Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 11 of 24
Found at i:1608296 original size:17 final size:18
Alignment explanation
Indices: 1608274--1608321 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
1608264 TAAATAAACT
*
1608274 TTTATTTATATTTAT-TA
1 TTTATTTATATTTATAAA
1608291 TTTATTTATATTT-TAAA
1 TTTATTTATATTTATAAA
1608308 TTTATTTATATTTA
1 TTTATTTATATTTA
1608322 ATTCATGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 1 0.04
17 27 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTTATATTTATAAA
Found at i:1609364 original size:16 final size:16
Alignment explanation
Indices: 1609280--1609364 Score: 66
Period size: 16 Copynumber: 5.1 Consensus size: 16
1609270 ATATGAATTC
*
1609280 AATTATA-TTAAATAAT
1 AATTATATTTTAAT-AT
1609296 AATTATTTATTTTAATAT
1 AATTA--TATTTTAATAT
**
1609314 TTTTAATATTTTAATAT
1 AATT-ATATTTTAATAT
* *
1609331 ATATT-TATATTAAAAT
1 A-ATTATATTTTAATAT
1609347 AATTATATTTTAATAT
1 AATTATATTTTAATAT
1609363 AA
1 AA
1609365 AAAATTAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
15 3 0.06
16 26 0.48
17 11 0.20
18 8 0.15
19 6 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTATATTTTAATAT
Found at i:1609370 original size:20 final size:22
Alignment explanation
Indices: 1609328--1609378 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
1609318 AATATTTTAA
1609328 TATATATTTATATTAAAATAAT
1 TATATATTTATATTAAAATAAT
1609350 TATAT-TTTA-ATATAAAA-AAT
1 TATATATTTATAT-TAAAATAAT
*
1609370 TAAATATTT
1 TATATATTT
1609379 TAGATTACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 9 0.35
21 12 0.46
22 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATATATTTATATTAAAATAAT
Found at i:1611105 original size:20 final size:19
Alignment explanation
Indices: 1611082--1611154 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1611072 CACACCCAGA
1611082 TGTATCGATACATGCTGCT-T
1 TGTATCGATACATG-T-CTAT
*
1611102 TGTATCGATACATGTTTAT
1 TGTATCGATACATGTCTAT
* *
1611121 TGTATCGATACATGGACAAT
1 TGTATCGATACAT-GTCTAT
1611141 TGTATCGATACATG
1 TGTATCGATACATG
1611155 AAACTGGCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
18 1 0.02
19 16 0.34
20 30 0.64
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTCTAT
Found at i:1611209 original size:20 final size:20
Alignment explanation
Indices: 1611184--1611236 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1611174 TATCACTATT
** *
1611184 TGTATCGATACATGGTACAA
1 TGTATCGATACATGAAAAAA
1611204 TGTATCGATACATGAAAAAA
1 TGTATCGATACATGAAAAAA
*
1611224 TGTATCTATACAT
1 TGTATCGATACAT
1611237 AGCTTGTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:1611305 original size:20 final size:19
Alignment explanation
Indices: 1611271--1611308 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1611261 ATAATTTCAA
*
1611271 ATGAATGTATTGATACATT
1 ATGAATGTATCGATACATT
1611290 ATGAACTGTATCGATACAT
1 ATGAA-TGTATCGATACAT
1611309 GACTACAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
ATGAATGTATCGATACATT
Found at i:1612828 original size:3 final size:3
Alignment explanation
Indices: 1612820--1612852 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1612810 TGAAGAGGAA
*
1612820 GAT GAT GAT GAT GAT GAT GAT GAT GAT GGT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1612853 TCGGATGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:1617580 original size:20 final size:22
Alignment explanation
Indices: 1617536--1617582 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1617526 AATTTTCAGC
1617536 AAAT-TTTCACTTTTTCACTTCA
1 AAATCTTTCACTTTTTCAC-TCA
1617558 AAATCTTTCA-TTTTTCA-TCA
1 AAATCTTTCACTTTTTCACTCA
1617578 AAATC
1 AAATC
1617583 ATCAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATCTTTCACTTTTTCACTCA
Found at i:1619910 original size:20 final size:20
Alignment explanation
Indices: 1619862--1619919 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1619852 GTATCAATAC
***
1619862 ATTGTATCGATACATG-TTC
1 ATTGTATCGATACATGAAAA
*
1619881 ATTATATCGATACATGAAAA
1 ATTGTATCGATACATGAAAA
1619901 ATTGTATCGATACATGAAA
1 ATTGTATCGATACATGAAA
1619920 CTGGCAGTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACATGAAAA
Found at i:1620070 original size:19 final size:20
Alignment explanation
Indices: 1620046--1620083 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1620036 ATAATTTCAA
1620046 ATGAA-TGTATCGATACATT
1 ATGAATTGTATCGATACATT
1620065 ATGAATTGTATCGATACAT
1 ATGAATTGTATCGATACAT
1620084 GACTACGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCGATACATT
Found at i:1625526 original size:20 final size:19
Alignment explanation
Indices: 1625485--1625527 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1625475 ATCCATGCAC
*
1625485 TTTTATGTCATTTCATGTA
1 TTTTATGTCATTTCAGGTA
1625504 TTTTGATGTCATTT-AGGTAA
1 TTTT-ATGTCATTTCAGGT-A
1625524 TTTT
1 TTTT
1625528 CATGATCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.58
Consensus pattern (19 bp):
TTTTATGTCATTTCAGGTA
Found at i:1629362 original size:13 final size:13
Alignment explanation
Indices: 1629344--1629368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1629334 CATAAAATGT
1629344 TGTATCGATACAA
1 TGTATCGATACAA
1629357 TGTATCGATACA
1 TGTATCGATACA
1629369 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1629366 original size:33 final size:33
Alignment explanation
Indices: 1629324--1629388 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1629314 TTCAACAATT
1629324 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1629357 TGTATCGATACATATTTTTTTGTATCGATACA
1 TGTATCGATACATAAAATGTTGTATCGATACA
1629389 TTTTAAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1629449 original size:13 final size:13
Alignment explanation
Indices: 1629431--1629458 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1629421 ATTACTCAAA
1629431 TGTATCGATACAT
1 TGTATCGATACAT
1629444 TGTATCGATACAT
1 TGTATCGATACAT
1629457 TG
1 TG
1629459 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1637842 original size:63 final size:63
Alignment explanation
Indices: 1637743--1637892 Score: 178
Period size: 63 Copynumber: 2.4 Consensus size: 63
1637733 TACCTTCTTG
* * * **
1637743 AAGTCCATGACTCCGTGGC-ACCTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCA
1 AAGTCCACGACTCCGTGGCAACCTTCTGCTCAAAGTCCACGACTCAGTGGCACCTTCCT-TTCA
* * *
1637806 AAGTCCACGACTCAGTGGCAATC-TCTGCTCAAAGTCCACGACTCCGTGGCACCTTCCTTTCA
1 AAGTCCACGACTCCGTGGCAACCTTCTGCTCAAAGTCCACGACTCAGTGGCACCTTCCTTTCA
* * *
1637868 AAGCCCACAACTCCGTGGCACCCTT
1 AAGTCCACGACTCCGTGGCAACCTT
1637893 TTTCTTTTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
62 22 0.31
63 48 0.67
64 2 0.03
ACGTcount: A:0.22, C:0.35, G:0.17, T:0.26
Consensus pattern (63 bp):
AAGTCCACGACTCCGTGGCAACCTTCTGCTCAAAGTCCACGACTCAGTGGCACCTTCCTTTCA
Found at i:1637941 original size:34 final size:35
Alignment explanation
Indices: 1637836--1637963 Score: 142
Period size: 35 Copynumber: 3.8 Consensus size: 35
1637826 ATCTCTGCTC
* *
1637836 AAAGTCCACGACTCCGTGGCA-CC--TT-CC-TTT
1 AAAGCCCACAACTCCGTGGCACCCTTTTCCCATTT
* **
1637866 CAAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCCTTTTCCCATTT
* *
1637902 AAAGCCCACAGCTCCGTGGCACTCTTTTCCCATTT
1 AAAGCCCACAACTCCGTGGCACCCTTTTCCCATTT
1637937 -AAGCCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACCCTTTT
1637964 AAGTCCACAA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.23
32 2 0.02
34 27 0.33
35 31 0.38
36 3 0.04
ACGTcount: A:0.20, C:0.38, G:0.14, T:0.28
Consensus pattern (35 bp):
AAAGCCCACAACTCCGTGGCACCCTTTTCCCATTT
Found at i:1637964 original size:27 final size:27
Alignment explanation
Indices: 1637934--1638137 Score: 203
Period size: 27 Copynumber: 7.1 Consensus size: 27
1637924 TCTTTTCCCA
*
1637934 TTTAAGCCCACAACTCCGTGGCACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
*
1637961 TTTAAGTCCACAACTCAGTGGCA-CCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
*
1637987 TCTCATCAAAGTCCACAACTTCGTGGCACCCT
1 T-T--T--AAGTCCACAACTCCGTGGCACCCT
* *
1638019 TTTAAAGCCCACAACTTCGTGGCACTCGTTTTCCT
1 TTT-AAGTCCACAACTCCGTGGCA--C-----CCT
* *
1638054 TCTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGTCCACAACTCCGTGGCACCCT
*
1638081 TTTAAGCCCACAACTCCGTGGCACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
*
1638108 TTTAAGTCCACGACTCCGTGGCACCCT
1 TTTAAGTCCACAACTCCGTGGCACCCT
1638135 TTT
1 TTT
1638138 TTCCTTTAAA
Statistics
Matches: 150, Mismatches: 14, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.03
27 76 0.51
28 20 0.13
29 2 0.01
30 1 0.01
31 19 0.13
32 5 0.03
34 18 0.12
35 5 0.03
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.26
Consensus pattern (27 bp):
TTTAAGTCCACAACTCCGTGGCACCCT
Found at i:1638074 original size:34 final size:31
Alignment explanation
Indices: 1637743--1638203 Score: 222
Period size: 31 Copynumber: 14.8 Consensus size: 31
1637733 TACCTTCTTG
** **
1637743 AAGTCCATGACTCCGTGGCACCTTCTT-CTCA
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTT
* * * * *
1637774 AAGTCCACGACTCAGTGGCATCTTTTTCTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTCCTT-T
* * * * * **
1637806 AAGTCCACGACTCAGTGGCA-ATCTCTGCTCA
1 AAGTCCACAACTCCGTGGCACCT-TTTCCTTT
*
1637837 AAGTCCACGACTCCGTGGCACC--TTCCTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTT
* *
1637866 CAAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTT
1 --AAGTCCACAACTCCGTGGCA-CC-TTTTC-CTTT
* *
1637902 AAAGCCCACAGCTCCGTGGCACTCTTTTCCCATTT
1 -AAGTCCACAACTCCGTGGCAC-CTTTT-CC-TTT
* *
1637937 AAGCCCACAACTCCGTGGCACC----CTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTT
* * * **
1637964 AAGTCCACAACTCAGTGGCACCTTCTCATCA
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTT
* * *
1637995 AAGTCCACAACTTCGTGGCACC-CTT--TTA
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTT
* *
1638023 AAGCCCACAACTTCGTGGCACTCGTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCAC-C-TTTTCCTT-T
*
1638057 AAGTCCACAACTCCGTGGCACC----CGTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTT
* *
1638084 AAGCCCACAACTCCGTGGCACC----CTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTT
*
1638111 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTT
1 AAGTCCACAACTCCGTGGCA-CC--TTTTCCTTT
* *
1638145 AAAGCCCACAACTACGTGGCACTCTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCAC-CTTTTCC-TTT
* *
1638179 AAGTCCACAAGTCGGTGGCAACCTT
1 AAGTCCACAACTCCGTGGC-ACCTT
1638204 CTTCTAAAGC
Statistics
Matches: 346, Mismatches: 49, Indels: 68
0.75 0.11 0.15
Matches are distributed among these distances:
27 67 0.19
28 28 0.08
29 4 0.01
30 3 0.01
31 86 0.25
32 27 0.08
33 28 0.08
34 54 0.16
35 46 0.13
36 3 0.01
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (31 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTT
Found at i:1638074 original size:62 final size:61
Alignment explanation
Indices: 1637898--1638218 Score: 295
Period size: 62 Copynumber: 5.2 Consensus size: 61
1637888 CCCTTTTTCT
* *
1637898 TTTTAAAGCCCACAGCTCCGTGGCACTCTTTTCCCATT-TAAGCCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTT-CC-TTCTAAGTCCACAACTCCGTGGCACCC
* * * * * *
1637960 TTTT-AAGTCCACAACTCAGTGGCAC-CTTCT-CATCAAAGTCCACAACTTCGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTTCTAAGTCCACAACTCCGTGGCACCC
