Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 50 of 230
Found at i:13553391 original size:13 final size:13
Alignment explanation
Indices: 13553373--13553397 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13553363 TTTAGTATTG
13553373 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
13553386 CTTTTAAAAAGT
1 CTTTTAAAAAGT
13553398 GTTAGTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
CTTTTAAAAAGTA
Found at i:13560508 original size:18 final size:18
Alignment explanation
Indices: 13560487--13560528 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
13560477 GAAATAATCT
*
13560487 TTTATA-ATTTTTAATAAA
1 TTTATATATATTTAA-AAA
13560505 TTTATATATATTTAAAAA
1 TTTATATATATTTAAAAA
13560523 TATTAT
1 T-TTAT
13560529 TTATTAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTATATATATTTAAAAA
Found at i:13560863 original size:27 final size:26
Alignment explanation
Indices: 13560833--13560896 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 26
13560823 TTTATCGAGG
13560833 TTATTAATTTATCGATAAATAAATATT
1 TTATTAATTTATCGATAAATAAATA-T
* *
13560860 TTATTACTTTATCGATAAATTAATAT
1 TTATTAATTTATCGATAAATAAATAT
13560886 TTATTAATTTA
1 TTATTAATTTA
13560897 GAGAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATAAATAT
Found at i:13576100 original size:21 final size:21
Alignment explanation
Indices: 13576074--13576122 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
13576064 AAGCTCGTTC
13576074 AAAATATCATAGGATTTGAGT
1 AAAATATCATAGGATTTGAGT
*
13576095 AAAATATGATAGGATTTGAGT
1 AAAATATCATAGGATTTGAGT
13576116 AAAATAT
1 AAAATAT
13576123 AGGCTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.47, C:0.02, G:0.18, T:0.33
Consensus pattern (21 bp):
AAAATATCATAGGATTTGAGT
Found at i:13576501 original size:18 final size:18
Alignment explanation
Indices: 13576465--13576503 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13576455 GAAATATTTA
*
13576465 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
13576483 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
13576501 TTT
1 TTT
13576504 AAAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:13576535 original size:12 final size:11
Alignment explanation
Indices: 13576504--13576537 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13576494 TATATATTTT
*
13576504 AAAATTATATA
1 AAAATAATATA
13576515 AAAATAATATA
1 AAAATAATATA
13576526 AAAATAAATATA
1 AAAAT-AATATA
13576538 GGTGGGTCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATAATATA
Found at i:13579020 original size:14 final size:15
Alignment explanation
Indices: 13578998--13579074 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
13578988 CAATCAAACA
13578998 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
13579012 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
13579027 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
13579047 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
13579061 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
13579075 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:13579039 original size:20 final size:20
Alignment explanation
Indices: 13579014--13579053 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13579004 AATATTTTCC
*
13579014 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
13579034 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
13579054 TCATTTTACG
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:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:13579059 original size:34 final size:35
Alignment explanation
Indices: 13579002--13579068 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
13578992 CAAACACCAG
*
13579002 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
13579037 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
13579069 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:13579075 original size:14 final size:14
Alignment explanation
Indices: 13579037--13579076 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13579027 ACAGAAAAGT
*
13579037 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
13579051 AAATCATTTTACGG
1 AAAACATTTTACAG
13579065 AAAACATTTTAC
1 AAAACATTTTAC
13579077 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:13581220 original size:12 final size:12
Alignment explanation
Indices: 13581203--13581228 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13581193 TTTGCCACCA
13581203 AAAATTTGCAAT
1 AAAATTTGCAAT
13581215 AAAATTTGCAAT
1 AAAATTTGCAAT
13581227 AA
1 AA
13581229 TACCCTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (12 bp):
AAAATTTGCAAT
Found at i:13588684 original size:43 final size:40
Alignment explanation
Indices: 13588619--13588729 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 40
13588609 AGCTCGTACA
* *
13588619 ATGCCATATCCCAGATATGGTCTTACATGTTAACGCATAT-TG
1 ATGCCATATCCCAGACATGGTCTTACATG--AA-GCATATACG
* * *
13588661 ATGCCACTATCCCAGACAGGGTCTTATATGAATCATATACG
1 ATGCCA-TATCCCAGACATGGTCTTACATGAAGCATATACG
*
13588702 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCC-ATATCCCAGACATGGTCTTACA
13588730 CGTTTTCTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
40 5 0.09
41 26 0.45
42 7 0.12
43 20 0.34
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (40 bp):
ATGCCATATCCCAGACATGGTCTTACATGAAGCATATACG
Found at i:13588962 original size:30 final size:30
Alignment explanation
Indices: 13588918--13589301 Score: 594
Period size: 30 Copynumber: 12.9 Consensus size: 30
13588908 GACAATATAT
13588918 ATGTATA--CATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
13588946 ATGTATATCTATATACAAATCAATTCGGTA
1 ATGTATATCCATATACAAATCAATTCGGCA
13588976 ATGTATATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
13589006 ATGTATATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* * *
13589036 ACGTATATCTATATAAAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
13589066 ACGTATATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
** *
13589096 ATGTATATCCATATACAAAAAAATTCAGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
13589126 ATGTATATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
13589156 ATGTATATCCATATACAAAACAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
13589186 ATGTACATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
13589216 ATGTAAATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
13589246 ATGTATATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
13589276 ATGTATACCCATACAC-AATCAATTCG
1 ATGTATATCCATATACAAATCAATTCG
13589302 AAAATATATA
Statistics
Matches: 328, Mismatches: 26, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
28 7 0.02
29 10 0.03
30 311 0.95
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (30 bp):
ATGTATATCCATATACAAATCAATTCGGCA
Found at i:13598668 original size:19 final size:19
Alignment explanation
Indices: 13598644--13598736 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
13598634 AATAAATTAC
*
13598644 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
13598663 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * * *
13598682 TGC-T-GGAATAAATT-A-C
1 T-CATCTTAGTTAATTAAGT
*
13598698 TCATATTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
13598717 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
13598736 T
1 T
13598737 GCTGGAATAA
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 7 0.12
18 7 0.12
19 38 0.68
20 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:13598688 original size:54 final size:54
Alignment explanation
Indices: 13598625--13598746 Score: 217
Period size: 54 Copynumber: 2.3 Consensus size: 54
13598615 ATAAGTATTT
* *
13598625 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATATTAGTTAATTAAGTTCATCTTAGTTAATTA
*
13598679 AGTTGCTGGAATAAATTACTCATATTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCATATTAGTTAATTAAGTTCATCTTAGTTAATTA
13598733 AGTTGCTGGAATAA
1 AGTTGCTGGAATAA
13598747 TTTATTGTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.42
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATATTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:13609902 original size:14 final size:14
Alignment explanation
Indices: 13609876--13609905 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
13609866 ATATTCAGCG
13609876 AAGGGAAGAAAAAT
1 AAGGGAAGAAAAAT
13609890 AAGGAGAAGAAAAAT
1 AAGG-GAAGAAAAAT
13609905 A
1 A
13609906 TTTCTTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (14 bp):
AAGGGAAGAAAAAT
Found at i:13615319 original size:13 final size:13
Alignment explanation
Indices: 13615301--13615332 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
13615291 TCTAAATTCA
13615301 TTGATTGAAAATC
1 TTGATTGAAAATC
13615314 TTGATTGAAAATC
1 TTGATTGAAAATC
13615327 TTGATT
1 TTGATT
13615333 TAAGAAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (13 bp):
TTGATTGAAAATC
Found at i:13619791 original size:23 final size:23
Alignment explanation
Indices: 13619765--13619811 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
13619755 TAAACTACGC
* *
13619765 TTACAACTGAAAAGAAACCTAAA
1 TTACAACTAAAAAGAAAACTAAA
* *
13619788 TTACAAGTAAAAATAAAACTAAA
1 TTACAACTAAAAAGAAAACTAAA
13619811 T
1 T
13619812 AGAAAACGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (23 bp):
TTACAACTAAAAAGAAAACTAAA
Found at i:13623872 original size:90 final size:90
Alignment explanation
Indices: 13623742--13623909 Score: 205
Period size: 90 Copynumber: 1.9 Consensus size: 90
13623732 GTGTGAACTG
** * *
13623742 TCCATTTATGCAGGTAAAAGTTGCTAATACATTGTAGATGAAACACTGGTCGAGCAGAT-GACTG
1 TCCATTTATGCAAATAAAAGCTGCTAATACATTGTAGATGAAACACTAGTCGAGCAGATAG-CTG
*
13623806 TCGACTAAAATATGGTGAATGAACCA
65 CCGACTAAAATATGGTGAATGAACCA
* * * * * *
13623832 TCCATTTGTGCAAATAAAAGCTGCTAATAC-GTGTTGGATGAACCACTAGTCGAGTAGATAGTTG
