCAAT
14102356 CCTCAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
12 6 0.15
13 6 0.15
14 24 0.59
15 5 0.12
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTTCAATTTCCA
Found at i:14102343 original size:7 final size:7
Alignment explanation
Indices: 14102277--14102343 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
14102267 TCCAATCCCC
14102277 ATTTTCTA
1 ATTTTC-A
14102285 ATTTT-A
1 ATTTTCA
14102291 TATTTTCA
1 -ATTTTCA
*
14102299 ATCTTCAA
1 ATTTTC-A
14102307 ATTTT-A
1 ATTTTCA
14102313 ATTTT-A
1 ATTTTCA
14102319 ATTTTCA
1 ATTTTCA
* *
14102326 CTTTCCA
1 ATTTTCA
14102333 ATTTTCA
1 ATTTTCA
14102340 ATTT
1 ATTT
14102344 CAAAATTTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
6 13 0.27
7 25 0.51
8 11 0.22
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTTCA
Found at i:14103278 original size:101 final size:100
Alignment explanation
Indices: 14103191--14103393 Score: 361
Period size: 101 Copynumber: 2.0 Consensus size: 100
14103181 ATTTAGTGGT
14103191 TAATTAGAAAAAGAAATTATTGAAAAAATTGGGTAAAAATAAGGTATCGAGACCTCGATATCGTA
1 TAATTAG-AAAAGAAATTATTGAAAAAATTGGGTAAAAATAAGGTATCGAGACCTCGATATCGTA
*
14103256 AAATCGAGTCAAAAACATTTTTATAAATATTTATGAA
65 AAATCGAGTCAAAAACATTTTT-TAAAGATTTATGAA
14103293 TAATTAGAAAAGAAATTATTGAAAAAATTGGGTAAAAATAAGGTATCGAGACCTCGATATCGTAA
1 TAATTAGAAAAGAAATTATTGAAAAAATTGGGTAAAAATAAGGTATCGAGACCTCGATATCGTAA
*
14103358 AATCGAGTCAAAAACATTTTTATAAAAATTTATGAA
66 AATCGAGTCAAAAACATTTTT-TAAAGATTTATGAA
14103394 GTGTTAGTAA
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
101 93 0.93
102 7 0.07
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (100 bp):
TAATTAGAAAAGAAATTATTGAAAAAATTGGGTAAAAATAAGGTATCGAGACCTCGATATCGTAA
AATCGAGTCAAAAACATTTTTTAAAGATTTATGAA
Found at i:14103578 original size:7 final size:7
Alignment explanation
Indices: 14103566--14103613 Score: 96
Period size: 7 Copynumber: 6.9 Consensus size: 7
14103556 GAGATATTTT
14103566 GGGTTTA
1 GGGTTTA
14103573 GGGTTTA
1 GGGTTTA
14103580 GGGTTTA
1 GGGTTTA
14103587 GGGTTTA
1 GGGTTTA
14103594 GGGTTTA
1 GGGTTTA
14103601 GGGTTTA
1 GGGTTTA
14103608 GGGTTT
1 GGGTTT
14103614 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.12, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:14114825 original size:20 final size:19
Alignment explanation
Indices: 14114779--14114825 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
14114769 TACAAAAAGT
*
14114779 TTCAAAATAATTTTTAAAA
1 TTCAAAATAATTTATAAAA
14114798 TTCAAAAT-ATTTATAGAAA
1 TTCAAAATAATTTATA-AAA
14114817 TTACAAAAT
1 TT-CAAAAT
14114826 TTATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 13 0.52
20 6 0.24
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (19 bp):
TTCAAAATAATTTATAAAA
Found at i:14118179 original size:15 final size:16
Alignment explanation
Indices: 14118148--14118180 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14118138 TTCATATATG
*
14118148 TAATTTTAATTATTTT
1 TAATTTTAATAATTTT
14118164 TAATTTT-ATAATTTT
1 TAATTTTAATAATTTT
14118179 TA
1 TA
14118181 TAACAGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TAATTTTAATAATTTT
