Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 185 of 222
Found at i:59071172 original size:15 final size:16
Alignment explanation
Indices: 59071115--59071173 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 16
59071105 AGAGCTCATT
*
59071115 TCTCATCATCC-ATCA
1 TCTCATCATCCTCTCA
59071130 TC-CATCATCC-CTCA
1 TCTCATCATCCTCTCA
59071144 TCTCATCATCCCTCTCA
1 TCTCATCAT-CCTCTCA
59071161 TCTC-TCATCCTCT
1 TCTCATCATCCTCT
59071174 TTCTCAACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
14 13 0.32
15 13 0.32
16 6 0.15
17 8 0.20
ACGTcount: A:0.19, C:0.46, G:0.00, T:0.36
Consensus pattern (16 bp):
TCTCATCATCCTCTCA
Found at i:59077788 original size:20 final size:20
Alignment explanation
Indices: 59077763--59077800 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59077753 ATTTTTCTAG
59077763 TTTAAATTATTT-TGTTAAAT
1 TTTAAATT-TTTATGTTAAAT
59077783 TTTAAATTTTTATGTTAA
1 TTTAAATTTTTATGTTAA
59077801 TAAAGGGCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTTATGTTAAAT
Found at i:59100063 original size:16 final size:16
Alignment explanation
Indices: 59100042--59100075 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
59100032 CTTCAACCTC
*
59100042 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
59100058 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
59100074 TC
1 TC
59100076 CTCTCCGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:59100699 original size:18 final size:18
Alignment explanation
Indices: 59100673--59100712 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
59100663 ATCTATCTGT
*
59100673 ATTTTTTTAAAGTTGTGC
1 ATTTGTTTAAAGTTGTGC
*
59100691 ATTTGTTTAAAGTTGTTC
1 ATTTGTTTAAAGTTGTGC
59100709 ATTT
1 ATTT
59100713 TTTCAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (18 bp):
ATTTGTTTAAAGTTGTGC
Found at i:59100984 original size:11 final size:11
Alignment explanation
Indices: 59100968--59101000 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
59100958 TTTTTTCTCA
59100968 TATATTGTACT
1 TATATTGTACT
*
59100979 TATATTGTACA
1 TATATTGTACT
59100990 TATATTGTACT
1 TATATTGTACT
59101001 AATTCCTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (11 bp):
TATATTGTACT
Found at i:59102256 original size:34 final size:35
Alignment explanation
Indices: 59102190--59102256 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
59102180 CAAACACCAG
* *
59102190 AAAATATTTTCTAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCTAGTAAATCATTTTACAGAAAAGT
*
59102225 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCTAGTAAATCATTTTACAGAAAA
59102257 CATTGAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (35 bp):
AAAACATTTTCTAGTAAATCATTTTACAGAAAAGT
Found at i:59105043 original size:13 final size:14
Alignment explanation
Indices: 59105010--59105042 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
59105000 TGAAAGGTCA
59105010 TAAAAATCTGGCAG
1 TAAAAATCTGGCAG
59105024 TAAAAATCTGGCAG
1 TAAAAATCTGGCAG
*
59105038 CAAAA
1 TAAAA
59105043 TTTTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (14 bp):
TAAAAATCTGGCAG
Found at i:59108171 original size:49 final size:49
Alignment explanation
Indices: 59108114--59108208 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
59108104 CCAGGTGAAC
*
59108114 TCTTCAAGTATCTCAGAATTTGAAACACTGCTTCTTCATGTTCCTCTAT
1 TCTTCAAGTATCTCAGAATCTGAAACACTGCTTCTTCATGTTCCTCTAT
59108163 TCTTCAAGTATCTCAGAATCTGAAACACTGCTTCTTCATGTTCCTC
1 TCTTCAAGTATCTCAGAATCTGAAACACTGCTTCTTCATGTTCCTC
59108209 CATTGGGGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (49 bp):
TCTTCAAGTATCTCAGAATCTGAAACACTGCTTCTTCATGTTCCTCTAT
Found at i:59111811 original size:42 final size:42
Alignment explanation
Indices: 59111752--59111838 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
59111742 AATCATAATT
59111752 TAATTCAATCATAAATTCCAAACATCATTTAAAAACATATTC
1 TAATTCAATCATAAATTCCAAACATCATTTAAAAACATATTC
*
59111794 TAATTCAATCATCAATTCCAAACATCATTTAAAAACATATTC
1 TAATTCAATCATAAATTCCAAACATCATTTAAAAACATATTC
59111836 TAA
1 TAA
59111839 CTATATATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (42 bp):
TAATTCAATCATAAATTCCAAACATCATTTAAAAACATATTC
Found at i:59112958 original size:20 final size:21
Alignment explanation
Indices: 59112929--59112977 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
59112919 ATTGACTTAA
*
59112929 TTTAATATATATTT-TAATTT
1 TTTAAAATATATTTATAATTT
59112949 TTTAAAATATATTTATAATTT
1 TTTAAAATATATTTATAATTT
59112970 TTATAAAA
1 TT-TAAAA
59112978 AATAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 13 0.50
21 8 0.31
22 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAAAATATATTTATAATTT
Found at i:59115481 original size:17 final size:17
Alignment explanation
Indices: 59115459--59115516 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
59115449 CTACAAACCA
59115459 CCATCAAACGACTAACT
1 CCATCAAACGACTAACT
*
59115476 CCATCAATAGGAACTAGA--
1 CCATCAA-ACG-ACTA-ACT
*
59115494 -AATCAAACGACTAACT
1 CCATCAAACGACTAACT
59115510 CCATCAA
1 CCATCAA
59115517 GGGACACGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
14 1 0.03
15 4 0.13
16 2 0.06
17 17 0.55
18 2 0.06
19 4 0.13
20 1 0.03
ACGTcount: A:0.45, C:0.29, G:0.09, T:0.17
Consensus pattern (17 bp):
CCATCAAACGACTAACT
Found at i:59116530 original size:14 final size:14
Alignment explanation
Indices: 59116492--59116532 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
59116482 TTAGTTAATA
59116492 TATATTAT-TATAT
1 TATATTATATATAT
*
59116505 TAT-TTTTAATATAT
1 TATATTAT-ATATAT
59116519 TATATTATATATAT
1 TATATTATATATAT
59116533 ATAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
12 3 0.13
13 3 0.13
14 14 0.61
15 3 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATTATATATAT
Found at i:59121728 original size:21 final size:21
Alignment explanation
Indices: 59121681--59121735 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
59121671 ACCATTATTT
* **
59121681 CTAATCTCACTGCTACAGTGC
1 CTAATCTCACCGCTACAGTAA
*
59121702 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
59121723 CTAATCTCACCGC
1 CTAATCTCACCGC
59121736 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.38, G:0.11, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:59123915 original size:42 final size:42
Alignment explanation
Indices: 59123846--59124040 Score: 230
Period size: 42 Copynumber: 4.6 Consensus size: 42
59123836 GACCGAAAGC
* * * *
59123846 TGAACAGAAGCTCATGAGAGCTAAACAAAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGAGT
* *
59123888 TTAACAGAAGCTCGA-AAGATCTGAACAAAAACTCATAAGAGT
1 TGAACAGAAGCTC-ATAAGAGCTGAACAAAAACTCATAAGAGT
* **
59123930 TGAACGGAAGCTCATAAGAGCTGAATGAAAACTCATAAGAGT
1 TGAACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGAGT
* * * ** *
59123972 TGAACAAAAGCTCAAAAGAGTTGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGAGT
*
59124014 TAAACAGAAGCTCATAAGAGCTGAACA
1 TGAACAGAAGCTCATAAGAGCTGAACA
59124041 TAAAGTAAAA
Statistics
Matches: 128, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
41 1 0.01
42 126 0.98
43 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (42 bp):
TGAACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGAGT
Found at i:59123927 original size:21 final size:21
Alignment explanation
Indices: 59123846--59124040 Score: 133
Period size: 21 Copynumber: 9.3 Consensus size: 21
59123836 GACCGAAAGC
* * * *
59123846 TGAACAGAAGCTCATGAGAGC
1 TGAACAAAAACTCATAAGAGT
* * *
59123867 TAAACAAAAACCCATAAGGGT
1 TGAACAAAAACTCATAAGAGT
* * *
59123888 TTAACAGAAGCTCGA-AAGA-T
1 TGAACAAAAACTC-ATAAGAGT
59123908 CTGAACAAAAACTCATAAGAGT
1 -TGAACAAAAACTCATAAGAGT
** * *
59123930 TGAACGGAAGCTCATAAGAGC
1 TGAACAAAAACTCATAAGAGT
**
59123951 TGAATGAAAACTCATAAGAGT
1 TGAACAAAAACTCATAAGAGT
* *
59123972 TGAACAAAAGCTCAAAAGAGT
1 TGAACAAAAACTCATAAGAGT
** *
59123993 TGAACGGAAACTCATATGAGT
1 TGAACAAAAACTCATAAGAGT
* * * *
59124014 TAAACAGAAGCTCATAAGAGC
1 TGAACAAAAACTCATAAGAGT
59124035 TGAACA
1 TGAACA
59124041 TAAAGTAAAA
Statistics
Matches: 132, Mismatches: 38, Indels: 8
0.74 0.21 0.04
Matches are distributed among these distances:
20 2 0.02
21 128 0.97
22 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (21 bp):
TGAACAAAAACTCATAAGAGT
Found at i:59123946 original size:63 final size:63
Alignment explanation
Indices: 59123874--59124040 Score: 178
Period size: 63 Copynumber: 2.7 Consensus size: 63
59123864 AGCTAAACAA
* * * *
59123874 AAACCCATAAGGGTTTAACAGAAGCTCGA-AAGATCTGAACAAAAACTCATAAGAGTTGAACGG
1 AAACTCATAAGAGTTAAACAGAAGCTC-ATAAGATCTGAACAAAAACTCAAAAGAGTTGAACGG
* * * * * *
59123937 AAGCTCATAAGAGCTGAA-TGAAAACTCATAAGAGT-TGAACAAAAGCTCAAAAGAGTTGAACGG
1 AAACTCATAAGAGTTAAACAG-AAGCTCATAAGA-TCTGAACAAAAACTCAAAAGAGTTGAACGG
* *
59124000 AAACTCATATGAGTTAAACAGAAGCTCATAAGAGCTGAACA
1 AAACTCATAAGAGTTAAACAGAAGCTCATAAGATCTGAACA
59124041 TAAAGTAAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
62 2 0.02
63 79 0.95
64 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (63 bp):