1 TCCATTTATGCAAATAAAAGCTGCTAATACATTG-TAGATGAAACACTAGTCGAGCAGATAGCTG
13623896 CCGACTAAAATATG
65 CCGACTAAAATATG
13623910 TTGTGGATAA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
89 2 0.03
90 62 0.95
91 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (90 bp):
TCCATTTATGCAAATAAAAGCTGCTAATACATTGTAGATGAAACACTAGTCGAGCAGATAGCTGC
CGACTAAAATATGGTGAATGAACCA
Found at i:13623932 original size:47 final size:47
Alignment explanation
Indices: 13623857--13623970 Score: 133
Period size: 47 Copynumber: 2.4 Consensus size: 47
13623847 AAAAGCTGCT
* * * *
13623857 AATACG-TGTTGGATGAACCACTAGTCGAGTAGAT-AGTTGCCGACTAA
1 AATACGTTG-TGGATAAACCACTAATCGAGCAGATGA-TTGCAGACTAA
* * *
13623904 AATATGTTGTGGATAAATCACTAATCGAGCAGATGATTGGAGACTAA
1 AATACGTTGTGGATAAACCACTAATCGAGCAGATGATTGCAGACTAA
13623951 AATACGTTGTGGATAAACCA
1 AATACGTTGTGGATAAACCA
13623971 TTGGTCGAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 53 0.95
48 3 0.05
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
AATACGTTGTGGATAAACCACTAATCGAGCAGATGATTGCAGACTAA
Found at i:13625174 original size:17 final size:17
Alignment explanation
Indices: 13625131--13625177 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
13625121 TTTGATGTAA
13625131 GAGAGGAAA-AAAAAGG
1 GAGAGGAAAGAAAAAGG
* *
13625147 AAGA-GAGAAGAAATAGG
1 GAGAGGA-AAGAAAAAGG
13625164 GAGAGGAAAGAAAA
1 GAGAGGAAAGAAAA
13625178 TTCTAATTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
15 2 0.08
16 5 0.21
17 15 0.62
18 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (17 bp):
GAGAGGAAAGAAAAAGG
Found at i:13630811 original size:22 final size:22
Alignment explanation
Indices: 13630783--13630824 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13630773 TTGGCAAGCC
*
13630783 TATAAGGCTGAGCTTCACCATG
1 TATAAGGCTAAGCTTCACCATG
*
13630805 TATAAGGTTAAGCTTCACCA
1 TATAAGGCTAAGCTTCACCA
13630825 AGTTTATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (22 bp):
TATAAGGCTAAGCTTCACCATG
Found at i:13632767 original size:37 final size:37
Alignment explanation
Indices: 13632705--13632792 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 37
13632695 ATTCCAAAAT
*
13632705 AATATTATTTTAATAGTTTAATATTAAATTAA-ATTA
1 AATATTATCTTAATAGTTTAATATTAAATTAATATTA
* *
13632741 AATATTTATCTTAATAGTATT-TTATTAATTTAATATTA
1 AATA-TTATCTTAATAGT-TTAATATTAAATTAATATTA
13632779 AAGTGATTATCTTA
1 AA-T-ATTATCTTA
13632793 TTAATATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 4 0.09
37 22 0.50
38 8 0.18
39 9 0.20
40 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (37 bp):
AATATTATCTTAATAGTTTAATATTAAATTAATATTA
Found at i:13632801 original size:39 final size:37
Alignment explanation
Indices: 13632726--13632801 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 37
13632716 AATAGTTTAA
*
13632726 TATTAAATTAAATTAAATATTTATCTTAATAGTATTT
1 TATTAAATTAAATTAAATATTTATCTTAATAATATTT
* *
13632763 TATTAATTTAATATTAAAGTGA-TTATCTTATTAATATTT
1 TATTAAATTAA-ATTAAA-T-ATTTATCTTAATAATATTT
13632802 AAGTTAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 10 0.30
38 6 0.18
39 16 0.48
40 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (37 bp):
TATTAAATTAAATTAAATATTTATCTTAATAATATTT
Found at i:13641014 original size:45 final size:45
Alignment explanation
Indices: 13640950--13641042 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
13640940 TCAGATACTT
* * *
13640950 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTCC
*
13640995 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTTC
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTCC
13641040 GGT
1 GGT
13641043 TCACATAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTCC
Found at i:13641106 original size:51 final size:51
Alignment explanation
Indices: 13641048--13641234 Score: 198
Period size: 51 Copynumber: 3.7 Consensus size: 51
13641038 TCGGTTCACA
*
13641048 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGATACACG
* ** * * ** *
13641099 TAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCCGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGATACACG
* * * * * * *
13641150 TAGTAGCCTACACATTGTACTACACATGCGACC--TATCATTCTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGA-TACACG
*
13641200 TAGTAGCCTGAACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
13641235 CACTTTCACT
Statistics
Matches: 105, Mismatches: 28, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
49 4 0.04
50 31 0.30
51 70 0.67
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGATACACG
Found at i:13641227 original size:101 final size:101
Alignment explanation
Indices: 13641046--13641230 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
13641036 GTTCGGTTCA
* * *
13641046 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGAA
13641111 CATAGTACTACACACGTGATCAAAACTATCCGGTATG
65 CATAGTACTACACACGTGATCAAAACTATCCGGTATG
* * * *
13641148 CATAGTAGCCTACACATTGTACTACACATGCGACC-TATCATTCTAGTACACGTAGTAGCCTGAA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGA-TACACGTAGTAGCCTGAA
13641212 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
13641231 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 7 0.09
101 36 0.48
102 32 0.43
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGAAC
ATAGTACTACACACGTGATCAAAACTATCCGGTATG
Found at i:13641253 original size:101 final size:101
Alignment explanation
Indices: 13641045--13641264 Score: 273
Period size: 101 Copynumber: 2.2 Consensus size: 101
13641035 TGTTCGGTTC
* * *
13641045 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGA
*
13641110 ACATAGTACTACACACGTGATCAAAACTATCCGGTAT
65 ACATAGTACTACACACGTGACCAAAACTATCCGGTAT
* * * * *
13641147 GCATAGTAGCCTACACATTGTACTACACATGCGACC-TATCATTCTAGTACACGTAGTAGCCTGA
1 ACATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGA-TACACGTAGTAGCCTGA
** * *
13641211 ACATAGTACTACACACGTGACCATCACTTTCACTGT-T
65 ACATAGTACTACACACGTGACCAAAACTATC-CGGTAT
*
13641248 ACATAGTGGCCTACACA
1 ACATAGTAGCCTACACA
13641265 CAATCCGTGC
Statistics
Matches: 101, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
100 7 0.07
101 59 0.58
102 35 0.35
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (101 bp):
ACATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGAA
CATAGTACTACACACGTGACCAAAACTATCCGGTAT
Found at i:13643483 original size:5 final size:5
Alignment explanation
Indices: 13643473--13643501 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
13643463 TATGGTCAAA
13643473 GGGTC GGGTC GGGTC GGGTC GGGTC GGGT
1 GGGTC GGGTC GGGTC GGGTC GGGTC GGGT
13643502 GGCGCCTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.62, T:0.21
Consensus pattern (5 bp):
GGGTC
Found at i:13643894 original size:22 final size:21
Alignment explanation
Indices: 13643868--13644211 Score: 123
Period size: 22 Copynumber: 16.0 Consensus size: 21
13643858 TAGATTAGAA
13643868 TTTTGTATGAATATTCTAACTT
1 TTTTGTATGAATATTCTAA-TT
*
13643890 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
*
13643911 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTCTAATT
* *
13643929 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
* * *
13643950 ATTTTATAATTAA-ATT-TGTATT
1 -TTTTGT-ATGAATATTCT-AATT
* * * * **
13643972 TCTAGTTTTGGAT-TAGTAA--
1 TTTTG-TATGAATATTCTAATT
*
13643991 -TTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
*
13644011 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTCTAATT
13644030 TTTTGTATG-A-A---T-ATT
1 TTTTGTATGAATATTCTAATT
*
13644045 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTCT-A-A-T-T
13644070 AGTTTTGTATGAATATTGC-AATTT
1 --TTTTGTATGAATATT-CTAA-TT
*
13644094 TTTTGTATGAATATTGTAATATTGT
1 TTTTGTATGAATATTCT-A-A-T-T
*
13644119 AATTTTGTATGAATATTGTAATTT
1 --TTTTGTATGAATATTCTAA-TT
*
13644143 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTCT-A-A-T-T
13644168 AATTTTGTATGAATATTGC-AATTT
1 --TTTTGTATGAATATT-CTAA-TT
*
13644192 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTCTAAT
13644212 ATTGTAATTT
Statistics
Matches: 258, Mismatches: 23, Indels: 83
0.71 0.06 0.23
Matches are distributed among these distances:
13 1 0.00
14 1 0.00
15 9 0.03
16 1 0.00
17 7 0.03
18 11 0.04
19 23 0.09
20 15 0.06
21 32 0.12
22 79 0.31
23 7 0.03
24 10 0.04
25 12 0.05
26 3 0.01
27 47 0.18
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (21 bp):
TTTTGTATGAATATTCTAATT
Found at i:13643939 original size:19 final size:19
Alignment explanation
Indices: 13643866--13644238 Score: 185
Period size: 19 Copynumber: 20.2 Consensus size: 19
13643856 TTTAGATTAG
*
13643866 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
13643885 AACTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
*
13643907 AATTTTTTTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
13643927 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
13643946 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
13643969 -ATTTCTAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
13643989 AA-TTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
13644007 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
13644028 AATTTTGTATGAATATT-T
1 AATTTTGTATGAATATTGT
* *
13644046 -TTTGTATGAATATTGTAATATTAT
1 AATT-T-TG--TA-TG-AATATTGT
* *
13644070 AGTTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
13644089 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
*
13644103 AATATTG--T-AATATTGT
1 AATTTTGTATGAATATTGT
13644119 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
13644138 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
13644152 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
*
13644168 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
13644187 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
*
13644201 AATATTG--T-AATATTGT
1 AATTTTGTATGAATATTGT
13644217 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