Found at i:14119152 original size:20 final size:18
Alignment explanation
Indices: 14119112--14119148 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14119102 TTATGCCAGG
*
14119112 TGTGTATCCTATCCCTTA
1 TGTGTATCCTAACCCTTA
14119130 TGTGTATCCTAACCCTTA
1 TGTGTATCCTAACCCTTA
14119148 T
1 T
14119149 ATGTTTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.43
Consensus pattern (18 bp):
TGTGTATCCTAACCCTTA
Found at i:14119157 original size:18 final size:18
Alignment explanation
Indices: 14119114--14119157 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14119104 ATGCCAGGTG
* *
14119114 TGTATCCTATCCCTTATG
1 TGTATCCTAACCCTTATA
14119132 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
14119150 TGTTTCCT
1 TGTATCCT
14119158 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:14123029 original size:126 final size:126
Alignment explanation
Indices: 14122671--14123048 Score: 535
Period size: 127 Copynumber: 3.0 Consensus size: 126
14122661 TAAGGTCAAA
14122671 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
*
14122736 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * * * * *
14122797 CAGGAACTACTATAAAAAAAAGAGCGTCCACATAGGAGCTTTTTTCATCAGTTTTACTGACAGTA
1 TAGGAACTACTGT-AGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTG
* * *
14122862 CATCTTGCTTGAAGCATTTTTGACACTATTTGTTCAAAACCGTCTTCTCAAAATTATTTTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
14122924 TAGGAACTACGGTAGAAAAAGAGCATCCACGTGGGAGCTCTTTTCAGT-AATTTTGCTGACAGTG
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TCAATTTTGCTGACAGTG
* * * * *
14122988 CATCCTACTTGAAGCGTTTTTCACATTATCTT-TTCAGAACCGTCTTTTCAAAATTAATTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTAT-TTGTTCAGAACCGTCTTCTCAAAATTATTTTT
14123049 CCTAAAACAA
Statistics
Matches: 218, Mismatches: 31, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
126 102 0.47
127 116 0.53
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (126 bp):
TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:14123159 original size:34 final size:34
Alignment explanation
Indices: 14123117--14123248 Score: 130
Period size: 34 Copynumber: 4.0 Consensus size: 34
14123107 CTAAACACAA
14123117 AATTATTTTTTTTTAAAA-ACTAAACCCTAATTT
1 AATTATTTTTTTTTAAAACACTAAACCCTAATTT
* * * * *
14123150 AATTAATTTTCTTAAAAACTCTAAACTCTAATTT
1 AATTATTTTTTTTTAAAACACTAAACCCTAATTT
* * * * *
14123184 TATT-TATTTATTTAAAACCCCTAAAACCTAATTT
1 AATTATTTTTTTTTAAAA-CACTAAACCCTAATTT
14123218 -A--ATTTTTTTTTAAAACACTAAACCCTAATTT
1 AATTATTTTTTTTTAAAACACTAAACCCTAATTT
14123249 TAAAAAAAAT
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
31 14 0.18
32 11 0.14
33 25 0.32
34 29 0.37
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (34 bp):
AATTATTTTTTTTTAAAACACTAAACCCTAATTT
Found at i:14123295 original size:20 final size:20
Alignment explanation
Indices: 14123272--14123330 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
14123262 AAACCCTAAA
14123272 CCTAAATTATTTTAACAAAC
1 CCTAAATTATTTTAACAAAC
* *
14123292 CCTACCACTA---TAACCATAAC
