Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold192
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: 2196177
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 12544 characters in sequence are not A, C, G, or T
File 7 of 14
Found at i:992290 original size:14 final size:14
Alignment explanation
Indices: 992249--992290 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
992239 ATGAATCACT
992249 AAAATACAATAAAA
1 AAAATACAATAAAA
* *
992263 AAAGATAAAATAAAC
1 AAA-ATACAATAAAA
992278 AAAATACAATAAA
1 AAAATACAATAAA
992291 TAACTTGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (14 bp):
AAAATACAATAAAA
Found at i:1000601 original size:21 final size:21
Alignment explanation
Indices: 1000554--1000611 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1000544 AAAAAAATTT
*
1000554 CAAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGA
**
1000575 GGAATGTATCGATACATTCT-A
1 CAAATGTATCGATACATT-TGA
1000596 CAAATGTATCGATACA
1 CAAATGTATCGATACA
1000612 GGGTCCCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
CAAATGTATCGATACATTTGA
Found at i:1000686 original size:13 final size:13
Alignment explanation
Indices: 1000668--1000692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1000658 ACATAGGTTT
1000668 TGTATCGATACAA
1 TGTATCGATACAA
1000681 TGTATCGATACA
1 TGTATCGATACA
1000693 TAAGTATTGT
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:1000690 original size:32 final size:32
Alignment explanation
Indices: 1000649--1000711 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1000639 TTCAACAATT
* *
1000649 TGTATCGATACATAGGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1000681 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1000712 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1000714 original size:19 final size:19
Alignment explanation
Indices: 1000648--1000714 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
1000638 ATTCAACAAT
* *
1000648 TTGTATCGATACATAGGTT
1 TTGTATCGATACATAAGTA
1000667 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
1000681 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
1000699 TTGTATCGATACATAA
1 TTGTATCGATACATAA
1000715 TTAGCTACTG
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
13 11 0.28
16 1 0.03
18 1 0.03
19 27 0.68
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1000772 original size:13 final size:13
Alignment explanation
Indices: 1000754--1000779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1000744 TATTTTTTTG
1000754 TGTATCGATACAT
1 TGTATCGATACAT
1000767 TGTATCGATACAT
1 TGTATCGATACAT
1000780 GGATCTTTGT
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:1003312 original size:31 final size:28
Alignment explanation
Indices: 1003229--1003298 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
1003219 CTTCACAATT
* ***
1003229 GGGGATACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
1003256 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
1003284 GGGGATACTCCAACC
1 GGGGATACTCCAACC
1003299 TCGACTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:1003400 original size:52 final size:50
Alignment explanation
Indices: 1003117--1003506 Score: 207
Period size: 51 Copynumber: 7.4 Consensus size: 50
1003107 CTTAATTCTC
* * * *
1003117 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
* * * *
1003167 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACATCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTA-TT-C-TAAAACACCAATTT-TT
* * ** **
1003222 CACAATTGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAAC-CCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGATT--T--T-----ATTCTAAAACACCAATT-TTT
* * * * * ***
1003280 C-CGA--GGGGATACTCCAACCTCGACTTTATTTCCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTA-TTCTAAAACACCAATTTTT
* * *
1003328 CATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATT-CTAAAACACCAATTTTT
* * *
1003379 CCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC
1 -CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
* * * * *
1003431 CCCTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAGTTTTT
1 CAC--AATCGGGGATACTCCAACCCCGATTTTA-TT-CTAAAACACCAATTTTT
* *
1003485 CACAATCGAGGACACTCCAACC
1 CACAATCGGGGATACTCCAACC
1003507 TCGTTATTTC
Statistics
Matches: 258, Mismatches: 53, Indels: 56
0.70 0.14 0.15
Matches are distributed among these distances:
47 1 0.00
48 8 0.03
49 3 0.01
50 3 0.01
51 65 0.25
52 64 0.25
53 36 0.14
54 40 0.16
55 21 0.08
56 1 0.00
57 3 0.01
58 6 0.02
59 4 0.02
60 1 0.00
61 1 0.00
62 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTCTAAAACACCAATTTTT
Found at i:1003463 original size:53 final size:53
Alignment explanation
Indices: 1003284--1003506 Score: 224
Period size: 52 Copynumber: 4.3 Consensus size: 53
1003274 TTATTTCCGA
* ** * ***
1003284 GGGGATACTCCAACCTCGACTTTATTTCCAAAATATTGATTTTT-CA-TAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCACTAATC
* * *
1003335 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCAC-AATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCACTAATC
* *
1003387 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAA-TTTTCCCCTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCAC-TAATC
* * * *
1003440 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAGTTTTT-CAC-AATC
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTTCCACTAATC
* *
1003492 GAGGACACTCCAACC
1 GGGGATACTCCAACC
1003507 TCGTTATTTC
Statistics
Matches: 144, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
51 43 0.30
52 57 0.40
53 30 0.21
54 10 0.07
55 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (53 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCACTAATC
Found at i:1003529 original size:28 final size:28
Alignment explanation
Indices: 1003489--1003565 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
1003479 GTTTTTCACA
* * * *
1003489 ATCGAGGACACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1003517 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1003545 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1003566 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1003584 original size:264 final size:262
Alignment explanation
Indices: 1003115--1003616 Score: 785
Period size: 264 Copynumber: 1.9 Consensus size: 262
1003105 TTCTTAATTC
* * *
1003115 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* * *
1003180 TACTCCAACTCCGATTTTATTTCCAAAAAACATCAATTTCTTCACAATTGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACA-CAATTTCTTCACAATCGAGGACACTCCAACCC
* *
1003245 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGACTTTATT
130 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* *
1003310 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
195 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
1003375 TTT
260 TTT
*
1003378 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCCCT-TAATCGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT---CTATAATCGG
*
1003442 GGATACTCCAACTCCGATTTTATTTCCAAAAATAC-CAGTTT-TTCACAATCGAGGACACTCCAA
63 GGATACTCCAACTCCGATTTTATTTCCAAAAA-ACACAATTTCTTCACAATCGAGGACACTCCAA
* * *
1003505 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
127 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTT
*
1003570 TATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
191 TATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
1003617 TTATTTTCGA
Statistics
Matches: 218, Mismatches: 16, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
263 74 0.34
264 101 0.46
265 39 0.18
266 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (262 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACAATTTCTTCACAATCGAGGACACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTC
CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
TT
Found at i:1004789 original size:23 final size:23
Alignment explanation
Indices: 1004744--1004802 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
1004734 TTTGGTAAGA
*
1004744 TTGATTTTCATTTAACTTGATAAT
1 TTGATTTT-ATTTAACTTAATAAT
1004768 TTGATTTTATTTATA-TTAATAAT
1 TTGATTTTATTTA-ACTTAATAAT
*
1004791 TTTACTTTTATT
1 TTGA-TTTTATT
1004803 AATCGCTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (23 bp):
TTGATTTTATTTAACTTAATAAT
Found at i:1004792 original size:18 final size:18
Alignment explanation
Indices: 1004771--1004805 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1004761 TGATAATTTG
1004771 ATTTTA-TTTATATTAATA
1 ATTTTACTTT-TATTAATA
1004789 ATTTTACTTTTATTAAT
1 ATTTTACTTTTATTAAT
1004806 CGCTTGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTACTTTTATTAATA
Found at i:1006309 original size:21 final size:21
Alignment explanation
Indices: 1006264--1006310 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1006254 TCAATTTCAA
* *
1006264 CAGGAAACAAGAGCCAACATT
1 CAGGAAACAAGAGACAACATC
1006285 CAGGAAACAAG-GACAAGCATC
1 CAGGAAACAAGAGACAA-CATC
1006306 CAGGA
1 CAGGA
1006311 TTTAGGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.47, C:0.23, G:0.23, T:0.06
Consensus pattern (21 bp):
CAGGAAACAAGAGACAACATC
Found at i:1010877 original size:13 final size:13
Alignment explanation
Indices: 1010859--1010916 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
1010849 CCAAACAAGT
1010859 ATGTATCGATACA
1 ATGTATCGATACA
1010872 ATGTATCGATACACAAA
1 ATGTATCGAT--AC--A
1010889 GTATGTATCGATACA
1 --ATGTATCGATACA
1010904 ATGTATCGATACA
1 ATGTATCGATACA
1010917 CCATAAAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 3 0.08
17 3 0.08
19 10 0.26
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1010896 original size:32 final size:34
Alignment explanation
Indices: 1010855--1010936 Score: 134
Period size: 32 Copynumber: 2.5 Consensus size: 34
1010845 ATAGCCAAAC
1010855 AAGTATGTATCGATACAATGTATCGATACA-CA-
1 AAGTATGTATCGATACAATGTATCGATACACCAT
1010887 AAGTATGTATCGATACAATGTATCGATACACCAT
1 AAGTATGTATCGATACAATGTATCGATACACCAT
*
1010921 AA-AATGTATCGATACA
1 AAGTATGTATCGATACA
1010937 TTGGCTTGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
32 30 0.64
33 15 0.32
34 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (34 bp):
AAGTATGTATCGATACAATGTATCGATACACCAT
Found at i:1016844 original size:8 final size:8
Alignment explanation
Indices: 1016831--1016855 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1016821 TATTTGATTA
1016831 GATTTTGT
1 GATTTTGT
1016839 GATTTTGT
1 GATTTTGT
1016847 GATTTTGT
1 GATTTTGT
1016855 G
1 G
1016856 TTGAATGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (8 bp):
GATTTTGT
Found at i:1019445 original size:13 final size:13
Alignment explanation
Indices: 1019427--1019451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1019417 ATATTGCACA
1019427 GTATCGATACATT
1 GTATCGATACATT
1019440 GTATCGATACAT
1 GTATCGATACAT
1019452 GTTGCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1019446 original size:33 final size:33
Alignment explanation
Indices: 1019404--1019469 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1019394 TACACATTTA
1019404 ATTGTATCGATACATATTGCACAGTATCGATAC
1 ATTGTATCGATACATATTGCACAGTATCGATAC
* **
1019437 ATTGTATCGATACATGTTGCATTGTATCGATAC
1 ATTGTATCGATACATATTGCACAGTATCGATAC
1019470 TTGAAAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACATATTGCACAGTATCGATAC
Found at i:1019560 original size:13 final size:13
Alignment explanation
Indices: 1019542--1019567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1019532 TACACAAAGT
1019542 ATGTATCGATACA
1 ATGTATCGATACA
1019555 ATGTATCGATACA
1 ATGTATCGATACA
1019568 CCATAAAATG
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:1019584 original size:33 final size:32
Alignment explanation
Indices: 1019526--1019587 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
1019516 GCCAAACTTA
*
1019526 TATCGATACACAAAGTATGTATCGATACAATG
1 TATCGATACACAAAGAATGTATCGATACAATG
1019558 TATCGATACACCATAA-AATGTATCGATACA
1 TATCGATACA-CA-AAGAATGTATCGATACA
1019588 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 10 0.37
33 15 0.56
34 2 0.07
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (32 bp):
TATCGATACACAAAGAATGTATCGATACAATG
