Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold406
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: 153680
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:125 original size:24 final size:23
Alignment explanation
Indices: 76--128 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
66 TTTTCTTTTT
*
76 TATTCATTTGAAAAAAGTGAAAAA
1 TATT-ATTTGAAAAAAGCGAAAAA
* *
100 TATTATTTGAGAAAAGCGAGAGAA
1 TATTATTTGAAAAAAGCGA-AAAA
124 TATTA
1 TATTA
129 GAAAAAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (23 bp):
TATTATTTGAAAAAAGCGAAAAA
Found at i:803 original size:24 final size:23
Alignment explanation
Indices: 776--828 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
766 AAACATGCCT
776 TTTTGTTAGCACTCAT-TTTTCTCA
1 TTTTGTTAGCA-TCATCTTTT-TCA
**
800 TTTT-TTTTCATCATCTTTTTCA
1 TTTTGTTAGCATCATCTTTTTCA
822 TTTTGTT
1 TTTTGTT
829 TGATCAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 11 0.44
23 10 0.40
24 4 0.16
ACGTcount: A:0.13, C:0.17, G:0.06, T:0.64
Consensus pattern (23 bp):
TTTTGTTAGCATCATCTTTTTCA
Found at i:822 original size:22 final size:22
Alignment explanation
Indices: 788--834 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
778 TTGTTAGCAC
*
788 TCATTTTTCTCATTTTTTTTCA
1 TCATTTTTCTCATTTTGTTTCA
*
810 TCATCTTTT-TCATTTTGTTTGA
1 TCAT-TTTTCTCATTTTGTTTCA
832 TCA
1 TCA
835 AAGTCGCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.64
Consensus pattern (22 bp):
TCATTTTTCTCATTTTGTTTCA
Found at i:1318 original size:21 final size:24
Alignment explanation
Indices: 1270--1322 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 24
1260 AAGAATGAGC
1270 TCAAAATAAAAAACAAAAAAAGCTT
1 TCAAAA-AAAAAACAAAAAAAGCTT
*
1295 TCAAAAAATAAA-AAAAAAA-C-T
1 TCAAAAAAAAAACAAAAAAAGCTT
1316 TCAAAAA
1 TCAAAAA
1323 GTTAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 8 0.30
22 1 0.04
23 7 0.26
24 5 0.19
25 6 0.22
ACGTcount: A:0.72, C:0.11, G:0.02, T:0.15
Consensus pattern (24 bp):
TCAAAAAAAAAACAAAAAAAGCTT
Found at i:3493 original size:3 final size:3
Alignment explanation
Indices: 3487--3515 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3477 ATTATTTGCT
3487 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3516 TAGTTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6420 original size:2 final size:2
Alignment explanation
Indices: 6413--6460 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
6403 TCCCATTGTG
*
6413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6455 AT AT AT
1 AT AT AT
6461 TAACAAGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7574 original size:152 final size:152
Alignment explanation
Indices: 7374--7670 Score: 576
Period size: 152 Copynumber: 2.0 Consensus size: 152
7364 ACTCTAATAC
7374 AAATCCTACAAAATCTCTTACTATAATGCCTATGCCACCTGTTTTAAGATTATCACAAAACGTAC
1 AAATCCTACAAAATCTCTTACTATAATGCCTATGCCACCTGTTTTAAGATTATCACAAAACGTAC
*
7439 ATCAAAATTTACCTTGTGCAATCGTTCAGGGGGTGGTCTCCATGTGAATCGAGTCGTTGCCATTT
66 ATCAAAATTTACCTTGTGCAATCGTTCAGGCGGTGGTCTCCATGTGAATCGAGTCGTTGCCATTT
*
7504 TGTATCCGGACTGAATCCTACA
131 TGTATCCAGACTGAATCCTACA
7526 AAATCCTACAAAATCTCTTACTATAATGCCTATGCCACCTGTTTTAAGATTATCACAAAACGTAC
1 AAATCCTACAAAATCTCTTACTATAATGCCTATGCCACCTGTTTTAAGATTATCACAAAACGTAC
7591 ATCAAAATTTACCTTGTGCAATCGTTCAGGCGGTGGTCTCCATGTGAATCGAGTCGTTGCCATTT
66 ATCAAAATTTACCTTGTGCAATCGTTCAGGCGGTGGTCTCCATGTGAATCGAGTCGTTGCCATTT
7656 TGTATCCAGACTGAA
131 TGTATCCAGACTGAA
7671 ACTCCTGTGC
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 143 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (152 bp):
AAATCCTACAAAATCTCTTACTATAATGCCTATGCCACCTGTTTTAAGATTATCACAAAACGTAC
ATCAAAATTTACCTTGTGCAATCGTTCAGGCGGTGGTCTCCATGTGAATCGAGTCGTTGCCATTT
TGTATCCAGACTGAATCCTACA
Found at i:8719 original size:50 final size:49
Alignment explanation
Indices: 8651--8910 Score: 227
Period size: 50 Copynumber: 5.2 Consensus size: 49
8641 AGGTGGTGTC
* * *
8651 ATTATTGACTATTATTCACCAACTTTTAACAATCGAGAGAGGTGATCATA
1 ATTATTGACTATTCTTCACCAACTTTTGACAATCGAGAGAGGTG-GCATA
* * *
8701 ATTATTGACTATTCTTCACCAA-TCTTTGAAAATCGAGAGAGATGGCTGTA
1 ATTATTGACTATTCTTCACCAACT-TTTGACAATCGAGAGAGGTGGC-ATA
* * * * * ** *
8751 ATTGTTTA-TAATTCTTCACCAACCTTTGATAATCAAGAGATATGACCATA
1 ATTATTGACT-ATTCTTCACCAACTTTTGACAATCGAGAGAGGTG-GCATA
* * * *
8801 ATTGTTGACGATTCTTTACCAACCTTTGACAATCGAGAGAGGTGGCTATA
1 ATTATTGACTATTCTTCACCAACTTTTGACAATCGAGAGAGGTGGC-ATA
* * * * *
8851 ATTATTGATTATTCTTCATCAATTTTTGACAATAGAGAGAGGTGGTCGTA
1 ATTATTGACTATTCTTCACCAACTTTTGACAATCGAGAGAGGTGG-CATA
*
8901 ATTGTTGACT
1 ATTATTGACT
8911 CTAAGCAACT
Statistics
Matches: 169, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
49 4 0.02
50 163 0.96
51 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (49 bp):
ATTATTGACTATTCTTCACCAACTTTTGACAATCGAGAGAGGTGGCATA
Found at i:8903 original size:100 final size:100
Alignment explanation
Indices: 8651--8909 Score: 295
Period size: 100 Copynumber: 2.6 Consensus size: 100
8641 AGGTGGTGTC
* * * * * *
8651 ATTATTGACTATTATTCACCAACTTTTAACAATCGAGAGAGGTGATCATAATTATTGACTATTCT
1 ATTATTGATTATTCTTCACCAACTTTTGACAATAGAGAGAGGTGATCATAATTGTTGACGATTCT
* *
8716 TCACCAATCTTTGAAAATCGAGAGAGATGGCTGTA
66 TCACCAACCTTTGAAAATCGAGAGAGATGGCTATA
* * * * * ** *
8751 ATTGTTTATAATTCTTCACCAACCTTTGATAATCA-AGAGATATGACCATAATTGTTGACGATTC
1 ATTATTGATTATTCTTCACCAACTTTTGACAAT-AGAGAGAGGTGATCATAATTGTTGACGATTC
* * *
8815 TTTACCAACCTTTGACAATCGAGAGAGGTGGCTATA
65 TTCACCAACCTTTGAAAATCGAGAGAGATGGCTATA
* * * *
8851 ATTATTGATTATTCTTCATCAATTTTTGACAATAGAGAGAGGTGGTCGTAATTGTTGAC
1 ATTATTGATTATTCTTCACCAACTTTTGACAATAGAGAGAGGTGATCATAATTGTTGAC
8910 TCTAAGCAAC
Statistics
Matches: 126, Mismatches: 31, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
99 1 0.01
100 125 0.99
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (100 bp):
ATTATTGATTATTCTTCACCAACTTTTGACAATAGAGAGAGGTGATCATAATTGTTGACGATTCT
TCACCAACCTTTGAAAATCGAGAGAGATGGCTATA
Found at i:13499 original size:13 final size:13
Alignment explanation
Indices: 13481--13506 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13471 CAAAGAATAG
13481 ATGTATCGATACA
1 ATGTATCGATACA
13494 ATGTATCGATACA
1 ATGTATCGATACA
13507 CAAAAAAATG
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:13568 original size:13 final size:13
Alignment explanation
Indices: 13550--13633 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
13540 AACTTCTTAG
13550 CGATACATTGTAT
1 CGATACATTGTAT
13563 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
13582 CGATACATTGTAT
1 CGATACATTGTAT
13595 CGATACAAAACTTATGTAT
1 CGATAC---A--T-TGTAT
13614 CGATACATTGTAT
1 CGATACATTGTAT
13627 CGATACA
1 CGATACA
13634 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 28 0.47
14 1 0.02
15 2 0.03
16 4 0.07
17 2 0.03
18 1 0.02
19 21 0.36
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:13582 original size:19 final size:18
Alignment explanation
Indices: 13558--13652 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
13548 AGCGATACAT
13558 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
13577 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
13590 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
13609 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
13622 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
13641 TGTATCGATACA
1 TGTATCGATACA
13653 TTTACTGAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 34 0.53
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:13588 original size:32 final size:32
Alignment explanation
Indices: 13461--13654 Score: 205
Period size: 32 Copynumber: 6.0 Consensus size: 32
13451 ACTTCCTAGA
* * *
13461 TGTATCGATACAAAGAATAGATGTATCGATACAA
1 TGTATCGATACAAA-ACT-TATGTATCGATACAT
***
13495 TGTATCGATACACAAAAAAATGTATCGATACAT
1 TGTATCGATACA-AAACTTATGTATCGATACAT
* * * ** * *
13528 T-TCCTTGGTA-GTAACTTCT-TAGCGATACAT
1 TGT-ATCGATACAAAACTTATGTATCGATACAT
13558 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
13590 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
13622 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
13654 T
1 T
13655 TACTGAATGT
Statistics
Matches: 134, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
30 15 0.11
31 10 0.07
32 75 0.56
33 18 0.13
34 14 0.10
35 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:13715 original size:13 final size:13
Alignment explanation
Indices: 13697--13748 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
13687 AACTTCTTAG
13697 CGATACATTGTAT
1 CGATACATTGTAT
13710 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
13729 CGATACATTGTAT
1 CGATACATTGTAT
13742 CGATACA
1 CGATACA