1 CCTA-AATTATTTTAA-CA-AAC
14123312 CCTAAATTATTTTAACAAA
1 CCTAAATTATTTTAACAAA
14123331 AATCTAACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
18 3 0.10
19 5 0.17
20 13 0.45
21 5 0.17
22 3 0.10
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (20 bp):
CCTAAATTATTTTAACAAAC
Found at i:14129207 original size:14 final size:15
Alignment explanation
Indices: 14129173--14129211 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
14129163 TATGTATATT
14129173 TTTTATTAAATTGAA
1 TTTTATTAAATTGAA
* *
14129188 TGTTATTATA-TGAA
1 TTTTATTAAATTGAA
14129202 TTTTATTAAA
1 TTTTATTAAA
14129212 AATGAATCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (15 bp):
TTTTATTAAATTGAA
Found at i:14131172 original size:12 final size:12
Alignment explanation
Indices: 14131155--14131184 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14131145 CCGTGTGTGA
14131155 CACACGGCCTAG
1 CACACGGCCTAG
*
14131167 CACACGGCCTGG
1 CACACGGCCTAG
14131179 CACACG
1 CACACG
14131185 AGTGTGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.43, G:0.27, T:0.07
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:14139990 original size:2 final size:2
Alignment explanation
Indices: 14139983--14140013 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14139973 TTCCATTTTA
14139983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14140014 AGATTACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14142198 original size:16 final size:18
Alignment explanation
Indices: 14142177--14142221 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
14142167 CTAAGCCTTG
*
14142177 AATATTTTT-TTAATAT-
1 AATATTTTTGTTAAAATC
14142193 AATATTTTTGTTAAAATC
1 AATATTTTTGTTAAAATC
14142211 AATATTATTTG
1 AATATT-TTTG
14142222 ATGTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 9 0.36
17 6 0.24
18 6 0.24
19 4 0.16
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (18 bp):
AATATTTTTGTTAAAATC
Found at i:14146054 original size:20 final size:19
Alignment explanation
Indices: 14146012--14146055 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
14146002 TCCAAACATC
*
14146012 AGAAAAGTAAATTATTTCT
1 AGAAAAGTAAATTATTTCG
14146031 AGAAAAGTAAATTATTTTCG
1 AGAAAAGTAAATTA-TTTCG
14146051 AGAAA
1 AGAAA
14146056 TTATTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.32
Consensus pattern (19 bp):
AGAAAAGTAAATTATTTCG
Found at i:14146071 original size:15 final size:15
Alignment explanation
Indices: 14146039--14146076 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
14146029 CTAGAAAAGT
14146039 AAATTA-TTTTCGAG
1 AAATTATTTTTCGAG
14146053 AAATTATTTTTC-AG
1 AAATTATTTTTCGAG
*
14146067 AAAATATTTT
1 AAATTATTTT
14146077 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (15 bp):
AAATTATTTTTCGAG
Found at i:14149182 original size:19 final size:19
Alignment explanation
Indices: 14149152--14149196 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
14149142 TTTACGAGGA
14149152 AATTTAGAGCATGGTGTGCC
1 AATTT-GAGCATGGTGTGCC
*
14149172 AGTTTGAGCATGGTGTGCC
1 AATTTGAGCATGGTGTGCC
14149191 AATTTG
1 AATTTG