Found at i:1021073 original size:30 final size:32
Alignment explanation
Indices: 1021036--1021545 Score: 194
Period size: 30 Copynumber: 15.5 Consensus size: 32
1021026 TGGGGACGAA
1021036 TTCAAAGTCCACGACTCAGTGGCAT-TTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATCTTTGTC
1021067 TT-AAAGTCCACGACTCAGTGGCATCCTTT-TC
1 TTCAAAGTCCACGACTCAGTGGCAT-CTTTGTC
* * * *
1021098 TTCAAAGCCCACAACTTC-GTGACACTCTTTTTCCC
1 TTCAAAGTCCACGAC-TCAGTGGCA-TCTTTGT--C
1021133 TTTCAAAGTCCACGACTCAGTGGCAT-TTTGTC
1 -TTCAAAGTCCACGACTCAGTGGCATCTTTGTC
1021165 -TCAAAGTCCACGACTCAGTGGCATCCTTT-TC
1 TTCAAAGTCCACGACTCAGTGGCAT-CTTTGTC
* * * *
1021196 TTCAAAGCCCACAACTTC-GTGGCACCTTTTTC
1 TTCAAAGTCCACGAC-TCAGTGGCATCTTTGTC
* * * * * *
1021228 TTTTTAAAGCCCCCAACTCCGTGGCACTCTTTTTCCC
1 --TTCAAAGTCCACGACTCAGTGGCA-TCTTTGT--C
** * * *
1021265 TTTTAAGTCCACAACTCCGTGGCA-CCTTGTTCC
1 TTCAAAGTCCACGACTCAGTGGCATCTTTG-T-C
** * * **
1021298 TTTTAAGTCCACAACTCCGTGGCA-CCCT-T-
1 TTCAAAGTCCACGACTCAGTGGCATCTTTGTC
* * * * *
1021327 TT-AAAGCCCAC-AGTTCCGTGGCAACCTTTTTC
1 TTCAAAGTCCACGA-CTCAGTGGC-ATCTTTGTC
* * * *
1021359 TTCTCAAAGCCCACCACTCCGTGGCA-CTTTTTC
1 -T-TCAAAGTCCACGACTCAGTGGCATCTTTGTC
* * * * *
1021392 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 --TTCAAAGTCCACGACTCAGTGGCA-TCTTTGT--C
* * *
1021429 TTTTCAAAGCCCACAACTTC-GTGGCACTCTTTTTCCC
1 --TTCAAAGTCCACGAC-TCAGTGGCA-TCTTTGT--C
1021466 TTTCAAAGTCCACGACTCAGTGGCAT-TTTGTC
1 -TTCAAAGTCCACGACTCAGTGGCATCTTTGTC
*
1021498 -TCAAAGTCCACGACTCAATGGCATCCTTT-TC
1 TTCAAAGTCCACGACTCAGTGGCAT-CTTTGTC
* *
1021529 TTCAAAGCCCACAACTC
1 TTCAAAGTCCACGACTC
1021546 CATGGCACTT
Statistics
Matches: 404, Mismatches: 34, Indels: 81
0.78 0.07 0.16
Matches are distributed among these distances:
27 1 0.00
28 15 0.04
29 3 0.01
30 71 0.18
31 16 0.04
32 64 0.16
33 69 0.17
34 32 0.08
35 57 0.14
36 39 0.10
37 35 0.09
38 2 0.00
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (32 bp):
TTCAAAGTCCACGACTCAGTGGCATCTTTGTC
Found at i:1021205 original size:98 final size:97
Alignment explanation
Indices: 1021036--1021227 Score: 357
Period size: 98 Copynumber: 2.0 Consensus size: 97
1021026 TGGGGACGAA
*
1021036 TTCAAAGTCCACGACTCAGTGGCATTTTGTCTTAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1021101 AAAGCCCACAACTTCGTGACACTCTTTTTCCCT
66 AAAGCCCACAACTTCGTGACAC-CTTTTTCCCT
1021134 TTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
*
1021199 AAAGCCCACAACTTCGTGGCACCTTTTTC
66 AAAGCCCACAACTTCGTGACACCTTTTTC
1021228 TTTTTAAAGC
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 7 0.08
98 85 0.92
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (97 bp):
TTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
AAAGCCCACAACTTCGTGACACCTTTTTCCCT
Found at i:1021335 original size:96 final size:97
Alignment explanation
Indices: 1021229--1021932 Score: 475
Period size: 96 Copynumber: 7.0 Consensus size: 97
1021219 ACCTTTTTCT
* * *
1021229 TTTTAAAGCCCCCAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCTTG
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCACCTTT
*
1021294 TTCCTTTT-AAGTCCACAACTCCGTGGCACCC
66 TTCCTTTTAAAGCCCACAACTCCGTGGCACCC
** * *
1021325 TTTTAAAGCCCACAGTTCCGTGGCAAC-CTTTTT--CTTCTCAAAGCCCACCACTCCGTGGCA-C
1 TTTTAAAGCCCACAACTCCGTGGC-ACTCTTTTTCCCTT-T-TAAGCCCACAACTCCGTGGCACC
*
1021386 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
63 TTTTTCCTTTTAAAGCCCACAACTCCGTGGCA--------CCC
* * * * *
1021429 TTTTCAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTTTCAAAGTCCACGACTCAGTGGCA--T
1 TTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT-TAAGCCCACAACTCCGTGGCACCT
* * * ** *
1021492 TTTGT-C--TCAAAGTCCACGACTCAATGGCATCCTT
64 TTT-TCCTTTTAAAGCCCACAACTCCGTGGCA-CC-C
* * *
1021526 TTCTTCAAAGCCCACAACTCCATGGCACTTTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-C-
1 TT-TT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCACCT
*
1021589 ----CCTTTTAAAGCCCACAATTCCGTGGCAACCTTTTTC
64 TTTTCCTTTTAAAGCCCACAACTCCGTGGC-ACC-----C
* * * *
1021625 TTCTCAAAGCCCACCACTCCGTGGCA--CTTTTT-CTTTTTAAAGCTCACAACTCCGTGGCACTC
1 TT-TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGCCCACAACTCCGTGGCAC-C
* *
1021687 TTTTTCCCTTTTCAAAGCCCATAACTCCATGGCACTCTTTTTCCC
63 TTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCA--------CCC
* * * * **
1021732 TTTTAAAGTCCACGACTCCGTGGCAC-ATTCTT---TTCAAAGCCCACAACTCCGTGGCACCTTT
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCACCTTT
*
1021793 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
66 TTCCTTTTAAAGCCCACAACTCCGTGGCACC-----C
1021830 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 -TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGCCCACAACTCCGTGGCACC
* * *
1021895 TTTTT-CTTTTAAAGCCCACAACTCTGTGACACTC
63 TTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCC
1021929 TTTT
1 TTTT
1021933 TCCCTTTTAA
Statistics
Matches: 483, Mismatches: 66, Indels: 116
0.73 0.10 0.17
Matches are distributed among these distances:
93 3 0.01
94 3 0.01
95 34 0.07
96 91 0.19
97 22 0.05
98 60 0.12
99 30 0.06
100 4 0.01
101 19 0.04
102 5 0.01
103 26 0.05
104 60 0.12
105 73 0.15
106 41 0.08
107 10 0.02
112 2 0.00
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (97 bp):
TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCACCTTT
TTCCTTTTAAAGCCCACAACTCCGTGGCACCC
Found at i:1021344 original size:28 final size:27
Alignment explanation
Indices: 1021296--1021356 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
1021286 GCACCTTGTT
* *
1021296 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAA
**
1021323 CCTTTTAAAGCCCACAGTTCCGTGGCAA
1 CCTTTT-AAGCCCACAACTCCGTGGCAA
1021351 CCTTTT
1 CCTTTT
1021357 TCTTCTCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.21, C:0.34, G:0.15, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAA
Found at i:1021415 original size:68 final size:68
Alignment explanation
Indices: 1021067--1021985 Score: 719
Period size: 68 Copynumber: 13.7 Consensus size: 68
1021057 GCATTTTGTC
* * * * *
1021067 TTAAAGTCCACGACTCAGTGGCATCC-TTTTC-T-TCAAAGCCCACAACTTCGTGACACTCTTTT
1 TTAAAGCCCACAACTCCGTGGCA-CCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCA-TCTTTT
1021129 TCCCTT
64 T-CCTT
* * * * * * * * *
1021135 TCAAAGTCCACGACTCAGTGGCA---TTTT-GTCTCAAAGTCCACGACTCAGTGGCATCCTTTT-
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCATCTTTTTC
1021195 C-T
66 CTT
* * * * *
1021197 TCAAAGCCCACAACTTCGTGGCACCTTTTTCTTTTTAAAGCCCCCAACTCCGTGGCACTCTTTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCA-TCTTTTT
1021262 CCCTT
65 -CCTT
* * * *
1021267 TT-AAGTCCACAACTCCGTGGCACCTTGTTCCTT-T-TAAGTCCACAACTCCGTGGCA-C-----
1 TTAAAGCCCACAACTCCGTGGCACCTT-TTTCTTCTCAAAGCCCACAACTCCGTGGCATCTTTTT
1021323 CCTT
65 CCTT
** *
1021327 TTAAAGCCCACAGTTCCGTGGCAACCTTTTTCTTCTCAAAGCCCACCACTCCGTGGCA-CTTTTT
1 TTAAAGCCCACAACTCCGTGGC-ACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCATCTTTTT
*
1021391 CTTT
65 CCTT
* *
1021395 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTTCGTGGCACTCTT
1 TTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTCTCAAAGCCCACAACTCCGTGGCA-TCTT
1021460 TTTCCCTT
62 TTT-CCTT
* * * * * * * ** *
1021468 TCAAAGTCCACGACTCAGTGGCA---TTTT-GTCTCAAAGTCCACGACTCAATGGCATCCTTTT-
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCATCTTTTTC
1021528 C-T
66 CTT
* * ** *
1021530 TCAAAGCCCACAACTCCATGGCA-CTTTTT-TTCCCTTTTAAGTCCACAACTCCGTGGCA-C---
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTT--C-TCAAAGCCCACAACTCCGTGGCATCTTT
1021589 --CCTT
63 TTCCTT
* *
1021593 TTAAAGCCCACAATTCCGTGGCAACCTTTTTCTTCTCAAAGCCCACCACTCCGTGGCA-CTTTTT
1 TTAAAGCCCACAACTCCGTGGC-ACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCATCTTTTT
*
1021657 CTTT
65 CCTT
* * * *
1021661 TTAAAGCTCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCATAACTCCATGGCACTCTT
1 TTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTCTCAAAGCCCACAACTCCGTGGCA-TCTT
1021726 TTTCCCTT
62 TTT-CCTT
* * * * *
1021734 TTAAAGTCCACGACTCCGTGGCA-C--ATTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCATCTTTTTC
*
1021796 TTT
66 CTT
* *
1021799 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCA-TCTTTTT
1021864 CCCTT
65 -CCTT
* * *
1021869 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT-TTAAAGCCCACAACTCTGTGACACTCTTTT
1 TT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCA-TCTTTT
1021933 TCCCTT
64 T-CCTT
* * * *
1021939 TT-AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCCAAAGCCCACA
1 TTAAAGCCCACAACTCCGTGGCACCTTT-T-TCTTCTCAAAGCCCACA
1021986 CAAGTTGGTG
Statistics
Matches: 697, Mismatches: 98, Indels: 109
0.77 0.11 0.12
Matches are distributed among these distances:
60 6 0.01
61 21 0.03
62 47 0.07
63 61 0.09
64 7 0.01
65 51 0.07
66 68 0.10
67 53 0.08
68 149 0.21
69 37 0.05
70 98 0.14
71 42 0.06
72 12 0.02
73 45 0.06
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (68 bp):
TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCATCTTTTTC
CTT
Found at i:1021591 original size:27 final size:28
Alignment explanation
Indices: 1021561--1021862 Score: 93
Period size: 34 Copynumber: 9.2 Consensus size: 28
1021551 CACTTTTTTT
*
1021561 CCCTTTT-AAGTCCACAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
*
1021588 CCCTTTTAAAGCCCACAATTCCGTGGCAA
1 CCCTTTTAAAGCCCACAACTCCGTGGC-A
* *
1021617 CCTTTTTCTTCTCAAAGCCCACCACTCCGTGGCA
1 CC-----CTT-TTAAAGCCCACAACTCCGTGGCA
* *
1021651 CTTTTTCTTTTTAAAGCTCACAACTCCGTGGCA
1 C-----CCTTTTAAAGCCCACAACTCCGTGGCA
* *
1021684 CTCTTTTTCCCTTTTCAAAGCCCATAACTCCATGGCA
1 --------CCCTTTT-AAAGCCCACAACTCCGTGGCA
* *
1021721 CTCTTTTTCCCTTTTAAAGTCCACGACTCCGTGGCA
1 --C-----CC-TTTTAAAGCCCACAACTCCGTGGCA
*
1021757 CATTCTTTTCAAAGCCCACAACTCCGTGGCA
1 C--CCTTTT-AAAGCCCACAACTCCGTGGCA
1021788 CCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA
1 CC-----C-TTTTAAAGCCCACAACTCCGTGGCA
1021822 CCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA
1 CC-----C-TTTTAAAGCCCACAACTCCGTGGCA
*
1021856 CTCTTTT
1 CCCTTTT
1021863 TCCCTTTTCA
Statistics
Matches: 216, Mismatches: 24, Indels: 69
0.70 0.08 0.22
Matches are distributed among these distances:
27 7 0.03
28 21 0.10
29 4 0.02
30 4 0.02
31 24 0.11
33 20 0.09
34 65 0.30
35 23 0.11
36 24 0.11
37 22 0.10
39 1 0.00
41 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (28 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCA
Found at i:1021594 original size:266 final size:265
Alignment explanation
Indices: 1021225--1021985 Score: 955
Period size: 266 Copynumber: 2.8 Consensus size: 265
1021215 TGGCACCTTT
* * ** * *
1021225 TTCTTTTTAAAGCCCCCAACTCCGTGGCACTCTTTTTCCCTTT-TAAGTCCACAACTCCGTGGCA
1 TTCTTTTCAAAGCCCACAACTCAATGGCAC-CTTTTT--CTTTCAAAGCCCACAACTCCGTGGCA
* *
1021289 CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAGTTCCGTGGCAACCT
63 CCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCAACCT
1021354 TTTTCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC
128 TTTTCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC
* *
1021419 TCTTTTTCCCTTTTCAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTTTCAAAGTCCACGACTC
193 TCTTTTTCCCTTTTCAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTCAAAGTCCACGACTC
1021484 AGTGG-CA
258 AGTGGACA
* * *
1021491 TT-TTGTCTCAAAGTCCACGACTCAATGGCATCC-TTTTC-TTCAAAGCCCACAACTCCATGGCA
1 TTCTT-T-TCAAAGCCCACAACTCAATGGCA-CCTTTTTCTTTCAAAGCCCACAACTCCGTGGCA
*
1021553 CTTTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCAAC
63 C-CTTTTT-CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCAAC
*
1021618 CTTTTTCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCTCACAACTCCGTGGC
126 CTTTTTCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGC
* *
1021683 ACTCTTTTTCCCTTTTCAAAGCCCATAACTCCATGGCACTCTTTTTCCCTTTTAAAGTCCACGAC
191 ACTCTTTTTCCCTTTTCAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTCAAAGTCCACGAC
*
1021748 TCCGTGGCACA
256 TCAGTGG-ACA
** *
1021759 TTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
1 TTCTTTTCAAAGCCCACAACTCAATGGCACCTTTTTC-TTTCAAAGCCCACAACTCCGTGGCACC
* * *
1021824 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGT
65 TTTTTCCTTTT-AAGTCCACAACTCCGTGGCA--------CCCTTTT-AAAGCCCACAATTCCGT
* * * * * *
1021889 GGC-ACCTTTTTCTT-TTAAAGCCCACAACTCTGTGACACTCTTTTTCCCTTTT-AAGTCCACAA
120 GGCAACCTTTTTCTTCTCAAAGCCCACCACTCCGTGGCA--CTTTTT-CTTTTTAAAGCCCACAA
* **
1021951 CTCCGTGGCA-TCTTTCTCCCTTCCCAAAGCCCACA
182 CTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACA
1021986 CAAGTTGGTG
Statistics
Matches: 431, Mismatches: 39, Indels: 40
0.85 0.08 0.08
Matches are distributed among these distances:
263 2 0.00
264 20 0.05
265 6 0.01
266 195 0.45
267 47 0.11
268 30 0.07
269 25 0.06
275 19 0.04
276 39 0.09
277 43 0.10
278 5 0.01
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (265 bp):
TTCTTTTCAAAGCCCACAACTCAATGGCACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCACCT
TTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCAACCTTTT
TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
TTTTCCCTTTTCAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTCAAAGTCCACGACTCAGT
GGACA
Found at i:1021610 original size:28 final size:27
Alignment explanation
Indices: 1021561--1021622 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 27
1021551 CACTTTTTTT
*
1021561 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
*
1021588 CCCTTTTAAAGCCCACAATTCCGTGGCA
1 CCCTTTT-AAGCCCACAACTCCGTGGCA
*
1021616 ACCTTTT
1 CCCTTTT
1021623 TCTTCTCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.29
Consensus pattern (27 bp):
CCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:1021767 original size:333 final size:321
Alignment explanation
Indices: 1021067--1021918 Score: 905
Period size: 333 Copynumber: 2.6 Consensus size: 321
1021057 GCATTTTGTC
* * *
1021067 TTAAAGTCCACGACTCAGTGGCATCCTT-TTCTTCAAAGCCCACAACTTCGTGACACTCTTTTTC
1 TTAAAGTCCACGACTCCGTGGCATCATTCTT-TTCAAAGCCCACAACTTCGTGGCACTCTTTTTC
*
1021131 CCTTTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTC
65 CCTTTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAATGGCATCCTTTTC
* * * *
1021196 TTCAAAGCCCACAACTTCGTGGCACCTTTTTCTTTTTAAAGCCCCCAACTCCGTGGCACTCTTTT
130 TTCAAAGCCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCA-------
* * *
1021261 TCCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCT
188 TCCCTTTTAAGCCCACAACTCCGTGGCACCTTGTTCCTTTAAAGCCCACAACTCCGTGGCACCCT
** * *
1021326 TTTAAAGCCCACAGTTCCGTGGCAACCTTTTTCTTCTCAAAGCCCACCACTCCGTGGCACTTTTT
253 TTTAAAGCCCACAACTCCGTGGCAACCTTTTTCTTCTCAAAGCCCACAACTCCATGGCACTTTTT
*
1021391 CTTT
318 CCTT
* * *
1021395 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTTCGTGGCACTCTT
1 TTAAAGTCCACGACTCCGTGGCA-TC--ATT--CTTTTCAAAGCCCACAACTTCGTGGCACTCTT
1021460 TTTCCCTTTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAATGGCATCCT
61 TTTCCCTTTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAATGGCATCCT
* *
1021525 TTTCTTCAAAGCCCACAACTCCATGGCACTTTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCA-
126 TTTCTTCAAAGCCCACAACTCCATGGCAC-CTTTTT-CCTTTTAAAGCCCACAACTCCGTGGCAT
* * *
1021588 CCCTTTTAAAGCCCACAATTCCGTGGCAACCTT-TTTCTTCTCAAAGCCCACCACTCCGTGGCAC
189 CCCTTTT-AAGCCCACAACTCCGTGGC-ACCTTGTTCCTT-T-AAAGCCCACAACTCCGTGGCAC
* * * *
1021652 TTTTTCTTTTTAAAGCTCACAACTCCGTGGC-ACTCTTTTTCCCTTTTCAAAGCCCATAACTCCA
250 -----CCTTTTAAAGCCCACAACTCCGTGGCAAC-CTTTTT--CTTCTCAAAGCCCACAACTCCA
1021716 TGGCACTCTTTTTCCCTT
307 TGGCA--CTTTTT-CCTT
*
1021734 TTAAAGTCCACGACTCCGTGGCA-CATTCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-C
1 TTAAAGTCCACGACTCCGTGGCATCATTCTTTTCAAAGCCCACAACTTCGTGGCACTCTTTTTCC
* * * * * * * * ** *
1021796 TTTTTAAAGCCCACAACTCCGTGGCACCTTTT-TCTTTTTAAAGCCCACAACTCCGTGGCACTCT
66 CTTTCAAAGTCCACGACTCAGTGGCA--TTTTGTC---TCAAAGTCCACGACTCAATGGCA-TCC
*
1021860 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT-CTTTTAAAGCCCACAACTC
125 TTTT--C--TTCAAAGCCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACAACTC
1021919 TGTGACACTC
Statistics
Matches: 445, Mismatches: 45, Indels: 58
0.81 0.08 0.11
Matches are distributed among these distances:
326 7 0.02
327 22 0.05
328 26 0.06
329 21 0.05
331 24 0.05
332 8 0.02
333 152 0.34
334 53 0.12
335 25 0.06
336 29 0.07
337 6 0.01
338 19 0.04
339 29 0.07
340 24 0.05
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (321 bp):
TTAAAGTCCACGACTCCGTGGCATCATTCTTTTCAAAGCCCACAACTTCGTGGCACTCTTTTTCC
CTTTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAATGGCATCCTTTTCT
TCAAAGCCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCATCCCTTTT
AAGCCCACAACTCCGTGGCACCTTGTTCCTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAAGC
CCACAACTCCGTGGCAACCTTTTTCTTCTCAAAGCCCACAACTCCATGGCACTTTTTCCTT
Found at i:1021971 original size:34 final size:34
Alignment explanation
Indices: 1021067--1021972 Score: 579
Period size: 33 Copynumber: 27.0 Consensus size: 34
1021057 GCATTTTGTC
* * *
1021067 TTAAAGTCCACGACTCAGTGGCATCCTTTT--C-T
1 TTAAAGCCCACAACTCCGTGGCAT-CTTTTCCCTT
* * *
1021099 TCAAAGCCCACAACTTCGTGACACTCTTTTTCCCTT
1 TTAAAGCCCACAACTCCGTGGCA-TC-TTTTCCCTT
* * * *
1021135 TCAAAGTCCACGACTCAGTGGCAT-TTTGT--C--
1 TTAAAGCCCACAACTCCGTGGCATCTTT-TCCCTT
* * * *
1021165 TCAAAGTCCACGACTCAGTGGCATCCTTTT--C-T
1 TTAAAGCCCACAACTCCGTGGCAT-CTTTTCCCTT
* * * * *
1021197 TCAAAGCCCACAACTTCGTGGCACCTTTTTCTTT
1 TTAAAGCCCACAACTCCGTGGCATCTTTTCCCTT
*
1021231 TTAAAGCCCCCAACTCCGTGGCACTCTTTTTCCCTT
1 TTAAAGCCCACAACTCCGTGGCA-TC-TTTTCCCTT
* *
1021267 TT-AAGTCCACAACTCCGTGGCACCTTGTT-CCTT
1 TTAAAGCCCACAACTCCGTGGCATCTT-TTCCCTT
*
1021300 TT-AAGTCCACAACTCCGTGGCA------CCCTT
1 TTAAAGCCCACAACTCCGTGGCATCTTTTCCCTT
** * *
1021327 TTAAAGCCCACAGTTCCGTGGCAACCTTTT-TCTT
1 TTAAAGCCCACAACTCCGTGGC-ATCTTTTCCCTT
* * * *
1021361 CTCAAAGCCCACCACTCCGTGGCA-CTTTTTCTTT
1 -TTAAAGCCCACAACTCCGTGGCATCTTTTCCCTT
1021395 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTAAAGCCCACAACTCCGTGGCA-TC-TTTTCCCTT
*
1021431 TTCAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTT
1 TT-AAAGCCCACAACTCCGTGGCA-TC-TTTTCCCTT
* * * *
1021468 TCAAAGTCCACGACTCAGTGGCAT-TTTGT--C--
1 TTAAAGCCCACAACTCCGTGGCATCTTT-TCCCTT
* * * **
1021498 TCAAAGTCCACGACTCAATGGCATCCTTTT--C-T
1 TTAAAGCCCACAACTCCGTGGCAT-CTTTTCCCTT
* * *
1021530 TCAAAGCCCACAACTCCATGGCACTTTTTTTCCCTT
1 TTAAAGCCCACAACTCCGTGGCA--TCTTTTCCCTT
*
1021566 TT-AAGTCCACAACTCCGTGGCA------CCCTT
1 TTAAAGCCCACAACTCCGTGGCATCTTTTCCCTT
* * *
1021593 TTAAAGCCCACAATTCCGTGGCAACCTTTT-TCTT
1 TTAAAGCCCACAACTCCGTGGC-ATCTTTTCCCTT
* * * *
1021627 CTCAAAGCCCACCACTCCGTGGCA-CTTTTTCTTT
1 -TTAAAGCCCACAACTCCGTGGCATCTTTTCCCTT
*
1021661 TTAAAGCTCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTAAAGCCCACAACTCCGTGGCA-TC-TTTTCCCTT
* *
1021697 TTCAAAGCCCATAACTCCATGGCACTCTTTTTCCCTT
1 TT-AAAGCCCACAACTCCGTGGCA-TC-TTTTCCCTT
* * *
1021734 TTAAAGTCCACGACTCCGTGGCA-C-ATT--CTT
1 TTAAAGCCCACAACTCCGTGGCATCTTTTCCCTT
* * *
1021764 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 TT-AAAGCCCACAACTCCGTGGCATCTTTTCCCTT
* * *
1021799 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 TTAAAGCCCACAACTCCGTGGCATCTTTTCCCTT
1021833 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTAAAGCCCACAACTCCGTGGCA-TC-TTTTCCCTT
* *
1021869 TTCAAAGCCCACAACTCCGTGGCACCTTTT-TCTT
1 TT-AAAGCCCACAACTCCGTGGCATCTTTTCCCTT
* *
1021903 TTAAAGCCCACAACTCTGTGACACTCTTTTTCCCTT
1 TTAAAGCCCACAACTCCGTGGCA-TC-TTTTCCCTT
*
1021939 TT-AAGTCCACAACTCCGTGGCATCTTTCTCCCTT
1 TTAAAGCCCACAACTCCGTGGCATCTTT-TCCCTT
1021973 CCCAAAGCCC
Statistics
Matches: 718, Mismatches: 91, Indels: 128
0.77 0.10 0.14
Matches are distributed among these distances:
27 13 0.02
28 33 0.05
29 2 0.00
30 52 0.07
31 28 0.04
32 68 0.09
33 118 0.16
34 109 0.15
35 110 0.15
36 97 0.14
37 88 0.12
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
TTAAAGCCCACAACTCCGTGGCATCTTTTCCCTT
Found at i:1022018 original size:104 final size:103
Alignment explanation
Indices: 1021069--1021985 Score: 450
Period size: 96 Copynumber: 9.1 Consensus size: 103
1021059 ATTTTGTCTT
* * * ** *
1021069 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC-AAAGCCCACAACTTCGTGACACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCA-CCTACTCTTCTAAAGCCCACAACTCCGTGACAC-CTTTTT-CC
* * * * *
1021133 TTTCAAAGTCCACGACTCAGTGGCA-T-TTTGT--C-T--C
63 TTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCC
* * * ** * * *
1021167 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC-AAAGCCCACAACTTCGTGGCACCTTTTTCTTT
1 AAAGCCCACAACTCCGTGGCA-CCTACTCTTCTAAAGCCCACAACTCCGTGACACCTTTTTCCTT
* * *
1021231 TTAAAGCCCCCAACTCCGTGGCACTCTTTTTCCCTT--T
65 TTAAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCC
* * ** * * *
1021268 TAAGTCCACAACTCCGTGGCACCTTGTTCCTT-TTAAGTCCACAACTCCGTGGCA-C-----CCT
1 AAAGCCCACAACTCCGTGGCACC-TACT-CTTCTAAAGCCCACAACTCCGTGACACCTTTTTCCT
** * *
1021326 TTTAAAGCCCACAGTTCCGTGGCAAC-CTTT-T-TCTTCTC
64 TTTAAAGCCCACAACTCCGTGGC-ACTCTTTCTCCCTTCCC
* * ** * *
1021364 AAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACCTACTC-TTCTAAAGCCCACAACTCCGTGACAC-CTTTTT-CC
* * *
1021429 TTTTCAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTT-TC
63 TTTT-AAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCC
* * * ** ** * * ** *
1021470 AAAGTCCACGACTCAGTGGCATTTTGTC-TC-AAAGTCCACGACTCAATGGCATCC-TTTT-C-T
1 AAAGCCCACAACTCCGTGGCACCTACTCTTCTAAAGCCCACAACTCCGTGACA-CCTTTTTCCTT
* * * * *
1021530 TCAAAGCCCACAACTCCATGGCACTTTTTTTCCCTT--T
65 TTAAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCC
* * * *
1021567 TAAGTCCACAACTCCGTGGCACC--CT-TT-TAAAGCCCACAATTCCGTGGCAACCTTTTT-CTT
1 AAAGCCCACAACTCCGTGGCACCTACTCTTCTAAAGCCCACAACTCCGTGAC-ACCTTTTTCCTT
* * ***
1021627 CTCAAAGCCCACCACTCCGTGGCACT-TTT-T--CTTTTT
65 -TTAAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCC
* * * * * * *
1021663 AAAGCTCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCATAACTCCATGGCACTCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C---TACTCTTCT-AAAGCCCACAACTCCGTGACAC-CTTTT
* * * *
1021728 TCCCTTTTAAAGTCCACGACTCCGTGGCA--CATTCT---TT-TC
60 T-CCTTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCC
** * * *
1021767 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
1 AAAGCCCACAACTCCGTGGCACC-TACTC-TTCTAAAGCCCACAACTCCGTGACACCTTTTTCCT
* **
1021832 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
64 TTTAAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCC
** * *
1021872 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGACACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACC-TACTCTTCTAAAGCCCACAACTCCGTGACAC-CTTTTT-CC
*
1021937 TTTT-AAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCCC
63 TTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCC
1021976 AAAGCCCACA
1 AAAGCCCACA
1021986 CAAGTTGGTG
Statistics
Matches: 672, Mismatches: 90, Indels: 108
0.77 0.10 0.12
Matches are distributed among these distances:
94 7 0.01
95 25 0.04
96 113 0.17
97 32 0.05
98 112 0.17
99 26 0.04
100 10 0.01
101 51 0.08
102 30 0.04
103 21 0.03
104 83 0.12
105 104 0.15
106 52 0.08
107 6 0.01
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.32
Consensus pattern (103 bp):
AAAGCCCACAACTCCGTGGCACCTACTCTTCTAAAGCCCACAACTCCGTGACACCTTTTTCCTTT
TAAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCC
Found at i:1022103 original size:49 final size:49
Alignment explanation
Indices: 1022034--1022461 Score: 577
Period size: 49 Copynumber: 8.8 Consensus size: 49
1022024 CGGTGGCAAC
* * * *
1022034 TCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCA
1 TCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
*
1022084 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
1022132 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * * *
1022181 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
*
1022230 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1022279 TCTTTAAGTCCAATGTAGCTGGCCTT-AAGTCAGCACATTGGCACC-TCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAA-TCAGCACATTGGCACCTTCA
*
1022327 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
1022371 -CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC---TTCA
*
1022422 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1022462 ACATCCTTTT
Statistics
Matches: 338, Mismatches: 28, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