13749 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:13715 original size:115 final size:115
Alignment explanation
Indices: 13582--13788 Score: 414
Period size: 115 Copynumber: 1.8 Consensus size: 115
13572 ACTTATGTAT
13582 CGATACATTGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTATGTATC
1 CGATACATTGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTATGTATC
13647 GATACATTTACTGAATGTATCGATACATTTCCTTGGTAGTAACTTCTTAG
66 GATACATTTACTGAATGTATCGATACATTTCCTTGGTAGTAACTTCTTAG
13697 CGATACATTGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTATGTATC
1 CGATACATTGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTATGTATC
13762 GATACATTTACTGAATGTATCGATACA
66 GATACATTTACTGAATGTATCGATACA
13789 AATTATTGGA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 92 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (115 bp):
CGATACATTGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTATGTATC
GATACATTTACTGAATGTATCGATACATTTCCTTGGTAGTAACTTCTTAG
Found at i:13729 original size:19 final size:19
Alignment explanation
Indices: 13705--13790 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
13695 AGCGATACAT
13705 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
13724 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
13737 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
13756 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
13777 TGTATCGATACAAA
1 TGTATCGATACAAA
13791 TTATTGGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:13735 original size:32 final size:32
Alignment explanation
Indices: 13697--13769 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
13687 AACTTCTTAG
13697 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
13729 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
13761 CGATACATT
1 CGATACATT
13770 TACTGAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:13851 original size:21 final size:20
Alignment explanation
Indices: 13826--13946 Score: 134
Period size: 21 Copynumber: 5.8 Consensus size: 20
13816 GTTAGAACCT
13826 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTA-AA
**
13847 TGTATCGATACATTCCATAAA
1 TGTATCGATACATT-TGTAAA
13868 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTA-AA
**
13889 TGTATCGATACATTCCATAAA
1 TGTATCGATACATT-TGTAAA
***
13910 TGTATCGATACATTCCACAAA
1 TGTATCGATACATT-TGTAAA
13931 TGTATCGATACATTTG
1 TGTATCGATACATTTG
13947 GATAAAAATG
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
20 2 0.02
21 82 0.93
22 4 0.05
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTGTAAA
Found at i:13885 original size:42 final size:42
Alignment explanation
Indices: 13826--13923 Score: 196
Period size: 42 Copynumber: 2.3 Consensus size: 42
13816 GTTAGAACCT
13826 TGTATCGATACATTTGTAGAATGTATCGATACATTCCATAAA
1 TGTATCGATACATTTGTAGAATGTATCGATACATTCCATAAA
13868 TGTATCGATACATTTGTAGAATGTATCGATACATTCCATAAA
1 TGTATCGATACATTTGTAGAATGTATCGATACATTCCATAAA
13910 TGTATCGATACATT
1 TGTATCGATACATT
13924 CCACAAATGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (42 bp):
TGTATCGATACATTTGTAGAATGTATCGATACATTCCATAAA
Found at i:13925 original size:63 final size:63
Alignment explanation
Indices: 13826--13946 Score: 199
Period size: 63 Copynumber: 1.9 Consensus size: 63
13816 GTTAGAACCT
** *
13826 TGTATCGATACATTTGTAGAATGTATCGATACATTCCATAAATGTATCGATACATTTGTAGAA
1 TGTATCGATACATTCATAGAATGTATCGATACATTCCACAAATGTATCGATACATTTGTAGAA
13889 TGTATCGATACATTCCATA-AATGTATCGATACATTCCACAAATGTATCGATACATTTG
1 TGTATCGATACATT-CATAGAATGTATCGATACATTCCACAAATGTATCGATACATTTG
13947 GATAAAAATG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 52 0.96
64 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (63 bp):
TGTATCGATACATTCATAGAATGTATCGATACATTCCACAAATGTATCGATACATTTGTAGAA
Found at i:13933 original size:42 final size:42
Alignment explanation
Indices: 13826--13944 Score: 168
Period size: 42 Copynumber: 2.8 Consensus size: 42
13816 GTTAGAACCT
** *
13826 TGTATCGATACATTTGTAGAATGTATCGATACATTCCATAAA
1 TGTATCGATACATTTCCAAAATGTATCGATACATTCCATAAA
** *
13868 TGTATCGATACATTTGTAGAATGTATCGATACATTCCATAAA
1 TGTATCGATACATTTCCAAAATGTATCGATACATTCCATAAA
13910 TGTATCGATACA-TTCCACAAATGTATCGATACATT
1 TGTATCGATACATTTCCA-AAATGTATCGATACATT
13945 TGGATAAAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
41 3 0.04
42 70 0.96
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (42 bp):
TGTATCGATACATTTCCAAAATGTATCGATACATTCCATAAA
Found at i:17075 original size:50 final size:50
Alignment explanation
Indices: 17021--17280 Score: 353
Period size: 50 Copynumber: 5.2 Consensus size: 50
17011 AGGTGTTGCC
*
17021 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTA
*
17071 ATTGTTGACTATTCTTCATCAACCTTTGACAATCGAGAGAGGTGGCCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTA
* * *
17121 ATTGTTGA-TGACTCTTCACCAACCTTTGACAATCGAGAGAGGTGACTGTA
1 ATTGTTGACT-ATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTA
* * *
17171 ATTGTTGA-TGATTCTTCACTAACCTTTGACAATCAAGAGAGGTGGCCATA
1 ATTGTTGACT-ATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTA
* * * ** * *
17221 ATTGTTGACTATTCTTCATCAACATTTGGCAATAAAGAGAAGTGGGCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTA
17271 ATTGTTGACT
1 ATTGTTGACT
17281 CTAAGAAACT
Statistics
Matches: 188, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 1 0.01
50 186 0.99
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (50 bp):
ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTA
Found at i:20851 original size:22 final size:23
Alignment explanation
Indices: 20816--20859 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
20806 CCTTGTAACA
* *
20816 TTTTTTTCGATTTTGCTTTTTTT
1 TTTTTTTAGATTTTGCATTTTTT
20839 TTTTTTTAG-TTTTGCATTTTT
1 TTTTTTTAGATTTTGCATTTTT
20860 GTTTAAGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.77
Consensus pattern (23 bp):
TTTTTTTAGATTTTGCATTTTTT
Found at i:24180 original size:88 final size:88
Alignment explanation
Indices: 24030--24602 Score: 450
Period size: 88 Copynumber: 6.7 Consensus size: 88
24020 GTTGTCATGT
* ** * * ** * * *
24030 CATTAGTTAAATATTTTCTTTTGTGTCAAAATAAATCCGATACCCCATACATCTGTCCCATCTTT
1 CATTAGTCAAATATTTTCGATCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTTT
* *
24095 TGAGTTCCAAGAAATTTATTAGG
66 CGAGTTCCAAGAAATTTATCAGG
* * * *
24118 CATTAGTCAAATATTTTCGATCATATCAGAAGGAATTTGATACCTCATGCATCTGTCACATCTTT
1 CATTAGTCAAATATTTTCGATCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTTT
* * *
24183 CAAGTTCCAAGAAATTTCTCAAG
66 CGAGTTCCAAGAAATTTATCAGG
* * * * *
24206 CATTAGGCAAATATTTTATG-TCGTGTCAGAAGGAATCTGATACCTCATGCATTTGTCA-A-GTT
1 CATTAGTCAAATATTTT-CGATCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTT
*
24268 TC-A-----AA-AAATTTATCAAG
65 TCGAGTTCCAAGAAATTTATCAGG
* * * * * ** * * *
24285 CATCA-TCAAATATTTTCTATCATTTCAGAAGGAATTTGATACCTTATGAATATGTCATATCTTT
1 CATTAGTCAAATATTTTCGATCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTTT
* * *
24349 CGAGTTCTAAGAAATTTCTAAGG
66 CGAGTTCCAAGAAATTTATCAGG
* * ** *
24372 TATT-GTCAAATATTTTCTG-TCGTGCCAGAAAAAAACTGATACCCCATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTC-GATCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTT
* * *
24435 TCAAGTTTC---AAA-TTA--A-A
65 TCGAGTTCCAAGAAATTTATCAGG
* * * * * * * *
24452 CATTAGTCAAATTTTTTCTATTGTGTTAGAAGAAATTTGATGCCCCATACATCTGTCACATCTTT
1 CATTAGTCAAATATTTTCGATCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTTT
* *
24517 CGAGTTTCAAGAAATTTATTAGG
66 CGAGTTCCAAGAAATTTATCAGG
* * *
24540 CATTAGTCAAATATTTTCTATCGTGTCATAAGGAATCTGATACCCCATGCATC-ATCACATCTT
1 CATTAGTCAAATATTTTCGATCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTT
24603 ACAAGTGCCA
Statistics
Matches: 380, Mismatches: 83, Indels: 45
0.75 0.16 0.09
Matches are distributed among these distances:
78 42 0.11
79 16 0.04
80 9 0.02
81 58 0.15
83 2 0.01
84 6 0.02
85 4 0.01
86 6 0.02
87 72 0.19
88 164 0.43
89 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (88 bp):
CATTAGTCAAATATTTTCGATCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTTT
CGAGTTCCAAGAAATTTATCAGG
Found at i:24319 original size:78 final size:79
Alignment explanation
Indices: 24182--24328 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 79
24172 GTCACATCTT
* * * * *
24182 TCAAGTTCCAAGAAATTTCTCAAGCATTAGGCAAATATTTTATGTCGTGTCAGAAGGAATCTGAT
1 TCAAGTTCCAAAAAATTTATCAAGCATCAGGCAAATATTTTATATCATGTCAGAAGGAATCTGAT
24247 ACCTCATGCATTTG
66 ACCTCATGCATTTG
* * * * *
24261 TCAAGTTTCAAAAAATTTATCAAGCATCA-TCAAATATTTTCTATCATTTCAGAAGGAATTTGAT
1 TCAAGTTCCAAAAAATTTATCAAGCATCAGGCAAATATTTTATATCATGTCAGAAGGAATCTGAT
24325 ACCT
66 ACCT
24329 TATGAATATG
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
78 33 0.57
