Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold166
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: 2719372
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17868 characters in sequence are not A, C, G, or T
File 10 of 18
Found at i:1717370 original size:13 final size:13
Alignment explanation
Indices: 1717352--1717377 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1717342 AATTTTTTTG
1717352 TGTATCGATACAT
1 TGTATCGATACAT
1717365 TGTATCGATACAT
1 TGTATCGATACAT
1717378 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:1719968 original size:13 final size:13
Alignment explanation
Indices: 1719950--1719986 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1719940 TGTATCGATA
1719950 GTATCGATACAGT
1 GTATCGATACAGT
*
1719963 GTATCGATACATT
1 GTATCGATACAGT
1719976 GTATCGATACA
1 GTATCGATACA
1719987 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (13 bp):
GTATCGATACAGT
Found at i:1722087 original size:15 final size:15
Alignment explanation
Indices: 1722067--1722097 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1722057 ATTTCGTTTG
*
1722067 GAGCTTCGTCATTTT
1 GAGCTTCCTCATTTT
1722082 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1722097 G
1 G
1722098 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:0.19, T:0.45
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1723929 original size:21 final size:21
Alignment explanation
Indices: 1723900--1723944 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1723890 AAGTTTTTAT
*
1723900 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1723920 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1723942 TTT
1 TTT
1723945 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1726169 original size:21 final size:21
Alignment explanation
Indices: 1726144--1726217 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
1726134 TACAAGCCAA
1726144 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAATTTTTTTG
1726165 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAATTTTTTTG
**
1726186 TGTATCGATAC-A-TACTTTG
1 TGTATCGATACAATTTTTTTG
1726205 TGTATCGATACAA
1 TGTATCGATACAA
1726218 GTTTGGCTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
19 16 0.32
20 2 0.04
21 32 0.64
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (21 bp):
TGTATCGATACAATTTTTTTG
Found at i:1726315 original size:20 final size:20
Alignment explanation
Indices: 1726264--1726317 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1726254 ATCTTTTTGT
*
1726264 TGTATCGATACATTGCAACA
1 TGTATCGATACTTTGCAACA
*
1726284 TGTATCGATACTTTG-AATTA
1 TGTATCGATACTTTGCAA-CA
1726304 TGTATCGATACTTT
1 TGTATCGATACTTT
1726318 TAAGGGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (20 bp):
TGTATCGATACTTTGCAACA
Found at i:1732345 original size:28 final size:28
Alignment explanation
Indices: 1732305--1732804 Score: 478
Period size: 28 Copynumber: 17.5 Consensus size: 28
1732295 CGTTCATCTC
1732305 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1732333 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* ** ** *
1732361 TTCAAAGGCCATGAGTTGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* * * *
1732391 TTCAAAACCCACAAGTCAATGACATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * ** *
1732419 TTCAAAAGGCCACGAGTTGGTGGCAACTCTT
1 TTC-AAAGCCCACAAGTCAGTGGC-AC-CCT
* * * *
1732450 TTCAAAACCCACAAGTCAGTGACATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
***
1732478 TTCAAAGCCCACAAGTCAGTGGCATTGT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
1732506 TTCAAAGCCCACGAGTCGGTGGCAACTTTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
*
1732536 TTCAAAGCCCACAAGTCAGCGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1732564 TTCAAAGCCCACAAGTGAATGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
**
1732592 TTCAAAGCCCACAAGTCAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1732620 TTCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* * *
1732650 TTCAAAGCCCATAAGTCAGTAGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1732678 TTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
**
1732707 TTCAAAGCCCACAAACCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
1732735 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1732763 TTCAAAGCCCACAAGTCGGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
1732792 TTCAAAGCCCACA
1 TTCAAAGCCCACA
1732805 TGAGTCGGTG
Statistics
Matches: 380, Mismatches: 81, Indels: 21
0.79 0.17 0.04
Matches are distributed among these distances:
28 241 0.63
29 61 0.16
30 73 0.19
31 5 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1732403 original size:58 final size:58
Alignment explanation
Indices: 1732332--1732489 Score: 253
Period size: 59 Copynumber: 2.7 Consensus size: 58
1732322 AGTGGCACCC
* * *
1732332 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGGCCATGAGTTGGTGGCAACTCT
1 TTTCAAAACCCACAAGTCAGTGACATCCTTTCAAAGGCCACGAGTTGGTGGCAACTCT
*
1732390 TTTCAAAACCCACAAGTCAATGACATCCTTTCAAAAGGCCACGAGTTGGTGGCAACTCT
1 TTTCAAAACCCACAAGTCAGTGACATCCTTTC-AAAGGCCACGAGTTGGTGGCAACTCT
* *
1732449 TTTCAAAACCCACAAGTCAGTGACATCTTTTCAAAGCCCAC
1 TTTCAAAACCCACAAGTCAGTGACATCCTTTCAAAGGCCAC
1732490 AAGTCAGTGG
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
58 37 0.40
59 55 0.60
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (58 bp):
TTTCAAAACCCACAAGTCAGTGACATCCTTTCAAAGGCCACGAGTTGGTGGCAACTCT
Found at i:1732547 original size:86 final size:84
Alignment explanation
Indices: 1732299--1732836 Score: 538
Period size: 86 Copynumber: 6.2 Consensus size: 84
1732289 CTAGAACGTT
* *
1732299 CATCTCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
* ** **
1732364 AAAGGCCATGAGTTGGTGG
66 AAAGCCCACAAGTCAGTGG
* * * * * * **
1732383 CAACTCTTTTCAAAACCCACAAGTCAATGACATCCTTTCAAAAGGCCACGAGTTGGTGGCAACTC
1 C-A-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGC-A-TC
* *
1732448 TTTTCAAAACCCACAAGTCAGTGA
61 TTTTCAAAGCCCACAAGTCAGTGG
*** * * *
1732472 CATCTTTTCAAAGCCCACAAGTCAGTGGCATTGTTTCAAAGCCCACGAGTCGGTGGCAACTTTTT
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-A-TCTTT
*
1732537 TCAAAGCCCACAAGTCAGCGG
64 TCAAAGCCCACAAGTCAGTGG
* * * * * *
1732558 CACCCTTTCAAAGCCCACAAGTGAATGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAT-TCTTT
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCT-TTT
* *
1732622 CAAAGCCCACGAGTCGGTGG
65 CAAAGCCCACAAGTCAGTGG
* * * *
1732642 CAACTCTTTTCAAAGCCCATAAGTCAGTAGTACCCTTTCAAAGCCCACAAGTCAATGGCACTCTT
1 C-A-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTT
**
1732707 TTCAAAGCCCACAAACCAGTGG
63 TTCAAAGCCCACAAGTCAGTGG
* * *
1732729 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCGGTGGCATTCTTTT
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTT
* *
1732794 CAAAGCCCACATGAGTCGGTGC
65 CAAAGCCCACA--AGTCAGTGG
1732816 CAATTCTTTTCAAAGCCCACA
1 C-A-TCTTTTCAAAGCCCACA
1732837 CAAGTTAGTG
Statistics
Matches: 373, Mismatches: 67, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
83 1 0.00
84 23 0.06
85 69 0.18
86 169 0.45
87 73 0.20
88 4 0.01
89 34 0.09
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (84 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
AAAGCCCACAAGTCAGTGG
Found at i:1732590 original size:114 final size:113
Alignment explanation
Indices: 1732305--1732836 Score: 555
Period size: 114 Copynumber: 4.6 Consensus size: 113
1732295 CGTTCATCTC
* * *
1732305 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCTTTTCAAAGCC
** ** * * * *
1732370 CATGAGTTGGTGGCAACTCTTTTCAAAACCCACAAGTCAATGACA-TCCT
66 CACAAGTCAGTGGC-ATTC-TTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * ** * * * *
1732419 TTCAAAAGGCCACGAGTTGGTGGCAACTCTTTTCAAAACCCACAAGTCAGTGACATCTTTTCAAA
1 TTC-AAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAATGGCATCTTTTCAAA
* * * **
1732484 GCCCACAAGTCAGTGGCATTGTTTCAAAGCCCACGAGTCGGTGGCAACTTTT
63 GCCCACAAGTCAGTGGCATTCTTTCAAAGCCCACAAGTCAGTGGC-ACTCCT
* *
1732536 TTCAAAGCCCACAAGTCAGCGGCACCCTTTCAAAGCCCACAAGTGAATGGCATCTTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCTTTTCAAAGCC
* * *
1732601 CACAAGTCAGTGGCATTCTTTCAAAGCCCACGAGTCGGTGGCAACTCTT
66 CACAAGTCAGTGGCATTCTTTCAAAGCCCACAAGTCAGTGGC-ACTCCT
* * *
1732650 TTCAAAGCCCATAAGTCAGTAGTACCCTTTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCA-TCTTTTCAAAGC
** **
1732715 CCACAAACCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
65 CCACAAGTCAGTGGCATTCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * ** *
1732763 TTCAAAGCCCACAAGTCGGTGGCATTCTTTTCAAAGCCCACATGAGTCGGTGCCAATTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACA--AGTCAATGGC-A-TCTTTTCA
1732828 AAGCCCACA
61 AAGCCCACA
1732837 CAAGTTAGTG
Statistics
Matches: 352, Mismatches: 56, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
113 22 0.06
114 149 0.42
115 86 0.24
116 27 0.08
117 68 0.19
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (113 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCTTTTCAAAGCC
CACAAGTCAGTGGCATTCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
Found at i:1732985 original size:45 final size:46
Alignment explanation
Indices: 1732918--1733035 Score: 121
Period size: 49 Copynumber: 2.5 Consensus size: 46
1732908 TCTGACATCG
* *
1732918 CTAGCATTGAATCAGCATATTGGCAGCTTT-ATTAGCCCAATGTCA
1 CTAGCCTTGAATCAGCACATTGGCAGCTTTCATTAGCCCAATGTCA
** * *
1732963 CTAGCCTTGAATCAGCACATTGGTCCATTTTTCCCTTAGCCCAATGTCG
1 CTAGCCTTGAATCAGCACATTGG--CAGCTTT-CATTAGCCCAATGTCA
* **
1733012 CTGGCCTTGAATTGGCACATTGGC
1 CTAGCCTTGAATCAGCACATTGGC
1733036 GCTCCTCTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
45 21 0.35
47 6 0.10
49 33 0.55
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.31
Consensus pattern (46 bp):
CTAGCCTTGAATCAGCACATTGGCAGCTTTCATTAGCCCAATGTCA
Found at i:1740383 original size:19 final size:19
Alignment explanation
Indices: 1740359--1740408 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1740349 AGCGATACAT
1740359 TGTATCGATACAACACTGA
1 TGTATCGATACAACACTGA
1740378 TGTATCGATACAACACTGA
1 TGTATCGATACAACACTGA
*
1740397 TGTACCGATACA
1 TGTATCGATACA
1740409 TTTACTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (19 bp):
TGTATCGATACAACACTGA
Found at i:1741829 original size:48 final size:48
Alignment explanation
Indices: 1741747--1741969 Score: 197
Period size: 48 Copynumber: 4.9 Consensus size: 48
1741737 TATTGGGCTT
* *
1741747 GTGCCAATGTGCTGATTCAAGGGCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAG
* * * * *
1741795 GTGCTAATATGCTGATTCAAGGCCAGTGATATTGGGCTT-------A-
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAG
* *
1741835 -TACCAATGTGCTGATTCAAGGCCAAG-GACATTGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCC-AGCGACATTGGACTTAAAGACAAG
* * *
1741882 GTGCTAATGTGTTGATTCAAGGCCAGCAACATTGGAC-T---GA-AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAG
* *
1741925 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
1741970 AGATGTCACC
Statistics
Matches: 138, Mismatches: 21, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
39 30 0.22
40 2 0.01
41 1 0.01
43 35 0.25
44 3 0.02
46 1 0.01
47 3 0.02
48 63 0.46
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (48 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAG
Found at i:1741865 original size:87 final size:87
Alignment explanation
Indices: 1741708--1741969 Score: 319
Period size: 87 Copynumber: 3.0 Consensus size: 87
1741698 AAAAATAAAA
* * * * *
1741708 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGGCAG
1 GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATACCAATGTGCTGATTCAAGGCCAG
1741773 CGACATTGGTCTTAAAGACAAG
66 CGACATTGGTCTTAAAGACAAG
*
1741795 GTGCTAATATGCTGATTCAAGGCCAGTGATATTGGGCTTATACCAATGTGCTGATTCAAGGCCAA
1 GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATACCAATGTGCTGATTCAAGGCC-A
1741860 G-GACATTGGTCTTAAAGACAAG
65 GCGACATTGGTCTTAAAGACAAG
* * * * * * * *
1741882 GTGCTAATGTGTTGATTCAAGGCCAGCAACATTGGACTGAAAGGTGCCAATATGCTGATTCAAGG
1 GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCT--TA--TACCAATGTGCTGATTCAAGG
* *
1741947 CCAGCGATATTGGACTTAGAAGA
62 CCAGCGACATTGGTCTTA-AAGA
1741970 AGATGTCACC
Statistics
Matches: 151, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
87 110 0.73
88 2 0.01
89 1 0.01
90 2 0.01
91 32 0.21
92 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (87 bp):
GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATACCAATGTGCTGATTCAAGGCCAG
CGACATTGGTCTTAAAGACAAG
Found at i:1741927 original size:43 final size:43
Alignment explanation
Indices: 1741708--1741962 Score: 132
Period size: 39 Copynumber: 5.9 Consensus size: 43
1741698 AAAAATAAAA
* * * * *
1741708 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGGCT----T
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTGAAAG
* * * *
1741747 GTGCCAATGTGCTGATTCAAGGGCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGAC-T---GA-AAG
* ** * * *
1741795 GTGCTAATATGCTGATTCAAGGCCAGTGATATTGGGCT--TA-
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTGAAAG
* * * *
1741835 -TACCAATGTGCTGATTCAAGGCCAAG-GACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCC-AGCAACATTGGAC-T---GA-AAG
* * *
1741882 GTGCTAATGTGTTGATTCAAGGCCAGCAACATTGGACTGAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTGAAAG
* *
1741925 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACT
1741963 TAGAAGAAGA
Statistics
Matches: 167, Mismatches: 29, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
39 60 0.36
40 4 0.02
41 1 0.01
43 36 0.22
44 2 0.01
46 1 0.01
47 4 0.02
48 59 0.35
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (43 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTGAAAG
Found at i:1742052 original size:28 final size:28
Alignment explanation
Indices: 1741986--1742330 Score: 391
Period size: 28 Copynumber: 12.4 Consensus size: 28
1741976 CACCAACTCG