13644236 AAT
1 AAT
13644239 GTCGGGATAT
Statistics
Matches: 275, Mismatches: 30, Indels: 98
0.68 0.07 0.24
Matches are distributed among these distances:
13 3 0.01
14 21 0.08
15 11 0.04
16 24 0.09
17 7 0.03
18 20 0.07
19 88 0.32
20 32 0.12
21 24 0.09
22 25 0.09
23 12 0.04
24 5 0.02
25 3 0.01
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:13643940 original size:61 final size:59
Alignment explanation
Indices: 13643869--13644162 Score: 235
Period size: 61 Copynumber: 4.7 Consensus size: 59
13643859 AGATTAGAAT
*
13643869 TTTGTATGAATATTCTAACTTTTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAA
1 TTTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAA
* * * *
13643929 TGTTGTATGAATATTGTAATTATTTTATAATTAA-ATTTGT-ATTTCTAGTTT-TGGAT-TAGTA
1 T-TTGTATGAATATTGTAATT-TTTTGT-ATGAATA-TTGTAATTT-T--TTTATGAATATTGTA
13643990 A
59 A
*
13643991 TTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA-TTTTGTATGAATATT-T--
1 TTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAA
*
13644046 TTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 TTTGTATGAATATTGT-A-A-T-T--TTTTGTATGAATATTGTAA---TTTT-T-T---TA-TG-
13644111 AATATTGTAA
50 AATATTGTAA
13644121 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAAT
1 -TTTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTAAT
13644163 ATTATAATTT
Statistics
Matches: 189, Mismatches: 13, Indels: 56
0.73 0.05 0.22
Matches are distributed among these distances:
55 16 0.08
56 3 0.02
57 6 0.03
58 3 0.02
59 11 0.06
60 10 0.05
61 63 0.33
62 15 0.08
63 4 0.02
64 3 0.02
65 3 0.02
66 1 0.01
68 1 0.01
70 2 0.01
71 20 0.11
72 6 0.03
73 2 0.01
74 3 0.02
75 1 0.01
76 16 0.08
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.54
Consensus pattern (59 bp):
TTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAA
Found at i:13644050 original size:15 final size:15
Alignment explanation
Indices: 13644008--13644059 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 15
13643998 GAATATTGTA
13644008 ATTTTTTGTATGAAT
1 ATTTTTTGTATGAAT
13644023 ATTGTAATTTTGTATGAAT
1 A-T-T--TTTTGTATGAAT
13644042 ATTTTTTGTATGAAT
1 ATTTTTTGTATGAAT
13644057 ATT
1 ATT
13644060 GTAATATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 16 0.48
16 1 0.03
17 2 0.06
18 1 0.03
19 13 0.39
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (15 bp):
ATTTTTTGTATGAAT
Found at i:13644050 original size:82 final size:81
Alignment explanation
Indices: 13643915--13644162 Score: 204
Period size: 82 Copynumber: 3.2 Consensus size: 81
13643905 GTAATTTTTT
* * ***
13643915 TATGAATATTGTAA--TGTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTATTTCTAGT
1 TATGAATATTGTAATTTTTTGTATGAATATTGTAATT-TTGTATAATTAAATTTGTATGAATA-T
**
13643978 T-TTGGATTAGTA-ATTTG
64 TGTAAGATTA-TAGATTTG
**
13643995 TATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAA-TATTTTTTGTATGAATAT
1 TATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTAT-AATTA-AATTTGTATGAATAT
* *
13644059 TGTAATATTATAGTTTTG
64 TGTAAGATTATAGATTTG
* *
13644077 TATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTG--TAA-T---TTTGTATGAATATT
1 TATGAATATTGTAA-TTTTTTGTATGAATATTGTAATTTTGTATAATTAAATTTGTATGAATATT
*
13644136 GT-A-ATT-T--TTTTG
65 GTAAGATTATAGATTTG
13644148 TATGAATATTGTAAT
1 TATGAATATTGTAAT
13644163 ATTATAATTT
Statistics
Matches: 147, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
70 1 0.01
71 18 0.12
73 1 0.01
74 3 0.02
75 1 0.01
76 16 0.11
80 17 0.12
81 12 0.08
82 53 0.36
83 25 0.17
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.54
Consensus pattern (81 bp):
TATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATAATTAAATTTGTATGAATATTG
TAAGATTATAGATTTG
Found at i:13644076 original size:27 final size:25
Alignment explanation
Indices: 13644045--13644238 Score: 235
Period size: 27 Copynumber: 7.8 Consensus size: 25
13644035 TATGAATATT
13644045 TTTTGTATGAATATTGTAATATTATA
1 TTTTGTATGAATATTGTAATATT-TA
*
13644071 GTTTTGTATGAATATTG-CA-ATTT-
1 -TTTTGTATGAATATTGTAATATTTA
13644094 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATT-T-A
13644121 TTTTGTATGAATATTGT-A-ATTT-
1 TTTTGTATGAATATTGTAATATTTA
13644143 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATT-T-A
*
13644170 TTTTGTATGAATATTG-CA-ATTT-
1 TTTTGTATGAATATTGTAATATTTA
13644192 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATT-T-A
13644219 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
13644239 GTCGGGATAT
Statistics
Matches: 148, Mismatches: 4, Indels: 30
0.81 0.02 0.16
Matches are distributed among these distances:
22 49 0.33
23 3 0.02
24 12 0.08
25 12 0.08
26 3 0.02
27 69 0.47
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (25 bp):
TTTTGTATGAATATTGTAATATTTA
Found at i:13644101 original size:49 final size:49
Alignment explanation
Indices: 13644043--13644234 Score: 348
Period size: 49 Copynumber: 3.9 Consensus size: 49
13644033 TGTATGAATA
*
13644043 TTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCAAT
1 TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAAT
* *
13644092 TTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAAT
1 TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAAT
13644141 TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAAT
1 TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAAT
*
13644190 TTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTG
1 TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTG
13644235 TAATGTCGGG
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 137 1.00
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (49 bp):
TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAAT
Found at i:13644116 original size:8 final size:8
Alignment explanation
Indices: 13644103--13644264 Score: 53
Period size: 8 Copynumber: 19.4 Consensus size: 8
13644093 TTTTTGTATG
13644103 AATATTGT
1 AATATTGT
13644111 AATATTGT
1 AATATTGT
*
13644119 AATTTTGTAT
1 AATATTG--T
13644129 GAATATTGT
1 -AATATTGT
* *
13644138 AATTTTTT
1 AATATTGT
**
13644146 TGTA-TG-
1 AATATTGT
13644152 AATATTGT
1 AATATTGT
*
13644160 AATATTAT
1 AATATTGT
*
13644168 AATTTTGTAT
1 AATATTG--T
*
13644178 GAATATTGC
1 -AATATTGT
* *
13644187 AATTTTTT
1 AATATTGT
**
13644195 TGTA-TG-
1 AATATTGT
13644201 AATATTGT
1 AATATTGT
13644209 AATATTGT
1 AATATTGT
*
13644217 AATTTTGTAT
1 AATATTG--T
13644227 GAATATTGT
1 -AATATTGT
* * *
13644236 AATGTCGGG
1 AATAT-TGT
13644245 ATATATTGT
1 A-ATATTGT
13644254 AATATTGT
1 AATATTGT
13644262 AAT
1 AAT
13644265 TTTTTGTATG
Statistics
Matches: 107, Mismatches: 32, Indels: 30
0.63 0.19 0.18
Matches are distributed among these distances:
6 4 0.04
7 6 0.06
8 67 0.63
9 6 0.06
10 6 0.06
11 18 0.17
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.51
Consensus pattern (8 bp):
AATATTGT
Found at i:13644165 original size:98 final size:98
Alignment explanation
Indices: 13644043--13644238 Score: 383
Period size: 98 Copynumber: 2.0 Consensus size: 98
13644033 TGTATGAATA
*
13644043 TTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATAT
1 TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATAT
13644108 TGTAATATTGTAATTTTGTATGAATATTGTAAT
66 TGTAATATTGTAATTTTGTATGAATATTGTAAT
13644141 TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATAT
1 TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATAT
13644206 TGTAATATTGTAATTTTGTATGAATATTGTAAT
66 TGTAATATTGTAATTTTGTATGAATATTGTAAT
13644239 GTCGGGATAT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (98 bp):
TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATAT
TGTAATATTGTAATTTTGTATGAATATTGTAAT
Found at i:13644361 original size:60 final size:60
Alignment explanation
Indices: 13644282--13644400 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
13644272 ATGAATATTA
* * * * * *
13644282 TAATTATTTTATAATTAATTTGTTAGTAATTTGGGATTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTG
*
13644342 TAATTA-TTTAAAATGTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGTTT
1 TAATTATTTTAAAAT-TAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTT
13644401 AGTTTAGTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 7 0.14
60 44 0.86
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTG
Found at i:13644555 original size:15 final size:15
Alignment explanation
Indices: 13644514--13644555 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
13644504 GTTAACTTAT
*
13644514 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
13644529 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
13644545 TTAAATTTTAT
1 TTAAATTTTAT
13644556 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:13647281 original size:22 final size:23
Alignment explanation
Indices: 13647256--13647309 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
13647246 AATACCTTAT
*
13647256 TTTTTCTTCT-TTTCCTTCCTTC
1 TTTTTCTTCTGCTTCCTTCCTTC
13647278 -TTTTCTTCTGCTTCCTTCCTTC
1 TTTTTCTTCTGCTTCCTTCCTTC
13647300 TTATTTCTTC
1 TT-TTTCTTC
13647310 CGTTTCTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.32
22 11 0.39
23 1 0.04
24 7 0.25
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTCTTCTGCTTCCTTCCTTC
Found at i:13648696 original size:22 final size:20
Alignment explanation
Indices: 13648663--13648710 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
13648653 AAAAACTTAA
*
13648663 AAAAATATATATAATACTTTAT
1 AAAAATATATATAA-A-ATTAT
13648685 AAAAATGA-ATATAAAATTAT
1 AAAAAT-ATATATAAAATTAT
13648705 AAAAAT
1 AAAAAT
13648711 CTTTATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 1 0.04
22 12 0.50
23 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATATATATAAAATTAT
Found at i:13654077 original size:2 final size:2
Alignment explanation
Indices: 13654070--13654099 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13654060 CCCATCTTTC