79 25 0.43
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (79 bp):
TCAAGTTCCAAAAAATTTATCAAGCATCAGGCAAATATTTTATATCATGTCAGAAGGAATCTGAT
ACCTCATGCATTTG
Found at i:24499 original size:81 final size:85
Alignment explanation
Indices: 24290--24608 Score: 272
Period size: 87 Copynumber: 3.8 Consensus size: 85
24280 TCAAGCATCA
* * * * ** * * * *
24290 TCAAATATTTTCTATCATTTCAGAAGGAATTTGATACCTTATGAATATGTCATATCTTTCGAGTT
1 TCAAATATTTTCTATCGTGTCAGAAGAAATCTGATACCCCATGCATCTGTCACATCTTTCAAGTT
* * **
24355 CTAAGAAATTTCTAAGGTATT-G
66 -TCA-AAATTTAT-AGACATTAG
* * * *
24377 TCAAATATTTTCTGTCGTGCCAGAAAAAAACTGATACCCCATGCATCTGTCACATCTTTCAAGTT
1 TCAAATATTTTCTATCGTGTCAGAAGAAATCTGATACCCCATGCATCTGTCACATCTTTCAAGTT
24442 TC-AAA-TTA-A-ACATTAG
66 TCAAAATTTATAGACATTAG
* * * * * * *
24458 TCAAATTTTTTCTATTGTGTTAGAAGAAATTTGATGCCCCATACATCTGTCACATCTTTCGAGTT
1 TCAAATATTTTCTATCGTGTCAGAAGAAATCTGATACCCCATGCATCTGTCACATCTTTCAAGTT
*
24523 TCAAGAAATTTATTAGGCATTAG
66 TC-A-AAATTTA-TAGACATTAG
* * * *
24546 TCAAATATTTTCTATCGTGTCATAAGGAATCTGATACCCCATGCATC-ATCACATCTTACAAGT
1 TCAAATATTTTCTATCGTGTCAGAAGAAATCTGATACCCCATGCATCTGTCACATCTTTCAAGT
24609 GCCAAGATTA
Statistics
Matches: 183, Mismatches: 41, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
80 3 0.02
81 58 0.32
83 2 0.01
84 6 0.03
85 3 0.02
86 1 0.01
87 65 0.36
88 45 0.25
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (85 bp):
TCAAATATTTTCTATCGTGTCAGAAGAAATCTGATACCCCATGCATCTGTCACATCTTTCAAGTT
TCAAAATTTATAGACATTAG
Found at i:24531 original size:168 final size:169
Alignment explanation
Indices: 24030--24608 Score: 527
Period size: 168 Copynumber: 3.4 Consensus size: 169
24020 GTTGTCATGT
* * * * ** * * *
24030 CATTAGTTAAATATTTTCTTTTGTGTCAAAATAAATCCGATACCCCATACATCTGTCCCATCTTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTTT
** * * * *
24095 TGAGTTCCAAGAAATTTATTAGGCATTAGTCAAATATTTTCGATCATATCAGAAGGAATTTGATA
66 CAAG-T---A-AAATTTA-CAAGCATTAGTCAAATATTTTCTATCAT-TTAGAAGGAATTTGATA
* * *
24160 CCTCATGCATCTGTCACATCTTTCAAGTTCCAAGAAATTTCTCAA-G
124 CCTCATACATCTGTCACATCTTTCGAGTTTCAAGAAATTTCT-AAGG
* * * * *
24206 CATTAGGCAAATATTTTATGTCGTGTCAGAAGGAATCTGATACCTCATGCATTTGTCA-A-GTTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTTT
* *
24269 CAA--AAAATTTATCAAGCATCA-TCAAATATTTTCTATCATTTCAGAAGGAATTTGATACCTTA
66 CAAGTAAAATTTA-CAAGCATTAGTCAAATATTTTCTATCATTT-AGAAGGAATTTGATACCTCA
* *
24331 TGA-ATATGTCATATCTTTCGAG-TTCTAAGAAATTTCTAAGG
129 T-ACATCTGTCACATCTTTCGAGTTTC-AAGAAATTTCTAAGG
* * ** *
24372 TATT-GTCAAATATTTTCTGTCGTGCCAGAAAAAAACTGATACCCCATGCATCTGTCACATCTTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTTT
* * ** * * *
24436 CAAGTTTCAAA-TTA-AA-CATTAGTCAAATTTTTTCTATTGTGTTAGAAGAAATTTGATGCCCC
66 CAAG--TAAAATTTACAAGCATTAGTCAAATATTTTCTATCAT-TTAGAAGGAATTTGATACCTC
* *
24498 ATACATCTGTCACATCTTTCGAGTTTCAAGAAATTTATTAGG
128 ATACATCTGTCACATCTTTCGAGTTTCAAGAAATTTCTAAGG
* * * *
24540 CATTAGTCAAATATTTTCTATCGTGTCATAAGGAATCTGATACCCCATGCATC-ATCACATCTTA
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTTT
24604 CAAGT
66 CAAGT
24609 GCCAAGATTA
Statistics
Matches: 329, Mismatches: 59, Indels: 40
0.77 0.14 0.09
Matches are distributed among these distances:
165 50 0.15
166 70 0.21
167 25 0.08
168 81 0.25
169 47 0.14
170 3 0.01
171 3 0.01
174 4 0.01
175 1 0.00
176 45 0.14
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (169 bp):
CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCCATGCATCTGTCACATCTTT
CAAGTAAAATTTACAAGCATTAGTCAAATATTTTCTATCATTTAGAAGGAATTTGATACCTCATA
CATCTGTCACATCTTTCGAGTTTCAAGAAATTTCTAAGG
Found at i:28230 original size:19 final size:19
Alignment explanation
Indices: 28206--28251 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
28196 AAGCCTAACG
*
28206 AAAAAAAT-AATGCAAAACT
1 AAAAAAATAAAT-CAAAACA
*
28225 AAAAAATTAAATCAAAACA
1 AAAAAAATAAATCAAAACA
28244 AAAAAAAT
1 AAAAAAAT
28252 TACAAGGCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.15
Consensus pattern (19 bp):
AAAAAAATAAATCAAAACA
Found at i:31458 original size:29 final size:30
Alignment explanation
Indices: 31419--31487 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
31409 AATACCCCCA
* *
31419 TCTTTTCTTTTCT-TTTTCC-TCTCTTTTCT
1 TCTTTCCTTTTCTCTTTTCCTTCCCTTTT-T
*
31448 TCTTTCCTTTTTTCTTTTCCTTCCCTTTTT
1 TCTTTCCTTTTCTCTTTTCCTTCCCTTTTT
31478 T-TTTCCTTTT
1 TCTTTCCTTTT
31488 TCACCTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 20 0.57
30 8 0.23
31 7 0.20
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (30 bp):
TCTTTCCTTTTCTCTTTTCCTTCCCTTTTT
Found at i:31462 original size:15 final size:16
Alignment explanation
Indices: 31424--31484 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
31414 CCCCATCTTT
31424 TCTTTTCTTTTTCCTC
1 TCTTTTCTTTTTCCTC
31440 TCTTTTCTTCTTTCCT-
1 TCTTTTCTT-TTTCCTC
31456 T-TTTTC-TTTTCCTTC
1 TCTTTTCTTTTTCC-TC
*
31471 CCTTTT-TTTTTCCT
1 TCTTTTCTTTTTCCT
31485 TTTTCACCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 5 0.13
14 2 0.05
15 6 0.15
16 20 0.51
17 6 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTTTCTTTTTCCTC
Found at i:31468 original size:30 final size:30
Alignment explanation
Indices: 31426--31488 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
31416 CCATCTTTTC
*
31426 TTTTCTTTTTCC-TCTCTTTTCTTCTTTCCTT
1 TTTTCTTTTTCCTTCCCTTTT-TT-TTTCCTT
31457 TTTTC-TTTTCCTTCCCTTTTTTTTTCCTT
1 TTTTCTTTTTCCTTCCCTTTTTTTTTCCTT
31486 TTT
1 TTT
31489 CACCTAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 10 0.33
30 8 0.27
31 12 0.40
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTCTTTTTCCTTCCCTTTTTTTTTCCTT
Found at i:31485 original size:16 final size:17
Alignment explanation
Indices: 31451--31485 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
31441 CTTTTCTTCT
*
31451 TTCCTTTTTTCTTTTCC
1 TTCCCTTTTTCTTTTCC
31468 TTCCCTTTTT-TTTTCC
1 TTCCCTTTTTCTTTTCC
31484 TT
1 TT
31486 TTTCACCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCCCTTTTTCTTTTCC
Found at i:31506 original size:2 final size:2
Alignment explanation
Indices: 31499--31548 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
31489 CACCTAATTG
31499 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31541 AT AT AT AT
1 AT AT AT AT
31549 CTTTGTATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35569 original size:2 final size:2
Alignment explanation
Indices: 35562--35615 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
35552 TACTTTTATG
35562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35604 AT AT AT AT AT AT
1 AT AT AT AT AT AT
35616 TAACAAAGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38536 original size:2 final size:2
Alignment explanation
Indices: 38529--38553 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38519 CAATGGAAAA
38529 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
38554 AGAAACATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:42780 original size:16 final size:16
Alignment explanation
Indices: 42746--42819 Score: 98
Period size: 16 Copynumber: 4.8 Consensus size: 16
42736 TTTAAAATTT
*
42746 TTTAAAATATTTT--A
1 TTTAAATTATTTTAAA
42760 TTTAAATTATTTTAAA
1 TTTAAATTATTTTAAA
* *
42776 TTTAAATAATTTTATA
1 TTTAAATTATTTTAAA
*
42792 TTTAAATTAATTTAAA
1 TTTAAATTATTTTAAA
42808 TTTAAATTATTT
1 TTTAAATTATTT
42820 CATAATTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 12 0.24
16 39 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAATTATTTTAAA
Found at i:42799 original size:32 final size:32
Alignment explanation
Indices: 42758--42828 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
42748 TAAAATATTT
* *
42758 TATTTAAATTATTTTAAATTTAAATAATTTTA
1 TATTTAAATTAATTTAAATTTAAATAATTTCA
*
42790 TATTTAAATTAATTTAAATTTAAATTATTTCA
1 TATTTAAATTAATTTAAATTTAAATAATTTCA
42822 TAATTTA
1 T-ATTTA
42829 TTTTCAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 30 0.86
33 5 0.14
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (32 bp):
TATTTAAATTAATTTAAATTTAAATAATTTCA
Found at i:43509 original size:72 final size:73
Alignment explanation
Indices: 43423--43600 Score: 220
Period size: 72 Copynumber: 2.5 Consensus size: 73
43413 AGTTCAATTT
* * *
43423 TTTTTTAA-ATATAATTTATTTTTATTTATAAAAATTTAAATTTATTT-TT-GATATGATTATAC
1 TTTTTTAAGATATAATTTATTTTTATTTGTAAAAAGTTAAATTTATTTGTTAG-TATAATTATAC
*
43485 CAATTTAAAA
65 C-AGTTAAAA
* * * *
43495 -TTTTTAAGATATAATTTATTTTTATTTGTAAAAAGTTAAGTTTGTTTGTTAGTTTAATTATATC
1 TTTTTTAAGATATAATTTATTTTTATTTGTAAAAAGTTAAATTTATTTGTTAGTATAATTATACC
43559 AGTTAAAA
66 AGTTAAAA
* *
43567 TTTTTTTAGAGATAATTTATTTTTATTTGTAAAA
1 TTTTTTAAGATATAATTTATTTTTATTTGTAAAA
43601 TTAGTTTAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