43 39 0.12
45 1 0.00
48 90 0.27
49 168 0.50
50 5 0.01
52 35 0.10
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:1022328 original size:146 final size:144
Alignment explanation
Indices: 1022039--1022461 Score: 606
Period size: 146 Copynumber: 2.9 Consensus size: 144
1022029 GCAACTCTTC
* *
1022039 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTT-ATCTTTAAGTCCAATGTAGCT
* *
1022104 GGCCTTGACTCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
64 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT-AATCAGCAC
1022168 ATTGGCACCTTCACCAT
128 ATTGGCACCTTCACCAT
1022185 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--TTATCTTTAAGTCCAATGTAGCT
1022250 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTAAGTCAGCAC
64 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTAA-TCAGCAC
*
1022315 ATTGGCACC-TCACCTT
128 ATTGGCACCTTCACCAT
* * * *
1022331 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC----CTTTAAGTCCAATATAGTTGG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTATCTTTAAGTCCAATGTAGCTGG
* * *
1022392 CCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
66 CCTTGACTCAGCACATTGGCACC---TTCATCTTTAAGTCCAATGTAGCTGGCCTT-AATCAGCA
1022457 CATTG
127 CATTG
1022462 ACATCCTTTT
Statistics
Matches: 257, Mismatches: 12, Indels: 19
0.89 0.04 0.07
Matches are distributed among these distances:
140 40 0.16
143 40 0.16
144 2 0.01
145 1 0.00
146 128 0.50
147 46 0.18
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (144 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTATCTTTAAGTCCAATGTAGCTGG
CCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTAATCAGCACATT
GGCACCTTCACCAT
Found at i:1022373 original size:21 final size:21
Alignment explanation
Indices: 1022349--1022416 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
1022339 ATGTAGCTGG
*
1022349 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCATATTGGCA
* **
1022370 CCTTTAAGTCCAATATAGTTGG--
1 CCTTGAA-T-CAGCATA-TTGGCA
1022392 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
1022413 CCTT
1 CCTT
1022417 TTTCATCTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 11 0.31
22 7 0.20
23 4 0.11
24 4 0.11
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:1022393 original size:43 final size:43
Alignment explanation
Indices: 1022280--1022417 Score: 188
Period size: 43 Copynumber: 3.1 Consensus size: 43
1022270 GCACCTTCAT
1022280 CTTTAAGTCCAATGTAGCTGGCCTT-AAGTCAGCACATTGGCACCTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAA-TCAGCACATTGG-----CAC
1022328 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
1022371 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1022414 CTTT
1 CTTT
1022418 TTCATCTTTA
Statistics
Matches: 86, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
43 47 0.55
48 37 0.43
49 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1022449 original size:52 final size:52
Alignment explanation
Indices: 1022371--1022532 Score: 191
Period size: 52 Copynumber: 3.1 Consensus size: 52
1022361 ACATTGGCAC
1022371 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
* * * * *
1022423 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCA-CC-TTTT-TCAT
* * * * * *
1022478 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
1022529 CTTT
1 CTTT
1022533 TCTCATCTTC
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
51 4 0.04
52 40 0.44
53 5 0.05
54 5 0.05
55 37 0.41
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
Found at i:1022459 original size:95 final size:92
Alignment explanation
Indices: 1022280--1022470 Score: 269
Period size: 95 Copynumber: 2.0 Consensus size: 92
1022270 GCACCTTCAT
*
1022280 CTTTAAGTCCAATGTAGCTGGCCTTAAGTCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAG
1 CTTTAAGTCCAATATAGCTGGCCTTAAGTCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAG
*
1022345 CTGGCCTTGAATCAGCACATTGGCA-C
66 CTGGCCTTGAATCAGCACATTGACATC
* * * *
1022371 CTTTAAGTCCAATATAGTTGGCCTTGAA-TCAGCATATTGGCACCTTTTTCATCTTTAAGTTCAA
1 CTTTAAGTCCAATATAGCTGGCCTT-AAGTCAGCACATTGGCACC----TCACCTTTAAGTCCAA
1022435 TGTAGCTGGCCTTGAATCAGCACATTGACATC
61 TGTAGCTGGCCTTGAATCAGCACATTGACATC
1022467 CTTT
1 CTTT
1022471 TTCTCATCTT
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
91 38 0.43
92 2 0.02
95 43 0.49
96 5 0.06
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTAAGTCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGACATC
Found at i:1022582 original size:67 final size:68
Alignment explanation
Indices: 1022474--1022600 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
1022464 ATCCTTTTTC
* * *
1022474 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
1022538 TCT
66 TCT
* * * *
1022541 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
1022601 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:1023393 original size:13 final size:13
Alignment explanation
Indices: 1023375--1023399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1023365 CATAAAGTGT
1023375 TGTATCGATACAA
1 TGTATCGATACAA
1023388 TGTATCGATACA
1 TGTATCGATACA
1023400 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1023393 original size:33 final size:33
Alignment explanation
Indices: 1023355--1023421 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1023345 TTCAACAATT
*
1023355 TGTATCTATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1023388 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1023421 T
1 T
1023422 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1023480 original size:13 final size:13
Alignment explanation
Indices: 1023462--1023486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1023452 ATTACTCAAA
1023462 TGTATCGATACAT
1 TGTATCGATACAT
1023475 TGTATCGATACA
1 TGTATCGATACA
1023487 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1023623 original size:52 final size:52
Alignment explanation
Indices: 1023495--1023615 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
1023485 CACTGATCTT
* *
1023495 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
*
1023547 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
*
1023599 TGTATCAATACATGCAG
1 TGTATCGATACATGCAG
1023616 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
Found at i:1026952 original size:9 final size:9
Alignment explanation
Indices: 1026940--1026965 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1026930 AAAAAAGGTA
1026940 AAAAAAAAC
1 AAAAAAAAC
1026949 AAAAAAAAC
1 AAAAAAAAC
1026958 AAAAAAAA
1 AAAAAAAA
1026966 AGTGAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1028934 original size:24 final size:24
Alignment explanation
Indices: 1028888--1028937 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1028878 TTTGGTAAAA
*
1028888 TTGATTTTCATTTAACTTGATAAT
1 TTGATTTTCATTTAACTTAATAAT
*
1028912 TTGATTTTTATTTATA-TTAATAAT
1 TTGATTTTCATTTA-ACTTAATAAT
1028936 TT
1 TT
1028938 TCCTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (24 bp):
TTGATTTTCATTTAACTTAATAAT
Found at i:1030126 original size:79 final size:79
Alignment explanation
Indices: 1030026--1030227 Score: 255
Period size: 79 Copynumber: 2.6 Consensus size: 79
1030016 AATAACGGGG
* ** *
1030026 TTGGAGTATCCCCT-TGAAAATAACGGGGTTGGAGTATCCCCGGTTATGAAAAATCGATGA-TTA
1 TTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT-ATTTA
*
1030089 GAAAATAAAATCAGGA
64 GAAAATAAAACCAGGA
* * *
1030105 TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAGA
* * *
1030170 AAATAAAGCCTGGG
66 AAATAAAACCAGGA
**
1030184 TTGGAGTATCCCCTCAGAGGTAACGGGGTTGGAGTATCCCCAAT
1 TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAAT
1030228 GAAATAACGA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
78 1 0.01
79 106 0.98
80 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (79 bp):
TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAGA
AAATAAAACCAGGA
Found at i:1030235 original size:28 final size:28
Alignment explanation
Indices: 1030181--1030236 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
1030171 AATAAAGCCT
* **
1030181 GGGTTGGAGTATCCCCTCAGAGGTAACG
1 GGGTTGGAGTATCCCCTAAGAAATAACG
1030209 GGGTTGGAGTATCCCC-AATGAAATAACG
1 GGGTTGGAGTATCCCCTAA-GAAATAACG
1030237 AGATTGGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTAAGAAATAACG
Found at i:1030386 original size:51 final size:50
Alignment explanation
Indices: 1030252--1030411 Score: 171
Period size: 51 Copynumber: 3.1 Consensus size: 50
1030242 GGAATATCTT
*
1030252 CGATTGT-GAAAATTTGGTGTTTTTGGAAATAAAATCG-GAGTTAGAGTATCCC
1 CGATTGTGGAAAA-TTGGTG-TTTT-GAAATAAAATCGAG-GTTGGAGTATCCC
* **
1030304 CAATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGAGGTTGGAGTATCCC
1 CGATT-GTGGAAAATTGGTGTTTTG-AAATAAAATCGAGGTTGGAGTATCCC
* * *
1030356 CGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGAGGTTGAAGTATCCC
1 CGATTGTGGAAAATTGGTGTTTT-GAAATAAAATCGAGGTTGGAGTATCCC
*
1030407 TGATT
1 CGATT
1030412 ATGAGAAATC
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
51 44 0.48
52 36 0.39
53 7 0.08
54 5 0.05
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (50 bp):
CGATTGTGGAAAATTGGTGTTTTGAAATAAAATCGAGGTTGGAGTATCCC
Found at i:1030437 original size:51 final size:51
Alignment explanation
Indices: 1030330--1030458 Score: 143
Period size: 51 Copynumber: 2.5 Consensus size: 51
1030320 GGTGTTTTGA
* * * * *
1030330 AAATAAAATCGAGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAG
1 AAATAAAACCGAGGTTGGAGTATCCCCGATTATGGAAAATCAATATTTTAG
* * *
1030381 AAATAAAACCGAGGTTGAAGTATCCCTGATTAT-GAGAAATCAATATTTTGG
1 AAATAAAACCGAGGTTGGAGTATCCCCGATTATGGA-AAATCAATATTTTAG
* * *
1030432 GAATAAAGCCGGGGTTGGAGTATCCCC
1 AAATAAAACCGAGGTTGGAGTATCCCC
1030459 TCGGAGGTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 2 0.03
51 62 0.97
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (51 bp):
AAATAAAACCGAGGTTGGAGTATCCCCGATTATGGAAAATCAATATTTTAG
Found at i:1030449 original size:262 final size:262
Alignment explanation
Indices: 1030131--1030622 Score: 840
Period size: 262 Copynumber: 1.9 Consensus size: 262
1030121 GAAATAACGG
* *
1030131 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCTGGGTTGGAGTATCCC
1 GGTTGAAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
*
1030196 CTCAGAGGTAACGGGGTTGGAGTATCCCCAATGAAATAACGAGATTGGAATATCTTCGATTGTGA
66 CTCAGAGGTAACGGGGTTGGAGTATCCCCAATGAAATAACGAGATTGGAATATCCTCGATTGTGA
* *
1030261 AAATTTGGTGTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCAATTAAAGGAAAATTGGTGTT
131 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCAATTAAAGGAAAATTGGTGTT
*
1030326 TTGAAAATAAAATCGAGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
196 TTGAAAATAAAATCGAGGTTGAAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
1030391 GA
261 GA
** *
1030393 GGTTGAAGTATCCCTGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGAAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
* * * *
1030458 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
66 CTCAGAGGTAACGGGGTTGGAGTATCCCCAATGAAATAACGAGATTGGAATATCCTCGATTGTGA
* *
1030523 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCAATTAAAGGAAAATTTGTGTT
131 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCAATTAAAGGAAAATTGGTGTT
*
1030588 TTGAAAATAAAATCGGGGTTGAAGTATCCCCGATT
196 TTGAAAATAAAATCGAGGTTGAAGTATCCCCGATT
1030623 ATGACCAATT
Statistics
Matches: 214, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
262 214 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (262 bp):
GGTTGAAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
CTCAGAGGTAACGGGGTTGGAGTATCCCCAATGAAATAACGAGATTGGAATATCCTCGATTGTGA
AAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCAATTAAAGGAAAATTGGTGTT
TTGAAAATAAAATCGAGGTTGAAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
GA
Found at i:1030497 original size:28 final size:28
Alignment explanation
Indices: 1030441--1030517 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
1030431 GGAATAAAGC
*** **
1030441 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1030469 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