14149197 TTTGGGGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.33
Consensus pattern (19 bp):
AATTTGAGCATGGTGTGCC
Found at i:14153467 original size:29 final size:28
Alignment explanation
Indices: 14153394--14153565 Score: 127
Period size: 29 Copynumber: 5.8 Consensus size: 28
14153384 TTTCTTTCCA
*
14153394 TTTATTTTTGAAGCCCTTGTTTCACTTATTTT
1 TTTATTTTT-AAGCCCTTATTTCA---ATTTT
14153426 TTT-TCTTTTAAGCCCTTATTTCAATTTT
1 TTTAT-TTTTAAGCCCTTATTTCAATTTT
14153454 TTTATTTTTGAAGCCCTTATTT-AACCTTTT
1 TTTATTTTT-AAGCCCTTATTTCAA--TTTT
* *
14153484 TTT-TGCTTTTAAGTCCTTATTTCACTTTT
1 TTTAT--TTTTAAGCCCTTATTTCAATTTT
* *
14153513 TTAATTTTTAAAGCCCTAATTT-AACTTATT
1 TTTATTTTT-AAGCCCTTATTTCAA-TT-TT
** *
14153543 TTTGCTTTTAAGTCCTTATTTCA
1 TTTATTTTTAAGCCCTTATTTCA
14153566 CTACTTTTTT
Statistics
Matches: 115, Mismatches: 12, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
28 19 0.17
29 42 0.37
30 28 0.24
31 19 0.17
32 7 0.06
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.58
Consensus pattern (28 bp):
TTTATTTTTAAGCCCTTATTTCAATTTT
Found at i:14153506 original size:59 final size:59
Alignment explanation
Indices: 14153394--14153565 Score: 238
Period size: 59 Copynumber: 2.9 Consensus size: 59
14153384 TTTCTTTCCA
* * * * *
14153394 TTTATTTTTGAAGCCCTTGTTTCACTTATTTTTTTTCTTTTAAGCCCTTATTTCAATTTT
1 TTTATTTTTGAAGCCCTTATTTAACCT-TTTTTTTGCTTTTAAGTCCTTATTTCAATTTT
*
14153454 TTTATTTTTGAAGCCCTTATTTAACCTTTTTTTTGCTTTTAAGTCCTTATTTCACTTTT
1 TTTATTTTTGAAGCCCTTATTTAACCTTTTTTTTGCTTTTAAGTCCTTATTTCAATTTT
* * * *
14153513 TTAATTTTTAAAGCCCTAATTTAA-CTTATTTTTGCTTTTAAGTCCTTATTTCA
1 TTTATTTTTGAAGCCCTTATTTAACCTTTTTTTTGCTTTTAAGTCCTTATTTCA
14153566 CTACTTTTTT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
58 28 0.27
59 50 0.49
60 24 0.24
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.58
Consensus pattern (59 bp):
TTTATTTTTGAAGCCCTTATTTAACCTTTTTTTTGCTTTTAAGTCCTTATTTCAATTTT
Found at i:14153613 original size:58 final size:56
Alignment explanation
Indices: 14153422--14153602 Score: 172
Period size: 59 Copynumber: 3.1 Consensus size: 56
14153412 GTTTCACTTA
* * * * * *
14153422 TTTTTTTT-CTTTTAAGCCCTTATTTCAATTTTTTTATTTTTGAAGCCCTTATTTAACC
1 TTTTTTTTGCTTTTAAGTCCTTATTTCACTTTTTTAACTTTTAAAG-CC-AATTTAA-C
*
14153480 TTTTTTTTGCTTTTAAGTCCTTATTTCACTTTTTTAATTTTTAAAGCCCTAATTTAAC
1 TTTTTTTTGCTTTTAAGTCCTTATTTCACTTTTTTAACTTTTAAAG-CC-AATTTAAC
* *
14153538 TTATTTTTGCTTTTAAGTCCTTATTTCACTACTTTTTTTAACTTTTAATG-C-A-TTAAC
1 TTTTTTTTGCTTTTAAGTCCTTATTT--C-AC-TTTTTTAACTTTTAAAGCCAATTTAAC
14153595 TTTTTTTT
1 TTTTTTTT
14153603 TAGTTTTAAG
Statistics
Matches: 109, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
57 12 0.11
58 35 0.32
59 43 0.39
60 2 0.02
61 2 0.02
62 15 0.14
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.59
Consensus pattern (56 bp):
TTTTTTTTGCTTTTAAGTCCTTATTTCACTTTTTTAACTTTTAAAGCCAATTTAAC
Found at i:14155753 original size:121 final size:121
Alignment explanation
Indices: 14155534--14155754 Score: 280
Period size: 121 Copynumber: 1.8 Consensus size: 121
14155524 TTATTTAATA
* * * * *