71 7 0.08
72 42 0.46
73 42 0.46
74 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (73 bp):
TTTTTTAAGATATAATTTATTTTTATTTGTAAAAAGTTAAATTTATTTGTTAGTATAATTATACC
AGTTAAAA
Found at i:43745 original size:20 final size:20
Alignment explanation
Indices: 43722--43762 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43712 TATTTAGTAA
*
43722 TAATTAAATTTATTTTATTG
1 TAATTAAATATATTTTATTG
* *
43742 TAATTAAGTATATTTTTTTG
1 TAATTAAATATATTTTATTG
43762 T
1 T
43763 TGGAATCATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TAATTAAATATATTTTATTG
Found at i:46424 original size:14 final size:14
Alignment explanation
Indices: 46405--46438 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
46395 TATATAGCTT
*
46405 TATTAAATATTGTG
1 TATTAAATATTGTC
46419 TATTAAATATTGTC
1 TATTAAATATTGTC
46433 TATTAA
1 TATTAA
46439 TGTTGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (14 bp):
TATTAAATATTGTC
Found at i:51602 original size:23 final size:24
Alignment explanation
Indices: 51565--51622 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
51555 AAAATTATGA
* *
51565 AAAAATAAAAATGATGAGAA-AA-
1 AAAATTAAAAATGATGAAAAGAAC
*
51587 AAAGTTAAAAATTGATGAAAAGAAC
1 AAAATTAAAAA-TGATGAAAAGAAC
51612 AAAATTAAAAA
1 AAAATTAAAAA
51623 AAAAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 9 0.31
23 8 0.28
24 2 0.07
25 10 0.34
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.17
Consensus pattern (24 bp):
AAAATTAAAAATGATGAAAAGAAC
Found at i:51711 original size:2 final size:2
Alignment explanation
Indices: 51706--51761 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
51696 ACACACACAC
*
51706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
51748 AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
51762 GAATGAATGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:58459 original size:5 final size:5
Alignment explanation
Indices: 58444--58474 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
58434 AATAATGGAA
58444 AAAAT -AAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
58475 TTAAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:65468 original size:21 final size:20
Alignment explanation
Indices: 65438--65476 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
65428 CACATTTTTA
65438 TCCAAATGTATCGATACATT
1 TCCAAATGTATCGATACATT
65458 TCCAGAATGTATCGATACA
1 TCCA-AATGTATCGATACA
65477 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (20 bp):
TCCAAATGTATCGATACATT
Found at i:65560 original size:19 final size:18
Alignment explanation
Indices: 65536--65598 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
65526 AAACCGTAAA
65536 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
65555 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
65568 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
65587 TGTATCGATACA
1 TGTATCGATACA
65599 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:65573 original size:13 final size:13
Alignment explanation
Indices: 65555--65579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65545 ACATAAGTGT
65555 TGTATCGATACAA
1 TGTATCGATACAA
65568 TGTATCGATACA
1 TGTATCGATACA
65580 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:65575 original size:32 final size:32
Alignment explanation
Indices: 65534--65606 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
65524 ACAAACCGTA
65534 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
65566 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
65598 AATGTATCG
1 AATGTATCG
65607 CTACGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:65649 original size:21 final size:21
Alignment explanation
Indices: 65623--65684 Score: 124
Period size: 21 Copynumber: 3.0 Consensus size: 21
65613 AGCTACTACC
65623 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
65644 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
65665 AAGGAAATGTATCGATACAT
1 AAGGAAATGTATCGATACAT
65685 CGATCTTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:68047 original size:52 final size:51
Alignment explanation
Indices: 67980--68215 Score: 237
Period size: 52 Copynumber: 4.6 Consensus size: 51
67970 TTAAGTTTCT
* * *
67980 CAATTTTCTATAATCGGGGGTACTCCAACCCC-AGTTTTATTTCTAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGA-TTTTATTTCTAAAACAC
* * * *
68031 TAAGTTTTCCACAATCGGGGATACTCTAACTCCGATTTTATTT-TCGAAACAC
1 CAA-TTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACAC
* * *
68083 CAATTTTTCACAATCGAGGATACTCCAACCCCGGTTTTATTTC-AAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * * * * *
68133 CAATTTTCTATAATTGGGGATACTCAAACTCTGATTTTATTTCCAAAAGCAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAA-CAC
*
68185 CAATCTTT-CACAATCGGGGATACTACAACCC
1 CAAT-TTTCCACAATCGGGGATACTCCAACCC
68216 TGTTAATCAT
Statistics
Matches: 149, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
50 40 0.27
51 41 0.28
52 64 0.43
53 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
Found at i:68206 original size:102 final size:103
Alignment explanation
Indices: 67991--68215 Score: 310
Period size: 102 Copynumber: 2.2 Consensus size: 103
67981 AATTTTCTAT
* *
67991 AATCGGGGGTACTCCAACCCCAGTTTTATTTCTAAAACACTAAGTTTTCCACAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAAGTTTTCCACAATCGGGGATACT
* * * *
68056 CTAACTCCGATTTTATTTTCGAAACACCAATTTTTCAC
66 CAAACTCCGATTTTATTTCCAAAACACCAATCTTTCAC
* * * * *
68094 AATCGAGGATACTCCAACCCCGGTTTTATTTC-AAAACACCAA-TTTTCTATAATTGGGGATACT
1 AATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAAGTTTTCCACAATCGGGGATACT
*
68157 CAAACTCTGATTTTATTTCCAAAAGCACCAATCTTTCAC
66 CAAACTCCGATTTTATTTCCAAAA-CACCAATCTTTCAC
*
68196 AATCGGGGATACTACAACCC
1 AATCGGGGATACTCCAACCC
68216 TGTTAATCAT
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
101 38 0.36
102 40 0.37
103 29 0.27
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (103 bp):
AATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAAGTTTTCCACAATCGGGGATACT
CAAACTCCGATTTTATTTCCAAAACACCAATCTTTCAC
Found at i:68307 original size:79 final size:79
Alignment explanation
Indices: 68224--68404 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
68214 CCTGTTAATC
*
68224 ATCGGGGATACTCCAACCCCGTTATTTTCGA-GGGGATACT-TCGACCCCGACCTTATTTCTAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTC-ACGGGGATACTCT-AACCCCGACCTTATTTCTAAA
* **
68287 ATATTGATTTCTCATA
64 ACATCAATTTCTCATA
* * * ** *
68303 ATCGGGGATCCTCCAACCCCATTATTTTCACGGGGATACTCTAATCCCGATTTTATTTTTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCACGGGGATACTCTAACCCCGACCTTATTTCTAAAAC
*
68368 ATCAATTTTTCATA
66 ATCAATTTCTCATA
68382 ATCGAGGG-TACTCCAACCCCGTT
1 ATCG-GGGATACTCCAACCCCGTT
68405 GTTATCTCCA
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 81 0.94
80 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCACGGGGATACTCTAACCCCGACCTTATTTCTAAAAC
ATCAATTTCTCATA
Found at i:69988 original size:13 final size:13
Alignment explanation
Indices: 69970--70000 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
69960 TTCAGGTGAC
69970 TAGTAAAAGAGAT
1 TAGTAAAAGAGAT
69983 TAGTAAAAGAGAT
1 TAGTAAAAGAGAT
69996 TAGTA
1 TAGTA
70001 CAGGTTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (13 bp):
TAGTAAAAGAGAT
Found at i:74018 original size:12 final size:11
Alignment explanation
Indices: 73996--74038 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
73986 TTATGCCTGA
73996 AAAACAAAAAAC
1 AAAA-AAAAAAC
*
74008 AAAAAATAAAAT
1 AAAAAA-AAAAC
*
74020 AAAAAAACAAC
1 AAAAAAAAAAC
74031 AAAAAAAA
1 AAAAAAAA
74039 TTGAATGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 12 0.46
12 14 0.54
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.05
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:74024 original size:20 final size:20
Alignment explanation
Indices: 74001--74039 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
73991 CCTGAAAAAC
74001 AAAAAACAA-AAAATAAAATA
1 AAAAAACAACAAAA-AAAATA
74021 AAAAAACAACAAAAAAAAT
1 AAAAAACAACAAAAAAAAT
74040 TGAATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (20 bp):
AAAAAACAACAAAAAAAATA
Found at i:75339 original size:44 final size:44
Alignment explanation
Indices: 75289--76037 Score: 500
Period size: 44 Copynumber: 17.4 Consensus size: 44
75279 AGTCTGATGA
*
75289 ATGGTTACCAACCTGGTCAGATTCTTTCCATTTTGATTTGACGT
1 ATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTGACGT
* * *
75333 ATGGTTACCACCCTGGTTAAATCTTTTTCC-TTTCTG---T----T
1 ATGGTTACCACCCTGGTCAGAT-TCTTTCCATTT-TGATTTGACGT
* * * * * *
75371 -T-GTTACCACCCTAGTCAAACTCTTTTCTTTTCTG-TCTGACGT
1 ATGGTTACCACCCTGGTCAGATTCTTTCCATTT-TGATTTGACGT
* * *
75413 ATGGTTACTACCCTGGTCAAATTCTTTCCATTTTGATTTGACAT