13654070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13654100 TTACATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13654815 original size:164 final size:164
Alignment explanation
Indices: 13654609--13655013 Score: 686
Period size: 164 Copynumber: 2.5 Consensus size: 164
13654599 CCAAACTCCC
** * *
13654609 AAACCTTTTTACTTTTCCTTCAAAACTTTTACTCCTTCCCACTTTCCCCCCCAAAACTTTTACTC
1 AAACC-TTTTA-TTTTCCCCCAAAATTTTTACTCCCTCCCACTTTCCCCCCCAAAACTTTTACTC
13654674 CCCTCCCCTCCCAACCCCCCAATCTACCCAAAATCCATTTCCCACCAAAATTTTACTCTCCCATT
64 CCCTCCCCTCCCAACCCCCCAATCTACCCAAAATCCATTTCCCACCAAAATTTTACTCTCCCATT
13654739 TATTTTTTCTCAAAATTTTACTCCCAAAAACCCTCA
129 TATTTTTTCTCAAAATTTTACTCCCAAAAACCCTCA
13654775 AAACCTTTTATTTTCCCCCAAAATTTTTACTCCCTCCCACTTTCCCCCCCAAAACTTTTACTCCC
1 AAACCTTTTATTTTCCCCCAAAATTTTTACTCCCTCCCACTTTCCCCCCCAAAACTTTTACTCCC
13654840 CTCCCCTCCCAACCCCCCAATCTACCCAAAATCCATTTCCCACCAAAATTTTACTCTCCCATTTA
66 CTCCCCTCCCAACCCCCCAATCTACCCAAAATCCATTTCCCACCAAAATTTTACTCTCCCATTTA
*
13654905 TTTTTTCTCAAAATTTTACTCCCCAAAACCCTCA
131 TTTTTTCTCAAAATTTTACTCCCAAAAACCCTCA
* * * *
13654939 AAACCTTTTATTTTCCCCCAAATTTTTTACTCCCTCCCACTTT-TCCCCTAAAACTTTTATTCCC
1 AAACCTTTTATTTTCCCCCAAAATTTTTACTCCCTCCCACTTTCCCCCCCAAAACTTTTACTCCC
* *
13655003 TTCCCATCCCA
66 CTCCCCTCCCA
13655014 CCTCCCACCT
Statistics
Matches: 228, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
163 27 0.12
164 191 0.84
165 5 0.02
166 5 0.02
ACGTcount: A:0.25, C:0.40, G:0.00, T:0.34
Consensus pattern (164 bp):
AAACCTTTTATTTTCCCCCAAAATTTTTACTCCCTCCCACTTTCCCCCCCAAAACTTTTACTCCC
CTCCCCTCCCAACCCCCCAATCTACCCAAAATCCATTTCCCACCAAAATTTTACTCTCCCATTTA
TTTTTTCTCAAAATTTTACTCCCAAAAACCCTCA
Found at i:13654997 original size:30 final size:31
Alignment explanation
Indices: 13654949--13655008 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
13654939 AAACCTTTTA
**
13654949 TTTTCCCCCAAATTTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
13654979 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
13655009 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:13655162 original size:20 final size:20
Alignment explanation
Indices: 13655116--13655162 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13655106 CAAACTTTTA
* *
13655116 TTCCCCAAAACTTTTTATTT
1 TTCCCCTAAACTTTTTACTT
13655136 TTCCCCTAAAC-TTTTACTT
1 TTCCCCTAAACTTTTTACTT
13655155 TTCACCCT
1 TTC-CCCT
13655163 TTACTCCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (20 bp):
TTCCCCTAAACTTTTTACTT
Found at i:13655293 original size:17 final size:17
Alignment explanation
Indices: 13655273--13655319 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
13655263 CACATTTTAT
13655273 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
13655290 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
13655308 A-TATTTATATTA
1 ATTATTTATATTA
13655320 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:13658682 original size:27 final size:24
Alignment explanation
Indices: 13658628--13658712 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 24
13658618 CCAAAAGAGG
* *
13658628 AAAGACGAAAGAAAGGAAAGAAAAAGA
1 AAAGA-GAAA-AAA-GAAGGAAGAAGA
13658655 AAAGAGGAAAAAAGAAGGAACGATAG-
1 AAAGA-GAAAAAAGAAGGAA-GA-AGA
*
13658681 -AATAGAAAAAAGAAGGAAGAAGA
1 AAAGAGAAAAAAGAAGGAAGAAGA
13658704 AAAGA-AAAA
1 AAAGAGAAAA
13658713 TAAAAATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
22 2 0.04
23 6 0.12
24 17 0.35
25 9 0.18
26 4 0.08
27 11 0.22
ACGTcount: A:0.69, C:0.02, G:0.26, T:0.02
Consensus pattern (24 bp):
AAAGAGAAAAAAGAAGGAAGAAGA
Found at i:13658704 original size:22 final size:24
Alignment explanation
Indices: 13658661--13658712 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
13658651 AAGAAAAGAG
*
13658661 GAAAAAAGAAGGAACGATAGAATA
1 GAAAAAAGAAGGAACGATAGAAAA
13658685 GAAAAAAGAAGGAA-GA-AGAAAA
1 GAAAAAAGAAGGAACGATAGAAAA
13658707 GAAAAA
1 GAAAAA
13658713 TAAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 11 0.41
23 2 0.07
24 14 0.52
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (24 bp):
GAAAAAAGAAGGAACGATAGAAAA
Found at i:13658730 original size:16 final size:16
Alignment explanation
Indices: 13658700--13658741 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
13658690 AAGAAGGAAG
*
13658700 AAGAAAAGA-AAAATA
1 AAGAAAAAATAAAATA
13658715 AA-AATAAAATAAAATA
1 AAGAA-AAAATAAAATA
13658731 AAGAAAAAATA
1 AAGAAAAAATA
13658742 TTAAGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 2 0.09
15 5 0.22
16 14 0.61
17 2 0.09
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (16 bp):
AAGAAAAAATAAAATA
Found at i:13662298 original size:30 final size:31
Alignment explanation
Indices: 13662250--13662309 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
13662240 AAACCTTTTA
**
13662250 TTTTCCCCCAAATTTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
13662280 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
13662310 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:13662451 original size:19 final size:21
Alignment explanation
Indices: 13662424--13662463 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
13662414 TTTATTCCCA
*
13662424 AAACTTTTTATTTTTC-CCCT
1 AAACTTTTTACTTTTCACCCT
13662444 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTACTTTTCACCCT
13662464 TTACTCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.50
Consensus pattern (21 bp):
AAACTTTTTACTTTTCACCCT
Found at i:13662594 original size:17 final size:17
Alignment explanation
Indices: 13662574--13662620 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
13662564 CACATTTTAT
13662574 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
13662591 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
13662609 A-TATTTATATTA
1 ATTATTTATATTA
13662621 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:13664940 original size:12 final size:11
Alignment explanation
Indices: 13664922--13664952 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
13664912 TTTATGTAGT
13664922 ATTTATTTTTA
1 ATTTATTTTTA
13664933 ATTATATTTTTA
1 ATT-TATTTTTA
13664945 ATTTATTT
1 ATTTATTT
13664953 CAAACTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:13665203 original size:17 final size:18
Alignment explanation
Indices: 13665171--13665204 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13665161 GCTCTTGTGC
13665171 GTATTGTATTGCTTATTG
1 GTATTGTATTGCTTATTG
*
13665189 GTATT-TATTGGTTATT
1 GTATTGTATTGCTTATT
13665205 TGTAGTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.59
Consensus pattern (18 bp):
GTATTGTATTGCTTATTG
Found at i:13668551 original size:16 final size:15
Alignment explanation
Indices: 13668532--13668585 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
13668522 AAATTATTAT
*
13668532 GAAATAAAAGAATAGA
1 GAAATAAAAGAACA-A
13668548 GAAAGTAAAAGAACAA
1 GAAA-TAAAAGAACAA
**
13668564 GAAATAGGAGAACAA
1 GAAATAAAAGAACAA
13668579 -AAATAAA
1 GAAATAAA
13668586 CATATGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 5 0.16
15 9 0.28
16 9 0.28
17 9 0.28
ACGTcount: A:0.69, C:0.04, G:0.19, T:0.09
Consensus pattern (15 bp):
GAAATAAAAGAACAA
Found at i:13671031 original size:3 final size:3
Alignment explanation
Indices: 13671023--13671063 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13671013 CATGCTTAAA
13671023 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
13671064 AGACAAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:13672435 original size:19 final size:19
Alignment explanation
Indices: 13672413--13672450 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13672403 TCAATCATCC
13672413 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
13672432 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
13672451 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:13677016 original size:17 final size:16
Alignment explanation
Indices: 13676990--13677024 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
13676980 AAAATGTTTT
13676990 AAAATCTTAAAAAAGTA
1 AAAATCTT-AAAAAGTA
*
13677007 AAAATTTTAAAAAGTA
1 AAAATCTTAAAAAGTA
13677023 AA
1 AA
13677025 TATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAATCTTAAAAAGTA
Found at i:13682838 original size:15 final size:15
Alignment explanation
Indices: 13682818--13682846 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13682808 ACTTCCTTCG
13682818 TCAGCATCCTCATCA
1 TCAGCATCCTCATCA
13682833 TCAGCATCCTCATC
1 TCAGCATCCTCATC
13682847 CTCATCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.41, G:0.07, T:0.28
Consensus pattern (15 bp):
TCAGCATCCTCATCA
Found at i:13682846 original size:6 final size:6
Alignment explanation
Indices: 13682837--13682891 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
13682827 TCATCATCAG
* * *
13682837 CATCCT CATCCT CATCCT CTTCCT CA---T CATCCT CTTCCT CCTCCT
1 CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT
*
13682882 CATCAT CATC
1 CATCCT CATC
13682892 ATCGTCATCT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
3 3 0.08
6 37 0.93
ACGTcount: A:0.15, C:0.49, G:0.00, T:0.36
Consensus pattern (6 bp):
CATCCT
Found at i:13682866 original size:21 final size:21
Alignment explanation
Indices: 13682842--13682894 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
13682832 ATCAGCATCC
*
13682842 TCATCCTCATCCTCTTCCTCA
1 TCATCCTCATCCTCCTCCTCA
*
13682863 TCATCCTCTTCCTCCTCCTCA
1 TCATCCTCATCCTCCTCCTCA
*
13682884 TCATCATCATC
1 TCATCCTCATC
13682895 GTCATCTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.15, C:0.47, G:0.00, T:0.38
Consensus pattern (21 bp):
TCATCCTCATCCTCCTCCTCA
Found at i:13682868 original size:15 final size:15
Alignment explanation
Indices: 13682848--13682876 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13682838 ATCCTCATCC
13682848 TCATCCTCTTCCTCA
1 TCATCCTCTTCCTCA
13682863 TCATCCTCTTCCTC