1030497 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1030518 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1033004 original size:13 final size:13
Alignment explanation
Indices: 1032986--1033011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1032976 ACAAAGATCG
1032986 ATGTATCGATACA
1 ATGTATCGATACA
1032999 ATGTATCGATACA
1 ATGTATCGATACA
1033012 TTTCCTTAAT
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:1033022 original size:21 final size:21
Alignment explanation
Indices: 1032998--1033039 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1032988 GTATCGATAC
1032998 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1033019 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1033040 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:1033090 original size:19 final size:19
Alignment explanation
Indices: 1033066--1033113 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
1033056 CGATACATTA
1033066 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
*
1033085 TATCGATACAACACTTATG
1 TATCGATACAAAACTTATG
1033104 TATCGATACA
1 TATCGATACA
1033114 TTTTCTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (19 bp):
TATCGATACAAAACTTATG
Found at i:1033197 original size:21 final size:21
Alignment explanation
Indices: 1033173--1033226 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
1033163 ATTGGGACCT
1033173 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
1033194 TGTATGGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
1033215 TGTATTGATACA
1 TGTATCGATACA
1033227 ATTGGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:1034034 original size:20 final size:20
Alignment explanation
Indices: 1034006--1034080 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1033996 TTTTACCTTG
1034006 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1034026 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1034046 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1034066 ATGTATCGATACATT
1 ATGTATCGATACATT
1034081 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1034073 original size:40 final size:39
Alignment explanation
Indices: 1034006--1034083 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1033996 TTTTACCTTG
* *
1034006 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1034046 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1034084 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1035016 original size:23 final size:23
Alignment explanation
Indices: 1034989--1035045 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
1034979 AGCCTTTGAC
1034989 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
1035012 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
1035035 CATGCATTTTT
1 CATGCATTTTT
1035046 AACATGTCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.63
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:1035052 original size:20 final size:21
Alignment explanation
Indices: 1034997--1035052 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 21
1034987 ACCATGCATT
**
1034997 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
1035018 TTTTTTTTATTATGTTTCATGCA
1 --TTTTTTAACATGTTTCATGCA
1035041 -TTTTTAACATGT
1 TTTTTTAACATGT
1035053 CCAGTATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 10 0.32
23 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:1038387 original size:21 final size:21
Alignment explanation
Indices: 1038348--1038387 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1038338 GAAGGGACAC
*
1038348 TTTTTTTTATTGATGTTCAAT
1 TTTTTTTTATTGATATTCAAT
* *
1038369 TTTTTTTTTTTGCTATTCA
1 TTTTTTTTATTGATATTCA
1038388 TTCCCATTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTTTTTATTGATATTCAAT
Found at i:1049420 original size:29 final size:29
Alignment explanation
Indices: 1049362--1050796 Score: 1728
Period size: 28 Copynumber: 50.0 Consensus size: 29
1049352 AATGTTCATC
1049362 CCTTTCAAAGCCCACAAAGTCAGTGGCACT
1 CCTTTCAAAGCCCAC-AAGTCAGTGGCACT
1049392 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
** *
1049421 ATTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1049450 CTTTTTAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
** *
1049479 ATTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1049508 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
**
1049537 TTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1049565 CCTTTCGAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1049593 CCTTGCGAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1049622 -CTTTCAAAGCCCACAAGTTAGTGGCTC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1049649 CCTTTCAAAGCCCACAAGTCAGTGGCTC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1049677 CCTTTCAAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* *
1049708 CCTTTTAAAGCCCACGCAAGTTAGTGGCACAT
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCAC-T
*
1049740 --TTTCAAAGCCCACGAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1049767 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1049794 CCTTTC-AAGCCCACGAGTCAGTGGTAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1049821 CTTTTCAAAGCCCACGAGTCAGTGGCA--
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1049848 CCTTTCAAAACCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1049877 -CTTTCAAAGCCCACGAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1049904 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1049932 CCTTTCAAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
*
1049963 CCTTTCAAAGCCCACAAGTCAATGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1049992 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1050021 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1050049 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1050078 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
** *
1050107 TTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1050136 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1050164 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1050192 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1050220 CCTTTCGAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * *
1050249 -ATTGCGAAGCCCATAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1050277 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1050304 CCTTTTAAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * * *
1050335 CCTTTTAAAGCTCACGCAAGTTAGTGGTA--
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACT
*
1050364 CCTTTCCAAAGCCCACGAGTCAGTGGCACT
1 CCTTT-CAAAGCCCACAAGTCAGTGGCACT
* * * *
1050394 -TTTTCAAAGCTCACAAGTTAGGGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1050421 CCTTTCAAAGCCCACGAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1050449 CCTTTCAAAGCCCACACAAGTCAGTGGCA--
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
1050478 CCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
1050508 CTTTTCAAAGCCCACGAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1050537 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1050564 CCTTTC-AAGCCCACGAGTCAGTGGTAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1050591 CTTTTCAAAGCCCACGAGTCAGTGGCA--
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1050618 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1050647 -CTTTCAAAGCCCACGAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1050674 CCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* **
1050704 CCTTTTAAAGCCCACGCAAGTCAGTAACACT
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
1050735 CTTTTCAAAGCCCACATGAGTCAATGGCAACT
1 CCTTTCAAAGCCCACA--AGTCAGTGGC-ACT
**
1050767 TTTTTCAAAGCCTACACAAG-CTAGTGGCAC
1 CCTTTCAAAGCC--CACAAGTC-AGTGGCAC
1050797 AATTTTTTTT
Statistics
Matches: 1248, Mismatches: 106, Indels: 101
0.86 0.07 0.07
Matches are distributed among these distances:
27 103 0.08
28 553 0.44
29 340 0.27
30 148 0.12
31 78 0.06
32 22 0.02
34 4 0.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:1049460 original size:58 final size:58
Alignment explanation
Indices: 1049362--1050796 Score: 1728
Period size: 58 Copynumber: 25.0 Consensus size: 58
1049352 AATGTTCATC
1049362 CCTTTCAAAGCCCACAAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCAC-AAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
** * * *
1049421 ATTTTCAAAGCCCACAAATCAGTGGCACTCTTTTTAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
** * *
1049479 ATTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
** *
1049537 TTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCGAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
1049593 CCTTGCGAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTTAGTGGCTC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1049649 CCTTTCAAAGCCCACAAGTCAGTGGCTC-CCTTTCAAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * *
1049708 CCTTTTAAAGCCCACGCAAGTTAGTGGCACAT--TTTCAAAGCCCACGAGTCAGTGGCACT
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCAC-TCCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1049767 -CTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC-AAGCCCACGAGTCAGTGGTAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
1049821 CTTTTCAAAGCCCACGAGTCAGTGGCA--CCTTTCAAAACCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1049877 -CTTTCAAAGCCCACGAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1049932 CCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAATGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
1049992 CTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
1050049 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
** * *
1050107 TTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1050164 CCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * * *
1050220 CCTTTCGAAGCCCACAAGTCAGTGGCACT-ATTGCGAAGCCCATAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1050277 -CTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTTAAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * * * *
1050335 CCTTTTAAAGCTCACGCAAGTTAGTGGTA--CCTTTCCAAAGCCCACGAGTCAGTGGCACT
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACTCCTTT-CAAAGCCCACAAGTCAGTGGCACT
* * * * * *
1050394 -TTTTCAAAGCTCACAAGTTAGGGGCA-TCCTTTCAAAGCCCACGAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
1050449 CCTTTCAAAGCCCACACAAGTCAGTGGCA--CCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
1050508 CTTTTCAAAGCCCACGAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
1050564 CCTTTC-AAGCCCACGAGTCAGTGGTAC-CTTTTCAAAGCCCACGAGTCAGTGGCA--
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1050618 CCTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACGAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* **
1050674 CCTTTCAAAGCCCACGCAAGTCAGTGGCAC-CCTTTTAAAGCCCACGCAAGTCAGTAACACT
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* * **
1050735 CTTTTCAAAGCCCACATGAGTCAATGGCAACTTTTTTCAAAGCCTACACAAG-CTAGTGGCAC
1 CCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCCTTTCAAAGCC--CACAAGTC-AGTGGCAC
1050797 AATTTTTTTT
Statistics
Matches: 1212, Mismatches: 109, Indels: 106
0.85 0.08 0.07
Matches are distributed among these distances:
54 12 0.01
55 175 0.14
56 314 0.26
57 144 0.12
58 335 0.28
59 120 0.10
60 29 0.02
61 59 0.05
62 3 0.00
63 19 0.02
65 2 0.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (58 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:1051385 original size:20 final size:20
Alignment explanation
Indices: 1051357--1051431 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1051347 TTTTACCTTG
1051357 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1051377 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1051397 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1051417 ATGTATCGATACATT
1 ATGTATCGATACATT
1051432 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1051424 original size:40 final size:39
Alignment explanation
Indices: 1051357--1051434 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1051347 TTTTACCTTG
* *