1 ATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTGACGT
* * ** *
75457 ATGGTTACCACCCTAGTCA-AATCTTTTCTTTTTTG-TTAGACGT
1 ATGGTTACCACCCTGGTCAGATTC-TTTCCATTTTGATTTGACGT
* *
75500 ATGGTTACCACTCTGGTCATATTCTTTCCATTTTGATTT---G-
1 ATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTGACGT
* * *
75540 ATGGTTACCACCCTAGTC-GAATCTTTTTC-TTTCTG-TTTGACGT
1 ATGGTTACCACCCTGGTCAGATTC-TTTCCATTT-TGATTTGACGT
* * * * *
75583 ATGGTTATCACCTTGGTCAGATTTTTTCAATTTTGATTTGACAT
1 ATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTGACGT
* * * * * * * *
75627 ATGGTTAACACCTTGGTCA-AATCTTT--TTTTTCTATCTGATGC
1 ATGGTTACCACCCTGGTCAGATTCTTTCCATTTT-GATTTGACGT
*
75669 ATGGTTACCACCCTGGTCAAATTCTTTCCATTTTGATTTGACGT
1 ATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTGACGT
** * * * * *
75713 ATGGTTACCACTTTAGTC-GAATCTTTTCC-TTTCTG-TCTGATGC
1 ATGGTTACCACCCTGGTCAGATTC-TTTCCATTT-TGATTTGACGT
* * * * *** *
75756 ATGGTTACTACCCTGGTCAAAATC-TTCTCATTTCAGGCCTAACGT
1 ATGGTTACCACCCTGGTCAGATTCTTTC-CATTT-TGATTTGACGT
*
75801 ATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTAACGT
1 ATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTGACGT
* * ** *
75845 ATGGTTATCA-CCTAGGTC-GAATCTTTCTTTTTCTG-TCTGACGT
1 ATGGTTACCACCCT-GGTCAGATTCTTTCCATTT-TGATTTGACGT
* * ** *
75888 ATGGTTACCACCTTGGTTAGATTCTTTCTTTTTTGATATGACGT
1 ATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTGACGT
* * * * * *
75932 ATGGTTATCACCTTGGTC-GAATCTTTTCCTTTTTG-TTTCATGT
1 ATGGTTACCACCCTGGTCAGATTC-TTTCCATTTTGATTTGACGT
* *
75975 ATGGTTACCACCCTAGTCAGATTCTTTCCATTTTGATTTGACGC
1 ATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTGACGT
*
76019 ATGGTTACTACCCTGGTCA
1 ATGGTTACCACCCTGGTCA
76038 AATCTGCTTT
Statistics
Matches: 550, Mismatches: 112, Indels: 86
0.74 0.15 0.11
Matches are distributed among these distances:
35 5 0.01
36 22 0.04
37 1 0.00
38 2 0.00
39 9 0.02
40 22 0.04
41 5 0.01
42 28 0.05
43 163 0.30
44 248 0.45
45 42 0.08
46 3 0.01
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (44 bp):
ATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTGACGT
Found at i:75397 original size:36 final size:36
Alignment explanation
Indices: 75336--75405 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
75326 TTGACGTATG
* *
75336 GTTACCACCCTGGTTAAATCTTTTTCCTTTCTGTTT
1 GTTACCACCCTAGTCAAATCTTTTTCCTTTCTGTTT
*
75372 GTTACCACCCTAGTCAAA-CTCTTTTCTTTTCTGT
1 GTTACCACCCTAGTCAAATCT-TTTTCCTTTCTGT
75406 CTGACGTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 2 0.07
36 28 0.93
ACGTcount: A:0.16, C:0.27, G:0.10, T:0.47
Consensus pattern (36 bp):
GTTACCACCCTAGTCAAATCTTTTTCCTTTCTGTTT
Found at i:75524 original size:87 final size:87
Alignment explanation
Indices: 75372--76068 Score: 541
Period size: 87 Copynumber: 8.0 Consensus size: 87
75362 CTTTCTGTTT
*
75372 GTTACCACCCTAGTCAAACTCTTTTCTTTTCTGTCTGACGTATGGTTACTACCCTGGTCAAATTC
1 GTTACCACCCTAGTCAAA-TCTTTTCTTTTCTGTCTGACGTATGGTTACCACCCTGGTCAAATTC
75437 TTTCCATTTTGATTTGACATATG
65 TTTCCATTTTGATTTGACATATG
* * *
75460 GTTACCACCCTAGTCAAATCTTTTCTTTTTTGT-TAGACGTATGGTTACCACTCTGGTCATATTC
1 GTTACCACCCTAGTCAAATCTTTTCTTTTCTGTCT-GACGTATGGTTACCACCCTGGTCAAATTC
75524 TTTCCATTTTGATTTG----ATG
65 TTTCCATTTTGATTTGACATATG
* * * * * *
75543 GTTACCACCCTAGTCGAATCTTTT-TCTTTCTGTTTGACGTATGGTTATCACCTTGGTCAGATTT
1 GTTACCACCCTAGTCAAATCTTTTCT-TTTCTGTCTGACGTATGGTTACCACCCTGGTCAAATTC
*
75607 TTTCAATTTTGATTTGACATATG
65 TTTCCATTTTGATTTGACATATG
* * * * * *
75630 GTTAACACCTTGGTCAAATCTTTT-TTTTCTATCTGATGCATGGTTACCACCCTGGTCAAATTCT
1 GTTACCACCCTAGTCAAATCTTTTCTTTTCTGTCTGACGTATGGTTACCACCCTGGTCAAATTCT
*
75694 TTCCATTTTGATTTGACGTATG
66 TTCCATTTTGATTTGACATATG
** * * * * * *
75716 GTTACCACTTTAGTCGAATCTTTTCCTTTCTGTCTGATGCATGGTTACTACCCTGGTCAAAATC-
1 GTTACCACCCTAGTCAAATCTTTTCTTTTCTGTCTGACGTATGGTTACCACCCTGGTCAAATTCT
* *** * *
75780 TTCTCATTTCAGGCCTAACGTATG
66 TTC-CATTT-TGATTTGACATATG
* * * * * * * *
75804 GTTACCACCCTGGTCAGATTCTTTCCATTT-TGATTTAACGTATGGTTATCA-CCTAGGTCGAA-
1 GTTACCACCCTAGTCA-AATCTTTTCTTTTCTG-TCTGACGTATGGTTACCACCCT-GGTCAAAT
** * *
75866 TCTTTCTTTTTCTG-TCTGACGTATG
63 TCTTTCCATTT-TGATTTGACATATG
* * * * * * * * *
75891 GTTACCACCTTGGTTAGAT-TCTTTCTTTTTTGATATGACGTATGGTTATCACCTTGGTCGAA-T
1 GTTACCACCCTAGTCAAATCT-TTTCTTTTCTG-TCTGACGTATGGTTACCACCCTGGTCAAATT
* * **
75954 CTTTTCCTTTTTG-TTTCATGTATG
64 C-TTTCCATTTTGATTTGACATATG
* * * * * *
75978 GTTACCACCCTAGTCAGATTCTTTCCATTT-TGATTTGACGCATGGTTACTACCCTGGTCAAATC
1 GTTACCACCCTAGTCA-AATCTTTTCTTTTCTG-TCTGACGTATGGTTACCACCCTGGTCAAAT-
76042 TGCTTT--ATTCTTG-TTTGACATATG
63 T-CTTTCCATT-TTGATTTGACATATG
76066 GTT
1 GTT
76069 TCCGCTTTGG
Statistics
Matches: 497, Mismatches: 88, Indels: 48
0.79 0.14 0.08
Matches are distributed among these distances:
82 1 0.00
83 71 0.14
84 1 0.00
85 1 0.00
86 82 0.16
87 222 0.45
88 82 0.16
89 36 0.07
90 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (87 bp):
GTTACCACCCTAGTCAAATCTTTTCTTTTCTGTCTGACGTATGGTTACCACCCTGGTCAAATTCT
TTCCATTTTGATTTGACATATG
Found at i:75957 original size:219 final size:218
Alignment explanation
Indices: 75579--75993 Score: 578
Period size: 219 Copynumber: 1.9 Consensus size: 218
75569 TTTCTGTTTG
* * * * *
75579 ACGTATGGTTATCACCTTGGTCAGATTTTTTCAATTTTGATTTGACATATGGTTAACACCTTGGT
1 ACGTATGGTTACCACCCTGGTCAGATTCTTTCAATTTTGATTTAACATATGGTTAACACCTAGGT
* *
75644 CAAATCTTTTTTTTCTATCTGATGCATGGTTACCACCCTGGTCAAATTCTTTCCATTTTGATTTG
66 CAAATCTTTTTTTTCTATCTGACGCATGGTTACCACCCTGGTCAAATTCTTTCCATTTTGATATG
* * * *
75709 ACGTATGGTTACCACTTTAGTCGAATCTTTTCCTTTCTGTCTGATGCATGGTTACTACCCTGGTC
131 ACGTATGGTTACCACCTTAGTCGAATCTTTTCCTTTCTGTCTCATGCATGGTTACCACCCTAGTC
75774 AAAATCTTCTCATTTCAGGCCTA
196 AAAATCTTCTCATTTCAGGCCTA
* * *
75797 ACGTATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGATTTAACGTATGGTTATCACCTAGGT
1 ACGTATGGTTACCACCCTGGTCAGATTCTTTCAATTTTGATTTAACATATGGTTAACACCTAGGT
* * * * * * **
75862 CGAATCTTTCTTTTTCTGTCTGACGTATGGTTACCACCTTGGTTAGATTCTTTCTTTTTTGATAT
66 CAAATCTTT-TTTTTCTATCTGACGCATGGTTACCACCCTGGTCAAATTCTTTCCATTTTGATAT
* * * * *
75927 GACGTATGGTTATCACCTTGGTCGAATCTTTTCCTTTTTGTTTCATGTATGGTTACCACCCTAGT
130 GACGTATGGTTACCACCTTAGTCGAATCTTTTCCTTTCTGTCTCATGCATGGTTACCACCCTAGT
75992 CA
195 CA
75994 GATTCTTTCC
Statistics
Matches: 169, Mismatches: 27, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
218 65 0.38
219 104 0.62
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (218 bp):
ACGTATGGTTACCACCCTGGTCAGATTCTTTCAATTTTGATTTAACATATGGTTAACACCTAGGT
CAAATCTTTTTTTTCTATCTGACGCATGGTTACCACCCTGGTCAAATTCTTTCCATTTTGATATG
ACGTATGGTTACCACCTTAGTCGAATCTTTTCCTTTCTGTCTCATGCATGGTTACCACCCTAGTC
AAAATCTTCTCATTTCAGGCCTA
Found at i:77545 original size:166 final size:168
Alignment explanation
Indices: 77371--77685 Score: 485
Period size: 166 Copynumber: 1.9 Consensus size: 168
77361 TTTCAAATTT
* * *
77371 TAGAGTTTTCTATTCCGTAAACTTTTTCGGAGG-GATTTTTCTTAGTTTTTAAGTTTTAAAATTT
1 TAGAGTTTTCTACTCCGTAAACTTTTTCGG-GGAGATTTTTCTTAGATTTTAAGTTTTAAAATTC
*
77435 AGTCAAATATTATTATTTATTTCATATTAATTCAGTTTT-AAAAATTCATTCATTTCCATAAATT
65 A-TCAAATATTATTATTTATTTCATATAAATTCAGTTTTCAAAAATTCATTCATTTCCATAAATT
77499 TTG-A-TTTTTCCTTGAAATTTTCTTTTTTTTTCGAAATA
129 TTGAATTTTTTCCTTGAAATTTTCTTTTTTTTTCGAAATA
* * * *
77537 TAGAGTTTTCTACTCCGTAAATTTTTTCGGGGAGATTTTTCTTGGATTTTAATTTTTGAAATTCA
1 TAGAGTTTTCTACTCCGTAAACTTTTTCGGGGAGATTTTTCTTAGATTTTAAGTTTTAAAATTCA
* *
77602 TCAAATATTATTATTTATTTCATATAAATTCAGTTTTCAAAAATTTATTCATTTCCATGAATTTT
66 TCAAATATTATTATTTATTTCATATAAATTCAGTTTTCAAAAATTCATTCATTTCCATAAATTTT
*
77667 GAATTTTTTTCTTGAAATT
131 GAATTTTTTCCTTGAAATT
77686 CCTCTTTCTC
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
165 38 0.28
166 81 0.60
167 1 0.01
168 14 0.10
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (168 bp):
TAGAGTTTTCTACTCCGTAAACTTTTTCGGGGAGATTTTTCTTAGATTTTAAGTTTTAAAATTCA
TCAAATATTATTATTTATTTCATATAAATTCAGTTTTCAAAAATTCATTCATTTCCATAAATTTT
GAATTTTTTCCTTGAAATTTTCTTTTTTTTTCGAAATA
Found at i:77711 original size:166 final size:163
Alignment explanation
Indices: 77371--77741 Score: 467
Period size: 166 Copynumber: 2.2 Consensus size: 163
77361 TTTCAAATTT
* * *
77371 TAGAGTTTTCTATTCCGTAAACTTTTTCGGAGGGATTTTTCTTAGTTTTTAAGTTTTAAAATTTA
1 TAGAGTTTTCTA-TCCGTAAATTTTTTCGG-GGGATTTTTCTTAGATTTTAAGTTTTAAAATTCA
*
77436 GTCAAATATTATTATTTATTTCATATTAATTCAGTTTTAAAAATTCATTCATTTCCATAAATTTT
64 GTCAAATATTATTATTTATTTCATATAAATTCAGTTTTAAAAATTCATTCATTTCCATAAATTTT
* * * * *
77501 GATTTTTCCTTGAAATTTTCTTTTTTTTTCGAAATA
129 GATTTTTCCTTGAAA-TTTCCTCTTTCTCCGAAAAA
* * *
77537 TAGAGTTTTCTACTCCGTAAATTTTTTCGGGGAGATTTTTCTTGGATTTTAATTTTTGAAATTCA
1 TAGAGTTTTCTA-TCCGTAAATTTTTTCGGGG-GATTTTTCTTAGATTTTAAGTTTTAAAATTCA
* *