** *
1741986 TGTGGGCTTTTGAAAGGGTTG-CACCAATT
1 TGTGGGCTTTTG-AA-GGTTGCCACTGACT
*
1742015 TGTGTGCTTTTGAAGGTTGCCACT-ACCT
1 TGTGGGCTTTTGAAGGTTGCCACTGA-CT
*
1742043 TATGGGC-TTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
1742070 TGTGGGCTTTTGAGGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
1742098 TGTGGGC-TTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
1742125 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
1742153 GGTGGGCTTTTGAGGGTCGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
1742181 TGTGGGCTTTTAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
1742209 TGTGGGCTTTTGAAGGCTGCCACTAACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
1742237 TCTGGGC-TTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
*
1742265 TGTGGGC-TTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
* ** *
1742293 TATGGGCTTTAAAAGGTTGCCATTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
1742321 TGTGGGCTTT
1 TGTGGGCTTT
1742331 GAAAGGTGAG
Statistics
Matches: 276, Mismatches: 31, Indels: 19
0.85 0.10 0.06
Matches are distributed among these distances:
27 64 0.23
28 195 0.71
29 17 0.06
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:1742725 original size:37 final size:37
Alignment explanation
Indices: 1742684--1742765 Score: 164
Period size: 37 Copynumber: 2.2 Consensus size: 37
1742674 GATGAAGCAT
1742684 AAATGCATCATGCAAAATGAAATGTTATGAATGTCAC
1 AAATGCATCATGCAAAATGAAATGTTATGAATGTCAC
1742721 AAATGCATCATGCAAAATGAAATGTTATGAATGTCAC
1 AAATGCATCATGCAAAATGAAATGTTATGAATGTCAC
1742758 AAATGCAT
1 AAATGCAT
1742766 GATTGTGGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (37 bp):
AAATGCATCATGCAAAATGAAATGTTATGAATGTCAC
Found at i:1743811 original size:4 final size:4
Alignment explanation
Indices: 1743791--1743842 Score: 51
Period size: 4 Copynumber: 14.2 Consensus size: 4
1743781 CCGGACCCTT
*
1743791 TTTG -TTG TTT- TTT- TTTG TTTG TTTG -TT- TTTG TTTT TTTG TTTG
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG
*
1743834 TTTT TTTG T
1 TTTG TTTG T
1743843 GGAGGACGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
3 13 0.32
4 27 0.68
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (4 bp):
TTTG
Found at i:1743812 original size:14 final size:12
Alignment explanation
Indices: 1743789--1743840 Score: 68
Period size: 13 Copynumber: 4.1 Consensus size: 12
1743779 ATCCGGACCC
1743789 TTTTTGTTGTTTT
1 TTTTTGTT-TTTT
1743802 TTTTTGTTTGTTT
1 TTTTTGTTT-TTT
1743815 GTTTTTGTTTTTT
1 -TTTTTGTTTTTT
*
1743828 TGTTTGTTTTTT
1 TTTTTGTTTTTT
1743840 T
1 T
1743841 GTGGAGGACG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
12 13 0.36
13 14 0.39
14 9 0.25
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (12 bp):
TTTTTGTTTTTT
Found at i:1743818 original size:18 final size:17
Alignment explanation
Indices: 1743789--1743840 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
1743779 ATCCGGACCC
1743789 TTTTTG-TTGTTTTTTT
1 TTTTTGTTTGTTTTTTT
1743805 TTGTTTGTTTGTTTTTGTT
1 TT-TTTGTTTGTTTTT-TT
1743824 TTTTTGTTTGTTTTTTT
1 TTTTTGTTTGTTTTTTT
1743841 GTGGAGGACG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
16 2 0.06
17 6 0.18
18 21 0.64
19 4 0.12
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTTTGTTTGTTTTTTT
Found at i:1759691 original size:454 final size:454
Alignment explanation
Indices: 1758843--1759749 Score: 1537
Period size: 454 Copynumber: 2.0 Consensus size: 454
1758833 CGGCGAATTC
*
1758843 GTCCCCACATATGTCCAATCCTCCACCTACTAGCTAGGCCTTAAGTTGTCGAAAATTGGCCCGGA
1 GTCCCCACATATGTCCAATCCTCCACCTACTAGCTAGGCCTCAAGTTGTCGAAAATTGGCCCGGA
* * *
1758908 TAAAATGAGCAGTCTACATGAATCAACACAGAAATTAAAAAATCATTGTAGAATGTCAATCCTCT
66 CAAAATGAGCAGTCCACATGAATCAACACAGAAATTAAAAAATCATTGCAGAATGTCAATCCTCT
* * *
1758973 AAGACACTATAAGGGAAGTGGAATAGCTCTTGCGTTGACGATACCGTTCGTTTCATCCTTGTTTG
131 AAGACACTATAAGGAAAGTGGAATAGCTCCTGCGTTGACAATACCGTTCGTTTCATCCTTGTTTG
* * *
1759038 ATACTTGGAAAAGATTACAACCTCTTTAGTGACCTCTAAAAAGGTATGGCTCTACCAAGGTGGTT
196 ATACTTGAAAAAGATTACAACCTCTTTAATGACCTCTAAAAAGGTACGGCTCTACCAAGGTGGTT
1759103 AGTAAGGTCCATTAAATGAAGTTAAGGTCGAACTTCTAAATAGGTTCTCGAATTACTCTTCGAGT
261 AGTAAGGTCCATTAAATGAAGTTAAGGTCGAACTTCTAAATAGGTTCTCGAATTACTCTTCGAGT
* *
1759168 TTGAAAAGAACTAACAAGGTACCCTAATCCTTACCCATCATGGGTTTATGTCGGAAAGAGTTTAA
326 TTGAAAAGAACTAACAAGGTACCCTAATCCTTACCCATCATGAGTTTATGTCGGAAAGAGTTCAA
* *
1759233 TTCGAGTAAGAGTATCTTCTATGGCCGTAACGAGGCTAACACCTCGGGCAGGCATAGGAATTTT
391 TTCGAGTAAGAGTATCTTCTATGCCCGTAACGAGGCTAACACCTCAGGCAGGCATAGGAATTTT
* *
1759297 GTCCCCACATATGTCCAATCCTCCACTTACTAGCTAGGCCTCAAGTTGTTGAAAATTGGCCCGGA
1 GTCCCCACATATGTCCAATCCTCCACCTACTAGCTAGGCCTCAAGTTGTCGAAAATTGGCCCGGA
** * * *
1759362 CAAAATGAGGTGTCCACATGAATCAACACAGTAATTAAAAAATCTTTGCAGAATGTGAATCCTCT
66 CAAAATGAGCAGTCCACATGAATCAACACAGAAATTAAAAAATCATTGCAGAATGTCAATCCTCT
* * *
1759427 AAGATACTATAAGGAAAGTGGAATATCTCCTGCGTTGACAATATCGTTCGTTTCATCCTTGTTTG
131 AAGACACTATAAGGAAAGTGGAATAGCTCCTGCGTTGACAATACCGTTCGTTTCATCCTTGTTTG
1759492 ATACTTGAAAAAGATTACAACCTCTTTAATGACCTCTAAAAAGGTACGGCTCTACCAAGGTGGTT
196 ATACTTGAAAAAGATTACAACCTCTTTAATGACCTCTAAAAAGGTACGGCTCTACCAAGGTGGTT
*
1759557 AGTAAGGTCCATTAAATGAAGTTCAGGTCGAACATT-TAAATAGGTTCTCGAATTACTCTTCGAG
261 AGTAAGGTCCATTAAATGAAGTTAAGGTCGAAC-TTCTAAATAGGTTCTCGAATTACTCTTCGAG
** *
1759621 TTTGAAAAGAACTAACGGGGTACCCTAATCCTTGCCCATCATGAGTTTATGTCGGAAAGAGTTCA
325 TTTGAAAAGAACTAACAAGGTACCCTAATCCTTACCCATCATGAGTTTATGTCGGAAAGAGTTCA
*
1759686 ATTCGAGTAAGAGTATCTTCTATGCCCGTAACGAGGCTAACACCTTAGGCAGGCATAGGAATTT
390 ATTCGAGTAAGAGTATCTTCTATGCCCGTAACGAGGCTAACACCTCAGGCAGGCATAGGAATTT
1759750 ACACCTGATA
Statistics
Matches: 423, Mismatches: 29, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
454 421 1.00
455 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (454 bp):
GTCCCCACATATGTCCAATCCTCCACCTACTAGCTAGGCCTCAAGTTGTCGAAAATTGGCCCGGA
CAAAATGAGCAGTCCACATGAATCAACACAGAAATTAAAAAATCATTGCAGAATGTCAATCCTCT
AAGACACTATAAGGAAAGTGGAATAGCTCCTGCGTTGACAATACCGTTCGTTTCATCCTTGTTTG
ATACTTGAAAAAGATTACAACCTCTTTAATGACCTCTAAAAAGGTACGGCTCTACCAAGGTGGTT
AGTAAGGTCCATTAAATGAAGTTAAGGTCGAACTTCTAAATAGGTTCTCGAATTACTCTTCGAGT
TTGAAAAGAACTAACAAGGTACCCTAATCCTTACCCATCATGAGTTTATGTCGGAAAGAGTTCAA
TTCGAGTAAGAGTATCTTCTATGCCCGTAACGAGGCTAACACCTCAGGCAGGCATAGGAATTTT
Found at i:1761671 original size:157 final size:157
Alignment explanation
Indices: 1761385--1761688 Score: 466
Period size: 157 Copynumber: 1.9 Consensus size: 157
1761375 CGATATCCCG
** *
1761385 AAAAGACTTAAAAAGGATTATCGATGAGATGAACCTATCCTAAATATCTACCTTCAGCATAAAAG
1 AAAAGACTTAAAAAGGATTAGAGATGAGATGAACCTATCCTAAATACCTACCTTCAGCATAAAAG
* * * *
1761450 TAGACCTAGTGGCAACCTAGGACTCGGTTCTAAGAAATTACAAAAATACCTTTATGGGTATACCT
66 CAGACCTAGTGGCAACCTAGGACTCAGTTCAAAGAAATTACAAAAATACCTCTATGGGTATACCT
1761515 TCGACGTGAAAGTATCCTAACAATCCT
131 TCGACGTGAAAGTATCCTAACAATCCT
* * *
1761542 AAAAGACTT-AAAAGAGATTGGAGATGGGATGAACCTATCCTAAATACCTACCTTCAGCATAGAA
1 AAAAGACTTAAAAAG-GATTAGAGATGAGATGAACCTATCCTAAATACCTACCTTCAGCATAAAA
** *
1761606 GCAGACCTAGTGGCAACCTAGGACTCAGTTCAAAGAAATTATGAAAATGCCTCTATGGGTATACC
65 GCAGACCTAGTGGCAACCTAGGACTCAGTTCAAAGAAATTACAAAAATACCTCTATGGGTATACC
*
1761671 TTCGACGTTAAAGTATCC
130 TTCGACGTGAAAGTATCC
1761689 CGGTAACCCT
Statistics
Matches: 132, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
156 5 0.04
157 127 0.96
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (157 bp):
AAAAGACTTAAAAAGGATTAGAGATGAGATGAACCTATCCTAAATACCTACCTTCAGCATAAAAG
CAGACCTAGTGGCAACCTAGGACTCAGTTCAAAGAAATTACAAAAATACCTCTATGGGTATACCT
TCGACGTGAAAGTATCCTAACAATCCT
Found at i:1763079 original size:13 final size:13
Alignment explanation
Indices: 1763061--1763090 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1763051 GATACATAGG
1763061 ACATTGTATAGAT
1 ACATTGTATAGAT
*
1763074 ACATTGTATCGAT
1 ACATTGTATAGAT
1763087 ACAT
1 ACAT
1763091 AGTAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATAGAT
Found at i:1763108 original size:33 final size:33
Alignment explanation
Indices: 1763044--1763111 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
1763034 CTACCACTGT
* **
1763044 TTGTATCGATACATAGGACATTGTATAGATACA
1 TTGTATCGATACATAGGAAAAAGTATAGATACA
* *
1763077 TTGTATCGATACATAGTAAAAAGTATCGATACA
1 TTGTATCGATACATAGGAAAAAGTATAGATACA
1763110 TT
1 TT
1763112 ATGCCCAACG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATAGGAAAAAGTATAGATACA
Found at i:1765499 original size:18 final size:18
Alignment explanation
Indices: 1765476--1765510 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1765466 CCACAATATG
1765476 ATGCCTCATGCATGTGTC
1 ATGCCTCATGCATGTGTC
1765494 ATGCCTCATGCATGTGT
1 ATGCCTCATGCATGTGT
1765511 TCATTATGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (18 bp):
ATGCCTCATGCATGTGTC
Found at i:1769850 original size:13 final size:13
Alignment explanation
Indices: 1769832--1769857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1769822 TACAGCAAGT
1769832 ATGTATCGATACA
1 ATGTATCGATACA
1769845 ATGTATCGATACA
1 ATGTATCGATACA
1769858 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1769942 original size:20 final size:21
Alignment explanation
Indices: 1769912--1769950 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1769902 CTATATTTTC
1769912 AAATATGTATCGATACATTAA
1 AAATATGTATCGATACATTAA
1769933 AAAT-TGTATCGATACATT
1 AAATATGTATCGATACATT
1769951 TACACGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATGTATCGATACATTAA
Found at i:1772108 original size:21 final size:21
Alignment explanation
Indices: 1772075--1772119 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1772065 TTGCAAGTTG
*
1772075 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1772097 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1772117 AAA
1 AAA
1772120 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1773942 original size:15 final size:15
Alignment explanation
Indices: 1773922--1773952 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1773912 TAAAAATGTC
*
1773922 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1773937 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1773952 C
1 C
1773953 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1776045 original size:20 final size:20
Alignment explanation
Indices: 1775966--1776045 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
1775956 AATGTCCAAA
*
1775966 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
1775986 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
1776011 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
1776031 TTGTATCGATACATT
1 ATGTATCGATACATT
1776046 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:1776049 original size:13 final size:13
Alignment explanation
Indices: 1776031--1776069 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1776021 ACATTTTTCT
1776031 TTGTATCGATACA
1 TTGTATCGATACA
1776044 TTGTATCGATACA
1 TTGTATCGATACA
*
1776057 CTGTATCGATACA
1 TTGTATCGATACA
1776070 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1776214 original size:21 final size:21
Alignment explanation
Indices: 1776190--1776236 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1776180 AAATCTTTTG
1776190 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
1776211 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
1776231 CAAAAT
1 CAAAAT
1776237 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:1776233 original size:20 final size:19
Alignment explanation
Indices: 1776192--1776234 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1776182 ATCTTTTGCA
1776192 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
1776212 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
1776232 AAA
1 AAA
1776235 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:1778628 original size:13 final size:13
Alignment explanation
Indices: 1778610--1778635 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1778600 TACAGCAAGT
1778610 ATGTATCGATACA
1 ATGTATCGATACA
1778623 ATGTATCGATACA
1 ATGTATCGATACA
1778636 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1781789 original size:20 final size:21
Alignment explanation
Indices: 1781758--1781796 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1781748 AGGTCAAAAC
*
1781758 CCTAGAAAGTATCGATACAGG
1 CCTAGAAAGTATCAATACAGG
1781779 CCTAG-AAGTATCAATACA
1 CCTAGAAAGTATCAATACA
1781797 TATTGCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (21 bp):
CCTAGAAAGTATCAATACAGG
Found at i:1784274 original size:163 final size:164
Alignment explanation
Indices: 1784055--1784377 Score: 424
Period size: 163 Copynumber: 2.0 Consensus size: 164
1784045 GAAAAAATAA
* * * *
1784055 AAAATGAATGAATTTCTTAAAACAGAATTAATATGAAATAAATAATGATGTTTGATGAGTTTTAA
1 AAAATGAATGAATTTCTTAAAACAGAATTAATATAAAATAAATAATAATATTTGATGAATTTTAA
* * *
1784120 AAATTAAAAACAAAGCAAAAT-C-CCCTAGAAAAAATTTATGGAGTAGAAAACAT-CGTATTTCG
66 AAATTAAAAACAAAGAAAAATACTCCC-A-AAAAAATTTACGAAGTA-AAAA-ATCCGTATTTCG
1784182 AAAAAA-AG-TTTTAAGGAAAAAAATAAAAAATGAATG
127 AAAAAAGAGATTTTAAGGAAAAAAATAAAAAATGAATG
* *
1784218 AAAATGAATGAATTT-TTGAAAATAGAATTAATATAAAATAAATGATAATATTTGATGAATTTTA
1 AAAATGAATGAATTTCTT-AAAACAGAATTAATATAAAATAAATAATAATATTTGATGAATTTTA
* *
1784282 AAAATTGAAAACCAAGAAAAATACTCCCAAAAAAATTTACGAAGTAAAAAATCCCGTATTTCGAA
65 AAAATTAAAAACAAAGAAAAATACTCCCAAAAAAATTTACGAAGTAAAAAAT-CCGTATTTCGAA
*
1784347 AAAAGAGAAATTTTAAGGAAAAAAATCAAAA
129 AAAAGAG--ATTTTAAGGAAAAAAATAAAAA
1784378 CCTCATTAAA
Statistics
Matches: 139, Mismatches: 12, Indels: 14
0.84 0.07 0.08
Matches are distributed among these distances:
161 2 0.01
162 6 0.04
163 104 0.75
164 4 0.03
165 3 0.02
167 20 0.14
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (164 bp):
AAAATGAATGAATTTCTTAAAACAGAATTAATATAAAATAAATAATAATATTTGATGAATTTTAA
AAATTAAAAACAAAGAAAAATACTCCCAAAAAAATTTACGAAGTAAAAAATCCGTATTTCGAAAA
AAGAGATTTTAAGGAAAAAAATAAAAAATGAATG
Found at i:1784405 original size:148 final size:151