AAACTCATAAGAGTTAAACAGAAGCTCATAAGATCTGAACAAAAACTCAAAAGAGTTGAACGG
Found at i:59127620 original size:147 final size:147
Alignment explanation
Indices: 59127353--59127633 Score: 472
Period size: 147 Copynumber: 1.9 Consensus size: 147
59127343 TATTTTGATA
* *
59127353 ATCAATTGAAACGGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAAGTGATCTGGTTGAAT
1 ATCAATTGAAACGGAGTAAAAGTATGATATTTGAGTATTGAATATGAAAAGTGATCTGGTTGAAT
*
59127418 TGTGGCATATATTGATTGAATTTCTATATTAAGTATGCTTATTTGTGACTTGAATCATAAAAGTA
66 TGTGACATATATTGATTGAATTTCTATATTAAGTATGCTTATTTGTGACTTGAATCATAAAAGTA
59127483 CCACTGCTAGTTTAATC
131 CCACTGCTAGTTTAATC
* * * *
59127500 ATCAATTGAAATGGAGTAAAAGTATGATATTTGAGTATTGAATATGAAAATTTATTTGGTTGAAT
1 ATCAATTGAAACGGAGTAAAAGTATGATATTTGAGTATTGAATATGAAAAGTGATCTGGTTGAAT
* * *
59127565 TGTGACATATATTGATTGAATTTCTATATTGAGTATGCTTATTTGTTACTTGAATCATGAAAGTA
66 TGTGACATATATTGATTGAATTTCTATATTAAGTATGCTTATTTGTGACTTGAATCATAAAAGTA
59127630 CCAC
131 CCAC
59127634 CGAGCTTTAT
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 124 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (147 bp):
ATCAATTGAAACGGAGTAAAAGTATGATATTTGAGTATTGAATATGAAAAGTGATCTGGTTGAAT
TGTGACATATATTGATTGAATTTCTATATTAAGTATGCTTATTTGTGACTTGAATCATAAAAGTA
CCACTGCTAGTTTAATC
Found at i:59146832 original size:2 final size:2
Alignment explanation
Indices: 59146825--59146886 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
59146815 CATCTCAAAT
*
59146825 CA CA CA CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
59146867 CA TA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA
59146887 TTTACAAACC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.52, C:0.47, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:59147569 original size:40 final size:40
Alignment explanation
Indices: 59147512--59147618 Score: 101
Period size: 40 Copynumber: 2.7 Consensus size: 40
59147502 TAATGCAAAC
* *
59147512 AGGAGCATGAATA-TGCTATCAGGAGCAAAGTAGTGCTAAA
1 AGGAGCACGAA-AGTGCTATCAGGAGCAAAGTAGTGATAAA
* * ** *
59147552 AGGAGCAC-AAATGTGCTATTAAGAGCACCGTAGTGATAAC
1 AGGAGCACGAAA-GTGCTATCAGGAGCAAAGTAGTGATAAA
* *
59147592 AGGAGGACGAAAGTACTATCAGGAGCA
1 AGGAGCACGAAAGTGCTATCAGGAGCA
59147619 CTTATTCAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 47 0.89
41 3 0.06
ACGTcount: A:0.39, C:0.15, G:0.28, T:0.18
Consensus pattern (40 bp):
AGGAGCACGAAAGTGCTATCAGGAGCAAAGTAGTGATAAA
Found at i:59153625 original size:45 final size:45
Alignment explanation
Indices: 59153532--59153646 Score: 117
Period size: 45 Copynumber: 2.6 Consensus size: 45
59153522 GTCATAGCGC
* * * *
59153532 CTTTCAGCTATGGTCTTACTCATTTCCATCACGATGCTATAACAT
1 CTTTCAACTATGGTCTTACTCATTTCAATCACGATACCATAACAT
* ***
59153577 CTTTCAACTATGGTCTTACTCATCTT-AATCATGATACCATAGTGT
1 CTTTCAACTATGGTCTTACTCAT-TTCAATCACGATACCATAACAT
*
59153622 CTTTTAACTA-GGTTCTTACTCATTT
1 CTTTCAACTATGG-TCTTACTCATTT
59153647 TAGGCGTATA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
44 4 0.07
45 53 0.90
46 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (45 bp):
CTTTCAACTATGGTCTTACTCATTTCAATCACGATACCATAACAT
Found at i:59164961 original size:18 final size:19
Alignment explanation
Indices: 59164938--59164980 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
59164928 ATTAACGTTC
* *
59164938 TTTCTTATTT-TTGTTTTT
1 TTTCTTATTTCTTATTTAT
59164956 TTTCTTATTTCTTATTTAT
1 TTTCTTATTTCTTATTTAT
59164975 TTTCTT
1 TTTCTT
59164981 TGTTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTCTTATTTCTTATTTAT
Found at i:59164989 original size:12 final size:11
Alignment explanation
Indices: 59164938--59165004 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 11
59164928 ATTAACGTTC
59164938 TTTCTTATTTTT
1 TTTCTT-TTTTT
59164950 GTTT-TTTTTCTT
1 -TTTCTTTTT-TT
*
59164962 ATTTCTTATTTAT
1 -TTTCTT-TTTTT
59164975 TTTCTTTGTTTT
1 TTTCTTT-TTTT
59164987 TTTCTTTTTTT
1 TTTCTTTTTTT
*
59164998 TTACTTT
1 TTTCTTT
59165005 CCATTTGCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
11 14 0.30
12 23 0.50
13 6 0.13
14 3 0.07
ACGTcount: A:0.07, C:0.09, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:59165890 original size:144 final size:144
Alignment explanation
Indices: 59165625--59165948 Score: 535
Period size: 144 Copynumber: 2.2 Consensus size: 144
59165615 AGAACACACG
*
59165625 AGCCAGGGACACTGGCATGTGTCCAGGCTGTGTGGAGATTATTTTGAGGCTTGGGTCGCACAGGC
1 AGCCAGGGACACTGGCATGTGTCCAGGCTGTGTGGAGATTATTTTGAGGCTTGGGTCACACAGGC
*
59165690 TTGTGTTTGACCGTATGCTAGACCATGTAACTCACTGTTTTAAGCTACACAGCCTTGTGCTAGGC
66 TTGTGTTTGACCGTATGCTAGACCATGTAACTCACTGTTTTAAGCTACACAACCTTGTGCTAGGC
59165755 CGTGTATGCCATAT
131 CGTGTATGCCATAT
* *
59165769 AGCCAGGGACACTGGCATGTGTCCAGGCTGTGTGGGGATTATTTTGAGGCTTGGGTCACACGGGC
1 AGCCAGGGACACTGGCATGTGTCCAGGCTGTGTGGAGATTATTTTGAGGCTTGGGTCACACAGGC
*
59165834 TTGTGTTTGACTGTATGCTAGACCATGTAACTCACTGTTTTAAGCTACACAACCTTGTGCTAGGC
66 TTGTGTTTGACCGTATGCTAGACCATGTAACTCACTGTTTTAAGCTACACAACCTTGTGCTAGGC
59165899 CGTGTATGCCATAT
131 CGTGTATGCCATAT
** * *
59165913 A-AAAGGGCCACACAGGCATGT-TCCACGCTGTGTGGA
1 AGCCAGGG--ACACTGGCATGTGTCCAGGCTGTGTGGA
59165949 CCACATGGGC
Statistics
Matches: 168, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
143 4 0.02
144 153 0.91
145 11 0.07
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (144 bp):
AGCCAGGGACACTGGCATGTGTCCAGGCTGTGTGGAGATTATTTTGAGGCTTGGGTCACACAGGC
TTGTGTTTGACCGTATGCTAGACCATGTAACTCACTGTTTTAAGCTACACAACCTTGTGCTAGGC
CGTGTATGCCATAT
Found at i:59174832 original size:13 final size:14
Alignment explanation
Indices: 59174807--59174865 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
59174797 CCTTTTTACA
59174807 TTAAAATATTATTT
1 TTAAAATATTATTT
59174821 TTAAAA-ATTATTAT
1 TTAAAATATTATT-T
* **
59174835 TTTATTTATT-TTT
1 TTAAAATATTATTT
59174848 ATTAAAATATTATTT
1 -TTAAAATATTATTT
59174863 TTA
1 TTA
59174866 TAACTGGTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
13 7 0.20
14 22 0.63
15 6 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAAAATATTATTT
Found at i:59174858 original size:26 final size:25
Alignment explanation
Indices: 59174815--59174863 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
59174805 CATTAAAATA
59174815 TTATTTTTAAAAATTATTATTTTAT
1 TTATTTTTAAAAATTATTATTTTAT
59174840 TTATTTTTATTAAAA-TATTATTTT
1 TTATTTTTA--AAAATTATTATTTT
59174864 TATAACTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 9 0.41
27 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TTATTTTTAAAAATTATTATTTTAT
Found at i:59175484 original size:3 final size:3
Alignment explanation
Indices: 59175476--59175511 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
59175466 GTGGATGTTA
59175476 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
59175512 CAATAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:59178226 original size:45 final size:45
Alignment explanation
Indices: 59178162--59178250 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
59178152 AATAGATACT
* * *
59178162 CGGTGGATTCAACACATAGCAACTACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
*
59178207 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
59178251 TCGATTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:59178319 original size:51 final size:50
Alignment explanation
Indices: 59178252--59178447 Score: 232
Period size: 51 Copynumber: 3.9 Consensus size: 50
59178242 CAATGATGTT
* *
59178252 CGATTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * *
59178303 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * *
59178354 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
* * *
59178404 CGGTACACGTAGTAGTCTGCACATAGTACTACACACGTGACCAT
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
59178448 CACTTTCACT
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.33
51 78 0.64
52 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:59178437 original size:101 final size:101
Alignment explanation
Indices: 59178259--59178443 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 101
59178249 GTTCGATTCA
*
59178259 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
59178324 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * *
59178361 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGTCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
59178425 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
59178444 CCATCACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.51
102 34 0.44
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:59181553 original size:19 final size:19
Alignment explanation
Indices: 59181531--59181579 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
59181521 ATTACAAAAT
*
59181531 AATTCAAAATCATTT-TTAA
1 AATTCAAAAT-ATTTATAAA
*
59181550 AATTAAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
59181569 AATTTCAAAAT
1 AA-TTCAAAAT
59181580 TTATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 14 0.56
20 7 0.28