14155534 TTTTTTTTGGAACTTTTATGTCATTATTTCATTAATTTTACAGTTATAAAACAAAATATGCCAAA
1 TTTTTTTTGGAACTTTTAAGCCATTATTTCACTAATTTTACAGTTATAAAACAAAATAGGCAAAA
* * * **
14155599 ATATTAAAATATTTCTTGAACTATTTCCTTCTTTTAAAAACAAATTTTTTAAATGC
66 AAAGTAAAATAATTCTTGAACTATTTCAATCTTTTAAAAACAAATTTTTTAAATGC
* * * * * *
14155655 TTTTTTTTGGAACTTTTAAGCCCTTATTTCACTAATTTTATAGTTGTCAAATAAAATAGGGAAAA
1 TTTTTTTTGGAACTTTTAAGCCATTATTTCACTAATTTTACAGTTATAAAACAAAATAGGCAAAA
* *
14155720 AAAGTAAAATAATTCTTGAATTATTTTAATCTTTT
66 AAAGTAAAATAATTCTTGAACTATTTCAATCTTTT
14155755 TTAAATAAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
121 82 1.00
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (121 bp):
TTTTTTTTGGAACTTTTAAGCCATTATTTCACTAATTTTACAGTTATAAAACAAAATAGGCAAAA
AAAGTAAAATAATTCTTGAACTATTTCAATCTTTTAAAAACAAATTTTTTAAATGC
Found at i:14159191 original size:71 final size:70
Alignment explanation
Indices: 14159088--14159235 Score: 199
Period size: 71 Copynumber: 2.1 Consensus size: 70
14159078 TTTTTATATG
* * * * *
14159088 TCAAATATTTATTTTTTCACCTACATTGTAGATATGGTAAATTTTAATATTATAAAATCAACTAA
1 TCAAATATTTATTTTTTCACCTACACTCTAGATATAGTAAACTTTAATATTATAAAATCAAATAA
14159153 TTATT
66 TTATT
* *
14159158 TCAAATATCATTA-TTTTTCACCTTCACTCTAGATATAGTAAACTTTAATATTATAAAATTAAAT
1 TCAAATAT--TTATTTTTTCACCTACACTCTAGATATAGTAAACTTTAATATTATAAAATCAAAT
14159222 AATTATT
64 AATTATT
*
14159229 TCGAATA
1 TCAAATA
14159236 CACATACAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
70 8 0.12
71 57 0.84
72 3 0.04
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (70 bp):
TCAAATATTTATTTTTTCACCTACACTCTAGATATAGTAAACTTTAATATTATAAAATCAAATAA
TTATT
Found at i:14167022 original size:16 final size:16
Alignment explanation
Indices: 14167001--14167031 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14166991 ATTTCATATA
*
14167001 TAAAAATTATATTTAC
1 TAAAAATAATATTTAC
14167017 TAAAAATAATATTTA
1 TAAAAATAATATTTA
14167032 AAATAACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAAATAATATTTAC
Found at i:14167695 original size:5 final size:5
Alignment explanation
Indices: 14167685--14167709 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14167675 GCACATAAAA
14167685 CAAAC CAAAC CAAAC CAAAC CAAAC
1 CAAAC CAAAC CAAAC CAAAC CAAAC
14167710 TTATTCTACC
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:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAC
Found at i:14171002 original size:30 final size:30
Alignment explanation
Indices: 14170938--14171002 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
14170928 CATATGGTCA
* ***
14170938 ATTTTTTTTAATATTTATGATTCTAGGCTT
1 ATTTTTTATAATATTTATGAGAATAGGCTT
14170968 -TTTTTTATATATATTTATGAGAATAGG-TT
1 ATTTTTTATA-ATATTTATGAGAATAGGCTT
14170997 ATTTTT
1 ATTTTT
14171003 GGAGAAAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
ATTTTTTATAATATTTATGAGAATAGGCTT
Found at i:14171724 original size:18 final size:18
Alignment explanation
Indices: 14171701--14171735 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14171691 ATCAAAATTT
* *
14171701 TAAAAATTAAATTTAAAC
1 TAAAAATCAAATATAAAC