77602 -TCAAATATTATTATTTATTTCATATAAATTCAGTTTTCAAAAATTTATTCATTTCCATGAATTT
64 GTCAAATATTATTATTTATTTCATATAAATTCAGTTTT-AAAAATTCATTCATTTCCATAAATTT
*
77666 TGAATTTTTTTCTTGAAA-TTCCTCTTTCTCCGAAAAA
128 TG-A-TTTTTCCTTGAAATTTCCTCTTTCTCCGAAAAA
* * * *
77703 TCGAGTTTTATATCCCATAAATATTTTCGGGGGGATTTT
1 TAGAGTTTTCTAT-CCGTAAATTTTTTC-GGGGGATTTT
77742 GAAAACGTTA
Statistics
Matches: 179, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
165 39 0.22
166 123 0.69
167 5 0.03
168 12 0.07
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.50
Consensus pattern (163 bp):
TAGAGTTTTCTATCCGTAAATTTTTTCGGGGGATTTTTCTTAGATTTTAAGTTTTAAAATTCAGT
CAAATATTATTATTTATTTCATATAAATTCAGTTTTAAAAATTCATTCATTTCCATAAATTTTGA
TTTTTCCTTGAAATTTCCTCTTTCTCCGAAAAA
Found at i:79523 original size:161 final size:161
Alignment explanation
Indices: 79243--79542 Score: 442
Period size: 161 Copynumber: 1.9 Consensus size: 161
79233 CTTTGTGGTA
**
79243 AAATTCTAATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATTCGTAGGGGTATAAAAGA
1 AAATTCTAATATTTATTTTTTCTAATCTTTTATATTCCTATAAGCATTCGTAGGGGTATAAAAGA
* * * * * *
79308 TTTCAAAAACTTTTCGTATTCTTTCGGGCTTCCATTAGGGTATGAAATGGTATTTTCATAAATAA
66 TTTCAAAAACCTTTCGTACTCTTTCGAGCTTCCATTAGGATACGAAATGGTATTTT-AAAAATAA
79373 ATAAAATTAACTTAAATTGGTATTATTGGGAT
130 ATAAAATTAACTTAAATTGGTATTATTGGGAT
* * * *
79405 AAATTCT-ATATTTGTTTTTTCTAATCTTTTATATTTCTGTAAGCA-TCTGTAGGGTTATAAAAG
1 AAATTCTAATATTTATTTTTTCTAATCTTTTATATTCCTATAAGCATTC-GTAGGGGTATAAAAG
* *
79468 ATTTTAAAACCCTTTCGTACTCTTTCGAGCTTCCATTAGGATACGAAATGGTATTTTAAAAATAA
65 ATTTCAAAAACCTTTCGTACTCTTTCGAGCTTCCATTAGGATACGAAATGGTATTTTAAAAATAA
79533 ATAAAATTAA
130 ATAAAATTAA
79543 ATTGAATTAA
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
160 19 0.15
161 97 0.79
162 7 0.06
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.42
Consensus pattern (161 bp):
AAATTCTAATATTTATTTTTTCTAATCTTTTATATTCCTATAAGCATTCGTAGGGGTATAAAAGA
TTTCAAAAACCTTTCGTACTCTTTCGAGCTTCCATTAGGATACGAAATGGTATTTTAAAAATAAA
TAAAATTAACTTAAATTGGTATTATTGGGAT
Found at i:81428 original size:21 final size:21
Alignment explanation
Indices: 81402--81457 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
81392 TTTTACAATT
**
81402 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACACAAAA
* *
81423 TGTATCGATACATACCCAAAA
1 TGTATCGATACAAACACAAAA
81444 TGTATCGATACAAA
1 TGTATCGATACAAA
81458 ACTACCCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (21 bp):
TGTATCGATACAAACACAAAA
Found at i:81529 original size:22 final size:22
Alignment explanation
Indices: 81503--81557 Score: 78
Period size: 20 Copynumber: 2.6 Consensus size: 22
81493 CATAAGTAAA
*
81503 TGTATTGATACATATTTATAAT
1 TGTATCGATACATATTTATAAT
*
81525 TGTATCGATAC--ATTTATCAT
1 TGTATCGATACATATTTATAAT
81545 TGTATCGATACAT
1 TGTATCGATACAT
81558 TCTGGGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 19 0.66
22 10 0.34
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (22 bp):
TGTATCGATACATATTTATAAT
Found at i:85794 original size:13 final size:13
Alignment explanation
Indices: 85776--85800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85766 CAAAGATCAG
85776 TGTATCGATACAA
1 TGTATCGATACAA
85789 TGTATCGATACA
1 TGTATCGATACA
85801 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:85867 original size:19 final size:19
Alignment explanation
Indices: 85839--85895 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
85829 GCAGTAGCTT
85839 AAAT-TGTATCGATACAAA
1 AAATATGTATCGATACAAA
85857 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAA-A
***
85877 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
85896 TCATTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 14 0.41
20 16 0.47
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (19 bp):
AAATATGTATCGATACAAA
Found at i:87596 original size:79 final size:78
Alignment explanation
Indices: 87460--87736 Score: 297
Period size: 79 Copynumber: 3.5 Consensus size: 78
87450 TCATTGACGT
* * *
87460 TTTTATTTCTAAAACACTGATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTTCGAAGAGA
1 TTTTATTTCTAAAACACTAATTTTTCACCATAG-GGATACTCCAACCCCGTTATTTTCGAAGGGA
87525 TACTCCAACCCCAA
65 TACTCCAACCCCAA
* * * * *
87539 TTTTATTTCTATAAA-ACCAATTTTCCACCACTAGGGATACTCCAACCCTGTTTTTTTCGAGGGG
1 TTTTATTTCTA-AAACACTAATTTTTCACCA-TAGGGATACTCCAACCCCGTTATTTTCGAAGGG
** **
87603 ATACTTTAACCCCGG
64 ATACTCCAACCCCAA
* *
87618 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAGCCCCGTTATTTTCGAAGGGA
1 TTTTATTTCTAAAACACTAATTTTTCACCAT-AGGGATACTCCAACCCCGTTATTTTCGAAGGGA
* ** **
87683 TACTCTAACTTCGG
65 TACTCCAACCCCAA
* *
87697 TTTTATTTCTAAAACA-TCAAGTTTTCACCATCAGAGATAC
1 TTTTATTTCTAAAACACT-AATTTTTCACCAT-AGGGATAC
87737 CCCACTCCTA
Statistics
Matches: 168, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
78 5 0.03
79 158 0.94
80 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (78 bp):
TTTTATTTCTAAAACACTAATTTTTCACCATAGGGATACTCCAACCCCGTTATTTTCGAAGGGAT
ACTCCAACCCCAA
Found at i:87880 original size:51 final size:52
Alignment explanation
Indices: 87788--87903 Score: 173
Period size: 51 Copynumber: 2.2 Consensus size: 52
87778 GTTTTCGAGG
* * * *
87788 GGATACTCCAACCCTGATTTTATTTCCAAAAATATTGATTTTTTACCATCGA
1 GGATACTCCAACCCTCATTTTATTTCCAAAAATATCGATTTTTCACCATCAA
87840 GGATACTCCAACCC-CATTTTTATTTCC-AAAATATCGATTTTTCACCATCAA
1 GGATACTCCAACCCTCA-TTTTATTTCCAAAAATATCGATTTTTCACCATCAA
87891 GGATACTCCAACC
1 GGATACTCCAACC
87904 TTGTTGTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
51 35 0.59
52 24 0.41
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (52 bp):
GGATACTCCAACCCTCATTTTATTTCCAAAAATATCGATTTTTCACCATCAA
Found at i:87982 original size:131 final size:131
Alignment explanation
Indices: 87747--87985 Score: 313
Period size: 131 Copynumber: 1.8 Consensus size: 131
87737 CCCACTCCTA
** *
87747 TTTTCACCATCGGGGATACTCCAACCCCATTGTTTTCGAGGGGATACTCCAACCCTGATTTTATT
1 TTTTCACCATCAAGGATACTCCAACCCCATTGTTTTCGAGGGGATACTCCAACCCTGATTTTATC
* * ** *
87812 TCCAAAAATATTGATTTTTTACCATCGAGGATACTCCAACCCCATTTTTATTTCCAAAATATCGA
66 TCCAAAAATATTAATTTTTCACCAAAGAGGATACACCAACCCCATTTTTATTTCCAAAATATCGA
87877 T
131 T
***
87878 TTTTCACCATCAAGGATACTCCAACCTTGTTGTTTTCGAGGGGATACTCCAACCCT-ATTTTTAT
1 TTTTCACCATCAAGGATACTCCAACCCCATTGTTTTCGAGGGGATACTCCAACCCTGA-TTTTAT
* *
87942 CT-CTAAAATATTAAATTTTTCATCAAAGAGTG-TACACCAACCCC
65 CTCCAAAAATATT-AATTTTTCACCAAAGAG-GATACACCAACCCC
87986 GTACTCCGAG
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
130 10 0.11
131 81 0.88
132 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (131 bp):
TTTTCACCATCAAGGATACTCCAACCCCATTGTTTTCGAGGGGATACTCCAACCCTGATTTTATC
TCCAAAAATATTAATTTTTCACCAAAGAGGATACACCAACCCCATTTTTATTTCCAAAATATCGA
T
Found at i:92811 original size:44 final size:44
Alignment explanation
Indices: 92679--92797 Score: 229
Period size: 44 Copynumber: 2.7 Consensus size: 44
92669 TTGGTATGGT
*
92679 ACACTTATGATTTTGACCAACTAGTTTCCTAACAAGTCTAGGAA
1 ACACCTATGATTTTGACCAACTAGTTTCCTAACAAGTCTAGGAA
92723 ACACCTATGATTTTGACCAACTAGTTTCCTAACAAGTCTAGGAA
1 ACACCTATGATTTTGACCAACTAGTTTCCTAACAAGTCTAGGAA
92767 ACACCTATGATTTTGACCAACTAGTTTCCTA
1 ACACCTATGATTTTGACCAACTAGTTTCCTA
92798 GCAGCTCAAG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.32
Consensus pattern (44 bp):
ACACCTATGATTTTGACCAACTAGTTTCCTAACAAGTCTAGGAA
Found at i:98164 original size:30 final size:31
Alignment explanation
Indices: 98130--98221 Score: 80
Period size: 36 Copynumber: 2.8 Consensus size: 31
98120 CTTACAACAC
98130 TATC-TTTCA-AGGCTAAGATAGAAACCTCCT
1 TATCTTTTCACAGGCTAAGATAG-AACCTCCT
* *
98160 TATCTTTTCACGGGCTAGGATAGAACCTCTCTT
1 TATCTTTTCACAGGCTAAGATAGAACCTC-C-T
* *
98193 CCTATCTTTTCCAAAGGCTAAAATAGAAC
1 --TATCTTTT-CACAGGCTAAGATAGAAC
98222 TTTTCAATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
30 4 0.08
31 11 0.22
32 11 0.22
33 1 0.02
35 8 0.16
36 14 0.29
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (31 bp):
TATCTTTTCACAGGCTAAGATAGAACCTCCT
Found at i:98798 original size:33 final size:32
Alignment explanation
Indices: 98741--98802 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
98731 CTTTTCAAGG
*
98741 TGTATCGATACTATGAATATGTATCGATACAA
1 TGTATCGATACTAAGAATATGTATCGATACAA
*
98773 TGTATCGATATTAAGCAATATGTATCGATA
1 TGTATCGATACTAAG-AATATGTATCGATA
98803 TATCTGAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACTAAGAATATGTATCGATACAA
Found at i:98954 original size:24 final size:23
Alignment explanation
Indices: 98910--98954 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
98900 ATTATTTTTA
* *
98910 CTTGAAAAACATTTGATTTATTG
1 CTTGAAAAACATTTAACTTATTG
*
98933 CTTGAAAAATATTTAAACTTAT
1 CTTGAAAAACATTT-AACTTAT