*
1638018 TTTTAAAGCCCACAACTTCGTGGCACTCGTTTTCCTTCTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCCTTCTAAGTCCACAACTCCGTGGCACCC
* * *
1638080 GTTT-AAGCCCACAACTCCGTGGCA--C----CCTTTTAAGTCCACGACTCCGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTTCTAAGTCCACAACTCCGTGGCACCC
* * * *
1638134 TTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGTCCACAAGTCGGTGGCA
1 -----T--TTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTTCTAAGTCCACAACTCCGTGGC-
1638199 ACCTTC
58 ACC--C
*
1638205 TTCTAAAGCCCACA
1 TTTTAAAGCCCACA
1638219 CAAGTCGGTG
Statistics
Matches: 212, Mismatches: 25, Indels: 42
0.76 0.09 0.15
Matches are distributed among these distances:
54 27 0.13
57 1 0.00
58 26 0.12
59 19 0.09
60 5 0.02
61 43 0.20
62 51 0.24
64 13 0.06
66 1 0.00
68 22 0.10
69 3 0.01
71 1 0.00
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (61 bp):
TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTTCTAAGTCCACAACTCCGTGGCACCC
Found at i:1638085 original size:120 final size:115
Alignment explanation
Indices: 1637896--1638198 Score: 349
Period size: 120 Copynumber: 2.5 Consensus size: 115
1637886 CACCCTTTTT
* * * *
1637896 CTTTTTAAAGCCCACAGCTCCGTGGCACTCTTTTCCCATTTAAGCCCACAACTCCGTGGCACCCT
1 CTTTTTAAAGCCCACAACTACGTGGCACTCTTTT-CC-TTTAAGTCCACAACTCCGTGGCACCCG
* *
1637961 TTTAAGTCCACAACTCAGTGGCA-CCTTCTCATCAAAGTCCACAACTTCGTGGCACC
64 TTTAAGCCCACAACTCAGTGGCACCCTT-T--T--AAGTCCACAACTCCGTGGCACC
*
1638017 C-TTTTAAAGCCCACAACTTCGTGGCACTCGTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCG
1 CTTTTTAAAGCCCACAACTACGTGGCACTC-TTTTCCTT-TAAGTCCACAACTCCGTGGCACCCG
* *
1638081 TTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACC
64 TTTAAGCCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1638133 CTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGTCCACAAGTCGGTGGC
1 C----TT--TTTAAAGCCCACAACTACGTGGCACTCTTTTCC-TTTAAGTCCACAACTCCGTGGC
1638198 A
59 A
1638199 ACCTTCTTCT
Statistics
Matches: 160, Mismatches: 11, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
116 21 0.13
118 1 0.01
119 2 0.01
120 73 0.46
121 10 0.06
122 25 0.16
123 28 0.17
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (115 bp):
CTTTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTTAAGTCCACAACTCCGTGGCACCCGTT
TAAGCCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1638110 original size:89 final size:89
Alignment explanation
Indices: 1637999--1638166 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 89
1637989 TCATCAAAGT
* * * *
1637999 CCACAACTTCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTC-GTTTTCCTTCT-AAGTC
1 CCACAACTCCGTGGCACCCTTTT-AAGCCCACAACTCCGTGGCACCCTGTTTTCCTT-TAAAGCC
*
1638062 CACAACTCCGTGGCACCCGTTTAAGC
64 CACAACTACGTGGCACCCGTTTAAGC
* * *
1638088 CCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCA
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTGTTTTCCTTTAAAGCCCA
1638153 CAACTACGTGGCAC
66 CAACTACGTGGCAC
1638167 TCTTTTCCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
88 20 0.29
89 49 0.71
ACGTcount: A:0.21, C:0.37, G:0.15, T:0.26
Consensus pattern (89 bp):
CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTGTTTTCCTTTAAAGCCCA
CAACTACGTGGCACCCGTTTAAGC
Found at i:1638163 original size:35 final size:33
Alignment explanation
Indices: 1638105--1638188 Score: 105
Period size: 35 Copynumber: 2.5 Consensus size: 33
1638095 TCCGTGGCAC
* * *
1638105 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
1 CCTTTTAAGTCCACAACTACGTGGCA--CTCTTTT
* *
1638140 CCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 CCTTTTAAGTCCACAACTACGTGGCACTCTTTT
1638173 CCTTTTAAGTCCACAA
1 CCTTTTAAGTCCACAA
1638189 GTCGGTGGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 20 0.48
35 22 0.52
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTACGTGGCACTCTTTT
Found at i:1638197 original size:33 final size:33
Alignment explanation
Indices: 1638105--1638198 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 33
1638095 TCCGTGGCAC
* *
1638105 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
1 CCTTTTAAGTCCACAACT-CGTGGCA-CCTCTTTT
* *
1638140 CCTTTAAAGCCCACAACTACGTGGCA-CTCTTTT
1 CCTTTTAAGTCCACAACT-CGTGGCACCTCTTTT
*
1638173 CCTTTTAAGTCCACAAGTCGGTGGCA
1 CCTTTTAAGTCCACAACTC-GTGGCA
1638199 ACCTTCTTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
32 1 0.02
33 27 0.54
35 22 0.44
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCGTGGCACCTCTTTT
Found at i:1638250 original size:32 final size:33
Alignment explanation
Indices: 1638184--1638304 Score: 210
Period size: 33 Copynumber: 3.7 Consensus size: 33
1638174 CTTTTAAGTC
1638184 CACAAGTCGGTGGCAA-CCTTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTC-TCTAAAGCCCA
1638217 CACAAGTCGGTGGCAACCCTTCTC-AAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
*
1638249 CACAAGTCGGTGGCAACCATTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
1638282 CACAAGTCGGTGGCAACCCTTCT
1 CACAAGTCGGTGGCAACCCTTCT
1638305 AACCCCAATA
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
32 31 0.37
33 48 0.57
34 5 0.06
ACGTcount: A:0.27, C:0.35, G:0.19, T:0.19
Consensus pattern (33 bp):
CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
Found at i:1638362 original size:49 final size:49
Alignment explanation
Indices: 1638309--1638960 Score: 894
Period size: 49 Copynumber: 13.6 Consensus size: 49
1638299 CCTTCTAACC
* *
1638309 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
1638358 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGC
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * *
1638401 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATTTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
1638450 CCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1638499 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
1638542 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
1638591 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * *
1638640 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTACACCATTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
1638689 CCAATATAGCTGGCCTTGAATCAGCATC-TTGGCACCTTTATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCA-CATTGGCACCTTCATCTTTAAGT
*
1638738 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
1638787 CCAATGTAACTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1638835 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
1638878 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGT
*
1638930 TCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CCAATGTAGCTGGCCTTGAATCAGCACATTG
1638961 ACATCCTTTT
Statistics
Matches: 538, Mismatches: 42, Indels: 43
0.86 0.07 0.07
Matches are distributed among these distances:
43 118 0.22
45 3 0.01
47 1 0.00
48 45 0.08
49 333 0.62
50 2 0.00
52 36 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:1638563 original size:141 final size:141
Alignment explanation
Indices: 1638309--1638969 Score: 1001
Period size: 141 Copynumber: 4.6 Consensus size: 141
1638299 CCTTCTAACC
1638309 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
1638374 TGAATCAGCACATTGGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
66 TGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
*
1638439 TATTTTTAAGT
131 TATCTTTAAGT
*
1638450 CCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
1638515 TGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
66 TGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
*
1638580 CATCTTTAAGT
131 TATCTTTAAGT
*
1638591 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
* *
1638656 TGACTCAGCACATTGGCACCTACACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGG
66 TGAATCAGCACATTGGCACCT------TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1638721 CACCTTTATCTTTAAGT
125 CACCTTTATCTTTAAGT
* * * *
1638738 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAACTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
* *
1638803 TGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
66 TGAATCAGCACATTGG-----CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
1638868 A-C-----CTTTAAGT
126 ACCTTTATCTTTAAGT
*
1638878 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGG
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGG
*
1638943 CCTTGAATCAGCACATTGACATCCTTT
63 CCTTGAATCAGCACATTGGCA-CCTTT
1638970 TTCTCATCTT
Statistics
Matches: 479, Mismatches: 26, Indels: 32
0.89 0.05 0.06
Matches are distributed among these distances:
138 2 0.00
139 5 0.01
140 41 0.09
141 219 0.46
142 2 0.00
143 40 0.08
145 1 0.00
146 37 0.08
147 127 0.27
152 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (141 bp):
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
TGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
TATCTTTAAGT
Found at i:1638948 original size:52 final size:55
Alignment explanation
Indices: 1638870--1639082 Score: 180
Period size: 52 Copynumber: 3.7 Consensus size: 55
1638860 ACATTGGCAC
* *
1638870 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
1638922 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * * ** * *
1638977 CTTTAAGCCCAATATCGTTGGCAGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TC-TC
1639042 AT
54 AT
* *
1639044 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
1639083 GCACCTTCAT
Statistics
Matches: 127, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
52 38 0.30
53 2 0.02
54 5 0.04
55 32 0.25
56 1 0.01
57 1 0.01
58 1 0.01
61 3 0.02
62 1 0.01
63 3 0.02
64 1 0.01
66 3 0.02
67 36 0.28
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:1639914 original size:20 final size:20
Alignment explanation
Indices: 1639889--1639942 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1639879 TTTCAACAAT
1639889 TTGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
*** *
1639909 TTGTATCGATACATATTTTT
1 TTGTATCGATACATAAAATG
1639929 TTGTATCGATACAT
1 TTGTATCGATACAT
1639943 TTTAAGCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATAAAATG
Found at i:1640002 original size:13 final size:13
Alignment explanation
Indices: 1639984--1640011 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1639974 ATTACTCAAA
1639984 TGTATCGATACAT
1 TGTATCGATACAT
1639997 TGTATCGATACAT
1 TGTATCGATACAT
1640010 TG
1 TG
1640012 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1646704 original size:20 final size:19
Alignment explanation
Indices: 1646661--1646714 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
1646651 ACATTATGCT
*
1646661 TTGTATCGATACATGCTCA
1 TTGTATCGATACATGCACA
* *
1646680 TTGTATTGATACATGGACAA
1 TTGTATCGATACATGCAC-A
1646700 TTGTATCGATACATG
1 TTGTATCGATACATG
1646715 AGATTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATGCACA
Found at i:1646780 original size:33 final size:34
Alignment explanation
Indices: 1646743--1646812 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
1646733 CTATCACTAT
*
1646743 TTGTATCGATACATG-GTACAA-TGTATCAATACA
1 TTGTATCGATACATGAGGA-AATTGTATCAATACA
*
1646776 TTGTATCGATACATGAGGAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCAATACA
1646810 TTG
1 TTG
1646813 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCAATACA
Found at i:1652976 original size:13 final size:13
Alignment explanation
Indices: 1652958--1652984 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1652948 ACAACATTCT
1652958 TTGTATCGATACA
1 TTGTATCGATACA
1652971 TTGTATCGATACA
1 TTGTATCGATACA
1652984 T
1 T
1652985 AGGGTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1654908 original size:22 final size:20
Alignment explanation
Indices: 1654835--1654907 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 20
1654825 TTATTTGACA
1654835 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAAT-CTTT-ATT
1654857 AAGGGGGAG-AAT-TTT-TT
1 AAGGGGGAGAAATCTTTATT
* *
1654874 AAAGAGGAGAAAATCTTTAATT
1 AAGGGGGAG-AAATCTTT-ATT
1654896 AAGGGGGAGAAA
1 AAGGGGGAGAAA
1654908 AACGAAAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
17 9 0.21
19 6 0.14
20 3 0.07
21 6 0.14
22 18 0.43
ACGTcount: A:0.40, C:0.03, G:0.33, T:0.25
Consensus pattern (20 bp):
AAGGGGGAGAAATCTTTATT
Found at i:1655468 original size:13 final size:13
Alignment explanation
Indices: 1655450--1655476 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1655440 ACATTATGCT
1655450 TTGTATCGATACA
1 TTGTATCGATACA
1655463 TTGTATCGATACA
1 TTGTATCGATACA
1655476 T
1 T
1655477 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1655506 original size:20 final size:19
Alignment explanation
Indices: 1655460--1655516 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1655450 TTGTATCGAT
1655460 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
1655479 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
*
1655498 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
1655517 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1655582 original size:13 final size:13
Alignment explanation
Indices: 1655561--1655614 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
1655551 CGATACATGG
*
1655561 TACAATGTATCGA
1 TACATTGTATCGA
1655574 TACATTGTATCGA
1 TACATTGTATCGA
*
1655587 TACA-TG-A-GGA
1 TACATTGTATCGA
1655597 -A-ATTGTATCGA
1 TACATTGTATCGA
1655608 TACATTG
1 TACATTG
1655615 CTTGTAATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
8 1 0.03
9 3 0.09
10 3 0.09
11 3 0.09
12 3 0.09
13 20 0.61
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1655587 original size:33 final size:34
Alignment explanation
Indices: 1655545--1655614 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
1655535 CTATCACTAT
*
1655545 TTGTATCGATACATG-GTACAA-TGTATCGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATACA
1655578 TTGTATCGATACATGAGGAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCGATACA
1655612 TTG
1 TTG
1655615 CTTGTAATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATACA
Found at i:1655997 original size:32 final size:34
Alignment explanation
Indices: 1655952--1656042 Score: 109
Period size: 36 Copynumber: 2.7 Consensus size: 34
1655942 CAACACTATC
1655952 TTTC-AAGGCTAAGATAGAAACCTC-C-CTATC-T
1 TTTCAAAGGCTAAGATAG-AACCTCTCTCTATCTT
**
1655983 TTTCACGGGCTAAGATAGAACCTTTCTCTCTATCTT
1 TTTCAAAGGCTAAGATAGAACC--TCTCTCTATCTT
1656019 TTTCAAAGGCTAAGATAGAACCTC
1 TTTCAAAGGCTAAGATAGAACCTC
1656043 ACAATCACTT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
31 8 0.16
32 11 0.22
33 2 0.04
34 3 0.06
35 5 0.10
36 21 0.42
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (34 bp):
TTTCAAAGGCTAAGATAGAACCTCTCTCTATCTT
Found at i:1658928 original size:52 final size:51
Alignment explanation
Indices: 1658846--1658979 Score: 180
Period size: 51 Copynumber: 2.6 Consensus size: 51
1658836 TTTGCCTGCT
* * *
1658846 TGTATCGATACATTGAAGAATGTATCGATACATTT-GGTTCAAAAACCTAGAA
1 TGTATCAATACAATGAAGAATGTATCGATACATTTAGG-TC-AAAACCCAGAA
*
1658898 TGTATCAATACAATGAAGAATGTATTGATACATTTAGGTCAAAACCCAGAA
1 TGTATCAATACAATGAAGAATGTATCGATACATTTAGGTCAAAACCCAGAA
* * *
1658949 TGTACCAATATAATGAAAAATGTATCGATAC
1 TGTATCAATACAATGAAGAATGTATCGATAC
1658980 TTTTTCATTC
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
51 37 0.51
52 34 0.47
53 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (51 bp):
TGTATCAATACAATGAAGAATGTATCGATACATTTAGGTCAAAACCCAGAA
Found at i:1659087 original size:21 final size:20
Alignment explanation
Indices: 1659039--1659092 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1659029 CATTTCAAAC
*
1659039 ATGTATCGATACATTCACTT
1 ATGTATCAATACATTCACTT
* *
1659059 ATGTATCAATACTTTCATTT
1 ATGTATCAATACATTCACTT
1659079 ATCGTATCAATACA
1 AT-GTATCAATACA
1659093 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (20 bp):
ATGTATCAATACATTCACTT
Found at i:1660894 original size:79 final size:79
Alignment explanation
Indices: 1660806--1660978 Score: 226
Period size: 79 Copynumber: 2.2 Consensus size: 79
1660796 ATAAAGACGG
* * *
1660806 GGTTGGAGTATCCTCTC-AGAAATAACGGGGCTGGAGTATCCCCGATCGTGAAAAATCGGTGTTC
1 GGTTGGAGTATCCCCTCGA-AAATAACAGGGCTGGAGTATCCCCGATCGTGAAAAATCGATGTTC
1660870 T-AGAAATAAAA-CTGA
65 TGA-AAATAAAATC-GA
* * * *
1660885 GGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTCT
1 GGTTGGAGTATCCCCTCGAAAATAACAGGGCTGGAGTATCCCCGATCGTGAAAAATCGATGTTCT
*
1660950 GAAAATAAAATCGG
66 GAAAATAAAATCGA
1660964 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1660979 GATGGTGGAA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
79 80 0.96
80 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCGAAAATAACAGGGCTGGAGTATCCCCGATCGTGAAAAATCGATGTTCT
GAAAATAAAATCGA
Found at i:1660972 original size:130 final size:131
Alignment explanation
Indices: 1660831--1661108 Score: 389
Period size: 130 Copynumber: 2.1 Consensus size: 131
1660821 TCAGAAATAA
*
1660831 CGGGGCTGGAGTATCCCCGATCGTGAAAAATCGGTGTTCTAGAAATAAAA-CTGAGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATCGTGAAAAATCGGTGTTCTAGAAATAAAATC-GAGGTTGGAGTA
* * *
1660895 TCCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTCTGA-AAATAAA
65 TCCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTATGGAAAATCAATATTCTGAGAAATAAA
1660959 AT
130 AT
* * * * *
1660961 CGGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATCGTGAAAAATCGGTGTTCTAGAAATAAAATCGAGGTTGGAGTAT
* * * * *
1661026 CCCTTTGGAAATAATAGGGTTGGAGTATCCCCGATTATGGAAAATCAATATTTTTAGAAATAAAA
66 CCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTATGGAAAATCAATATTCTGAGAAATAAAA
1661091 T
131 T
* *
1661092 CGAGGTTGGTGTATCCC
1 CGGGGTTGGAGTATCCC
1661109 TTCGAAAATA
Statistics
Matches: 130, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
130 105 0.81
131 25 0.19
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (131 bp):
CGGGGTTGGAGTATCCCCGATCGTGAAAAATCGGTGTTCTAGAAATAAAATCGAGGTTGGAGTAT
CCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTATGGAAAATCAATATTCTGAGAAATAAAA
T
Found at i:1660975 original size:51 final size:51
Alignment explanation
Indices: 1660912--1661028 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
1660902 GAAAATAATA
*
1660912 GGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTCTGAAAATAAAATCG
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTCTGAAAATAAAATCG
* * * *
1660963 GGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTCTGAAAATAAAATCG
*
1661014 AGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
1661029 TTTGGAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTCTGAAAATAAAATCG
Found at i:1661046 original size:79 final size:79
Alignment explanation
Indices: 1660961--1661559 Score: 566
Period size: 79 Copynumber: 7.6 Consensus size: 79
1660951 AAAATAAAAT
** * * * *
1660961 CGGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
* *
1661026 CCCTTTGGAAATAA
66 CCCCTTGAAAATAA
** * * * *
1661040 TAGGGTTGGAGTATCCCCGATTATGGAAAATCAATATTTTTAGAAATAAAATCGAGGTTGGTGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGAT-GTTTTAGAAATAAAATCGAGGTTGGAGTA
1661105 T-CCCTTCGAAAATAA
65 TCCCCTT-GAAAATAA
* * * * * * * * *
1661120 TGAGTTTGAAGTATCTCCGATTATGAAAAATCGATGTTTTGGAAATAAAACCGCGGTTTGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
*
1661185 CCCCTCGAAAATAA
66 CCCCTTGAAAATAA
* ** * * * * * * *
1661199 CGGGGTTGGAGTATCACTAATTTTGAAAAGTCAATATTTTAGAAATAATATTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
*
1661264 CCCC-T-CAAA-AA
66 CCCCTTGAAAATAA
* * * * *
1661275 CGAGGTT-GAGTATCCCCGATTATGAAAAATCGAAGTTTTGGAAATAAAACCGAGGTTTGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
*
1661339 TCCCTTGAAAATAA
66 CCCCTTGAAAATAA
* * * * *
1661353 CGGGGTTGGAGTATCTCCGATTGTGAAAAAT-TATATTTTAGAAATAAAATC-AGGGTTGGAATA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGA-GGTTGGAGTA
*
1661416 TCCCCTT-AGAAATAG
65 TCCCCTTGA-AAATAA
* * * * ** *
1661431 CGGGGTTAGAGTATCCTCGATTATGAAAAATCAATGTTTTGGAAGCAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
*
1661496 CCCCTTGGAAATAA
66 CCCCTTGAAAATAA
* ** * *
1661510 CGGGATTGGAGTATCCTAGATTGTGAAAAATTGATGTTTTAGAAATAAAA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAA
1661560 ACATGAATGA
Statistics
Matches: 412, Mismatches: 96, Indels: 24
0.77 0.18 0.05
Matches are distributed among these distances:
75 46 0.11
76 9 0.02
77 8 0.02
78 69 0.17
79 214 0.52
80 66 0.16
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
CCCCTTGAAAATAA
Found at i:1661332 original size:154 final size:154
Alignment explanation
Indices: 1660964--1661559 Score: 606
Period size: 154 Copynumber: 3.8 Consensus size: 154
1660954 ATAAAATCGG
* ** * * ** *
1660964 GGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCCC
1 GGTTAGAGTATCCCCGATTATGAAAAATCGAAGTTTTGGAAATAAAACCGAGGTTGGAGTATCCC
* * ** * * *
1661029 TTTGGAAATAATAGGGTTGGAGTATCCCCGATTATGGAAAATCAATATTTTTAGAAATAAAATCG
66 CTTGAAAATAACGGGGTTGGAGTAT-CCCAATTGTGAAAAATCAATA-TTTTAGAAATAAAATCG
* * * *
1661094 AGGTTGGTGTATCCCTTCGAAAATAATGA
129 GGGTTGGAGTATCCCCTC--AAA-AACGA
* * * * *
1661123 -GTTTGAAGTATCTCCGATTATGAAAAATCGATGTTTTGGAAATAAAACCGCGGTTTGAGTATCC
1 GGTTAG-AGTATCCCCGATTATGAAAAATCGAAGTTTTGGAAATAAAACCGAGGTTGGAGTATCC
* * * * * *
1661187 CCTCGAAAATAACGGGGTTGGAGTATCACTAATTTTGAAAAGTCAATATTTTAGAAATAATATTG
65 CCTTGAAAATAACGGGGTTGGAGTATC-CCAATTGTGAAAAATCAATATTTTAGAAATAAAATCG
1661252 GGGTTGGAGTATCCCCTCAAAAACGA
129 GGGTTGGAGTATCCCCTCAAAAACGA
* *
1661278 GGTT-GAGTATCCCCGATTATGAAAAATCGAAGTTTTGGAAATAAAACCGAGGTTTGAGTATTCC
1 GGTTAGAGTATCCCCGATTATGAAAAATCGAAGTTTTGGAAATAAAACCGAGGTTGGAGTATCCC
* * *
1661342 CTTGAAAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAAT-TATATTTTAGAAATAAAATCAG
66 CTTGAAAATAACGGGGTTGGAGTATC-CCAATTGTGAAAAATCAATATTTTAGAAATAAAATCGG
* * *
1661406 GGTTGGAATATCCCCTTAGAAATAGCGG
130 GGTTGGAGTATCCCCTCA-AAA-A-CGA
* ** * *
1661434 GGTTAGAGTATCCTCGATTATGAAAAATC-AATGTTTTGGAAGCAAAATCGGGGTTGGAGTATCC
1 GGTTAGAGTATCCCCGATTATGAAAAATCGAA-GTTTTGGAAATAAAACCGAGGTTGGAGTATCC
* * * ** *
1661498 CCTTGGAAATAACGGGATTGGAGTATCCTAGATTGTGAAAAATTGATGTTTTAGAAATAAAA
65 CCTTGAAAATAACGGGGTTGGAGTATCCCA-ATTGTGAAAAATCAATATTTTAGAAATAAAA
1661560 ACATGAATGA
Statistics
Matches: 371, Mismatches: 56, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
153 34 0.09
154 94 0.25
155 6 0.02
156 15 0.04
157 86 0.23
158 51 0.14
159 85 0.23
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (154 bp):
GGTTAGAGTATCCCCGATTATGAAAAATCGAAGTTTTGGAAATAAAACCGAGGTTGGAGTATCCC
CTTGAAAATAACGGGGTTGGAGTATCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATCGGG
GTTGGAGTATCCCCTCAAAAACGA
Found at i:1661552 original size:311 final size:314
Alignment explanation
Indices: 1660964--1661557 Score: 747
Period size: 311 Copynumber: 1.9 Consensus size: 314
1660954 ATAAAATCGG
* * * ** *
1660964 GGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATGATGAAAAATCGAAGTTTTGGAAATAAAACCGAGGTTGGAGTATCCC
* * *
1661029 TTTGGAAATAATAGGGTTGGAGTATCCCCGATTATGGAAAATCAATATTTTTAGAAATAAAATCG
66 TTTGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTTAGAAATAAAATCG
** * * * *
1661094 AGGTTGGTGTATCCCTTCGAAAATAATGAGTTTGAAGTATCTCCGATTATGAAAAATCGATGTTT
131 AGGTTGGAATATCCCTTAGAAAATAAGGAGTTAGAAGTATCTCCGATTATGAAAAATCAATGTTT
* * * *
1661159 TGGAAATAAAACCGCGGTTTGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCACTAATTTTG
196 TGGAAACAAAACCGCGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCACTAATTGTG
*
1661224 AAAAGTCAATATTTTAGAAATAATATTGGGGTTGGAGTATCCCCTCAAAAACGA
261 AAAAATCAATATTTTAGAAATAATATTGGGGTTGGAGTATCCCCTCAAAAACGA
* *
1661278 GGTT-GAGTATCCCCGATTATGAAAAATCGAAGTTTTGGAAATAAAACCGAGGTTTGAGTATTCC
1 GGTTGGAGTATCCCCGATGATGAAAAATCGAAGTTTTGGAAATAAAACCGAGGTTGGAGTA-TCC
* * * *
1661342 C-TTGAAAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAAT-TATA-TTTTAGAAATAAAATC
65 CTTTGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTTAGAAATAAAATC
* *
1661404 -AGGGTTGGAATATCCCCTTAG-AAATAGCGGGGTTAG-AGTATC-CTCGATTATGAAAAATCAA
130 GA-GGTTGGAATAT-CCCTTAGAAAATA-AGGAGTTAGAAGTATCTC-CGATTATGAAAAATCAA
* * * * *
1661465 TGTTTTGGAAGCAAAATCGGGGTTGGAGTATCCCCTTGGAAATAACGGGATTGGAGTATC-CTAG
191 TGTTTTGGAAACAAAACCGCGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCACTA-
** *
1661529 ATTGTGAAAAATTGATGTTTTAGAAATAA
255 ATTGTGAAAAATCAATATTTTAGAAATAA
1661558 AAACATGAAT
Statistics
Matches: 238, Mismatches: 36, Indels: 15
0.82 0.12 0.05
Matches are distributed among these distances:
310 5 0.02
311 128 0.54
312 14 0.06
313 83 0.35
314 8 0.03
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (314 bp):
GGTTGGAGTATCCCCGATGATGAAAAATCGAAGTTTTGGAAATAAAACCGAGGTTGGAGTATCCC
TTTGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTTAGAAATAAAATCG
AGGTTGGAATATCCCTTAGAAAATAAGGAGTTAGAAGTATCTCCGATTATGAAAAATCAATGTTT
TGGAAACAAAACCGCGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCACTAATTGTG
AAAAATCAATATTTTAGAAATAATATTGGGGTTGGAGTATCCCCTCAAAAACGA
Found at i:1663920 original size:20 final size:20
Alignment explanation
Indices: 1663895--1663950 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
1663885 AAAACGCTTG
1663895 AATGTATCGATACATTGAGA
1 AATGTATCGATACATTGAGA
1663915 AATGTATCGATACATTGAGA
1 AATGTATCGATACATTGAGA
1663935 AATGTATCGATACATT
1 AATGTATCGATACATT
1663951 TGGGTTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGAGA
Found at i:1664031 original size:50 final size:51
Alignment explanation
Indices: 1663915--1664042 Score: 163
Period size: 51 Copynumber: 2.5 Consensus size: 51
1663905 TACATTGAGA
* *
1663915 AATGTATCGATACATTGAGAAATGTATCGATACATTTGGGTTAAAACCTAG
1 AATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTTAAAACCTAG
* * *
1663966 AACGTTTCGATACAATAAAAAATGTATCGATACATCTT-GG-TAAAAGCC-AG
1 AATGTATCGATACAATGAAAAATGTATCGATACAT-TTGGGTTAAAA-CCTAG
*
1664016 AATGTATCGATACAATGAAATATGTAT
1 AATGTATCGATACAATGAAAAATGTAT
1664043 TGGTACAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
50 30 0.45
51 34 0.52
52 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (51 bp):
AATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTTAAAACCTAG
Found at i:1664750 original size:34 final size:34
Alignment explanation
Indices: 1664700--1664835 Score: 123
Period size: 34 Copynumber: 3.8 Consensus size: 34
1664690 AATTAAATGT
*
1664700 GTCCTACCCTTTGAGGACAAAGGAAAAGGAGTAC
1 GTCCTACTCTTTGAGGACAAAGGAAAAGGAGTAC
*
1664734 GTCCTACTCTTCGAGGACACAA-GAAAAGAGAATGAAATGA-
1 GTCCTACTCTTTGAGGACA-AAGGAAAAG-G-A-G---T-AC
*
1664774 GTCCTACTCCTTGAGGACAAAGGAAAAAGGAGTAC
1 GTCCTACTCTTTGAGGACAAAGG-AAAAGGAGTAC
* **
1664809 ATCCTGGTCTTTGAGGACAAAGGAAAA
1 GTCCTACTCTTTGAGGACAAAGGAAAA
1664836 AAGGAAATAA
Statistics
Matches: 83, Mismatches: 8, Indels: 22
0.73 0.07 0.19
Matches are distributed among these distances:
34 28 0.34
35 23 0.28
36 1 0.01
37 1 0.01
38 1 0.01
39 3 0.04
40 20 0.24
41 6 0.07
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (34 bp):
GTCCTACTCTTTGAGGACAAAGGAAAAGGAGTAC
Found at i:1664760 original size:77 final size:75
Alignment explanation
Indices: 1664631--1664878 Score: 279
Period size: 77 Copynumber: 3.3 Consensus size: 75
1664621 GCATCTTGCT
* * * *
1664631 CTTTGAGGACAAAGGAAAAAGAGTGCGTCTTGCTCTTCGAGGACAAAGGAAAAGTGAGAAATTAA
1 CTTTGAGGACAAAGGAAAAGGAGTACGTCCTGCTCTTCGAGGACAAAGGAAAA--GAGAAATAAA
*
1664696 ATGTGTCCTACC
64 ATGAGTCCTACC
* *
1664708 CTTTGAGGACAAAGGAAAAGGAGTACGTCCTACTCTTCGAGGACACAA-GAAAAGAG-AATGAAA
1 CTTTGAGGACAAAGGAAAAGGAGTACGTCCTGCTCTTCGAGGACA-AAGGAAAAGAGAAATAAAA
1664771 TGAGTCCTACTC
65 TGAGTCCTAC-C
* * * *
1664783 C-TTGAGGACAAAGGAAAAAGGAGTACATCCTGGTCTTTGAGGACAAAGGAAAAAAGGAAATAAA
1 CTTTGAGGACAAAGG-AAAAGGAGTACGTCCTGCTCTTCGAGGACAAAGGAAAAGA-GAAATAAA
* * *
1664847 AT-ACGTCATGCT
64 ATGA-GTCCTACC
1664859 CTTTGAGGACAAAGGAAAAG
1 CTTTGAGGACAAAGGAAAAG
1664879 AAGAAAATTA
Statistics
Matches: 148, Mismatches: 15, Indels: 17
0.82 0.08 0.09
Matches are distributed among these distances:
74 30 0.20
75 37 0.25
76 8 0.05
77 71 0.48
78 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.19
Consensus pattern (75 bp):
CTTTGAGGACAAAGGAAAAGGAGTACGTCCTGCTCTTCGAGGACAAAGGAAAAGAGAAATAAAAT
GAGTCCTACC
Found at i:1664865 original size:42 final size:42
Alignment explanation
Indices: 1664816--1664931 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 42
1664806 TACATCCTGG
*
1664816 TCTTTGAGGACAAAGGAAAAAAGGAAATAAAATACGTCATGC
1 TCTTTGAGGACAAAGGAAAAAAGGAAATAAAATACGTCATAC
* * ** *
1664858 TCTTTGAGGACAAAGGAAAAGAAGAAAATTAAATGTGTCCTAC
1 TCTTTGAGGACAAAGGAAAA-AAGGAAATAAAATACGTCATAC
* *
1664901 TCTTTGAGGACAAAGGAGAAAATGAAATAAA
1 TCTTTGAGGACAAAGGAAAAAAGGAAATAAA
1664932 GTGCATCTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (42 bp):
TCTTTGAGGACAAAGGAAAAAAGGAAATAAAATACGTCATAC
Found at i:1665293 original size:181 final size:181
Alignment explanation
Indices: 1664942--1665619 Score: 734
Period size: 181 Copynumber: 3.7 Consensus size: 181
1664932 GTGCATCTTG
* * ** ** *
1664942 CTCTTTGGGGACTAGAAA-GTGCCACCAAA-TTGTATGGGCTTTGCAAGGAGAAAGCGTCTTGCT
1 CTCTTTGAGGACT-GAAAGGTGCCACCAAACTTGTGTGGGCTTTAAAAGGA-AAAGTATCCTGCT
* * * *
1665005 CTTTAAGAACT-AGAAGGTGCCACAAACTTGTGTAGGCTTTGAAAGG-AAA-GCGTCTTGCTCTT
64 CTTTAAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTCTT
* * *
1665067 T-AAGGACTGGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAGGCCCTA
128 TGAA-GACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTCCTA
* * *
1665121 TTCTTTGAGGACCGAAAGGTGCC-CCAAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTGCTC
1 CTCTTTGAGGACTGAAAGGTGCCACCAAACTTGTGTGGGCTTTAAAAGGAAAAG-TATCCTGCTC
* * *
1665185 TTTAAGGATTGAAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTGCTCTTTG
65 TTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTCTTTG
* *
1665250 AAGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGAAAGG-AAAGCGTCCTA
130 AAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-GTCCTA
* * *
1665302 CTCTTTGAGGACTGGAAGATGCCACC-AATTTGTGTGGGCTTTAAAAGGAAAAGTCAT-CTAGCT
1 CTCTTTGAGGACTGAAAGGTGCCACCAAACTTGTGTGGGCTTTAAAAGGAAAAGT-ATCCT-GCT
* * * *** *
1665365 CGTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAAATGT-TCTACTCTT
64 CTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCT-TGCTCTT
* * * * * *
1665429 CGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAATGTCTTG
128 TGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG--AAAAGGTCCTA
* * * *
1665485 CCCTTTAAGGACTGAAAGGTGCCA-CTAACTTGTGTGGGCTTTAAAAGGAAAAGATATCCTACTC
1 CTCTTTGAGGACTGAAAGGTGCCACCAAACTTGTGTGGGCTTTAAAAGGAAAAG-TATCCTGCTC
* **
1665549 CTCGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTT-CTCTTT
65 TTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT-CTTGCTCTTT
*
1665613 GAGGACT
129 GAAGACT
1665620 GAAAGCTTTA
Statistics
Matches: 425, Mismatches: 54, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
178 13 0.03
179 78 0.18
180 12 0.03
181 194 0.46
182 5 0.01
183 115 0.27
184 7 0.02
185 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (181 bp):
CTCTTTGAGGACTGAAAGGTGCCACCAAACTTGTGTGGGCTTTAAAAGGAAAAGTATCCTGCTCT
TTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTCTTTGA
AGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTCCTA
Found at i:1665620 original size:61 final size:60
Alignment explanation
Indices: 1664937--1665624 Score: 678
Period size: 61 Copynumber: 11.4 Consensus size: 60
1664927 ATAAAGTGCA
* * * **
1664937 TCTTGCTCTTTGGGGACTAGAAA-GTGCCACCAAATTGTATGGGCTTTGCAAGGAGAAA-GCG
1 TCTT-CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCG
* * * * *
1664998 TCTTGCTCTTTAAGAACT-AGAAGGTGCCACAAACTTGTGTAGGCTTTGAAAGG-AAA-GCG
1 TCTT-CTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
1665057 TCTTGCTCTTTAAGGACTGGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAGGC-
1 TCTT-CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * **
1665117 CCTAT-TCTTTGAGGACCGAAAGGTGCC-CCAAACTTGTGTGGGCTTTAAAAGGAAAAGATG
1 TCT-TCTCTTTGAGGACTGAAAGGTGCCACC-AACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * *
1665177 TCCTGCTCTTTAAGGATTGAAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 T-CTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
1665238 TCTTGCTCTTTGAAGACT-AGAAGGTGCCACCAACTTGTATGGGCTTTGAAAGG-AAA-GCG
1 TCTT-CTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * * *
1665297 TCCTACTCTTTGAGGACTGGAAGATGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGTCA
1 T-CTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * ***
1665358 TCTAGCTCGTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAAATG
1 TCT-TCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * ***
1665419 TTCTACTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAATG
1 -TCTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * ***
1665480 TCTTGCCCTTTAAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGATA
1 TCTT-CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
1665541 TCCTACTCCTCGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 T-CTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1665602 TCCTTCTCTTTGAGGACTGAAAG
1 T-CTTCTCTTTGAGGACTGAAAG
1665625 CTTTAAAAGG
Statistics
Matches: 526, Mismatches: 80, Indels: 42
0.81 0.12 0.06
Matches are distributed among these distances:
58 1 0.00
59 143 0.27
60 23 0.04
61 353 0.67
62 6 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (60 bp):
TCTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:1666562 original size:13 final size:13
Alignment explanation
Indices: 1666544--1666568 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1666534 TTCTTCATGT
1666544 ATCGATACATTGA
1 ATCGATACATTGA
1666557 ATCGATACATTG
1 ATCGATACATTG
1666569 TGCCATGTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATCGATACATTGA
Found at i:1666638 original size:20 final size:20