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:59181563 original size:18 final size:19
Alignment explanation
Indices: 59181531--59181569 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
59181521 ATTACAAAAT
* *
59181531 AATTCAAAATCATTTTTAA
1 AATTAAAAATCATTTATAA
59181550 AATTAAAAAT-ATTTATAA
1 AATTAAAAATCATTTATAA
59181568 AA
1 AA
59181570 ATTTCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAAAATCATTTATAA
Found at i:59181609 original size:25 final size:26
Alignment explanation
Indices: 59181561--59181609 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
59181551 ATTAAAAATA
* **
59181561 TTTATAAAAATTTCAAAATTTATATT
1 TTTATAAAAATTACAAAAAATATATT
59181587 TTTA-AAAAATTACAAAAAATATA
1 TTTATAAAAATTACAAAAAATATA
59181610 AAAAAAGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (26 bp):
TTTATAAAAATTACAAAAAATATATT
Found at i:59190791 original size:204 final size:201
Alignment explanation
Indices: 59190399--59190810 Score: 506
Period size: 204 Copynumber: 2.0 Consensus size: 201
59190389 TCATATGTTT
* * *
59190399 TTTTATTTTTTTAATTTGGTTATGCCAACTTTAACTGTTTTGTCACTCATCTGTTCTTCTCATTC
1 TTTTATTTTTTTAATTCGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTTCTCATGC
** * * * * * **
59190464 TGATTGGGATACAAAATTGTAATTTCTTTTCCATAGTCTCCCTCCTGTTTCTTCCTCATGCTATC
66 TGAAAGGGATACAAAAATGAAATTTCTTTTCCACAGACTCCCTCCTGTTTCTTCCACACACTATC
* * * *
59190529 AGTCAAGAACTAGAATTTCTAACTGAATTGGGGAGAACATAACCTGTTTTAACTTCCATTGCTGA
131 AGTCAAGAACTAGAATTTCTAACTGAATTAGGGAGAACACAACCTGTGTTAACTTCCATTGCTAA
59190594 TATTGA
196 TATTGA
* * * *
59190600 TTTTCTTTTTTT-ATTCGGTTATGCCATCTGTAACTGTTTTGTCATTCTTCTGTTCTTCCTCATG
1 TTTTATTTTTTTAATTCGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTT-CTCATG
* *
59190664 CTGAAAGGGATACAAAAATGAAATTTCTTTTCCACAGACTTCTTCCT-TTCTCTTCTTCACACAC
65 CTGAAAGGGATACAAAAATGAAATTTCTTTTCCACAGACTCCCTCCTGTT-TCTTC--CACACAC
* * * * *
59190728 TCATCTGTCAAGAACTAGAGTTTCTAACTGATTTAGGGAGAACACAACTTGTGTTAGCTTCCATT
127 T-ATCAGTCAAGAACTAGAATTTCTAACTGAATTAGGGAGAACACAACCTGTGTTAACTTCCATT
*
59190793 GCTAATATTTA
191 GCTAATATTGA
59190804 -TTTATTT
1 TTTTATTT
59190811 ACATACTAAC
Statistics
Matches: 177, Mismatches: 29, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
200 42 0.24
201 60 0.34
203 11 0.06
204 64 0.36
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (201 bp):
TTTTATTTTTTTAATTCGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTTCTCATGC
TGAAAGGGATACAAAAATGAAATTTCTTTTCCACAGACTCCCTCCTGTTTCTTCCACACACTATC
AGTCAAGAACTAGAATTTCTAACTGAATTAGGGAGAACACAACCTGTGTTAACTTCCATTGCTAA
TATTGA
Found at i:59191275 original size:13 final size:13
Alignment explanation
Indices: 59191253--59191308 Score: 96
Period size: 13 Copynumber: 4.3 Consensus size: 13
59191243 AAAAGCTTGG
59191253 TTTGGAAAAGTGCT
1 TTTGGAAAAGTG-T
59191267 TTT-GAAAAGTGT
1 TTTGGAAAAGTGT
59191279 TTTGGAAAAGTGT
1 TTTGGAAAAGTGT
59191292 TTTGGAAAAGTGT
1 TTTGGAAAAGTGT
59191305 TTTG
1 TTTG
59191309 TTAATTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
12 4 0.10
13 34 0.83
14 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.41
Consensus pattern (13 bp):
TTTGGAAAAGTGT
Found at i:59191287 original size:26 final size:25
Alignment explanation
Indices: 59191227--59191308 Score: 94
Period size: 26 Copynumber: 3.1 Consensus size: 25
59191217 TCAATTGCGG
* *
59191227 TTGGAAAA-TGTTTTTAAAAAGCTTGGT
1 TTGGAAAAGTG-TTTTGAAAAG--TGTT
59191254 TTGGAAAAGTGCTTTTGAAAAGTGTT
1 TTGGAAAAGTG-TTTTGAAAAGTGTT
59191280 TTGGAAAAGTGTTTTGGAAAAGTGTT
1 TTGGAAAAGTGTTTT-GAAAAGTGTT
59191306 TTG
1 TTG
59191309 TTAATTTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
25 4 0.08
26 27 0.54
27 8 0.16
28 11 0.22
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.40
Consensus pattern (25 bp):
TTGGAAAAGTGTTTTGAAAAGTGTT
Found at i:59201217 original size:12 final size:12
Alignment explanation
Indices: 59201202--59201236 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
59201192 AACATTTCGC
59201202 AAAAA-AAAAAA
1 AAAAACAAAAAA
*
59201213 AAAAACAAAAAC
1 AAAAACAAAAAA
59201225 AAAAACAAAAAA
1 AAAAACAAAAAA
59201237 CTTCCATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:59207393 original size:18 final size:17
Alignment explanation
Indices: 59207370--59207430 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
59207360 CTACATTTGT
*
59207370 GAGCTCACCAAAAGTTGC
1 GAGCTCACAAAAAG-TGC
*
59207388 GAGCTCAACTAAAAGTGC
1 GAGCTC-ACAAAAAGTGC
*
59207406 GAGCTCATAAAAAGATGC
1 GAGCTCACAAAAAG-TGC
59207424 GAGCTCA
1 GAGCTCA
59207431 ACTTAAATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 6 0.16
18 25 0.66
19 7 0.18
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (17 bp):
GAGCTCACAAAAAGTGC
Found at i:59213669 original size:18 final size:20
Alignment explanation
Indices: 59213643--59213690 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
59213633 GCTCTACATT
*
59213643 TGCGTGCTCAACT-AAAAG-
1 TGCGAGCTCAACTAAAAAGA
59213661 TGCGAGCTC-A-TAAAAAGA
1 TGCGAGCTCAACTAAAAAGA
59213679 TGCGAGCTCAAC
1 TGCGAGCTCAAC
59213691 CTGAATTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 6 0.24
18 17 0.68
19 1 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (20 bp):
TGCGAGCTCAACTAAAAAGA
Found at i:59214669 original size:29 final size:29
Alignment explanation
Indices: 59214633--59214690 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
59214623 TTCTGAATTA
59214633 ACTAAAATTGTGATTTCGATAGAAATTCG
1 ACTAAAATTGTGATTTCGATAGAAATTCG
*
59214662 ACTAAAATTGTGATTTTGATAGAAATTCG
1 ACTAAAATTGTGATTTCGATAGAAATTCG
59214691 TTAGGGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (29 bp):
ACTAAAATTGTGATTTCGATAGAAATTCG
Found at i:59220999 original size:53 final size:50
Alignment explanation
Indices: 59220917--59221076 Score: 151
Period size: 50 Copynumber: 3.1 Consensus size: 50
59220907 TAAGCAACTC
* ** * *
59220917 TTTTTTTTAGCAAATGCCGACTTTCATAATGAAATGGATTTGAAAGATGACCA
1 TTTTTTTTAGCAAATACAAATTTTCATAATGAAATGAATTTGAAAGAT-A--A
* *
59220970 TTTTTTTTAGCAAATACAAATTTTTATAATTAAATGAATTTGAAAGATAA
1 TTTTTTTTAGCAAATACAAATTTTCATAATGAAATGAATTTGAAAGATAA
* * * * * *
59221020 TTATTTTTAGAAAATACTAATTTTCATAACT-AAAAGAATCTGAAAAATAA
1 TTTTTTTTAGCAAATACAAATTTTCATAA-TGAAATGAATTTGAAAGATAA
*
59221070 CTTTTTT
1 TTTTTTT
59221077 AACAATTACT
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
50 47 0.52
51 1 0.01
52 1 0.01
53 41 0.46
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (50 bp):
TTTTTTTTAGCAAATACAAATTTTCATAATGAAATGAATTTGAAAGATAA
Found at i:59221092 original size:49 final size:50
Alignment explanation
Indices: 59220973--59221097 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
59220963 ATGACCATTT
* * * * * * * *
59220973 TTTTTAGCAAATACAAATTTTTATAATTAAATGAATTTGAAAGATAATTA
1 TTTTTAGAAAATACTAATTTTCATAACTAAAAGAATCTGAAAAATAACTA
59221023 TTTTTAGAAAATACTAATTTTCATAACTAAAAGAATCTGAAAAATAACT-
1 TTTTTAGAAAATACTAATTTTCATAACTAAAAGAATCTGAAAAATAACTA
* *
59221072 TTTTTA-ACAATTACTTATTTTCATAA
1 TTTTTAGA-AAATACTAATTTTCATAA
59221098 GTAGTGTTTG
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.02
49 22 0.34
50 41 0.64
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (50 bp):
TTTTTAGAAAATACTAATTTTCATAACTAAAAGAATCTGAAAAATAACTA
Found at i:59221188 original size:14 final size:14
Alignment explanation
Indices: 59221171--59221200 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59221161 TTAATTTAAA
*
59221171 AAAAATTATTTTAT
1 AAAAATTATATTAT
59221185 AAAAATTATATTAT
1 AAAAATTATATTAT
59221199 AA
1 AA
59221201 GCATAAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAAATTATATTAT
Found at i:59221653 original size:14 final size:14
Alignment explanation
Indices: 59221607--59221654 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
59221597 TTTGGATAAC
59221607 TTATAAAATATTAT-
1 TTAT-AAATATTATA
*
59221621 TTATAAATGTTAAATA
1 TTATAAATATT--ATA
59221637 TTATAAATATTATA
1 TTATAAATATTATA
59221651 TTAT
1 TTAT
59221655 TATTTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.21
14 11 0.38
15 2 0.07
16 10 0.34
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TTATAAATATTATA
Found at i:59224375 original size:27 final size:27
Alignment explanation
Indices: 59224322--59224382 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
59224312 TAAACTATTA
*
59224322 CCACAAAGGCTATCATTGCAGGGTTTG
1 CCACAAAGGCTATCATTGCAGGATTTG
* *
59224349 CCACAAAGGCTATCCCTT-CATGATTTG
1 CCACAAAGGCTAT-CATTGCAGGATTTG
59224376 CCACAAA
1 CCACAAA
59224383 AGCGTTCCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (27 bp):
CCACAAAGGCTATCATTGCAGGATTTG
Found at i:59224405 original size:27 final size:27
Alignment explanation
Indices: 59224375--59224502 Score: 78
Period size: 27 Copynumber: 4.7 Consensus size: 27
59224365 TTCATGATTT
*
59224375 GCCACAAAAGCGTTCCTTTTATATTGC
1 GCCACAAAAGCGTTCCTTTCATATTGC
* * * *
59224402 GCCATAAAGGCTTTCCTTTCATATTGT
1 GCCACAAAAGCGTTCCTTTCATATTGC
* * * **