98955 CTCTAAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (23 bp):
CTTGAAAAACATTTAACTTATTG
Found at i:101943 original size:21 final size:19
Alignment explanation
Indices: 101917--101969 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
101907 TATGTAAATT
101917 TTATTTTTCTTAGATAACTCA
1 TTATTTTTCTT-G-TAACTCA
101938 TTATTTTCATCTTGTAACTCA
1 TTATTTT--TCTTGTAACTCA
101959 TT-TCTTTTCTT
1 TTAT-TTTTCTT
101970 TTCCAACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 4 0.14
20 1 0.03
21 19 0.66
22 1 0.03
23 4 0.14
ACGTcount: A:0.21, C:0.17, G:0.04, T:0.58
Consensus pattern (19 bp):
TTATTTTTCTTGTAACTCA
Found at i:102465 original size:3 final size:3
Alignment explanation
Indices: 102450--102485 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
102440 CAACCTCTTG
* *
102450 ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
102486 TTGAATGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:103595 original size:33 final size:34
Alignment explanation
Indices: 103545--103638 Score: 90
Period size: 33 Copynumber: 2.8 Consensus size: 34
103535 CAACACTATC
*
103545 TTTC-AAGGCTAAGATAGAAATCCTCTCTATCTT
1 TTTCAAAGGCTAAAATAGAAATCCTCTCTATCTT
** *
103578 TTT-ACGGGCTAAAATAG-AATCTCTCTCCCTATTTT
1 TTTCAAAGGCTAAAATAGAAATC-CTCT--CTATCTT
103613 TTTCAAAGGCTAAAATA-AAA-CCTCTC
1 TTTCAAAGGCTAAAATAGAAATCCTCTC
103639 AATCACTTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
32 5 0.10
33 17 0.35
34 4 0.08
35 10 0.20
36 13 0.27
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (34 bp):
TTTCAAAGGCTAAAATAGAAATCCTCTCTATCTT
Found at i:105331 original size:20 final size:20
Alignment explanation
Indices: 105306--105344 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
105296 TTAAAAACCC
* *
105306 ATAATGTTTTGATACAATGA
1 ATAATGTATCGATACAATGA
105326 ATAATGTATCGATACAATG
1 ATAATGTATCGATACAATG
105345 CAAGCATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (20 bp):
ATAATGTATCGATACAATGA
Found at i:105490 original size:21 final size:20
Alignment explanation
Indices: 105441--105494 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
105431 TATTGCAAGC
105441 ATGTATCGATACATTAACTT
1 ATGTATCGATACATTAACTT
*
105461 ATATATCGATACATTAACTT
1 ATGTATCGATACATTAACTT
*
105481 GTTGTATCGATACA
1 -ATGTATCGATACA
105495 AATGGTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTAACTT
Found at i:106868 original size:22 final size:22
Alignment explanation
Indices: 106822--106867 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
106812 TTAAAAAAAT
106822 AAAGCATAGAAAAAACTAAGCA
1 AAAGCATAGAAAAAACTAAGCA
*
106844 AAAG-ATAGGAAAAAAGT-AGCA
1 AAAGCATA-GAAAAAACTAAGCA
106865 AAA
1 AAA
106868 ATAAAATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.65, C:0.09, G:0.17, T:0.09
Consensus pattern (22 bp):
AAAGCATAGAAAAAACTAAGCA
Found at i:109144 original size:16 final size:16
Alignment explanation
Indices: 109123--109153 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109113 TGCATTTACG
*
109123 TGCATTCGCACCCATA
1 TGCATTCACACCCATA
109139 TGCATTCACACCCAT
1 TGCATTCACACCCAT
109154 GCATATTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.39, G:0.10, T:0.26
Consensus pattern (16 bp):
TGCATTCACACCCATA
Found at i:112605 original size:6 final size:5
Alignment explanation
Indices: 112588--112657 Score: 59
Period size: 5 Copynumber: 13.2 Consensus size: 5
112578 ATTAATATAC
*** *
112588 ATTTT ATTTT ATTTTT ATTTT ATTTT ATTATT ATAAA ATAATT ATTTT
1 ATTTT ATTTT A-TTTT ATTTT ATTTT ATT-TT ATTTT AT-TTT ATTTT
*
112636 ATTAT ACTTTT ATTTT ATTTT A
1 ATTTT A-TTTT ATTTT ATTTT A
112658 GTAAACCAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
5 37 0.70
6 16 0.30
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (5 bp):
ATTTT
Found at i:112609 original size:16 final size:16
Alignment explanation
Indices: 112588--112621 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
112578 ATTAATATAC
*
112588 ATTTTATTTTATTTTT
1 ATTTTATTTTATTATT
112604 ATTTTATTTTATTATT
1 ATTTTATTTTATTATT
112620 AT
1 AT
112622 AAAATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTATTTTATTATT
Found at i:112621 original size:11 final size:10
Alignment explanation
Indices: 112588--112657 Score: 59
Period size: 11 Copynumber: 6.6 Consensus size: 10
112578 ATTAATATAC
112588 ATTTTATTTT
1 ATTTTATTTT
112598 ATTTTTATTTT
1 A-TTTTATTTT
112609 ATTTTATTATT
1 ATTTTATT-TT
*** *
112620 ATAAAATAATT
1 ATTTTAT-TTT
*
112631 ATTTTATTAT
1 ATTTTATTTT
112641 ACTTTTATTTT
1 A-TTTTATTTT
112652 ATTTTA
1 ATTTTA
112658 GTAAACCAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
10 15 0.33
11 31 0.67
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTTATTTT
Found at i:117742 original size:34 final size:35
Alignment explanation
Indices: 117691--117762 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 35
117681 GCACAACGCA
117691 TAGGTGCATTGCCTTGACAACACTGATCAGAGTCT
1 TAGGTGCATTGCCTTGACAACACTGATCAGAGTCT
*
117726 TAGGTGCA-TGCCTTGACAACACTGGTCAGAGTCT
1 TAGGTGCATTGCCTTGACAACACTGATCAGAGTCT
117760 TAG
1 TAG
117763 TACTTTTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 28 0.78
35 8 0.22
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (35 bp):
TAGGTGCATTGCCTTGACAACACTGATCAGAGTCT
Found at i:123692 original size:22 final size:22
Alignment explanation
Indices: 123667--123711 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
123657 GTTTAATTTT
123667 TAATT-TACAAATTAAAAAATTA
1 TAATTATACAAA-TAAAAAATTA
* *
123689 TAATTATCCAAATAAAAATTTA
1 TAATTATACAAATAAAAAATTA
123711 T
1 T
123712 TTTTATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATTATACAAATAAAAAATTA
Found at i:125494 original size:2 final size:2
Alignment explanation
Indices: 125487--125526 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
125477 CAATTTCAAT
*
125487 TA TA TA TA TA AA 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
125527 AAAGAATAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:126796 original size:9 final size:9
Alignment explanation
Indices: 126776--126824 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
126766 GCTCTCAATT
126776 TTTTATTTTA
1 TTTTA-TTTA
126786 TTTTATTTA
1 TTTTATTTA
126795 -TTTATTTA
1 TTTTATTTA
126803 TTTT-TATTA
1 TTTTAT-TTA
126812 TTATTA-TTA
1 TT-TTATTTA
126821 TTTT
1 TTTT
126825 TTTTTTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 11 0.31
9 17 0.49
10 7 0.20
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTATTTA
Found at i:126802 original size:17 final size:17
Alignment explanation
Indices: 126773--126830 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
126763 ATTGCTCTCA
126773 ATTTTTTATTTTATTTT
1 ATTTTTTATTTTATTTT
126790 ATTTATTTA-TTTATTTT
1 ATTT-TTTATTTTATTTT
*
126807 -TATTATTATTATTATTTT
1 AT-TTTTTATT-TTATTTT
126825 -TTTTTT
1 ATTTTTT
126831 TTTGTAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 4 0.11
17 19 0.54
18 12 0.34
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTTTTATTTTATTTT
Found at i:127800 original size:13 final size:13
Alignment explanation
Indices: 127784--127809 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
127774 TGATATTTAA
127784 TAAATTTCAAGTT
1 TAAATTTCAAGTT
127797 TAAATTTCAAGTT
1 TAAATTTCAAGTT
127810 CACAATCTCT
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:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TAAATTTCAAGTT
Found at i:129835 original size:14 final size:15
Alignment explanation
Indices: 129816--129849 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
129806 TTAAATTTAT
129816 TATTTAGATA-AAAA
1 TATTTAGATATAAAA
*
129830 TATTTAGATATATAA
1 TATTTAGATATAAAA
129845 TATTT
1 TATTT
129850 GAATTCACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
TATTTAGATATAAAA
Found at i:129959 original size:16 final size:16
Alignment explanation
Indices: 129938--129968 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
129928 CTATTTATAT
*
129938 ATTTATTTTTTATTTA
1 ATTTATATTTTATTTA
129954 ATTTATATTTTATTT
1 ATTTATATTTTATTT
129969 TTAAAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTATATTTTATTTA
Found at i:130923 original size:16 final size:16
Alignment explanation
Indices: 130873--130937 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 16
130863 AGGATTATTT
130873 TAAA-ATTTTATAAAA
1 TAAATATTTTATAAAA
*
130888 TAAA-A--TT-TAAAT
1 TAAATATTTTATAAAA
*
130900 TAATTATTTTATAAAA
1 TAAATATTTTATAAAA
* *
130916 TAAATATTTAATAAAT
1 TAAATATTTTATAAAA
130932 TAAATA
1 TAAATA
130938 ATTATATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
12 7 0.17
13 3 0.08
15 7 0.17
16 23 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATATTTTATAAAA
Found at i:130932 original size:28 final size:28