Alignment explanation
Indices: 1784236--1784518 Score: 360
Period size: 148 Copynumber: 1.9 Consensus size: 151
1784226 TGAATTTTTG
* *
1784236 AAAATAGAATTAATATAAAATAAATGATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAA
1 AAAATAGAATTAATATAAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAA
*
1784301 AATACTCCCAAAAAAATTTACGAAGTAA-AAAATCCCGT-ATTTCGAAAA-AAGAGAAATTTT-A
66 AATACTCCCAAAAAAATTTACGAAG-AAGAAAACCCCGTAATTT-GAAAACAAGAGAAATTTTGA
*
1784362 AGGAAAAAAATCAAAACCTCATT
129 AAGAAAAAAATCAAAACCTCATT
* * * * **
1784385 AAAAT-GAATTAATATGAAATAAATAATGATGTTTGGTGAATTTTAAAAATTAAAAATTAAGAAA
1 AAAATAGAATTAATATAAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAA
* * * * * * *
1784449 ACTCCTCTCGAAAAAATTTATGGAGAAGAAAACCCCGTAATTTGAAAACAAGAGGAATTTTGAAA
66 AATACTCCCAAAAAAATTTACGAAGAAGAAAACCCCGTAATTTGAAAACAAGAGAAATTTTGAAA
1784514 GAAAA
131 GAAAA
1784519 CAATACCTCC
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
147 2 0.02
148 84 0.74
149 20 0.18
150 7 0.06
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (151 bp):
AAAATAGAATTAATATAAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAA
AATACTCCCAAAAAAATTTACGAAGAAGAAAACCCCGTAATTTGAAAACAAGAGAAATTTTGAAA
GAAAAAAATCAAAACCTCATT
Found at i:1788089 original size:19 final size:17
Alignment explanation
Indices: 1788065--1788127 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 17
1788055 AAACAGAAAA
1788065 TGTATCGATACATAAGGGT
1 TGTATCGATACATAA--GT
1788084 TGTATCGATAC--AA--
1 TGTATCGATACATAAGT
1788097 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG--T
1788116 TGTATCGATACA
1 TGTATCGATACA
1788128 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (17 bp):
TGTATCGATACATAAGT
Found at i:1788102 original size:13 final size:13
Alignment explanation
Indices: 1788084--1788108 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1788074 ACATAAGGGT
1788084 TGTATCGATACAA
1 TGTATCGATACAA
1788097 TGTATCGATACA
1 TGTATCGATACA
1788109 TAAGTTTTGT
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:1788104 original size:32 final size:32
Alignment explanation
Indices: 1788063--1788135 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
1788053 GCAAACAGAA
1788063 AATGTATCGATACATAAGGGTTGTATCGATAC
1 AATGTATCGATACATAAGGGTTGTATCGATAC
**
1788095 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGGGTTGTATCGATAC
1788127 AATGTATCG
1 AATGTATCG
1788136 CTGCGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATAAGGGTTGTATCGATAC
Found at i:1788179 original size:21 final size:21
Alignment explanation
Indices: 1788153--1788193 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1788143 GCTACTGCCG
1788153 AGGAAATGTATCGATACATTA
1 AGGAAATGTATCGATACATTA
1788174 AGGAAATGTATCGATACATT
1 AGGAAATGTATCGATACATT
1788194 GTATCGATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
AGGAAATGTATCGATACATTA
Found at i:1788198 original size:13 final size:13
Alignment explanation
Indices: 1788180--1788205 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1788170 ATTAAGGAAA
1788180 TGTATCGATACAT
1 TGTATCGATACAT
1788193 TGTATCGATACAT
1 TGTATCGATACAT
1788206 CAATCTTTGT
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:1790636 original size:51 final size:53
Alignment explanation
Indices: 1790563--1790692 Score: 167
Period size: 51 Copynumber: 2.5 Consensus size: 53
1790553 GTTGAGTTTC
* * * * * *
1790563 TCAATTCTTCGCAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAC-
1 TCAATTTTTCACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
*
1790615 T-AA-TTTTCTATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
1 TCAATTTTTC-ACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
1790667 TCAATTTTTCACAATCAGGGATACTC
1 TCAATTTTTCACAATCAGGGATACTC
1790693 TAACCCCGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
50 4 0.06
51 38 0.58
52 2 0.03
53 17 0.26
54 5 0.08
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (53 bp):
TCAATTTTTCACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
Found at i:1790910 original size:158 final size:157
Alignment explanation
Indices: 1790619--1790912 Score: 410
Period size: 158 Copynumber: 1.9 Consensus size: 157
1790609 AAACACTAAT
* *
1790619 TTTCTATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAAACATCAATTTTTCACAATCA
1 TTTCTATAATCAGGGATACTCCAACCCCGATTTTATTTCCAAAAAACA-CAATTTTCCACAATCA
* * * *
1790684 GGGATACTCTAACCCCGTTAATCATTGGGGATACTCCAACCCCGTTACCTCCGAGGCGATACTCC
65 GGGATACTCCAACCCCATTAATCATCGAGGATACTCCAACCCCGTTACCTCCGAGGCGATACTCC
1790749 AACCCCGGCTTTATTACCAAAATATTGA
130 AACCCCGGCTTTATTACCAAAATATTGA
* * * * * *
1790777 TTTCTCATAATCGGGGATATTCCAACCCCGGTTTTATTTCTAAAACACA-AATTTTCCACAATCG
1 TTTCT-ATAATCAGGGATACTCCAACCCCGATTTTATTTCCAAAAAACACAATTTTCCACAATCA
* * * *
1790841 GGGATACTCCAACCTCATTATTTCATCGAGGATACTCCAACCCCGTTACCTTCGAGGGGATACTC
65 GGGATACTCCAACCCCATTA-ATCATCGAGGATACTCCAACCCCGTTACCTCCGAGGCGATACTC
1790906 CAACCCC
129 CAACCCC
1790913 ATTACTATCT
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
157 30 0.25
158 51 0.43
159 37 0.31
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (157 bp):
TTTCTATAATCAGGGATACTCCAACCCCGATTTTATTTCCAAAAAACACAATTTTCCACAATCAG
GGATACTCCAACCCCATTAATCATCGAGGATACTCCAACCCCGTTACCTCCGAGGCGATACTCCA
ACCCCGGCTTTATTACCAAAATATTGA
Found at i:1791932 original size:20 final size:19
Alignment explanation
Indices: 1791909--1791976 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
1791899 AGAATGCATC
1791909 GATACATCAAAAAATGTATT
1 GATACATC-AAAAATGTATT
* *
1791929 GATACATTCATACATGTATT
1 GATACA-TCAAAAATGTATT
* *
1791949 GATACATTGAAAAATGTATC
1 GATACA-TCAAAAATGTATT
1791969 GATACATC
1 GATACATC
1791977 TAGGTAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 1 0.03
20 37 0.93
21 2 0.05
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (19 bp):
GATACATCAAAAATGTATT
Found at i:1792983 original size:31 final size:31
Alignment explanation
Indices: 1792906--1792984 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 31
1792896 GATATTGGGA
* *
1792906 TTAAAAGGGCTGCCACCAACTTGTGTGTGCT
1 TTAAAAGGGTTGCCACCAACTTGTGTGGGCT
* *
1792937 TTAGAGGAGGTTGCCACCAACTTGTGTGGGCT
1 TTAAAAG-GGTTGCCACCAACTTGTGTGGGCT
1792969 TTAAAAGGGTTGCCAC
1 TTAAAAGGGTTGCCAC
1792985 TAGCCTATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 14 0.34
32 27 0.66
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (31 bp):
TTAAAAGGGTTGCCACCAACTTGTGTGGGCT
Found at i:1793079 original size:28 final size:28
Alignment explanation
Indices: 1792961--1793490 Score: 541
Period size: 28 Copynumber: 18.6 Consensus size: 28
1792951 CACCAACTTG
* * *
1792961 TGTGGGCTTTAAAAGGGTTGCCACTAGCCT
1 TGTGGGCTTTGAAA-GGATGCCACT-GACT
* * *
1792991 ATATGGGCTTTAGAAGAGGTTACCACTGACT
1 -TGTGGGCTTT-GAA-AGGATGCCACTGACT
* *
1793022 TATGGGCTTTGAGAAGGGTGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * *
1793051 TATGGGTTTTGAAAATG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * *
1793079 TATGGGCTTTAAAAGGATGCCACTAACA
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1793107 TGTGGGCTTCGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
1793135 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1793163 TGTGGGCTTTGAGATGGATGCCACTGACA
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
1793192 TGTGGGCTTTGAAATAGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
1793221 TGTGGGTTTTGAAA-AAGTGCCA-TGCCT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
1793248 TATGGGCTTTGAAAGGATGCCACTAACA
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1793276 TATGGGCTTTGAAAGGATGCCACT-AGCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* * *
1793304 TGTGGGCTTTGAAATGATGCCATTGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1793332 TGTGGGCCTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1793360 TGTGGGCTTTGAGATGGATGCCACT-AGCT
1 TGTGGGCTTTGA-AAGGATGCCACTGA-CT
* *
1793389 TGTGGGCTTTAAGAAA-GATGCTACTGACA
1 TGTGGGCTTT--GAAAGGATGCCACTGACT
*
1793418 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1793446 TGTGAGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1793474 TGTGGCCTTTGAGAAGG
1 TGTGGGCTTTGA-AAGG
1793491 GTTGTATTGA
Statistics
Matches: 426, Mismatches: 54, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
27 31 0.07
28 230 0.54
29 125 0.29
30 14 0.03
31 14 0.03
32 11 0.03
33 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:1793384 original size:197 final size:198
Alignment explanation
Indices: 1793013--1793469 Score: 609
Period size: 197 Copynumber: 2.3 Consensus size: 198
1793003 GAAGAGGTTA
* * * * *
1793013 CCACTGACTTATGGGCTTTGAGAAGGGTGCCACTGACTTATGGGTTTTGAAAATG-TGCCACTGA
1 CCACTGACTTGTGGGCTTTGA-AAAGGTGCCACTGACTTATGGGCTTTG-AAAGGATGCCACTAA
*
1793077 CTTATGGGCTTTAAAAGGATGCCACTAACATGTGGGCTTCGAAAGGATGCCACTAACTTGTGGGC
64 CATATGGGCTTTAAAAGGATGCCACTAACATGTGGGCTTCGAAAGGATGCCACTAACTTGTGGGC
*
1793142 TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAGATGGATGCCACT-GACATGTGGGCTTTGAA-
129 CTTGAAAGGATGCCACTGACTTGTGGGCTTTGAGATGGATGCCACTAG-CATGTGGGCTTT-AAG
*
1793205 ATAGATG
192 AAAGATG
* * *
1793212 CCACTGACTTGTGGGTTTTGAAAAAGTGCCA-TGCCTTATGGGCTTTGAAAGGATGCCACTAACA
1 CCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTGAAAGGATGCCACTAACA
* * * * * * **
1793276 TATGGGCTTTGAAAGGATGCCACTAGCTTGTGGGCTTTGAAATGATGCCATTGGCTTGTGGGCCT
66 TATGGGCTTTAAAAGGATGCCACTAACATGTGGGCTTCGAAAGGATGCCACTAACTTGTGGGCCT
*
1793341 TGAAAGGATGCCACTGACTTGTGGGCTTTGAGATGGATGCCACTAGCTTGTGGGCTTTAAGAAAG
131 TGAAAGGATGCCACTGACTTGTGGGCTTTGAGATGGATGCCACTAGCATGTGGGCTTTAAGAAAG
1793406 ATG
196 ATG
* * * * *
1793409 CTACTGACATGTGGGCTTTG-AAAGGATGCCACTAACTTGTGAGCTTTGAAAGGATGCCACT
1 CCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTATGGGCTTTGAAAGGATGCCACT
1793470 GACTTGTGGC
Statistics
Matches: 225, Mismatches: 28, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
196 10 0.04
197 162 0.72
198 34 0.15
199 19 0.08
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (198 bp):
CCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTGAAAGGATGCCACTAACA
TATGGGCTTTAAAAGGATGCCACTAACATGTGGGCTTCGAAAGGATGCCACTAACTTGTGGGCCT
TGAAAGGATGCCACTGACTTGTGGGCTTTGAGATGGATGCCACTAGCATGTGGGCTTTAAGAAAG
ATG
Found at i:1800801 original size:15 final size:15
Alignment explanation
Indices: 1800759--1800806 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
1800749 GGGGTGTATC
1800759 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
* * **
1800774 GGTAATTAGGTGGTG
1 GATGATTTTGTGGTG
*
1800789 GATGATTTTGTGGCG
1 GATGATTTTGTGGTG
1800804 GAT
1 GAT
1800807 TTGGCGAAAT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.02, G:0.42, T:0.40
Consensus pattern (15 bp):
GATGATTTTGTGGTG
Found at i:1807213 original size:20 final size:20
Alignment explanation
Indices: 1807188--1807264 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
1807178 GTAAAAAGAC
1807188 AGAATGTATCAATACATTGA
1 AGAATGTATCAATACATTGA
* *
1807208 AGAATGTATCGATACATTCA
1 AGAATGTATCAATACATTGA
* *
1807228 TGCATGTATCAATACATTGA
1 AGAATGTATCAATACATTGA
* *
1807248 AAAATGTATCGATACAT
1 AGAATGTATCAATACAT
1807265 CTGGGTACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCAATACATTGA
Found at i:1808279 original size:29 final size:29
Alignment explanation
Indices: 1808051--1808866 Score: 928
Period size: 28 Copynumber: 28.2 Consensus size: 29
1808041 TTTTTTAAAA
1808051 AAAAG-GTGCCACTAACTTGTGTGGGCTTTG
1 AAAAGAGTGCCACTAAC-T-TGTGGGCTTTG
*
1808081 AAAAGAGTTGCCACCAACTTGTACGGGCTTTG
1 AAAAGAG-TGCCACTAACTTGT--GGGCTTTG
* *
1808113 AAAAGAGTTACCACTAGCTTGTGGGCTTTG
1 AAAAGAG-TGCCACTAACTTGTGGGCTTTG
* * * *
1808143 -AAAGGGCGCCACTGACTTGTAGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
*
1808171 -AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* * *
1808199 -AAAGGGTGCTACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* *
1808227 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* **
1808255 AAAAGAGTGCCACTAACGTAAGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
*
1808284 AAAAGAGTTGCCACTGACTCGTGTGGGCTTTG
1 AAAAGAG-TGCCACTAACT--TGTGGGCTTTG
* **
1808316 AAAAGAGTGCCACTAACTTGTCGAATTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* * *
1808345 AAAGGAATGCCATTGAA-TTGTGGGCTTTG
1 AAAAGAGTGCCACT-AACTTGTGGGCTTTG
* *
1808374 AAAGGA-TGCCACTGACTTGTGGGCTTT-
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* * *
1808401 AAAAG-GATGCCATTGACTTGTGGGATTTG
1 AAAAGAG-TGCCACTAACTTGTGGGCTTTG
*
1808430 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* *
1808459 AAAGGA-TGCCACTAACTTGTGAGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* *
1808487 AAAAAAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* ** *
1808516 -AAAGGGTG-CACCTGGCTTGTGGACTTTG
1 AAAAGAGTGCCA-CTAACTTGTGGGCTTTG
1808544 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
**
1808573 AAAAGAGTTGCCACCGACTCGTGTGGGCTTTG
1 AAAAGAG-TGCCACTAACT--TGTGGGCTTTG
1808605 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* *
1808634 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1808662 -AAAGAGTGCCACTAACTTGTGGGCTTT-
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* *
1808689 AAAAGGGTGCCACTAACTTATGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
*
1808718 AAAGGA-TGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* * *
1808746 GAAAGAGTGTCACTAACTTATGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
* *
1808775 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
*
1808803 AAAAGAGTGCCACTAACTTGTGGGCTTCG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1808832 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1808861 AAAAGA
1 AAAAGA
1808867 TGAACGTTCT
Statistics
Matches: 679, Mismatches: 82, Indels: 51
0.84 0.10 0.06
Matches are distributed among these distances:
27 7 0.01
28 301 0.44
29 241 0.35
30 39 0.06
31 21 0.03
32 70 0.10
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