59224429 GCTAGAAAGGCGTTATTTTCATAATT-C
1 GCCACAAAAGCGTTCCTTTCAT-ATTGC
* * * * *
59224456 ACCACAAATGCTTTACTTTCATATTGT
1 GCCACAAAAGCGTTCCTTTCATATTGC
* * *
59224483 GTCACAAAGGCTTTCCTTTC
1 GCCACAAAAGCGTTCCTTTC
59224503 TTGACATGTT
Statistics
Matches: 77, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
26 3 0.04
27 71 0.92
28 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.38
Consensus pattern (27 bp):
GCCACAAAAGCGTTCCTTTCATATTGC
Found at i:59224442 original size:54 final size:55
Alignment explanation
Indices: 59224348--59224501 Score: 147
Period size: 54 Copynumber: 2.8 Consensus size: 55
59224338 TGCAGGGTTT
* * * *
59224348 GCCACAAAGGCTATCCCTTCATGATT-TGCCACAAAAGCGTTCCTTTT-AT-ATTGC
1 GCCACAAAGGCTTTCCTTTCAT-ATTGTGCTACAAAGGCGTTCCTTTTCATAATT-C
* * *
59224402 GCCATAAAGGCTTTCCTTTCATATTGTGCTAGAAAGGCGTT-ATTTTCATAATTC
1 GCCACAAAGGCTTTCCTTTCATATTGTGCTACAAAGGCGTTCCTTTTCATAATTC
* * * *
59224456 ACCACAAATGCTTTACTTTCATATTGTG-TCACAAAGGCTTTCCTTT
1 GCCACAAAGGCTTTCCTTTCATATTGTGCT-ACAAAGGCGTTCCTTT
59224502 CTTGACATGT
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
53 8 0.10
54 67 0.83
55 6 0.07
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (55 bp):
GCCACAAAGGCTTTCCTTTCATATTGTGCTACAAAGGCGTTCCTTTTCATAATTC
Found at i:59228249 original size:6 final size:6
Alignment explanation
Indices: 59228238--59228265 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
59228228 TTCATCTTCT
59228238 TTCTTG TTCTTG TTCTTG TTCTTG TTCT
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCT
59228266 CTCTTTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.14, T:0.68
Consensus pattern (6 bp):
TTCTTG
Found at i:59228633 original size:30 final size:29
Alignment explanation
Indices: 59228599--59228660 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
59228589 AAAAGCCGTT
59228599 TTTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTTCAAAATTTACCGAAATGGGCC-A
* ** *
59228629 -TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTTCAAAATTTACCGAAATGGGCCA
59228657 TTTT
1 TTTT
59228661 CCGCAAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (29 bp):
TTTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:59230173 original size:64 final size:63
Alignment explanation
Indices: 59230094--59230219 Score: 171
Period size: 63 Copynumber: 2.0 Consensus size: 63
59230084 CTACAATCCA
* * * *
59230094 GACATTCAAACAAAACTTAGTTTCATCAATTGAAACATAAAAATCTTTGTCATTAGATGAACCG
1 GACATTCAAACAAAACTTAGTTTCAT-AATAGAAACATAAAAACCTTTATCATCAGATGAACCG
* * * *
59230158 GACATTCAAACAAAACTTGGTTTCATTATAGAAATATACAAACCTTTATCATCAGATGAACC
1 GACATTCAAACAAAACTTAGTTTCATAATAGAAACATAAAAACCTTTATCATCAGATGAACC
59230220 AGACTAAACA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
63 29 0.54
64 25 0.46
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.29
Consensus pattern (63 bp):
GACATTCAAACAAAACTTAGTTTCATAATAGAAACATAAAAACCTTTATCATCAGATGAACCG
Found at i:59231852 original size:30 final size:29
Alignment explanation
Indices: 59231818--59231893 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 29
59231808 TATCTTGTGA
*
59231818 AAATTAAATTAAATTAAATTTTTATATATG
1 AAATTAAATTAAATT-AATTTTTACATATG
* **
59231848 AAATTATACAAAATT-ATTTTTACATATG
1 AAATTAAATTAAATTAATTTTTACATATG
*
59231876 ACATTACACATTAAATTA
1 AAATTA-A-ATTAAATTA
59231894 GAGTTTATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
28 17 0.49
30 18 0.51
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATTAAATTAAATTAATTTTTACATATG
Found at i:59238920 original size:20 final size:20
Alignment explanation
Indices: 59238895--59238935 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
59238885 ATATTTCATA
*
59238895 TTTCTTGTCGTAGTATTTTT
1 TTTCTTGTCATAGTATTTTT
59238915 TTTCTTGTCATAGTATTTTT
1 TTTCTTGTCATAGTATTTTT
59238935 T
1 T
59238936 AGGTACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.66
Consensus pattern (20 bp):
TTTCTTGTCATAGTATTTTT
Found at i:59243199 original size:45 final size:45
Alignment explanation
Indices: 59243173--59243426 Score: 334
Period size: 45 Copynumber: 5.6 Consensus size: 45
59243163 TTTGACATGA
** *
59243173 TGCCATAGTG-CTTTTCAACTATGGTCTTATTCATTTC-CATCATAT
1 TGCCATAGTGTC-TTTCAACTATGGTCTTATTCATTTCTGGT-ATAG
* * * *
59243218 TGCCACAATGTTTTTCAACTGTGGTCTTATTCGA-TTCTGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTCTGGTATAG
*
59243263 TGCCCTAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGTATAG
* * *
59243308 TGCCATAGTGTCTTTCAATTATGATCTTATTCATTTTTGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGTATAG
* *
59243353 TGCCATAGTGTCTTTCAATTATCGTCTTATTCATTTCTGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGTATAG
*
59243398 TGCTATAGTGTCTTTCAACTATGGTCTTA
1 TGCCATAGTGTCTTTCAACTATGGTCTTA
59243427 CTCGTATTTC
Statistics
Matches: 183, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.01
45 180 0.98
46 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGTATAG
Found at i:59251638 original size:42 final size:42
Alignment explanation
Indices: 59251592--59251698 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
59251582 CACAACTGTG
* * * *
59251592 TGTATCAAGTTAGTGAGTCACACGGTTTGGCATACGGCCGTC
1 TGTATCAAGTCAGTGAGTCACACGGTCTGGCACACGGCCATC
* *
59251634 TGTATCAAGTCAGTGAGCCACACGGTCTGGCACACGGCCATG
1 TGTATCAAGTCAGTGAGTCACACGGTCTGGCACACGGCCATC
*
59251676 TG-ATCTAAGTCAGTGAGTTACAC
1 TGTATC-AAGTCAGTGAGTCACAC
59251699 AATTTAAGAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 3 0.05
42 53 0.95
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (42 bp):
TGTATCAAGTCAGTGAGTCACACGGTCTGGCACACGGCCATC
Found at i:59254237 original size:38 final size:34
Alignment explanation
Indices: 59254189--59254261 Score: 92
Period size: 34 Copynumber: 2.0 Consensus size: 34
59254179 TTTTGAAACC
*
59254189 ATTAAATCTTTTTTCTTTTTAGTTACATGAATCAATTA
1 ATTAAATC--TTTT-TTTTT-GTTACATGAACCAATTA
*
59254227 ATTAACTCTTTTTTTTTGTTACATGAACCAATTA
1 ATTAAATCTTTTTTTTTGTTACATGAACCAATTA
59254261 A
1 A
59254262 CTTTGATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 17 0.52
35 5 0.15
36 4 0.12
38 7 0.21
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (34 bp):
ATTAAATCTTTTTTTTTGTTACATGAACCAATTA
Found at i:59254386 original size:27 final size:27
Alignment explanation
Indices: 59254339--59254402 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
59254329 AAATATTCTT
* *
59254339 TAAATTAAT-AAATATTAATTTATCGA
1 TAAACTAATAAAATATTAATTTAGCGA
*
59254365 TAAACTAATAAAATATTCATTTAGCGA
1 TAAACTAATAAAATATTAATTTAGCGA
59254392 TAAACTAATAA
1 TAAACTAATAA
59254403 CCTCAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 8 0.24
27 26 0.76
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.36
Consensus pattern (27 bp):
TAAACTAATAAAATATTAATTTAGCGA
Found at i:59256641 original size:45 final size:46
Alignment explanation
Indices: 59256540--59256663 Score: 135
Period size: 45 Copynumber: 2.7 Consensus size: 46
59256530 TCAAAGATGT
* * * * *
59256540 CATAGTGTCTTTCAACTATGATCTTA-TTCATTTTCGTCATATTGT
1 CATAGTGTCTTTCAACTATGGTCTTATTTGATTCTCGTCATAGTGC
* * * *
59256585 CATAATTTCTTTCAACTATGGTATTATTTGATTCTGGT-ATAGTGC
1 CATAGTGTCTTTCAACTATGGTCTTATTTGATTCTCGTCATAGTGC
* *
59256630 CATAGTGTCTTTCATCTATGGTCTTGTTTGATTC
1 CATAGTGTCTTTCAACTATGGTCTTATTTGATTC
59256664 GTGATGCCAT
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 56 0.88
46 8 0.12
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (46 bp):
CATAGTGTCTTTCAACTATGGTCTTATTTGATTCTCGTCATAGTGC
Found at i:59257517 original size:17 final size:17
Alignment explanation
Indices: 59257495--59257529 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
59257485 ATTTAATAAA
59257495 ATTTCATAAAACATATC
1 ATTTCATAAAACATATC
59257512 ATTTCATAAAACATATC
1 ATTTCATAAAACATATC
59257529 A
1 A
59257530 CCTAATCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTTCATAAAACATATC
Found at i:59266536 original size:69 final size:69
Alignment explanation
Indices: 59266420--59266559 Score: 246
Period size: 69 Copynumber: 2.0 Consensus size: 69
59266410 TATCATTGTC
*
59266420 TCAGAAAAGTCACTTTATGATTTTTCTCTCACTGAGAAGAGCAATTGTTATACTAAATTCAACCT
1 TCAGAAAAGTCACTTTATAATTTTTCTCTCACTGAGAAGAGCAATTGTTATACTAAATTCAACCT
59266485 AAAG
66 AAAG
*
59266489 TCAGGAAAGTCACTTTATAATTTTTCTCTCAAC-GAGAAGAGCAATTGTTATACTAAATTCAACC
1 TCAGAAAAGTCACTTTATAATTTTTCTCTC-ACTGAGAAGAGCAATTGTTATACTAAATTCAACC
59266553 TAAAG
65 TAAAG
59266558 TC
1 TC
59266560 TACCAATGTA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 66 0.97
70 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (69 bp):
TCAGAAAAGTCACTTTATAATTTTTCTCTCACTGAGAAGAGCAATTGTTATACTAAATTCAACCT
AAAG
Found at i:59269730 original size:128 final size:129
Alignment explanation
Indices: 59269550--59269811 Score: 499
Period size: 128 Copynumber: 2.0 Consensus size: 129
59269540 TTTTGTAACA
*
59269550 GTTGAACTGAAGAGAAGAAAAGAGAGAAATTGTTGTGTTTAGTAGGAGAGCTCAAAAATTCTGGT