14171719 TAAAAATCAAATATAAA
1 TAAAAATCAAATATAAA
14171736 TGAATTACAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAATCAAATATAAAC
Found at i:14171805 original size:29 final size:29
Alignment explanation
Indices: 14171772--14171836 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
14171762 AAAATAATTT
*
14171772 AATCTTTATCCAGCCAATTTCAAATCTTC
1 AATCTTTATCCAGCCAACTTCAAATCTTC
14171801 AATCTTTATCCAGCCAACTTCAAATCTTC
1 AATCTTTATCCAGCCAACTTCAAATCTTC
14171830 AATCTTT
1 AATCTTT
14171837 CAATCTACCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (29 bp):
AATCTTTATCCAGCCAACTTCAAATCTTC
Found at i:14172306 original size:19 final size:19
Alignment explanation
Indices: 14172268--14172311 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
14172258 TTTAATATGT
**
14172268 ATTTTTTATTTGTTGTTTAA
1 ATTTTTTATTTGTTAATT-A
14172288 ATTTTTTATTT-TTAATTA
1 ATTTTTTATTTGTTAATTA
14172306 ATTTTT
1 ATTTTT
14172312 ATAATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
ATTTTTTATTTGTTAATTA
Found at i:14174045 original size:20 final size:20
Alignment explanation
Indices: 14174022--14174060 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
14174012 AATAAAAGAG
14174022 TTATTAATTA-AAAATATTAT
1 TTATTAATTATAAAA-ATTAT
14174042 TTATTAATTATAAAAATTA
1 TTATTAATTATAAAAATTA
14174061 ATTAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAATTATAAAAATTAT
Found at i:14174733 original size:18 final size:18
Alignment explanation
Indices: 14174693--14174735 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14174683 GTTTAATGTG
14174693 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
14174711 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
14174729 TAATTAA
1 TAATTAA
14174736 AAACCTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:14177231 original size:23 final size:23
Alignment explanation
Indices: 14177205--14177250 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14177195 CAAGGTCTGG
* *
14177205 AATAGGTGCGGAGACGGGTTCAT
1 AATAAGTGCGAAGACGGGTTCAT
**
14177228 AATAAGTGTTAAGACGGGTTCAT
1 AATAAGTGCGAAGACGGGTTCAT
14177251 CATCGAGTCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.26
Consensus pattern (23 bp):
AATAAGTGCGAAGACGGGTTCAT
Found at i:14177678 original size:6 final size:6
Alignment explanation
Indices: 14177661--14177729 Score: 68
Period size: 6 Copynumber: 11.5 Consensus size: 6
14177651 CGGAGGAAGG
* * *
14177661 AGATGA AAATGA AGATGA AGATGA AGATGA AGATGA GGATCG- AGGTGA
1 AGATGA AGATGA AGATGA AGATGA AGATGA AGATGA AGAT-GA AGATGA
* * *
14177709 CGATGA AGACGA AGATAA AGA
1 AGATGA AGATGA AGATGA AGA
14177730 GGAGGAGGAG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
5 1 0.02
6 48 0.96
7 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.33, T:0.14
Consensus pattern (6 bp):
AGATGA
Found at i:14180252 original size:29 final size:29
Alignment explanation
Indices: 14180220--14180285 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
14180210 CCAAAATCAA
*
14180220 CCTATTCCAATAAATATGCCAAAAACTAG
1 CCTATTCCAATAAATATACCAAAAACTAG
* * *