1051357 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1051397 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1051435 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1052372 original size:24 final size:24
Alignment explanation
Indices: 1052340--1052396 Score: 100
Period size: 22 Copynumber: 2.5 Consensus size: 24
1052330 AGCCTTTGAC
1052340 CATGCATTTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
1052364 CATGCA--TTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
1052386 CATGCATTTTT
1 CATGCATTTTT
1052397 AACATGTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 22 0.71
24 9 0.29
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.63
Consensus pattern (24 bp):
CATGCATTTTTTTTTATTATGTTT
Found at i:1052403 original size:20 final size:21
Alignment explanation
Indices: 1052349--1052403 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
1052339 CCATGCATTT
**
1052349 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
1052370 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
1052392 -TTTTTAACATGT
1 TTTTTTAACATGT
1052404 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:1057014 original size:53 final size:54
Alignment explanation
Indices: 1056901--1057017 Score: 150
Period size: 53 Copynumber: 2.2 Consensus size: 54
1056891 TTGGATTAAA
*
1056901 ATTTAAACAATAATAAAAAAGTAAAAATATATTTTATATTAAATGCCAAATTATC
1 ATTTAAA-AATAATAAAAAAGTAAAAATATATTTTATATTAAATACCAAATTATC
* * *
1056956 GTTTAAAAATAAT-AAAAATTAAAAATATATTTTATATTAAA-ACTTAAATTA-C
1 ATTTAAAAATAATAAAAAAGTAAAAATATATTTTATATTAAATAC-CAAATTATC
1057008 TATTTAAAAA
1 -ATTTAAAAA
1057018 ATATTTTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
52 2 0.04
53 41 0.75
54 6 0.11
55 6 0.11
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (54 bp):
ATTTAAAAATAATAAAAAAGTAAAAATATATTTTATATTAAATACCAAATTATC
Found at i:1057170 original size:132 final size:130
Alignment explanation
Indices: 1056924--1057159 Score: 293
Period size: 132 Copynumber: 1.8 Consensus size: 130
1056914 TAAAAAAGTA
*
1056924 AAAATATATTTTATATTAAATGCCAAATTATCGTTTAAAAATAATAAAAATTAAAAATATATTTT
1 AAAATATATTTTATATTAAATGCCAAATTATCGTTTAAAAATAATAAAAATTAAAAATATATTAT
* * * *
1056989 ATATTAAAACTTAAATTACTATTTAAAAAATATTTTTAAATCTTGAATTACTATTTAAAAATAAA
66 ACATTAAAACCTAAATTACTATTTAAAAAATA---TAAAAACTTGAATTACTATTTAAAAATAAA
1057054 AAT
128 AAT
* * *
1057057 AAAATATTTTTTATATTAAAT-CCTAAATTA-CTTTTAAAAATAATAAAAAATTAACAA-ATATT
1 AAAATATATTTTATATTAAATGCC-AAATTATCGTTTAAAAATAAT-AAAAATTAAAAATATATT
* *
1057119 ATACATTAAATCCTAAGTTA-TATTTAGAAAAATA-AAAAACT
64 ATACATTAAAACCTAAATTACTATTTA-AAAAATATAAAAACT
1057160 ATGATAAATT
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
128 5 0.06
131 6 0.07
132 42 0.47
133 37 0.41
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (130 bp):
AAAATATATTTTATATTAAATGCCAAATTATCGTTTAAAAATAATAAAAATTAAAAATATATTAT
ACATTAAAACCTAAATTACTATTTAAAAAATATAAAAACTTGAATTACTATTTAAAAATAAAAAT
Found at i:1057202 original size:52 final size:51
Alignment explanation
Indices: 1057146--1057686 Score: 398
Period size: 53 Copynumber: 10.4 Consensus size: 51
1057136 TTATATTTAG
** *
1057146 AAAAATAAAAAACTATGATAAATTAAATCTCGAATTACTATTTAAAAATAAT
1 AAAAATAAAAAA-TATTTTATATTAAATCTCGAATTACTATTTAAAAATAAT
* * *
1057198 AAAAATTAAAAAATATTTTATATTAAATCTTGAAGTACTATTT---AAGAA-
1 AAAAA-TAAAAAATATTTTATATTAAATCTCGAATTACTATTTAAAAATAAT
* * ** *
1057246 AAAACT-AAAAATATTTTATATTAAATCTAGGACGTAGTATTTAAAAATAAT
1 AAAAATAAAAAATATTTTATATTAAATCT-CGAATTACTATTTAAAAATAAT
* ** *
1057297 AAAAATAAAAAATATTTTATATTAAATATTAAATATTAAATTATTATTTAAAAATAAT
1 AAAAATAAAAAATA---T-T-TT--ATATTAAATCTCGAATTACTATTTAAAAATAAT
* * *
1057355 AAAAATTTTAAAATTATTTTA-ATTAAATC-CCAACTTACTATTTAAAAACTAAT
1 AAAAA--TAAAAAATATTTTATATTAAATCTCGAA-TTACTATTTAAAAA-TAAT
* * ** * *
1057408 AAATATTTTAAATTTATTTTATATTAAATCCCAAATTACTA-TT-----TAA-
1 AAA-A-ATAAAAAATATTTTATATTAAATCTCGAATTACTATTTAAAAATAAT
* *
1057454 AAAAAT-AAAAATATTTTATATTAAGTC-CTAAATTACTATTTAAAAATAAT
1 AAAAATAAAAAATATTTTATATTAAATCTC-GAATTACTATTTAAAAATAAT
*
1057504 AAAAAAATTAAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAATAAT
1 --AAAAA-TAAAAAATATTTTATATTAAATCTCGAATTACTATTTAAAAATAAT
* * * * *
1057558 AAAAA-AATTAAAAGTATTTTATAGTAAATTTCAAATTATTATTTAAAAATTAT
1 AAAAATAA--AAAA-TATTTTATATTAAATCTCGAATTACTATTTAAAAATAAT
* *
1057611 AAAAAAAATTAAAAAATTTTATATTAAATCTCGAATTACTATTTGAAAAATAA-
1 AAAAATAA--AAAATATTTTATATTAAATCTCGAATTACTATTT-AAAAATAAT
*
1057664 AAAATTAAAAACATATTTTATAT
1 AAAAATAAAAA-ATATTTTATAT
1057687 ATGTATTGGG
Statistics
Matches: 399, Mismatches: 49, Indels: 82
0.75 0.09 0.15
Matches are distributed among these distances:
42 1 0.00
43 27 0.07
44 3 0.01
45 1 0.00
46 25 0.06
47 14 0.04
48 4 0.01
49 7 0.02
50 6 0.02
51 10 0.03
52 81 0.20
53 100 0.25
54 70 0.18
55 6 0.02
56 2 0.01
57 3 0.01
58 22 0.06
59 10 0.03
60 7 0.02
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (51 bp):
AAAAATAAAAAATATTTTATATTAAATCTCGAATTACTATTTAAAAATAAT
Found at i:1057265 original size:46 final size:50
Alignment explanation
Indices: 1057146--1057323 Score: 168
Period size: 52 Copynumber: 3.5 Consensus size: 50
1057136 TTATATTTAG
** * * * *
1057146 AAAAATAAAAAACTATGATAAATTAAATCT-CGAATTACTATTTAAAAATAAT
1 AAAAATAAAAAA-TATTTTATATTAAATCTAGGAAGTACTATTT--AAAGAAT
*
1057198 AAAAATTAAAAAATATTTTATATTAAATCT-TGAAGTACTATTT-AAGAA-
1 AAAAA-TAAAAAATATTTTATATTAAATCTAGGAAGTACTATTTAAAGAAT
* * * *
1057246 AAAACT-AAAAATATTTTATATTAAATCTAGGACGTAGTATTTAAAAATAAT
1 AAAAATAAAAAATATTTTATATTAAATCTAGGAAGTACTATTT--AAAGAAT
1057297 AAAAATAAAAAATATTTTATATTAAAT
1 AAAAATAAAAAATATTTTATATTAAAT
1057324 ATTAAATATT
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
46 22 0.21
47 11 0.10
48 4 0.04
49 4 0.04
50 4 0.04
51 5 0.05
52 50 0.47
53 7 0.07
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (50 bp):
AAAAATAAAAAATATTTTATATTAAATCTAGGAAGTACTATTTAAAGAAT
Found at i:1057487 original size:43 final size:44
Alignment explanation
Indices: 1057422--1057508 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 44
1057412 ATTTTAAATT
1057422 TATTTTATATTAAATCCCAAATTACTATTTAAAAA-AATAAAAA
1 TATTTTATATTAAATCCCAAATTACTATTTAAAAATAATAAAAA
* *
1057465 TATTTTATATTAAGTCCTAAATTACTATTTAAAAATAATAAAAA
1 TATTTTATATTAAATCCCAAATTACTATTTAAAAATAATAAAAA
1057509 AATTAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 33 0.80
44 8 0.20
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.39
Consensus pattern (44 bp):
TATTTTATATTAAATCCCAAATTACTATTTAAAAATAATAAAAA
Found at i:1057570 original size:107 final size:104
Alignment explanation
Indices: 1057011--1057686 Score: 421
Period size: 97 Copynumber: 6.6 Consensus size: 104
1057001 AAATTACTAT
* * *
1057011 TTAAAAAATATT-T-TTAAATCTTGAATTACTATTT-AAAAAT--AAAAA-TAAAATATTTTTTA
1 TTAAAAAATTTTATATTAAATCTCGAATTACTATTTAAAAAATAAAAAAATTAAAA-ATATTTTA
1057070 TATTAAATC-CTAAATTACT-TTTAAAAATAAT--AAAAAA
65 TATTAAATCTC-AAATTACTATTTAAAAATAATAAAAAAAA
* * * * **
1057107 TTAACAAATATTATACATTAAATC-CTAAGTTA-TATTTAGAAAAAT-AAAAAACT-ATGATA--
1 TTAA-AAA-ATTTTATATTAAATCTCGAA-TTACTATTTA-AAAAATAAAAAAATTAAAAATATT
*
1057166 --A-ATTAAATCTCGAATTACTATTTAAAAATAAT---AAAAA
62 TTATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAAAA
* * * *
1057203 TTAAAAAATATTTTATATTAAATCTTGAAGTACTATTT----AA-GAAAAAACTAAAAATATTTT
1 TT-AAAAA-ATTTTATATTAAATCTCGAATTACTATTTAAAAAATAAAAAAATTAAAAATATTTT
** * *
1057263 ATATTAAATCT-AGGACGTAGTATTTAAAAATAATAAAAATAA
64 ATATTAAATCTCA--AATTACTATTTAAAAATAATAAAAAAAA
* * ** * *
1057305 --AAAATATTTTATATTAAATATTAAATATTAAATTATTATTTAAAAATAATAAAAATTTTAAAA
1 TTAAAAAATTTTATATTAAAT-CTCGA-ATT--ACTA-T-TTAAAAAATAA-AAAAA--TTAAAA
* * * * **
1057368 TTATTTTA-ATTAAATCCCAACTTACTATTTAAAAACTAAT-AAATATT
57 ATATTTTATATTAAATCTCAAATTACTATTTAAAAA-TAATAAAAAAAA
** * *
1057415 TTAAATTTATTTTATATTAAATCCCAAATTACTA-TT------TAAAAAAA-TAAAAATATTTTA
1 TTAAA-AAATTTTATATTAAATCTCGAATTACTATTTAAAAAATAAAAAAATTAAAAATATTTTA
*
1057472 TATTAAGTC-CTAAATTACTATTTAAAAATAAT-AAAAAAA
65 TATTAAATCTC-AAATTACTATTTAAAAATAATAAAAAAAA
* *
1057511 TTAAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAAATTAAAAGTATT
1 TT-AAAAA-ATTTTATATTAAATCTCGAATTACTATTT-AAAA-AATAAAAAAATTAAAAATATT
* * * *
1057576 TTATAGTAAATTTCAAATTATTATTTAAAAATTATAAAAAAAA
62 TTATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAAAA
*
1057619 TTAAAAAATTTTATATTAAATCTCGAATTACTATTTGAAAAAT-AAAAAATTAAAAACATATTTT
1 TTAAAAAATTTTATATTAAATCTCGAATTACTATTTAAAAAATAAAAAAATT-AAAA-ATATTTT
1057683 ATAT
64 ATAT
1057687 ATGTATTGGG
Statistics
Matches: 454, Mismatches: 63, Indels: 117
0.72 0.10 0.18
Matches are distributed among these distances:
92 10 0.02
93 4 0.01
96 68 0.15
97 76 0.17
98 28 0.06
99 35 0.08
100 15 0.03
101 8 0.02
102 13 0.03
103 10 0.02
104 9 0.02
105 12 0.03
106 38 0.08
107 42 0.09
108 12 0.03
109 4 0.01
110 22 0.05
111 15 0.03
112 18 0.04
113 15 0.03
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (104 bp):
TTAAAAAATTTTATATTAAATCTCGAATTACTATTTAAAAAATAAAAAAATTAAAAATATTTTAT
ATTAAATCTCAAATTACTATTTAAAAATAATAAAAAAAA
Found at i:1058112 original size:25 final size:22
Alignment explanation
Indices: 1058047--1058103 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
1058037 GCTTAGTTAA
1058047 AATCATATGTACACGTTATTAT
1 AATCATATGTACACGTTATTAT
*
1058069 AGTCATATGTACACGTTATTAT
1 AATCATATGTACACGTTATTAT
*
1058091 AATTATATGTACA
1 AATCATATGTACA
1058104 TTCAGTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (22 bp):
AATCATATGTACACGTTATTAT
Found at i:1058327 original size:73 final size:75
Alignment explanation
Indices: 1058164--1058381 Score: 325
Period size: 73 Copynumber: 2.9 Consensus size: 75
1058154 TCTTCTTAAA
*
1058164 AGGAACTAACTCTCATGCTAAATAATACACAAATCAAGAAAGAAAATGATCTTGTT-ATGAAAGC
1 AGGAACCAACTCTCATGCTAAATAATACACAAATCAAGAAAGAAAA-GATCTT-TTCATGAAAGC
*
1058228 AACCGACTCCTT
64 AACCAACTCCTT
* * *
1058240 AAGAACCAACTCTCATGCTAAATAATACATAAATCAAAAAAG-AAA-ATCTTTTCATGAAAGCAA
1 AGGAACCAACTCTCATGCTAAATAATACACAAATCAAGAAAGAAAAGATCTTTTCATGAAAGCAA
1058303 CCAACTCCTT
66 CCAACTCCTT
* *
1058313 AGGAACCAACTCTCAGGGTAAATAATACACAAATCAAGAAAGAAAACGATCTTTTCATGAAAGCA
1 AGGAACCAACTCTCATGCTAAATAATACACAAATCAAGAAAGAAAA-GATCTTTTCATGAAAGCA
1058378 ACCA
65 ACCA
1058382 TTTCTTAGGT
Statistics
Matches: 128, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
72 2 0.02
73 61 0.48
74 3 0.02
75 3 0.02
76 59 0.46
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.22
Consensus pattern (75 bp):
AGGAACCAACTCTCATGCTAAATAATACACAAATCAAGAAAGAAAAGATCTTTTCATGAAAGCAA
CCAACTCCTT
Found at i:1058443 original size:22 final size:22
Alignment explanation
Indices: 1058430--1058484 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
1058420 ATTTAGTTGA
1058430 AGTCATATGTACATGTTATTAT
1 AGTCATATGTACATGTTATTAT
* *
1058452 AGTCATATGTATAT-TCAATTAT
1 AGTCATATGTACATGT-TATTAT
*
1058474 AGTTATATGTA
1 AGTCATATGTA
1058485 AATATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (22 bp):
AGTCATATGTACATGTTATTAT
Found at i:1058805 original size:22 final size:23
Alignment explanation
Indices: 1058766--1058823 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
1058756 TTAATTTTAC
1058766 TATATGTACAT-TTAGTTAAAAT
1 TATATGTACATATTAGTTAAAAT
* *
1058788 TATATGTACATATT-GTTATAGT
1 TATATGTACATATTAGTTAAAAT
* *
1058810 CATATGTGCATATT
1 TATATGTACATATT
1058824 TTTTATTCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (23 bp):
TATATGTACATATTAGTTAAAAT
Found at i:1059155 original size:23 final size:24
Alignment explanation
Indices: 1059093--1059159 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 24
1059083 AATAAAAATT
1059093 ATATTTATTTAAATTTAATTATAAA
1 ATATTT-TTTAAATTTAATTATAAA
**
1059118 A-A-TTTAAAAACTTTAA-TATAAA
1 ATATTTTTTAAA-TTTAATTATAAA
*
1059140 ATATTTTTT-AATTTTATTAT
1 ATATTTTTTAAATTTAATTAT
1059160 TTTAATATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
22 15 0.45
23 13 0.39
24 4 0.12
25 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATTTTTTAAATTTAATTATAAA
Found at i:1059332 original size:2 final size:2
Alignment explanation
Indices: 1059325--1059375 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1059315 GCCGTATCCG