1 GTTGAACTGAAGAGAAGAAAAGAGAGAAATTGTTGTGTTTAGTAGGACAGCTCAAAAATTCTGGT
59269615 GAAGATGAATAACTCAGTGTTTTTAGTGTACATTCTTTTTTATGGTGAAATTGTAAAAGGTGAT
66 GAAGATGAATAACTCAGTGTTTTTAGTGTACATTCTTTTTTATGGTGAAATTGTAAAAGGTGAT
*
59269679 GTTGAATTGAAGAGAAGAAAAGA-AGAAATTGTTGTGTTTAGTAGGACAGCTCAAAAATTCTGGT
1 GTTGAACTGAAGAGAAGAAAAGAGAGAAATTGTTGTGTTTAGTAGGACAGCTCAAAAATTCTGGT
59269743 GAAGATGAATAACTCAGTGTTTTTAGTGTACATTCTTTTTTATGGTGAAATTGTAAAAGGTGAT
66 GAAGATGAATAACTCAGTGTTTTTAGTGTACATTCTTTTTTATGGTGAAATTGTAAAAGGTGAT
59269807 GTTGA
1 GTTGA
59269812 TTGTGTATTC
Statistics
Matches: 131, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
128 109 0.83
129 22 0.17
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (129 bp):
GTTGAACTGAAGAGAAGAAAAGAGAGAAATTGTTGTGTTTAGTAGGACAGCTCAAAAATTCTGGT
GAAGATGAATAACTCAGTGTTTTTAGTGTACATTCTTTTTTATGGTGAAATTGTAAAAGGTGAT
Found at i:59273196 original size:14 final size:14
Alignment explanation
Indices: 59273179--59273208 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59273169 GATAACAAAG
59273179 AAAATATAAAAATA
1 AAAATATAAAAATA
59273193 AAAATATAAAAATA
1 AAAATATAAAAATA
59273207 AA
1 AA
59273209 TAGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATATAAAAATA
Found at i:59273696 original size:6 final size:7
Alignment explanation
Indices: 59273676--59273704 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
59273666 AAAAAATCAT
59273676 AATAAAA
1 AATAAAA
59273683 AATAAAA
1 AATAAAA
59273690 AATAAAA
1 AATAAAA
59273697 AATAAAA
1 AATAAAA
59273704 A
1 A
59273705 GAGATGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:59273703 original size:13 final size:13
Alignment explanation
Indices: 59273664--59273704 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
59273654 CTTAATAATT
* *
59273664 ATAAAAAATCATA
1 ATAAAAAATAAAA
59273677 ATAAAAAATAAAAA
1 ATAAAAAAT-AAAA
59273691 ATAAAAAATAAAA
1 ATAAAAAATAAAA
59273704 A
1 A
59273705 GAGATGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:59282069 original size:40 final size:40
Alignment explanation
Indices: 59282025--59282207 Score: 182
Period size: 40 Copynumber: 4.6 Consensus size: 40
59282015 GCTCCTCGTT
*
59282025 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* * *
59282065 CAAATGCCTTCGAGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
59282105 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
59282144 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
59282185 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
59282208 ACATCATTCA
Statistics
Matches: 119, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
38 3 0.03
39 44 0.37
40 63 0.53
41 8 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:59282128 original size:79 final size:81
Alignment explanation
Indices: 59282025--59282208 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
59282015 GCTCCTCGTT
* *
59282025 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGAGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCG-GATCTTAACC
*
59282087 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
59282105 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
59282169 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
59282185 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59282209 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 13 0.14
79 57 0.62
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:59290017 original size:40 final size:40
Alignment explanation
Indices: 59289973--59290155 Score: 173
Period size: 40 Copynumber: 4.6 Consensus size: 40
59289963 GCTCCTCGTT
*
59289973 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* * *
59290013 CAAATGCCTTCGAGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
59290053 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * * *
59290092 CAAATGCCTT-TGGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
59290133 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
59290156 ACATCATTCA
Statistics
Matches: 117, Mismatches: 16, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
38 3 0.03
39 42 0.36
40 63 0.54
41 8 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:59290117 original size:79 final size:82
Alignment explanation
Indices: 59289973--59290156 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 82
59289963 GCTCCTCGTT
* *
59289973 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCG
*
59290037 GAT-TTAGTAAC-TCGCA
66 GATATT-GTAACTTAGCA
* **
59290053 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTTG-GATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGAGA-CTTAACC
*
59290114 CGGATATTGTCACTTAGCA
64 CGGATATTGTAACTTAGCA
59290133 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59290157 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 13 0.14
79 56 0.62
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCG
GATATTGTAACTTAGCA
Found at i:59314173 original size:18 final size:19
Alignment explanation
Indices: 59314150--59314188 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
59314140 CTTGGCCCAT
* *
59314150 TACAGTATCA-ATATTCAG
1 TACAGTAACAGATATACAG
59314168 TACAGTAACAGATATACAG
1 TACAGTAACAGATATACAG
59314187 TA
1 TA
59314189 TCAAATCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (19 bp):
TACAGTAACAGATATACAG
Found at i:59317544 original size:25 final size:25
Alignment explanation
Indices: 59317510--59317563 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
59317500 TGAGCTACAT
*
59317510 GGCCTGGCACATGGGTGCATGACAC
1 GGCCTGGCACACGGGTGCATGACAC
**
59317535 GGCCTGGCACACGGGTGTGTGACAC
1 GGCCTGGCACACGGGTGCATGACAC
59317560 GGCC
1 GGCC
59317564 GTGTGACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.30, G:0.39, T:0.15
Consensus pattern (25 bp):
GGCCTGGCACACGGGTGCATGACAC
Found at i:59318902 original size:25 final size:22
Alignment explanation
Indices: 59318863--59318907 Score: 63
Period size: 25 Copynumber: 1.9 Consensus size: 22
59318853 CAAATTTGAA
59318863 GCTAAGCACATACCAAGCATTAG
1 GCTAAGCACATACCAA-CATTAG
59318886 GCTAAGCTACCATACCAACATT
1 GCTAAGC-A-CATACCAACATT
59318908 GCCTAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (22 bp):
GCTAAGCACATACCAACATTAG
Found at i:59318913 original size:23 final size:23
Alignment explanation
Indices: 59318864--59318913 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
59318854 AAATTTGAAG
*
59318864 CTAAGCACATACCAAGCATTAGG
1 CTAAGCACATACCAAGCATTAGC
59318887 CTAAGCTACCATACCAA-CATT-GC
1 CTAAGC-A-CATACCAAGCATTAGC
59318910 CTAA
1 CTAA
59318914 ACTATAACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 11 0.46
24 5 0.21
25 8 0.33
ACGTcount: A:0.38, C:0.30, G:0.12, T:0.20
Consensus pattern (23 bp):
CTAAGCACATACCAAGCATTAGC
Found at i:59319410 original size:27 final size:27
Alignment explanation
Indices: 59319379--59319433 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
59319369 CTACTTGGAT
*
59319379 TCATTTCA-AGTTTCACATCTCATTTCA
1 TCATTTCATA-TTTCACATCTCATCTCA
*
59319406 TCATTTCATATTTCACTTCTCATCTCA
1 TCATTTCATATTTCACATCTCATCTCA
59319433 T
1 T
59319434 ATACATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.47
Consensus pattern (27 bp):
TCATTTCATATTTCACATCTCATCTCA
Found at i:59319445 original size:18 final size:19
Alignment explanation
Indices: 59319399--59319448 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
59319389 TTTCACATCT
* *
59319399 CATTTCATCATTTCATATTT
1 CATTTC-TCATCTCATATTA
*
59319419 CACTTCTCATCTCATA-TA
1 CATTTCTCATCTCATATTA
59319437 CATTTCTCATCT
1 CATTTCTCATCT
59319449 TTGCCATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 12 0.46
19 9 0.35
20 5 0.19
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (19 bp):
CATTTCTCATCTCATATTA
Found at i:59319471 original size:43 final size:43
Alignment explanation
Indices: 59319422--59319504 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
59319412 CATATTTCAC
* *
59319422 TTCTCATCTCATATACATTTCTCATCTTTGCCATTTCAATATT
1 TTCTCATCTCATATACATTTCTCATATTTGCCATATCAATATT
* *
59319465 TTCTCATCTCATATGCATTTCTCATATTTTCCATATCAAT
1 TTCTCATCTCATATACATTTCTCATATTTGCCATATCAAT
59319505 CACATAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.25, G:0.02, T:0.48
Consensus pattern (43 bp):
TTCTCATCTCATATACATTTCTCATATTTGCCATATCAATATT
Found at i:59328822 original size:13 final size:14
Alignment explanation
Indices: 59328804--59328834 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
59328794 ATTAGAGGTA
59328804 GTCAAAGTCATT-T
1 GTCAAAGTCATTAT
59328817 GTCAAAGTCATTAT
1 GTCAAAGTCATTAT
59328831 GTCA
1 GTCA
59328835 GACAATCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (14 bp):
GTCAAAGTCATTAT
Found at i:59328971 original size:31 final size:32
Alignment explanation
Indices: 59328902--59328975 Score: 102
Period size: 30 Copynumber: 2.4 Consensus size: 32
59328892 TCTTTAAGTT
*
59328902 TTTTTAAAAATT-TTAGTTAGGCCCTTTAAAA
1 TTTTTAAAAATTATTAGTTAAGCCCTTTAAAA
59328933 -TTTTAAAAATTATTA-TTAAG-CCTTTGAAAA