14180249 CCTATTCCGATAAATATACCAGAAACTGG
1 CCTATTCCAATAAATATACCAAAAACTAG
14180278 CCTATTCC
1 CCTATTCC
14180286 CTCAATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.26
Consensus pattern (29 bp):
CCTATTCCAATAAATATACCAAAAACTAG
Found at i:14186103 original size:21 final size:21
Alignment explanation
Indices: 14186065--14186104 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14186055 AAAAAGATAT
* *
14186065 TAATTTATAATAATATTTAGA
1 TAATTTACAATAACATTTAGA
*
14186086 TAATTTACAATGACATTTA
1 TAATTTACAATAACATTTA
14186105 AAATATAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
TAATTTACAATAACATTTAGA
Found at i:14188104 original size:175 final size:174
Alignment explanation
Indices: 14187812--14188206 Score: 553
Period size: 175 Copynumber: 2.3 Consensus size: 174
14187802 AAATTTGGTC
* *
14187812 AAAATTAAATATAGTGATAAAATTTCAAATTTGAGTGTAGTATAATGACTAAAACTAAAATTGGA
1 AAAATTAAATATAGAGATAAAATTTCAAATTTGAGTGTAGTATAATAACTAAAACTAAAATTGGA
* ** *
14187877 CCATTGTTTTATATTAAAGAATGTAAAGGGATCAAAATTGAAATTATACCATCATCTTAT-GAGA
66 CCATTGTTTTATAATAAAGAAAATAAAGGGATCAAAATTAAAATTATACCATCATCTTATAGAGA
*
14187941 GAGAGAATAG-AAAAGCGTGT-ATCGTTTGAGGTACCAAATTATGTTA
131 GAGAGAATAGCAAAA-CGTGTCA-C--TCGAGGTACCAAATTATGTTA
* *
14187987 AAAATTAAATATAGAGATAAAATTTCAAATTTGAATGTAGTATAATAACTAAAACTAAAATTTGA
1 AAAATTAAATATAGAGATAAAATTTCAAATTTGAGTGTAGTATAATAACTAAAACTAAAATTGGA
* *
14188052 CTATTGTTTTATAATAAAGAAAATAAAGGGATCAAAATTAAAATTGTACCATCATCTTATAAGAG
66 CCATTGTTTTATAATAAAGAAAATAAAGGGATCAAAATTAAAATTATACCATCATCTTAT-AGAG
* *
14188117 AGAGAGAATAGCAGAATGTGTCACTCGAGGTACCAAATTATGTTA
130 AGAGAGAATAGCAAAACGTGTCACTCGAGGTACCAAATTATGTTA
* * * * * *
14188162 AAAATTATATATAAATATGAAATCTCAAATTTGAGTGTAATATAA
1 AAAATTAAATATAGAGATAAAATTTCAAATTTGAGTGTAGTATAA
14188207 AGACCGAAAC
Statistics
Matches: 196, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
175 173 0.88
177 19 0.10
178 4 0.02
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.32
Consensus pattern (174 bp):
AAAATTAAATATAGAGATAAAATTTCAAATTTGAGTGTAGTATAATAACTAAAACTAAAATTGGA
CCATTGTTTTATAATAAAGAAAATAAAGGGATCAAAATTAAAATTATACCATCATCTTATAGAGA
GAGAGAATAGCAAAACGTGTCACTCGAGGTACCAAATTATGTTA
Found at i:14199438 original size:21 final size:21
Alignment explanation
Indices: 14199412--14199454 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
14199402 ATAAACAATA
**
14199412 TAATGGTTTTGCCTTTTAACT
1 TAATGGTTTTAACTTTTAACT
14199433 TAATGGTTTTAACTTTTAACT
1 TAATGGTTTTAACTTTTAACT
14199454 T
1 T
14199455 TTAAAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (21 bp):
TAATGGTTTTAACTTTTAACT
Found at i:14203848 original size:16 final size:17
Alignment explanation
Indices: 14203815--14203856 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
14203805 ACAGAGTTAG
14203815 AATTGAATTGAGAAAATT
1 AATT-AATTGAGAAAATT
*
14203833 ATTTAATTGA-AAAATT
1 AATTAATTGAGAAAATT
14203849 AATTAATT
1 AATTAATT
14203857 TAATAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 13 0.59
17 6 0.27
18 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (17 bp):
AATTAATTGAGAAAATT
Done.