Alignment explanation
Indices: 1666613--1666650 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1666603 TACTACCAGT
1666613 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACATTTG
1666633 TTCATGTATCGATACATT
1 TTCATGTATCGATACATT
1666651 GTATCGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (20 bp):
TTCATGTATCGATACATTTG
Found at i:1666655 original size:13 final size:13
Alignment explanation
Indices: 1666637--1666661 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1666627 CATTTGTTCA
1666637 TGTATCGATACAT
1 TGTATCGATACAT
1666650 TGTATCGATACA
1 TGTATCGATACA
1666662 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1668860 original size:21 final size:21
Alignment explanation
Indices: 1668832--1668872 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1668822 TTGTTGTGAA
1668832 ATTTAAGAAATTTGA-GAAAG
1 ATTTAAGAAATTTGATGAAAG
1668852 ATTTGAAGAAATTTGATGAAA
1 ATTT-AAGAAATTTGATGAAA
1668873 AATTGTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTAAGAAATTTGATGAAAG
Found at i:1672915 original size:21 final size:20
Alignment explanation
Indices: 1672882--1672924 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
1672872 AAGTTTTTGT
* **
1672882 TTTTCCTTATTAATTCATTA
1 TTTTCATTATTAAGGCATTA
1672902 TTTTCATTAGTTAAGGCATTA
1 TTTTCATTA-TTAAGGCATTA
1672923 TT
1 TT
1672925 AGTATCTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTTCATTATTAAGGCATTA
Found at i:1675140 original size:13 final size:13
Alignment explanation
Indices: 1675122--1675153 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1675112 CAATTCTTCA
*
1675122 TGTATCGATATAT
1 TGTATCGATACAT
1675135 TGTATCGATACAT
1 TGTATCGATACAT
1675148 TGTATC
1 TGTATC
1675154 ATGTATCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1675144 original size:33 final size:33
Alignment explanation
Indices: 1675102--1675164 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
1675092 TTTGAGGTAA
1675102 TGTATCGATACAATTCT-TCATGTATCGATATAT
1 TGTATCGATAC-ATTCTATCATGTATCGATATAT
*
1675135 TGTATCGATACATTGTATCATGTATCGATA
1 TGTATCGATACATTCTATCATGTATCGATA
1675165 CAAATAGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTCTATCATGTATCGATATAT
Found at i:1676418 original size:17 final size:17
Alignment explanation
Indices: 1676397--1676456 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
1676387 TATTTTCTCT
* *
1676397 TTTTTTTTCTTTTTTATG
1 TTTTTTTT-GTTTTTAGG
1676415 TTTTTTTTGTTTTTAGG
1 TTTTTTTTGTTTTTAGG
* * *
1676432 -TTTTTTGGTTTTTTGT
1 TTTTTTTTGTTTTTAGG
1676448 TTTTTTTTG
1 TTTTTTTTG
1676457 AGAAAAAGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
16 13 0.37
17 14 0.40
18 8 0.23
ACGTcount: A:0.03, C:0.02, G:0.13, T:0.82
Consensus pattern (17 bp):
TTTTTTTTGTTTTTAGG
Found at i:1676427 original size:8 final size:8
Alignment explanation
Indices: 1676398--1676453 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
1676388 ATTTTCTCTT
*
1676398 TTTTTTTC
1 TTTTTTTG
1676406 TTTTTTATG
1 TTTTTT-TG
1676415 TTTTTTT-
1 TTTTTTTG
*
1676422 TGTTTTTAG
1 T-TTTTTTG
*
1676431 GTTTTTTG
1 TTTTTTTG
*
1676439 GTTTTTTG
1 TTTTTTTG
1676447 TTTTTTT
1 TTTTTTT
1676454 TTGAGAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
7 1 0.03
8 32 0.80
9 7 0.17
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (8 bp):
TTTTTTTG
Found at i:1688923 original size:79 final size:79
Alignment explanation
Indices: 1688820--1688991 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 79
1688810 GATAAAGACG
* * * * *
1688820 GGGTTAGAGTATCCCCTCAGAAATAATGAGGCTGGAGTATCCCCAATTATAGAAAATTGATGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGAGGCTGGAGTATCCCCAATTATAGAAAATCGATATTT
*
1688885 T-AGAAATAAGACC-
66 TGA-AAATAAAACCA
* * * * *
1688898 GAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCTAATTGTGGAAAATCGATATT
1 G-GGTTGGAGTATCCCCTCAAAAATAACGAGGCTGGAGTATCCCCAATTATAGAAAATCGATATT
*
1688963 TTGAAAATAAAATCA
65 TTGAAAATAAAACCA
1688978 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
1688992 TCGATGGTAG
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 76 0.96
80 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCAAAAATAACGAGGCTGGAGTATCCCCAATTATAGAAAATCGATATTT
TGAAAATAAAACCA
Found at i:1689150 original size:80 final size:78
Alignment explanation
Indices: 1689012--1689439 Score: 387
Period size: 79 Copynumber: 5.4 Consensus size: 78
1689002 ATAATTGGTG
* * * ** **
1689012 TTTTAAAAATAAAATCGGGGTTTTAGAGTATCCCTTCCGAAATAATAGGGTTAAAGTATCCTCGA
1 TTTTAAAAATAAAATCGAGG-TTT-GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCC-CGA
* * *
1689077 TTATGGAAAATCAATA
63 TTGTGAAAAATCGATA
1689093 TTTTTAAAAATAAAATC-AGGTTTGAAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCTGA
1 -TTTTAAAAATAAAATCGAGGTTTG-AGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCC-GA
*
1689157 TTGTGAAAAATTGATA
63 TTGTGAAAAATCGATA
** * * * *
1689173 TTTTGGAAATAAAATCGGGGTTTGAGTATCCCCTC-GAAAATAAAGGGGTTAGAGTATCCCTAAT
1 TTTTAAAAATAAAATCGAGGTTTGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCC-GAT
* *
1689237 TATGGAAAATCGATA
64 TGTGAAAAATCGATA
** * * * * *
1689252 TTTTGGAAATAAAATTGAGGTTAGAGTATCTCCTTAGAAATAAGGGGGTTGGAGTATCCCCGATT
1 TTTTAAAAATAAAATCGAGGTTTGAGTATCCCCTCAGAAATAACGGGGTTGGAGTAT-CCCGATT
* *
1689317 GTGAAAAATTGATG
65 GTGAAAAATCGATA
* * * * *
1689331 TTTTGAAAACAAAACCAAGGTTGGAGTATCCCCTCA-AAACTAACGGGGTTGGAGTATCTCCGAT
1 TTTTAAAAATAAAATCGAGGTTTGAGTATCCCCTCAGAAA-TAACGGGGTTGGAGTATC-CCGAT
*
1689395 TGTGAAAAATC-AGTG
64 TGTGAAAAATCGA-TA
* * *
1689410 TTTTAGAAATAAAATCGGGGTTGGAGTATC
1 TTTTAAAAATAAAATCGAGGTTTGAGTATC
1689440 TCTGATTATG
Statistics
Matches: 289, Mismatches: 48, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
78 6 0.02
79 209 0.72
80 56 0.19
81 2 0.01
82 16 0.06
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (78 bp):
TTTTAAAAATAAAATCGAGGTTTGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCGATTG
TGAAAAATCGATA
Found at i:1689326 original size:158 final size:157
Alignment explanation
Indices: 1688978--1689441 Score: 483
Period size: 158 Copynumber: 2.9 Consensus size: 157
1688968 AATAAAATCA
* * * * *
1688978 GGGTTGGAGTATCCTCGATGGT-AGATAATTGGTGTTTTAAAAATAAAATCGGGGTTTTAGAGTA
1 GGGTTGGAGTATCCCCGATTGTGA-AAAATTGATGTTTTGAAAATAAAATCGGGG-TTT-GAGTA
* * *
1689042 TCCCTTCCG-AAATAATA-GGGTTAAAGTAT-CCTCGATTATGGAAAATCAATATTTTTAAAAAT
63 TCCCCT-CGAAAATAA-AGGGGTTAGAGTATCCCT-GATTATGGAAAATC-ATA-TTTTAGAAAT
* * *
1689104 AAAA-TCAGGTTTGAAGTATCCCCTCAGAAATAACG
123 AAAATTGAGGTTAG-AGTATCTCCTCAGAAATAACG
* * *
1689139 GGGTTGGAGTATCCCTGATTGTGAAAAATTGATATTTTGGAAATAAAATCGGGGTTTGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGGGGTTTGAGTATCC
* *
1689204 CCTCGAAAATAAAGGGGTTAGAGTATCCCTAATTATGGAAAATCGATATTTTGGAAATAAAATTG
66 CCTCGAAAATAAAGGGGTTAGAGTATCCCTGATTATGGAAAATC-ATATTTTAGAAATAAAATTG
* *
1689269 AGGTTAGAGTATCTCCTTAGAAATAAGG
130 AGGTTAGAGTATCTCCTCAGAAATAACG
* * ** *
1689297 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAACAAAACCAAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGGGGTTTGAGTATCC
* * * * *
1689362 CCTC-AAAACTAACGGGGTTGGAGTATCTCC-GATTGTGAAAAATCAGTGTTTTAGAAATAAAAT
66 CCTCGAAAA-TAAAGGGGTTAGAGTATC-CCTGATTATGGAAAATCA-TATTTTAGAAATAAAAT
* * *
1689425 CGGGGTTGGAGTATCTC
128 TGAGGTTAGAGTATCTC
1689442 TGATTATGAA
Statistics
Matches: 258, Mismatches: 37, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
157 5 0.02
158 150 0.58
159 52 0.20
160 6 0.02
161 44 0.17
162 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.30
Consensus pattern (157 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGGGGTTTGAGTATCC
CCTCGAAAATAAAGGGGTTAGAGTATCCCTGATTATGGAAAATCATATTTTAGAAATAAAATTGA
GGTTAGAGTATCTCCTCAGAAATAACG
Found at i:1689464 original size:130 final size:130
Alignment explanation
Indices: 1689296--1689553 Score: 374
Period size: 130 Copynumber: 2.0 Consensus size: 130
1689286 TAGAAATAAG
* ** * *
1689296 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAACAAAACCAAGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATCAAAGTTTTGAAAACAAAACCAAGGATGGAGTATC
*
1689361 CCCTC-AAAACTAACGGGGTTGGAGTATCTCCGATTGTGAAAAATCAGTGTTTTAGAAATAAAAT
66 CCCTCGAAAA-TAACGGGGTTGGAGTATCTCCGATTGTGAAAAATCAGTATTTTAGAAATAAAAT
1689425 C
130 C
* * * * *
1689426 GGGGTTGGAGTATCTCTGATTATGAAAAATCAAAGTTTTGGAAGCAAAACCGAGGATGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATCAAAGTTTTGAAAACAAAACCAAGGATGGAGTATC
* * *
1689491 CCCTCGAAAATAATGGGGTTGGAGTATCTCCTATTGTGGAAAATCAGTATTTTAGAAATAAAA
66 CCCTCGAAAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAATCAGTATTTTAGAAATAAAA
1689554 ACATGAATGA
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 109 0.96
131 4 0.04
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (130 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATCAAAGTTTTGAAAACAAAACCAAGGATGGAGTATC
CCCTCGAAAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATC
Found at i:1689486 original size:51 final size:51
Alignment explanation
Indices: 1689380--1689490 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 51
1689370 CTAACGGGGT
* ** * * * *
1689380 TGGAGTATCTCCGATTGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGT
1 TGGAGTATCTCCGATTATGAAAAATCAAAGTTTTAGAAACAAAACCGAGGA
* * *
1689431 TGGAGTATCTCTGATTATGAAAAATCAAAGTTTTGGAAGCAAAACCGAGGA
1 TGGAGTATCTCCGATTATGAAAAATCAAAGTTTTAGAAACAAAACCGAGGA
1689482 TGGAGTATC
1 TGGAGTATC
1689491 CCCTCGAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (51 bp):
TGGAGTATCTCCGATTATGAAAAATCAAAGTTTTAGAAACAAAACCGAGGA
Found at i:1693043 original size:24 final size:24
Alignment explanation
Indices: 1692978--1693048 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 24
1692968 TTACTTACAA
*
1692978 ATATATTAAAAATAT-TTATTACT
1 ATATATTAAATATATATTATTACT
* *
1693001 ATTATTTTTAATATAATATT-TTACT
1 A-TATATTAAATAT-ATATTATTACT
1693026 ATATATTAAATATGATATATATT
1 ATATATTAAATAT-ATAT-TATT
1693049 TGTATATTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.03
24 23 0.62
25 9 0.24
26 4 0.11
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (24 bp):
ATATATTAAATATATATTATTACT
Found at i:1695160 original size:13 final size:13
Alignment explanation
Indices: 1695142--1695176 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1695132 CAATTTGTCC
1695142 ATGTATCGATACA
1 ATGTATCGATACA
*
1695155 ATGTATCGATACG
1 ATGTATCGATACA
1695168 ATGTATCGA
1 ATGTATCGA
1695177 CAAAAAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1697826 original size:19 final size:19
Alignment explanation
Indices: 1697791--1697842 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 19
1697781 CTATAGACCC
*
1697791 TAATTCATATCAAACAAACA
1 TAATTCA-ATCATACAAACA
1697811 TAATTCAATCATAC-AACA
1 TAATTCAATCATACAAACA
1697829 TAA--CAATCAT-CAAA
1 TAATTCAATCATACAAA
1697843 ATTCACTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.03
16 9 0.30
18 7 0.23
19 6 0.20
20 7 0.23
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (19 bp):
TAATTCAATCATACAAACA
Found at i:1703853 original size:13 final size:13
Alignment explanation
Indices: 1703835--1703865 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1703825 ACATTTCTTC
1703835 ATGTATCGATACA
1 ATGTATCGATACA