1 TTTTTAAAAATTATTAGTTAAGCCCTTT-AAAA
59328963 TTTTTAAAAATTA
1 TTTTTAAAAATTA
59328976 CAATTAAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
29 5 0.13
30 19 0.49
31 15 0.38
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (32 bp):
TTTTTAAAAATTATTAGTTAAGCCCTTTAAAA
Found at i:59328982 original size:31 final size:29
Alignment explanation
Indices: 59328924--59328982 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
59328914 TTAGTTAGGC
**
59328924 CCTTTAAAATTTTAAAAATTATTATTAAG
1 CCTTTAAAATTTTAAAAATTACAATTAAG
59328953 CCTTTGAAAATTTTTAAAAATTACAATTAA
1 CCTTT-AAAA-TTTTAAAAATTACAATTAA
59328983 ACTCTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 4 0.15
31 17 0.65
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (29 bp):
CCTTTAAAATTTTAAAAATTACAATTAAG
Found at i:59337249 original size:29 final size:30
Alignment explanation
Indices: 59337217--59337275 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
59337207 TATGGTTTAA
* *
59337217 TGTGCAGTTGTATATATG-AACTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
* *
59337246 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
59337276 GATCCAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAACTTTGATTT
Found at i:59344040 original size:20 final size:21
Alignment explanation
Indices: 59344006--59344046 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
59343996 GTTATTAAGT
*
59344006 AATGATGATTTTTTTTCTTAA
1 AATGATGATTCTTTTTCTTAA
*
59344027 AATG-TGATTCTTTTTTTTAA
1 AATGATGATTCTTTTTCTTAA
59344047 TAGTGTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.59
Consensus pattern (21 bp):
AATGATGATTCTTTTTCTTAA
Found at i:59347964 original size:3 final size:3
Alignment explanation
Indices: 59347953--59347989 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
59347943 CCCAAAACCC
59347953 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CCTT CT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT -CTT CT
59347990 ACAGCTTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:59351898 original size:24 final size:24
Alignment explanation
Indices: 59351871--59351922 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
59351861 TTTCTAGAAG
* *
59351871 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
59351895 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
59351919 ATTT
1 ATTT
59351923 GACTTCGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:59354455 original size:24 final size:24
Alignment explanation
Indices: 59354365--59354553 Score: 135
Period size: 23 Copynumber: 8.0 Consensus size: 24
59354355 GTATAAAACG
* *
59354365 ATACATGGT-AACTTTAAATAATA
1 ATACATGATAAACTTAAAATAATA
* *
59354388 ATAAATGAT-AAGTTAAAAAATAATA
1 ATACATGATAAACTT--AAAATAATA
* *
59354413 ATACTTGATAGA-TTCAAAATGAA-A
1 ATACATGATAAACTT-AAAAT-AATA
*
59354437 ATACGTGATAAACTTAAAATAATA
1 ATACATGATAAACTTAAAATAATA
* *
59354461 ATACATGATAAA-TTTAAATAATG
1 ATACATGATAAACTTAAAATAATA
* *
59354484 TTA-ATGATAAATTTAAAATAATA
1 ATACATGATAAACTTAAAATAATA
59354507 ATACATTG-TAAA-TTAAAATAAT-
1 ATACA-TGATAAACTTAAAATAATA
** *
59354529 ATTGATGATAAATTTAAAAATAATA
1 ATACATGATAAACTT-AAAATAATA
59354554 TTAAGCTTAA
Statistics
Matches: 134, Mismatches: 19, Indels: 24
0.76 0.11 0.14
Matches are distributed among these distances:
21 2 0.01
22 15 0.11
23 47 0.35
24 46 0.34
25 23 0.17
26 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.33
Consensus pattern (24 bp):
ATACATGATAAACTTAAAATAATA
Found at i:59354506 original size:46 final size:46
Alignment explanation
Indices: 59354365--59354553 Score: 168
Period size: 46 Copynumber: 4.0 Consensus size: 46
59354355 GTATAAAACG
* * * * * *
59354365 ATACATGGTAACTTTAAATAATAATAAATGATAAGTTAAAAAATAATA
1 ATACATTGTAAATTAAAATAAT-ATTAATGATAAATT-TAAAATAATA
* * * *
59354413 ATAC-TTGATAGATTCAAAATGAA-AATACGTGATAAACTTAAAATAATA
1 ATACATTG-TAAATT-AAAAT-AATATTA-ATGATAAATTTAAAATAATA
* *
59354461 ATACA-TGATAAATTTAAATAATGTTAATGATAAATTTAAAATAATA
1 ATACATTG-TAAATTAAAATAATATTAATGATAAATTTAAAATAATA
*
59354507 ATACATTGTAAATTAAAATAATATTGATGATAAATTTAAAAATAATA
1 ATACATTGTAAATTAAAATAATATTAATGATAAATTT-AAAATAATA
59354554 TTAAGCTTAA
Statistics
Matches: 114, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
46 51 0.45
47 19 0.17
48 31 0.27
49 11 0.10
50 2 0.02
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.33
Consensus pattern (46 bp):
ATACATTGTAAATTAAAATAATATTAATGATAAATTTAAAATAATA
Found at i:59362155 original size:24 final size:24
Alignment explanation
Indices: 59362092--59362143 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
59362082 TTTCTAGAAG
* * *
59362092 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
59362116 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
59362140 ATTT
1 ATTT
59362144 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:59366586 original size:13 final size:12
Alignment explanation
Indices: 59366568--59366601 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
59366558 GTTTTGTAAA
59366568 TTTTTAAATATTT
1 TTTTTAAA-ATTT
*
59366581 TTTTTATAATTT
1 TTTTTAAAATTT
59366593 TTTTTAAAA
1 TTTTTAAAA
59366602 ATTTATTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTAAAATTT
Found at i:59366604 original size:13 final size:13
Alignment explanation
Indices: 59366568--59366605 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
59366558 GTTTTGTAAA
*
59366568 TTTTTAAATATTT
1 TTTTTAAAAATTT
*
59366581 TTTTT-ATAATTT
1 TTTTTAAAAATTT
59366593 TTTTTAAAAATTT
1 TTTTTAAAAATTT
59366606 ATTAAGACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTAAAAATTT
Found at i:59366682 original size:10 final size:10
Alignment explanation
Indices: 59366667--59366704 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
59366657 TATGTTTAGT
59366667 TTTAATTAAG
1 TTTAATTAAG
59366677 TTTAATTAA-
1 TTTAATTAAG
59366686 TTTAATTAAG
1 TTTAATTAAG
*
59366696 ATTAATTAA
1 TTTAATTAA
59366705 TTACTAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (10 bp):
TTTAATTAAG
Found at i:59366691 original size:19 final size:19
Alignment explanation
Indices: 59366667--59366706 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
59366657 TATGTTTAGT
*
59366667 TTTAATTAAGTTTAATTAA
1 TTTAATTAAGATTAATTAA
59366686 TTTAATTAAGATTAATTAA
1 TTTAATTAAGATTAATTAA
59366705 TT
1 TT
59366707 ACTAACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TTTAATTAAGATTAATTAA
Found at i:59367913 original size:119 final size:120
Alignment explanation
Indices: 59367789--59368071 Score: 288
Period size: 120 Copynumber: 2.4 Consensus size: 120
59367779 TTGTGACACG
* *
59367789 AGTTTAGCTC-GGACGAGTAACCTGATGTCAATTTAAAGGTTTAGACT-GAACATGTAACCTGAC
1 AGTTTAGCTCTGGACG-GTAACCTGATGTCATTTTAAAGGTTTAG-CTCGAACAAGTAACCTGAC
* ** * *
59367852 ATGTATATA-TTTCAGCTCGGATGAGCAATTGATGTGTCGAGGATACTTAGGACATA
64 ATGTATATATTTTCAGCTAGGACAAACAATTGATGTGTCGAGAATACTTAGGACATA
* * ** * * * **
59367908 GGTTTAG-TCTGGATTGGTAACCTGATGTTGTTTTAAAGATTTAGCTCGAATAAGTAATCTGTTA
1 AGTTTAGCTCTGGA-CGGTAACCTGATGTCATTTTAAAGGTTTAGCTCGAACAAGTAACCTGACA
** * *
59367972 TGTATATATTTTCAGCTAGGACAAATGATTGATGTTTCGAGAATACTTGGGACATA
65 TGTATATATTTTCAGCTAGGACAAACAATTGATGTGTCGAGAATACTTAGGACATA
** *
59368028 AGTTTAGC-CTAAACTGGTAACCTGATGTCATTTTAAAAGTTTAG
1 AGTTTAGCTCTGGAC-GGTAACCTGATGTCATTTTAAAGGTTTAG
59368072 TCCGGACGAA
Statistics
Matches: 130, Mismatches: 28, Indels: 11
0.77 0.17 0.07
Matches are distributed among these distances:
118 4 0.03
119 53 0.41
120 73 0.56
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (120 bp):
AGTTTAGCTCTGGACGGTAACCTGATGTCATTTTAAAGGTTTAGCTCGAACAAGTAACCTGACAT
GTATATATTTTCAGCTAGGACAAACAATTGATGTGTCGAGAATACTTAGGACATA
Found at i:59385676 original size:23 final size:25
Alignment explanation
Indices: 59385631--59385677 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
59385621 GTCCTTACTC
*
59385631 TTTAAAAGTACATAAATTTTTTTTT
1 TTTAAAAGTACATAAATTATTTTTT
59385656 TTTAAAAGTA-A-AAATTATTTTT
1 TTTAAAAGTACATAAATTATTTTT
59385678 CTTCATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 1 0.05
25 10 0.48
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTAAAAGTACATAAATTATTTTTT
Found at i:59385764 original size:21 final size:22
Alignment explanation
Indices: 59385738--59385792 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
59385728 TTTTAAAAAT
**
59385738 AAAATAAAAATTTAAAA-TTCA
1 AAAATAAAAATAAAAAATTTCA
*
59385759 AAAATAAAAATAAAAAATTTTA
1 AAAATAAAAATAAAAAATTTCA
59385781 AAATATAAAAAT
1 AAA-ATAAAAAT
59385793 CCTCAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 15 0.52
22 6 0.21
23 8 0.28
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAATAAAAATAAAAAATTTCA
Found at i:59387475 original size:31 final size:30
Alignment explanation
Indices: 59387440--59387499 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
59387430 GGAGGTGGGA
* *
59387440 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTGAGGGGAAAAG
* *