AAAAGAGTGCCACTAACTTGTGGGCTTTG
Found at i:1808406 original size:57 final size:57
Alignment explanation
Indices: 1808070--1808863 Score: 831
Period size: 57 Copynumber: 13.8 Consensus size: 57
1808060 CACTAACTTG
* * * *
1808070 TGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTACGGGCTTTGAAAAGAGTTACCACT-AGCT
1 TGTGGGCTTTGAAAAGAG-TGCCACTAACTTGT--GGGCTTTG-AAAG-GGTGCCACTGA-AT
* * * *
1808132 TGTGGGCTTTG-AAAGGGCGCCACTGACTTGTAGGCTTTGAAAGGGTGCCACT-AACT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGAA-T
* * * *
1808188 TGTGGGCTTTG-AAAGGGTGCTACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGAAT
* ** * *
1808244 TGTGGGCTTTGAAAAGAGTGCCACTAACGTAAGGGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAG-GGTGCCACTGAAT
* ** * *
1808303 CGTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTCGAATTTGAAAGGAATGCCATTGAAT
1 --TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG-GTGCCACTGAAT
* * * * * *
1808363 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTAAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGAAT
* * *
1808419 TGTGGGATTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT-AACT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGAA-T
* * * **
1808476 TGTGAGCTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGGTG-CACCTGGCT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCA-CTGAAT
* * * *
1808533 TGTGGACTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAG-GGTGCCACTGAAT
*
1808592 CGTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 --TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGAAT
*
1808651 TGTGGGCTTTG-AAAGAGTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACT-AACT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGAA-T
* * * *
1808707 TATGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGGAAAGAGTGTCACT-AACT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTT-GAAAGGGTGCCACTGAA-T
* * * *
1808764 TATGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT-AACT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGAA-T
*
1808821 TGTGGGCTTCGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAA
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAA
1808864 AGATGAACGT
Statistics
Matches: 638, Mismatches: 71, Indels: 51
0.84 0.09 0.07
Matches are distributed among these distances:
55 1 0.00
56 175 0.27
57 255 0.40
58 57 0.09
59 31 0.05
60 30 0.05
61 78 0.12
62 11 0.02
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (57 bp):
TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGAAT
Found at i:1810103 original size:1 final size:1
Alignment explanation
Indices: 1810099--1810150 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
1810089 TTTTCCTTGG
* * * * * *
1810099 TTTTTTGTTTTTTTTTGTTTTTTATGTTTGTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1810151 GGTATGGAGG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:1810111 original size:31 final size:29
Alignment explanation
Indices: 1810073--1810150 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 29
1810063 CTAGACTCTC
1810073 TGTTTTTTTGTTATTTTTT-TCCTTGGTTTTT
1 TGTTTTTTT-TT-TTTTTTAT-CTTGGTTTTT
* *
1810104 TGTTTTTTTTTGTTTTTTATGTTTGTTTTT
1 TGTTTTTTTTT-TTTTTTATCTTGGTTTTT
1810134 TGTTTTTTTTTTTTTTT
1 TGTTTTTTTTTTTTTTT
1810151 GGTATGGAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 6 0.14
30 27 0.63
31 10 0.23
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.83
Consensus pattern (29 bp):
TGTTTTTTTTTTTTTTTATCTTGGTTTTT
Found at i:1824044 original size:20 final size:20
Alignment explanation
Indices: 1824018--1824072 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1824008 AAAAAGACAG
*
1824018 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1824038 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
1824058 AATGTATCGATACAT
1 AATGTATCGATACAT
1824073 CTGGGTACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1831555 original size:208 final size:208
Alignment explanation
Indices: 1831197--1831590 Score: 680
Period size: 208 Copynumber: 1.9 Consensus size: 208
1831187 ATATGAATAG
1831197 ATTTAAGTAAAGAAAGATATGCTGAAGTTGTCATAACAATGCCTTTATGTTATGATACTTCCAAA
1 ATTTAAGTAAAGAAAGATATGCTGAAGTTGTCATAACAATGCCTTTATGTTATGATACTTCCAAA
* * * *
1831262 AATGCAAGAAAATGCATGAACATACTTAATGCATGTTATAGAAATATTCCAACATTGTGTTGAGC
66 AATGCAAGAAAATGCATGAACATACTTAATGCAAGTTATAGAAACATTCCAACAATGTGTTAAGC
* *
1831327 ATGTGGAAATGAAGGAAACATGATAGAGAATACAAAAATTAGAGGAGTGTTTTGATACTTCCAAA
131 ATGTGGAAATGAAGGAAACATAATAGAAAATACAAAAATTAGAGGAGTGTTTTGATACTTCCAAA
1831392 AATGCATAAACAA
196 AATGCATAAACAA
* * * * *
1831405 ATTTAAGTAAAGAGAGGTGTGCTGAAGTTGTCATGACAATGCCTTTATGTTATGATACTTCTAAA
1 ATTTAAGTAAAGAAAGATATGCTGAAGTTGTCATAACAATGCCTTTATGTTATGATACTTCCAAA
1831470 AATGCAAGAAAATGCATGAACATACTTAATGCAAGTTATAGAAACATTCCAACAATGTGTTAAGC
66 AATGCAAGAAAATGCATGAACATACTTAATGCAAGTTATAGAAACATTCCAACAATGTGTTAAGC
*
1831535 ATGTGGAAATGAAGGAAACATAATAGAAAATACATAAATTAGAGGAGTGTTTTGAT
131 ATGTGGAAATGAAGGAAACATAATAGAAAATACAAAAATTAGAGGAGTGTTTTGAT
1831591 GATAGAATGA
Statistics
Matches: 174, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
208 174 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.29
Consensus pattern (208 bp):
ATTTAAGTAAAGAAAGATATGCTGAAGTTGTCATAACAATGCCTTTATGTTATGATACTTCCAAA
AATGCAAGAAAATGCATGAACATACTTAATGCAAGTTATAGAAACATTCCAACAATGTGTTAAGC
ATGTGGAAATGAAGGAAACATAATAGAAAATACAAAAATTAGAGGAGTGTTTTGATACTTCCAAA
AATGCATAAACAA
Found at i:1832500 original size:15 final size:15
Alignment explanation
Indices: 1832480--1832508 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1832470 TTTCTGGACT
1832480 TGTATCGATACATTG
1 TGTATCGATACATTG
1832495 TGTATCGATACATT
1 TGTATCGATACATT
1832509 TTACCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (15 bp):
TGTATCGATACATTG
Found at i:1833513 original size:74 final size:74
Alignment explanation
Indices: 1833402--1834097 Score: 554
Period size: 74 Copynumber: 9.6 Consensus size: 74
1833392 CCAACTTGTA
* * * * *
1833402 TGGGCTTTGAAG---AAGAAAAGGCGTCCTATTCTTTGAGGACTAGAAAAGGTAAATAATGCCAC
1 TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTCTTTGAGGACTAGAAAAGATAAATGATGCCAC
1833464 CAGCTTATG
66 CAGCTTATG
* * * * * * *
1833473 TGGGCTTTGAAGGAAAAGAAAAGATGTCTTGCTCTTTGAGGACTAAAAAAGATAAATAATGCCAT
1 TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTCTTTGAGGACTAGAAAAGATAAATGATGCCAC
1833538 CAGCTTATG
66 CAGCTTATG
* * * * * * * *
1833547 TGGGTTTTGAAGAAAAAGAAAAGGCATCCTATTCTTTGAGAACTAGAGAAGATAAATGATGCCAT
1 TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTCTTTGAGGACTAGAAAAGATAAATGATGCCAC
1833612 CAGCTTATG
66 CAGCTTATG
* * * * * *
1833621 TCGGCATTAAAGAAAAAGAAAAGGCGTCATACCCTTTTGAGGACTAAAAAAGATAAATGATGCCA
1 TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTC-TTTGAGGACTAGAAAAGATAAATGATGCCA
* * *
1833686 CTAACTTGTG
65 CCAGCTTATG
* * *
1833696 TGGGCTTTGAAGAAAAAGAAAAGACATCTTACTCTTTGAGGACTAGAAAAGATAAATTATGCCAC
1 TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTCTTTGAGGACTAGAAAAGATAAATGATGCCAC
* *
1833761 CAACTTGTG
66 CAGCTTATG
* ** * * * * * * **
1833770 TAGGCTTCAAAGAAAAAGAAAATACGTCGTGCTCTTTGAAGACTA-AAGAAGATGAATGTTTTCA
1 TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTCTTTGAGGACTAGAA-AAGATAAATGATGCCA
* *
1833834 CCAGCCTATA
65 CCAGCTTATG
* * ** * *
1833844 TAGGTTTTGAAGAAAAAGAAAAGTTGTCATGCTCTTTGAGGAGCTAGAAAAGATAAATGATGCTA
1 TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTCTTTGAGGA-CTAGAAAAGATAAATGATGCCA
*
1833909 CCAACTTATG
65 CCAGCTTATG
*
1833919 TGGGCTTTGAAG----A-AAAAGA----A-A-TCTTTGAGAACTA-AAGAAGATAAATGATGCCA
1 TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTCTTTGAGGACTAGAA-AAGATAAATGATGCCA
** * *
1833972 TTAGCTTCTA
65 CCAGCTTATG
* * * * * *
1833982 TGGACTTTGAAGAAAAACAAAAGGCATCCTACTATTTGAGGACTA-AAGAAGAT--ATGATGCCA
1 TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTCTTTGAGGACTAGAA-AAGATAAATGATGCCA
* *
1834044 CTAGCTTGTG
65 CCAGCTTATG
* * * *
1834054 TAGGCTTT---GAAAAAGAAAAAACGTCCTATTCTTTGAGGACTAGA
1 TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTCTTTGAGGACTAGA
1834098 GGAAAATGAG
Statistics
Matches: 500, Mismatches: 105, Indels: 41
0.77 0.16 0.06
Matches are distributed among these distances:
62 2 0.00
63 34 0.07
64 9 0.02
66 1 0.00
67 1 0.00
68 5 0.01
69 28 0.06
70 6 0.01
71 13 0.03
72 22 0.04
73 3 0.01
74 283 0.57
75 91 0.18
76 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (74 bp):
TGGGCTTTGAAGAAAAAGAAAAGACGTCATACTCTTTGAGGACTAGAAAAGATAAATGATGCCAC
CAGCTTATG
Found at i:1833732 original size:149 final size:148
Alignment explanation
Indices: 1833394--1834095 Score: 582
Period size: 149 Copynumber: 4.9 Consensus size: 148
1833384 AGGTGTCACC
* * * * *
1833394 AACTTGTATGGGCTTTGAAG---AAGAAAAGGCGTCCTATTCTTTGAGGACTAGAAAAGGTAAAT
1 AACTTATATGGGCTTTGAAGAAAAAGAAAAGGCATCCTACTCTTTGAGAACTAGAAAAGATAAAT
* * * * * *
1833456 AATGCCACCAGCTTATGTGGGCTTTGAAGGAAAAGAAAAGATGTCTTGCTCTTTGAGGACTAAAA
66 GATGCCACCAACTTATGTGGGCTTTAAAGAAAAAGAAAAGACGTCATGCTCTTTGAGGACTAAAA
*
1833521 AAGATAAATAATGCCA-T
131 AAGATAAATGATGCCACT
* * * * *
1833538 CAGCTTATGTGGGTTTTGAAGAAAAAGAAAAGGCATCCTATTCTTTGAGAACTAGAGAAGATAAA
1 -AACTTATATGGGCTTTGAAGAAAAAGAAAAGGCATCCTACTCTTTGAGAACTAGAAAAGATAAA
* * * * * * *
1833603 TGATGCCATCAGCTTATGTCGGCATTAAAGAAAAAGAAAAGGCGTCATACCCTTTTGAGGACTAA
65 TGATGCCACCAACTTATGTGGGCTTTAAAGAAAAAGAAAAGACGTCATGCTC-TTTGAGGACTAA
1833668 AAAAGATAAATGATGCCACT
129 AAAAGATAAATGATGCCACT
* * * * *
1833688 AACTTGTGTGGGCTTTGAAGAAAAAGAAAAGACATCTTACTCTTTGAGGACTAGAAAAGATAAAT
1 AACTTATATGGGCTTTGAAGAAAAAGAAAAGGCATCCTACTCTTTGAGAACTAGAAAAGATAAAT
* * * * * * * *
1833753 TATGCCACCAACTTGTGTAGGCTTCAAAGAAAAAGAAAATACGTCGTGCTCTTTGAAGACTAAAG
66 GATGCCACCAACTTATGTGGGCTTTAAAGAAAAAGAAAAGACGTCATGCTCTTTGAGGACTAAAA
* * ** *
1833818 AAGATGAATGTTTTCACC
131 AAGATAAATGATGCCACT
* * * * *** * * *
1833836 AGCCTATATAGGTTTTGAAGAAAAAGAAAAGTTGTCATGCTCTTTGAGGAGCTAGAAAAGATAAA
1 AACTTATATGGGCTTTGAAGAAAAAGAAAAGGCATCCTACTCTTTGA-GAACTAGAAAAGATAAA
* * *
1833901 TGATGCTACCAACTTATGTGGGCTTTGAAGAAAAAG---A-A----A---TCTTTGAGAACTAAA
65 TGATGCCACCAACTTATGTGGGCTTTAAAGAAAAAGAAAAGACGTCATGCTCTTTGAGGACTAAA
* *
1833955 GAAGATAAATGATGCCATT
130 AAAGATAAATGATGCCACT
* * * * * *
1833974 AGCTTCTATGGACTTTGAAGAAAAACAAAAGGCATCCTACTATTTGAGGACTA-AAGAAGAT--A
1 AACTTATATGGGCTTTGAAGAAAAAGAAAAGGCATCCTACTCTTTGAGAACTAGAA-AAGATAAA
* * * * * * **
1834036 TGATGCCACTAGCTTGTGTAGGCTTT---GAAAAAGAAAAAACGTCCTATTCTTTGAGGACTA
65 TGATGCCACCAACTTATGTGGGCTTTAAAGAAAAAGAAAAGACGTCATGCTCTTTGAGGACTA
1834096 GAGGAAAATG
Statistics
Matches: 443, Mismatches: 96, Indels: 38
0.77 0.17 0.07
Matches are distributed among these distances:
132 7 0.02
135 23 0.05
136 3 0.01
137 9 0.02
138 61 0.14
143 12 0.03
145 17 0.04
146 1 0.00
148 139 0.31
149 170 0.38
150 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (148 bp):
AACTTATATGGGCTTTGAAGAAAAAGAAAAGGCATCCTACTCTTTGAGAACTAGAAAAGATAAAT
GATGCCACCAACTTATGTGGGCTTTAAAGAAAAAGAAAAGACGTCATGCTCTTTGAGGACTAAAA
AAGATAAATGATGCCACT
Found at i:1833822 original size:223 final size:222
Alignment explanation
Indices: 1833414--1833939 Score: 622
Period size: 223 Copynumber: 2.4 Consensus size: 222
1833404 GGCTTTGAAG
* * * * *
1833414 AAGAAAAGGCGTCCTATTCTTTGAGGACTAGAAAAGGTAAATAATGCCACCAGCTTATGTGGGCT
1 AAGAAAAGGCGTCATACTCTTTGAGGACTAGAAAAGATAAATGATGCCACCAACTTATGTGGGCT
* ** * * *
1833479 TTGAAGGAAAAGAAAAGATGTCTTGCTCTTTGAGGACTAAAAAAGATAAATAATGCCATCAGCTT
66 TTGAAGAAAAAGAAAAGACATCTTACTCTTTGAGGACTAAAAAAGATAAATAATGCCACCAACTT
* * ** * * *
1833544 ATGTGGGTTTTGAAGAAAAAGAAAAGGCATCCTATTCTTTGAGAACTAGAGAAGATAAATGATGC
131 ATGTAGGCTTCAAAGAAAAAGAAAAGACATCCTACTCTTTGAGAACTAAAGAAGATAAATGATGC
* * * *
1833609 CATCAGCTTATGTCGGCATTAAAGAAA
196 CACCAGCCTATATAGGCATTAAAGAAA
* * * *
1833636 AAGAAAAGGCGTCATACCCTTTTGAGGACTAAAAAAGATAAATGATGCCACTAACTTGTGTGGGC
1 AAGAAAAGGCGTCATACTC-TTTGAGGACTAGAAAAGATAAATGATGCCACCAACTTATGTGGGC
* *
1833701 TTTGAAGAAAAAGAAAAGACATCTTACTCTTTGAGGACTAGAAAAGATAAATTATGCCACCAACT
65 TTTGAAGAAAAAGAAAAGACATCTTACTCTTTGAGGACTAAAAAAGATAAATAATGCCACCAACT
* * * * * * *
1833766 TGTGTAGGCTTCAAAGAAAAAGAAAATACGTCGTGCTCTTTGA-AGACTAAAGAAGATGAATGTT
130 TATGTAGGCTTCAAAGAAAAAGAAAAGACATCCTACTCTTTGAGA-ACTAAAGAAGATAAATGAT
** ** *
1833830 TTCACCAGCCTATATAGGTTTTGAAGAAA
194 GCCACCAGCCTATATAGGCATTAAAGAAA
** * *
1833859 AAGAAAAGTTGTCATGCTCTTTGAGGAGCTAGAAAAGATAAATGATGCTACCAACTTATGTGGGC
1 AAGAAAAGGCGTCATACTCTTTGAGGA-CTAGAAAAGATAAATGATGCCACCAACTTATGTGGGC
1833924 TTTGAAGAAAAAGAAA
65 TTTGAAGAAAAAGAAA
1833940 TCTTTGAGAA
Statistics
Matches: 253, Mismatches: 48, Indels: 5
0.83 0.16 0.02
Matches are distributed among these distances:
222 25 0.10
223 228 0.90
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (222 bp):
AAGAAAAGGCGTCATACTCTTTGAGGACTAGAAAAGATAAATGATGCCACCAACTTATGTGGGCT
TTGAAGAAAAAGAAAAGACATCTTACTCTTTGAGGACTAAAAAAGATAAATAATGCCACCAACTT
ATGTAGGCTTCAAAGAAAAAGAAAAGACATCCTACTCTTTGAGAACTAAAGAAGATAAATGATGC
CACCAGCCTATATAGGCATTAAAGAAA
Found at i:1834095 original size:69 final size:72
Alignment explanation
Indices: 1833940--1834095 Score: 178
Period size: 72 Copynumber: 2.2 Consensus size: 72
1833930 GAAAAAGAAA
* *
1833940 TCTTTGAGAACTAAAGAAGATAAATGATGCCATTAGCTTCTATGGACTTTGAAGAAAAACAAAAG
1 TCTTTGAGGACTAAAGAAGAT-AATGATGCCACTAGCTTCTATGGACTTTGAAGAAAAACAAAA-
1834005 GCATCCTAC
64 GCATCCTAC
* * *
1834014 TATTTGAGGACTAAAGAAGAT-ATGATGCCACTAGCTTGTGTAGG-CTTTGAA-AAAGAA-AAAA
1 TCTTTGAGGACTAAAGAAGATAATGATGCCACTAGCTTCTAT-GGACTTTGAAGAAA-AACAAAA
* *
1834075 -CGTCCTAT
64 GCATCCTAC
1834083 TCTTTGAGGACTA
1 TCTTTGAGGACTA
1834096 GAGGAAAATG
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
69 18 0.25
71 7 0.10
72 26 0.36
73 2 0.03
74 19 0.26
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (72 bp):
TCTTTGAGGACTAAAGAAGATAATGATGCCACTAGCTTCTATGGACTTTGAAGAAAAACAAAAGC
ATCCTAC