1703848 ATGTATCGATACA
1 ATGTATCGATACA
*
1703861 TTGTA
1 ATGTA
1703866 CCATATATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1703875 original size:33 final size:32
Alignment explanation
Indices: 1703815--1703881 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
1703805 GTTACAAGCT
*
1703815 ATGTATCGATACATTTCTTCATGTATCGATACA
1 ATGTATCGATACATTTC-TCATATATCGATACA
1703848 ATGTATCGATACATTGTAC-CATATATCGATACA
1 ATGTATCGATACATT-T-CTCATATATCGATACA
1703881 A
1 A
1703882 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (32 bp):
ATGTATCGATACATTTCTCATATATCGATACA
Found at i:1703940 original size:21 final size:20
Alignment explanation
Indices: 1703914--1703965 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1703904 CAGTTTCATT
**
1703914 TATCGATACAATTTGTCCATG
1 TATCGATACAA-TTGAACATG
1703935 TATCGATACAA-TGAACATG
1 TATCGATACAATTGAACATG
1703954 TATCGATACAAT
1 TATCGATACAAT
1703966 GTATCGATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 17 0.61
21 11 0.39
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
TATCGATACAATTGAACATG
Found at i:1703969 original size:13 final size:13
Alignment explanation
Indices: 1703951--1704010 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
1703941 TACAATGAAC
1703951 ATGTATCGATACA
1 ATGTATCGATACA
1703964 ATGTATCGATACA
1 ATGTATCGATACA
* *
1703977 A---AGC-A-GC-
1 ATGTATCGATACA
1703984 ATGTATCGATACA
1 ATGTATCGATACA
1703997 ATGTATCGATACA
1 ATGTATCGATACA
1704010 A
1 A
1704011 AGCAGCATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 1 0.03
10 4 0.11
11 1 0.03
12 1 0.03
13 28 0.76
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1703989 original size:20 final size:20
Alignment explanation
Indices: 1703964--1704029 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1703954 TATCGATACA
1703964 ATGTATCGATACAAAGCAGC
1 ATGTATCGATACAAAGCAGC
1703984 ATGTATCGAT----A-CA--
1 ATGTATCGATACAAAGCAGC
1703997 ATGTATCGATACAAAGCAGC
1 ATGTATCGATACAAAGCAGC
1704017 ATGTATCGATACA
1 ATGTATCGATACA
1704030 TCTGGGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 23 0.59
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (20 bp):
ATGTATCGATACAAAGCAGC
Found at i:1703992 original size:33 final size:33
Alignment explanation
Indices: 1703932--1704029 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
1703922 CAATTTGTCC
* *
1703932 ATGTATCGATACAATG-AACATGTATCGATACA
1 ATGTATCGATACAAAGCAGCATGTATCGATACA
1703964 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAGCAGCATGTATCGATACA
1703997 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAGCAGCATGTATCGATACA
1704030 TCTGGGTGTG
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 15 0.24
33 48 0.76
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAGCATGTATCGATACA
Found at i:1706793 original size:10 final size:10
Alignment explanation
Indices: 1706772--1706841 Score: 58
Period size: 10 Copynumber: 7.3 Consensus size: 10
1706762 TTAATTGATA
*
1706772 CATTACTATT
1 CATTACTGTT
*
1706782 CATTATTGTT
1 CATTACTGTT
*
1706792 CATCACTGTT
1 CATTACTGTT
1706802 C---A-TGTT
1 CATTACTGTT
1706808 ACATTACTGTT
1 -CATTACTGTT
*
1706819 CATTATTGTT
1 CATTACTGTT
*
1706829 CATCACTGTT
1 CATTACTGTT
1706839 CAT
1 CAT
1706842 GTATCGATCA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
6 4 0.08
7 2 0.04
10 38 0.79
11 4 0.08
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (10 bp):
CATTACTGTT
Found at i:1706813 original size:37 final size:37
Alignment explanation
Indices: 1706770--1706843 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
1706760 TTTTAATTGA
1706770 TACATTACTATTCATTATTGTTCATCACTGTTCATGT
1 TACATTACTATTCATTATTGTTCATCACTGTTCATGT
*
1706807 TACATTACTGTTCATTATTGTTCATCACTGTTCATGT
1 TACATTACTATTCATTATTGTTCATCACTGTTCATGT
1706844 ATCGATCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (37 bp):
TACATTACTATTCATTATTGTTCATCACTGTTCATGT
Found at i:1713994 original size:13 final size:13
Alignment explanation
Indices: 1713976--1714001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1713966 CAATTTTTTG
1713976 TGTATCGATACAT
1 TGTATCGATACAT
1713989 TGTATCGATACAT
1 TGTATCGATACAT
1714002 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1714013 original size:32 final size:33
Alignment explanation
Indices: 1713956--1714019 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1713946 TACAAGCCAA
**
1713956 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1713989 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1714020 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1714684 original size:18 final size:18
Alignment explanation
Indices: 1714661--1714699 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1714651 AATCAATATA
1714661 ATTTTAACAAATTCGTAC
1 ATTTTAACAAATTCGTAC
1714679 ATTTTAACAAATTCGTAC
1 ATTTTAACAAATTCGTAC
1714697 ATT
1 ATT
1714700 CTCCCCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (18 bp):
ATTTTAACAAATTCGTAC
Found at i:1716613 original size:13 final size:13
Alignment explanation
Indices: 1716595--1716632 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1716585 ATAATCCCCC
1716595 TGTATCGATACAG
1 TGTATCGATACAG
*
1716608 TGTATCGATACAT
1 TGTATCGATACAG
1716621 TGTATCGATACA
1 TGTATCGATACA
1716633 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1718734 original size:15 final size:15
Alignment explanation
Indices: 1718714--1718744 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1718704 ATTTCGTTTG
*
1718714 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1718729 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1718744 G
1 G
1718745 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1722272 original size:32 final size:33
Alignment explanation
Indices: 1722215--1722278 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1722205 TACAAGCCAA
** *
1722215 TGTATCGATACAATTTTTTGTGTATCGTTACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1722248 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1722279 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1729555 original size:69 final size:70
Alignment explanation
Indices: 1729461--1729615 Score: 208
Period size: 69 Copynumber: 2.2 Consensus size: 70
1729451 TAAAAAAAAC
1729461 TCCTAATTCAAAATCCCTCCCTAATCTCTCTATATTCTGA-TTTTCTC-AAAATCAAAACCAAAA
1 TCCTAA-TCAAAATCCCTCCCTAATCTCTCTATATTCTGACTTTTCTCAAAAATCAAAACC-AAA
1729524 ACCAAA-
64 ACCAAAT
* ** * *
1729530 TCCTTAATCAAAATCCTTCTGTAATCTTTCTATATTTTGACTTTTCTCAAAAATCAAAACCAAAA
1 TCC-TAATCAAAATCCCTCCCTAATCTCTCTATATTCTGACTTTTCTCAAAAATCAAAACCAAAA
1729595 CCAAAT
65 CCAAAT
*
1729601 TCCTATTCAAAATCC
1 TCCTAATCAAAATCC
1729616 AAATCCGAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
69 31 0.41
70 30 0.39
71 15 0.20
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.34
Consensus pattern (70 bp):
TCCTAATCAAAATCCCTCCCTAATCTCTCTATATTCTGACTTTTCTCAAAAATCAAAACCAAAAC
CAAAT
Found at i:1733806 original size:13 final size:13
Alignment explanation
Indices: 1733788--1733822 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
1733778 AGGTATCATG
1733788 GAAGGAAAAGGAA
1 GAAGGAAAAGGAA
1733801 GAAGGAAAAGGAA
1 GAAGGAAAAGGAA
1733814 GAAGGAAAA
1 GAAGGAAAA
1733823 AGCCTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGGAAAAGGAA
Found at i:1733807 original size:7 final size:7
Alignment explanation
Indices: 1733788--1733820 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
1733778 AGGTATCATG
1733788 GAAGGAA
1 GAAGGAA
1733795 -AAGGAA
1 GAAGGAA
1733801 GAAGGAA
1 GAAGGAA
1733808 -AAGGAA
1 GAAGGAA
1733814 GAAGGAA
1 GAAGGAA
1733821 AAAGCCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (7 bp):
GAAGGAA
Found at i:1737855 original size:2 final size:2
Alignment explanation
Indices: 1737848--1737878 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1737838 TATGCTCATG
1737848 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1737879 GTTCTCTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1738376 original size:13 final size:13
Alignment explanation
Indices: 1738344--1738384 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
1738334 TAATTTTAAT
1738344 TATAATAAAAAATA
1 TATAA-AAAAAATA
*
1738358 TGATAAAAATAATA
1 T-ATAAAAAAAATA
1738372 TATAAAAAAAATA
1 TATAAAAAAAATA
1738385 CAACGACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 11 0.46
14 9 0.38
15 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
TATAAAAAAAATA
Found at i:1738994 original size:13 final size:13
Alignment explanation
Indices: 1738976--1739025 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
1738966 ATTATAAATT
1738976 TTATTAAATTATA
1 TTATTAAATTATA
*
1738989 TTATTAAATTTTTA
1 TTATTAAA-TTATA
* *
1739003 TTAATAAATTAAA
1 TTATTAAATTATA
*
1739016 TTATTTAATT
1 TTATTAAATT
1739026 TAATTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATTAAATTATA
Found at i:1738996 original size:37 final size:37
Alignment explanation
Indices: 1738926--1738998 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
1738916 ATTTATATTT
* *
1738926 TAAATTATTAATTTTATTATTAATTTTAGTTAAATTA
1 TAAATTATAAATTTTATTATTAATATTAGTTAAATTA
1738963 TAAATTATAAATTTTATTAAATT-ATATTA-TTAAATT
1 TAAATTATAAATTTTATT--ATTAATATTAGTTAAATT
1738999 TTTATTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 24 0.75
38 5 0.16
39 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (37 bp):
TAAATTATAAATTTTATTATTAATATTAGTTAAATTA
Found at i:1739013 original size:22 final size:21
Alignment explanation
Indices: 1738962--1739013 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
1738952 TAGTTAAATT
1738962 ATAAATTATAAATTTTATTAA
1 ATAAATTATAAATTTTATTAA
*
1738983 ATTATATTATTAAATTTTTATT-A
1 A-TAAATTA-TAAA-TTTTATTAA
1739006 ATAAATTA
1 ATAAATTA
1739014 AATTATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 12 0.46
23 6 0.23
24 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAAATTATAAATTTTATTAA
Found at i:1739037 original size:27 final size:28
Alignment explanation
Indices: 1738955--1739038 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 28
1738945 TTAATTTTAG
1738955 TTAAATTA-TAAATTATAAATTTTATTAAA
1 TTAAATTATTAAATT-T-AATTTTATTAAA
* *
1738984 TTATATTATTAAATTT--TTATTAATAAA
1 TTAAATTATTAAATTTAATT-TTATTAAA
*
1739011 TTAAATTATTTAATTTAATTTT-TTAAA
1 TTAAATTATTAAATTTAATTTTATTAAA
1739038 T
1 T
1739039 AATTTTAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
26 2 0.04
27 26 0.57
28 2 0.04
29 10 0.22
30 6 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTAAATTATTAAATTTAATTTTATTAAA
Found at i:1740109 original size:17 final size:17
Alignment explanation
Indices: 1740087--1740121 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1740077 TTTTAATTTA
1740087 ACTTTTTAATCTTAAAT
1 ACTTTTTAATCTTAAAT
*
1740104 ACTTTTTAATCTTGAAT
1 ACTTTTTAATCTTAAAT
1740121 A
1 A
1740122 AAATGTCAAT
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:0.34, C:0.11, G:0.03, T:0.51
Consensus pattern (17 bp):
ACTTTTTAATCTTAAAT
Found at i:1740688 original size:22 final size:22
Alignment explanation
Indices: 1740663--1740718 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
1740653 ATAAAAATTT
*
1740663 TATTTTTATATTTATATTTAAA
1 TATTTTTATATTTAAATTTAAA
*