1059325 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1059367 TA TA TA TA T
1 TA TA TA TA T
1059376 GAGCTAATTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1061074 original size:7 final size:8
Alignment explanation
Indices: 1061055--1061093 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
1061045 GATAGTATCA
1061055 AAAAATTT
1 AAAAATTT
1061063 AAAAATTT
1 AAAAATTT
1061071 AAAAATAATT
1 AAAAAT--TT
*
1061081 AAAAAATT
1 AAAAATTT
1061089 AAAAA
1 AAAAA
1061094 GAAAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 21 0.75
10 7 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAAATTT
Found at i:1061085 original size:19 final size:17
Alignment explanation
Indices: 1061054--1061093 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
1061044 TGATAGTATC
* *
1061054 AAAAAATTTAAAAATTT
1 AAAAAAATTAAAAAATT
1061071 AAAAATAATTAAAAAATT
1 AAAAA-AATTAAAAAATT
1061089 AAAAA
1 AAAAA
1061094 GAAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAAATTAAAAAATT
Found at i:1061126 original size:17 final size:18
Alignment explanation
Indices: 1061081--1061128 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
1061071 AAAAATAATT
1061081 AAAAAATTAAAA--AGAA
1 AAAAAATTAAAATTAGAA
**
1061097 AAAAAAAGAAAATTAG-A
1 AAAAAATTAAAATTAGAA
1061114 AAAAAATTAAAATTA
1 AAAAAATTAAAATTA
1061129 AAATAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 10 0.38
17 14 0.54
18 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAAAATTAAAATTAGAA
Found at i:1061355 original size:10 final size:9
Alignment explanation
Indices: 1061342--1061393 Score: 54
Period size: 9 Copynumber: 5.6 Consensus size: 9
1061332 ATTTAATTAG
1061342 TTTTTTATCT
1 TTTTTTAT-T
1061352 TTTTTTATT
1 TTTTTTATT
1061361 TTTTATT-TT
1 TTTT-TTATT
1061370 TTATTTT-TT
1 TT-TTTTATT
1061379 ATTTTTTATT
1 -TTTTTTATT
1061389 TTTTT
1 TTTTT
1061394 ATCTATTCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
9 22 0.58
10 16 0.42
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTATT
Found at i:1061362 original size:7 final size:7
Alignment explanation
Indices: 1061352--1061392 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
1061342 TTTTTTATCT
1061352 TTTTTTA
1 TTTTTTA
1061359 TTTTTTA
1 TTTTTTA
1061366 TTTTTTA
1 TTTTTTA
1061373 TTTTTTA
1 TTTTTTA
1061380 TTTTTTA
1 TTTTTTA
1061387 TTTTTT
1 TTTTTT
1061393 TATCTATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:1066532 original size:2 final size:2
Alignment explanation
Indices: 1066519--1066559 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1066509 TGTACTTTCA
*
1066519 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1066560 TTTGTAGTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:1067871 original size:2 final size:2
Alignment explanation
Indices: 1067864--1067902 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1067854 GCCAGACAGC
1067864 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1067903 TGTATTTGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1076413 original size:20 final size:20
Alignment explanation
Indices: 1076366--1076440 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1076356 AAAAAGACAT
*
1076366 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1076385 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1076406 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1076426 AATGTATCGATACAT
1 AATGTATCGATACAT
1076441 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1076434 original size:40 final size:39
Alignment explanation
Indices: 1076363--1076440 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1076353 GGTAAAAAGA
* *
1076363 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1076402 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1076441 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1077018 original size:32 final size:30
Alignment explanation
Indices: 1076969--1077884 Score: 930
Period size: 32 Copynumber: 30.2 Consensus size: 30
1076959 AATATGGTGA
*
1076969 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACTGACTTG--TGGGC
* *
1077001 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
* *
1077033 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
* * *
1077065 TTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
*
1077097 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
*
1077129 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
*
1077161 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
* *
1077193 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
*
1077225 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
*
1077257 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
*
1077289 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
*
1077321 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
* *
1077353 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
* *
1077385 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGAC-T-TGTGGGC
*
1077417 TTTGAAATGGGTTGCCACCGACTTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGGGC
* *
1077447 TCTGAAA-GGG-TGCCACTAACTTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGGGC
* * * * *
1077475 TCTGAAAAGAG-TGCCACTGGCTTGTGGGT
1 TTTGAAATGGGTTGCCACTGACTTGTGGGC
* *
1077504 TTTGAAA-GGAG-TGCCACTGGCTTGTGGGT
1 TTTGAAATGG-GTTGCCACTGACTTGTGGGC
1077533 TTTGAAA-GGAG-TGCCACTGACTTGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGGGC
* * *
1077562 TTTGAAA--GGATGCCAATGAGTTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGGGC
1077590 TTTGAAA-GGG-TGCCACTGACTTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGGGC
* * *
1077618 TTTGAAAAGAG-TGCCACTGATTTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGGGC
1077647 TTTGAAA-GGAG-TGCCACTGACTTGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGGGC
1077676 TTTGAAA-GGAG-TGCCACTGACTTGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGGGC
*
1077705 TTTGAAA-GGAG-TGCCACTGATTTGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGGGC
* * * *
1077734 TTTGAAAAGAG-TGCCACTAACTTGTAGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGGGC
1077763 TTTGAAA-GGAG-TGCCACTGACTTGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGGGC
1077792 TTTGAAA-GGG-TGCCACTGACTTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGGGC
* * *
1077820 TTTGAAAAGAG-TGCCACTGATTTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGGGC
1077849 TTTGAAA-GGAG-TGCCACTGACTTGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGGGC
1077878 TTTGAAA
1 TTTGAAA
1077885 GGGATGAACA
Statistics
Matches: 827, Mismatches: 45, Indels: 27
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.00
28 100 0.12
29 289 0.35
30 14 0.02
31 1 0.00
32 419 0.51
33 1 0.00
34 2 0.00
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (30 bp):
TTTGAAATGGGTTGCCACTGACTTGTGGGC
Found at i:1079132 original size:18 final size:17
Alignment explanation
Indices: 1079109--1079143 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
1079099 GACCCTTCTA
1079109 TTTTTTGCTTTTTTTTTT
1 TTTTTTG-TTTTTTTTTT
1079127 TTTTTTGTTTTTTTTTT
1 TTTTTTGTTTTTTTTTT
1079144 GGGTGTAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTTT
Found at i:1079141 original size:9 final size:9
Alignment explanation
Indices: 1079109--1079141 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
1079099 GACCCTTCTA
1079109 TTTTTTGCTT
1 TTTTTTG-TT
1079119 TTTTTT-TT
1 TTTTTTGTT
1079127 TTTTTTGTT
1 TTTTTTGTT
1079136 TTTTTT
1 TTTTTT
1079142 TTGGGTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 8 0.36
10 6 0.27
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:1093205 original size:20 final size:20
Alignment explanation
Indices: 1093158--1093232 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1093148 AAAAAGACAT
*
1093158 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1093177 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1093198 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1093218 AATGTATCGATACAT
1 AATGTATCGATACAT
1093233 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1093226 original size:40 final size:39
Alignment explanation
Indices: 1093155--1093232 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1093145 GGTAAAAAGA
* *
1093155 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1093194 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1093233 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1097343 original size:35 final size:35
Alignment explanation
Indices: 1097304--1097378 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
1097294 TCTCGTGCTT
1097304 TGGAACTCATAGTTATGAGCCTGAATCCATTAGCA
1 TGGAACTCATAGTTATGAGCCTGAATCCATTAGCA
1097339 TGGAACTCATAGTTATGAGCCTGAATCCATTAGCA
1 TGGAACTCATAGTTATGAGCCTGAATCCATTAGCA
1097374 TGGAA
1 TGGAA
1097379 TATTTTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (35 bp):
TGGAACTCATAGTTATGAGCCTGAATCCATTAGCA
Found at i:1099880 original size:148 final size:148
Alignment explanation
Indices: 1099610--1100190 Score: 891
Period size: 148 Copynumber: 3.9 Consensus size: 148
1099600 AACTAATTAG
* ** *
1099610 TTATCATGAAAACTCATTTTCTTTGTTAAATCATAAAAGAACCATTAA-TTTTAGAAATCTAATC
1 TTATCATGAAAACTCATTTTCTTTGTTAATTCATGCAAGAACCATTAACTTTT-GAAATCCAATC
* * * * *
1099674 TTAGAATTCTTATCTTGATAGA-TTTACCTTTTAAAGGTAATAATTAGCATAATTCAAGGGTTAT
65 TTAGAATTCTTATCTCGATA-ACGTTACTTTTTTAAGGTAATAATTAGCATAATTCAAGGGTTGT
* *
1099738 AAAAGCAA-TTGGGTTTTTTTT
129 AAAAGCAACAT-GG-TTTTGTT
* *
1099759 TTATCATTAAAACTCATTTTCTTTGTTAATTCATGCAAGAAACATTAA-TTTTGAAATCCAATCT
1 TTATCATGAAAACTCATTTTCTTTGTTAATTCATGCAAGAACCATTAACTTTTGAAATCCAATCT
* * * *
1099823 TAGAAGTCTTATCTCAATACCGTTACTTTTTTAAGGTGATAATTAGCATAATTCAAGGGTTGTAA
66 TAGAATTCTTATCTCGATAACGTTACTTTTTTAAGGTAATAATTAGCATAATTCAAGGGTTGTAA
*
1099888 AAGTAACATGGTTTTGTT
131 AAGCAACATGGTTTTGTT
*
1099906 TTATCATGAAAACTCATTTTCTTTGTTAATTCATGCAAGCACCATTAACTTTTGAAATCCAATCT
1 TTATCATGAAAACTCATTTTCTTTGTTAATTCATGCAAGAACCATTAACTTTTGAAATCCAATCT
* *
1099971 TAGAATTCTTATCTCGATAATGTTACTTTTTTAAAGTAATAATTAGCATAATTCAAGGGTTGTAA
66 TAGAATTCTTATCTCGATAACGTTACTTTTTTAAGGTAATAATTAGCATAATTCAAGGGTTGTAA
1100036 AAGCAACATGGTTTTGTT
131 AAGCAACATGGTTTTGTT
*
1100054 TTATCATGAAAACTCATTTTCTTTGTTAATTCATGCAAGCACCATTAACTTTTGAAATCCAATCT
1 TTATCATGAAAACTCATTTTCTTTGTTAATTCATGCAAGAACCATTAACTTTTGAAATCCAATCT
1100119 TAGAATTCTTATCTCGATAACGTTACTTTTTTAAGGTAATAATTAGCATAATTCAAGGGTTGTAA
66 TAGAATTCTTATCTCGATAACGTTACTTTTTTAAGGTAATAATTAGCATAATTCAAGGGTTGTAA
*
1100184 ATGCAAC
131 AAGCAAC
1100191 TTGTTCTGTT
Statistics
Matches: 398, Mismatches: 31, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
147 51 0.13
148 299 0.75
149 48 0.12
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.40
Consensus pattern (148 bp):
TTATCATGAAAACTCATTTTCTTTGTTAATTCATGCAAGAACCATTAACTTTTGAAATCCAATCT
TAGAATTCTTATCTCGATAACGTTACTTTTTTAAGGTAATAATTAGCATAATTCAAGGGTTGTAA
AAGCAACATGGTTTTGTT
Found at i:1101343 original size:29 final size:29
Alignment explanation
Indices: 1101285--1101344 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
1101275 GTGTAGGTCC
* * *
1101285 TTTGGCAAAGGTATTTTAGCATATATACT
1 TTTGGCAAAGGTAGTTTAGCATAGACACT
*
1101314 TTTGGCACAA-GTAGTTTAGCATAGGCACT
1 TTTGGCA-AAGGTAGTTTAGCATAGACACT
1101343 TT
1 TT
1101345 AGTATAGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.38
Consensus pattern (29 bp):
TTTGGCAAAGGTAGTTTAGCATAGACACT
Found at i:1104397 original size:19 final size:19
Alignment explanation
Indices: 1104373--1104413 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
1104363 GACTACTGTT
1104373 ACTAGACCCATTAGGTTTC
1 ACTAGACCCATTAGGTTTC
*
1104392 ACTAGACCTATTAGGTTTC
1 ACTAGACCCATTAGGTTTC
1104411 ACT
1 ACT
1104414 CCCAAAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (19 bp):
ACTAGACCCATTAGGTTTC
Found at i:1105070 original size:19 final size:19
Alignment explanation
Indices: 1105046--1105113 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1105036 AATTCAACAA
1105046 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1105065 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1105080 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1105097 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1105114 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1105085 original size:13 final size:13