1 TCATCCTCTTCCTC
13682877 CTCCTCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.48, G:0.00, T:0.41
Consensus pattern (15 bp):
TCATCCTCTTCCTCA
Found at i:13684686 original size:20 final size:23
Alignment explanation
Indices: 13684663--13684709 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
13684653 TCTGCAAACC
*
13684663 AAAATATC-AAAA-AACAAAAA-
1 AAAATAACAAAAATAACAAAAAG
13684683 AAAATAACAAAAATAACAAAAAG
1 AAAATAACAAAAATAACAAAAAG
13684706 AAAA
1 AAAA
13684710 CCAAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 4 0.17
22 8 0.35
23 4 0.17
ACGTcount: A:0.81, C:0.09, G:0.02, T:0.09
Consensus pattern (23 bp):
AAAATAACAAAAATAACAAAAAG
Found at i:13684715 original size:20 final size:21
Alignment explanation
Indices: 13684670--13684716 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
13684660 ACCAAAATAT
13684670 CAAAAAACAAAAAAAAATAAC
1 CAAAAAACAAAAAAAAATAAC
* *
13684691 AAAAATAAC-AAAAAGAA-AAC
1 CAAAA-AACAAAAAAAAATAAC
13684711 CAAAAA
1 CAAAAA
13684717 CAATTATGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.05
20 7 0.32
21 11 0.50
22 3 0.14
ACGTcount: A:0.81, C:0.13, G:0.02, T:0.04
Consensus pattern (21 bp):
CAAAAAACAAAAAAAAATAAC
Found at i:13684738 original size:28 final size:28
Alignment explanation
Indices: 13684706--13684761 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13684696 TAACAAAAAG
13684706 AAAACCAAAAACAATTATGGGTGTCACC
1 AAAACCAAAAACAATTATGGGTGTCACC
13684734 AAAACCAAAAACAATTATGGGTGTCACC
1 AAAACCAAAAACAATTATGGGTGTCACC
13684762 CACCTTGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.18
Consensus pattern (28 bp):
AAAACCAAAAACAATTATGGGTGTCACC
Found at i:13686591 original size:277 final size:281
Alignment explanation
Indices: 13685650--13687450 Score: 2121
Period size: 278 Copynumber: 6.4 Consensus size: 281
13685640 ATTTAGTAAG
* * * * * * * *
13685650 TAAAGAAAATTTTAGTTAGTGTAAATAAAAATAATAATTAGGTTTAAGTTATAGCGTTGTAATTT
1 TAAAGAAAAATTTAGTAAGTGTAAATAAACATAATATTTAGATTTAAGTTATAACGCTATAATTT
** * * * *
13685715 AGGATAAATCTAAATTATGGTGCCAATATTTATTGTTTTATAATAATTACTATATCTCTATAATT
66 AGGATAGGTCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAATT
* * * * *
13685780 TAGTTGACGCCATTCGTCATGTCAAGCTCAATAATAGAATTAGTAAGT-AAAATGGAATTAATGT
131 TAGTTGACGTCATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATGT
* * * * * *
13685844 TTAGACTTAAACAATTATACTATTTTTTAAAAAATTATGTTTAATAATTTCTTCAATTGAATTGA
196 TTAGATTTAAACAATAATATTATTTTTAAAAAAATTATGTTTAATAATTTCTACAATTGAGTTGA
* *
13685909 CG-CTATTCATTATGTTAAGCA
261 CGTC-ATTCATGATGTTAAGCT
* * * * * *
13685930 TAAAGAAAGATATAGTAAGTGTAAATAAA-AGTGATGTTTAGATTCAAGTCATAACGCTATAATT
1 TAAAGAAAAATTTAGTAAGTGTAAATAAACA-TAATATTTAGATTTAAGTTATAACGCTATAATT
* * *
13685994 TAGGATAGGTCTAAATTATGACGCTAATATTCATTATTTTATAATAATTACTATATCTCTATAAT
65 TAGGATAGGTCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAAT
* * * *
13686059 CTAGTTAACGTCATTGGTCATGTTAAGCTCGATGATAGATTTAGTAAATAAAAATGGAATTAATG
130 TTAGTTGACGTCATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATG
* * *
13686124 TTTAGATTTAAACAA-CA-A-TATTTTAAAAAAAATTATGTTTAATAATTTCTGCAATTGAGTTG
195 TTTAGATTTAAACAATAATATTATTTTTAAAAAAATTATGTTTAATAATTTCTACAATTGAGTTG
* *
13686186 ATGTCATTCATAATGTTAAGCT
260 ACGTCATTCATGATGTTAAGCT
** * * *
13686208 TAAA-AAAAGATTTAGTAAGTGTAAATAAACGGAATATGTAGATTCAAGTTAGAACGCTATAATT
1 TAAAGAAAA-ATTTAGTAAGTGTAAATAAACATAATATTTAGATTTAAGTTATAACGCTATAATT
* * * * *
13686272 TAGGATAAGTCTAAATTATGGTGCCAATATTCATTATTTTATCATAATTATTATTTCTTTATAAT
65 TAGGATAGGTCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAAT
*
13686337 TTAGTTGATGTCATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATG
130 TTAGTTGACGTCATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATG
* *
13686402 TTTATATTTAAACAAT-A-A-TATTTTTAAAATAAATTATGTTTAATCATTTCTACAA-TGAGTT
195 TTTAGATTTAAACAATAATATTATTTTTAAAA-AAATTATGTTTAATAATTTCTACAATTGAGTT
13686463 GA-GTCATTCATGATGTTAAGCT
259 GACGTCATTCATGATGTTAAGCT
** * * *
13686485 TAAAGAAAAAAATAATAAGTGTAAATAAACATAATATTTAGATTCAAGTTATAATGCTATAATTT
1 TAAAGAAAAATTTAGTAAGTGTAAATAAACATAATATTTAGATTTAAGTTATAACGCTATAATTT
*
13686550 AGGATAGGTCTAAATTATGGCGCCAATATTCATTATTTTATCATAATTACTATATCTTTATAATT
66 AGGATAGGTCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAATT
* * *
13686615 TAGTTGACGTCATCGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAACTACTGT
131 TAGTTGACGTCATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATGT
* * * * *
13686680 TTAGATTTAAACAATAATATTATTTTTATAAAATTTATGTTTAATCATATCTACAATTGAGTTAA
196 TTAGATTTAAACAATAATATTATTTTTAAAAAAATTATGTTTAATAATTTCTACAATTGAGTTGA
* *
13686745 CGTCATTCATGATATTAAACT
261 CGTCATTCATGATGTTAAGCT
* *
13686766 TAAA-AAAGATTTAGTAAGTGTAAATAAACGTAATATATATTTAGATTTAAGTTATAACACTATA
1 TAAAGAAAAATTTAGTAAGTGTAAATAAAC---ATA-ATATTTAGATTTAAGTTATAACGCTATA
* * *
13686830 ATTTAGGTTAGGTCTAAATTATGGCACCAATATTCATTA-TTTATGATAATTACTATATCTTTAT
62 ATTTAGGATAGGTCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTATATCTTTAT
** * * * * * * * *
13686894 AATAAACTTGACGCCATTTGTCGTATTAAGCTCAATGGTATATTTAGTAAGTAAAAATGAAATTA
127 AATTTAGTTGACGTCATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTA
* * ** *
13686959 ATGTTCAGATTTAAACAATAATA-TATTTTTTAAAATTTTATGTTTAATAATTTTTACAATTGAG
192 ATGTTTAGATTTAAACAATAATATTATTTTTAAAAAAATTATGTTTAATAATTTCTACAATTGAG
* *
13687023 TTGACGTGATTCATGATGTAAAGCT
257 TTGACGTCATTCATGATGTTAAGCT
* * * * * ** *
13687048 TAAAGAAAGATTCAGTAAGTATAAATGAAA-GTAATGTTTAGATTTAAGCAATAACGCAATAATT
1 TAAAGAAAAATTTAGTAAGTGTAAAT-AAACATAATATTTAGATTTAAGTTATAACGCTATAATT
* * ** * * * * *
13687112 TAGGATATGTCTAATTTATGATG-AAATTATTTATTATTTTATAA-ATTTACTATATTTTTAAAA
65 TAGGATAGGTCTAAATTATGGCGCCAA-TATTCATTATTTTATAATAATTACTATATCTTTATAA
* * * * * * * *
13687175 TTTAGTTGATGGTTATTCGTGACGTTAAGATTAATGATAGATTTAGTAAGTAAAAAATGAAATTA
129 TTTAGTTGA-CGTCATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGT-AAAAATGGAATTA
** * *
13687240 ATGTTTAGATTTAAACAATAATATTATTCTTTTTAAAATTTATGCTTAATAATTTCTACAATTGA
192 ATGTTTAGATTTAAACAATAATATTATT-TTTAAAAAAATTATGTTTAATAATTTCTACAATTGA
*
13687305 GTT-ACG-CAATTCTTGATGTTAAGCT
256 GTTGACGTC-ATTCATGATGTTAAGCT
* * * * *
13687330 TAAAGAAAGATTTTAATAAGGGTAAATAAACAAAATATTTAGATTTAAGTTATAACACTATAATT
1 TAAAGAAA-AATTTAGTAAGTGTAAATAAACATAATATTTAGATTTAAGTTATAACGCTATAATT
* * *
13687395 TAGGATAGGTCTAAATTATGGCGTCAATATTCACTATTTTATAATAATTACAATAT
65 TAGGATAGGTCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTATAT
13687451 TTCTAAAATT
Statistics
Matches: 1303, Mismatches: 188, Indels: 56
0.84 0.12 0.04
Matches are distributed among these distances:
277 210 0.16
278 265 0.20
279 123 0.09
280 223 0.17
281 86 0.07
282 92 0.07
283 228 0.17
284 76 0.06
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (281 bp):
TAAAGAAAAATTTAGTAAGTGTAAATAAACATAATATTTAGATTTAAGTTATAACGCTATAATTT
AGGATAGGTCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAATT
TAGTTGACGTCATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATGT
TTAGATTTAAACAATAATATTATTTTTAAAAAAATTATGTTTAATAATTTCTACAATTGAGTTGA
CGTCATTCATGATGTTAAGCT
Found at i:13690987 original size:29 final size:28
Alignment explanation
Indices: 13690942--13691010 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
13690932 GTAAGGGTTA
* * *
13690942 ATTTCATTTTTTAATATTATTAATTTTT
1 ATTTAATTTTTTAATATAATTAATATTT
13690970 ATTTAATTTTTATAATATAATTAATATTT
1 ATTTAATTTTT-TAATATAATTAATATTT
13690999 -TTTATATTTTTT
1 ATTTA-ATTTTTT
13691011 TTATAATAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 15 0.42
29 21 0.58
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (28 bp):
ATTTAATTTTTTAATATAATTAATATTT
Found at i:13692306 original size:42 final size:43
Alignment explanation
Indices: 13692055--13692360 Score: 357
Period size: 43 Copynumber: 7.2 Consensus size: 43
13692045 CTATTGACAC
* * * * * *
13692055 CGCCGCTATAGAACAAGACCTTTAGCGGCACTTTTTCAACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAA
* * * * *
13692098 CGTCGCTAAAGATCATGACTTTTAGCGGCGTTTTTCCTATAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAA
*
13692141 CGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAA
* *
13692184 CGCCGCTATAGGTCATGACTTTTAGCGGCGCTGTTCCCACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAA
* * **
13692227 CGCCGCTATAGATAATCACTTTTAGCGAAGCTTTTCCCACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAA
* * * * *
13692270 TGCCACTATAGAACA-GACCTTTAGCGACGCTTTTCCCACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAA
* * *
13692312 CGCCGCTAAAGATCA-GACCTTTAGCGGCGCTTTTCACACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAA
13692354 CG-CGCTA
1 CGCCGCTA
13692361 AAAACATATC
Statistics
Matches: 227, Mismatches: 36, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
41 5 0.02
42 62 0.27
43 160 0.70
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (43 bp):
CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAA
Found at i:13692674 original size:43 final size:43
Alignment explanation
Indices: 13692609--13692694 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
13692599 CATATGCAAA
* * * *
13692609 GTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTTG
1 GTAATAAAACATACAATACATTTACTTAATAAAGGAAATCTTG
* *
13692652 GTAATAAAAGATATAATACATTTACTTAATAAAGGAAATCTTG
1 GTAATAAAACATACAATACATTTACTTAATAAAGGAAATCTTG
13692695 TACATCATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (43 bp):
GTAATAAAACATACAATACATTTACTTAATAAAGGAAATCTTG
Found at i:13696353 original size:25 final size:26
Alignment explanation
Indices: 13696299--13696365 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 26
13696289 AATTTTAATA
*
13696299 ATGTAATTATTTTTTTTATAATTTTCAT
1 ATGTAATTA--TTTTTTATAATTATCAT
13696327 ATGTAATTATTTTTTA-AATATAT-AT
1 ATGTAATTATTTTTTATAAT-TATCAT
13696352 ATGTATATTTATTT
1 ATGTA-A-TTATTT