59387471 TGGGAGGGAGTAAAAATTTGAGGGGAAAA
1 TGGGAGAGAATAAAAATTTGAGGGGAAAA
59387500 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.18
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTGAGGGGAAAAG
Found at i:59387727 original size:9 final size:9
Alignment explanation
Indices: 59387713--59387749 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
59387703 TATAGTTTGA
59387713 TATTCGAAT
1 TATTCGAAT
59387722 TATTCGAAT
1 TATTCGAAT
*
59387731 TATTCGAGT
1 TATTCGAAT
59387740 TATTCGAAT
1 TATTCGAAT
59387749 T
1 T
59387750 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:59394042 original size:20 final size:20
Alignment explanation
Indices: 59393996--59394035 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59393986 TTTCCCTTTT
*
59393996 ATATAAAAATTAATTGATTG
1 ATATAAAAATTAATTGAGTG
*
59394016 ATATAAAAATTAATTTAGTG
1 ATATAAAAATTAATTGAGTG
59394036 TAATAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
ATATAAAAATTAATTGAGTG
Found at i:59404531 original size:56 final size:56
Alignment explanation
Indices: 59404393--59404530 Score: 206
Period size: 56 Copynumber: 2.4 Consensus size: 56
59404383 CACTGTCGCA
59404393 ATTATGGATTGACTTTTAATTTTTTCTCGGTTTAACAAAAGTATTTTAATTGGTTAT
1 ATTATGGATTGACTTTTAATTTTTTCTCGGTTTAACAAAAG-ATTTTAATTGGTTAT
* * * *
59404450 ATTATGGATTGACTTCTAAGTTTTTTCTCGGTTTCAGAGAAG-TTTTAATTGGTTAT
1 ATTATGGATTGACTTTTAA-TTTTTTCTCGGTTTAACAAAAGATTTTAATTGGTTAT
*
59404506 ATTATGTATTGACTTTTAATTTTTT
1 ATTATGGATTGACTTTTAATTTTTT
59404531 TTTCGATTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
55 6 0.08
56 31 0.42
57 18 0.24
58 19 0.26
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.52
Consensus pattern (56 bp):
ATTATGGATTGACTTTTAATTTTTTCTCGGTTTAACAAAAGATTTTAATTGGTTAT
Found at i:59405476 original size:25 final size:26
Alignment explanation
Indices: 59405425--59405476 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
59405415 TTATTATTGT
*
59405425 TTTTATTAAAATATATGTAACAATAA
1 TTTTATTAAAATATATATAACAATAA
*
59405451 TTTTATTAAAATTTA-ATAACAATAA
1 TTTTATTAAAATATATATAACAATAA
59405476 T
1 T
59405477 CATCTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
TTTTATTAAAATATATATAACAATAA
Found at i:59405676 original size:16 final size:16
Alignment explanation
Indices: 59405624--59405678 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
59405614 TGAATTACTG
*
59405624 ATTATAGCTATATTCC
1 ATTATAGCTCTATTCC
* * *
59405640 ATTACAACTCTATTCA
1 ATTATAGCTCTATTCC
*
59405656 ATTATAGCCCTATTCC
1 ATTATAGCTCTATTCC
59405672 ATTATAG
1 ATTATAG
59405679 TGAACCAAAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:59410416 original size:32 final size:32
Alignment explanation
Indices: 59410374--59410455 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
59410364 TGTCAATCAT
*
59410374 TTCAATATCCAACAA-TCTTAAAACATAATAAA
1 TTCAAAATCCAACAAGT-TTAAAACATAATAAA
*
59410406 TTCAAAATCCAACAAGTTTAAAACATAATAAT
1 TTCAAAATCCAACAAGTTTAAAACATAATAAA
*
59410438 TTTAAAATCCAACAAGTT
1 TTCAAAATCCAACAAGTT
59410456 AATTTCAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 45 0.98
33 1 0.02
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (32 bp):
TTCAAAATCCAACAAGTTTAAAACATAATAAA
Found at i:59410428 original size:16 final size:16
Alignment explanation
Indices: 59410409--59410455 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
59410399 TAATAAATTC
59410409 AAAATCCAACAAGTTT
1 AAAATCCAACAAGTTT
* * *
59410425 AAAA-CATAATAATTTT
1 AAAATC-CAACAAGTTT
59410441 AAAATCCAACAAGTT
1 AAAATCCAACAAGTT
59410456 AATTTCAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.53, C:0.15, G:0.04, T:0.28
Consensus pattern (16 bp):
AAAATCCAACAAGTTT
Found at i:59414015 original size:5 final size:5
Alignment explanation
Indices: 59414005--59414040 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
59413995 GCTTGACATA
59414005 TCATC TCATC TCATC TCATC TCATC TCATC TCATC T
1 TCATC TCATC TCATC TCATC TCATC TCATC TCATC T
59414041 TTGTCATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.39, G:0.00, T:0.42
Consensus pattern (5 bp):
TCATC
Found at i:59417803 original size:125 final size:126
Alignment explanation
Indices: 59417594--59417874 Score: 412
Period size: 125 Copynumber: 2.3 Consensus size: 126
59417584 TTATTTCGAG
**
59417594 TTGACGTTTT-TG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTG
1 TTGACGTTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTG
* * *
59417657 TGAAATCGTGCCCTCGTGGACGCCATTTCAGC-ACAGTTGGTCATGTCAGAAATTATT-TTTT
65 TGAAATCGCGCCCTCGTGGACGCCATTTC-GCTACAGTTGGTCATGTAAGAAATAATTATTTT
*
59417718 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATTCTAT-ATGAGAAGAAATTG
1 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCA-GAGAAGAAATTG
*
59417782 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
65 TGAAATCGCGCCCTCGTGGACGCCATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
* *
59417844 TTGACG-TTTCTGAGCAAATAGTGTCAAATCG
1 TTGACGTTTTCTGAGCAAATAGTATAAAATCG
59417875 TGCCCTCGTG
Statistics
Matches: 143, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
124 13 0.09
125 119 0.83
126 11 0.08
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (126 bp):
TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGT
GAAATCGCGCCCTCGTGGACGCCATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
Found at i:59420279 original size:14 final size:15
Alignment explanation
Indices: 59420262--59420295 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
59420252 AATATTTATC
59420262 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
59420276 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
59420291 TAAAA
1 TAAAA
59420296 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:59420417 original size:11 final size:10
Alignment explanation
Indices: 59420386--59420437 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
59420376 GCCATTGTTG
59420386 AAAATA-TTA
1 AAAATATTTA
59420395 AAAAT-TTTA
1 AAAATATTTA
*
59420404 AAATTATTTAA
1 AAAATATTT-A
**
59420415 AAAATAAATA
1 AAAATATTTA
59420425 AAAATATTTA
1 AAAATATTTA
59420435 AAA
1 AAA
59420438 TTTTCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
9 12 0.35
10 15 0.44
11 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATATTTA
Found at i:59420438 original size:31 final size:32
Alignment explanation
Indices: 59420393--59420457 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
59420383 TTGAAAATAT
59420393 TAAAAATTTTAAAA-TTATTTAAAAAAT-AAA
1 TAAAAATTTTAAAATTTATTTAAAAAATGAAA
*
59420423 TAAAAATATTTAAAATTTTCTTTAAAAAATGAAA
1 TAAAAAT-TTTAAAA-TTTATTTAAAAAATGAAA
59420457 T
1 T
59420458 TGAATGGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 7 0.23
31 7 0.23
33 12 0.40
34 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (32 bp):
TAAAAATTTTAAAATTTATTTAAAAAATGAAA
Found at i:59420545 original size:52 final size:52
Alignment explanation
Indices: 59420489--59420588 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
59420479 TATGGAGTTG
* * * * * *
59420489 AGAGATTTTTTGAAGGAATTTGCGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATCGAGAGAATTTTGGAAGGAATTTGAGAGTTTA
*
59420541 AGAGAATTTTGGAAGGAAATCGAGAGAATTTTTGAAGGAATTTGAGAG
1 AGAGAATTTTGGAAGGAAATCGAGAGAATTTTGGAAGGAATTTGAGAG
59420589 ATTTTTTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.35, C:0.02, G:0.31, T:0.32
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATCGAGAGAATTTTGGAAGGAATTTGAGAGTTTA
Found at i:59420566 original size:22 final size:22
Alignment explanation
Indices: 59420541--59420609 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
59420531 TGAGAGTTTA
* *
59420541 AGAGAATTTTGGAAGGAAATCG
1 AGAGAATTTTTGAAGGAAATTG
*
59420563 AGAGAATTTTTGAAGGAATTTG
1 AGAGAATTTTTGAAGGAAATTG
* *
59420585 AGAGATTTTTTGAATGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
59420607 AGA
1 AGA
59420610 TGGGATTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.39, C:0.01, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:59430210 original size:2 final size:2
Alignment explanation
Indices: 59430203--59430233 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59430193 AGACTTCGGA
59430203 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
59430234 CAGAAGTGAC
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59435151 original size:75 final size:75
Alignment explanation
Indices: 59435052--59435221 Score: 304
Period size: 75 Copynumber: 2.2 Consensus size: 75
59435042 GATACCATCA
* *
59435052 AAATTTTAAAATATTATAAATATTTAAGTTTTTAAATATATAAATGAAGTAAAATATTAGTATAT
1 AAATTTT--AATATTAGAGATATTTAAGTTTTTAAATATATAAATGAAGTAAAATATTAGTATAT
59435117 AAAAAATTTGAT
64 AAAAAATTTGAT
59435129 AAATTTTAATATTAGAGATATTTAAGTTTTTAAATATATAAATGAAGTAAAATATTAGTATATAA
1 AAATTTTAATATTAGAGATATTTAAGTTTTTAAATATATAAATGAAGTAAAATATTAGTATATAA
59435194 AAAATTTGAT
66 AAAATTTGAT
59435204 AAATTTTAATATTAGAGA
1 AAATTTTAATATTAGAGA
59435222 AATAAAAGAG