1740685 TATTTTTATAATTAAATTTAAA
1 TATTTTTATATTTAAATTTAAA
1740707 TAATTTTT-TATT
1 T-ATTTTTATATT
1740719 AATTAAGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATATTTAAATTTAAA
Found at i:1746693 original size:20 final size:20
Alignment explanation
Indices: 1746667--1746721 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1746657 CTGCCAGTTT
1746667 CATGTATCGATACATTTGAG
1 CATGTATCGATACATTTGAG
* *
1746687 TATGTATCGATACA-ATGAG
1 CATGTATCGATACATTTGAG
*
1746706 CATGCATCGATACATT
1 CATGTATCGATACATT
1746722 GAATCGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACATTTGAG
Found at i:1756743 original size:52 final size:52
Alignment explanation
Indices: 1756658--1756782 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
1756648 ATATGAAAAG
* *
1756658 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
** *
1756710 TTGCCTGCATGTATCGATATGTTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
1756762 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1756783 AAGATCACTG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:1756795 original size:52 final size:52
Alignment explanation
Indices: 1756687--1756802 Score: 162
Period size: 52 Copynumber: 2.2 Consensus size: 52
1756677 CATTTAATAG
*****
1756687 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATATGTTTTATAA
1 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATATCAAAGATAA
*
1756739 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATA-CAAAGATCAC
1 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATATCAAAGAT-AA
1756791 TGTATCGATACA
1 TGTATCGATACA
1756803 ATGTATCGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 2 0.04
52 55 0.96
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (52 bp):
TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATATCAAAGATAA
Found at i:1756809 original size:13 final size:13
Alignment explanation
Indices: 1756791--1756815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1756781 CAAAGATCAC
1756791 TGTATCGATACAA
1 TGTATCGATACAA
1756804 TGTATCGATACA
1 TGTATCGATACA
1756816 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1756893 original size:33 final size:33
Alignment explanation
Indices: 1756856--1756922 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1756846 AGTAGCTTAA
1756856 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1756889 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1756922 A
1 A
1756923 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1756896 original size:13 final size:13
Alignment explanation
Indices: 1756878--1756902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1756868 CAAAAAAATA
1756878 TGTATCGATACAT
1 TGTATCGATACAT
1756891 TGTATCGATACA
1 TGTATCGATACA
1756903 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1757970 original size:49 final size:49
Alignment explanation
Indices: 1757853--1758184 Score: 450
Period size: 49 Copynumber: 6.7 Consensus size: 49
1757843 AAAAGGATGT
* *
1757853 CAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1757905 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1757954 CAATGGGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1758003 CAATATGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1758051 CAATGTGCTGAGTCAAGGCCAGCTACATTGTACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1758100 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1758149 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1758185 GAAGGGTTGC
Statistics
Matches: 247, Mismatches: 32, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
48 41 0.17
49 169 0.68
51 1 0.00
52 36 0.15
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1758097 original size:97 final size:97
Alignment explanation
Indices: 1757853--1758178 Score: 463
Period size: 97 Copynumber: 3.3 Consensus size: 97
1757843 AAAAGGATGT
* *
1757853 CAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
1757918 CAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGGTG-AGGTGC
* * * *
1757954 CAATGGGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGTTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
1758019 GGCCAGCTATATTGGACTTAATGGTGAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGAGGTGC
* * *
1758051 CAATGTGCTGAGTCAAGGCCAGCTACATTGTACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * *
1758116 GGCCAGCTACATTGGACTTAAAGATAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGT-GAGGTGC
* * *
1758149 CAATATGCTGATTCAAGGCCAGCTATATTG
1 CAATGTGCTGAGTCAAGGCCAGCTACATTG
1758179 GGCTTAGAAG
Statistics
Matches: 204, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
97 87 0.43
98 80 0.39
101 37 0.18
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (97 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGAGGTGC
Found at i:1758129 original size:146 final size:146
Alignment explanation
Indices: 1757844--1758184 Score: 502
Period size: 146 Copynumber: 2.3 Consensus size: 146
1757834 AAGATGAGAA
* * * * * **
1757844 AAAGGATGTCAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-ATGG-TGAGGTGCCAAT
* * *
1757909 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGGGCTGAGTCAAGGCC
61 ATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGGGCTGAGTCAAGGCC
1757974 AGCTACATTGGACTTAAAGAT
126 AGCTACATTGGACTTAAAGAT
* *
1757995 AAAGGTGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAGGTGCCAATGTGCT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAGGTGCCAATATGCT
* *
1758060 GAGTCAAGGCCAGCTACATTGTACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTA
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGGGCTGAGTCAAGGCCAGCTA
1758125 CATTGGACTTAAAGAT
131 CATTGGACTTAAAGAT
*
1758141 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1758185 GAAGGGTTGC
Statistics
Matches: 174, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
146 132 0.76
147 4 0.02
148 1 0.01
150 32 0.18
151 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (146 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAGGTGCCAATATGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGGGCTGAGTCAAGGCCAGCTA
CATTGGACTTAAAGAT
Found at i:1758263 original size:33 final size:33
Alignment explanation
Indices: 1758177--1758346 Score: 269
Period size: 33 Copynumber: 5.2 Consensus size: 33
1758167 CCAGCTATAT
1758177 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
1758207 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1758239 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1758272 TGGGCTTT-GAAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AAGAAGGTTGCCACCGACTTGTG
*
1758305 TGGGCTATAGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTA-GAAGAAGGTTGCCACCGACTTGTG
1758339 TGGGCTTT
1 TGGGCTTT
1758347 GGGAAGGGAG
Statistics
Matches: 130, Mismatches: 3, Indels: 10
0.91 0.02 0.07
Matches are distributed among these distances:
30 7 0.05
31 4 0.03
32 29 0.22
33 59 0.45
34 30 0.23
35 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:1758340 original size:67 final size:66
Alignment explanation
Indices: 1758177--1758347 Score: 278
Period size: 67 Copynumber: 2.6 Consensus size: 66
1758167 CCAGCTATAT
* *
1758177 TGGGCT-TAGAAG--GGTTGCCACCGACTTGTGTGGGCTTT-AGAGAGGGTTGCCACCGACTTGT
1 TGGGCTATAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAGAAGGTTGCCACCGACTTGT
1758238 G
66 G
*
1758239 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAGAAGGTTGCCACCGACTTGT
1 TGGGCTATAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAGAAGGTTGCCACCGACTTGT
1758304 G
66 G
1758305 TGGGCTATAGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTG
1 TGGGCTATA-GAAGAAGGTTGCCACCGACTTGTGTGGGCTTTG
1758348 GGAAGGGAGA
Statistics
Matches: 101, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
62 6 0.06
63 6 0.06
65 26 0.26
66 30 0.30
67 33 0.33
ACGTcount: A:0.19, C:0.18, G:0.36, T:0.27
Consensus pattern (66 bp):
TGGGCTATAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAGAAGGTTGCCACCGACTTGT
G
Found at i:1758395 original size:34 final size:32
Alignment explanation
Indices: 1758357--1758794 Score: 395
Period size: 34 Copynumber: 13.9 Consensus size: 32
1758347 GGGAAGGGAG
1758357 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAA
1 AAAG-TGCCACGGAGTTGTGGACTTAAAA-GG-AA
* *
1758392 AAGAGTGCCACAGAGTTGTGGGCTTAAAAGG--
1 AA-AGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1758423 ---GTGCCACGGAGTTGTGGACTTAGAAGGAAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGG-AA
1758453 AAGAGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AA-AGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1758486 AACGAGTGCCACGGAGTTATGGGCTTAAAAGG--
1 AA--AGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1758518 ---GTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1758547 AAAGAATGCCACGGAGTTGTGGGCTTAAAAGG--
1 AAAG--TGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1758579 ---GTGCCACGAAGTTATGGACTTAGAAGGAAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGG-AA
*
1758609 AAGAGTGCCACGGAGTTGTGGGCTTAAAAGG--
1 AA-AGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1758640 ---GTGCCACGGAGTTGTGGACTTAGAAGGAAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGG-AA
* *
1758670 AAAATGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGACTTAAA-A-GGAA
*
1758704 AAAGTGCCACGGAGTTGTGGGCTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1758734 ---GTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGACTTAAA-A-GGAA
*
1758765 AAAGTGCCACGGAGTTGTGGGCTTAAAAGG
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGG
1758795 GTGTCACGGA
Statistics
Matches: 332, Mismatches: 33, Indels: 79
0.75 0.07 0.18
Matches are distributed among these distances:
27 118 0.36
28 1 0.00
29 2 0.01
32 3 0.01
33 28 0.08
34 153 0.46
35 25 0.08
36 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (32 bp):
AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:1758469 original size:61 final size:59
Alignment explanation
Indices: 1758362--1758906 Score: 334
Period size: 61 Copynumber: 8.9 Consensus size: 59
1758352 GGGAGAAAGA
* *
1758362 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTT-AAA--GAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
1758424 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAC
1 TGCCACGGAGTTGTGGACTTA-AA-GAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA-G-----
1758489 GAG
58 G-G
* * * *
1758492 TGCCACGGAGTTATGGGCTT-----AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG-----G
* * * *
1758551 AATGCCACGGAGTTGTGGGCTT-----AAAAGGGTGCCACGAAGTTATGGACTTAGAAGGAAAAA
1 --TGCCACGGAGTTGTGGACTTAAAGAAAAAGAGTGCCACGGAGTTGTGGACTT-------AAAA
*
1758611 GAG
57 GGG
* * * *
1758614 TGCCACGGAGTTGTGGGCTT-----AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAAA
1 TGCCACGGAGTTGTGGACTTAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG------G
* *
1758674 TGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAGA--AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
* *
1758735 TGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAGA--AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
* ** * * *