Found at i:1835016 original size:23 final size:23
Alignment explanation
Indices: 1834989--1835033 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1834979 ACCTCTCAGT
1834989 TTCTTCAAGA-ATTATAACCCAAA
1 TTCTT-AAGAGATTATAACCCAAA
*
1835012 TTCTTAAGAGATTGTAACCCAA
1 TTCTTAAGAGATTATAACCCAA
1835034 GGTTGAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
TTCTTAAGAGATTATAACCCAAA
Found at i:1835547 original size:20 final size:20
Alignment explanation
Indices: 1835519--1835556 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1835509 TATTGCTAGT
1835519 TTCAAGTATCGATACAATTC
1 TTCAAGTATCGATACAATTC
* *
1835539 TTCATGTATTGATACAAT
1 TTCAAGTATCGATACAAT
1835557 GAACATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
TTCAAGTATCGATACAATTC
Found at i:1836357 original size:23 final size:23
Alignment explanation
Indices: 1836331--1836398 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
1836321 TCAAAGGAAA
1836331 TTTATTGCATTCAATGACATGCT
1 TTTATTGCATTCAATGACATGCT
* *
1836354 TTTATT--AATCAAT-A-A-G-A
1 TTTATTGCATTCAATGACATGCT
*
1836371 TATATTGCATTCAATGACATGCT
1 TTTATTGCATTCAATGACATGCT
1836394 TTTAT
1 TTTAT
1836399 CAATCAACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
17 5 0.15
18 1 0.03
19 7 0.21
20 2 0.06
21 7 0.21
22 1 0.03
23 10 0.30
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.44
Consensus pattern (23 bp):
TTTATTGCATTCAATGACATGCT
Found at i:1836377 original size:40 final size:40
Alignment explanation
Indices: 1836333--1836421 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
1836323 AAAGGAAATT
* *
1836333 TATTGCATTCAATGACATGCTTTTATTAATCAATAAGATA
1 TATTGCATTCAATGACATGCTTTTATCAATCAACAAGATA
1836373 TATTGCATTCAATGACATGCTTTTATCAATCAACAAGATA
1 TATTGCATTCAATGACATGCTTTTATCAATCAACAAGATA
1836413 TATTGCATT
1 TATTGCATT
1836422 TATGTAGACG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (40 bp):
TATTGCATTCAATGACATGCTTTTATCAATCAACAAGATA
Found at i:1838144 original size:13 final size:13
Alignment explanation
Indices: 1838126--1838151 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1838116 AATAGTGCCC
1838126 TTGTATCGATACA
1 TTGTATCGATACA
1838139 TTGTATCGATACA
1 TTGTATCGATACA
1838152 AAGATCCTTG
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):
TTGTATCGATACA
Found at i:1842231 original size:15 final size:14
Alignment explanation
Indices: 1842209--1842240 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
1842199 ATTCGACAAT
1842209 TTTCTTTTCAAGAA
1 TTTCTTTTCAAGAA
1842223 TTTCATTTTCAAGAA
1 TTTC-TTTTCAAGAA
1842238 TTT
1 TTT
1842241 TTTATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.53
Consensus pattern (14 bp):
TTTCTTTTCAAGAA
Found at i:1842364 original size:18 final size:18
Alignment explanation
Indices: 1842336--1842377 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1842326 AGCATCTTGC
1842336 AATTCTTCAAAGGTATAAG
1 AATT-TTCAAAGGTATAAG
1842355 AATTTTCAAAGGTATAAG
1 AATTTTCAAAGGTATAAG
1842373 AATTT
1 AATTT
1842378 ACCTCTGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (18 bp):
AATTTTCAAAGGTATAAG
Found at i:1848255 original size:13 final size:13
Alignment explanation
Indices: 1848237--1848262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1848227 TACAGCAAGT
1848237 ATGTATCGATACA
1 ATGTATCGATACA
1848250 ATGTATCGATACA
1 ATGTATCGATACA
1848263 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1850510 original size:21 final size:21
Alignment explanation
Indices: 1850477--1850521 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1850467 TTGCAAGTTG
*
1850477 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1850499 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1850519 AAA
1 AAA
1850522 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1854448 original size:20 final size:20
Alignment explanation
Indices: 1854369--1854448 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
1854359 AATGTCCAAA
*
1854369 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* * *
1854389 GTGTATCAATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
1854414 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
1854434 TTGTATCGATACATT
1 ATGTATCGATACATT
1854449 GTATCGATAC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 30 0.64
24 1 0.02
25 16 0.34
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:1854452 original size:13 final size:13
Alignment explanation
Indices: 1854434--1854472 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1854424 ACATTTTTCT
1854434 TTGTATCGATACA
1 TTGTATCGATACA
1854447 TTGTATCGATACA
1 TTGTATCGATACA
*
1854460 CTGTATCGATACA
1 TTGTATCGATACA
1854473 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1857031 original size:13 final size:13
Alignment explanation
Indices: 1857013--1857038 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1857003 TACAGCAAGT
1857013 ATGTATCGATACA
1 ATGTATCGATACA
1857026 ATGTATCGATACA
1 ATGTATCGATACA
1857039 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1863530 original size:165 final size:166
Alignment explanation
Indices: 1863151--1863907 Score: 865
Period size: 165 Copynumber: 4.6 Consensus size: 166
1863141 TTTAAACATC
* *
1863151 AAAATTCATCGAATATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTTATTTTCA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCA-TTTCA
* * * * * * *
1863216 TGAGTTATT-AAATTTTTTCTTTAAA------TTTTTTTTGAAATACGTTGTTTTTTACTTCGTA
65 TGAGTTTTTGAATTTTTTTCTTGAAATTTTTCTTTTTTTTGAAATAAGGTGTTTTCTACTTCATA
*
1863274 AATTCTTTTCGAAGGGATTTTTCTTAGTTTTTAATTTTT
130 AATT-TTTTCGAAGGGATTTTTCTT-GTTTTCAATTTTT
* * *
1863313 AAAATTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTAATTTACTTTCA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCA-TTTCA
1863378 TGAGTTTTTGAATTTTTTTCTTGAAATTTTTCTTTTTTTTGAAATAAGGTGTTTTCTACTTCATA
65 TGAGTTTTTGAATTTTTTTCTTGAAATTTTTCTTTTTTTTGAAATAAGGTGTTTTCTACTTCATA
* *
1863443 AATTTTTTCGACGGGATTTTTC-T-CTTTCAATTTTT
130 AATTTTTTCGAAGGGATTTTTCTTGTTTTCAATTTTT
* * *
1863478 AAAATTCATCAAATGTTATCATTTATTTCATAATAATTCAGTTTTTAAAAATTAATTCATCTTCA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCAT-TTCA
* * * * *
1863543 TGAGTTTTTGAATTTTTTTCTTG-AA--TTTC-CTTTTTCGAAATACGGTGTTTTCTACTCCGTA
65 TGAGTTTTTGAATTTTTTTCTTGAAATTTTTCTTTTTTTTGAAATAAGGTGTTTTCTACTTCATA
1863604 AATTTTTTCGATA-GGATTTTTCTTG-TTT-AATTTTT
130 AATTTTTTCGA-AGGGATTTTTCTTGTTTTCAATTTTT
* * * *
1863639 AAAATTCATTAAAGATTATCATTTATTTCATAATAATTCGGTTTTCAAAAATTAATTCATCTTCA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCAT-TTCA
* ** * *
1863704 TGAGTTTTTAAATTTTTTTCTTG-AATTTCCCCTTTTTTTTGAAATACA-GTATTTTCTATTTCA
65 TGAGTTTTTGAATTTTTTTCTTGAAATTT-TTCTTTTTTTTGAAATA-AGGTGTTTTCTACTTCA
*
1863767 TAAATTTTTT-GAGGGGATTTTTCTTGGTTTTCAA-TTTT
128 TAAATTTTTTCGAAGGGATTTTTCTT-GTTTTCAATTTTT
* * * *
1863805 AAAATTCATCAAACATCATCATTTCA-TTCATATTAATTCAGATTTAAAAAATTAATTCATTTTC
1 AAAATTCATCAAATATTATCATTT-ATTTCATATTAATTCAGTTTTCAAAAATTAATTCA-TTTC
* * * * **
1863869 ATAAG-TTTTGGATTCTTTTGTCAAAATTTTTCTTTTTTT
64 ATGAGTTTTTGAATTTTTTTCTTGAAATTTTTCTTTTTTT
1863908 GAGAAACCGA
Statistics
Matches: 514, Mismatches: 58, Indels: 43
0.84 0.09 0.07
Matches are distributed among these distances:
161 138 0.27
162 77 0.15
163 15 0.03
164 17 0.03
165 143 0.28
166 69 0.13
167 5 0.01
168 17 0.03
169 33 0.06
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (166 bp):
AAAATTCATCAAATATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTTCAT
GAGTTTTTGAATTTTTTTCTTGAAATTTTTCTTTTTTTTGAAATAAGGTGTTTTCTACTTCATAA
ATTTTTTCGAAGGGATTTTTCTTGTTTTCAATTTTT
Found at i:1863660 original size:161 final size:162
Alignment explanation
Indices: 1863151--1863877 Score: 848
Period size: 161 Copynumber: 4.5 Consensus size: 162
1863141 TTTAAACATC
* * * *
1863151 AAAATTCATCGAATATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTTATTTTCA
1 AAAATTCATCAAAGATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATCTTCA
* * * * * * *
1863216 TGAGTTATT-AAATTTTTTCTTTAAATT--TTTTTTGAAATACGTTGTTTTTTACTTCGTAAATT
66 TGAGTTTTTGAATTTTTTTCTTGAATTTCCTTTTTTGAAATACGGTGTTTTCTACTTCATAAATT
1863278 CTTTTCGAAGGGATTTTTCTTAGTTTTTAATTTTT
131 -TTTTCGAA-GGATTTTTCTTAG-TTTTAATTTTT
* * * *
1863313 AAAATTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTAATTTA-CTTTC
1 AAAATTCATCAAAGATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATC-TTC
* *
1863377 ATGAGTTTTTGAATTTTTTTCTTGAAATTTTTCTTTTTTTTGAAATAAGGTGTTTTCTACTTCAT
65 ATGAGTTTTTGAATTTTTTTCTTG-AA--TTTC-CTTTTTTGAAATACGGTGTTTTCTACTTCAT
* * *
1863442 AAATTTTTTCGACGGGATTTTTC-T-CTTTCAATTTTT
126 AAATTTTTTCGA-AGGATTTTTCTTAGTTTTAATTTTT
* *
1863478 AAAATTCATCAAATG-TTATCATTTATTTCATAATAATTCAGTTTTTAAAAATTAATTCATCTTC
1 AAAATTCATCAAA-GATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATCTTC
* * *
1863542 ATGAGTTTTTGAATTTTTTTCTTGAATTTCCTTTTTCGAAATACGGTGTTTTCTACTCCGTAAAT
65 ATGAGTTTTTGAATTTTTTTCTTGAATTTCCTTTTTTGAAATACGGTGTTTTCTACTTCATAAAT
1863607 TTTTTCGATAGGATTTTTCTT-G-TTTAATTTTT
130 TTTTTCGA-AGGATTTTTCTTAGTTTTAATTTTT
* * *
1863639 AAAATTCATTAAAGATTATCATTTATTTCATAATAATTCGGTTTTCAAAAATTAATTCATCTTCA
1 AAAATTCATCAAAGATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATCTTCA
* * * *
1863704 TGAGTTTTTAAATTTTTTTCTTGAATTTCCCCTTTTTTTTGAAATACAGTATTTTCTATTTCATA
66 TGAGTTTTTGAATTTTTTTCTTGAATTT--CC--TTTTTTGAAATACGGTGTTTTCTACTTCATA
* *
1863769 AATTTTTT-GAGGGGATTTTTCTTGGTTTTCAA-TTTT
127 AATTTTTTCGA-AGGATTTTTCTTAGTTTT-AATTTTT
* * * * *
1863805 AAAATTCATCAAACATCATCATTTCA-TTCATATTAATTCAGATTTAAAAAATTAATTCATTTTC
1 AAAATTCATCAAAGATTATCATTT-ATTTCATATTAATTCAGTTTTCAAAAATTAATTCATCTTC
*
1863869 ATAAGTTTT
65 ATGAGTTTT
1863878 GGATTCTTTT
Statistics
Matches: 493, Mismatches: 51, Indels: 38
0.85 0.09 0.07
Matches are distributed among these distances:
160 1 0.00
161 143 0.29
162 73 0.15
163 13 0.03
164 17 0.03
165 123 0.25
166 72 0.15
167 4 0.01
168 16 0.03
169 31 0.06
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (162 bp):
AAAATTCATCAAAGATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATCTTCA
TGAGTTTTTGAATTTTTTTCTTGAATTTCCTTTTTTGAAATACGGTGTTTTCTACTTCATAAATT
TTTTCGAAGGATTTTTCTTAGTTTTAATTTTT
Found at i:1863728 original size:326 final size:326
Alignment explanation
Indices: 1863151--1863877 Score: 981
Period size: 327 Copynumber: 2.2 Consensus size: 326
1863141 TTTAAACATC
* * *
1863151 AAAATTCATCGAATATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTTATTTTCA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCA
* * * *
1863216 TGAGTTATTAAATTTTTTCTTTAAATTTTTTTTGAAATACGTTGTTTTTTACTTCGTAAATTCTT
66 TGAGTTTTTAAATTTTTTCTTTAAATTTTTTTTGAAATACGGTGTTTTCTACTCCGTAAATTCTT
* * *
1863281 TTCGAAGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAT
131 TTCGAAGGGATTTTTCTTAG-TTTTAATTTTTAAAATTCATCAAAGATTATCATTTATTTCATAA
* * * **
1863346 TAATTTAGTTTTCAAAAATTAATTTACTTTCATGAGTTTTTGAATTTTTTTCTTGAAATTT-TTC
195 TAATTCAGTTTTCAAAAATTAATTCACTTTCATGAGTTTTTAAATTTTTTTCTTG-AATTTCCCC
*
1863410 TTTTTTTTGAAATA-AGGTGTTTTCTACTTCATAAATTTTTTCGACGGGATTTTTC-T-CTTTCA
259 TTTTTTTTGAAATACA-GTATTTTCTACTTCATAAATTTTTT-GACGGGATTTTTCTTGCTTTCA
1863472 ATTTTT
322 A-TTTT
* * * *
1863478 AAAATTCATCAAATGTTATCATTTATTTCATAATAATTCAGTTTTTAAAAATTAATTCATCTTCA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCA
* *
1863543 TGAGTTTTTGAATTTTTT-TCTTGAATTTCCTTTTTCGAAATACGGTGTTTTCTACTCCGTAAAT
66 TGAGTTTTTAAATTTTTTCT-TTAAATTT--TTTTT-GAAATACGGTGTTTTCTACTCCGTAAAT
*
1863607 T-TTTTCGATA-GGATTTTTCTT-G-TTTAATTTTTAAAATTCATTAAAGATTATCATTTATTTC
127 TCTTTTCGA-AGGGATTTTTCTTAGTTTTAATTTTTAAAATTCATCAAAGATTATCATTTATTTC
*
1863668 ATAATAATTCGGTTTTCAAAAATTAATTCA-TCTTCATGAGTTTTTAAATTTTTTTCTTGAATTT
191 ATAATAATTCAGTTTTCAAAAATTAATTCACT-TTCATGAGTTTTTAAATTTTTTTCTTGAATTT
* * *
1863732 CCCCTTTTTTTTGAAATACAGTATTTTCTATTTCATAAATTTTTTGAGGGGATTTTTCTTGGTTT
255 CCCCTTTTTTTTGAAATACAGTATTTTCTACTTCATAAATTTTTTGACGGGATTTTTCTT-GCTT
1863797 TCAATTTT
319 TCAATTTT
* * *
1863805 AAAATTCATCAAACATCATCATTTCA-TTCATATTAATTCAGATTTAAAAAATTAATTCATTTTC
1 AAAATTCATCAAATATTATCATTT-ATTTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTC
*
1863869 ATAAGTTTT
65 ATGAGTTTT
1863878 GGATTCTTTT
Statistics
Matches: 354, Mismatches: 34, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
325 18 0.05
326 128 0.36
327 150 0.42
328 8 0.02
329 23 0.06
330 27 0.08
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (326 bp):
AAAATTCATCAAATATTATCATTTATTTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCA
TGAGTTTTTAAATTTTTTCTTTAAATTTTTTTTGAAATACGGTGTTTTCTACTCCGTAAATTCTT
TTCGAAGGGATTTTTCTTAGTTTTAATTTTTAAAATTCATCAAAGATTATCATTTATTTCATAAT
AATTCAGTTTTCAAAAATTAATTCACTTTCATGAGTTTTTAAATTTTTTTCTTGAATTTCCCCTT
TTTTTTGAAATACAGTATTTTCTACTTCATAAATTTTTTGACGGGATTTTTCTTGCTTTCAATTT
T
Found at i:1864044 original size:8 final size:8
Alignment explanation
Indices: 1864027--1864061 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
1864017 CAAAAATAAA
1864027 TTTA-TTT
1 TTTATTTT
1864034 TTTATTTT
1 TTTATTTT
1864042 TTTATTTT
1 TTTATTTT
1864050 TTTATTTT
1 TTTATTTT
1864058 TTTA
1 TTTA
1864062 CGTATGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.15
8 23 0.85
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTATTTT
Found at i:1864857 original size:43 final size:43
Alignment explanation
Indices: 1864766--1865045 Score: 330
Period size: 43 Copynumber: 6.8 Consensus size: 43
1864756 AAACAACACA
* *
1864766 AGCAGCAAGCATGAACAGCGAAGACAGCAG---CAA-A-CATG
1 AGCAGCAAGCACGAACAGCAAAGACAGCAGCAACAACAGCATG
* * * *
1864804 AGTAGCAAGCACGAATAGCAAAGACAGCAGCAACAACAACACG
1 AGCAGCAAGCACGAACAGCAAAGACAGCAGCAACAACAGCATG
* * *
1864847 AGCAACAAGCACGAACAACAAAGACAGTAGCAACAACAGCATG
1 AGCAGCAAGCACGAACAGCAAAGACAGCAGCAACAACAGCATG
1864890 AGCAGCAAGCACGAACAGCAAAGACAGCAGCAACAACAGCATG
1 AGCAGCAAGCACGAACAGCAAAGACAGCAGCAACAACAGCATG
* * *
1864933 AGCAGGAAGCACGAACAGC--A-A-AG-A-CAACAATAGTATG
1 AGCAGCAAGCACGAACAGCAAAGACAGCAGCAACAACAGCATG
* *