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
75 84 0.92
77 7 0.08
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (75 bp):
AAATTTTAATATTAGAGATATTTAAGTTTTTAAATATATAAATGAAGTAAAATATTAGTATATAA
AAAATTTGAT
Found at i:59443378 original size:21 final size:21
Alignment explanation
Indices: 59443352--59443392 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59443342 CCTCCATTAT
59443352 TTATTT-ATTTATATCTTGTAA
1 TTATTTAATTT-TATCTTGTAA
*
59443373 TTATTTAATTTTATTTTGTA
1 TTATTTAATTTTATCTTGTA
59443393 TTTGGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (21 bp):
TTATTTAATTTTATCTTGTAA
Found at i:59449604 original size:20 final size:21
Alignment explanation
Indices: 59449574--59449616 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
59449564 CCAAACCTCC
* *
59449574 AAAAATGCTTTTATTCAAAAA
1 AAAAATGCTTTAAATCAAAAA
59449595 AAAAAT-CTTTAAATCAAAAA
1 AAAAATGCTTTAAATCAAAAA
59449615 AA
1 AA
59449617 CATTGATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATGCTTTAAATCAAAAA
Found at i:59450234 original size:15 final size:17
Alignment explanation
Indices: 59450214--59450245 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
59450204 TTAAAATATT
59450214 CATATAT-TA-TAAAAA
1 CATATATCTATTAAAAA
59450229 CATATATCTATTAAAAA
1 CATATATCTATTAAAAA
59450246 AATGCATGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
CATATATCTATTAAAAA
Found at i:59454412 original size:44 final size:44
Alignment explanation
Indices: 59454364--59454477 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
59454354 CTAATCCACT
* * * *
59454364 CCACTACAACTTTAGGGAGATAGGA-TTTGTTCATTTAGTCTGCC
1 CCACTACAACTTTAGGGAGATAAGACTTTCTT-ACTCAGTCTGCC
* *
59454408 CCACTACAA-TTTCAGGGGGATAAGACTTTCTTACTCAGTCTGCT
1 CCACTACAACTTT-AGGGAGATAAGACTTTCTTACTCAGTCTGCC
* *
59454452 CCGCTGCAACTTTAGGGAGATAAGAC
1 CCACTACAACTTTAGGGAGATAAGAC
59454478 CAGATGCGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
43 3 0.05
44 47 0.81
45 8 0.14
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
CCACTACAACTTTAGGGAGATAAGACTTTCTTACTCAGTCTGCC
Found at i:59454574 original size:45 final size:44
Alignment explanation
Indices: 59454495--59454603 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 44
59454485 GATATGCTCT
** * *
59454495 CTGCAACTTCAGAGG-GATAAGATCTATGGTTTTAATCCGCTCTTA
1 CTGCAACTTCAG-GGAGATAAGATCTATGACTTTAATCCACTC-CA
* *
59454540 CTGCAACTTCAGGGAGATAGGAT-TATTGACTTTAATCTACTCCA
1 CTGCAACTTCAGGGAGATAAGATCTA-TGACTTTAATCCACTCCA
59454584 CTGCAACTTCAGGGAGATAA
1 CTGCAACTTCAGGGAGATAA
59454604 AATTCTCAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
44 24 0.44
45 31 0.56
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATCTATGACTTTAATCCACTCCA
Found at i:59454864 original size:44 final size:44
Alignment explanation
Indices: 59454746--59454866 Score: 165
Period size: 44 Copynumber: 2.8 Consensus size: 44
59454736 ATCTGTAATT
* * *
59454746 TTCAACCTACTCCACTACTG-CTCAGGGAGACAGGATTCACAATC
1 TTCAACCTATTCCACTACTGCCT-AGGGAGATAGAATTCACAATC
*
59454790 TTTAACCTATTCCACTACTGACC-AGGGAGATAGAATTCACAATC
1 TTCAACCTATTCCACTACTG-CCTAGGGAGATAGAATTCACAATC
*
59454834 TTCAGCCTATTCCACTACTGCCTAGGGAGATAG
1 TTCAACCTATTCCACTACTGCCTAGGGAGATAG
59454867 GGCTGGGTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
43 2 0.03
44 65 0.96
46 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (44 bp):
TTCAACCTATTCCACTACTGCCTAGGGAGATAGAATTCACAATC
Found at i:59454980 original size:43 final size:43
Alignment explanation
Indices: 59454927--59455069 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 43
59454917 TATTTTTAAC
59454927 CTGCTCCGCTGTAACCCAGGGAGGCAAGGTTGGTGTCTTTGAT
1 CTGCTCCGCTGTAACCCAGGGAGGCAAGGTTGGTGTCTTTGAT
* *** ** * * * * * *
59454970 CTGCTTCGCTGTCAGTGCAGAAAGGCAAGATCTGCTATTTTTAAC
1 CTGCTCCGCTGT-AACCCAGGGAGGCAAGGT-TGGTGTCTTTGAT
* * *
59455015 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGAT
1 CTGCTCCGCTGTAACCCAGGGAGGCAAGGTTGGTGTCTTTGAT
*
59455058 CTGCTTCGCTGT
1 CTGCTCCGCTGT
59455070 CGGTGCAGGA
Statistics
Matches: 69, Mismatches: 29, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
43 28 0.41
44 23 0.33
45 18 0.26
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (43 bp):
CTGCTCCGCTGTAACCCAGGGAGGCAAGGTTGGTGTCTTTGAT
Found at i:59454996 original size:44 final size:44
Alignment explanation
Indices: 59454943--59455262 Score: 146
Period size: 44 Copynumber: 7.3 Consensus size: 44
59454933 CGCTGTAACC
*
59454943 CAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCAGTG
1 CAGGAAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCAGTG
* * * * * * * * ***
59454987 CAGAAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAGGT-TGGTGTCTTTGATCTGCTTCGCTGTCAGTG
* * * *
59455031 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCAGTG
* * * * * ***
59455075 CAGGAAGGCAAGATCTGCTAT-TTTTAACTTGC-TCTGCTG-CAACC
1 CAGGAAGGCAAGGT-TGGTGTCTTTGATC-TGCTTC-GCTGTCAGTG
* * * * * **
59455119 CAGGTAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTATTGGTG
1 CAGGAAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCAGTG
** * * * * * * ***
59455163 CAGGAAGGCAATATCTGTTATTTTTAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAGGT-TGGTGTCTTTGATCTGCTTCGCTGTCAGTG
* * * *
59455207 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCAGTG
59455251 CAGGAAGGCAAG
1 CAGGAAGGCAAG
59455263 ATCTACTATT
Statistics
Matches: 178, Mismatches: 88, Indels: 20
0.62 0.31 0.07
Matches are distributed among these distances:
43 43 0.24
44 91 0.51
45 44 0.25
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (44 bp):
CAGGAAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCAGTG
Found at i:59455031 original size:88 final size:88
Alignment explanation
Indices: 59454867--59455355 Score: 764
Period size: 88 Copynumber: 5.6 Consensus size: 88
59454857 AGGGAGATAG
* * * * *
59454867 GGCTGG-GTCATCGATCTGCTTCACTGTCGGTGTAGGAAGGCAAAATCTACTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
59454931 TCCGCTGTAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
59454954 GGTTGGTGTCTTTGATCTGCTTCGCTGTCAGTGCAGAAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
59455019 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
59455042 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
59455107 TCTGCTGCAACCCAGGTAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * *
59455130 GGCTGGTGTCTTCGATCTGCTTCGTTATTGGTGCAGGAAGGCAATATCTGTTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
59455195 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
59455218 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
59455283 TCTGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
59455306 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGAAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
59455356 TTATCTTCAC
Statistics
Matches: 365, Mismatches: 36, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
87 5 0.01
88 360 0.99
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:59468651 original size:14 final size:14
Alignment explanation
Indices: 59468628--59468658 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59468618 ATTCACAAAT
*
59468628 TAAAATAATAATGA
1 TAAAACAATAATGA
59468642 TAAAACAATAATGA
1 TAAAACAATAATGA
59468656 TAA
1 TAA
59468659 TAAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (14 bp):
TAAAACAATAATGA
Found at i:59478829 original size:31 final size:31
Alignment explanation
Indices: 59478762--59478829 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
59478752 TTAACAACCT
*
59478762 AGTGACTTAAATAAAAACTTTTGAATAGGTC
1 AGTGACTTAAATAAAAACTTTTGAATAAGTC
* * * *
59478793 GGTGACTTAAATGAAAATTTTTGAATAATTC
1 AGTGACTTAAATAAAAACTTTTGAATAAGTC
59478824 AGTGAC
1 AGTGAC
59478830 AAACAAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAAGTC
Found at i:59480924 original size:10 final size:8
Alignment explanation
Indices: 59480902--59480971 Score: 56
Period size: 8 Copynumber: 8.8 Consensus size: 8
59480892 ATTAATTTTT
59480902 TAAAATTA
1 TAAAATTA
59480910 TAAAATTA
1 TAAAATTA
*
59480918 TAAAA-AA
1 TAAAATTA
59480925 TAAATATTA
1 TAAA-ATTA
59480934 -AAAATT-
1 TAAAATTA
**
59480940 TTGAATTA
1 TAAAATTA
59480948 TTAATAATTA
1 -TAA-AATTA
59480958 TAAAATTA
1 TAAAATTA
*
59480966 AAAAAT
1 TAAAAT
59480972 ATTTTTTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
7 12 0.24
8 27 0.55
9 5 0.10
10 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (8 bp):
TAAAATTA
Found at i:59483836 original size:19 final size:19
Alignment explanation
Indices: 59483803--59483850 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
59483793 ATGGCAATGT
*
59483803 TGAGAAATG-AATATGATA
1 TGAGAAATGAAATATGAGA
*
59483821 TGAGAAATGAAATATGGGA
1 TGAGAAATGAAATATGAGA
59483840 TGATGAAATGA
1 TGA-GAAATGA
59483851 GATGTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 10 0.38
20 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (19 bp):
TGAGAAATGAAATATGAGA
Done.