13696366 CTTTTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
25 10 0.29
26 10 0.29
27 6 0.17
28 9 0.26
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (26 bp):
ATGTAATTATTTTTTATAATTATCAT
Found at i:13696373 original size:23 final size:24
Alignment explanation
Indices: 13696347--13696395 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
13696337 TTTTTAAATA
13696347 TATATATGT-ATATTTATTTCTTT
1 TATATATGTAATATTTATTTCTTT
*
13696370 TATATATGTACATATTTATTTTTTT
1 TATATATGTA-ATATTTATTTCTTT
13696395 T
1 T
13696396 CAACTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.39
25 14 0.61
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TATATATGTAATATTTATTTCTTT
Found at i:13696373 original size:25 final size:25
Alignment explanation
Indices: 13696345--13696432 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
13696335 ATTTTTTAAA
**
13696345 TATATATATGTATATTTATTTCTTT
1 TATATATATACATATTTATTTCTTT
*
13696370 TATATATGTACATATTTATTT-TTT
1 TATATATATACATATTTATTTCTTT
* *
13696394 T-TCA-A-CTA-ATATTTTTTTCATATT
1 TAT-ATATATACATATTTATTTC-T-TT
13696418 TATATATATACATAT
1 TATATATATACATAT
13696433 ATTTATTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
21 9 0.18
22 2 0.04
23 3 0.06
24 9 0.18
25 20 0.41
26 2 0.04
27 4 0.08
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (25 bp):
TATATATATACATATTTATTTCTTT
Found at i:13696385 original size:21 final size:22
Alignment explanation
Indices: 13696347--13696391 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
13696337 TTTTTAAATA
* *
13696347 TATATATGTATATTTATTTCTTT
1 TATATATGTACA-TTATTTATTT
13696370 TATATATGTACA-TATTTATTT
1 TATATATGTACATTATTTATTT
13696391 T
1 T
13696392 TTTTCAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (22 bp):
TATATATGTACATTATTTATTT
Found at i:13696422 original size:17 final size:17
Alignment explanation
Indices: 13696380--13696422 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
13696370 TATATATGTA
13696380 CATATTTAT-TTTTTTT
1 CATATTTATATTTTTTT
* *
13696396 CA-ACTAATATTTTTTT
1 CATATTTATATTTTTTT
13696412 CATATTTATAT
1 CATATTTATAT
13696423 ATATACATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
15 4 0.19
16 11 0.52
17 6 0.29
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (17 bp):
CATATTTATATTTTTTT
Found at i:13696861 original size:4 final size:4
Alignment explanation
Indices: 13696854--13696888 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
13696844 TTGATTTATT
13696854 TTTA TTTA TTTA TTTA -TTA TTTA TTTA TATTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTT
13696889 CTATACAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 22 0.76
5 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:13696875 original size:15 final size:15
Alignment explanation
Indices: 13696847--13696887 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
13696837 CATGTCATTG
13696847 ATTTATTT-TTATTT
1 ATTTATTTATTATTT
13696861 ATTTATTTATTATTT
1 ATTTATTTATTATTT
13696876 ATTTATATTATT
1 ATTTAT-TTATT
13696888 TCTATACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.32
15 12 0.48
16 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTATTTATTATTT
Found at i:13699206 original size:14 final size:14
Alignment explanation
Indices: 13699156--13699213 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
13699146 AACACTAATT
13699156 AATC-TAAACCCTA
1 AATCTTAAACCCTA
*
13699169 AACTCTTAACCCCTA
1 AA-TCTTAAACCCTA
**
13699184 TCTCTTAAACCCTA
1 AATCTTAAACCCTA
*
13699198 AATCATAAATCCCTA
1 AATCTTAAA-CCCTA
13699213 A
1 A
13699214 CCCTTAAGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
13 2 0.06
14 19 0.54
15 14 0.40
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.28
Consensus pattern (14 bp):
AATCTTAAACCCTA
Found at i:13699219 original size:29 final size:29
Alignment explanation
Indices: 13699160--13699220 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
13699150 CTAATTAATC
* * *
13699160 TAAACCCTAAACTCTTAACCCCTATCTCT
1 TAAACCCTAAACTCTAAACCCCTAACCCT
*
13699189 TAAACCCTAAA-TCATAAATCCCTAACCCT
1 TAAACCCTAAACTC-TAAACCCCTAACCCT
13699218 TAA
1 TAA
13699221 GTACTCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (29 bp):
TAAACCCTAAACTCTAAACCCCTAACCCT
Found at i:13699769 original size:41 final size:41
Alignment explanation
Indices: 13699704--13699893 Score: 247
Period size: 41 Copynumber: 4.6 Consensus size: 41
13699694 TACTTTTTGT
*
13699704 GGCG-TTTTTCCAAAAACGCTGCTAAAGACCAGAGCATTAGC
1 GGCGCTTTTT-CAAAAACGCCGCTAAAGACCAGAGCATTAGC
*
13699745 GGCGCTTTTTCAAAAACGCCGCTAAAGACTAGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGC
* * * *
13699786 GGTGCTTTTCCAAAAACGCCGCTAAAGACTAGAACATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGC
* * * *
13699827 GGCGCATTTCCAAAAACGCCGCTAAAGCCCCGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGC
* * *
13699868 GGCGCTTCTTGAGAAACGCCGCTAAA
1 GGCGCTTTTTCAAAAACGCCGCTAAA
13699894 TCCCTGAAAA
Statistics
Matches: 132, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 127 0.96
42 5 0.04
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (41 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGC
Found at i:13700057 original size:40 final size:40
Alignment explanation
Indices: 13699960--13700057 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
13699950 GGGAAACGCT
*
13699960 GCTAATACTC-ATTTTTAGTGACGTTTTTCAAAAAGCGTC
1 GCTAATACTCGATTTTTAGTGACATTTTTCAAAAAGCGTC
* * ** *
13699999 GCTAATACTCGATCTTTAGTGGCATTTTTTTAAAAGTGTC
1 GCTAATACTCGATTTTTAGTGACATTTTTCAAAAAGCGTC
* * *
13700039 GGTAATGCTTGATTTTTAG
1 GCTAATACTCGATTTTTAG
13700058 CGGTGTTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 10 0.21
40 38 0.79
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (40 bp):
GCTAATACTCGATTTTTAGTGACATTTTTCAAAAAGCGTC
Found at i:13701217 original size:29 final size:30
Alignment explanation
Indices: 13701185--13701263 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 30
13701175 AAACAAAATC
13701185 CATCTCGTTAAAATAT-TTTTTTCAGAACA
1 CATCTCGTTAAAATATATTTTTTCAGAACA
* * * *
13701214 CATCACGGT-AAATTTATTTTTTCAGAACC
1 CATCTCGTTAAAATATATTTTTTCAGAACA
* *
13701243 CATCTTGTCAAAATTATATTT
1 CATCTCGTTAAAA-TATATTT
13701264 CCCAGAATAG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
28 5 0.13
29 24 0.63
30 3 0.08
31 6 0.16
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.42
Consensus pattern (30 bp):
CATCTCGTTAAAATATATTTTTTCAGAACA
Found at i:13701375 original size:46 final size:46
Alignment explanation
Indices: 13701303--13701398 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 46
13701293 TTAAACCTTA
* * * * **
13701303 AAACCCTAAATAATTTAAAATCTAATACCCTAATTGTATTTTTCCT
1 AAACACTAAACAATTAAAAATATAATACCCTAATTCAATTTTTCCT
* *
13701349 AAACACTAAACAATTAAAAATATAATACCGTACTTCAATTTTTCCT
1 AAACACTAAACAATTAAAAATATAATACCCTAATTCAATTTTTCCT
13701395 AAAC
1 AAAC
13701399 CTTAATAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACACTAAACAATTAAAAATATAATACCCTAATTCAATTTTTCCT
Found at i:13701425 original size:65 final size:65
Alignment explanation
Indices: 13701349--13701490 Score: 194
Period size: 65 Copynumber: 2.2 Consensus size: 65
13701339 TATTTTTCCT
* * * *
13701349 AAACACTAAACAATTAAAAATATAATACCGTACTTCAATTTTTCCTAAACCTTAATAAAACCCTA
1 AAACACTAAACAATTAAAAACATAATACCGTAATTCAATTTATCCTAAACCCTAATAAAACCCTA
* ** * *
13701414 AAACTCTAAACAATTAAAAACATAATACTTTAATTTAATTTATCCTAAACCCTAATTAAACCCTA
1 AAACACTAAACAATTAAAAACATAATACCGTAATTCAATTTATCCTAAACCCTAATAAAACCCTA
*
13701479 AAACCCTAAACA
1 AAACACTAAACA
13701491 TAGGCCTTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.49, C:0.22, G:0.01, T:0.29
Consensus pattern (65 bp):
AAACACTAAACAATTAAAAACATAATACCGTAATTCAATTTATCCTAAACCCTAATAAAACCCTA
Found at i:13703929 original size:5 final size:5
Alignment explanation
Indices: 13703919--13703943 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13703909 AAAAAAGAGA
13703919 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
13703944 TCCATTACAA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:13707245 original size:19 final size:18
Alignment explanation
Indices: 13707223--13707281 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
13707213 TCACAAAAAG
13707223 AAATTAAAATAATTTTCAA
1 AAATTAAAATAATTTT-AA
13707242 AAATTCAAAAT-ATTTATAA
1 AAATT-AAAATAATTT-TAA
*
13707261 AAATTTTAAA-AATTTTAA
1 AAA-TTAAAATAATTTTAA
13707279 AAA
1 AAA
13707282 ATTTCAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
18 6 0.17
19 21 0.60
20 8 0.23
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTAAAATAATTTTAA
Found at i:13707280 original size:8 final size:9
Alignment explanation
Indices: 13707233--13707291 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
13707223 AAATTAAAAT
13707233 AATTTTCAAA
1 AATTTT-AAA
*
13707243 AA-TTCAAA
1 AATTTTAAA
13707251 ATATTTATAAA
1 A-ATTT-TAAA
13707262 AATTTTAAA
1 AATTTTAAA
13707271 AATTTTAAAA
1 AATTTT-AAA
*
13707281 AATTTCAAA
1 AATTTTAAA
13707290 AA
1 AA
13707292 AATATGTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
8 4 0.10
9 18 0.43
10 16 0.38
11 4 0.10
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (9 bp):
AATTTTAAA
Found at i:13707292 original size:10 final size:10
Alignment explanation
Indices: 13707236--13707292 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
13707226 TTAAAATAAT
13707236 TTTC-AAAAA
1 TTTCAAAAAA
*
13707245 -TTCAAAATA
1 TTTCAAAAAA
13707254 TTT-ATAAAAA
1 TTTCA-AAAAA
*
13707264 TTT-TAAAAA
1 TTTCAAAAAA
*
13707273 TTTTAAAAAA
1 TTTCAAAAAA
13707283 TTTCAAAAAA
1 TTTCAAAAAA
13707293 ATATGTAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 3 0.08
9 13 0.33
10 23 0.59
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (10 bp):
TTTCAAAAAA
Found at i:13707542 original size:43 final size:43
Alignment explanation