1864970 AGCAGCAAGCACAAACAGCAAAGACAACAGCAACAACAGCATG
1 AGCAGCAAGCACGAACAGCAAAGACAGCAGCAACAACAGCATG
* * *
1865013 AGCAGCAAGCATGAACATCAAAGACAGCCGCAA
1 AGCAGCAAGCACGAACAGCAAAGACAGCAGCAA
1865046 AAATAGCACG
Statistics
Matches: 203, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
37 28 0.14
38 27 0.13
39 3 0.01
40 2 0.01
41 5 0.02
42 2 0.01
43 136 0.67
ACGTcount: A:0.48, C:0.25, G:0.22, T:0.05
Consensus pattern (43 bp):
AGCAGCAAGCACGAACAGCAAAGACAGCAGCAACAACAGCATG
Found at i:1864912 original size:86 final size:84
Alignment explanation
Indices: 1864766--1865039 Score: 328
Period size: 80 Copynumber: 3.3 Consensus size: 84
1864756 AAACAACACA
* * * * * *
1864766 AGCAGCAAGCATGAACAGCGAAGACAG-CAGCAA-A-CATGAGTAGCAAGCACGAATAGCAAAGA
1 AGCAGCAAGCACGAACAACAAAGACAGACAACAACAGCATGAGCAGCAAGCACGAACAGCAAAGA
* *
1864828 CAGCAGCAACAACAACACG
66 CAGCAGCAACAACAGCATG
*
1864847 AGCAACAAGCACGAACAACAAAGACAGTAGCAACAACAGCATGAGCAGCAAGCACGAACAGCAAA
1 AGCAGCAAGCACGAACAACAAAGACAG-A-CAACAACAGCATGAGCAGCAAGCACGAACAGCAAA
1864912 GACAGCAGCAACAACAGCATG
64 GACAGCAGCAACAACAGCATG
* * * * *
1864933 AGCAGGAAGCACGAACAGC--A-A-AGACAACAATAGTATGAGCAGCAAGCACAAACAGCAAAGA
1 AGCAGCAAGCACGAACAACAAAGACAGACAACAACAGCATGAGCAGCAAGCACGAACAGCAAAGA
*
1864994 CAACAGCAACAACAGCATG
66 CAGCAGCAACAACAGCATG
* *
1865013 AGCAGCAAGCATGAACATCAAAGACAG
1 AGCAGCAAGCACGAACAACAAAGACAG
1865040 CCGCAAAAAT
Statistics
Matches: 165, Mismatches: 19, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
80 68 0.41
81 24 0.15
82 3 0.02
83 2 0.01
84 8 0.05
85 1 0.01
86 59 0.36
ACGTcount: A:0.49, C:0.25, G:0.22, T:0.05
Consensus pattern (84 bp):
AGCAGCAAGCACGAACAACAAAGACAGACAACAACAGCATGAGCAGCAAGCACGAACAGCAAAGA
CAGCAGCAACAACAGCATG
Found at i:1864918 original size:25 final size:25
Alignment explanation
Indices: 1864890--1864958 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 25
1864880 CAACAGCATG
1864890 AGCAGCAAGCACGAACAGCAAAGAC
1 AGCAGCAAGCACGAACAGCAAAGAC
*
1864915 AGCAGC-A--AC-AACAGC-ATG--
1 AGCAGCAAGCACGAACAGCAAAGAC
*
1864933 AGCAGGAAGCACGAACAGCAAAGAC
1 AGCAGCAAGCACGAACAGCAAAGAC
1864958 A
1 A
1864959 ACAATAGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
18 5 0.15
19 1 0.03
20 2 0.06
21 8 0.24
22 8 0.24
23 2 0.06
24 1 0.03
25 7 0.21
ACGTcount: A:0.48, C:0.26, G:0.25, T:0.01
Consensus pattern (25 bp):
AGCAGCAAGCACGAACAGCAAAGAC
Found at i:1865085 original size:123 final size:123
Alignment explanation
Indices: 1864846--1865068 Score: 302
Period size: 123 Copynumber: 1.8 Consensus size: 123
1864836 ACAACAACAC
* **
1864846 GAGCAACAAGCACGAACAACAAAGACAGTAGCAACAACAGCATGAGCAGCAAGCACGAACAGCAA
1 GAGCAACAAGCACAAACAACAAAGACAACAGCAACAACAGCATGAGCAGCAAGCACGAACAGCAA
* * * * * *
1864911 AGACAGCAGCAACAACAGCATGAGCAGGAAGCACGAACAGCAAAGACAACAATAGTAT
66 AGACAGCAGCAAAAACAGCACGAACAAGAAGCAAGAACAGCAAAGAAAACAATAGTAT
* * * *
1864969 GAGCAGCAAGCACAAACAGCAAAGACAACAGCAACAACAGCATGAGCAGCAAGCATGAACATCAA
1 GAGCAACAAGCACAAACAACAAAGACAACAGCAACAACAGCATGAGCAGCAAGCACGAACAGCAA
* * *
1865034 AGACAGCCGCAAAAATAGCACGAACAAGCAGCAAG
66 AGACAGCAGCAAAAACAGCACGAACAAGAAGCAAG
1865069 TCAGCAAGCA
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
123 85 1.00
ACGTcount: A:0.49, C:0.25, G:0.22, T:0.04
Consensus pattern (123 bp):
GAGCAACAAGCACAAACAACAAAGACAACAGCAACAACAGCATGAGCAGCAAGCACGAACAGCAA
AGACAGCAGCAAAAACAGCACGAACAAGAAGCAAGAACAGCAAAGAAAACAATAGTAT
Found at i:1865101 original size:25 final size:24
Alignment explanation
Indices: 1865073--1865120 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
1865063 AGCAAGTCAG
1865073 CAAGCAAAAA-CAAGCAAGGAAACAA
1 CAAGCAAAAAGC-AGC-AGGAAACAA
*
1865098 CAAGTAAAAAGCAGCAGGAAACA
1 CAAGCAAAAAGCAGCAGGAAACA
1865121 GCAAATAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 12 0.57
26 1 0.05
ACGTcount: A:0.60, C:0.19, G:0.19, T:0.02
Consensus pattern (24 bp):
CAAGCAAAAAGCAGCAGGAAACAA
Found at i:1867019 original size:142 final size:142
Alignment explanation
Indices: 1866759--1867041 Score: 347
Period size: 142 Copynumber: 2.0 Consensus size: 142
1866749 AATGGGTATT
* * *** *
1866759 TAGGATAGGTTTACCCTATCTATATCCTTTTTATGTCCTTTAGAGTTACCGGGATACTTTCACGT
1 TAGGATAGGTTCACCCTATCTATATCCTTTTTAAGTCCTTTAGAGTTACCAAAATACTTTCACAT
* * * *
1866824 CGAAGGTATACCCATAGGGGCATTTTCATAATTTTTCAAAACCGAGTTCTAGGTTATCACCGGGT
66 CAAAGGTATACCCATAAGGCCATTTTCATAATTTTTCAAAACCGAGTTCTAGGTTATCACCGAGT
1866889 CCACTTTTATGG
131 CCACTTTTATGG
* * *
1866901 TAGGATAGGTTCACCCCT-TTTATAGTCC-TTTTAAGTCTTTTAGGGTTACCAAAATACTTTCAC
1 TAGGATAGGTTCA-CCCTATCTATA-TCCTTTTTAAGTCCTTTAGAGTTACCAAAATACTTTCAC
* * * *
1866964 ATCAAAGGTATACCCATAATGCCATTTTCATAATTTTTTAGAATCGAG-TCTTAGGTTATCACCG
64 ATCAAAGGTATACCCATAAGGCCATTTTCATAATTTTTCAAAACCGAGTTC-TAGGTTATCACCG
* *
1867028 AGTTCGCTTTTATG
128 AGTCCACTTTTATG
1867042 TCGAAGGTGG
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
141 2 0.02
142 110 0.92
143 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (142 bp):
TAGGATAGGTTCACCCTATCTATATCCTTTTTAAGTCCTTTAGAGTTACCAAAATACTTTCACAT
CAAAGGTATACCCATAAGGCCATTTTCATAATTTTTCAAAACCGAGTTCTAGGTTATCACCGAGT
CCACTTTTATGG
Found at i:1867195 original size:156 final size:155
Alignment explanation
Indices: 1866901--1868080 Score: 1173
Period size: 156 Copynumber: 7.6 Consensus size: 155
1866891 ACTTTTATGG
* * * ** *
1866901 TAGGATAGGTTCACCCCTTTTATAGTCCTTTTAAGTCTTTTAGGGTTACCAAAATACTTTCACAT
1 TAGGATAGGTTCACCCCTTTTATAGTCTTTTTAAGTCCTTTAGGGTTACTAGGATACTTTCACGT
* ** ** ** * *
1866966 CAAAGGTATACCCATAATGCCATTTTCATAATTTTTTAGAATCGAGTCTTAGGTTATCACCGAGT
66 CAAAGGTAT-CCCTTAGGGGTATTTTTGTAATTTTTTAAAACCGAGTCTTAGGTTATCACCGAGT
*
1867031 -TCGCTTTTATGTCGAAGGTGGGTATT
130 CT-GCTTTTATGCCGAAGGTGGGTATT
* * *
1867057 TAGGATAGGTTCACCCCTTTTAGAGTCTTTTTTAAGTCCTTTAGGGATACTAGGATACTTTCATG
1 TAGGATAGGTTCACCCCTTTTATAGTC-TTTTTAAGTCCTTTAGGGTTACTAGGATACTTTCACG
* * *
1867122 TCAAAGGTATCCCTTAGGAGTATTTTTGTAATTTTTTAAAACCGAGTCTTAGGTTGTCACCGGGT
65 TCAAAGGTATCCCTTAGGGGTATTTTTGTAATTTTTTAAAACCGAGTCTTAGGTTATCACCGAGT
*
1867187 CTGTTTTTATGCCGAAGGTGGGTATT
130 CTGCTTTTATGCCGAAGGTGGGTATT
* * * *
1867213 TAGGATAGGTTTA-CCCTTTTATAATCCTTTTTAAGTCTTTTAAGGTTA-TCAGGATACTTTCAC
1 TAGGATAGGTTCACCCCTTTTATAGT-CTTTTTAAGTCCTTTAGGGTTACT-AGGATACTTTCAC
* * * * * *
1867276 GTCAAAGATATACCTATAAGGGTATTTTTGTAATTTTTCAAAACTGAGTCTTAGGTTATCACCGG
64 GTCAAAGGTATCCCT-TAGGGGTATTTTTGTAATTTTTTAAAACCGAGTCTTAGGTTATCACCGA
* *
1867341 GTCTGTTTTTAAGCCGAAGGTGGGTATT
128 GTCTGCTTTTATGCCGAAGGTGGGTATT
* * * * * *
1867369 TAGGATAGGTTCACCCATTTTATAATCCTTTTAAGTCCTTTATGGTTACTGGGATGCTTTCACGT
1 TAGGATAGGTTCACCCCTTTTATAGTCTTTTTAAGTCCTTTAGGGTTACTAGGATACTTTCACGT
* * * * ** * * * *
1867434 CGATGCTATACCTATAGGGGTATTTTCATAATTTTTCAAAACTGATTCTTAGGTTATCATCGAGT
66 CAAAGGTATCCCT-TAGGGGTATTTTTGTAATTTTTTAAAACCGAGTCTTAGGTTATCACCGAGT
* *
1867499 CTACTTTTATGCCGAAGGTTGGTATT
130 CTGCTTTTATGCCGAAGGTGGGTATT
* * * * ** *
1867525 TAGGATAGGTCCACCCTTTTTACAGTCCTTTTTAAGTCCTTTAGGGGTACCGGGAGACTTTCACG
1 TAGGATAGGTTCACCCCTTTTATAGT-CTTTTTAAGTCCTTTAGGGTTACTAGGATACTTTCACG
* * * * * *
1867590 TCGAAA-GTATCCCATAGGTGCATTTTTGTAATTTCTTAGAACCGAGTCCTAGGTTATCACC-AT
65 TC-AAAGGTATCCCTTAGGGGTATTTTTGTAATTTTTTAAAACCGAGTCTTAGGTTATCACCGA-
* *
1867653 GTCTGCTTTTATGCTGAAAGTGGGTATT
128 GTCTGCTTTTATGCCGAAGGTGGGTATT
* ** * *
1867681 TAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCATTTAAGGGTGCCGA-GATACCTTCAC
1 TAGGATAGGTTCACCCCTTTTATAGT-CTTTTTAAGTCCTTT-AGGGTTACTAGGATACTTTCAC
* * * * * * * *
1867745 ATCGAAGGTAT-CCTCTAGGGGTATTTTTGTAATTTTTTAGAACCGAGCCCTAGATTGTCACCAA
64 GTCAAAGGTATCCCT-TAGGGGTATTTTTGTAATTTTTTAAAACCGAGTCTTAGGTTATCACCGA
1867809 GTCTGCTTTTATGCCGAAGGTGGGTATT
128 GTCTGCTTTTATGCCGAAGGTGGGTATT
* * * *
1867837 TATGATAGGTTCACCCCTTTTATCA-TCCTTTTAAGCCCTTTAGGGTTAC-CGGATACTTTCACG
1 TAGGATAGGTTCACCCCTTTTAT-AGTCTTTTTAAGTCCTTTAGGGTTACTAGGATACTTTCACG
* * * * * * *
1867900 TCGAAGGTATACCCATAGGGGCATTTTTATAA--TTTTAAGAATCGAGTCCTAGGTTATCACCGG
65 TCAAAGGTAT-CCCTTAGGGGTATTTTTGTAATTTTTTAA-AACCGAGTCTTAGGTTATCACCGA
1867963 GT-TCGCTTTTATGCCGAAGGTGGGTATT
128 GTCT-GCTTTTATGCCGAAGGTGGGTATT
* * * * * * * *
1867991 TAGGATAGTTTCACCCCTTTTATAATCCTTTTAAAGTTCTTTTGGGGTA-TTGGGTAC-TTCTAC
1 TAGGATAGGTTCACCCCTTTTATAGT-CTTTTTAAGTCCTTTAGGGTTACTAGGATACTTTC-AC
* *
1868054 ATCGAAGGTATCCCTTAGGGGTATTTT
64 GTCAAAGGTATCCCTTAGGGGTATTTT
1868081 CCAAATTTTT
Statistics
Matches: 858, Mismatches: 142, Indels: 50
0.82 0.14 0.05
Matches are distributed among these distances:
153 7 0.01
154 110 0.13
155 118 0.14
156 524 0.61
157 98 0.11
158 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (155 bp):
TAGGATAGGTTCACCCCTTTTATAGTCTTTTTAAGTCCTTTAGGGTTACTAGGATACTTTCACGT
CAAAGGTATCCCTTAGGGGTATTTTTGTAATTTTTTAAAACCGAGTCTTAGGTTATCACCGAGTC
TGCTTTTATGCCGAAGGTGGGTATT
Found at i:1867468 original size:312 final size:309
Alignment explanation
Indices: 1866901--1868080 Score: 1320
Period size: 312 Copynumber: 3.8 Consensus size: 309
1866891 ACTTTTATGG
* * ** *
1866901 TAGGATAGGTTCACCCCTTTTATAGTCCTTTTAAGTCTTTTAGGGTTACCAAAATACTTTCACAT
1 TAGGATAGGTTCACCCCTTTTATAATCCTTTTAAGTCCTTTAGGGTTACCAGGATACTTTCACGT
* * * * * *
1866966 CAAAGGTATACCCATAATGCCATTTTCATAATTTTTTAGAATCGAGTCTTAGGTTATCACCGAGT
66 CAAAGGTATACCCATAAGGGCATTTTTATAA-TTTTTAAAATCGAGTCCTAGGTTATCACCGGGT
* * * *
1867031 TCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTAGAGTCTTTTTTAAGTCC
130 TCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTATAATC-CTTTTAAGTCC
* * * * *
1867096 TTTAGGGATACTAGGATACTTTCATGTCAAAGGTATCCCTTAGGAGTATTTTTGTAATTTTTTAA
194 TTTAAGGATACTGGGATACTTTCACGTCGAAGGTAT-CCTTAGGGGTATTTTTGTAATTTTTTAA
* *
1867161 AACCGAGTCTTAGGTTGTCACCGGGTCTGTTTTTATGCCGAAGGTGGGTATT
258 AACCGAGTCTTAGGTTGTCACCGAGTCTGCTTTTATGCCGAAGGTGGGTATT
* * * *
1867213 TAGGATAGGTTTA-CCCTTTTATAATCCTTTTTAAGTCTTTTAAGGTTATCAGGATACTTTCACG
1 TAGGATAGGTTCACCCCTTTTATAATCC-TTTTAAGTCCTTTAGGGTTACCAGGATACTTTCACG
* * * * *
1867277 TCAAAGATATACCTATAAGGGTATTTTTGTAATTTTTCAAAA-CTGAGTCTTAGGTTATCACCGG
65 TCAAAGGTATACCCATAAGGGCATTTTTATAATTTTT-AAAATC-GAGTCCTAGGTTATCACCGG
* * *
1867341 G-TCTGTTTTTAAGCCGAAGGTGGGTATTTAGGATAGGTTCACCCATTTTATAATCCTTTTAAGT
128 GTTC-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTATAATCCTTTTAAGT
* * * * * **
1867405 CCTTTATGGTTACTGGGATGCTTTCACGTCGATGCTATACCTATAGGGGTATTTTCATAATTTTT
192 CCTTTAAGGATACTGGGATACTTTCACGTCGAAGGTAT-CCT-TAGGGGTATTTTTGTAATTTTT
* * * * * * *
1867470 CAAAACTGATTCTTAGGTTATCATCGAGTCTACTTTTATGCCGAAGGTTGGTATT
255 TAAAACCGAGTCTTAGGTTGTCACCGAGTCTGCTTTTATGCCGAAGGTGGGTATT
* * * * * * *
1867525 TAGGATAGGTCCACCCTTTTTACAGTCCTTTTTAAGTCCTTTAGGGGTACCGGGAGACTTTCACG
1 TAGGATAGGTTCACCCCTTTTATAATCC-TTTTAAGTCCTTTAGGGTTACCAGGATACTTTCACG
* * * *
1867590 TCGAAA-GTAT-CCCAT-AGGTGCATTTTTGTAATTTCTTAGAACCGAGTCCTAGGTTATCACCA
65 TC-AAAGGTATACCCATAAGG-GCATTTTTATAATTT-TTAAAATCGAGTCCTAGGTTATCACCG
* * * *
1867652 TG-TCTGCTTTTATGCTGAAAGTGGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAA
127 GGTTC-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTATAATCC-TTTTAA
* * * * * * *
1867716 GTCATTTAAGGGTGCCGAGATACCTTCACATCGAAGGTATCCTCTAGGGGTATTTTTGTAATTTT
190 GTCCTTTAAGGATACTGGGATACTTTCACGTCGAAGGTATCCT-TAGGGGTATTTTTGTAATTTT
* * * * *
1867781 TTAGAACCGAGCCCTAGATTGTCACCAAGTCTGCTTTTATGCCGAAGGTGGGTATT
254 TTAAAACCGAGTCTTAGGTTGTCACCGAGTCTGCTTTTATGCCGAAGGTGGGTATT
* * *
1867837 TATGATAGGTTCACCCCTTTTATCATCCTTTTAAGCCCTTTAGGGTTACC-GGATACTTTCACGT
1 TAGGATAGGTTCACCCCTTTTATAATCCTTTTAAGTCCTTTAGGGTTACCAGGATACTTTCACGT
* *
1867901 CGAAGGTATACCCATAGGGGCATTTTTATAA-TTTTAAGAATCGAGTCCTAGGTTATCACCGGGT
66 CAAAGGTATACCCATAAGGGCATTTTTATAATTTTTAA-AATCGAGTCCTAGGTTATCACCGGGT
* *
1867965 TCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGTTTCACCCCTTTTATAATCCTTTTAAAGTTC
130 TCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTATAATCCTTTT-AAGTCC
** * * *
1868030 TTTTGGGGTATTGGG-TAC-TTCTACATCGAAGGTATCCCTTAGGGGTATTTT
194 TTTAAGGATACTGGGATACTTTC-ACGTCGAAGGTAT-CCTTAGGGGTATTTT
1868081 CCAAATTTTT
Statistics
Matches: 727, Mismatches: 122, Indels: 41
0.82 0.14 0.05
Matches are distributed among these distances:
308 3 0.00
309 37 0.05
310 106 0.15
311 103 0.14
312 390 0.54
313 85 0.12
314 3 0.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (309 bp):
TAGGATAGGTTCACCCCTTTTATAATCCTTTTAAGTCCTTTAGGGTTACCAGGATACTTTCACGT
CAAAGGTATACCCATAAGGGCATTTTTATAATTTTTAAAATCGAGTCCTAGGTTATCACCGGGTT
CGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTATAATCCTTTTAAGTCCTT
TAAGGATACTGGGATACTTTCACGTCGAAGGTATCCTTAGGGGTATTTTTGTAATTTTTTAAAAC
CGAGTCTTAGGTTGTCACCGAGTCTGCTTTTATGCCGAAGGTGGGTATT
Found at i:1867566 original size:468 final size:465
Alignment explanation
Indices: 1866901--1868080 Score: 1431
Period size: 468 Copynumber: 2.5 Consensus size: 465
1866891 ACTTTTATGG
* * ** *
1866901 TAGGATAGGTTCACCCCTTTTATAGTCCTTTTAAGTCTTTTAGGGTTACCAAAATACTTTCACAT
1 TAGGATAGGTTCACCCCTTTTATAATCCTTTTAAGTCCTTTAGGGTTA-CAGGATACTTTCACGT
* ** * *
1866966 CAAAGGTATACCCATAATGCCATTTTCATAATTTTTTAGAATCGAGTCTTAGGTTATCACCGAGT
65 CGAAGGTATACCCATAGGGGCATTTTCATAA-TTTTTAAAATCGAGTCTTAGGTTATCACCGAGT
* * *
1867031 TCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTAGAGTCTTTTTTAAGTCC
129 TCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTACAGTCCTTTTTAAGTCC
* *
1867096 TTTAGGGATACTAGGATACTTTCATGTCAAAGGTATCCCTTAGGAGTATTTTTGTAATTTTTTAA
194 TTTAGGGGTACTAGGATACTTTCA-GTCAAAGGTATCCCTTAGGAGTATTTTTGTAATTTCTTAA
* * * * * *
1867161 AACCGAGTCTTAGGTTGTCACCGGGTCTGTTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTTA
258 AACCGAGTCCTAGGTTATCACCAGGTCTGCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCA
* * * * *
1867226 -CCCTTTTATAATCCTTTTTAAGTCTTTTAAGGTTATCAG-GATACTTTCACGTCAAAGATATAC
323 CCCCTTTTATAATCCTTTTTAAGTCATTTAAGGGT-GCAGAGATACCTTCACATCAAAGATAT-C
* * * * ** *
1867289 CTATAAGGGTATTTTTGTAATTTTTCAAAACTGAGTCTTAGGTTATCACCGGGTCTGTTTTTAAG
386 CTATAAGGGTATTTTTGTAATTTTTCAAAACCGAGCCCTAGATTATCACCAAGTCTGCTTTTAAG
1867354 CCGAAGGTGGGTATT