1758796 TGTCACGGAGTTGTGGGTTTTGAA-AAGAAG-GTGCCACGGAGTCGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGT-GGACTTAAAGAAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * * * *
1758855 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA-TGCCACTGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGAC-TTAAAGAAAAAGAGTGCCACGGAGTTGTGGACTT
1758907 TGAGAAGAGA
Statistics
Matches: 406, Mismatches: 38, Indels: 81
0.77 0.07 0.15
Matches are distributed among these distances:
54 4 0.01
55 1 0.00
58 19 0.05
59 32 0.08
60 41 0.10
61 226 0.56
62 29 0.07
63 1 0.00
67 30 0.07
68 23 0.06
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (59 bp):
TGCCACGGAGTTGTGGACTTAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:1758510 original size:95 final size:91
Alignment explanation
Indices: 1758357--1758853 Score: 441
Period size: 95 Copynumber: 5.4 Consensus size: 91
1758347 GGGAAGGGAG
*
1758357 AAAGA-TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAA-GG-AAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
*
1758421 GGGTGCCACGGAGTTGTGGACTTAGAAGGAA
64 GGGTGCCACGGAGTTGTGGGCTT-GAA--AA
*
1758452 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAACGAGTGCCACGGAGTTATGGGCTTAAAAG
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAA-GAGTGCCACGGAGTTGTGGGCTTAAAAG
*
1758517 GGTGCCACGGAGTTGTGGACTTAGAAGGAA
65 GGTGCCACGGAGTTGTGGGCTT-GAA--AA
* * * * *
1758547 AAAGAATGCCACGGAGTTGTGGGCTTAAAA-G----G-GTGCCACGAAGTTATGGACTTAGAAGG
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT------
*
1758606 AAAAAGAGTGCCACGGAGTTGTGGGCTT----A
60 -AAAAGGGTGCCACGGAGTTGTGGGCTTGAAAA
* * * * *
1758635 AAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAAATGCCACGGAGTTGTGGACTTAAAGAT
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAA-A-
*
1758700 GAAAAAAGTGCCACGGAGTTGTGGGCTT----A
64 G-----GGTGCCACGGAGTTGTGGGCTTGAAAA
* * *
1758729 AAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAG
1 AAAGAGTGCCACGGAGTTGTGGACTTAAA-AGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
* *
1758794 GGTGTCACGGAGTTGTGGGTTTTGAAAA
65 GGTGCCACGGAGTTGTGGG-CTTGAAAA
* *
1758822 GAAG-GTGCCACGGAGTCGTGGACTTTAAAAGG
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGG
1758854 GTGCCACTGA
Statistics
Matches: 347, Mismatches: 26, Indels: 61
0.80 0.06 0.14
Matches are distributed among these distances:
87 3 0.01
88 64 0.18
89 5 0.01
92 20 0.06
93 10 0.03
94 75 0.22
95 146 0.42
96 24 0.07
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (91 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG
GTGCCACGGAGTTGTGGGCTTGAAAA
Found at i:1758597 original size:122 final size:121
Alignment explanation
Indices: 1758451--1758696 Score: 420
Period size: 122 Copynumber: 2.0 Consensus size: 121
1758441 CTTAGAAGGA
* * *
1758451 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAACGAGTGCCACGGAGTTATGGGCTTAAAA
1 AAAAGAGTGCCACGAAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTAAAA
*
1758516 GGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAATGCCACGGAGTTGTGGGCTT
66 GGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA-AATGCCACGGAGTTGTGGACTT
* * *
1758573 AAAAGGGTGCCACGAAGTTATGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGAGTGCCACGAAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTAAAA
1758638 GGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAAATGCCACGGAGTTGTGGACTT
66 GGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAAATGCCACGGAGTTGTGGACTT
1758694 AAA
1 AAA
1758697 GATGAAAAAA
Statistics
Matches: 117, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
121 24 0.21
122 93 0.79
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (121 bp):
AAAAGAGTGCCACGAAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTAAAA
GGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAAATGCCACGGAGTTGTGGACTT
Found at i:1758713 original size:94 final size:93
Alignment explanation
Indices: 1758580--1758791 Score: 329
Period size: 94 Copynumber: 2.2 Consensus size: 93
1758570 CTTAAAAGGG
* *
1758580 TGCCACGAAGTTATGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCC
1 TGCCACGGAGTTGTGGACTTA-AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCC
1758645 ACGGAGTTGTGGACTTAGAAG-GAAAAAAA
65 ACGGAGTTGTGGACTTA-AAGAGAAAAAAA
1758674 TGCCACGGAGTTGTGGACTTAAAGATGAAAAA-AGTGCCACGGAGTTGTGGGCTTAAAAGGGTGC
1 TGCCACGGAGTTGTGGACTTAAAG--GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGC
*
1758738 CACGGAGTTGTGGACTTAAAGATGAAAAAAG
64 CACGGAGTTGTGGACTTAAAGA-GAAAAAAA
*
1758769 TGCCACGGAGTTGTGGGCTTAAA
1 TGCCACGGAGTTGTGGACTTAAA
1758792 AGGGTGTCAC
Statistics
Matches: 110, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
93 6 0.05
94 69 0.63
95 35 0.32
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (93 bp):
TGCCACGGAGTTGTGGACTTAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCA
CGGAGTTGTGGACTTAAAGAGAAAAAAA
Found at i:1758891 original size:32 final size:31
Alignment explanation
Indices: 1758814--1758940 Score: 147
Period size: 32 Copynumber: 4.2 Consensus size: 31
1758804 AGTTGTGGGT
*
1758814 TTTGAAAAGAAGG-TGCCACGGAGTCGTGGAC
1 TTTGAAAA-AAGGATGCCACTGAGTCGTGGAC
*
1758845 TTT---AAAAGGGTGCCACTGAGTCGTGGAC
1 TTTGAAAAAAGGATGCCACTGAGTCGTGGAC
1758873 TTTGAAGAAAAGGATGCCACTGAGTCGTGGAC
1 TTTGAA-AAAAGGATGCCACTGAGTCGTGGAC
* * *
1758905 TTTGAGAAGA-GATTGCCACTGAGTCGTGGGC
1 TTTGAAAAAAGGA-TGCCACTGAGTCGTGGAC
1758936 TTTGA
1 TTTGA
1758941 GAAGAGATTT
Statistics
Matches: 85, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
27 4 0.05
28 22 0.26
30 2 0.02
31 28 0.33
32 29 0.34
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (31 bp):
TTTGAAAAAAGGATGCCACTGAGTCGTGGAC
Found at i:1758925 original size:31 final size:31
Alignment explanation
Indices: 1758827--1758949 Score: 155
Period size: 31 Copynumber: 4.0 Consensus size: 31
1758817 GAAAAGAAGG
* **
1758827 TGCCACGGAGTCGTGGACTTT-A-AA-AGGG
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
1758855 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA-
1 TGCCACTGAGTCGTGGACTTTG-AGAAGA-GAT
1758887 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
1758918 TGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1758949 T
1 T
1758950 TGAAGAATTG
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
28 20 0.24
30 3 0.04
31 38 0.45
32 23 0.27
33 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:1759901 original size:16 final size:16
Alignment explanation
Indices: 1759876--1759921 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1759866 TGAAAAAGGG
*
1759876 TTTTTCCTTTTTT-TT
1 TTTTTTCTTTTTTGTT
1759891 TCTTTTTCTTTTTTGTT
1 T-TTTTTCTTTTTTGTT
*
1759908 TTGTTTCTTTTTTG
1 TTTTTTCTTTTTTG
1759922 GAAAAGAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 1 0.04
16 23 0.85
17 3 0.11
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.83
Consensus pattern (16 bp):
TTTTTTCTTTTTTGTT
Found at i:1762055 original size:19 final size:19
Alignment explanation
Indices: 1762012--1762099 Score: 98
Period size: 19 Copynumber: 4.9 Consensus size: 19
1762002 TTGCCAGTTT
*
1762012 CATGTATCGATACATTTGAG
1 CATGTATCGATACA-ATGAG
*
1762032 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
*
1762051 CATGTATCAATAC----A-
1 CATGTATCGATACAATGAG
1762065 -ATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
1762083 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1762100 TATCGATACA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
13 11 0.19
15 1 0.02
17 1 0.02
19 31 0.54
20 13 0.23
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:1762074 original size:32 final size:32
Alignment explanation
Indices: 1762033--1762110 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
1762023 ACATTTGAGT
1762033 ATGTATCGATACAATGAGCATGTATCAATACA
1 ATGTATCGATACAATGAGCATGTATCAATACA
*
1762065 ATGTATCGATACAATGAGCATGTATCGATACA
1 ATGTATCGATACAATGAGCATGTATCAATACA
1762097 ATGTATCGATACAA
1 ATGTATCGATACAA
1762111 AGCATAATGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAATGAGCATGTATCAATACA
Found at i:1762102 original size:13 final size:13
Alignment explanation
Indices: 1762084--1762110 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1762074 TACAATGAGC
1762084 ATGTATCGATACA
1 ATGTATCGATACA
1762097 ATGTATCGATACA
1 ATGTATCGATACA
1762110 A
1 A
1762111 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1764372 original size:19 final size:19
Alignment explanation
Indices: 1764341--1764384 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1764331 GTTTAGCTTA
*
1764341 TTTTTTCTATTTTCTCT-C
1 TTTTTTCTATTTTCCCTCC
*
1764359 TTTTTTCTTTTTTTCCCTCC
1 TTTTTTC-TATTTTCCCTCC
1764379 TTTTTT
1 TTTTTT
1764385 TCTCCACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 8 0.36
20 7 0.32
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTCTATTTTCCCTCC
Found at i:1766461 original size:60 final size:60
Alignment explanation
Indices: 1766397--1766702 Score: 252
Period size: 60 Copynumber: 5.2 Consensus size: 60
1766387 GGCAATTGAG
* *
1766397 GAAAGGCTTGACCGAAAATAATCAAGTGAGGTAAGATTTGA-TCGAGTATAGTCAAATAAA
1 GAAAGACTTGACCGAAAATAATCAAGCGAGGTAAGATTTGACT-GAGTATAGTCAAATAAA
* *** * *
1766457 GAAAGACTTGATCGAATGCAATTAAGCG-GG-GA-ATTTGACTGAGTATAGTCAAATAAA
1 GAAAGACTTGACCGAAAATAATCAAGCGAGGTAAGATTTGACTGAGTATAGTCAAATAAA
* * * * * *
1766514 GAAAGACTTAACCGAATATAGTCAAGCAAGGTAAGATTTGACTGAGTACAGTCAAATAAG
1 GAAAGACTTGACCGAAAATAATCAAGCGAGGTAAGATTTGACTGAGTATAGTCAAATAAA
* * * ** * *
1766574 GATAGTCTTGACC-AAATATAGTCAAAAGAGATAAGATTTGA-TCGAGTATAGTCAAATGAA
1 GAAAGACTTGACCGAAA-ATAATCAAGCGAGGTAAGATTTGACT-GAGTATAGTCAAATAAA
* * * ** * * *
1766634 GAAAGACTTGACCGAATACAGTCAAGAAAGG--A-ATTCGACTAAGTACAGTCAAATAAA
1 GAAAGACTTGACCGAAAATAATCAAGCGAGGTAAGATTTGACTGAGTATAGTCAAATAAA
*
1766691 GAAAGGCTTGAC
1 GAAAGACTTGAC
1766703 TAAATACAGT
Statistics
Matches: 197, Mismatches: 41, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
57 74 0.38
58 6 0.03
59 6 0.03
60 109 0.55
61 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (60 bp):
GAAAGACTTGACCGAAAATAATCAAGCGAGGTAAGATTTGACTGAGTATAGTCAAATAAA
Found at i:1766470 original size:30 final size:30
Alignment explanation
Indices: 1766429--1766658 Score: 130
Period size: 30 Copynumber: 7.8 Consensus size: 30
1766419 CAAGTGAGGT
* *
1766429 AAGATTTGATCGAGTATAGTCAAATAAAGA
1 AAGACTTGACCGAGTATAGTCAAATAAAGA
* * *
1766459 AAGACTTGATCGA--AT-G-C-AATTAAGCG
1 AAGACTTGACCGAGTATAGTCAAATAAAG-A
** * *
1766485 GGGAATTTGACTGAGTATAGTCAAATAAAGA
1 AAGACT-TGACCGAGTATAGTCAAATAAAGA
* * ** * *
1766516 AAGACTTAACCGAATATAGTCAAGCAAGGT
1 AAGACTTGACCGAGTATAGTCAAATAAAGA
* * * *
1766546 AAGATTTGACTGAGTACAGTCAAATAAGGA
1 AAGACTTGACCGAGTATAGTCAAATAAAGA
* * * * *
1766576 TAGTCTTGACCAAATATAGTCAAA-AGAGA
1 AAGACTTGACCGAGTATAGTCAAATAAAGA
* * *
1766605 TAAGATTTGATCGAGTATAGTCAAATGAAGA
1 -AAGACTTGACCGAGTATAGTCAAATAAAGA
* *
1766636 AAGACTTGACCGAATACAGTCAA
1 AAGACTTGACCGAGTATAGTCAA
1766659 GAAAGGAATT
Statistics
Matches: 142, Mismatches: 49, Indels: 18
0.68 0.23 0.09
Matches are distributed among these distances:
25 6 0.04
26 4 0.03
27 6 0.04
28 2 0.01
29 5 0.04
30 106 0.75
31 7 0.05
32 6 0.04
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (30 bp):
AAGACTTGACCGAGTATAGTCAAATAAAGA
Done.