Indices: 13707495--13707576 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
13707485 ACATGTTTAA
13707495 TTTTTAATCTAACATGAACAATTTCACGCGATTCGACCCTAAT
1 TTTTTAATCTAACATGAACAATTTCACGCGATTCGACCCTAAT
**
13707538 TTTTTAATCTAACATGAACAATTTCACTTGATTCGACCC
1 TTTTTAATCTAACATGAACAATTTCACGCGATTCGACCC
13707577 GACCCGACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (43 bp):
TTTTTAATCTAACATGAACAATTTCACGCGATTCGACCCTAAT
Found at i:13713582 original size:17 final size:18
Alignment explanation
Indices: 13713556--13713599 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
13713546 CGCTTATAGA
* *
13713556 GAAAAAAAACAGA-AAAT
1 GAAAAGAAACAGAGAAAG
*
13713573 TAAAAGAAACAGAGAAAG
1 GAAAAGAAACAGAGAAAG
13713591 GAAAAGAAA
1 GAAAAGAAA
13713600 AACAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.73, C:0.05, G:0.18, T:0.05
Consensus pattern (18 bp):
GAAAAGAAACAGAGAAAG
Found at i:13713608 original size:20 final size:19
Alignment explanation
Indices: 13713579--13713619 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
13713569 AAATTAAAAG
*
13713579 AAACAGAGAAAGGAAAAGAA
1 AAACAAAGAAA-GAAAAGAA
*
13713599 AAACAAAGAAAGAAAATAA
1 AAACAAAGAAAGAAAAGAA
13713618 AA
1 AA
13713620 CTGCCAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (19 bp):
AAACAAAGAAAGAAAAGAA
Found at i:13714605 original size:5 final size:5
Alignment explanation
Indices: 13714586--13714617 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
13714576 CAAGAAAGAA
13714586 AAATT -AATT -AATT AAATT AAATT AAATT AAAT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAAT
13714618 AATTAATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AAATT
Found at i:13715753 original size:9 final size:9
Alignment explanation
Indices: 13715739--13715770 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
13715729 CTTGTTCAAT
13715739 AAAATTTTA
1 AAAATTTTA
13715748 AAAA-TTTA
1 AAAATTTTA
13715756 AAAATTTTA
1 AAAATTTTA
13715765 AAAATT
1 AAAATT
13715771 AATTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAATTTTA
Found at i:13719514 original size:17 final size:17
Alignment explanation
Indices: 13719492--13719526 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13719482 GGGACTAAAT
13719492 TGTTGAAATATTAATAG
1 TGTTGAAATATTAATAG
*
13719509 TGTTGAAATTTTAATAG
1 TGTTGAAATATTAATAG
13719526 T
1 T
13719527 TCAAGGACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (17 bp):
TGTTGAAATATTAATAG
Found at i:13720492 original size:24 final size:24
Alignment explanation
Indices: 13720465--13720514 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
13720455 TGTTTAATTC
13720465 AAGTAATTTATGTATGTATGCACT
1 AAGTAATTTATGTATGTATGCACT
13720489 AAGTAATTTATGTATGTATGCACT
1 AAGTAATTTATGTATGTATGCACT
13720513 AA
1 AA
13720515 CTTGTGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (24 bp):
AAGTAATTTATGTATGTATGCACT
Found at i:13723057 original size:41 final size:41
Alignment explanation
Indices: 13723000--13723090 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
13722990 CTGAAAACCA
*
13723000 AAAATGTAAAACAGAGAACCCAATCAATTGGTTATGCAATT
1 AAAATCTAAAACAGAGAACCCAATCAATTGGTTATGCAATT
13723041 AAAATCTAAAACAGAGAACCCAATCAATTGGTTATGCAATT
1 AAAATCTAAAACAGAGAACCCAATCAATTGGTTATGCAATT
13723082 AAAATCTAA
1 AAAATCTAA
13723091 TATTACATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.24
Consensus pattern (41 bp):
AAAATCTAAAACAGAGAACCCAATCAATTGGTTATGCAATT
Found at i:13724466 original size:44 final size:44
Alignment explanation
Indices: 13724382--13724467 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
13724372 AAAGCCTGAG
* ** *
13724382 TTTGAATAGAAAAGGAACTGGAAGCTGGTATGTTGCATATACGA
1 TTTGAACAGAAAAGGAACTAAAAGCTGGTACGTTGCATATACGA
* *
13724426 TTTGAACAGAAAAGGAACTAAAAGCTGGTGCGTTGTATATAC
1 TTTGAACAGAAAAGGAACTAAAAGCTGGTACGTTGCATATAC
13724468 AACTTCTGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (44 bp):
TTTGAACAGAAAAGGAACTAAAAGCTGGTACGTTGCATATACGA
Found at i:13728156 original size:22 final size:22
Alignment explanation
Indices: 13728130--13728174 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13728120 ATTATGAATA
13728130 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
13728152 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
13728174 T
1 T
13728175 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:13728866 original size:20 final size:18
Alignment explanation
Indices: 13728835--13728871 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
13728825 TGTAATGTTG
13728835 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
13728853 ATATGGTTTAAATTTAATT
1 ATAT-GTTT-AATTTAATT
13728872 CGTGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:13735981 original size:17 final size:15
Alignment explanation
Indices: 13735948--13735988 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
13735938 AGCTCGTGAT
*
13735948 AAAAAAAAGGAAAAG
1 AAAAAAAAGAAAAAG
13735963 AAAAAAAAGAAAATGAG
1 AAAAAAAAGAAAA--AG
13735980 AAAAAAAAG
1 AAAAAAAAG
13735989 GGAAAGCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.52
17 11 0.48
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:13741326 original size:24 final size:24
Alignment explanation
Indices: 13741299--13741351 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
13741289 GCTACCGAGA
*
13741299 AGCCCACTCAAACTACTGCTGAGG
1 AGCCCACTCAAACTACTGCTGAAG
* * * *
13741323 AGCCTACTCAACCTGCTGTTGAAG
1 AGCCCACTCAAACTACTGCTGAAG
13741347 AGCCC
1 AGCCC
13741352 GAAAAAATGG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.19
Consensus pattern (24 bp):
AGCCCACTCAAACTACTGCTGAAG
Found at i:13744900 original size:57 final size:57
Alignment explanation
Indices: 13744800--13744924 Score: 191
Period size: 57 Copynumber: 2.2 Consensus size: 57
13744790 ATAGAAATGG
13744800 TGAAAATGGAGAAATGAGAAACATTTGGAAATGATTACGGTTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATGATTAC-GTTTTCTCCAAAATAAAAA
**
13744858 TGAAAATGGAGAAATGA-AATTATTTGGAAATGAATGTA-GTTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATG-AT-TACGTTTTCTCCAAAATAAAAA
13744915 TGAAAATGGA
1 TGAAAATGGA
13744925 CCTGGAATTG
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
57 42 0.67
58 19 0.30
59 2 0.03
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.27
Consensus pattern (57 bp):
TGAAAATGGAGAAATGAGAAACATTTGGAAATGATTACGTTTTCTCCAAAATAAAAA
Found at i:13748635 original size:15 final size:15
Alignment explanation
Indices: 13748599--13748627 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13748589 ACCAAAATTT
13748599 TTAATTATGTTTAAC
1 TTAATTATGTTTAAC
13748614 TTAATTATGTTTAA
1 TTAATTATGTTTAA
13748628 TTAGATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
TTAATTATGTTTAAC
Found at i:13752323 original size:16 final size:17
Alignment explanation
Indices: 13752298--13752330 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13752288 TTCATCACAC
*
13752298 TTAGGTTAA-TTTGCAT
1 TTAGGATAATTTTGCAT
13752314 TTAGGATAATTTTGCAT
1 TTAGGATAATTTTGCAT
13752331 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (17 bp):
TTAGGATAATTTTGCAT
Found at i:13752829 original size:53 final size:53
Alignment explanation
Indices: 13752761--13753128 Score: 346
Period size: 53 Copynumber: 7.0 Consensus size: 53
13752751 GACTCTGAAA
* *
13752761 AAGACCATATCGTGTAAGATCGTAGCTGGTGGGTTATGGCATCATATGAAAAT
1 AAGACCATATCGTGTAAGATCGTAACTGGTGGGTTATGGCATCATATGAAAAG
* * * * * * **
13752814 AAGATCATCTTGTGTAAAATTGTAATTGGTGGGTTATGGCATCATATGGTAAG
1 AAGACCATATCGTGTAAGATCGTAACTGGTGGGTTATGGCATCATATGAAAAG
* * * **
13752867 AAGACCATATCATGGAAGATCGTAACTGGTAGGTTATGGCATCATATGTGAAG
1 AAGACCATATCGTGTAAGATCGTAACTGGTGGGTTATGGCATCATATGAAAAG
* * ** **
13752920 AAGACCATATCGTGTAAGACCATAACTAATGGGTTATGGCATCATATGGGAAG
1 AAGACCATATCGTGTAAGATCGTAACTGGTGGGTTATGGCATCATATGAAAAG
* * * * * *
13752973 AAGACCATATCGTGTAAGACCATAACTAGTGGGTTATGGAATTATAT-AGGAAG
1 AAGACCATATCGTGTAAGATCGTAACTGGTGGGTTATGGCATCATATGA-AAAG
* * ** * * * *
13753026 AAGACCATATCGTGCAAGGTTATAACTAGTGGGTTATGGCATTATACGAGAAG
1 AAGACCATATCGTGTAAGATCGTAACTGGTGGGTTATGGCATCATATGAAAAG
* * * * *
13753079 AAGGCCATA--GTGTAAGATCATAACTGGTGGGTTATGACATTATACGAAAA
1 AAGACCATATCGTGTAAGATCGTAACTGGTGGGTTATGGCATCATATGAAAA
13753129 ATTTTGAAGG
Statistics
Matches: 267, Mismatches: 46, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
51 35 0.13
53 231 0.87
54 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (53 bp):
AAGACCATATCGTGTAAGATCGTAACTGGTGGGTTATGGCATCATATGAAAAG
Found at i:13752935 original size:106 final size:104
Alignment explanation
Indices: 13752761--13753114 Score: 397
Period size: 106 Copynumber: 3.4 Consensus size: 104
13752751 GACTCTGAAA
* * * * * * *
13752761 AAGACCATATCGTGTAAGATCGTAGCTGGTGGGTTATGGCATCATATGAAAATAAGATCATCTTG
1 AAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATATG-GAAGAAGACCATATCG
* * * *
13752826 TGTAAAATTGTAATTGGTGGGTTATGGCATCATATGGTAAG
65 TGTAAGATTATAACTAGTGGGTTATGGCATCATATGG-AAG
* * * *
13752867 AAGACCATATCATGGAAGATCGTAACTGGTAGGTTATGGCATCATATGTGAAGAAGACCATATCG
1 AAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATATG-GAAGAAGACCATATCG
** *
13752932 TGTAAGACCATAACTAATGGGTTATGGCATCATATGGGAAG
65 TGTAAGATTATAACTAGTGGGTTATGGCATCATAT-GGAAG
* * * *
13752973 AAGACCATATCGTGTAAGACCATAACTAGTGGGTTATGGAATTATATAGGAAGAAGACCATATCG
1 AAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATAT-GGAAGAAGACCATATCG
* * * *
13753038 TGCAAGGTTATAACTAGTGGGTTATGGCATTATACGAGAAG
65 TGTAAGATTATAACTAGTGGGTTATGGCATCATATG-GAAG
*
13753079 AAGGCCATA--GTGTAAGATCATAACTGGTGGGTTATG
1 AAGACCATATCGTGTAAGATCATAACTGGTGGGTTATG
13753115 ACATTATACG
Statistics
Matches: 210, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
104 25 0.12
105 1 0.00
106 181 0.86
107 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (104 bp):
AAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATATGGAAGAAGACCATATCGT
GTAAGATTATAACTAGTGGGTTATGGCATCATATGGAAG
Found at i:13753032 original size:159 final size:159
Alignment explanation
Indices: 13752756--13753128 Score: 410
Period size: 159 Copynumber: 2.4 Consensus size: 159
13752746 GCCATGACTC
* * * * *
13752756 TGAAAAAGACCATATCGTGTAAGATCGTAGCTGGTGGGTTATGGCATCATATGAAAATAAGATCA
1 TGAAGAAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATATGAAAAGAAGACCA
* * *** * * * *
13752821 TCTTGTGTAAAATTGTAATTGGTGGGTTATGGCATCATATGGTAAGAAGACCATATCATGGAAGA
66 TATCGTGTAAAACCATAACTAGTGGGTTATGGAATCATATGGTAAGAAGACCATATCATGCAAGA
* * *
13752886 TCGTAACTGGTAGGTTATGGCATCATATG
131 TCATAACTAGTAGGTTATGGCATCATACG
* ** **
13752915 TGAAGAAGACCATATCGTGTAAGACCATAACTAATGGGTTATGGCATCATATGGGAAGAAGACCA
1 TGAAGAAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATATGAAAAGAAGACCA
* * *
13752980 TATCGTGTAAGACCATAACTAGTGGGTTATGGAATTATATAGG-AAGAAGACCATATCGTGCAAG
66 TATCGTGTAAAACCATAACTAGTGGGTTATGGAATCATAT-GGTAAGAAGACCATATCATGCAAG
* * * *
13753044 GTTATAACTAGTGGGTTATGGCATTATACG
130 ATCATAACTAGTAGGTTATGGCATCATACG
* * * * *
13753074 AGAAGAAGGCCATA--GTGTAAGATCATAACTGGTGGGTTATGACATTATACGAAAA
1 TGAAGAAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATATGAAAA
13753129 ATTTTGAAGG
Statistics
Matches: 174, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
157 33 0.19
159 139 0.80
160 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (159 bp):
TGAAGAAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATATGAAAAGAAGACCA
TATCGTGTAAAACCATAACTAGTGGGTTATGGAATCATATGGTAAGAAGACCATATCATGCAAGA
TCATAACTAGTAGGTTATGGCATCATACG
Found at i:13753275 original size:29 final size:29
Alignment explanation
Indices: 13753241--13753330 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
13753231 AAACACTAGT
13753241 GAAAAGACAACCTTTGTGGTAAAACTCTA
1 GAAAAGACAACCTTTGTGGTAAAACTCTA
* * * *
13753270 GAAAAGTA-AGCCTATGTGGTGAACCTGCT-
1 GAAAAG-ACAACCTTTGTGGTAAAACT-CTA
* * *
13753299 -AAAGGACAAACTTTGTGGAAAAACTCTA
1 GAAAAGACAACCTTTGTGGTAAAACTCTA
13753327 GAAA
1 GAAA
13753331 GGTAAGCCTT
Statistics
Matches: 45, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
27 3 0.07
28 16 0.36
29 23 0.51
30 3 0.07
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (29 bp):
GAAAAGACAACCTTTGTGGTAAAACTCTA
Found at i:13753316 original size:57 final size:57
Alignment explanation
Indices: 13753246--13753410 Score: 204
Period size: 57 Copynumber: 2.9 Consensus size: 57
13753236 CTAGTGAAAA
* * *
13753246 GACAACCTTTGTGGTAAAACTCTAGAAAAGTAAGCCTATGTGGTGAACCTGCTAAAG
1 GACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTGCTAAAG
* * * *
13753303 GACAAACTTTGTGGAAAAACTCTAGAAAGGTAAGCCTTTGTGATGAACATGTTAAAG
1 GACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTGCTAAAG
* * * * * * *
13753360 GACAGCCTTAGTAGCAAAACTTTGGAGAGGTAAGCCTTTGTGGTGAACCTG
1 GACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTG
13753411 TTAATTGTGG
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 91 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (57 bp):
GACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTGCTAAAG
Found at i:13753341 original size:29 final size:29
Alignment explanation
Indices: 13753251--13753344 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
13753241 GAAAAGACAA
*
13753251 CCTTTGTGGTAAAACTCTAGAAAAGTAAG
1 CCTTTGTGGTAAAACTCTAGAAAGGTAAG
* * * *
13753280 CCTATGTGGTGAACCTGCT--AAAGG-ACAA
1 CCTTTGTGGTAAAACT-CTAGAAAGGTA-AG
* *
13753308 ACTTTGTGGAAAAACTCTAGAAAGGTAAG
1 CCTTTGTGGTAAAACTCTAGAAAGGTAAG
13753337 CCTTTGTG
1 CCTTTGTG
13753345 ATGAACATGT
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
27 3 0.06
28 16 0.33
29 26 0.54
30 3 0.06
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (29 bp):
CCTTTGTGGTAAAACTCTAGAAAGGTAAG
Found at i:13768748 original size:12 final size:13
Alignment explanation
Indices: 13768731--13768759 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13768721 AAATTGAAAG
13768731 AAAATAAAAA-CT
1 AAAATAAAAATCT
13768743 AAAATAAAAATCT
1 AAAATAAAAATCT
13768756 AAAA
1 AAAA
13768760 CTAACTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATCT
Found at i:13780478 original size:24 final size:26
Alignment explanation
Indices: 13780451--13780538 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 26
13780441 TCCTAATTAC
*
13780451 GGCTCT-TATGAG-TTTTCCGGT-TTT
1 GGCTCTGTATGAGCTTTT-CGATATTT
13780475 GGCT-TGTATGAGCTTTTCGATATTT
1 GGCTCTGTATGAGCTTTTCGATATTT
* *
13780500 GGCTCTCT-TGAGCTTCTCG-T-TTAT
1 GGCTCTGTATGAGCTTTTCGATATT-T
13780524 GGCTC-GTATGAGCTT
1 GGCTCTGTATGAGCTT
13780539 CCTAATAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
23 4 0.07
24 27 0.50
25 21 0.39
26 2 0.04
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.45
Consensus pattern (26 bp):
GGCTCTGTATGAGCTTTTCGATATTT
Found at i:13780576 original size:25 final size:25
Alignment explanation
Indices: 13780508--13780578 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
13780498 TTGGCTCTCT
* *
13780508 TGAGCTTCTCGTT-TATGGCTCGTA
1 TGAGCTTCTTGTTATATGGCTCATA
* **
13780532 TGAGCTTCCTAATA-ATTGGCTCATA
1 TGAGCTTCTTGTTATA-TGGCTCATA
13780557 TGAGCTTCTTGTTATATGGCTC
1 TGAGCTTCTTGTTATATGGCTC
13780579 GAAAGAGCTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
24 10 0.28
25 25 0.69
26 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (25 bp):
TGAGCTTCTTGTTATATGGCTCATA
Found at i:13785926 original size:20 final size:21
Alignment explanation
Indices: 13785885--13785949 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
13785875 AACATTATTA
*
13785885 AAATTTATAAAAAT-ATGAAAT
1 AAATTTATAAAAATAAT-TAAT
13785906 AAATTTA-AAAAATAATTAAT
1 AAATTTATAAAAATAATTAAT
* *
13785926 -AATTAATAAAAATATTTAA-
1 AAATTTATAAAAATAATTAAT
13785945 AAATT
1 AAATT
13785950 AAGTTTAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.13
20 24 0.63
21 9 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTTATAAAAATAATTAAT
Found at i:13788144 original size:4 final size:4
Alignment explanation
Indices: 13788137--13788162 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13788127 ATTTTCAATT
13788137 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
13788163 ACTAAAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:13788428 original size:31 final size:31
Alignment explanation
Indices: 13788320--13788454 Score: 84
Period size: 31 Copynumber: 4.4 Consensus size: 31
13788310 AAAAAAAGTC
*
13788320 GGTACCAAATTAGGAAAAAGAGTCAAGTTTA
1 GGTACCAAATTAGGAAAAAGTGTCAAGTTTA
* *
13788351 GGTATCAAATT-GGACTCTAAAA-----AAGTTCA
1 GGTACCAAATTAGGA----AAAAGTGTCAAGTTTA
* ** *
13788380 AGTACCAACGTAAGAAAAAGTGTCAAGTTTA
1 GGTACCAAATTAGGAAAAAGTGTCAAGTTTA
* * *
13788411 GGTACCAAATTAGGAAAAATTGTAAAATTTA
1 GGTACCAAATTAGGAAAAAGTGTCAAGTTTA
* *
13788442 GTTATCAAATTAG
1 GGTACCAAATTAG
13788455 ACAAAAAAAG
Statistics
Matches: 77, Mismatches: 17, Indels: 20
0.68 0.15 0.18
Matches are distributed among these distances:
26 4 0.05
29 13 0.17
30 5 0.06
31 51 0.66
34 4 0.05
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (31 bp):
GGTACCAAATTAGGAAAAAGTGTCAAGTTTA
Found at i:13788489 original size:91 final size:90
Alignment explanation
Indices: 13788320--13788488 Score: 205
Period size: 91 Copynumber: 1.9 Consensus size: 90
13788310 AAAAAAAGTC
* * * *
13788320 GGTACCAAATTAGGAAAAAGAGTCAAGTTTAGGTATCAAATTGGACTCTAAAAAAGTTCAAGTAC
1 GGTACCAAATTAGGAAAAAGAGTAAAATTTAGGTATCAAATTAGAC-CAAAAAAAGTTCAAGTAC
*
13788385 CAACGTAAGAAAAAGTGTCAAGTTTA
65 CAAAGTAAGAAAAAGTGTCAAGTTTA
** * * *
13788411 GGTACCAAATTAGGAAAAATTGTAAAATTTAGTTATCAAATTAGA-CAAAAAAAGATTTAGGTAC
1 GGTACCAAATTAGGAAAAAGAGTAAAATTTAGGTATCAAATTAGACCAAAAAAAG-TTCAAGTAC
* *
13788475 TAAATTAAGAAAAA
65 CAAAGTAAGAAAAA
13788489 ACAAATATGA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
89 8 0.12
90 18 0.28
91 39 0.60
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.25
Consensus pattern (90 bp):
GGTACCAAATTAGGAAAAAGAGTAAAATTTAGGTATCAAATTAGACCAAAAAAAGTTCAAGTACC
AAAGTAAGAAAAAGTGTCAAGTTTA
Found at i:13792271 original size:21 final size:21
Alignment explanation
Indices: 13792245--13792306 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
13792235 TAACGAGACT
*
13792245 GTTGATGTGGCAAGCTAACTA
1 GTTGATGTGGCAAGTTAACTA
*
13792266 GTTGATGTGACCAA-TTAACTA
1 GTTGATGTG-GCAAGTTAACTA
* *
13792287 GCTGATGTGGCCAGTTAACT
1 GTTGATGTGGCAAGTTAACT
13792307 TGCCATGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.85
22 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (21 bp):
GTTGATGTGGCAAGTTAACTA
Found at i:13792513 original size:40 final size:39
Alignment explanation
Indices: 13792469--13792560 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 39
13792459 GGATTTGGGT
* *
13792469 TAGAAATCGATTCGGGAATCGATTAAGGT-TGGTTTAGGGC
1 TAGAAATCGATTCGAGAATCGATTAA--TAGGGTTTAGGGC
* *
13792509 TAGAAAATCGATTCGATAATCGATTAATAGGGTTTAGGGT
1 TAG-AAATCGATTCGAGAATCGATTAATAGGGTTTAGGGC
*
13792549 TAGAAATTGATT
1 TAGAAATCGATT
13792561 GGTATTTTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 9 0.20
40 15 0.33
41 21 0.47
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (39 bp):
TAGAAATCGATTCGAGAATCGATTAATAGGGTTTAGGGC
Found at i:13793404 original size:15 final size:15
Alignment explanation
Indices: 13793384--13793445 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
13793374 GAAGAAGAAA
**
13793384 TGTCTGATTTTGATG
1 TGTCTGATAGTGATG
13793399 TGTCTGATAGTGATG
1 TGTCTGATAGTGATG
*
13793414 TGTCT-ATTAATGATG
1 TGTCTGA-TAGTGATG
* *
13793429 TATCTAATAGTGATG
1 TGTCTGATAGTGATG
13793444 TG
1 TG
13793446 GCTAATAGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 1 0.03
15 37 0.95
16 1 0.03
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (15 bp):
TGTCTGATAGTGATG
Done.