451 CCGAAGGTGGGTATT
* * * *
1867369 TAGGATAGGTTCACCCATTTTATAATCCTTTTAAGTCCTTTATGGTTACTGGGATGCTTTCACGT
1 TAGGATAGGTTCACCCCTTTTATAATCCTTTTAAGTCCTTTAGGGTTAC-AGGATACTTTCACGT
* * * * * *
1867434 CGATGCTATACCTATAGGGGTATTTTCATAATTTTTCAAAA-CTGATTCTTAGGTTATCATCGAG
65 CGAAGGTATACCCATAGGGGCATTTTCATAATTTTT-AAAATC-GAGTCTTAGGTTATCACCGAG
* * * *
1867498 -TCTACTTTTATGCCGAAGGTTGGTATTTAGGATAGGTCCACCCTTTTTACAGTCCTTTTTAAGT
128 TTC-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTACAGTCCTTTTTAAGT
** * * * *
1867562 CCTTTAGGGGTACCGGGAGACTTTCACGTCGAAA-GTATCCCATAGGTGCATTTTTGTAATTTCT
192 CCTTTAGGGGTACTAGGATACTTTCA-GTC-AAAGGTATCCCTTAGGAGTATTTTTGTAATTTCT
* * *
1867626 TAGAACCGAGTCCTAGGTTATCACCATGTCTGCTTTTATGCTGAAAGTGGGTATTTAGGATAGGT
255 TAAAACCGAGTCCTAGGTTATCACCAGGTCTGCTTTTATGCCGAAAGTGGGTATTTAGGATAGGT
* * * *
1867691 TCACCCCTTTTATAGTCCTTTTTAAGTCATTTAAGGGTGCCGAGATACCTTCACATCGAAGGTAT
320 TCACCCCTTTTATAATCCTTTTTAAGTCATTTAAGGGTGCAGAGATACCTTCACATCAAAGATAT
* * * * * *
1867756 CCTCTAGGGGTATTTTTGTAATTTTTTAGAACCGAGCCCTAGATTGTCACCAAGTCTGCTTTTAT
385 CCTATAAGGGTATTTTTGTAATTTTTCAAAACCGAGCCCTAGATTATCACCAAGTCTGCTTTTAA
1867821 GCCGAAGGTGGGTATT
450 GCCGAAGGTGGGTATT
* * * *
1867837 TATGATAGGTTCACCCCTTTTATCATCCTTTTAAGCCCTTTAGGGTTACCGGATACTTTCACGTC
1 TAGGATAGGTTCACCCCTTTTATAATCCTTTTAAGTCCTTTAGGGTTACAGGATACTTTCACGTC
* * *
1867902 GAAGGTATACCCATAGGGGCATTTTTATAA-TTTTAAGAATCGAGTCCTAGGTTATCACCGGGTT
66 GAAGGTATACCCATAGGGGCATTTTCATAATTTTTAA-AATCGAGTCTTAGGTTATCACCGAGTT
* * * * *
1867966 CGCTTTTATGCCGAAGGTGGGTATTTAGGATAGTTTCACCCCTTTTATAATCCTTTTAAAGTTCT
130 CGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTACAGTCCTTTTTAAGTCCT
* * * * *
1868031 TTTGGGGTA-TTGGGTACTTCTACA-TCGAAGGTATCCCTTAGGGGTATTTT
195 TTAGGGGTACTAGGATACTT-T-CAGTCAAAGGTATCCCTTAGGAGTATTTT
1868081 CCAAATTTTT
Statistics
Matches: 598, Mismatches: 101, Indels: 29
0.82 0.14 0.04
Matches are distributed among these distances:
464 2 0.00
465 27 0.05
466 87 0.15
467 53 0.09
468 377 0.63
469 52 0.09
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (465 bp):
TAGGATAGGTTCACCCCTTTTATAATCCTTTTAAGTCCTTTAGGGTTACAGGATACTTTCACGTC
GAAGGTATACCCATAGGGGCATTTTCATAATTTTTAAAATCGAGTCTTAGGTTATCACCGAGTTC
GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTACAGTCCTTTTTAAGTCCTT
TAGGGGTACTAGGATACTTTCAGTCAAAGGTATCCCTTAGGAGTATTTTTGTAATTTCTTAAAAC
CGAGTCCTAGGTTATCACCAGGTCTGCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCACCC
CTTTTATAATCCTTTTTAAGTCATTTAAGGGTGCAGAGATACCTTCACATCAAAGATATCCTATA
AGGGTATTTTTGTAATTTTTCAAAACCGAGCCCTAGATTATCACCAAGTCTGCTTTTAAGCCGAA
GGTGGGTATT
Found at i:1871569 original size:9 final size:9
Alignment explanation
Indices: 1871554--1871615 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
1871544 AATAACAAAT
1871554 AACAAAAAA
1 AACAAAAAA
*
1871563 CACAAAAAA
1 AACAAAAAA
*
1871572 AACAAAAAC
1 AACAAAAAA
*
1871581 AAGAAAAGAA
1 AACAAAA-AA
*
1871591 AAAAAAGAAA
1 AACAAA-AAA
*
1871601 AAGAAAAAA
1 AACAAAAAA
*
1871610 ATCAAA
1 AACAAA
1871616 TGAAAAAGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
9 28 0.67
10 13 0.31
11 1 0.02
ACGTcount: A:0.82, C:0.10, G:0.06, T:0.02
Consensus pattern (9 bp):
AACAAAAAA
Found at i:1871587 original size:15 final size:14
Alignment explanation
Indices: 1871557--1871608 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
1871547 AACAAATAAC
* *
1871557 AAAAAACACAAAAA
1 AAAAAAAACAAGAA
1871571 AAACAAAAACAAGAA
1 AAA-AAAAACAAGAA
1871586 AAGAAAAAA-AAGAA
1 AA-AAAAAACAAGAA
1871600 AAAGAAAAA
1 AAA-AAAAA
1871609 AATCAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 1 0.03
14 15 0.45
15 16 0.48
16 1 0.03
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAGAA
Found at i:1871587 original size:17 final size:17
Alignment explanation
Indices: 1871557--1871610 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 17
1871547 AACAAATAAC
1871557 AAAAAACACAAAAA-AA
1 AAAAAACACAAAAAGAA
1871573 ACAAAAACA-AGAAAAG-A
1 A-AAAAACACA-AAAAGAA
*
1871590 AAAAAA-AGAAAAAGAA
1 AAAAAACACAAAAAGAA
1871606 AAAAA
1 AAAAA
1871611 TCAAATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
15 6 0.18
16 14 0.42
17 13 0.39
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (17 bp):
AAAAAACACAAAAAGAA
Found at i:1871592 original size:14 final size:15
Alignment explanation
Indices: 1871569--1871659 Score: 71
Period size: 14 Copynumber: 6.1 Consensus size: 15
1871559 AAAACACAAA
* *
1871569 AAAAACAAAAACAAG
1 AAAAAGAAAAAAAAG
1871584 -AAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
*
1871598 AAAAAG-AAAAAAAT
1 AAAAAGAAAAAAAAG
* *
1871612 CAAATGAAAAAGAAAG
1 AAAAAGAAAAA-AAAG
**
1871628 TGAAA-AAAAAAAAG
1 AAAAAGAAAAAAAAG
1871642 AAAAATGAAAGAAAAAG
1 AAAAA-GAAA-AAAAAG
1871659 A
1 A
1871660 TGAGGAAATA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
14 30 0.51
15 14 0.24
16 8 0.14
17 7 0.12
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.04
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:1871626 original size:6 final size:6
Alignment explanation
Indices: 1871592--1871659 Score: 52
Period size: 6 Copynumber: 11.2 Consensus size: 6
1871582 AGAAAAGAAA
** *
1871592 AAAAAG AAAAAG AAAAA- AATCAAATG AAAAAG AAAGTG AAAAAA AAAAAG
1 AAAAAG AAAAAG AAAAAG AA--AAA-G AAAAAG AAAAAG AAAAAG AAAAAG
1871642 AAAAATG --AAAG AAAAAG A
1 AAAAA-G AAAAAG AAAAAG A
1871660 TGAGGAAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
4 1 0.02
5 5 0.10
6 34 0.69
7 7 0.14
9 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:1871633 original size:25 final size:25
Alignment explanation
Indices: 1871603--1871652 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
1871593 AAAAGAAAAA
*
1871603 GAAAAAAATCAAATGAAAAA-GAAAGT
1 GAAAAAAA--AAAAGAAAAATGAAAGT
1871629 GAAAAAAAAAAAGAAAAATGAAAG
1 GAAAAAAAAAAAGAAAAATGAAAG
1871653 AAAAAGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.41
25 5 0.23
26 8 0.36
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.08
Consensus pattern (25 bp):
GAAAAAAAAAAAGAAAAATGAAAGT
Found at i:1872538 original size:12 final size:13
Alignment explanation
Indices: 1872516--1872544 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1872506 AGGCTTATTA
1872516 AAAAAATAAAAAC
1 AAAAAATAAAAAC
1872529 AAAAAA-AAAAAC
1 AAAAAATAAAAAC
1872541 AAAA
1 AAAA
1872545 TACTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAAAATAAAAAC
Found at i:1875953 original size:20 final size:20
Alignment explanation
Indices: 1875924--1875975 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1875914 TCCCGGTACT
* *
1875924 ATGTAACGATACTTTTCATA
1 ATGTATCGATACTTTTCAGA
* *
1875944 ATGTATCGATACTTTTTAGC
1 ATGTATCGATACTTTTCAGA
1875964 ATGTATCGATAC
1 ATGTATCGATAC
1875976 AATGTATCGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACTTTTCAGA
Found at i:1875982 original size:13 final size:13
Alignment explanation
Indices: 1875964--1875993 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1875954 ACTTTTTAGC
1875964 ATGTATCGATACA
1 ATGTATCGATACA
*
1875977 ATGTATCGATGCA
1 ATGTATCGATACA
1875990 ATGT
1 ATGT
1875994 CCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1877937 original size:20 final size:21
Alignment explanation
Indices: 1877912--1877966 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
1877902 AAAAACCCAG
1877912 AATGTATCGATACAAAGAAT-
1 AATGTATCGATACAAAGAATA
* * * *
1877932 AATGTATTGATATAAATAGTA
1 AATGTATCGATACAAAGAATA
*
1877953 AATGTGTCGATACA
1 AATGTATCGATACA
1877967 TTTAGTTATG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACAAAGAATA
Found at i:1878040 original size:21 final size:21
Alignment explanation
Indices: 1878014--1878068 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1878004 AGGAAGCTTC
*
1878014 GTATCGATGCATTTTAGGCAT
1 GTATCGATACATTTTAGGCAT
1878035 GTATCGATACATTTTAGGCAT
1 GTATCGATACATTTTAGGCAT
1878056 GTATCGATACATT
1 GTATCGATACATT
1878069 GTATGGATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (21 bp):
GTATCGATACATTTTAGGCAT
Found at i:1879059 original size:52 final size:51
Alignment explanation
Indices: 1878949--1879060 Score: 116
Period size: 52 Copynumber: 2.1 Consensus size: 51
1878939 TAAAGATGAC
* * * **
1878949 AAGAGTGATAAAGGTACCAATATGCTGATTAAAAGCCAACGATATTGGGCTT
1 AAGA-TGACAAAGGTACCAATATGCTAATTAAAAGCCAACGACATTGAACTT
* * * *
1879001 AGAGATGACAAAGGTGCCAATATGCTAATTCAATGCCAGCGACATTGAACTT
1 A-AGATGACAAAGGTACCAATATGCTAATTAAAAGCCAACGACATTGAACTT
1879053 GAAGATGA
1 -AAGATGA
1879061 GAAGAATAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
52 45 0.92
53 4 0.08
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (51 bp):
AAGATGACAAAGGTACCAATATGCTAATTAAAAGCCAACGACATTGAACTT
Found at i:1879122 original size:61 final size:61
Alignment explanation
Indices: 1879015--1879178 Score: 184
Period size: 61 Copynumber: 2.7 Consensus size: 61
1879005 ATGACAAAGG
* * ** * * *
1879015 TGCCAATATGCTAATTCAATGCCAGCGACATTGAACTTGAAGATGAGAAGAATAATAAAAA
1 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAAATGAGAAAAATAATAAAAA
* * * * **
1879076 TGCTAATATGCTAATTCACGGCCAGCGATATCGGGCTTAAAAATGAGAAAAATGATAAAGG
1 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAAATGAGAAAAATAATAAAAA
* **
1879137 TGCCAATATACTAATTCAAGGCCAATGATATTGGGCTTAAAA
1 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAA
1879179 TGACAAAGGT
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 84 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (61 bp):
TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAAATGAGAAAAATAATAAAAA
Found at i:1879227 original size:51 final size:51
Alignment explanation
Indices: 1879124--1879227 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 51
1879114 AAAAATGAGA
* * * *
1879124 AAAATGATAAAGGTGCCAATATACTAATTCAAGGCCAATGATATTGGGCTT
1 AAAATGACAAAGGTGCCAATATACTAATTCAAGGCCAATGACATTAGACTT
* * *
1879175 AAAATGACAAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTAGACTT
1 AAAATGACAAAGGTGCCAATATACTAATTCAAGGCCAATGACATTAGACTT
1879226 AA
1 AA
1879228 GGATGAGAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (51 bp):
AAAATGACAAAGGTGCCAATATACTAATTCAAGGCCAATGACATTAGACTT
Found at i:1879255 original size:173 final size:174
Alignment explanation
Indices: 1878954--1879266 Score: 425
Period size: 173 Copynumber: 1.8 Consensus size: 174
1878944 ATGACAAGAG
* * *
1878954 TGATAAAGGTACCAATATGCTGATTAAAAGCCAACGATATTGGGCTTAGAGATGACAAAGGTGCC
1 TGATAAAGGTACCAATATACTAATTAAAAGCCAACGATATTGGGCTTAGAAATGACAAAGGTGCC
* *
1879019 AATATGCTAATTCAATGCCAGCGACATTGAACTTGAAGATGAGAAGAATAATAAAAATGCTAATA
66 AATATGCTAATTCAAGGCCAACGACATTGAACTTGAAGATGAGAAGAATAATAAAAATGCTAATA
*
1879084 TGCTAATTCACGGCCAGCGATATCGGGCTTAAAAATGAGAAAAA
131 TACTAATTCACGGCCAGCGATATCGGGCTTAAAAATGAGAAAAA
* * * *
1879128 TGATAAAGGTGCCAATATACTAATTCAAGGCCAATGATATTGGGCTTA-AAATGACAAAGGTGCC
1 TGATAAAGGTACCAATATACTAATTAAAAGCCAACGATATTGGGCTTAGAAATGACAAAGGTGCC
* * * ** **
1879192 AATGTGCTGATTCAAGGCCAATGACATT-AGACTT-AAGGATGAGAAGAATGGTAAAGTTGCTAA
66 AATATGCTAATTCAAGGCCAACGACATTGA-ACTTGAA-GATGAGAAGAATAATAAAAATGCTAA
*
1879255 TATACTGATTCA
129 TATACTAATTCA
1879267 AGGTCAACGA
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
172 3 0.03
173 74 0.62
174 42 0.35
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (174 bp):
TGATAAAGGTACCAATATACTAATTAAAAGCCAACGATATTGGGCTTAGAAATGACAAAGGTGCC
AATATGCTAATTCAAGGCCAACGACATTGAACTTGAAGATGAGAAGAATAATAAAAATGCTAATA
TACTAATTCACGGCCAGCGATATCGGGCTTAAAAATGAGAAAAA
Found at i:1879608 original size:33 final size:33
Alignment explanation
Indices: 1879539--1880071 Score: 441
Period size: 33 Copynumber: 16.5 Consensus size: 33
1879529 GATGCCACTG
* *
1879539 ACTTGTGTGGGCTTTTG-AGAAGGTTGCCACCA
1 ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
* * * *
1879571 ACTTATGTGGGCTTTTGAAGAGGGTTGTCACCG
1 ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
* * * * * * *
1879604 ACTTATGCGAGCTTT-GGAGAAGCGTTACCACCG
1 ACTTGTGTGGGCTTTAGAAG-AGGGTTGCCACCA
* * * * * *
1879637 ACCTGTGCGGGCTTTGGAAAAGGGTTACCACAA
1 ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
* * **
1879670 ACTTTTGTGGACTTTAG-AGAAGGGTTGCCACTG
1 ACTTGTGTGGGCTTTAGAAG-AGGGTTGCCACCA
*
1879703 ACTTGTGTGGGCTTTAGAAGA-GTTTGCCACCA
1 ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
* * * *
1879735 ACTTTTATGGGCTTTAGAA-AGGGTTGCTACTA
1 ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
* * *
1879767 GCTTGTGTGGGCTTTAG-A-AGGGTTACCACCG
1 ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
* * *
1879798 ACCTGTGTGGGCTTT-GGAGAGGGGTTGCCTCCA
1 ACTTGTGTGGGCTTTAGAAGA-GGGTTGCCACCA
* * *
1879831 GCTTGTGTGAGTTTTAG-AGAAGGGTTGCCACCA
1 ACTTGTGTGGGCTTTAGAAG-AGGGTTGCCACCA
* * *
1879864 ACTTGTGTAGGCTTTAAAAGA-GATTGCCACCA
1 ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
* ***
1879896 ACTTGTGTGGGCTTTTGAAG-GGGTTGCCATTG
1 ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
* * * *
1879928 ACTTCTATGGGCTTTAGAAGA-GGATGCCACCG
1 ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
* *
1879960 ACTTGTGT-GGCTTTAAAAG-GGGTTACCACCA
1 ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
*
1879991 GCTTGTGTGGGCTTTAG-AGAAGGGTTGCCACCA
1 ACTTGTGTGGGCTTTAGAAG-AGGGTTGCCACCA
1880024 ACTTGTGTGGGCTTTAG-AGAAGGGTTGCCACCA
1 ACTTGTGTGGGCTTTAGAAG-AGGGTTGCCACCA
1880057 ACTTGTGTGGGCTTT
1 ACTTGTGTGGGCTTT
1880072 TAAAAGGATG
Statistics
Matches: 400, Mismatches: 83, Indels: 35
0.77 0.16 0.07
Matches are distributed among these distances:
30 1 0.00
31 52 0.13
32 140 0.35
33 199 0.50
34 8 0.02
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (33 bp):
ACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCA
Found at i:1879859 original size:161 final size:160
Alignment explanation
Indices: 1879539--1880094 Score: 608
Period size: 161 Copynumber: 3.4 Consensus size: 160
1879529 GATGCCACTG
*
1879539 ACTTGTGTGGGCTTTTGAGAAG-GTTGCCACCAACTTATGTGGGCTTTTGAAGAGGGTTG-TCAC
1 ACTTGTGTGGGC-TTT-AGAAGAGTTGCCACCAACTTGTGTGGGCTTTTGAA-AGGGTTGCT-AC