Alignment explanation
Indices: 1105067--1105091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1105057 ACATAAGTTT
1105067 TGTATCGATACAA
1 TGTATCGATACAA
1105080 TGTATCGATACA
1 TGTATCGATACA
1105092 TAAGTATTGT
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:1105085 original size:32 final size:32
Alignment explanation
Indices: 1105048--1105110 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1105038 TTCAACAATT
*
1105048 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1105080 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1105111 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1105171 original size:13 final size:13
Alignment explanation
Indices: 1105153--1105178 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1105143 CATTTTTCTG
1105153 TGTATCGATACAT
1 TGTATCGATACAT
1105166 TGTATCGATACAT
1 TGTATCGATACAT
1105179 GGATCTTTGT
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:1105175 original size:33 final size:33
Alignment explanation
Indices: 1105133--1105199 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1105123 GCCAAGGAAA
***
1105133 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1105166 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1105199 T
1 T
1105200 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1107587 original size:51 final size:52
Alignment explanation
Indices: 1107531--1107864 Score: 163
Period size: 52 Copynumber: 6.3 Consensus size: 52
1107521 AATTCTCCAC
*
1107531 AATCGGGGATA-TCCCAACTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTTATTTCCAAAAACACTAATTTTCTAT
*
1107582 AATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACTAA-TTTCT-T
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACTAATTTTCTAT
* * * *** * * * ***
1107633 CGCAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAA-CCCCGT-T
1 ---AATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACTAATTTTC-TAT
* * * * * *
1107687 ATTTCCGAGGGGATACTCCAACCCCGGTTTTA--TCGCTAAAACACTAATTTTTCCAC
1 A-AT-C--GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACTAA-TTTTCTAT
* * * * *
1107743 AATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACGCCAATTTTCCTTT
1 AATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACTAATTTT-CTAT
* * *
1107795 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTT-TCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTCT-AT
*
1107847 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
1107865 CTCGTTATTT
Statistics
Matches: 215, Mismatches: 43, Indels: 49
0.70 0.14 0.16
Matches are distributed among these distances:
51 36 0.17
52 88 0.41
53 34 0.16
54 33 0.15
55 19 0.09
56 2 0.01
57 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTCTAT
Found at i:1107671 original size:27 final size:28
Alignment explanation
Indices: 1107637--1107712 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
1107627 TTTCTTCGCA
1107637 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
1107664 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
1107692 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1107713 GTTTTATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:1107765 original size:52 final size:50
Alignment explanation
Indices: 1107695--1107865 Score: 166
Period size: 52 Copynumber: 3.3 Consensus size: 50
1107685 TTATTTCCGA
*
1107695 GGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAA-CCCGGTTTTATC-CTAAAACACCAATTTTTCCACAATC
** * **
1107747 GGGGATACTCCAATCCCGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAA-CCCGGTTTTATCCT-AAAACACCAATTTTTCC-ACAATC
* * *
1107799 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCGGTTTTA--TCCTAAAACACCAATTTTTCCACAATC
*
1107851 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1107866 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
51 9 0.09
52 74 0.76
53 9 0.09
54 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (50 bp):
GGGGATACTCCAACCCGGTTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:1107884 original size:28 final size:28
Alignment explanation
Indices: 1107848--1107924 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
1107838 ATTTTTCACA
* * *
1107848 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1107876 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
1107904 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
1107925 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1107893 original size:212 final size:212
Alignment explanation
Indices: 1107526--1107929 Score: 620
Period size: 212 Copynumber: 1.9 Consensus size: 212
1107516 TTCTCAATTC
*
1107526 TCCACAATCGGGGATATCCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATATCCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* * *
1107591 TACTCTAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCGCAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAACCC
* *
1107656 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTATC
1107721 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
1107738 TCCACAATCGGGGATA-CTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGG
1 TCCACAATCGGGGATATC-CCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGG
1107801 GGATACTCCAACTCCGATTTTATTTCCAAAAATAC-C-AATTT-TTCACAATCGAGGATACTCCA
63 GGATACTCCAACTCCGATTTTATTTCCAAAAA-ACACTAATTTCTTCACAATCGAGGATACTCCA
* * *
1107863 ACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCCGATT
127 ACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATT
1107928 TT
191 TT
1107930 TTTTTTCTTC
Statistics
Matches: 175, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
211 29 0.17
212 103 0.59
213 41 0.23
214 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATATCCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTATC
GCTAAAACACTAATTTT
Found at i:1114059 original size:3 final size:3
Alignment explanation
Indices: 1114051--1114077 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1114041 CTTTGAACAA
1114051 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1114078 TAGCTGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1116931 original size:3 final size:3
Alignment explanation
Indices: 1116923--1116948 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1116913 AAAACAAATA
1116923 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1116949 GATTAATGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1117076 original size:21 final size:21
Alignment explanation
Indices: 1117052--1117097 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
1117042 AATGGCCATT
1117052 TAAATCAGTTTAAATTACAAA
1 TAAATCAGTTTAAATTACAAA
1117073 TAAATCAGTTTAAATTACAAA
1 TAAATCAGTTTAAATTACAAA
1117094 TAAA
1 TAAA
1117098 ATTTAGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (21 bp):
TAAATCAGTTTAAATTACAAA
Found at i:1120760 original size:33 final size:33
Alignment explanation
Indices: 1120723--1120789 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1120713 TTCAACGATT
1120723 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1120756 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1120789 T
1 T
1120790 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1120761 original size:13 final size:13
Alignment explanation
Indices: 1120743--1120767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1120733 CATAAAATGT
1120743 TGTATCGATACAA
1 TGTATCGATACAA
1120756 TGTATCGATACA
1 TGTATCGATACA
1120768 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1120848 original size:13 final size:13
Alignment explanation
Indices: 1120830--1120857 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1120820 ATTACTTAAA
1120830 TGTATCGATACAT
1 TGTATCGATACAT
1120843 TGTATCGATACAT
1 TGTATCGATACAT
1120856 TG
1 TG
1120858 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1120967 original size:52 final size:52
Alignment explanation
Indices: 1120863--1120986 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
1120853 CATTGATCTT
*
1120863 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1120914 TGTATCGATACATGCAGGCAAATTTGCCGAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1120966 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1120987 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
51 19 0.28
52 49 0.72
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1128041 original size:23 final size:21
Alignment explanation
Indices: 1127986--1128043 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
1127976 AATCCAAACC
1127986 AAAATT-TAA-TATTAAAATA
1 AAAATTATAATTATTAAAATA
*
1128005 AAAATAATTAAATTATTAAAAATTA
1 AAAATTA-T-AATTATT-AAAA-TA
1128030 AAAATTATAATTAT
1 AAAATTATAATTAT
1128044 CAATTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 5 0.16
21 1 0.03
22 2 0.06
23 10 0.32
24 5 0.16
25 8 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATTATAATTATTAAAATA
Found at i:1136582 original size:21 final size:21
Alignment explanation
Indices: 1136541--1136584 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1136531 CTCCCCTTTA
* *
1136541 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1136562 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1136583 TC
1 TC
1136585 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1140509 original size:15 final size:16
Alignment explanation
Indices: 1140476--1140510 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1140466 ATCAATTTCA
*
1140476 TTTGAAGCTTCTTCAT
1 TTTGAAGCTTCCTCAT
1140492 TTTG-AGCTTCCTCAT
1 TTTGAAGCTTCCTCAT
1140507 TTTG
1 TTTG
1140511 GACATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTGAAGCTTCCTCAT
Found at i:1142360 original size:21 final size:21
Alignment explanation
Indices: 1142314--1142358 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1142304 AAGTTTTCAT
1142314 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
1142334 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
1142356 TTT
1 TTT
1142359 CAACTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:1145701 original size:50 final size:51
Alignment explanation
Indices: 1145626--1145761 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 51
1145616 TTTCATAATT
* *
1145626 TGTATCGATACATCCTTT-ATTGTATCGATACATTTTGGGTTTT-ACTCAGA
1 TGTATCGATACAT-TTTTCATTGTATCGATACATTTTGGGTTTTAACCCAGA
* * *
1145676 TGTATTGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCCATA
1 TGTATCGATACATTTTTCATTGTATCGATACATTTTGGGTTTTAACCCAGA
** *
1145727 TGTATCGATACATTTCACAATGTATCGATACATTT
1 TGTATCGATACATTTTTCATTGTATCGATACATTT
1145762 CACAATGTAT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
49 3 0.04
50 36 0.49
51 35 0.47
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (51 bp):
TGTATCGATACATTTTTCATTGTATCGATACATTTTGGGTTTTAACCCAGA
Found at i:1145751 original size:20 final size:20
Alignment explanation
Indices: 1145726--1145800 Score: 141
Period size: 20 Copynumber: 3.8 Consensus size: 20
1145716 TTTAACCCAT
1145726 ATGTATCGATACATTTCACA
1 ATGTATCGATACATTTCACA
1145746 ATGTATCGATACATTTCACA
1 ATGTATCGATACATTTCACA
*
1145766 ATGTATCGATACATTTCTCA
1 ATGTATCGATACATTTCACA
1145786 ATGTATCGATACATT
1 ATGTATCGATACATT
1145801 CAGGTATCTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTTCACA
Found at i:1145751 original size:51 final size:50
Alignment explanation
Indices: 1145646--1145760 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 50
1145636 CATCCTTTAT
* * * ** *
1145646 TGTATCGATACATTTTGGGTTTTACTCAGATGTATTGATACATTTTTCAT
1 TGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTTCACAA
*
1145696 TGTATCGATACATTCTGGGTTTTAACCCATATGTATCGATACATTTCACAA
1 TGTATCGATACATTCTGGGTTTT-ACCCAGATGTATCGATACATTTCACAA
1145747 TGTATCGATACATT
1 TGTATCGATACATT
1145761 TCACAATGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
50 22 0.39
51 35 0.61
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.43
Consensus pattern (50 bp):
TGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTTCACAA
Done.