Alignment explanation
Indices: 130877--130933 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
130867 TTATTTTAAA
*
130877 ATTTTATAAAATAAAATTTAAATTAATT
1 ATTTTATAAAATAAAATTTAAATAAATT
130905 ATTTTATAAAATAAATATTT-AATAAATT
1 ATTTTATAAAATAAA-ATTTAAATAAATT
130933 A
1 A
130934 AATAATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTTTATAAAATAAAATTTAAATAAATT
Found at i:131332 original size:49 final size:50
Alignment explanation
Indices: 131255--131357 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 50
131245 ATAAAAAATA
* ** *
131255 TTGATTATTCTTCATCAATTTTTAACAATAGAA-AG-AGATGATCGTAATTG
1 TTGACTATTCTTCATCAACCTTTAACAATA-AAGAGAAG-TGATCATAATTG
*
131305 TTGACTATT-TTCATCAACCTTTGACAATAAAGAGAAGTGATCATAATTG
1 TTGACTATTCTTCATCAACCTTTAACAATAAAGAGAAGTGATCATAATTG
131354 TTGA
1 TTGA
131358 TTCTAAGCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
48 2 0.04
49 34 0.74
50 10 0.22
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.38
Consensus pattern (50 bp):
TTGACTATTCTTCATCAACCTTTAACAATAAAGAGAAGTGATCATAATTG
Found at i:135883 original size:50 final size:51
Alignment explanation
Indices: 135736--135891 Score: 203
Period size: 50 Copynumber: 3.1 Consensus size: 51
135726 GAGAGGTAGC
* * *
135736 TGTTGACTATTCTTCATCAACCTTTGACAATAGAAATAGGT-GATCGTAAT
1 TGTTGACTATTCTTCACCAACCTTTGACAATAGAAAGAAGTAGATCGTAAT
* * *
135786 TGTTAATTATTCTTCACCAACCTTTGACAATAGAAAG-AG-ATGATCGTACT
1 TGTTGACTATTCTTCACCAACCTTTGACAATAGAAAGAAGTA-GATCGTAAT
* *
135836 TGTTGACTATTCTTCACCAACCTTTAACAATAGAGAGAAGTAG-TCGTAAT
1 TGTTGACTATTCTTCACCAACCTTTGACAATAGAAAGAAGTAGATCGTAAT
135886 TGTTGA
1 TGTTGA
135892 TTCTAAGCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
49 1 0.01
50 86 0.95
51 3 0.03
52 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (51 bp):
TGTTGACTATTCTTCACCAACCTTTGACAATAGAAAGAAGTAGATCGTAAT
Found at i:137617 original size:17 final size:17
Alignment explanation
Indices: 137581--137619 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
137571 AAACATGTTT
* * *
137581 TATTTTTTAATTTTTTA
1 TATTATTTAATTTATGA
137598 TATTATTTAATTTATGA
1 TATTATTTAATTTATGA
137615 TATTA
1 TATTA
137620 AATTTAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTATTTAATTTATGA
Found at i:139469 original size:78 final size:79
Alignment explanation
Indices: 139369--139570 Score: 221
Period size: 78 Copynumber: 2.6 Consensus size: 79
139359 TAATAACAGG
* * ** * *
139369 GTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TT
1 GTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTT
* *
139432 AGAAAAAAAATCGGGA
64 AGAAAAAAAAGCCGGA
* *
139448 -TTGGAGTATCCCTTCGAAAATAACCGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTG
1 GTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAG
** *
139512 GGAATAAAGCCGGA
66 AAAAAAAAGCCGGA
* * *
139526 GTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCAAT
1 GTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAAT
139571 GCAATAACGA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
77 7 0.07
78 56 0.54
79 40 0.39
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
GTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAG
AAAAAAAAGCCGGA
Found at i:139578 original size:28 final size:28
Alignment explanation
Indices: 139526--139593 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
139516 TAAAGCCGGA
* *
139526 GTTGGAGTATCCCCTCGGAAGTAACGGG
1 GTTGGAGTATCCCCTCGCAAGTAACGAG
139554 GTTGGAGTATCCCCAAT-GCAA-TAACGAG
1 GTTGGAGTATCCCC--TCGCAAGTAACGAG
* *
139582 GTCGGAGCATCC
1 GTTGGAGTATCC
139594 TCGATTGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 30 0.88
29 3 0.09
30 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.21
Consensus pattern (28 bp):
GTTGGAGTATCCCCTCGCAAGTAACGAG
Found at i:139671 original size:52 final size:52
Alignment explanation
Indices: 139615--139751 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
139605 AAATTGGTAT
* *
139615 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCG
1 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
* ** *
139667 TTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGGAAATAAAACC-GGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
* **
139719 TTTTAGCGATAAAACCGGAGTTGGAGTATCCCC
1 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
139752 TCGGAAATAA
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
51 5 0.07
52 64 0.89
53 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (52 bp):
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:139778 original size:28 final size:27
Alignment explanation
Indices: 139738--139808 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
139728 TAAAACCGGA
**
139738 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
139766 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
*
139793 GTTGGAGCATCCCCGA
1 GTTGGAGTATCCCCGA
139809 TTGTGAAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:142289 original size:13 final size:13
Alignment explanation
Indices: 142271--142296 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
142261 ACAAAGATCC
142271 ATGTATCGATACA
1 ATGTATCGATACA
142284 ATGTATCGATACA
1 ATGTATCGATACA
142297 CAGAAAAATG
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:142292 original size:33 final size:33
Alignment explanation
Indices: 142250--142316 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
142240 AAAATTTCCA
***
142250 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
142283 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
142316 A
1 A
142317 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:143062 original size:55 final size:55
Alignment explanation
Indices: 142978--144204 Score: 1900
Period size: 55 Copynumber: 22.3 Consensus size: 55
142968 ATAAATTGTA
* * * * *
142978 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
143033 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * * *
143088 ACCTGCTCTTTGGGGAAT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
143143 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
143198 TCCTGTTCTTTGAGGACTAGAAAATGCCACCAACTTGTGT-GGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
143252 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
143307 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
143362 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
143417 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
143472 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
143527 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
143582 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
143637 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
143692 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
143747 TCCTGCTCTTTGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
143802 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-GGAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAG-AGGTG
143857 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
143912 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTAG-GTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTT-GTGTGGGCTTT-AAGAGGTG
143967 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
144022 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTAG-GTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTT-GTGTGGGCTTT-AAGAGGTG
144077 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
***
144132 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
144187 TCTTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
144205 AAAAAGCGGA
Statistics
Matches: 1100, Mismatches: 40, Indels: 64
0.91 0.03 0.05
Matches are distributed among these distances:
53 6 0.01
54 67 0.06
55 992 0.90
56 35 0.03
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:145211 original size:13 final size:12
Alignment explanation
Indices: 145193--145227 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
145183 TCTCTTTTCC
145193 TTTGTTTTGTTTT
1 TTTGTTTT-TTTT
145206 TTTGTTTTTTTT
1 TTTGTTTTTTTT
145218 TTT-TTTTTTT
1 TTTGTTTTTTT
145228 GCTCTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 7 0.32
13 8 0.36
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (12 bp):
TTTGTTTTTTTT
Found at i:145241 original size:19 final size:19
Alignment explanation
Indices: 145192--145242 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
145182 CTCTCTTTTC
* *
145192 CTTTGTTTTGTTTTTTTGTT
1 CTTT-TTTTTTTTTTTTGCT
*
145212 TTTTTTTTTTTTTTTTGCT
1 CTTTTTTTTTTTTTTTGCT
145231 CTTTTTTTTTTT
1 CTTTTTTTTTTT
145243 GAAGAGAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (19 bp):
CTTTTTTTTTTTTTTTGCT
Done.