* * * * * *
1879602 -CGACTTATGCGAGCTTTGGAGAAGCGTTACCACCGACCTGTGCGGGCTTTGGAAAAGGGTTACC
62 TAGACTTATGTGGGCTTT--AGAAGGGTTACCACCGACCTGTGTGGGCTTTGGAAAGGGGTTACC
* * * **
1879666 ACAAACTTTTGTGGACTTTAGAGAAGGGTTGCCACTG
125 ACCAGCTTGTGTGG-CTTTAGAGAAGGGTTGCCACCA
* * *
1879703 ACTTGTGTGGGCTTTAGAAGAGTTTGCCACCAACTTTTATGGGCTTTAGAAAGGGTTGCTACTAG
1 ACTTGTGTGGGCTTTAGAAGAG-TTGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTGCTACTAG
* * * *
1879768 -CTTGTGTGGGCTTTAGAAGGGTTACCACCGACCTGTGTGGGCTTTGGAGAGGGGTTGCCTCCAG
65 ACTTATGTGGGCTTTAGAAGGGTTACCACCGACCTGTGTGGGCTTTGGAAAGGGGTTACCACCAG
*
1879832 CTTGTGTGAGTTTTAGAGAAGGGTTGCCACCA
130 CTTGTGTG-GCTTTAGAGAAGGGTTGCCACCA
* * * * *
1879864 ACTTGTGTAGGCTTTAAAAGAGATTGCCACCAACTTGTGTGGGCTTTTGAAGGGGTTGCCA-TTG
1 ACTTGTGTGGGCTTTAGAAGAG-TTGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTGCTACTAG
* * * * * *
1879928 ACTTCTATGGGCTTTAGAAGAGGATGCCACCGACTTGTGT-GGCTTT-AAAAGGGGTTACCACCA
65 ACTTATGTGGGCTTTAGAAG-GGTTACCACCGACCTGTGTGGGCTTTGGAAAGGGGTTACCACCA
1879991 GCTTGTGTGGGCTTTAGAGAAGGGTTGCCACCA
129 GCTTGTGT-GGCTTTAGAGAAGGGTTGCCACCA
* * * *
1880024 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTT-AAAAGGATGCCACT-
1 ACTTGTGTGGGCTTT--AGAAGAGTTGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTGCTACTA
1880087 GACTTATG
64 GACTTATG
1880095 GGCTTTGAAA
Statistics
Matches: 335, Mismatches: 46, Indels: 26
0.82 0.11 0.06
Matches are distributed among these distances:
160 74 0.22
161 171 0.51
162 27 0.08
163 24 0.07
164 39 0.12
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (160 bp):
ACTTGTGTGGGCTTTAGAAGAGTTGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTGCTACTAGA
CTTATGTGGGCTTTAGAAGGGTTACCACCGACCTGTGTGGGCTTTGGAAAGGGGTTACCACCAGC
TTGTGTGGCTTTAGAGAAGGGTTGCCACCA
Found at i:1879939 original size:193 final size:193
Alignment explanation
Indices: 1879614--1880147 Score: 522
Period size: 193 Copynumber: 2.8 Consensus size: 193
1879604 ACTTATGCGA
* * * * * * * * * * * *
1879614 GCTTTGGAGAAGCGTTACCACCGACCTGTGCGGGCTTTGGAAAAGGGTTACCACAAACTTTTGT-
1 GCTTTAGAGAAGGGTTGCCACCAACTTGTGTGAGCTTTAGAGAAGGGTTGCCACCAACTTGTGTA
* ** * *
1879678 GGAC-TTTAGAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAGAGTTTGCCACCAACTTTTA
66 GG-CTTTTA-A-AAGGATTGCCACCAACTTGTGTGGGCTTTAGAAGAGGTTGCCACCAACTTCTA
* * *
1879742 TGGGCTTTAGAA-AGGGTTGCTACTAG-CTTGTGTGGGCTTTAGAA-GGGTTACCACC-GACCTG
128 TGGGCTTTAGAAGA-GGATGCCAC-AGACTTGTGT-GGCTTTAAAAGGGGTTACCACCAG-CCTG
1879803 TGTGG
189 TGTGG
* * * * *
1879808 GCTTTGGAGAGGGGTTGCCTCCAGCTTGTGTGAGTTTTAGAGAAGGGTTGCCACCAACTTGTGTA
1 GCTTTAGAGAAGGGTTGCCACCAACTTGTGTGAGCTTTAGAGAAGGGTTGCCACCAACTTGTGTA
* * ***
1879873 GGC-TTTAAAAGAGATTGCCACCAACTTGTGTGGGCTTTTGAAGGGGTTGCCATTGACTTCTATG
66 GGCTTTTAAAAG-GATTGCCACCAACTTGTGTGGGCTTTAGAAGAGGTTGCCACCAACTTCTATG
* *
1879937 GGCTTTAGAAGAGGATGCCACCGACTTGTGTGGCTTTAAAAGGGGTTACCACCAGCTTGTGTGG
130 GGCTTTAGAAGAGGATGCCACAGACTTGTGTGGCTTTAAAAGGGGTTACCACCAGCCTGTGTGG
* *
1880001 GCTTTAGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTGTG
1 GCTTTAGAGAAGGGTTGCCACCAACTTGTGTGAGCTTTAGAGAAGGGTTGCCACCAACTTGTGTA
** * * *
1880066 GGCTTTTAAAAGGA-TGCCACTGAC-T-TATGGGCTTT-GAA-AGGGTGCCACTAAC-TC-ATGG
66 GGCTTTTAAAAGGATTGCCACCAACTTGTGTGGGCTTTAGAAGAGGTTGCCACCAACTTCTATGG
* *
1880124 GCTTT-GAAAAGGATGCCACTGACT
131 GCTTTAGAAGAGGATGCCACAGACT
1880148 CGTGAGCTTT
Statistics
Matches: 287, Mismatches: 46, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
185 17 0.06
186 9 0.03
187 2 0.01
188 10 0.03
189 3 0.01
190 9 0.03
191 1 0.00
192 21 0.07
193 149 0.52
194 64 0.22
195 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (193 bp):
GCTTTAGAGAAGGGTTGCCACCAACTTGTGTGAGCTTTAGAGAAGGGTTGCCACCAACTTGTGTA
GGCTTTTAAAAGGATTGCCACCAACTTGTGTGGGCTTTAGAAGAGGTTGCCACCAACTTCTATGG
GCTTTAGAAGAGGATGCCACAGACTTGTGTGGCTTTAAAAGGGGTTACCACCAGCCTGTGTGG
Found at i:1880111 original size:28 final size:28
Alignment explanation
Indices: 1880062--1880400 Score: 340
Period size: 28 Copynumber: 11.9 Consensus size: 28
1880052 CACCAACTTG
*
1880062 TGTGGGCTTTTAAAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * *
1880091 TATGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
**
1880119 CATGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
1880148 CGTGAGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1880176 CGTGAGCTTTGAAAGGATGCCAATAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1880204 TGTGGGTTTTAAAAGGGTTGCTACCGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
*
1880233 TGTGGGCTTTCAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
1880261 TGTGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * * *
1880290 TGTGGGCTTTAAAAGGGTTCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1880318 TATGGGCTTTTGAAAAGG-TGCCATTAACT
1 TGTGGGC-TTTG-AAAGGATGCCACTGACT
*
1880347 TATGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
1880375 TGTAGGCTTTAAAAGGGTGCCACTGA
1 TGTGGGCTTTGAAAGGATGCCACTGA
1880401 GTCATGGACT
Statistics
Matches: 265, Mismatches: 39, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
27 5 0.02
28 158 0.60
29 97 0.37
30 5 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:1880128 original size:57 final size:57
Alignment explanation
Indices: 1880064--1880430 Score: 337
Period size: 57 Copynumber: 6.4 Consensus size: 57
1880054 CCAACTTGTG
* *
1880064 TGGGCTTTTAAAAGGATGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTAACTCA
1 TGGGCTTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCA
* * * * *
1880121 TGGGCTTTGAAAAGGATGCCACTGACTCGTGAGCTTTGAAAGGATGCCACTGACTCG
1 TGGGCTTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCA
* * * * * * * * **
1880178 TGAGC-TTTGAAAGGATGCCAATAACTTGTGGGTTTTAAAAGGGTTGCTACCGACTTG
1 TGGGCTTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG-TGCCACTGACTCA
* * **
1880235 TGGGC-TTTCAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTTAAAAGGATGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTGACTCA
* * * * * * * *
1880292 TGGGC-TTTAAAAGGGTTCCACTAACTTATGGGCTTTTGAAAAGGTGCCATTAACTTA
1 TGGGCTTTTAAAAGGATGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTGACTCA
* * * *
1880349 TGGGCTTTGAAAAGG-TGCCACTGACTTGTAGGCTTTAAAAGGGTGCCACTGAGTCA
1 TGGGCTTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCA
* ** *
1880405 TGGACTTGGAGAAGAGATGCCACTGA
1 TGGGCTTTTAAAAG-GATGCCACTGA
1880431 GTCGTGGACT
Statistics
Matches: 252, Mismatches: 53, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
56 57 0.23
57 170 0.67
58 25 0.10
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (57 bp):
TGGGCTTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCA
Found at i:1880185 original size:85 final size:84
Alignment explanation
Indices: 1880064--1880430 Score: 378
Period size: 85 Copynumber: 4.3 Consensus size: 84
1880054 CCAACTTGTG
* * * **
1880064 TGGGCTTTTAAAAGGATGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTAACTCATGGGCTTT
1 TGGGC-TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT
* *
1880129 GAAAAGGATGCCACTGACTCG
65 -AAAAGGGTGCCACTGACTCA
* * * * *
1880150 TGAGCTTTGAAAGGATGCCACTGACTCGTGAGCTTTGAAAGGATGCCAATAACTTGTGGGTTTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTA
* * **
1880215 AAAGGGTTGCTACCGACTTG
66 AAAGGG-TGCCACTGACTCA
* *
1880235 TGGGCTTTCAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGC-TTTGAAAGGATGCCACTAACTTGTGGGCTTT
* * *
1880300 AAAAGGGTTCCACTAACTTA
65 AAAAGGGTGCCACTGACTCA
* * * * *
1880320 TGGGCTTTTGAAAAGG-TGCCATTAACTTATGGGCTTTGAAAAGG-TGCCACTGACTTGTAGGCT
1 TGGGC-TTTG-AAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCT
*
1880383 TTAAAAGGGTGCCACTGAGTCA
63 TTAAAAGGGTGCCACTGACTCA
* *
1880405 TGGACTTGGAGAAGAGATGCCACTGA
1 TGGGCTTTGA-AAG-GATGCCACTGA
1880431 GTCGTGGACT
Statistics
Matches: 234, Mismatches: 39, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
83 1 0.00
84 12 0.05
85 147 0.63
86 69 0.29
87 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (84 bp):
TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTA
AAAGGGTGCCACTGACTCA
Found at i:1880448 original size:30 final size:29
Alignment explanation
Indices: 1880387--1880456 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 29
1880377 TAGGCTTTAA
* **
1880387 AAGGGTGCCACTGAGTCATGGACTTGGAG
1 AAGGATGCCACTGAGTCATGGACTTCAAG
*
1880416 AAGAGATGCCACTGAGTCGTGGACTTCAAG
1 AAG-GATGCCACTGAGTCATGGACTTCAAG
*
1880446 AAGGGTGCCAC
1 AAGGATGCCAC
1880457 GGATCGTAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 10 0.29
30 25 0.71
ACGTcount: A:0.27, C:0.20, G:0.34, T:0.19
Consensus pattern (29 bp):
AAGGATGCCACTGAGTCATGGACTTCAAG
Found at i:1882155 original size:20 final size:22
Alignment explanation
Indices: 1882119--1882158 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1882109 GTATAGATGT
1882119 TTTTTCAAGGATAAAAATAAGG
1 TTTTTCAAGGATAAAAATAAGG
1882141 TTTTTCAA-G-TAAAAATAA
1 TTTTTCAAGGATAAAAATAA
1882159 TTCAAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (22 bp):
TTTTTCAAGGATAAAAATAAGG
Found at i:1882296 original size:19 final size:20
Alignment explanation
Indices: 1882256--1882305 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
1882246 ACACTTAGAT
1882256 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
*
1882276 GTATCGATACATGTT-CTTA
1 GTATCGATACATATTGCTTA
1882295 GTATCGATACA
1 GTATCGATACA
1882306 CCTTGAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:1882390 original size:13 final size:13
Alignment explanation
Indices: 1882353--1882392 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1882343 AAAACTCACT
1882353 TTGTATCGATACA
1 TTGTATCGATACA
* * *
1882366 ATGAATCAATACA
1 TTGTATCGATACA
1882379 TTGTATCGATACA
1 TTGTATCGATACA
1882392 T
1 T
1882393 GGTGAATTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1888406 original size:21 final size:21
Alignment explanation
Indices: 1888382--1888422 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1888372 TAATACTTTT
*
1888382 GAAAAGAAAGTAAATGAGTTG
1 GAAAAGAAAATAAATGAGTTG
*
1888403 GAAAAGAAAATAAGTGAGTT
1 GAAAAGAAAATAAATGAGTT
1888423 ACAAAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.27, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAGTTG
Found at i:1888428 original size:21 final size:20
Alignment explanation
Indices: 1888383--1888444 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
1888373 AATACTTTTG
* **
1888383 AAAAGAAAGTAAATGAGTTGG
1 AAAAGAAAAT-AATGAGTTAC
1888404 AAAAGAAAATAAGTGAGTTAC
1 AAAAGAAAATAA-TGAGTTAC
*
1888425 AAAATGAAAATGATGAGTTA
1 AAAA-GAAAATAATGAGTTA
1888445 ACTAATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.06
21 26 0.74
22 7 0.20
ACGTcount: A:0.55, C:0.02, G:0.23, T:0.21
Consensus pattern (20 bp):
AAAAGAAAATAATGAGTTAC
Found at i:1889939 original size:13 final size:13
Alignment explanation
Indices: 1889921--1889946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1889911 ACAATCAAAT
1889921 TTATATCGATACA
1 TTATATCGATACA
1889934 TTATATCGATACA
1 TTATATCGATACA
1889947 ATTTTAATGT
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:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TTATATCGATACA
Found at i:1891482 original size:20 final size:21
Alignment explanation
Indices: 1891442--1891485 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
1891432 TTAAGTATAG
*
1891442 ATGTTTTTCAAGAATAAAAATA
1 ATGTTTTTCAAG-ACAAAAATA
1891464 ATGTTTTTCAAG-CAAAAATA
1 ATGTTTTTCAAGACAAAAATA
1891484 AT
1 AT
1891486 TTAAAGTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (21 bp):
ATGTTTTTCAAGACAAAAATA
Found at i:1892047 original size:52 final size:52
Alignment explanation
Indices: 1891980--1892105 Score: 225
Period size: 52 Copynumber: 2.4 Consensus size: 52
1891970 CATTACTCAA
*
1891980 ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGT
1 ATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGT
* *
1892032 ATCGATACATACAGGCAAATTTGCCTAGATGTATCGATATACTATGAAATGT
1 ATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGT
1892084 ATCGATACATACAGGCAAATTT
1 ATCGATACATACAGGCAAATTT
1892106 TTATATTTCG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (52 bp):
ATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGT
Found at i:1902716 original size:15 final size:15
Alignment explanation
Indices: 1902698--1902732 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1902688 CGAGTCAACT
1902698 TCATCATTATCATCA
1 TCATCATTATCATCA
*
1902713 TCATCATTATCTTCA
1 TCATCATTATCATCA
1902728 TCATC
1 TCATC
1902733 TTTGATGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:1907647 original size:13 final size:13
Alignment explanation
Indices: 1907629--1907656 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1907619 ATACAAAGAT
1907629 CAATGTATCGATA
1 CAATGTATCGATA
1907642 CAATGTATCGATA
1 CAATGTATCGATA
1907655 CA
1 CA
1907657 TTGAATAATC
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1907671 original size:33 final size:33
Alignment explanation
Indices: 1907611--1907676 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1907601 AAATTCCTAG
*
1907611 ATGTATCGATACAAAGATCAATGTATCGATACA
1 ATGTATCGATACAAAGATCAATCTATCGATACA
**
1907644 ATGTATCGATACATTGAAT-AATCTATCGATACA
1 ATGTATCGATACAAAG-ATCAATCTATCGATACA
1907677 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATCTATCGATACA
Found at i:1908558 original size:47 final size:47
Alignment explanation
Indices: 1908482--1908583 Score: 150
Period size: 47 Copynumber: 2.2 Consensus size: 47
1908472 TCGAAGATCT
** *
1908482 GAAGAATGACAATGTGCTGATTCATGGCCAATGACATTAGACTTGAA
1 GAAGAATGACAATGTGCTGAGACAAGGCCAATGACATTAGACTTGAA
* * *
1908529 GAAGAATGCCAATGTTCTGAGACAAGGCCAATGACATTGGACTTGAA
1 GAAGAATGACAATGTGCTGAGACAAGGCCAATGACATTAGACTTGAA
1908576 GAAGAATG
1 GAAGAATG
1908584 TTAAAGATGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (47 bp):
GAAGAATGACAATGTGCTGAGACAAGGCCAATGACATTAGACTTGAA
Done.